Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold601
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1259944
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.29
Warning! 136746 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:254321 original size:13 final size:13
Alignment explanation
Indices: 254303--254355 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
254293 CTTGTTTATG
254303 TTTTGTTTTTTGT
1 TTTTGTTTTTTGT
254316 TTTTGTTTTTTTGT
1 TTTTG-TTTTTTGT
*
254330 GTTTT-TTTTTTAT
1 -TTTTGTTTTTTGT
*
254343 TTATTTTTTTTTG
1 TT-TTGTTTTTTG
254356 GGGGGGGGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
12 2 0.06
13 14 0.41
14 14 0.41
15 4 0.12
ACGTcount: A:0.04, C:0.00, G:0.11, T:0.85
Consensus pattern (13 bp):
TTTTGTTTTTTGT
Found at i:254327 original size:14 final size:13
Alignment explanation
Indices: 254303--254355 Score: 61
Period size: 14 Copynumber: 3.9 Consensus size: 13
254293 CTTGTTTATG
*
254303 TTTTGTTTTTTGT
1 TTTTTTTTTTTGT
254316 TTTTGTTTTTTTGT
1 TTTT-TTTTTTTGT
* *
254330 GTTTTTTTTTTAT
1 TTTTTTTTTTTGT
254343 TTATTTTTTTTTG
1 TT-TTTTTTTTTG
254356 GGGGGGGGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
13 13 0.39
14 20 0.61
ACGTcount: A:0.04, C:0.00, G:0.11, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:254332 original size:16 final size:14
Alignment explanation
Indices: 254303--254354 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 14
254293 CTTGTTTATG
*
254303 TTTTGTTTTTTGTT
1 TTTTTTTTTTTGTT
254317 TTTGTTTTTTTGTGTT
1 TTT-TTTTTTT-TGTT
*
254333 TTTTTTTTATTTATT
1 TTTTTTTT-TTTGTT
254348 TTTTTTT
1 TTTTTTT
254355 GGGGGGGGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 3 0.09
15 21 0.64
16 9 0.27
ACGTcount: A:0.04, C:0.00, G:0.10, T:0.87
Consensus pattern (14 bp):
TTTTTTTTTTTGTT
Found at i:257773 original size:2 final size:2
Alignment explanation
Indices: 257766--257815 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
257756 CAAAATAATT
257766 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
257808 GA GA GA GA
1 GA GA GA GA
257816 TATTTTTACC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:260313 original size:2 final size:2
Alignment explanation
Indices: 260306--260336 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
260296 ACAAGACAGA
260306 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
260337 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:265634 original size:17 final size:17
Alignment explanation
Indices: 265612--265716 Score: 76
Period size: 17 Copynumber: 6.4 Consensus size: 17
265602 CCCCTTGGCC
*
265612 TGGCCTGGCCTCAAAGT
1 TGGCCTGGCCTCAAAAT
265629 TGGCCTGGCCTC---AT
1 TGGCCTGGCCTCAAAAT
**
265643 T--TTTGGCCTCAAAAT
1 TGGCCTGGCCTCAAAAT
* * *
265658 TGGTCTGGCCCCAAATTT
1 TGGCCTGGCCTCAAA-AT
265676 TGGCCTGGCCTCAAAAAT
1 TGGCCTGGCCTC-AAAAT
* * *
265694 TGGCCTGGTCTCTAATT
1 TGGCCTGGCCTCAAAAT
265711 TGGCCT
1 TGGCCT
265717 CTTTAAAAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
12 7 0.10
14 2 0.03
15 3 0.04
17 31 0.45
18 23 0.33
19 3 0.04
ACGTcount: A:0.17, C:0.28, G:0.24, T:0.31
Consensus pattern (17 bp):
TGGCCTGGCCTCAAAAT
Found at i:265683 original size:18 final size:18
Alignment explanation
Indices: 265653--265701 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
265643 TTTTGGCCTC
*
265653 AAAATTGGTCTGGCCCCA
1 AAAATTGGCCTGGCCCCA
** *
265671 AATTTTGGCCTGGCCTCA
1 AAAATTGGCCTGGCCCCA
265689 AAAATTGGCCTGG
1 AAAATTGGCCTGG
265702 TCTCTAATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (18 bp):
AAAATTGGCCTGGCCCCA
Found at i:265716 original size:35 final size:35
Alignment explanation
Indices: 265612--265701 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 35
265602 CCCCTTGGCC
* *
265612 TGGCCTGGCCTCAAAGTTGGCCTGGCCTC--ATTT
1 TGGCCTGGCCTCAAAATTGGCCTGGCCCCAAATTT
*
265645 T----TGGCCTCAAAATTGGTCTGGCCCCAAATTT
1 TGGCCTGGCCTCAAAATTGGCCTGGCCCCAAATTT
265676 TGGCCTGGCCTCAAAAATTGGCCTGG
1 TGGCCTGGCCTC-AAAATTGGCCTGG
265702 TCTCTAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
29 21 0.46
31 5 0.11
33 1 0.02
35 7 0.15
36 12 0.26
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.29
Consensus pattern (35 bp):
TGGCCTGGCCTCAAAATTGGCCTGGCCCCAAATTT
Found at i:266808 original size:17 final size:17
Alignment explanation
Indices: 266788--266892 Score: 112
Period size: 17 Copynumber: 6.4 Consensus size: 17
266778 ATTTTGGAAG
266788 AGGCCAAATTTGAGGCC
1 AGGCCAAATTTGAGGCC
*
266805 AGGCCAATTTTTGAGGCC
1 AGGCCAA-ATTTGAGGCC
*
266823 AGGCCAAAATTTGGGGCC
1 AGGCC-AAATTTGAGGCC
*
266841 AGGCCAATTTTGAGGCC
1 AGGCCAAATTTGAGGCC
*
266858 A----AAA-GTGAGGCC
1 AGGCCAAATTTGAGGCC
*
266870 AGGCCAACTTTGAGGCC
1 AGGCCAAATTTGAGGCC
266887 AGGCCA
1 AGGCCA
266893 GGCCAATGGG
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
12 8 0.11
13 2 0.03
16 2 0.03
17 31 0.43
18 27 0.38
19 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.30, T:0.18
Consensus pattern (17 bp):
AGGCCAAATTTGAGGCC
Found at i:266874 original size:29 final size:30
Alignment explanation
Indices: 266823--266887 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
266813 TTTTGAGGCC
* * *
266823 AGGCCAAAATTTGGGGCCAGGCCAATTTTG
1 AGGCCAAAATGTGAGGCCAGGCCAACTTTG
266853 AGGCCAAAA-GTGAGGCCAGGCCAACTTTG
1 AGGCCAAAATGTGAGGCCAGGCCAACTTTG
266882 AGGCCA
1 AGGCCA
266888 GGCCAGGCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 23 0.72
30 9 0.28
ACGTcount: A:0.29, C:0.23, G:0.31, T:0.17
Consensus pattern (30 bp):
AGGCCAAAATGTGAGGCCAGGCCAACTTTG
Found at i:270493 original size:11 final size:11
Alignment explanation
Indices: 270477--270514 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
270467 ATATTGTGTA
270477 TTTTCAATTAC
1 TTTTCAATTAC
270488 TTTTCAATTAC
1 TTTTCAATTAC
* *
270499 ATCTCAATTAC
1 TTTTCAATTAC
270510 TTTTC
1 TTTTC
270515 TCCAAGTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTTCAATTAC
Found at i:281217 original size:25 final size:25
Alignment explanation
Indices: 281188--281307 Score: 231
Period size: 25 Copynumber: 4.8 Consensus size: 25
281178 AGACTACAGA
281188 GTATGGCTAATAACCATTTACAGGT
1 GTATGGCTAATAACCATTTACAGGT
281213 GTATGGCTAATAACCATTTACAGGT
1 GTATGGCTAATAACCATTTACAGGT
281238 GTATGGCTAATAACCATTTACAGGT
1 GTATGGCTAATAACCATTTACAGGT
281263 GTATGGCTAATAACCATTTACAGGT
1 GTATGGCTAATAACCATTTACAGGT
*
281288 GTATGGCTAATAATCATTTA
1 GTATGGCTAATAACCATTTA
281308 AACTAGTTAA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
25 94 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (25 bp):
GTATGGCTAATAACCATTTACAGGT
Found at i:289717 original size:43 final size:43
Alignment explanation
Indices: 289669--289764 Score: 174
Period size: 43 Copynumber: 2.2 Consensus size: 43
289659 TTGGGCCATT
*
289669 TTGTGTTTGGTTATTTTGTTGGGGTACAGTTGGTACCGCTTTG
1 TTGTGTTTGGTTATTTTGTTGGGGTACAGTTGGTACCACTTTG
289712 TTGTGTTTGGTTATTTTGTTGGGGTACAGTTGGTACCACTTTG
1 TTGTGTTTGGTTATTTTGTTGGGGTACAGTTGGTACCACTTTG
*
289755 TGGTGTTTGG
1 TTGTGTTTGG
289765 GCCGTTTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.09, C:0.08, G:0.33, T:0.49
Consensus pattern (43 bp):
TTGTGTTTGGTTATTTTGTTGGGGTACAGTTGGTACCACTTTG
Found at i:299929 original size:22 final size:20
Alignment explanation
Indices: 299904--299947 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
299894 CTGCTGTGAA
299904 ATTTAATATGAAGATAAATGGT
1 ATTTAATA--AAGATAAATGGT
* *
299926 ATTTCATAAAGATATATGGT
1 ATTTAATAAAGATAAATGGT
299946 AT
1 AT
299948 CTCATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 13 0.65
22 7 0.35
ACGTcount: A:0.43, C:0.02, G:0.16, T:0.39
Consensus pattern (20 bp):
ATTTAATAAAGATAAATGGT
Found at i:299939 original size:20 final size:20
Alignment explanation
Indices: 299914--299955 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
299904 ATTTAATATG
*
299914 AAGATAAATGGTATTTCATA
1 AAGATAAATGGTATCTCATA
*
299934 AAGATATATGGTATCTCATA
1 AAGATAAATGGTATCTCATA
299954 AA
1 AA
299956 TAAAAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.33
Consensus pattern (20 bp):
AAGATAAATGGTATCTCATA
Found at i:301756 original size:2 final size:2
Alignment explanation
Indices: 301749--301809 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
301739 TAATATGCCC
301749 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
301791 AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG A
301810 TTTTCAAGTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:305842 original size:37 final size:35
Alignment explanation
Indices: 305763--305845 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
305753 TTATCTATGC
*
305763 AACATTTTGTCTATAGTGAGTTTAGAAACTATTAT
1 AACATTTTGTCTATAGTAAGTTTAGAAACTATTAT
* * *
305798 AATATTTTGTCTATAGTAAGTTTATATATATTATTAT
1 AACATTTTGTCTATAGTAAGTTTAGA-A-ACTATTAT
*
305835 GACATTTTGTC
1 AACATTTTGTC
305846 AACTGCAGAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
35 23 0.57
36 1 0.03
37 16 0.40
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (35 bp):
AACATTTTGTCTATAGTAAGTTTAGAAACTATTAT
Found at i:309486 original size:30 final size:30
Alignment explanation
Indices: 309452--309511 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
309442 TTTTGATGAC
309452 AGTTTAATTAAGATGTACATATTTGTGATA
1 AGTTTAATTAAGATGTACATATTTGTGATA
* * * *
309482 AGTTTAATTGATATGTTCATCTTTGTGATA
1 AGTTTAATTAAGATGTACATATTTGTGATA
309512 TCAGCGGGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.47
Consensus pattern (30 bp):
AGTTTAATTAAGATGTACATATTTGTGATA
Found at i:312787 original size:17 final size:17
Alignment explanation
Indices: 312765--312800 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
312755 GTGGAGTGTG
*
312765 ATAAATATCAGAATGAT
1 ATAAATAACAGAATGAT
312782 ATAAATAACAGAATGAT
1 ATAAATAACAGAATGAT
312799 AT
1 AT
312801 GATCACATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.28
Consensus pattern (17 bp):
ATAAATAACAGAATGAT
Found at i:313326 original size:38 final size:38
Alignment explanation
Indices: 312977--313327 Score: 431
Period size: 38 Copynumber: 9.2 Consensus size: 38
312967 TACTACAGAC
*
312977 TGTT-TGTTTTACA-AACTGTAAATGTAATGCTGAGGG
1 TGTTCTGTTTTACAGGACTGTAAATGTAATGCTGAGGG
**
313013 TGTTCCT-TTTTACAGGACTGTAAATGTAATATTGAGGG
1 TGTT-CTGTTTTACAGGACTGTAAATGTAATGCTGAGGG
* *
313051 TGTTCTTTTCCTTTTACAGGACTGTAAATGTAATGCCGAGGG
1 TGTTC---T-GTTTTACAGGACTGTAAATGTAATGCTGAGGG
*
313093 TGTTCAGTTTTACAGGACTGTAAATGTAATGCTGAGGG
1 TGTTCTGTTTTACAGGACTGTAAATGTAATGCTGAGGG
* * *
313131 TGTTCTTTTTTACAGGACTGTAAATGAAATGCGGAGGG
1 TGTTCTGTTTTACAGGACTGTAAATGTAATGCTGAGGG
* * * * **
313169 TGTTCTGATTTACAGGATTGTTAATGTTATTATGAGGG
1 TGTTCTGTTTTACAGGACTGTAAATGTAATGCTGAGGG
*
313207 TGTTCTGTTCTACAGGACTGTAAATGTAATGCTGAGGG
1 TGTTCTGTTTTACAGGACTGTAAATGTAATGCTGAGGG
* * * **
313245 TGTTCTGTTTTACAGGATTGTTTAA-GTTATTATGAGGG
1 TGTTCTGTTTTACAGGACTG-TAAATGTAATGCTGAGGG
313283 TGTTCTGTTTTACAGGACTGTAAATGTAATGCTGAGGG
1 TGTTCTGTTTTACAGGACTGTAAATGTAATGCTGAGGG
313321 TGTTCTG
1 TGTTCTG
313328 AACCGGGACA
Statistics
Matches: 265, Mismatches: 40, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
36 4 0.02
37 11 0.04
38 213 0.80
39 3 0.01
40 1 0.00
42 33 0.12
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (38 bp):
TGTTCTGTTTTACAGGACTGTAAATGTAATGCTGAGGG
Found at i:316642 original size:27 final size:27
Alignment explanation
Indices: 316605--316775 Score: 288
Period size: 27 Copynumber: 6.3 Consensus size: 27
316595 CGACTCAGTA
316605 ACAAGTCATTATCTCTATAAACTCAAC
1 ACAAGTCATTATCTCTATAAACTCAAC
316632 ACAAGTCATTATCTCTATAAACTCAAC
1 ACAAGTCATTATCTCTATAAACTCAAC
* * *
316659 ACAAGTCATTATCTTTGTAAACTCAAG
1 ACAAGTCATTATCTCTATAAACTCAAC
316686 ACAAGTCATTATCTCTATAAACTCAAC
1 ACAAGTCATTATCTCTATAAACTCAAC
*
316713 ACAAGTCATTATCTTTATAAACTCAAC
1 ACAAGTCATTATCTCTATAAACTCAAC
*
316740 ACAAGTCATTATCTTTATAAACTCAAC
1 ACAAGTCATTATCTCTATAAACTCAAC
*
316767 AAAAGTCAT
1 ACAAGTCAT
316776 CTATACTACG
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 136 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (27 bp):
ACAAGTCATTATCTCTATAAACTCAAC
Found at i:319497 original size:94 final size:95
Alignment explanation
Indices: 319250--319684 Score: 490
Period size: 94 Copynumber: 4.4 Consensus size: 95
319240 TTCTTGATTT
* * *
319250 CAGCCTGTGACAGCTGTGTAAAAATCACATCCTGCTGGATGATGTGTTGTGTATCTGTCATTGGT
1 CAGCCTGTGACAGCTGTGT-----TCACATCCTGCTGGATGATGTGTTATGTTTCTGACATTGGT
* *
319315 TCCTGGTTGTAATGTATATATATCTCTGTTATTTGTTC
61 CCCTGGTTG--ATGTATATATATCTCTGTT-TTTTTTC
319353 CAGCCTGTGACAGCTGTGTAAAAATCACATCCTGCTGGATGATGTGTTATGTTTCTGACATTGGG
1 CAGCCTGTGACAGCTGTGT-----TCACATCCTGCTGGATGATGTGTTATGTTTCTGACATT-GG
*
319418 TCCCT-GTTG-TGT-TATATAT-TTTGTATTTATTTTC
60 TCCCTGGTTGATGTATATATATCTCTGT-TTT-TTTTC
* * * * *
319452 TAGCCTGTGACAGCTGTGTTCACACCCTGCTGGATGATGTGTTATGTTTTTGTCATTGGTTCCTG
1 CAGCCTGTGACAGCTGTGTTCACATCCTGCTGGATGATGTGTTATGTTTCTGACATTGGTCCCTG
319517 GTTGTAATGTATATATATCTCTGTTTTTTGTTC
66 GTTG--ATGTATATATATCTCTGTTTTTT-TTC
*
319550 CAGCCTGTGACAGCTGTGTTTACATCCTGCTGGATGATGTGTTATGTTTCTGACATTGGGTCCCT
1 CAGCCTGTGACAGCTGTGTTCACATCCTGCTGGATGATGTGTTATGTTTCTGACATT-GGTCCCT
*
319615 -GTTG-TGT-TATATAT-TTTGTATTTATTTTC
