Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold1583
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: 1104062
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.27
Warning! 201198 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:1656 original size:4 final size:4
Alignment explanation
Indices: 1647--1714 Score: 104
Period size: 4 Copynumber: 17.5 Consensus size: 4
1637 TTTCGTGAGA
*
1647 ACGG ACGG ACGG ACGG ACGG ACGG ACAG ACGG ACGG ACGG AC-G ACGG
1 ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG
*
1694 ACGG ACAG ACGG AC-G ACGG AC
1 ACGG ACGG ACGG ACGG ACGG AC
1715 AAAATGTGAT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
3 6 0.10
4 52 0.90
ACGTcount: A:0.29, C:0.26, G:0.44, T:0.00
Consensus pattern (4 bp):
ACGG
Found at i:5834 original size:44 final size:44
Alignment explanation
Indices: 5779--5863 Score: 145
Period size: 44 Copynumber: 1.9 Consensus size: 44
5769 CCAACAGATA
*
5779 AAAAATACAAATAAGAGTTTAAA-TATATAGTGATAATATTTTAC
1 AAAAATACAAATAAGAG-TAAAAGTATATAGTGATAATATTTTAC
5823 AAAAATACAAATAAGAGTAAAAGTATATAGTGATAATATTT
1 AAAAATACAAATAAGAGTAAAAGTATATAGTGATAATATTT
5864 GACAGTTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
43 4 0.10
44 35 0.90
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.32
Consensus pattern (44 bp):
AAAAATACAAATAAGAGTAAAAGTATATAGTGATAATATTTTAC
Found at i:6040 original size:21 final size:21
Alignment explanation
Indices: 6014--6054 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
6004 GAAAATAATA
6014 AAATTATGGAAAAGTATCATC
1 AAATTATGGAAAAGTATCATC
6035 AAATTATGGAAAAGTATCAT
1 AAATTATGGAAAAGTATCAT
6055 TGATCAGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.29
Consensus pattern (21 bp):
AAATTATGGAAAAGTATCATC
Found at i:28280 original size:21 final size:22
Alignment explanation
Indices: 28218--28313 Score: 76
Period size: 21 Copynumber: 4.5 Consensus size: 22
28208 ACTTTTGTGA
* * * *
28218 ATAAATGCGTAACTTTCACGAT
1 ATAACTGCGAAACTTTCGCAAT
*
28240 ATAAC-GCAAAACATTT-GCAAT
1 ATAACTGCGAAAC-TTTCGCAAT
**
28261 ATAACT-CGTTACTTTCGCAA-
1 ATAACTGCGAAACTTTCGCAAT
*
28281 ATAAATGCGAAACTTTCGCAAT
1 ATAACTGCGAAACTTTCGCAAT
28303 ATAAC-GCGAAA
1 ATAACTGCGAAA
28314 TCATTATTTA
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
20 8 0.14
21 38 0.67
22 11 0.19
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (22 bp):
ATAACTGCGAAACTTTCGCAAT
Found at i:30677 original size:2 final size:2
Alignment explanation
Indices: 30670--30702 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
30660 CACATAAAAT
*
30670 GA GA GA GA GA GA GA GA AA 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 G
30703 CGCTCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:31187 original size:18 final size:18
Alignment explanation
Indices: 31132--31188 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
31122 ATTTGATCAC
*
31132 ATAATACAATATCATAAAAT
1 ATAATACAATATCAT--ATT
31152 ATAATACAATAT-AGTATT
1 ATAATACAATATCA-TATT
*
31170 ATATTACAATATCATATT
1 ATAATACAATATCATATT
31188 A
1 A
31189 CATAATACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 18 0.55
19 2 0.06
20 13 0.39
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.37
Consensus pattern (18 bp):
ATAATACAATATCATATT
Found at i:31384 original size:15 final size:15
Alignment explanation
Indices: 31364--31393 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31354 TAAAGCAAAA
31364 TATTATATAATACAT
1 TATTATATAATACAT
*
31379 TATTATATTATACAT
1 TATTATATAATACAT
31394 ATTGTATCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTATATAATACAT
Found at i:31435 original size:15 final size:16