65 GGTTGATGTATATATATCTCTGT-TTT-TTTTC
*
319644 TAGCCTGTGACAGCTGTGTTCACATCCTGCTGGATGATGTG
1 CAGCCTGTGACAGCTGTGTTCACATCCTGCTGGATGATGTG
319685 GAGGCCTTAC
Statistics
Matches: 298, Mismatches: 21, Indels: 35
0.84 0.06 0.10
Matches are distributed among these distances:
93 10 0.03
94 91 0.31
95 5 0.02
97 5 0.02
98 75 0.25
99 40 0.13
100 3 0.01
103 63 0.21
104 6 0.02
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.43
Consensus pattern (95 bp):
CAGCCTGTGACAGCTGTGTTCACATCCTGCTGGATGATGTGTTATGTTTCTGACATTGGTCCCTG
GTTGATGTATATATATCTCTGTTTTTTTTC
Found at i:319654 original size:192 final size:193
Alignment explanation
Indices: 319247--319684 Score: 727
Period size: 192 Copynumber: 2.2 Consensus size: 193
319237 CTGTTCTTGA
*
319247 TTTC-AGCCTGTGACAGCTGTGTAAAAATCACATCCTGCTGGATGATGTGTTGTGTATCTGTCAT
1 TTTCTAGCCTGTGACAGCTGTGT-----TCACATCCTGCTGGATGATGTGTTATGTATCTGTCAT
319311 TGGTTCCTGGTTGTAATGTATATATATCTCTGTTATTTGTTCCAGCCTGTGACAGCTGTGTAAAA
61 TGGTTCCTGGTTGTAATGTATATATATCTCTGTTATTTGTTCCAGCCTGTGACAGCTGTGT----
319376 ATCACATCCTGCTGGATGATGTGTTATGTTTCTGACATTGGGTCCCTGTTGTGTTATATATTTTG
122 ATCACATCCTGCTGGATGATGTGTTATGTTTCTGACATTGGGTCCCTGTTGTGTTATATATTTTG
319441 TATTTAT
187 TATTTAT
* * *
319448 TTTCTAGCCTGTGACAGCTGTGTTCACACCCTGCTGGATGATGTGTTATGTTTTTGTCATTGGTT
1 TTTCTAGCCTGTGACAGCTGTGTTCACATCCTGCTGGATGATGTGTTATGTATCTGTCATTGGTT
* *
319513 CCTGGTTGTAATGTATATATATCTCTGTTTTTTGTTCCAGCCTGTGACAGCTGTGT-TTACATCC
66 CCTGGTTGTAATGTATATATATCTCTGTTATTTGTTCCAGCCTGTGACAGCTGTGTATCACATCC
319577 TGCTGGATGATGTGTTATGTTTCTGACATTGGGTCCCTGTTGTGTTATATATTTTGTATTTAT
131 TGCTGGATGATGTGTTATGTTTCTGACATTGGGTCCCTGTTGTGTTATATATTTTGTATTTAT
319640 TTTCTAGCCTGTGACAGCTGTGTTCACATCCTGCTGGATGATGTG
1 TTTCTAGCCTGTGACAGCTGTGTTCACATCCTGCTGGATGATGTG
319685 GAGGCCTTAC
Statistics
Matches: 229, Mismatches: 7, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
192 114 0.50
197 93 0.41
201 4 0.02
202 18 0.08
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.43
Consensus pattern (193 bp):
TTTCTAGCCTGTGACAGCTGTGTTCACATCCTGCTGGATGATGTGTTATGTATCTGTCATTGGTT
CCTGGTTGTAATGTATATATATCTCTGTTATTTGTTCCAGCCTGTGACAGCTGTGTATCACATCC
TGCTGGATGATGTGTTATGTTTCTGACATTGGGTCCCTGTTGTGTTATATATTTTGTATTTAT
Found at i:322530 original size:22 final size:22
Alignment explanation
Indices: 322502--322648 Score: 204
Period size: 22 Copynumber: 6.7 Consensus size: 22
322492 TGGACAGGAC
*
322502 AGAAGTGGGTCAGTATCTATAA
1 AGAAGTGGGTCAGTATCTATAT
* *
322524 AGAAGTGTGTCAGTATCTCTAT
1 AGAAGTGGGTCAGTATCTATAT
322546 AGAAGTGGGTCAGTATCTATAT
1 AGAAGTGGGTCAGTATCTATAT
* *
322568 AGAAGTGTGTCAGTATCTATAA
1 AGAAGTGGGTCAGTATCTATAT
* *
322590 AGAAGTGGGTCAGTGTCTCTAT
1 AGAAGTGGGTCAGTATCTATAT
* *
322612 AGATGTGGGTCAGTATCTCTAT
1 AGAAGTGGGTCAGTATCTATAT
*
322634 AGAAGTGGGCCAGTA
1 AGAAGTGGGTCAGTA
322649 CACTCAGTAT
Statistics
Matches: 110, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 110 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.31
Consensus pattern (22 bp):
AGAAGTGGGTCAGTATCTATAT
Found at i:322585 original size:66 final size:66
Alignment explanation
Indices: 322502--322648 Score: 240
Period size: 66 Copynumber: 2.2 Consensus size: 66
322492 TGGACAGGAC
*
322502 AGAAGTGGGTCAGTATCTATAAAGAAGTGTGTCAGTATCTCTATAGAAGTGGGTCAGTATCTATA
1 AGAAGTGGGTCAGTATCTATAAAGAAGTGGGTCAGTATCTCTATAGAAGTGGGTCAGTATCTATA
322567 T
66 T
* * * *
322568 AGAAGTGTGTCAGTATCTATAAAGAAGTGGGTCAGTGTCTCTATAGATGTGGGTCAGTATCTCTA
1 AGAAGTGGGTCAGTATCTATAAAGAAGTGGGTCAGTATCTCTATAGAAGTGGGTCAGTATCTATA
322633 T
66 T
*
322634 AGAAGTGGGCCAGTA
1 AGAAGTGGGTCAGTA
322649 CACTCAGTAT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 74 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.31
Consensus pattern (66 bp):
AGAAGTGGGTCAGTATCTATAAAGAAGTGGGTCAGTATCTCTATAGAAGTGGGTCAGTATCTATA
T
Found at i:322753 original size:53 final size:53
Alignment explanation
Indices: 322670--323360 Score: 1301
Period size: 53 Copynumber: 13.0 Consensus size: 53
322660 TATACTTTTG
* *
322670 AGTGATCATAGAGCAGTTAGTGTTTATCTGATGAGATACTGCATGATACAGAC
1 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
*
322723 AGTGATCATAGAGCAGTTAGTGTTTGTCTGATGAGATACTGCATGATACAGAC
1 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
*
322776 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGCC
1 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
*
322829 AGTGATCATAGAGCAGTTAGTGTTTGTCTGATGAGATACTGCATGATACAGAC
1 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
*
322882 AGTGATCATAGAGCAGTTAGTGTTTGTCTGATGAGATACTGCATGATACAGAC
1 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
322935 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
1 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
322988 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
1 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
323041 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
1 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
323094 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
1 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
*
323147 AGTGATCATAGAGCAGTTAGTGTTTGTCTGATGAGATACTGCATGATACAGAC
1 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
*
323200 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGCC
1 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
323253 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
1 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
*
323306 AGTGATCATAGAGCAGTTAGTGTTTGTCTGATGAGATACTGCATGATACAGAC
1 AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
323359 AG
1 AG
323361 CATATCAACT
Statistics
Matches: 627, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 627 1.00
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.30
Consensus pattern (53 bp):
AGTGATCATAGAGCAGTTAGTGTTTGTGTGATGAGATACTGCATGATACAGAC
Found at i:324289 original size:44 final size:44
Alignment explanation
Indices: 324239--324340 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
324229 TTGCTGGCAT
* *
324239 TATTGTA-ATCATTTAAAGTTTATATTGCTGCCATTTTACATTTA
1 TATTGTAGA-CATTTAAAGTTTATAGTGCTGCCATTTCACATTTA
* * * * **
324283 TATTGTAGACGTTTTAGGTTTATAGTGCTGGCATTTCAGGTTTA
1 TATTGTAGACATTTAAAGTTTATAGTGCTGCCATTTCACATTTA
324327 TATTGTAGACATTT
1 TATTGTAGACATTT
324341 TAGGTTTTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
44 47 0.98
45 1 0.02
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.48
Consensus pattern (44 bp):
TATTGTAGACATTTAAAGTTTATAGTGCTGCCATTTCACATTTA
Found at i:324345 original size:22 final size:22
Alignment explanation
Indices: 324256--324347 Score: 89
Period size: 22 Copynumber: 4.2 Consensus size: 22
324246 ATCATTTAAA
* *
324256 GTTTATATTGCTGCCATTTTAC
1 GTTTATATTGCTGACATTTTAG
* *
324278 ATTTATATTG-TAGACGTTTTAG
1 GTTTATATTGCT-GACATTTTAG
* * *
324300 GTTTATAGTGCTGGCATTTCAG
1 GTTTATATTGCTGACATTTTAG
324322 GTTTATATTG-TAGACATTTTAG
1 GTTTATATTGCT-GACATTTTAG
324344 GTTT
1 GTTT
324348 TTGTTTAAGG
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
21 2 0.04
22 52 0.95
23 1 0.02
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.49
Consensus pattern (22 bp):
GTTTATATTGCTGACATTTTAG
Found at i:324362 original size:44 final size:44
Alignment explanation
Indices: 324256--324347 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
324246 ATCATTTAAA
* * * ** *
324256 GTTTATATTGCTGCCATTTTACATTTATATTGTAGACGTTTTAG
1 GTTTATAGTGCTGGCATTTCAGGTTTATATTGTAGACATTTTAG
324300 GTTTATAGTGCTGGCATTTCAGGTTTATATTGTAGACATTTTAG
1 GTTTATAGTGCTGGCATTTCAGGTTTATATTGTAGACATTTTAG
324344 GTTT
1 GTTT
324348 TTGTTTAAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.49
Consensus pattern (44 bp):
GTTTATAGTGCTGGCATTTCAGGTTTATATTGTAGACATTTTAG
Found at i:325445 original size:38 final size:38
Alignment explanation
Indices: 325391--325539 Score: 174
Period size: 38 Copynumber: 3.9 Consensus size: 38
325381 GTACCTGATC
* *
325391 AAGGCCAAGAGGTGAGTCTGAATAAGTCTGTGGTAATA
1 AAGGCCAAAAGATGAGTCTGAATAAGTCTGTGGTAATA
*
325429 AAGGCTAAAAGATGAGTCTGAATAAGTCTGTGGTAATA
1 AAGGCCAAAAGATGAGTCTGAATAAGTCTGTGGTAATA
* * * * *
325467 AAGGCCAAAAGGTGAGTCGGAATAAGTCTGTGTTGATC
1 AAGGCCAAAAGATGAGTCTGAATAAGTCTGTGGTAATA
** * **
325505 AAGGCCAGGAGGTGAGTCTGGGTAAGTCTG-GGTAA
1 AAGGCCAAAAGATGAGTCTGAATAAGTCTGTGGTAA
325540 GTCTGGGGTG
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
37 3 0.03
38 92 0.97
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.23
Consensus pattern (38 bp):
AAGGCCAAAAGATGAGTCTGAATAAGTCTGTGGTAATA
Found at i:325534 original size:10 final size:10
Alignment explanation
Indices: 325519--325546 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
325509 CCAGGAGGTG
325519 AGTCTGGGTA
1 AGTCTGGGTA
325529 AGTCTGGGTA
1 AGTCTGGGTA
325539 AGTCTGGG
1 AGTCTGGG
325547 GTGATCAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.11, G:0.43, T:0.29
Consensus pattern (10 bp):
AGTCTGGGTA
Found at i:325560 original size:48 final size:48
Alignment explanation
Indices: 325489--325584 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
325479 TGAGTCGGAA
* *
325489 TAAGTCTGTGTTGATCAAGGCCAGGAGGTGAGTCTGGGTAAGTCTGGG
1 TAAGTCTGGGGTGATCAAGGCCAGGAGGTGAGTCTGGGTAAGTCTGGG
*
325537 TAAGTCTGGGGTGATCAAGGCCAGGAGGTGAGTCTGGGTAATTCTGGG
1 TAAGTCTGGGGTGATCAAGGCCAGGAGGTGAGTCTGGGTAAGTCTGGG
325585 GTGATCAAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.21, C:0.12, G:0.41, T:0.26
Consensus pattern (48 bp):
TAAGTCTGGGGTGATCAAGGCCAGGAGGTGAGTCTGGGTAAGTCTGGG
Found at i:326035 original size:10 final size:10
Alignment explanation
Indices: 326020--326047 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
326010 CCAGGAGGTG
326020 AGTCTGGGTA
1 AGTCTGGGTA
326030 AGTCTGGGTA
1 AGTCTGGGTA
326040 AGTCTGGG
1 AGTCTGGG
326048 GTGATCAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.11, G:0.43, T:0.29
Consensus pattern (10 bp):
AGTCTGGGTA
Found at i:327014 original size:2 final size:2
Alignment explanation
Indices: 327007--327043 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
326997 TGAAAATAAT
327007 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
327044 GTTGTACATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:332520 original size:65 final size:65
Alignment explanation
Indices: 332422--332913 Score: 867
Period size: 65 Copynumber: 7.4 Consensus size: 65
332412 GTACACAGAT
332422 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
1 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
* *
332487 GATAAGTACTATGTCGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTGTTTTATTACACA
1 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACAC-
332552 GA
65 -A
332554 TGATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACAC
1 -GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACAC
332619 A
65 A
332620 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
1 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
* *
332685 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCAATGTTTTATTACACA
1 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACAC-
332750 GA
65 -A
332752 TGATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACAC
1 -GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACAC
332817 A
65 A
332818 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
1 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACAC-
332883 GA
65 -A
332885 TGATAAGTACTATGTGGGTCTGGACTTTG
1 -GATAAGTACTATGTGGGTCTGGACTTTG
332914 CCTTTAACCT
Statistics
Matches: 410, Mismatches: 8, Indels: 15
0.95 0.02 0.03
Matches are distributed among these distances:
65 253 0.62
66 2 0.00
67 3 0.01
68 152 0.37
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (65 bp):
GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
Found at i:332622 original size:133 final size:132
Alignment explanation
Indices: 332422--332913 Score: 875
Period size: 133 Copynumber: 3.7 Consensus size: 132
332412 GTACACAGAT
332422 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACAC-
1 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
* *
332486 A-GATAAGTACTATGTCGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTGTTTTATTACA
66 ATGATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACA
332550 CAGA
131 C--A
332554 TGATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACAC
1 -GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACAC
332619 -A-GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTAC
65 AATGATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTAC
332682 ACA
130 ACA
* *
332685 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCAATGTTTTATTACACA
1 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
332750 GATGATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTAC
66 -ATGATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTAC
332815 ACA
130 ACA
332818 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
1 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
332883 GATGATAAGTACTATGTGGGTCTGGACTTTG
66 -ATGATAAGTACTATGTGGGTCTGGACTTTG
332914 CCTTTAACCT
Statistics
Matches: 350, Mismatches: 6, Indels: 6
0.97 0.02 0.02
Matches are distributed among these distances:
130 62 0.18
131 1 0.00
132 1 0.00
133 286 0.82
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (132 bp):
GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
ATGATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACA
CA
Found at i:332742 original size:198 final size:198
Alignment explanation
Indices: 332422--332913 Score: 939
Period size: 198 Copynumber: 2.5 Consensus size: 198
332412 GTACACAGAT
332422 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
1 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
* *
332487 GATAAGTACTATGTCGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTGTTTTATTACACA
66 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCAATGTTTTATTACACA
332552 GATGATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTAC
131 GATGATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTAC
332617 ACA
196 ACA
332620 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
1 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
332685 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCAATGTTTTATTACACA
66 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCAATGTTTTATTACACA
332750 GATGATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTAC
131 GATGATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTAC
332815 ACA
196 ACA
332818 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
1 GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACAC-
332883 GATGATAAGTACTATGTGGGTCTGGACTTTG
65 -A-GATAAGTACTATGTGGGTCTGGACTTTG
332914 CCTTTAACCT
Statistics
Matches: 289, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
198 260 0.90
200 1 0.00
201 28 0.10
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (198 bp):
GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTACACA
GATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCAATGTTTTATTACACA
GATGATAAGTACTATGTGGGTCTGGACTTTGATTACATAGAGCTAACTGTCCATTATTTTATTAC
ACA
Found at i:335737 original size:10 final size:10
Alignment explanation
Indices: 335707--335731 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
335697 TGAGCTTTTC
335707 TGTTCACCGT
1 TGTTCACCGT
335717 TGTTCACCGT
1 TGTTCACCGT
335727 TGTTC
1 TGTTC
335732 GTCGTTCGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.28, G:0.20, T:0.44
Consensus pattern (10 bp):
TGTTCACCGT
Found at i:340293 original size:15 final size:15
Alignment explanation
Indices: 340273--340329 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
340263 GCACCTATTC
*
340273 TGTTTCGC-CCTGAGA
1 TGTTTCGCACCT-CGA
*
340288 TGTTTCCCACCTCGA
1 TGTTTCGCACCTCGA
340303 TGTTTCGCACCTCGA
1 TGTTTCGCACCTCGA
340318 TGTTTCGCACCT
1 TGTTTCGCACCT
340330 GCATCGGAGC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
15 35 0.92
16 3 0.08
ACGTcount: A:0.12, C:0.33, G:0.19, T:0.35
Consensus pattern (15 bp):
TGTTTCGCACCTCGA
Found at i:343142 original size:24 final size:23
Alignment explanation
Indices: 343110--343154 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
343100 TTCACAAAGC
343110 TGTCATAAGATTTATCATAAGACA
1 TGTCATAAGA-TTATCATAAGACA
* *
343134 TGTCTTAAGATTGTCATAAGA
1 TGTCATAAGATTATCATAAGA
343155 TTTGACTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (23 bp):
TGTCATAAGATTATCATAAGACA
Found at i:343163 original size:23 final size:23
Alignment explanation
Indices: 343115--343183 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
343105 AAAGCTGTCA
* *
343115 TAAGATTTATCATAAGACATGTCT
1 TAAGA-TTATCATAAGATATGACT
* *
343139 TAAGATTGTCATAAGATTTGACT
1 TAAGATTATCATAAGATATGACT
* *
343162 TATGATTATCATTAGATATGAC
1 TAAGATTATCATAAGATATGAC
343184 ATAGCTGTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
23 32 0.86
24 5 0.14
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.39
Consensus pattern (23 bp):
TAAGATTATCATAAGATATGACT
Found at i:351709 original size:177 final size:175
Alignment explanation
Indices: 351424--352036 Score: 725
Period size: 177 Copynumber: 3.4 Consensus size: 175
351414 GCTATTATTT
* * * * * *
351424 GTCCTATCTTCACCAAACTTGCATGGATGATGCATC-T-GGACCTACTTATGGACTTGA-AAGAC
1 GTCCTAACTTCACCAAACTTGCATGGATGATGCGTCTTATGA--TACTGATGCACCTGACAAG-C
* * * ** * * * *
351486 TTGGATGCTGAATCTGGGTC-CTAAATTTCAGATGCTGGAGGAGGTTAAGGTTGTTGGACCAGGT
63 TTGAATGCTGAATCTGAG-CAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTT-TTAGAGCTGGT
*
351550 TAAAGTTTTTGTTGCAGGTGCCCAT-TGATAGCA-ATATCTAAGTTACTACTG
126 TAAAGTTTTTGTTGCAGGTGCCC-TCTGAT-G-ATATATCTTAGTTACTACTG
*
351601 GTCCTAACTTCACCAAACTTGTATGGATGATGCGTCTTATGATACTGATGCACCTGACAAGCTTG
1 GTCCTAACTTCACCAAACTTGCATGGATGATGCGTCTTATGATACTGATGCACCTGACAAGCTTG
*
351666 AATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAAGAGGTTAAGGTTTTTAGAGCTGGTTAAA
66 AATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGG-TTTTAGAGCTGGTTAAA
351731 GTTTTTGTTGCAGGTGCCCTCTGATGATTATATCTTAGTTACTACTG
130 GTTTTTGTTGCAGGTGCCCTCTGATGA-TATATCTTAGTTACTACTG
* * *
351778 GTCCTTACTTCACCAAACTTGTATGGATGGTGCGTCTTATGATACTGATGCACCTGACAAGCTTG
1 GTCCTAACTTCACCAAACTTGCATGGATGATGCGTCTTATGATACTGATGCACCTGACAAGCTTG
351843 AATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTAAGAGCTGGTTAAA
66 AATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTT-AGAGCTGG-T---
*** * * * *
351908 TAAAGTTTTTGAAACAGGTGCCCTCTGATGATGGTATCTTGGTTATTACTT
126 TAAAGTTTTTGTTGCAGGTGCCCTCTGATGAT-ATATCTTAGTTACTACTG
* * * * * *
351959 GTCCTTACTTCACCAGACTTCCATGGATGGTGTGTCTTATGATACTGATGCACCTGACAGGCTTG
1 GTCCTAACTTCACCAAACTTGCATGGATGATGCGTCTTATGATACTGATGCACCTGACAAGCTTG
*
352024 AATGCTGAGTCTG
66 AATGCTGAATCTG
352037 GTTTCGGATG
Statistics
Matches: 388, Mismatches: 34, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
175 1 0.00
176 7 0.02
177 256 0.66
178 7 0.02
179 2 0.01
180 1 0.00
181 114 0.29
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (175 bp):
GTCCTAACTTCACCAAACTTGCATGGATGATGCGTCTTATGATACTGATGCACCTGACAAGCTTG
AATGCTGAATCTGAGCAATAGGTTTCGGATGCTGGAGGAGGTTAAGGTTTTAGAGCTGGTTAAAG
TTTTTGTTGCAGGTGCCCTCTGATGATATATCTTAGTTACTACTG
Found at i:352674 original size:20 final size:20
Alignment explanation
Indices: 352651--352693 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
352641 TATGATATAG
352651 TATTGTATGATATGAAACAA
1 TATTGTATGATATGAAACAA
* *
352671 TATTGTTTGATATGATACAA
1 TATTGTATGATATGAAACAA
352691 TAT
1 TAT
352694 GATATCTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (20 bp):
TATTGTATGATATGAAACAA
Found at i:354159 original size:20 final size:20
Alignment explanation
Indices: 354136--354178 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
354126 TATGATATAG
354136 TATTGTATGATATGAAACAA
1 TATTGTATGATATGAAACAA
* *
354156 TATTGTTTGATATGATACAA
1 TATTGTATGATATGAAACAA
354176 TAT
1 TAT
354179 GATATCTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (20 bp):
TATTGTATGATATGAAACAA
Found at i:354451 original size:15 final size:15
Alignment explanation
Indices: 354418--354564 Score: 64
Period size: 15 Copynumber: 9.3 Consensus size: 15
354408 ATATTCTATA
* **
354418 ATATTGTATCATACA
1 ATATTGTATAATATG
354433 ATATTGTATAATATG
1 ATATTGTATAATATG
354448 ATATTGGTTTCAGTAATATAG
1 ATATT-G--T-A-TAATAT-G
* * *
354469 A-ATTATATCACATG
1 ATATTGTATAATATG
*
354483 AAATTGTATAATATG
1 ATATTGTATAATATG
* *
354498 ATATTGTAGTATTTTATA
1 ATATTGTA-TA--ATATG
* *
354516 ATATTGTATCATACG
1 ATATTGTATAATATG
* *
354531 ATAGTGTATGATATG
1 ATATTGTATAATATG
*
354546 ATATTGGT-TTATATG
1 ATATT-GTATAATATG
354561 ATAT
1 ATAT
354565 ATTATCATAT
Statistics
Matches: 100, Mismatches: 21, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
14 2 0.02
15 66 0.66
16 6 0.06
17 2 0.02
18 12 0.12
19 1 0.01
20 9 0.09
21 2 0.02
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (15 bp):
ATATTGTATAATATG
Found at i:354493 original size:50 final size:49
Alignment explanation
Indices: 354435--354600 Score: 153
Period size: 50 Copynumber: 3.4 Consensus size: 49
354425 ATCATACAAT
354435 ATTGTATAATATGATATTGGTTTCAGTA-ATATAGAATTATATCACATGAA
1 ATTGTATAATATGATATTGGTTT-AGTATATATA-AATTATATCACATGAA
* * * * *
354485 ATTGTATAATATGATATT-G--TAGTATTTTATAATATTGTATCATACGAT
1 ATTGTATAATATGATATTGGTTTAGTA-TATATAA-ATTATATCACATGAA
* * * *
354533 AGTGTATGATATGATATTGGTTTA-TATGATATATTATCATATCACATGAA
1 ATTGTATAATATGATATTGGTTTAGTAT-ATATA-AATTATATCACATGAA
*
354583 ATTGTATTATATGATATT
1 ATTGTATAATATGATATT
354601 ATAATATATA
Statistics
Matches: 92, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
46 4 0.04
47 2 0.02
48 31 0.34
49 3 0.03
50 50 0.54
51 2 0.02
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.45
Consensus pattern (49 bp):
ATTGTATAATATGATATTGGTTTAGTATATATAAATTATATCACATGAA
Found at i:354525 original size:98 final size:96
Alignment explanation
Indices: 354401--354600 Score: 285
Period size: 98 Copynumber: 2.1 Consensus size: 96
354391 CTATGATACA
*
354401 ATATTGTATATTCTATAATATTGTATCATACAATATTGTATAATATGATATTGGTTTCAGTA-AT
1 ATATTGTATATTCTATAATATTGTATCATACAATAGTGTATAATATGATATTGGTTT-A-TAGAT
*
354465 ATAGAATTATATCACATGAAATTGTATAATATG
64 ATAGAATCATATCACATGAAATTGTATAATATG
* * *
354498 ATATTGTAGTATTTTATAATATTGTATCATACGATAGTGTATGATATGATATTGGTTTATATGAT
1 ATATTGTA-TATTCTATAATATTGTATCATACAATAGTGTATAATATGATATTGGTTTATA-GAT
** *
354563 ATATTATCATATCACATGAAATTGTATTATATG
64 ATAGAATCATATCACATGAAATTGTATAATATG
354596 ATATT
1 ATATT
354601 ATAATATATA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
96 2 0.02
97 9 0.10
98 81 0.88
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (96 bp):
ATATTGTATATTCTATAATATTGTATCATACAATAGTGTATAATATGATATTGGTTTATAGATAT
AGAATCATATCACATGAAATTGTATAATATG
Found at i:355204 original size:16 final size:16
Alignment explanation
Indices: 355171--355212 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
355161 ATATAAAATG
*
355171 ATAAAGGTG--GTCTT
1 ATAAAGGTGATGTCTC
355185 ATAAAGGTGATGTCTC
1 ATAAAGGTGATGTCTC
*
355201 ATAAGGGTGATG
1 ATAAAGGTGATG
355213 CTCCGTCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 9 0.38
16 15 0.62
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.31
Consensus pattern (16 bp):
ATAAAGGTGATGTCTC
Found at i:356932 original size:20 final size:20
Alignment explanation
Indices: 356907--356962 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
356897 CAAACAACTT
*
356907 ATTTGTTCGGACGAATTGGG
1 ATTTGTTCGGACGAATTAGG
*
356927 ATTTGTTCGGAAGAATTAGG
1 ATTTGTTCGGACGAATTAGG
356947 ATTTGTTCGGACGAAT
1 ATTTGTTCGGACGAAT
356963 AAGTTATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.25, C:0.09, G:0.30, T:0.36
Consensus pattern (20 bp):
ATTTGTTCGGACGAATTAGG
Found at i:356995 original size:2 final size:2
Alignment explanation
Indices: 356988--357024 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
356978 GTACATGTAT
356988 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
357025 TCATAATCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:357125 original size:9 final size:9
Alignment explanation
Indices: 357111--357136 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
357101 GGGTAGTGGG
357111 TATCCTAAA
1 TATCCTAAA
357120 TATCCTAAA
1 TATCCTAAA
357129 TATCCTAA
1 TATCCTAA
357137 TTCGTCCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (9 bp):
TATCCTAAA
Found at i:357155 original size:20 final size:21
Alignment explanation
Indices: 357126--357214 Score: 126
Period size: 21 Copynumber: 4.2 Consensus size: 21
357116 TAAATATCCT
357126 AAATATCCTAATTCGTCCGAAC
1 AAATA-CCTAATTCGTCCGAAC
357148 AAAT-CCTAATTCGTCCGAAC
1 AAATACCTAATTCGTCCGAAC
* *
357168 AAATAACTTATTCGTCCGAAC
1 AAATACCTAATTCGTCCGAAC
*
357189 AAATAGCTAATTCGTCCGAAC
1 AAATACCTAATTCGTCCGAAC
*
357210 GAATA
1 AAATA
357215 AGATTAATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
20 20 0.33
21 37 0.61
22 4 0.07
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (21 bp):
AAATACCTAATTCGTCCGAAC
Found at i:358960 original size:22 final size:22
Alignment explanation
Indices: 358932--358976 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
358922 TCATCATAAG
*
358932 TCATTCAGGTGAC-CTATTGCTA
1 TCATTCAGATGACTC-ATTGCTA
358954 TCATTCAGATGACTCATTGCTA
1 TCATTCAGATGACTCATTGCTA
358976 T
1 T
358977 TGGTCTTCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (22 bp):
TCATTCAGATGACTCATTGCTA
Found at i:366194 original size:168 final size:169
Alignment explanation
Indices: 365797--366221 Score: 493
Period size: 171 Copynumber: 2.5 Consensus size: 169
365787 CCGTTAGGCC
* * *
365797 AGGAAAACTAAAACTTTTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATG
1 AGGAAAGCTGAAACTTATGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATG
** * * *
365862 ACCCTCAAGAGTAGGGTGGGGCCACATTGGGGGGTCGCCTTTTATCCAAGGAATATATACATGTA
66 ACCCTCGGGAGTAGGGTGGGGCCAAAATGGGGGGTCGCCTTTTATACAAGGAATATATACA-GTA
* * ** *
365927 GAGTAAATCTTTAAAAATCCTTTCTCAGAAAGTATTCAGCC
130 -AGTAAATCTTTAAAAATCATTTCGCAGAAACCATTCAGCA
* *
365968 AGGAAAGCTGAAACTTGTGTGGAAGCATTCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATG
1 AGGAAAGCTGAAACTTATGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATG
* * * ** * *
366033 ATCCTCGGGGGTAGGATGGGGCCAAAATGGGGGGTCGATTTTTTTTACATATGAATATA-A-A-T
66 ACCCTCGGGAGTAGGGTGGGGCCAAAATGGGGGGTCG-CCTTTTATACA-AGGAATATATACAGT
**
366095 -AGTAAATCTTTAAAAAT-ATTACTCGCA-AGAACCATTTGGCA
129 AAGTAAATCTTTAAAAATCATT--TCGCAGA-AACCATTCAGCA
* *
366136 AGGAAAGTTGAAACTTATGTGGAAGCATCCTCAGGTAGTGTAGATTCAAATTTGTGAAAATCATG
1 AGGAAAGCTGAAACTTATGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATG
* *
366201 ACCCTTGGGTGTAGGGTGGGG
66 ACCCTCGGGAGTAGGGTGGGG
366222 TAATTGGTCA
Statistics
Matches: 218, Mismatches: 31, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
166 2 0.01
167 18 0.08
168 89 0.41
169 1 0.00
171 92 0.42
172 8 0.04
173 8 0.04
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (169 bp):
AGGAAAGCTGAAACTTATGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATG
ACCCTCGGGAGTAGGGTGGGGCCAAAATGGGGGGTCGCCTTTTATACAAGGAATATATACAGTAA
GTAAATCTTTAAAAATCATTTCGCAGAAACCATTCAGCA
Found at i:367143 original size:141 final size:139
Alignment explanation
Indices: 366888--367155 Score: 331
Period size: 141 Copynumber: 1.9 Consensus size: 139
366878 ACAGAAAAAA
** * * *
366888 TCTTTAAAAATCTTCTTCTCAGGAACCATTTTGCCAGGAAAGCTGAAACTTGTGTGAAAGCATCC
1 TCTTTAAAAATCTTCTTCTCAAAAACAATTTGGCCAGGAAAGCTGAAACTTGTATGAAAGCATCC
* * * * *
366953 TCGGGTAGTGTAAATTAATGGTTGTAAAAATCATGACCCTCGGGAGTAGGGTGGGGCGACTTTTC
66 TCAGGTAGTATAAATCAATAGTTGTAAAAATCATGACACTCGGGAGTAGGGTGGGGC-ACTTTTC
367018 ACATATGAAT
130 ACATATGAAT
* * * *
367028 TCTTTAAAAATCTTTTTCTCAAAAATAATTTGGCCAGGAAAAGCTGAAACTTTTATGGAAGCATC
1 TCTTTAAAAATCTTCTTCTCAAAAACAATTTGGCCAGG-AAAGCTGAAACTTGTATGAAAGCATC
* * * * *
367093 CTCAGGTAGTATAGAATCAA-AGTTGTGAAAATCATGATATTGGGGGGTAGGGTGGGGCACTTT
65 CTCAGGTAGTATA-AATCAATAGTTGTAAAAATCATGACACTCGGGAGTAGGGTGGGGCACTTT
367156 GGGGGTCGAC
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
140 37 0.35
141 65 0.61
142 5 0.05
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (139 bp):
TCTTTAAAAATCTTCTTCTCAAAAACAATTTGGCCAGGAAAGCTGAAACTTGTATGAAAGCATCC
TCAGGTAGTATAAATCAATAGTTGTAAAAATCATGACACTCGGGAGTAGGGTGGGGCACTTTTCA
CATATGAAT
Found at i:367304 original size:163 final size:164
Alignment explanation
Indices: 367028--367432 Score: 469
Period size: 163 Copynumber: 2.4 Consensus size: 164
367018 ACATATGAAT
** * ** *
367028 TCTTTAAAAATCTTTTTCTCAAAAATAATTTGGCCAGGAAAAGCTGAAACTTTTATGGAAGCATC
1 TCTTTAAAAATCTTCCTCTC-AAAATAATTAGGCCAGG-AAAGCTGAAACTGGTATAGAAGCATC
*
367093 CTCAGGTAGTATAGAATCAAAGTTGTGAAAATCATGATATTGGGGGGTAGGGTGGGGCACTT-TG
64 CTCAGGTAATATAGAATCAAAGTTGTGAAAATCATGATATTGGGGGGTAGGGTGGGGC-CTTATG
* * * *
367157 GGGGT-CGACTTTTTACTTATGAATAT-GTAGAGTATA
128 GGGGTACGAATTTTTACATAGGAATATAGTA-AGTAAA
* * *
367193 TCTTTAAAAATCTTCCTCTCAAAATCATTAGGCCAGGAAAGCTGAAACTGGTGTAGAAGCATTCT
1 TCTTTAAAAATCTTCCTCTCAAAATAATTAGGCCAGGAAAGCTGAAACTGGTATAGAAGCATCCT
* * *
367258 CAGGTAATGTAGATTCAAAGTTGTGAAAATCATG-TCCGTT-GGGGGTAGGGTGGGGCCTTAATG
66 CAGGTAATATAGAATCAAAGTTGTGAAAATCATGAT--ATTGGGGGGTAGGGTGGGGCCTT-ATG
*
367321 GGGGTGACGAATTTTTACATAGGAATATATTAAGTAAA
128 GGGGT-ACGAATTTTTACATAGGAATATAGTAAGTAAA
* * * *
367359 TCTTTAAAAATCTTCTTCTCTCAGAAATTATTATGCCAGGAAAGCTGAAACTTGTATGGAAGCAT
1 TCTTTAAAAATCTTC--CTCTCA-AAATAATTAGGCCAGGAAAGCTGAAACTGGTATAGAAGCAT
*
367424 CCCCAGGTA
63 CCTCAGGTA
367433 GGGAAAAATC
Statistics
Matches: 205, Mismatches: 25, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
162 4 0.02
163 70 0.34
164 24 0.12
165 18 0.09
166 38 0.19
167 2 0.01
168 6 0.03
169 43 0.21
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (164 bp):
TCTTTAAAAATCTTCCTCTCAAAATAATTAGGCCAGGAAAGCTGAAACTGGTATAGAAGCATCCT
CAGGTAATATAGAATCAAAGTTGTGAAAATCATGATATTGGGGGGTAGGGTGGGGCCTTATGGGG
GTACGAATTTTTACATAGGAATATAGTAAGTAAA
Found at i:371194 original size:19 final size:19
Alignment explanation
Indices: 371172--371209 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
371162 ATGCTGGATG
*
371172 TGGTTAAGGTTTTTAGAGC
1 TGGTTAAAGTTTTTAGAGC
*
371191 TGGTTAAAGTTTTTGGAGC
1 TGGTTAAAGTTTTTAGAGC
371210 AGATGCCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.05, G:0.32, T:0.42
Consensus pattern (19 bp):
TGGTTAAAGTTTTTAGAGC
Found at i:372019 original size:13 final size:13
Alignment explanation
Indices: 372003--372029 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
371993 ATTTGTTGTA
372003 TATTATGATATTG
1 TATTATGATATTG
372016 TATTATGATATTG
1 TATTATGATATTG
372029 T
1 T
372030 TGTGTATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (13 bp):
TATTATGATATTG
Found at i:372170 original size:10 final size:10
Alignment explanation
Indices: 372152--372191 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
372142 TATGTATCAT
*
372152 ATATGATACA
1 ATATCATACA
*
372162 ATATCATACT
1 ATATCATACA
372172 ATAT-ATACA
1 ATATCATACA
372181 ATATCATACA
1 ATATCATACA
372191 A
1 A
372192 CATAATTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.33
Consensus pattern (10 bp):
ATATCATACA
Found at i:372181 original size:19 final size:20
Alignment explanation
Indices: 372151--372189 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
372141 TTATGTATCA
372151 TATATGATACAATATCATAC
1 TATATGATACAATATCATAC
372171 TATAT-ATACAATATCATAC
1 TATATGATACAATATCATAC
372190 AACATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (20 bp):
TATATGATACAATATCATAC
Found at i:383956 original size:1 final size:1
Alignment explanation
Indices: 383952--384002 Score: 57
Period size: 1 Copynumber: 51.0 Consensus size: 1
383942 CAAAAAGGAT
* ** * *
383952 AAAAAACAAAAAAAAAAACCAAAAAACAAAAAACAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
384003 TACTATGGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:383964 original size:7 final size:7
Alignment explanation
Indices: 383952--384002 Score: 72
Period size: 7 Copynumber: 7.7 Consensus size: 7
383942 CAAAAAGGAT
383952 AAAAAAC
1 AAAAAAC
383959 AAAAAA-
1 AAAAAAC
*
383965 AAAAACC
1 AAAAAAC
383972 AAAAAAC
1 AAAAAAC
383979 AAAAAAC
1 AAAAAAC
383986 AAAAAA-
1 AAAAAAC
383992 AAAAAA-
1 AAAAAAC
383998 AAAAA
1 AAAAA
384003 TACTATGGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
6 16 0.39
7 25 0.61
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:383999 original size:15 final size:15
Alignment explanation
Indices: 383959--383999 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
383949 GATAAAAAAC
*
383959 AAAAAAAAAAACCAA
1 AAAAAAAAAAACAAA
*
383974 AAAACAAAAAACAAA
1 AAAAAAAAAAACAAA
383989 AAAAAAAAAAA
1 AAAAAAAAAAA
384000 AAATACTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAACAAA
Found at i:392329 original size:16 final size:16
Alignment explanation
Indices: 392304--392335 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
392294 TTTTGGGCGG
*
392304 CGTCCGTCTGTCTGTC
1 CGTCCATCTGTCTGTC
392320 CGTCCATCTGTCTGTC
1 CGTCCATCTGTCTGTC
392336 TGTAAACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.03, C:0.38, G:0.22, T:0.38
Consensus pattern (16 bp):
CGTCCATCTGTCTGTC
Found at i:393140 original size:320 final size:316
Alignment explanation
Indices: 392518--393142 Score: 725
Period size: 320 Copynumber: 2.0 Consensus size: 316
392508 AAAAATATTC
* * * *
392518 TTCTCAGAAACCATTTGCCCAGAATAGCTGAGACTTTGCAAAAGCATCCTCAGATAGTGTAGATT
1 TTCTCAAAAACCATTTGCCCAGAAAAGCTGAGACTTTGCAAAAGCATCCTCAAAGAGTGTAGATT
* * *
392583 CAAATTTGGTCAAATCATTGTCCCCGGGGGGAAGGTGGGGTCACAATTGGGGTCAAAGTTTTACA
66 CAAATTTGGTCAAATCATTGTCCCCGGGGAGAAGGTGGGGCCACAATGGGGGTCAAAGTTTTACA
* *
392648 TAGAATATATAGAGTAAATTTTTTAAAATCTTTTCCTCAGAAACCAATTAGCAAGGAAAGATAAA
131 TAGAATATATAGAGTAAATCTTTTAAAATCTTTTCCTCAGAAACCAATCAGCAAGGAAAGATAAA
* * * * ** * * *
392713 ACTTGTGTTGAAGCTTCCTCATGTAGTGTAGATTTAAAGTCGTGAAAATTATGACCCCAAGGTGT
196 ACTTGGGTGGAAGCATCCTCATGTAATGTAGATAGAAAGTCATGAAAATCATGACCCCAAGGAGT
** * * * *
392778 AGGGTGGGGCCACAATGGGGGGTCGTATTTTTACATAGGAATATATACATAGATTT
261 AGGGTGAAGCCACAATGGGGGGTCGAACTTTAACAAAGGAATATATACATAGATTT
* *** *
392834 TTCTCAAAAACCATTTGGCCAGAAAAGCTCTGAGACTTGTGTGGAAGCATCCTCAAAGGGTGTAG
1 TTCTCAAAAACCATTTGCCCAGAAAAG--CTGAGACTT-TGCAAAAGCATCCTCAAAGAGTGTAG
* *
392899 ATTCAAATTT-GTACATATCATTGTCCCCGGGGATAAGGTGGGGCCACAATGGGGGTCAAAGTTT
63 ATTCAAATTTGGT-CAAATCATTGTCCCCGGGGAGAAGGTGGGGCCACAATGGGGGTCAAAGTTT
** * * * * ** *
392963 TATTTTGGAATATATATAGTAAATCTTTTAAAATCTTTTTCTCAGAAACTAATCAGCCCGGGAAG
127 TA-CATAGAATATATAGAGTAAATCTTTTAAAATCTTTTCCTCAGAAACCAATCAGCAAGGAAAG
* * * * * * * **
393028 CTGAAATTTGGGTGGAAGCATCCTTATGTAATGTAGATAGAAATTTATGAAAATCATGA-CTCTG
191 ATAAAACTTGGGTGGAAGCATCCTCATGTAATGTAGATAGAAAGTCATGAAAATCATGACCCCAA
393092 GGAG-AGGGTGAAGCCACAATGAGGGGGGTCGAACTTTAACAAAGGAATATA
256 GGAGTAGGGTGAAGCCACAAT--GGGGGGTCGAACTTTAACAAAGGAATATA
393143 GTGTAAATCT
Statistics
Matches: 253, Mismatches: 49, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
316 24 0.09
318 25 0.10
319 83 0.33
320 121 0.48
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (316 bp):
TTCTCAAAAACCATTTGCCCAGAAAAGCTGAGACTTTGCAAAAGCATCCTCAAAGAGTGTAGATT
CAAATTTGGTCAAATCATTGTCCCCGGGGAGAAGGTGGGGCCACAATGGGGGTCAAAGTTTTACA
TAGAATATATAGAGTAAATCTTTTAAAATCTTTTCCTCAGAAACCAATCAGCAAGGAAAGATAAA
ACTTGGGTGGAAGCATCCTCATGTAATGTAGATAGAAAGTCATGAAAATCATGACCCCAAGGAGT
AGGGTGAAGCCACAATGGGGGGTCGAACTTTAACAAAGGAATATATACATAGATTT
Found at i:398353 original size:15 final size:15
Alignment explanation
Indices: 398333--398372 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
398323 TCTCCATATT
398333 TTTATTATATTTATA
1 TTTATTATATTTATA
*
398348 TTTATTATATTTTTA
1 TTTATTATATTTATA
398363 TTTATT-TATT
1 TTTATTATATT
398373 ATAAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTATTATATTTATA
Found at i:402626 original size:21 final size:22
Alignment explanation
Indices: 402590--402630 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
402580 TAAGCAAGTC
*
402590 CTTAAAGGTGGCTTAAAGGCGA
1 CTTAAAGGTAGCTTAAAGGCGA
402612 CTTAAAGG-AGCTTAAAGGC
1 CTTAAAGGTAGCTTAAAGGC
402631 TATACGACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (22 bp):
CTTAAAGGTAGCTTAAAGGCGA
Found at i:402737 original size:10 final size:11
Alignment explanation
Indices: 402700--402738 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
402690 GTCCAAACTT
402700 CTTTAAGCCAC
1 CTTTAAGCCAC
402711 CTTTAAGCCAC
1 CTTTAAGCCAC
*
402722 CTTTAAG-CAT
1 CTTTAAGCCAC
402732 CTTTAAG
1 CTTTAAG
402739 TGGCATTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.33
Consensus pattern (11 bp):
CTTTAAGCCAC
Found at i:402788 original size:22 final size:22
Alignment explanation
Indices: 402731--402791 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
402721 CCTTTAAGCA
* *
402731 TCTTTAAGTGGCATTTACGCTC
1 TCTTTAAGTGGCCTTTACACTC
* *
402753 TCTTTACACT-GCCTTTACACTG
1 TCTTTA-AGTGGCCTTTACACTC
402775 TCTTTAAGTGGCCTTTA
1 TCTTTAAGTGGCCTTTA
402792 AGTCAATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
21 2 0.06
22 28 0.88
23 2 0.06
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.43
Consensus pattern (22 bp):
TCTTTAAGTGGCCTTTACACTC
Found at i:402902 original size:51 final size:51
Alignment explanation
Indices: 402826--402930 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
402816 ATAAACACAT
402826 ATATTAAATGCAAAAGCTCTTTTATAGAGATGGACGGGGGTCATCCGAGTG
1 ATATTAAATGCAAAAGCTCTTTTATAGAGATGGACGGGGGTCATCCGAGTG
402877 ATATTAAATGCAAAAGCTCTTTTATAGAGATGGACGGGGGTCATCCGAGTG
1 ATATTAAATGCAAAAGCTCTTTTATAGAGATGGACGGGGGTCATCCGAGTG
402928 ATA
1 ATA
402931 ATATAATTTC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (51 bp):
ATATTAAATGCAAAAGCTCTTTTATAGAGATGGACGGGGGTCATCCGAGTG
Found at i:403173 original size:2 final size:2
Alignment explanation
Indices: 403168--403221 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
403158 GTGAAAAAAA
403168 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
403210 TC TC TC TC TC TC
1 TC TC TC TC TC TC
403222 AGTTCATCCG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:413422 original size:20 final size:20
Alignment explanation
Indices: 413394--413460 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
413384 AGGCGAATGT
*
413394 AATCTTAATTCGTCCGAACC
1 AATCATAATTCGTCCGAACC
* * *
413414 AATCATAATTTGTTCGAACA
1 AATCATAATTCGTCCGAACC
*
413434 AATCCTAATTCGTCCGAACC
1 AATCATAATTCGTCCGAACC
413454 AATCATA
1 AATCATA
413461 GTTTGTTCAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (20 bp):
AATCATAATTCGTCCGAACC
Found at i:413454 original size:40 final size:40
Alignment explanation
Indices: 413394--413574 Score: 152
Period size: 40 Copynumber: 4.5 Consensus size: 40
413384 AGGCGAATGT
* *
413394 AATCTTAATTCGTCCGAACCAATCATAATTTGTTCGAACA
1 AATCCTAATTCGTCCGAACCAATCATAATTTGTTCAAACA
*
413434 AATCCTAATTCGTCCGAACCAATCATAGTTTGTTCAAACA
1 AATCCTAATTCGTCCGAACCAATCATAATTTGTTCAAACA
* * * * *
413474 AATAGCTAAATCGTCCGAACAAATTGCA-AA-TTGTACAAAAA
1 AAT-CCTAATTCGTCCGAACCAA-T-CATAATTTGTTCAAACA
* * * * * * * *
413515 AATTCAAATTCGTCTGAACAAAAGC-TAAATCGTCCAAAACA
1 AATCCTAATTCGTCCGAAC-CAATCATAATTTGTTC-AAACA
413556 AATCCTAATTCGTCCGAAC
1 AATCCTAATTCGTCCGAAC
413575 AGATAATTTA
Statistics
Matches: 114, Mismatches: 20, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
39 3 0.03
40 56 0.49
41 51 0.45
42 2 0.02
43 2 0.02
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.27
Consensus pattern (40 bp):
AATCCTAATTCGTCCGAACCAATCATAATTTGTTCAAACA
Found at i:413496 original size:21 final size:21
Alignment explanation
Indices: 413470--413619 Score: 103
Period size: 21 Copynumber: 7.3 Consensus size: 21
413460 AGTTTGTTCA
413470 AACAAATAGCTAAATCGTCCG
1 AACAAATAGCTAAATCGTCCG
* * * *
413491 AACAAATTGC-AAATTGTACA
1 AACAAATAGCTAAATCGTCCG
* * *
413511 AAAAAAT-TC-AAATTCGTCTG
1 AACAAATAGCTAAA-TCGTCCG
*
413531 AACAAA-AGCTAAATCGTCCAA
1 AACAAATAGCTAAATCGTCC-G
* *
413552 AACAAAT-CCTAATTCGTCCG
1 AACAAATAGCTAAATCGTCCG
* ** *
413572 AACAGATAATTTAATCGTCCG
1 AACAAATAGCTAAATCGTCCG
* *
413593 AACAAATAGCGAATTCGTCCG
1 AACAAATAGCTAAATCGTCCG
413614 AACAAA
1 AACAAA
413620 GAATATTTTA
Statistics
Matches: 95, Mismatches: 28, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
19 4 0.04
20 33 0.35
21 58 0.61
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.22
Consensus pattern (21 bp):
AACAAATAGCTAAATCGTCCG
Found at i:413575 original size:41 final size:40
Alignment explanation
Indices: 413430--413619 Score: 116
Period size: 41 Copynumber: 4.7 Consensus size: 40
413420 AATTTGTTCG
* * ** * *
413430 AACAAATCCTAATTCGTCCGAAC-CAATCATAGTTTGTTCA
1 AACAAATCCTAATTCGTCCGAACAAAAGC-TAAATCGTCCA
* * * * *
413470 AACAAATAGCTAAATCGTCCGAACAAATTGC-AAATTGTACA
1 AACAAAT-CCTAATTCGTCCGAACAAA-AGCTAAATCGTCCA
* * * *
413511 AAAAAATTCAAATTCGTCTGAACAAAAGCTAAATCGTCCAA
1 AACAAATCCTAATTCGTCCGAACAAAAGCTAAATCGTCC-A
* * *
413552 AACAAATCCTAATTCGTCCGAACAGATAA-TTTAATCGTCCG
1 AACAAATCCTAATTCGTCCGAACA-A-AAGCTAAATCGTCCA
* *
413593 AACAAATAGCGAATTCGTCCGAACAAA
1 AACAAAT-CCTAATTCGTCCGAACAAA
413620 GAATATTTTA
Statistics
Matches: 117, Mismatches: 25, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
39 2 0.02
40 30 0.26
41 56 0.48
42 26 0.22
43 3 0.03
ACGTcount: A:0.43, C:0.22, G:0.12, T:0.24
Consensus pattern (40 bp):
AACAAATCCTAATTCGTCCGAACAAAAGCTAAATCGTCCA
Found at i:422148 original size:21 final size:21
Alignment explanation
Indices: 422121--422642 Score: 407
Period size: 21 Copynumber: 25.0 Consensus size: 21
422111 TTATGTCAAA
*
422121 TAACTTTCGCGAATGAACGCG
1 TAACTTTCGCGAATAAACGCG
*
422142 AAACTTTCGCGAAT-AACGCG
1 TAACTTTCGCGAATAAACGCG
* *
422162 TTACTTTCGCGAATATACGCG
1 TAACTTTCGCGAATAAACGCG
* *
422183 TTACTTTCGCGAATATACGCG
1 TAACTTTCGCGAATAAACGCG
* *
422204 TTACTTTCGCGAATGAACGCG
1 TAACTTTCGCGAATAAACGCG
* * **
422225 TGACTTTGGCGAATAAAATCG
1 TAACTTTCGCGAATAAACGCG
422246 TAACTTTCGCGAATAAACGCG
1 TAACTTTCGCGAATAAACGCG
*
422267 TAACTTTCGCGGATAAACGCG
1 TAACTTTCGCGAATAAACGCG
* * * *
422288 AAACATTTTGCAAATGAACGCG
1 TAAC-TTTCGCGAATAAACGCG
* * *
422310 TAACTTTGGCGATTAAAGGCG
1 TAACTTTCGCGAATAAACGCG
* *
422331 TAACTTTGGCGAATAAGCGCG
1 TAACTTTCGCGAATAAACGCG
*
422352 TAACTTTCGCGGATAAACGCG
1 TAACTTTCGCGAATAAACGCG
* * *
422373 AAATCTTT-GCAAATTAACGCG
1 TAA-CTTTCGCGAATAAACGCG
*
422394 TTACTTTCGCGAATAAACGC-
1 TAACTTTCGCGAATAAACGCG
**
422414 TAAACTTTCGCGAATAAATTTTCG
1 T-AACTTTCGCGAATAAA--CGCG
* * * ****
422438 TAGC--T---AAAAAAAATAT
1 TAACTTTCGCGAATAAACGCG
***
422454 TTTTTTTCGCGAATAAACGCG
1 TAACTTTCGCGAATAAACGCG
* *
422475 TAACCTTCGCAAATAAACGCG
1 TAACTTTCGCGAATAAACGCG
* * *
422496 TAACTTTCGCAAATGAACGTG
1 TAACTTTCGCGAATAAACGCG
* *
422517 TAATTTTGGCGAATAAACGCG
1 TAACTTTCGCGAATAAACGCG
422538 TAACTTTCGCTG-ATAAACGCG
1 TAACTTTCGC-GAATAAACGCG
* *
422559 CAAAACTTTCGTGAATAAACGCG
1 --TAACTTTCGCGAATAAACGCG
* ***
422582 AAACTTTCAATAATAAACGCG
1 TAACTTTCGCGAATAAACGCG
*
422603 TAAATTT-GCGAATAAACGCG
1 TAACTTTCGCGAATAAACGCG
* *
422623 TAACTTTTGCGAATTAACGC
1 TAACTTTCGCGAATAAACGC
422643 AAAACCATTT
Statistics
Matches: 397, Mismatches: 86, Indels: 36
0.76 0.17 0.07
Matches are distributed among these distances:
16 2 0.01
18 6 0.02
20 39 0.10
21 307 0.77
22 22 0.06
23 20 0.05
24 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (21 bp):
TAACTTTCGCGAATAAACGCG
Found at i:422598 original size:44 final size:41
Alignment explanation
Indices: 422486--422629 Score: 137
Period size: 44 Copynumber: 3.4 Consensus size: 41
422476 AACCTTCGCA
* * * * *
422486 AATAAACGCGTAACTTTCGCA-AATGAACGTGTAATTTTGGCG
1 AATAAACGCGTAACTTTC-AATAATAAACGCGAAAATTT-GCG
** * *
422528 AATAAACGCGTAACTTTCGCTGATAAACGCGCAAAACTTTCGTG
1 AATAAACGCGTAACTTTCAATAATAAACGCG-AAAA-TTT-GCG
* *
422572 AATAAACGCGAAACTTTCAATAATAAACGCGTAAATTTGCG
1 AATAAACGCGTAACTTTCAATAATAAACGCGAAAATTTGCG
422613 AATAAACGCGTAACTTT
1 AATAAACGCGTAACTTT
422630 TGCGAATTAA
Statistics
Matches: 83, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
41 18 0.22
42 28 0.34
43 5 0.06
44 32 0.39
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (41 bp):
AATAAACGCGTAACTTTCAATAATAAACGCGAAAATTTGCG
Found at i:423353 original size:4 final size:4
Alignment explanation
Indices: 423344--423385 Score: 75
Period size: 4 Copynumber: 10.5 Consensus size: 4
423334 GTTACCCTGT
*
423344 TCCG TCCG TCCG TCCG TCCG TCCG TCCG TCTG TCCG TCCG TC
1 TCCG TCCG TCCG TCCG TCCG TCCG TCCG TCCG TCCG TCCG TC
423386 TGTCACGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.00, C:0.48, G:0.24, T:0.29
Consensus pattern (4 bp):
TCCG
Found at i:424111 original size:163 final size:163
Alignment explanation
Indices: 423908--424302 Score: 555
Period size: 163 Copynumber: 2.4 Consensus size: 163
423898 TGGAGTAGCT
* * * * *
423908 ACATCATCTCTTGGGATATAATTGGGGCTGTCCTATAGATGTGCAATAAGGTTTTAAAAATTTAA
1 ACATCATATCTTGGGATATGATAGGGACTGTTCTATAGATGTGCAATAAGGTTTTAAAAATTTAA
* *
423973 ATTTCATCCTGGGAGTC-AAATAGTAGCAGAAAATTGACGTTTATCAC-TAAAAAATCAAACATT
66 ATTTCATCCAGGGAGTCAAAAT-GTAGCAGAAAATTGACGTTTATCACTTAAAAAA--AAACATA
*
424036 GATCCAAGAGCTCCTCTTATGATTTAATGGATAGAC
128 GATCCAAGAACTCCTCTTATGATTTAATGGATAGAC
* *
424072 A-ATCATATCTTGGGATATGATAGGGACTGTTCTATAGATGTGCAGTAAGGTTTTCAAAATTTAA
1 ACATCATATCTTGGGATATGATAGGGACTGTTCTATAGATGTGCAATAAGGTTTTAAAAATTTAA
*
424136 ATTTCATCCAGGGAGTCAAAATGTAGCAGAAAATTGACGTTTATCACTTTAAAAAAAACATAGAT
66 ATTTCATCCAGGGAGTCAAAATGTAGCAGAAAATTGACGTTTATCACTTAAAAAAAAACATAGAT
* *
424201 CCTAGAACTCCTTTTATGATTTAATGGATAGAC
131 CCAAGAACTCCTCTTATGATTTAATGGATAGAC
* * * * **
424234 ACATCATATCTTGGGATATGAAAGGAACTGTTCCATAGATGTGCATTACCGTTTTGAAAAA-TTA
1 ACATCATATCTTGGGATATGATAGGGACTGTTCTATAGATGTGCAATAAGGTTTT-AAAAATTTA
424298 AATTT
65 AATTT
424303 AACCCTGAGG
Statistics
Matches: 207, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
162 40 0.19
163 152 0.73
164 15 0.07
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.33
Consensus pattern (163 bp):
ACATCATATCTTGGGATATGATAGGGACTGTTCTATAGATGTGCAATAAGGTTTTAAAAATTTAA
ATTTCATCCAGGGAGTCAAAATGTAGCAGAAAATTGACGTTTATCACTTAAAAAAAAACATAGAT
CCAAGAACTCCTCTTATGATTTAATGGATAGAC
Found at i:424642 original size:134 final size:135
Alignment explanation
Indices: 424356--424648 Score: 353
Period size: 134 Copynumber: 2.2 Consensus size: 135
424346 CTTTAAGGAT
*
424356 CAAGAATATATATGG-TTAAGGGGTGGGGATCTCAACCGTTTTCGAGATATTCGTGCACTTCCTG
1 CAAGAATATATATGGTTTAA-GGGTGGGGATCTCAACCGTTTTCGAGATATTAGTGCACTTCCTG
* * * * * *
424420 TTCAAGGGGGGTCATGACAACCCCCGGGGCCCATGACCTACATACCGTTTAATGCCCCTTGACAC
65 TTCAAGGGGCGTCAGGACAACCCACAGGGCCCATGACCTACATAACATTTAATGCCCCTTGACAC
**
424485 AAGGTA
130 AAGAAA
* * *
424491 CAAGAATATATATGGTTTAAGGGTGGGGATCTCAACTGTTTT-GAAGATATTAAG-GGACTTGCT
1 CAAGAATATATATGGTTTAAGGGTGGGGATCTCAACCGTTTTCG-AGATATT-AGTGCACTTCCT
** * *
424554 GTTTGA-GGGCGTCAGGACCACCCACAGGGCCCATGACCTACATAACATTTGATGCCCCTTGACA
64 GTTCAAGGGGCGTCAGGACAACCCACAGGGCCCATGACCTACATAACATTTAATGCCCCTTGACA
424618 TC-AGAAA
129 -CAAGAAA
* *
424625 CATGAATATATATGGTTTAGGGGT
1 CAAGAATATATATGGTTTAAGGGT
424649 CATGATTATT
Statistics
Matches: 136, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
134 76 0.56
135 55 0.40
136 5 0.04
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (135 bp):
CAAGAATATATATGGTTTAAGGGTGGGGATCTCAACCGTTTTCGAGATATTAGTGCACTTCCTGT
TCAAGGGGCGTCAGGACAACCCACAGGGCCCATGACCTACATAACATTTAATGCCCCTTGACACA
AGAAA
Found at i:427523 original size:16 final size:17
Alignment explanation
Indices: 427502--427534 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
427492 AGATAAGATT
427502 TTCCGTTTTCC-TTCCG
1 TTCCGTTTTCCGTTCCG
427518 TTCCGTTTTCCGTTCCG
1 TTCCGTTTTCCGTTCCG
427535 CGTTTTAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.00, C:0.36, G:0.15, T:0.48
Consensus pattern (17 bp):
TTCCGTTTTCCGTTCCG
Found at i:430644 original size:22 final size:22
Alignment explanation
Indices: 430616--430658 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
430606 AAAAATATTT
*
430616 TTGAATTTGATATAACGAATTC
1 TTGAATTTGATAAAACGAATTC
*
430638 TTGAATTTGTTAAAACGAATT
1 TTGAATTTGATAAAACGAATT
430659 TAAATCGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (22 bp):
TTGAATTTGATAAAACGAATTC
Found at i:430673 original size:19 final size:20
Alignment explanation
Indices: 430626--430744 Score: 89
Period size: 19 Copynumber: 5.7 Consensus size: 20
430616 TTGAATTTGA
* *
430626 TATAACGAATTCTTGAATTTGT
1 TATAACGAA-T-TTAAATTCGT
*
430648 TAAAACGAATTTAAA-TCGT
1 TATAACGAATTTAAATTCGT
* *
430667 TATAACGAATTGTTGAATCCGT
1 TATAACGAA-T-TTAAATTCGT
*
430689 TATAACGAA-TTAAATTTGT
1 TATAACGAATTTAAATTCGT
*
430708 TATAACAAATTTTAGGAATTCGT
1 TATAACGAA-TTTA--AATTCGT
*
430731 TACAACGAATTTAA
1 TATAACGAATTTAA
430745 TCTGTTATTA
Statistics
Matches: 77, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
19 26 0.34
20 6 0.08
21 8 0.10
22 24 0.31
23 13 0.17
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (20 bp):
TATAACGAATTTAAATTCGT
Found at i:430683 original size:41 final size:40
Alignment explanation
Indices: 430626--430752 Score: 132
Period size: 41 Copynumber: 3.1 Consensus size: 40
430616 TTGAATTTGA
*
430626 TATAACGAATTCTTGAATTTGTTAAAACGAATTTAAATCGT
1 TATAACGAATT-TTGAATTCGTTAAAACGAATTTAAATCGT
* * *
430667 TATAACGAATTGTTGAATCCGTTATAACGAA-TTAAATTTGT
1 TATAACGAATT-TTGAATTCGTTAAAACGAATTTAAA-TCGT
* *
430708 TATAACAAATTTTAGGAATTCGTTACAACGAATTT-AATCTGT
1 TATAACGAATTTT--GAATTCGTTAAAACGAATTTAAATC-GT
430750 TAT
1 TAT
430753 TACAAATTCA
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
40 7 0.10
41 41 0.57
42 22 0.31
43 2 0.03
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (40 bp):
TATAACGAATTTTGAATTCGTTAAAACGAATTTAAATCGT
Found at i:430692 original size:22 final size:20
Alignment explanation
Indices: 430626--430699 Score: 78
Period size: 22 Copynumber: 3.5 Consensus size: 20
430616 TTGAATTTGA
*
430626 TATAACGAATTCTTGAATTTGT
1 TATAACGAATT-TTGAA-TCGT
* *
430648 TAAAACGAA-TTTAAATCGT
1 TATAACGAATTTTGAATCGT
430667 TATAACGAATTGTTGAATCCGT
1 TATAACGAATT-TTGAAT-CGT
430689 TATAACGAATT
1 TATAACGAATT
430700 AAATTTGTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 11 0.25
20 5 0.11
21 6 0.14
22 22 0.50
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (20 bp):
TATAACGAATTTTGAATCGT
Found at i:430769 original size:42 final size:40
Alignment explanation
Indices: 430639--430774 Score: 121
Period size: 42 Copynumber: 3.3 Consensus size: 40
430629 AACGAATTCT
* * *
430639 TGAATTTGTTAAAACGAATTTAAATC-GTTATAACGAATTGT
1 TGAATTCGTTAAAACGAATTT-AATCTGTTATAACAAATT-A
* * * *
430680 TGAATCCGTTATAACGAATTAAATTTGTTATAACAAATTTTA
1 TGAATTCGTTAAAACGAATTTAATCTGTTATAACAAA--TTA
* * *
430722 GGAATTCGTTACAACGAATTTAATCTGTTATTACAAATTCA
1 TGAATTCGTTAAAACGAATTTAATCTGTTATAACAAATT-A
430763 CTGAATTCGTTA
1 -TGAATTCGTTA
430775 TTTCAAATTT
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
40 5 0.07
41 28 0.37
42 41 0.54
43 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (40 bp):
TGAATTCGTTAAAACGAATTTAATCTGTTATAACAAATTA
Found at i:430987 original size:22 final size:20
Alignment explanation
Indices: 430959--431021 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 20
430949 GCGTAAGACG
430959 TATAACGGATTCAACAATTCGT
1 TATAAC-GATTCAA-AATTCGT
*
430981 TATAACGATT-TAAATTCGT
1 TATAACGATTCAAAATTCGT
* *
431000 TTTAACAAATTCAAGAATTCGT
1 TATAAC-GATTCAA-AATTCGT
431022 AATATCAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 12 0.35
20 4 0.12
21 5 0.15
22 13 0.38
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (20 bp):
TATAACGATTCAAAATTCGT
Found at i:449772 original size:4 final size:4
Alignment explanation
Indices: 449763--449858 Score: 165
Period size: 4 Copynumber: 24.0 Consensus size: 4
449753 TTGTAAGTAC
* * *
449763 ATCT ATCT ATCG CTCG ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
449811 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
1 ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT ATCT
449859 GTCTGTCTGT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 88 1.00
ACGTcount: A:0.24, C:0.26, G:0.02, T:0.48
Consensus pattern (4 bp):
ATCT
Found at i:463166 original size:16 final size:15
Alignment explanation
Indices: 463134--463177 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
463124 AAACTGAGAA
463134 TTTTCAAATTTTAAT
1 TTTTCAAATTTTAAT
463149 TTTTCACAA-TTTAGAT
1 TTTTCA-AATTTTA-AT
463165 TTTT-AAATTTTAA
1 TTTTCAAATTTTAA
463178 AAATTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 3 0.12
15 15 0.58
16 8 0.31
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (15 bp):
TTTTCAAATTTTAAT
Found at i:464002 original size:165 final size:164
Alignment explanation
Indices: 463601--465832 Score: 3126
Period size: 165 Copynumber: 13.4 Consensus size: 164
463591 CAGGAAAGTC
* *
463601 TACATAGGAATATATAGAGTAATTCTTTGAAAA---TCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* * * * *
463663 CTGAAACTCGTGTGGAAGTATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAATTCATGACCCCCG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGA-TCCTG
*
463728 GGGGTAGGGTGGGGCCACAATGGGGGGTCGATGTTT
130 GGGGTAGGGTGGGG-CACAATGGGGGGTCGAAGTTT
463764 TACATAGGAATATATCA-AGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAA
1 TACATAGGAATATAT-AGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAA
* *
463828 GCTGAAACTTGTGTGGAAGTATCCTCAGGTGGTGTAGATTCAAAGTTGTGAAAATCATGA-CCTG
65 GCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCTG
*
463892 CAGGGGTAGGGCGGGGCACAATGGGGGGTCGAAGTTT
130 --GGGGTAGGGTGGGGCACAATGGGGGGTCGAAGTTT
*
463929 TACATAGGAATATATGGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* *
463994 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAATTCATGACCCCTG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGA-TCCTG
**
464059 GATGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTT
130 GGGGTAGGGTGGGG-CACAATGGGGGGTCGAAGTTT
* *
464095 TACATAGGAATATAATATAGACTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCTAGGA
1 TACATAGG-A-AT-ATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGA
* * * * *
464160 AAGCTGAGACTTGCGTGGAAGCATTCTCAGGTAGTGTAGATTCAAAGTTGTAAAAATCATGACCC
63 AAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGA-TC
* * *
464225 CCGGGGGTAGGGTGCGGCCACAAT-GGGGGTCGATGTTT
127 CTGGGGGTAGGGTG-GGGCACAATGGGGGGTCGAAGTTT
* *
464263 TACATAGGAATATATAGAGTAAATCTTTGAAAATCTTCTTCTCAGAAACAAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* *
464328 CTGAAACTTGTATGGAAGTATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGAT-CCTG
* *
464393 GGGGTAGGGTGGGGCACAATGGAGGGTCGAAATTT
130 GGGGTAGGGTGGGGCACAATGGGGGGTCGAAGTTT
* * *
464428 TACA-ATGGAATATATTGAGTAAATCTTTAAAATTCTACTTCTCAGAAACTAATCAGCCAGGAAA
1 TACATA-GGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAA
*
464492 GCTGAAACTTGTGTGGAAGCATCCTCAGGCAGTGTAGATTCAAAGTTGTGAAAATCATGATCCAT
65 GCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCC-T
464557 GGGGGTA-GGTCGGGGCACAATGGGGGGTCGAAGTTT
129 GGGGGTAGGGT-GGGGCACAATGGGGGGTCGAAGTTT
* *
464593 TACATAGGAATATATAGAGTAAATCTTTGAAAATCATCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* *
464658 CTGAAACTTGTGTGGAAGCATCCTCAGGCAGTGTAGATTCATAGTTGTGAAAATCATGATCCCTG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGAT-CCTG
*
464723 GGGGTAGGGTGGGGCACAATGGGGGGGGGGTCGAAG-TC
130 GGGGTAGGGTGGGGCACAAT----GGGGGGTCGAAGTTT
* *
464761 TACATAGGAATATATAGAGTAATTCTTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* * *
464826 CTGAAACTCGTGTGGAAGCATCCTCAGGCAGTGTAGATTCAAAGTTGTGAAATTCATGATCCCTG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGAT-CCTG
464891 GGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTT
130 GGGGTAGGGTGGGG-CACAATGGGGGGTCGAAGTTT
*
464927 TACATAGGAATATATGGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* * * * * * *
464992 CTCAAACATGTGTGTAAGCATTCTCAGGTAGTGTAGATTCATAGTTGTGAAAATCATGACCCCCG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGA-TCCTG
*
465057 GGGGTAGGGTGGGGCCACAATGGGGTGGTCCAAGTTT
130 GGGGTAGGGTGGGG-CACAATGGGG-GGTCGAAGTTT
465094 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* * * **
465159 CAGAAACTTATGTGGAAGCATCATCAGGTAGTACAGATTCAAAGTTGTGAAAATCATGATCCCTG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGAT-CCTG
* * *
465224 GGGGTAGGGTGAGGCCACATTGGGGGGGGGGGTTGTTAAAGTTT
130 GGGGTAGGGTG-GGGCACAAT-----GGGGGGTCG---AAGTTT
* * *
465268 TACATA-GAA-ATATAGAGTTAATCTTTGAAAATCTTC--ATCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* **
465329 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCA
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGA-TCCTG
465394 GGGGTAGGGTGGGGCCACAATGGGGGGTGGTCGAAGTTT
130 GGGGTAGGGTGGGG-CACAAT--GGGG-GGTCGAAGTTT
* *
465433 TACATAGGAATATATGGAGTAAATCTTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* * *
465498 CTGAAA-TTCGTGTGGAAGCATCCTCAGGCAGTGTAGATTCAAATTTGTGAAATTCATGATCCCT
66 CTGAAACTT-GTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGAT-CCT
465562 GGGGGTAGGGTGGGGCACAATGGGGGGTCGAAGTTT
129 GGGGGTAGGGTGGGGCACAATGGGGGGTCGAAGTTT
*
465598 TACATAGGAATATATAGAGTAAATATTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* *
465663 CTGAAACTTGTGTTGAAGTATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAA-CATGATCCCTG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGAT-CCTG
* * * *
465727 GGGGTACGGTGAGGCCACATTGGGGGGTGTTGGGTGTTAAAGTTT
130 GGGGTAGGGTG-GGGCACAAT-GGGGG-G-T---CG---AAGTTT
* *
465772 TACAAAGGAATATATAGAGTAAATCTTTTAAAATCTTCTTCTCAGAAACTAATCAGCCAGG
1 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGG
465833 TGATTCTTTA
Statistics
Matches: 1873, Mismatches: 136, Indels: 109
0.88 0.06 0.05
Matches are distributed among these distances:
163 29 0.02
164 39 0.02
165 708 0.38
166 291 0.16
167 180 0.10
168 178 0.10
169 238 0.13
170 98 0.05
171 4 0.00
172 29 0.02
173 3 0.00
174 76 0.04
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (164 bp):
TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCTGG
GGGTAGGGTGGGGCACAATGGGGGGTCGAAGTTT
Found at i:464285 original size:334 final size:331
Alignment explanation
Indices: 463601--465832 Score: 3258
Period size: 334 Copynumber: 6.7 Consensus size: 331
463591 CAGGAAAGTC
*
463601 TACATAGGAATATATAGAGTAATTCTTTGAAAA---TCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* * * *
463663 CTGAAACTCGTGTGGAAGTATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAATTCATGACCCCCG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCTG
*
463728 GGGGTAGGGTGGGGCCACAATGGGGGGTCGATGTTTTACATAGGAATATATCA-AGTAAATCTTT
131 GGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTTTACATAGGAATATAT-AGAGTAAATCTTT
*
463792 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGTATCCTCAGG
195 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
** * *
463857 TGGTGTAGATTCAAAGTTGTGAAAATCATGA--CCTGCAGGGGTAGGGCGGGGCACAATGGGGGG
260 CAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTG--GGGGTAGGGTGGGCCACAATGGGGGG
463920 TCGAAGTTT
323 TCGAAGTTT
* *
463929 TACATAGGAATATATGGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
*
463994 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAATTCATGACCCCTG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCTG
** *
464059 GATGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTTTACATAGGAATATAATATAGACTAAATCT
131 GGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTTTACATAGG-A-AT-ATATAGAGTAAATCT
* * * *
464124 TTAAAAATCTTCTTCTCAGAAACTAATCAGCTAGGAAAGCTGAGACTTGCGTGGAAGCATTCTCA
193 TTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCA
* * * *
464189 GGTAGTGTAGATTCAAAGTTGTAAAAATCATGACCCCCGGGGGTAGGGTGCGGCCACAAT-GGGG
258 GGCAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGTG-GGCCACAATGGGGG
*
464253 GTCGATGTTT
322 GTCGAAGTTT
*
464263 TACATAGGAATATATAGAGTAAATCTTTGAAAATCTTCTTCTCAGAAACAAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* * *
464328 CTGAAACTTGTATGGAAGTATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCTG
* * *
464393 GGGGTAGGGTGGGG-CACAATGGAGGGTCGAAATTTTACA-ATGGAATATATTGAGTAAATCTTT
131 GGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTTTACATA-GGAATATATAGAGTAAATCTTT
* *
464456 AAAATTCTACTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
195 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
* *
464521 CAGTGTAGATTCAAAGTTGTGAAAATCATGATCCATGGGGGTA-GGTCGGGGCACAATGGGGGGT
260 CAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGT-GGGCCACAATGGGGGGT
464585 CGAAGTTT
324 CGAAGTTT
*
464593 TACATAGGAATATATAGAGTAAATCTTTGAAAATCATCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* * *
464658 CTGAAACTTGTGTGGAAGCATCCTCAGGCAGTGTAGATTCATAGTTGTGAAAATCATGATCCCTG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCTG
* *
464723 GGGGTAGGGTGGGG-CACAATGGGGGGGGGGTCGAAG-TCTACATAGGAATATATAGAGTAATTC
131 GGGGTAGGGTGGGGCCACAAT----GGGGGGTCGAAGTTTTACATAGGAATATATAGAGTAAATC
* *
464786 TTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTCGTGTGGAAGCATCCTC
192 TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTC
*
464851 AGGCAGTGTAGATTCAAAGTTGTGAAATTCATGATCCCTGGGGGTAGGGTGGGGCCACAATGGGG
257 AGGCAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGT-GGGCCACAATGGGG
464916 GGTCGAAGTTT
321 GGTCGAAGTTT
* *
464927 TACATAGGAATATATGGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* * * * * *
464992 CTCAAACATGTGTGTAAGCATTCTCAGGTAGTGTAGATTCATAGTTGTGAAAATCATGACCCCCG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCTG
*
465057 GGGGTAGGGTGGGGCCACAATGGGGTGGTCCAAGTTTTACATAGGAATATATAGAGTAAATCTTT
131 GGGGTAGGGTGGGGCCACAATGGGG-GGTCGAAGTTTTACATAGGAATATATAGAGTAAATCTTT
* * *
465122 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCAGAAACTTATGTGGAAGCATCATCAGG
195 AAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGG
* ** *
465187 TAGTACAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGTGAGGCCACATTGGGGGGG
260 CAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGTG-GGCCACAAT-----GG
*
465252 GGGGTTGTTAAAGTTT
319 GGGGTCG---AAGTTT
* *
465268 TACATA-GAA-ATATAGAGTTAATCTTTGAAAATCTTC--ATCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
**
465329 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCA
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCTG
*
465394 GGGGTAGGGTGGGGCCACAATGGGGGGTGGTCGAAGTTTTACATAGGAATATATGGAGTAAATCT
131 GGGGTAGGGTGGGGCCACAAT--GGGG-GGTCGAAGTTTTACATAGGAATATATAGAGTAAATCT
*
465459 TTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAA-TTCGTGTGGAAGCATCCTC
193 TTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTT-GTGTGGAAGCATCCTC
* * *
465523 AGGCAGTGTAGATTCAAATTTGTGAAATTCATGATCCCTGGGGGTAGGGTGGGGCACAATGGGGG
257 AGGCAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGTGGGCCACAATGGGGG
465588 GTCGAAGTTT
322 GTCGAAGTTT
* *
465598 TACATAGGAATATATAGAGTAAATATTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* * *
465663 CTGAAACTTGTGTTGAAGTATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAA-CATGATCCCTG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCTG
* * * * *
465727 GGGGTACGGTGAGGCCACATTGGGGGGTGTTGGGTGTTAAAGTTTTACAAAGGAATATATAGAGT
131 GGGGTAGGGTGGGGCCACAAT-GGGGG-G-T---CG---AAGTTTTACATAGGAATATATAGAGT
*
465792 AAATCTTTTAAAATCTTCTTCTCAGAAACTAATCAGCCAGG
187 AAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGG
465833 TGATTCTTTA
Statistics
Matches: 1728, Mismatches: 130, Indels: 81
0.89 0.07 0.04
Matches are distributed among these distances:
328 30 0.02
329 11 0.01
330 282 0.16
331 142 0.08
332 41 0.02
333 329 0.19
334 508 0.29
335 14 0.01
336 4 0.00
337 104 0.06
338 17 0.01
339 231 0.13
340 3 0.00
341 12 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (331 bp):
TACATAGGAATATATAGAGTAAATCTTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCTG
GGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTTTACATAGGAATATATAGAGTAAATCTTTA
AAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGC
AGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGTGGGCCACAATGGGGGGTCG
AAGTTT
Found at i:464754 original size:499 final size:502
Alignment explanation
Indices: 463601--465832 Score: 3345
Period size: 499 Copynumber: 4.5 Consensus size: 502
463591 CAGGAAAGTC
* *
463601 TACATAGGAATATATAGAGTAATTCTTTGAAAA---TCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* * * * *
463663 CTGAAACTCGTGTGGAAGTATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAATTCATGACCCCCG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTG
* *
463728 GGGGTAGGGTGGGGCCACAAT----GGGGGGTCGATGTTTTACATAGGAATATATCA-AGTAAAT
131 GGGGTAGGGTGAGGCCACAATGGGGGGGGGGTCGAAGTTTTACATAGGAATATAT-AGAGTAAAT
* *
463788 CTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGTATCCT
195 CTTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCT
* *
463853 CAGGTGGTGTAGATTCAAAGTTGTGAAAATCATGA--CCTGCAGGGGTAGGGCGGGG-CACAATG
260 CAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTG--GGGGTAGGGTGGGGCCACAATG
463915 GGGGGTCGAAGTTTTACATAGGAATATATGGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTA
323 GGGGGTCGAAGTTTTACATAGGAATATATGGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTA
*
463980 ATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAA
388 ATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGCAGTGTAGATTCAAAGTTGTGAA
* **
464045 ATTCATGACCCCTGGATGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTT
453 AATCATGACCCCTGGGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTT
* *
464095 TACATAGGAATATAATATAGACTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCTAGGA
1 TACATAGG-A-AT-ATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGA
* * * * *
464160 AAGCTGAGACTTGCGTGGAAGCATTCTCAGGTAGTGTAGATTCAAAGTTGTAAAAATCATGACCC
63 AAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCC
* * *
464225 CCGGGGGTAGGGTGCGGCCACAAT-----GGGGGTCGATGTTTTACATAGGAATATATAGAGTAA
128 CTGGGGGTAGGGTGAGGCCACAATGGGGGGGGGGTCGAAGTTTTACATAGGAATATATAGAGTAA
* * *
464285 ATCTTTGAAAATCTTCTTCTCAGAAACAAATCAGCCAGGAAAGCTGAAACTTGTATGGAAGTATC
193 ATCTTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATC
464350 CTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGTGGGG-CACAATG
258 CTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGTGGGGCCACAATG
* * * * *
464414 GAGGGTCGAAATTTTACA-ATGGAATATATTGAGTAAATCTTTAAAATTCTACTTCTCAGAAACT
323 GGGGGTCGAAGTTTTACATA-GGAATATATGGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACT
464478 AATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGCAGTGTAGATTCAAAGTTGTGA
387 AATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGCAGTGTAGATTCAAAGTTGTGA
* *
464543 AAATCATGATCCATGGGGGTA-GGTCGGGG-CACAATGGGGGGTCGAAGTTT
452 AAATCATGACCCCTGGGGGTAGGGT-GGGGCCACAATGGGGGGTCGAAGTTT
* *
464593 TACATAGGAATATATAGAGTAAATCTTTGAAAATCATCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* *
464658 CTGAAACTTGTGTGGAAGCATCCTCAGGCAGTGTAGATTCATAGTTGTGAAAATCATGATCCCTG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTG
* * *
464723 GGGGTAGGGTG-GGGCACAATGGGGGGGGGGTCGAAG-TCTACATAGGAATATATAGAGTAATTC
131 GGGGTAGGGTGAGGCCACAATGGGGGGGGGGTCGAAGTTTTACATAGGAATATATAGAGTAAATC
*
464786 TTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTCGTGTGGAAGCATCCTC
196 TTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTC
* *
464851 AGGCAGTGTAGATTCAAAGTTGTGAAATTCATGATCCCTGGGGGTAGGGTGGGGCCACAATGGGG
261 AGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGTGGGGCCACAATGGGG
464916 GGTCGAAGTTTTACATAGGAATATATGGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATC
326 GGTCGAAGTTTTACATAGGAATATATGGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATC
* * * * * *
464981 AGCCAGGAAAGCTCAAACATGTGTGTAAGCATTCTCAGGTAGTGTAGATTCATAGTTGTGAAAAT
391 AGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGCAGTGTAGATTCAAAGTTGTGAAAAT
* *
465046 CATGACCCCCGGGGGTAGGGTGGGGCCACAATGGGGTGGTCCAAGTTT
456 CATGACCCCTGGGGGTAGGGTGGGGCCACAATGGGG-GGTCGAAGTTT
465094 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* * * **
465159 CAGAAACTTATGTGGAAGCATCATCAGGTAGTACAGATTCAAAGTTGTGAAAATCATGATCCCTG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTG
* * *
465224 GGGGTAGGGTGAGGCCACATTGGGGGGGGGGGTTGTTAAAGTTTTACATA-GAA-ATATAGAGTT
131 GGGGTAGGGTGAGGCCACAAT-GGGGGGGGGGTCG---AAGTTTTACATAGGAATATATAGAGTA
*
465287 AATCTTTGAAAATCTTC--ATCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCAT
192 AATCTTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCAT
* **
465350 CCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGACCCCCAGGGGTAGGGTGGGGCCACAAT
257 CCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGTGGGGCCACAAT
*
465415 GGGGGGTGGTCGAAGTTTTACATAGGAATATATGGAGTAAATCTTTGAAAATCTTCTTCTCAGAA
322 --GGGG-GGTCGAAGTTTTACATAGGAATATATGGAGTAAATCTTTAAAAATCTTCTTCTCAGAA
*
465480 ACTAATCAGCCAGGAAAGCTGAAA-TTCGTGTGGAAGCATCCTCAGGCAGTGTAGATTCAAATTT
384 ACTAATCAGCCAGGAAAGCTGAAACTT-GTGTGGAAGCATCCTCAGGCAGTGTAGATTCAAAGTT
* *
465544 GTGAAATTCATGATCCCTGGGGGTAGGGTGGGG-CACAATGGGGGGTCGAAGTTT
448 GTGAAAATCATGACCCCTGGGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTT
*
465598 TACATAGGAATATATAGAGTAAATATTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
1 TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
* *
465663 CTGAAACTTGTGTTGAAGTATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAA-CATGATCCCTG
66 CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTG
* * *
465727 GGGGTACGGTGAGGCCACATTGGGGGGTGTTGGGT-GTTAAAGTTTTACAAAGGAATATATAGAG
131 GGGGTAGGGTGAGGCCACAATGGGGGG-G--GGGTCG---AAGTTTTACATAGGAATATATAGAG
*
465791 TAAATCTTTTAAAATCTTCTTCTCAGAAACTAATCAGCCAGG
190 TAAATCTTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGG
465833 TGATTCTTTA
Statistics
Matches: 1588, Mismatches: 112, Indels: 62
0.90 0.06 0.04
Matches are distributed among these distances:
494 16 0.01
495 119 0.07
496 4 0.00
497 20 0.01
498 172 0.11
499 448 0.28
500 120 0.08
501 146 0.09
502 13 0.01
503 148 0.09
504 135 0.09
505 47 0.03
506 173 0.11
507 7 0.00
508 20 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (502 bp):
TACATAGGAATATATAGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAG
CTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTG
GGGGTAGGGTGAGGCCACAATGGGGGGGGGGTCGAAGTTTTACATAGGAATATATAGAGTAAATC
TTTGAAAATCTTCTTCTCAGAAACTAATCAGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTC
AGGTAGTGTAGATTCAAAGTTGTGAAAATCATGATCCCTGGGGGTAGGGTGGGGCCACAATGGGG
GGTCGAAGTTTTACATAGGAATATATGGAGTAAATCTTTAAAAATCTTCTTCTCAGAAACTAATC
AGCCAGGAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGCAGTGTAGATTCAAAGTTGTGAAAAT
CATGACCCCTGGGGGTAGGGTGGGGCCACAATGGGGGGTCGAAGTTT
Found at i:470436 original size:165 final size:164
Alignment explanation
Indices: 469578--470433 Score: 920
Period size: 165 Copynumber: 5.3 Consensus size: 164
469568 AAACTTTCCC
* * * * * ***
469578 AGAATATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAGTTCAAACCGCCATCACGGCCCC
1 AGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATT-TATCCCCCATTGTGGCCCC
* * ** * * * * *
469643 GCCCTACCACTAGGGACTGTGATTTTG--CAAACTTGAATTTACACTACCCGAGGATGCCTCTAC
65 -CCCTACCCCCAGGGACCATGA-TTTGAACAAACTTGAATCTACACTATCTGAGGATGCTTCCAC
* * * * * * *
469706 ACAAGTTTAAGCTTTTCTGGCCAAATAGTCTTTGAAA
128 TCAAATTTGAGCTTTCCTGGCCTAATAGTTTTTGAGA
* * * *
469743 AGAAGATTTTTAAAAATTTTCTCTATATATTCCTATGTAAAAATTCATCCCCCATTGTAGCCTCA
1 AGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATTTATCCCCCATTGTGGCC-CC
* ** * * * * *
469808 CCCTA-CCCC-TGGATTATTATTTAAACAAACTTGAATCTATACGATCTTAGGATGCTTCCACTC
65 CCCTACCCCCAGGGACCATGATTTGAACAAACTTGAATCTACACTATCTGAGGATGCTTCCACTC
469871 AAATTTGAGCTTTCCTGGCCTAATAG-TTTTGAGA
130 AAATTTGAGCTTTCCTGGCCTAATAGTTTTTGAGA
* *
469905 AGAAGATTTATAAAGATTTTCTC--TATA----TA--TAAAAATTTATCCCCCATTGTGGCCCGC
1 AGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATTTATCCCCCATTGTGGCCCCC
* * *** *
469962 CCTACCCCCCAGGGACCATGATTTGAACAAACTTGAATCTACATTATCTGAGGATGGTGATACGC
66 CCTA-CCCCCAGGGACCATGATTTGAACAAACTTGAATCTACACTATCTGAGGATGCTTCCACTC
* * * *
470027 CAATTTGAGCTTT-CTAGGCCAAAAAGTTTTT-AAA
130 AAATTTGAGCTTTCCT-GGCCTAATAGTTTTTGAGA
* *
470061 AGAA-ATTTTTTAAAAGATTTTCT-TCATATATTCCTGTATAAAAATTTATCCCCCAATTGTGGC
1 AGAAGA-TTTTT-AAAGATTTTCTCT-ATATATTCCTATGTAAAAATTTATCCCCC-ATTGTGGC
* *
470124 CCCACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTATCT-TGGATGCTTCC
62 CCC-CCCTACCCCCAGGGACCATGATTTGAACAAACTTGAATCTACACTATCTGAGGATGCTTCC
* * *
470188 ACTCAAATTTGAGCTTTCCTGGTCTAAAAGCTTTTGAGA
126 ACTCAAATTTGAGCTTTCCTGGCCTAATAGTTTTTGAGA
* *
470227 AGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAACTTGATCCCCCAATTGTGGCCCC
1 AGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATTTATCCCCC-ATTGTGGCCCC
* *
470292 CCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATATACACTATCTGAGGATGCTTCCACTC
65 CCCTACCCCCAGGGACCATGATTTGAACAAACTTGAATCTACACTATCTGAGGATGCTTCCACTC
* *
470357 AATTTTGAGCTTTCCTGGCCTGATAGTTTTTGAGA
130 AAATTTGAGCTTTCCTGGCCTAATAGTTTTTGAGA
*
470392 AGAAGAGTTTTAAAGATTTTCTCTATATATTCCTATGTAAAA
1 AGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAA
470434 CTTTGGCTCA
Statistics
Matches: 581, Mismatches: 84, Indels: 52
0.81 0.12 0.07
Matches are distributed among these distances:
153 6 0.01
154 23 0.04
155 7 0.01
156 72 0.12
157 15 0.03
159 4 0.01
160 4 0.01
161 3 0.01
162 33 0.06
163 54 0.09
164 63 0.11
165 225 0.39
166 66 0.11
167 6 0.01
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (164 bp):
AGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATTTATCCCCCATTGTGGCCCCC
CCTACCCCCAGGGACCATGATTTGAACAAACTTGAATCTACACTATCTGAGGATGCTTCCACTCA
AATTTGAGCTTTCCTGGCCTAATAGTTTTTGAGA
Found at i:474473 original size:1 final size:1
Alignment explanation
Indices: 474469--474496 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
474459 TAGTGGAAGT
474469 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
474497 CACAAGCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:486569 original size:2 final size:2
Alignment explanation
Indices: 486564--486603 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
486554 CTTCGAGAGA
486564 CT CT CT CT CT CT CT CT CT CT C- CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
486604 ACATTAATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:490205 original size:21 final size:21
Alignment explanation
Indices: 490181--490234 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
490171 CAACGAATGC
*
490181 GAGAACTCGTGCACCGTATGA
1 GAGAGCTCGTGCACCGTATGA
*
490202 GAGAGCTCATGCACCGTATGA
1 GAGAGCTCGTGCACCGTATGA
*
490223 GAGGGCTCGTGC
1 GAGAGCTCGTGC
490235 GAATCTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.19
Consensus pattern (21 bp):
GAGAGCTCGTGCACCGTATGA
Found at i:491306 original size:38 final size:38
Alignment explanation
Indices: 491263--491341 Score: 124
Period size: 37 Copynumber: 2.1 Consensus size: 38
491253 AACTCCGAGA
491263 TTTGTTACCTATATCCTTCATATTTCAC-AAAAAAAAAT
1 TTTGTT-CCTATATCCTTCATATTTCACAAAAAAAAAAT
**
491301 TTTGTTTNTATATCCTTCATATTTCACAAAAAAAAAAT
1 TTTGTTCCTATATCCTTCATATTTCACAAAAAAAAAAT
491339 TTT
1 TTT
491342 TTTAAAACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 19 0.50
38 19 0.50
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.43
Consensus pattern (38 bp):
TTTGTTCCTATATCCTTCATATTTCACAAAAAAAAAAT
Found at i:494058 original size:2 final size:2
Alignment explanation
Indices: 494051--494140 Score: 162
Period size: 2 Copynumber: 45.0 Consensus size: 2
494041 TTTGGCTCAC
* *
494051 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CC CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
494093 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
494135 CT CT CT
1 CT CT CT
494141 GAGACTAATC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:499176 original size:17 final size:16
Alignment explanation
Indices: 499149--499192 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
499139 TTTCGATAGA
499149 TGTTTGGTTTTTAGTT
1 TGTTTGGTTTTTAGTT
*
499165 TGTTTGGGTTTTTGGTTTT
1 TGTTT-GGTTTTTAG--TT
499184 TGTTTGGTT
1 TGTTTGGTT
499193 GGTTTGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.21
17 8 0.33
18 4 0.17
19 7 0.29
ACGTcount: A:0.02, C:0.00, G:0.30, T:0.68
Consensus pattern (16 bp):
TGTTTGGTTTTTAGTT
Found at i:501582 original size:21 final size:21
Alignment explanation
Indices: 501556--501638 Score: 112
Period size: 21 Copynumber: 4.0 Consensus size: 21
501546 TTTTTCTATC
501556 AAATATGTCGACATGCAAGAT
1 AAATATGTCGACATGCAAGAT
*
501577 AAATATGTTGACATGCAAGAT
1 AAATATGTCGACATGCAAGAT
* * *
501598 AATTATGTCAACATGCAACAT
1 AAATATGTCGACATGCAAGAT
* *
501619 AACTATGTAGACATGCAAGA
1 AAATATGTCGACATGCAAGA
501639 AAAGTGCAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.25
Consensus pattern (21 bp):
AAATATGTCGACATGCAAGAT
Found at i:501626 original size:42 final size:42
Alignment explanation
Indices: 501559--501638 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
501549 TTCTATCAAA
* * *
501559 TATGTCGACATGCAAGATAAATATGTTGACATGCAAGATAAT
1 TATGTCAACATGCAACATAAATATGTAGACATGCAAGATAAT
*
501601 TATGTCAACATGCAACATAACTATGTAGACATGCAAGA
1 TATGTCAACATGCAACATAAATATGTAGACATGCAAGA
501639 AAAGTGCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.26
Consensus pattern (42 bp):
TATGTCAACATGCAACATAAATATGTAGACATGCAAGATAAT
Found at i:501746 original size:21 final size:21
Alignment explanation
Indices: 501717--501937 Score: 164
Period size: 21 Copynumber: 10.5 Consensus size: 21
501707 AAGATGCTAG
* *
501717 ATGCTACTTTTTTATGTCTAC
1 ATGCAACTTATTTATGTCTAC
501738 ATGCAACTTATTTATGT-TAAC
1 ATGCAACTTATTTATGTCT-AC
** ** *
501759 ATGCAAGATAAATATG-CTGAT
1 ATGCAACTTATTTATGTCT-AC
*
501780 ATGCAACTTATTTATGTCAAC
1 ATGCAACTTATTTATGTCTAC
*
501801 ATGCAACTTATTTATGTCAAC
1 ATGCAACTTATTTATGTCTAC
*
501822 ATGCAACTTATTTATGTCGAC
1 ATGCAACTTATTTATGTCTAC
*
501843 ATGCAACTTACTTATGT-TGAC
1 ATGCAACTTATTTATGTCT-AC
* ** **
501864 ATGCGAGATAAATATGT-TGAC
1 ATGCAACTTATTTATGTCT-AC
* *
501885 ATGCAACTTAGTTATGTTTAC
1 ATGCAACTTATTTATGTCTAC
** **
501906 ATGCAAGATAAATATGT-TAAC
1 ATGCAACTTATTTATGTCT-AC
501927 ATGCAACTTAT
1 ATGCAACTTAT
501938 AAGTTGTATG
Statistics
Matches: 160, Mismatches: 34, Indels: 12
0.78 0.17 0.06
Matches are distributed among these distances:
20 2 0.01
21 156 0.98
22 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (21 bp):
ATGCAACTTATTTATGTCTAC
Found at i:501847 original size:63 final size:63
Alignment explanation
Indices: 501717--501937 Score: 192
Period size: 63 Copynumber: 3.5 Consensus size: 63
501707 AAGATGCTAG
* * * ** * *
501717 ATGCTACTTTTTTATGTCTACATGCAACTTATTTATGTTAACATGCAAGATAAATATG-CTGAT
1 ATGCAACTTATTTATGTCAACATGCAACTTATTTATGTTAACATGCAACTTAATTATGTC-GAC
* *
501780 ATGCAACTTATTTATGTCAACATGCAACTTATTTATGTCAACATGCAACTTATTTATGTCGAC
1 ATGCAACTTATTTATGTCAACATGCAACTTATTTATGTTAACATGCAACTTAATTATGTCGAC
* ** * ** ** * * **
501843 ATGCAACTTACTTATGTTGACATGCGAGATAAATATGTTGACATGCAACTTAGTTATGTTTAC
1 ATGCAACTTATTTATGTCAACATGCAACTTATTTATGTTAACATGCAACTTAATTATGTCGAC
** ** *
501906 ATGCAAGATAAATATGTTAACATGCAACTTAT
1 ATGCAACTTATTTATGTCAACATGCAACTTAT
501938 AAGTTGTATG
Statistics
Matches: 126, Mismatches: 31, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
63 125 0.99
64 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (63 bp):
ATGCAACTTATTTATGTCAACATGCAACTTATTTATGTTAACATGCAACTTAATTATGTCGAC
Found at i:502060 original size:63 final size:63
Alignment explanation
Indices: 501945--502122 Score: 212
Period size: 63 Copynumber: 2.8 Consensus size: 63
501935 TATAAGTTGT
* * * ** ** *** *
501945 ATGTCAACATAACTTAGTTGCTTGTCGACATAAATGTGTTGCATGTCAACATATTTATCTTGC
1 ATGTTAACATAACTAAGTTGCATGTCGACATAAATAAGTTGCATGTTGACATAAAGAACTTGC
*
502008 ATGTTAACATAACTAAGTTGCATGTCGACATAAATAAGTTGCATGTTGACATAAAGAAGTTGC
1 ATGTTAACATAACTAAGTTGCATGTCGACATAAATAAGTTGCATGTTGACATAAAGAACTTGC
* ** *
502071 ATGTTAACATAAATAAGTTGCATGTTAACATAATTAAGTTGCATGTTGACAT
1 ATGTTAACATAACTAAGTTGCATGTCGACATAAATAAGTTGCATGTTGACAT
502123 CAATAGGTAG
Statistics
Matches: 99, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 99 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (63 bp):
ATGTTAACATAACTAAGTTGCATGTCGACATAAATAAGTTGCATGTTGACATAAAGAACTTGC
Found at i:502117 original size:21 final size:21
Alignment explanation
Indices: 501936--502127 Score: 186
Period size: 21 Copynumber: 9.1 Consensus size: 21
501926 CATGCAACTT
* *
501936 ATAAGTTGTATGTCAACATAA
1 ATAAGTTGCATGTTAACATAA
* * * **
501957 CTTAGTTGCTTGTCGACATAA
1 ATAAGTTGCATGTTAACATAA
** * *
501978 ATGTGTTGCATGTCAACATAT
1 ATAAGTTGCATGTTAACATAA
* **
501999 TTATCTTGCATGTTAACATAA
1 ATAAGTTGCATGTTAACATAA
* **
502020 CTAAGTTGCATGTCGACATAA
1 ATAAGTTGCATGTTAACATAA
*
502041 ATAAGTTGCATGTTGACATAA
1 ATAAGTTGCATGTTAACATAA
*
502062 AGAAGTTGCATGTTAACATAA
1 ATAAGTTGCATGTTAACATAA
502083 ATAAGTTGCATGTTAACATAA
1 ATAAGTTGCATGTTAACATAA
* * *
502104 TTAAGTTGCATGTTGACATCA
1 ATAAGTTGCATGTTAACATAA
502125 ATA
1 ATA
502128 GGTAGCGTAT
Statistics
Matches: 141, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 141 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
ATAAGTTGCATGTTAACATAA
Found at i:502225 original size:21 final size:21
Alignment explanation
Indices: 502201--502263 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
502191 ATTTGATTGC
502201 AGTTTTCTTGCATGTCAACAT
1 AGTTTTCTTGCATGTCAACAT
* **
502222 AGTTATGC-TGCATGTTGACAT
1 AGTT-TTCTTGCATGTCAACAT
** *
502243 AACTATCTTGCATGTCAACAT
1 AGTTTTCTTGCATGTCAACAT
502264 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
20 1 0.03
21 28 0.90
22 2 0.06
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (21 bp):
AGTTTTCTTGCATGTCAACAT
Found at i:505459 original size:44 final size:44
Alignment explanation
Indices: 505318--505818 Score: 407
Period size: 44 Copynumber: 11.6 Consensus size: 44
505308 TATGGGTGTC
* * *
505318 ATAACACTGCTGGGTGAGGAACCAGTGGGTGTGGTTATCTGGGTT
1 ATAACACTGCTGGGTGAGGGACCAG-GGGTGTGGTTGTCTGGGTA
* *
505363 ATAACACTGATGGGTGAGGGACCA-GGGTGTGTTTG-CAT-GG--
1 ATAACACTGCTGGGTGAGGGACCAGGGGTGTGGTTGTC-TGGGTA
* * *
505403 ATAACACTGCTGGGTGAAGGACCGGGGGAGTGGTTGTCTGGGTA
1 ATAACACTGCTGGGTGAGGGACCAGGGGTGTGGTTGTCTGGGTA
* *
505447 ATAGCACTGCTGGGCT-AGGGACAAGGGGTGTGGTTGTCTGGGTA
1 ATAACACTGCTGGG-TGAGGGACCAGGGGTGTGGTTGTCTGGGTA
* * * * * * * *
505491 AAAACAGTGATGAGTGAGGAACCAGGGGTGTGGTTGTATGGATG
1 ATAACACTGCTGGGTGAGGGACCAGGGGTGTGGTTGTCTGGGTA
* * *
505535 ATAACACTGC----TGAGGGACCGGGGGTGTGGATGTCCT-GGTG
1 ATAACACTGCTGGGTGAGGGACCAGGGGTGTGGTTGT-CTGGGTA
* * *
505575 ATAGA-ACTGCTGGGTAAGGGACCTGGGAGTATGGTTGTCT-GG--
1 ATA-ACACTGCTGGGTGAGGGACCAGGG-GTGTGGTTGTCTGGGTA
* * *
505617 ACAACACTGCTAGGTGAAGGACCAGGGGTGTGGTTGTCT-GG--
1 ATAACACTGCTGGGTGAGGGACCAGGGGTGTGGTTGTCTGGGTA
* *
505658 ATAACACTGCTGGGTGAGGGACCAGGGGTGTGGTTGTATGGGTG
1 ATAACACTGCTGGGTGAGGGACCAGGGGTGTGGTTGTCTGGGTA
* * *
505702 ATAACACAGCTGGGTGAGGGACCAGGGAATGTGTTTGTCT-GG--
1 ATAACACTGCTGGGTGAGGGACCAGGG-GTGTGGTTGTCTGGGTA
* * * * *
505744 ATAGCACTGATAGGTGAGGGACCGGGGGTGTGGTTGTATGGGTGATA
1 ATAACACTGCTGGGTGAGGGACCAGGGGTGTGGTTGTCT-GG-G-TA
*
505791 GATAACACTGCTGGGGGAGGGACC-GGGG
1 -ATAACACTGCTGGGTGAGGGACCAGGGG
505819 ATGAATTCAA
Statistics
Matches: 367, Mismatches: 62, Indels: 52
0.76 0.13 0.11
Matches are distributed among these distances:
40 52 0.14
41 70 0.19
42 50 0.14
43 12 0.03
44 120 0.33
45 40 0.11
47 4 0.01
48 19 0.05
ACGTcount: A:0.21, C:0.13, G:0.42, T:0.24
Consensus pattern (44 bp):
ATAACACTGCTGGGTGAGGGACCAGGGGTGTGGTTGTCTGGGTA
Found at i:505702 original size:127 final size:126
Alignment explanation
Indices: 505301--505780 Score: 419
Period size: 127 Copynumber: 3.7 Consensus size: 126
505291 TTGCTAGAGA
* * *
505301 GTGGTTGTATGGGTGTCATA-ACACTGCTGGGTGAGGAACCAGTGG-GTGTGGTTATCTGGGTTA
1 GTGGTTGTCTGGGTG--ATAGA-ACTGCTGGGT-AGGGACCAG-GGAGTGTGGTTGTCT-GG--A
* * * * *
505364 TAACACTGATGGGTGAGGGACCA-GGGTGTGTTTG-CATGGATAACACTGCTGGGTGAAGGACCG
58 AAACACTGATAGGTGAAGGACCAGGGGTGTGGTTGTC-TGGATAACACTGCTGGGTGAGGGACCG
*
505427 GGGGA
122 GGGGT
* * *
505432 GTGGTTGTCTGGGTAATAGCACTGCTGGGCTAGGGACAAGGG-GTGTGGTTGTCTGGGTAAAAAC
1 GTGGTTGTCTGGGTGATAGAACTGCTGGG-TAGGGACCAGGGAGTGTGGTTGTCT-GG--AAAAC
* *
505496 AGTGAT-GAGTG-AGGAACCAGGGGTGTGGTTGTATGGATGATAACACTGC----TGAGGGACCG
62 ACTGATAG-GTGAAGG-ACCAGGGGTGTGGTTGTCT-G--GATAACACTGCTGGGTGAGGGACCG
505555 GGGGT
122 GGGGT
* * * *
505560 GTGGATGTCCT-GGTGATAGAACTGCTGGGTAAGGGACCTGGGAGTATGGTTGTCTGGACAACAC
1 GTGGTTGT-CTGGGTGATAGAACTGCTGGGT-AGGGACCAGGGAGTGTGGTTGTCTGGAAAACAC
* *
505624 TGCTAGGTGAAGGACCAGGGGTGTGGTTGTCTGGATAACACTGCTGGGTGAGGGACCAGGGGT
64 TGATAGGTGAAGGACCAGGGGTGTGGTTGTCTGGATAACACTGCTGGGTGAGGGACCGGGGGT
* * * * * *
505687 GTGGTTGTATGGGTGATA-ACACAGCTGGGTGAGGGACCAGGGAATGTGTTTGTCTGGATAGCAC
1 GTGGTTGTCTGGGTGATAGA-ACTGCTGGGT-AGGGACCAGGGAGTGTGGTTGTCTGGAAAACAC
* *
505751 TGATAGGTGAGGGACCGGGGGTGTGGTTGT
64 TGATAGGTGAAGGACCAGGGGTGTGGTTGT
505781 ATGGGTGATA
Statistics
Matches: 291, Mismatches: 38, Indels: 44
0.78 0.10 0.12
Matches are distributed among these distances:
123 11 0.04
125 1 0.00
126 31 0.11
127 99 0.34
128 80 0.27
129 43 0.15
130 2 0.01
131 13 0.04
132 11 0.04
ACGTcount: A:0.21, C:0.13, G:0.42, T:0.25
Consensus pattern (126 bp):
GTGGTTGTCTGGGTGATAGAACTGCTGGGTAGGGACCAGGGAGTGTGGTTGTCTGGAAAACACTG
ATAGGTGAAGGACCAGGGGTGTGGTTGTCTGGATAACACTGCTGGGTGAGGGACCGGGGGT
Found at i:505760 original size:86 final size:85
Alignment explanation
Indices: 505318--505818 Score: 450
Period size: 85 Copynumber: 5.8 Consensus size: 85
505308 TATGGGTGTC
* * * * *
505318 ATAACACTGCTGGGTGAGGAACCAGTGGGTGTGGTTATCTGGGTTATAACACTGATGGGTGAGGG
1 ATAACACTGCTGGGTGAGGGACCAG-GGGTGTGGTTGTATGGGTGATAACACTGCTGGGTGAGGG
*
505383 ACCA-GGGTGTGTTTG-CATGG
65 ACCAGGGGTGTGGTTGTC-TGG
* * * * * *
505403 ATAACACTGCTGGGTGAAGGACCGGGGGAGTGGTTGTCTGGGTAATAGCACTGCTGGGCT-AGGG
1 ATAACACTGCTGGGTGAGGGACCAGGGGTGTGGTTGTATGGGTGATAACACTGCTGGG-TGAGGG
*
505467 ACAAGGGGTGTGGTTGTCTGGG
65 ACCAGGGGTGTGGTTGTCT-GG
* * * * * *
505489 TAAAAACAGTGATGAGTGAGGAACCAGGGGTGTGGTTGTATGGATGATAACACTGC----TGAGG
1 --ATAACACTGCTGGGTGAGGGACCAGGGGTGTGGTTGTATGGGTGATAACACTGCTGGGTGAGG
* *
505550 GACCGGGGGTGTGGATGTCCTGGTG
64 GACCAGGGGTGTGGTTGT-CT-G-G
* * * * * * *
505575 ATAGA-ACTGCTGGGTAAGGGACCTGGGAGTATGGTTGTCT--G-GACAACACTGCTAGGTGAAG
1 ATA-ACACTGCTGGGTGAGGGACCAGGG-GTGTGGTTGTATGGGTGATAACACTGCTGGGTGAGG
505636 GACCAGGGGTGTGGTTGTCTGG
64 GACCAGGGGTGTGGTTGTCTGG
*
505658 ATAACACTGCTGGGTGAGGGACCAGGGGTGTGGTTGTATGGGTGATAACACAGCTGGGTGAGGGA
1 ATAACACTGCTGGGTGAGGGACCAGGGGTGTGGTTGTATGGGTGATAACACTGCTGGGTGAGGGA
* *
505723 CCAGGGAATGTGTTTGTCTGG
66 CCAGGG-GTGTGGTTGTCTGG
* * * * *
505744 ATAGCACTGATAGGTGAGGGACCGGGGGTGTGGTTGTATGGGTGATAGATAACACTGCTGGGGGA
1 ATAACACTGCTGGGTGAGGGACCAGGGGTGTGGTTGTAT-GG-G-T-GATAACACTGCTGGGTGA
505809 GGGACC-GGGG
62 GGGACCAGGGG
505819 ATGAATTCAA
Statistics
Matches: 336, Mismatches: 56, Indels: 45
0.77 0.13 0.10
Matches are distributed among these distances:
82 21 0.06
83 25 0.07
84 73 0.22
85 75 0.22
86 71 0.21
87 2 0.01
88 43 0.13
89 4 0.01
90 22 0.07
ACGTcount: A:0.21, C:0.13, G:0.42, T:0.24
Consensus pattern (85 bp):
ATAACACTGCTGGGTGAGGGACCAGGGGTGTGGTTGTATGGGTGATAACACTGCTGGGTGAGGGA
CCAGGGGTGTGGTTGTCTGG
Found at i:513620 original size:20 final size:20
Alignment explanation
Indices: 513597--513637 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
513587 CAGCCACCTC
513597 CTGTCTTGATTTGTCATCTT
1 CTGTCTTGATTTGTCATCTT
513617 CTGTCTTGATTTGTCATCTT
1 CTGTCTTGATTTGTCATCTT
513637 C
1 C
513638 ATTCATTCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.22, G:0.15, T:0.54
Consensus pattern (20 bp):
CTGTCTTGATTTGTCATCTT
Found at i:519012 original size:22 final size:21
Alignment explanation
Indices: 518946--519025 Score: 115
Period size: 21 Copynumber: 3.8 Consensus size: 21
518936 AATAGACTGA
*
518946 AAATTACATGCAGATACTTTT
1 AAATTACATGCAGATAATTTT
*
518967 AAATTATATGCAGATAATTTT
1 AAATTACATGCAGATAATTTT
* *
518988 AAATCACATGCGGATAATTTTT
1 AAATTACATGCAGATAA-TTTT
519010 AAATTACATGCAGATA
1 AAATTACATGCAGATA
519026 CTTTCCGCAG
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 33 0.65
22 18 0.35
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (21 bp):
AAATTACATGCAGATAATTTT
Found at i:523240 original size:7 final size:7
Alignment explanation
Indices: 523228--523257 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
523218 AAGCAACAAC
523228 CAAAAAA
1 CAAAAAA
523235 CAAAAAA
1 CAAAAAA
523242 C-AAAAA
1 CAAAAAA
523248 CAAAAAA
1 CAAAAAA
523255 CAA
1 CAA
523258 GACAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (7 bp):
CAAAAAA
Found at i:523248 original size:13 final size:13
Alignment explanation
Indices: 523230--523257 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
523220 GCAACAACCA
523230 AAAAACAAAAAAC
1 AAAAACAAAAAAC
523243 AAAAACAAAAAAC
1 AAAAACAAAAAAC
523256 AA
1 AA
523258 GACAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAC
Found at i:534522 original size:19 final size:19
Alignment explanation
Indices: 534500--534536 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
534490 ATAGTTTAAA
*
534500 TATAATGTATCAATTATAG
1 TATAATGTATAAATTATAG
*
534519 TATAATTTATAAATTATA
1 TATAATGTATAAATTATA
534537 TACCATTCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (19 bp):
TATAATGTATAAATTATAG
Found at i:537560 original size:2 final size:2
Alignment explanation
Indices: 537553--537597 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
537543 CAAACCGTGG
537553 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
537595 CT C
1 CT C
537598 AAAGTTTTCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:542177 original size:18 final size:19
Alignment explanation
Indices: 542125--542183 Score: 102
Period size: 19 Copynumber: 3.2 Consensus size: 19
542115 TATCATCATG
542125 TTACGAGAGCCCCTTTGGT
1 TTACGAGAGCCCCTTTGGT
542144 TTACGAGAGCCCCTTTGGT
1 TTACGAGAGCCCCTTTGGT
*
542163 TTACAAGAG-CCCTTTGGT
1 TTACGAGAGCCCCTTTGGT
542181 TTA
1 TTA
542184 TAATAGTCCC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
18 12 0.31
19 27 0.69
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.34
Consensus pattern (19 bp):
TTACGAGAGCCCCTTTGGT
Found at i:558869 original size:15 final size:15
Alignment explanation
Indices: 558849--558877 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
558839 CACAATGATA
558849 ATGTTATGTAATGAG
1 ATGTTATGTAATGAG
558864 ATGTTATGTAATGA
1 ATGTTATGTAATGA
558878 TAATGTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.41
Consensus pattern (15 bp):
ATGTTATGTAATGAG
Found at i:560049 original size:19 final size:18
Alignment explanation
Indices: 560016--560061 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
560006 AACCTACTTG
*
560016 TAAACAAAAAGGTATATA
1 TAAACAAAAACGTATATA
560034 TAAACACAAAACGTATATGA
1 TAAACA-AAAACGTATAT-A
560054 -AAACAAAA
1 TAAACAAAA
560062 CAATAAGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 9 0.36
19 15 0.60
20 1 0.04
ACGTcount: A:0.63, C:0.11, G:0.09, T:0.17
Consensus pattern (18 bp):
TAAACAAAAACGTATATA
Found at i:560059 original size:17 final size:17
Alignment explanation
Indices: 560030--560062 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
560020 CAAAAAGGTA
560030 TATATAAACACAAAACG
1 TATATAAACACAAAACG
560047 TATATGAAA-ACAAAAC
1 TATAT-AAACACAAAAC
560063 AATAAGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.61, C:0.15, G:0.06, T:0.18
Consensus pattern (17 bp):
TATATAAACACAAAACG
Found at i:560362 original size:46 final size:46
Alignment explanation
Indices: 560295--560387 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
560285 AAACATGTGA
*
560295 TATTTCCTACGTAAATATTCCGCCAAAAATATAGTCCTTGTTAGAT
1 TATTTCCTACGCAAATATTCCGCCAAAAATATAGTCCTTGTTAGAT
560341 TATTTCCTACGCAAATATTCCGCCAAAAATATAGTCCTTGTTAGAT
1 TATTTCCTACGCAAATATTCCGCCAAAAATATAGTCCTTGTTAGAT
560387 T
1 T
560388 TTAAACATTG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (46 bp):
TATTTCCTACGCAAATATTCCGCCAAAAATATAGTCCTTGTTAGAT
Done.