Alignment explanation
Indices: 31398--31552 Score: 67
Period size: 15 Copynumber: 9.8 Consensus size: 16
31388 ATACATATTG
*
31398 TATCATATGA-CACAA
1 TATCATATGATAACAA
31413 TAAT-ATAT-ATAACAA
1 T-ATCATATGATAACAA
*
31428 TATCATATAAT-ACAA
1 TATCATATGATAACAA
* * *
31443 TTTCATGTGATAAGATAA
1 TATCATATGAT-A-ACAA
31461 TAT-ATCAT-ATAAACCAA
1 TATCAT-ATGAT-AA-CAA
*
31478 TATCATATCAT-ACAA
1 TATCATATGATAACAA
*
31493 TATCGTATGAT-ACAA
1 TATCATATGATAACAA
* *
31508 TATTATATAATATTACAA
1 TATCATATGATA--ACAA
*
31526 TATCATATAAT-ACAA
1 TATCATATGATAACAA
* *
31541 TTTCATGTGATA
1 TATCATATGATA
31553 TAATTCTATA
Statistics
Matches: 108, Mismatches: 17, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
14 3 0.03
15 62 0.57
16 6 0.06
17 13 0.12
18 24 0.22
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (16 bp):
TATCATATGATAACAA
Found at i:31479 original size:50 final size:49
Alignment explanation
Indices: 31415--31591 Score: 177
Period size: 50 Copynumber: 3.6 Consensus size: 49
31405 TGACACAATA
31415 ATATATAT-AA-CAATATCATATAATACAATTTCATGTGATA-AGATAAT
1 ATATATATAAACCAATATCATATAATACAATTTCATGTGATACA-ATAAT
* * * * *
31462 ATATCATATAAACCAATATCATATCATACAATATCGTATGATACAATATT
1 ATAT-ATATAAACCAATATCATATAATACAATTTCATGTGATACAATAAT
* * **
31512 ATATA-ATATTA-CAATATCATATAATACAATTTCATGTGATATAATTCT
1 ATATATATA-AACCAATATCATATAATACAATTTCATGTGATACAATAAT
*
31560 ATAT-TACTGAAACCAATATCATATTATACAAT
1 ATATATA-T-AAACCAATATCATATAATACAAT
31592 ATTGTATGAT
Statistics
Matches: 106, Mismatches: 15, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
47 4 0.04
48 42 0.40
49 6 0.06
50 53 0.50
51 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (49 bp):
ATATATATAAACCAATATCATATAATACAATTTCATGTGATACAATAAT
Found at i:31526 original size:18 final size:18
Alignment explanation
Indices: 31503--31537 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31493 TATCGTATGA
*
31503 TACAATATTATATAATAT
1 TACAATATCATATAATAT
31521 TACAATATCATATAATA
1 TACAATATCATATAATA
31538 CAATTTCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (18 bp):
TACAATATCATATAATAT
Found at i:31542 original size:98 final size:98
Alignment explanation
Indices: 31398--31625 Score: 308
Period size: 98 Copynumber: 2.4 Consensus size: 98
31388 ATACATATTG
* * *
31398 TATCATATGACACAATA--ATAT-ATATAACAATATCATATAATACAATTTCATGTGATA-AGAT
1 TATCGTATGATACAATATTATATAATATTACAATATCATATAATACAATTTCATGTGATATA-AT
31459 AATATATCATA-T-AAACCAATATCATATCATACAA
65 AATATAT--TACTGAAACCAATATCATATCATACAA
*
31493 TATCGTATGATACAATATTATATAATATTACAATATCATATAATACAATTTCATGTGATATAATT
1 TATCGTATGATACAATATTATATAATATTACAATATCATATAATACAATTTCATGTGATATAATA
* *
31558 CTATATTACTGAAACCAATATCATATTATACAA
66 ATATATTACTGAAACCAATATCATATCATACAA
* *
31591 TATTGTATGATACAATATTATAGAATA-TACAATAT
1 TATCGTATGATACAATATTATATAATATTACAATAT
31626 TGTATCATAG
Statistics
Matches: 119, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
95 15 0.13
96 2 0.02
97 13 0.11
98 88 0.74
99 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.36
Consensus pattern (98 bp):
TATCGTATGATACAATATTATATAATATTACAATATCATATAATACAATTTCATGTGATATAATA
ATATATTACTGAAACCAATATCATATCATACAA
Found at i:31591 original size:15 final size:15
Alignment explanation
Indices: 31462--31608 Score: 73
Period size: 15 Copynumber: 9.3 Consensus size: 15
31452 ATAAGATAAT
*
31462 ATATCATA-TAAACCA
1 ATATCATATTATA-CA
*
31477 ATATCATATCATACA
1 ATATCATATTATACA
* *
31492 ATATCGTATGATACA
1 ATATCATATTATACA
*
31507 ATATTATATAATATTACA
1 ATATCATAT--TA-TACA
*
31525 ATATCATATAATACA
1 ATATCATATTATACA
* * * *
31540 ATTTCATGTGATATA
1 ATATCATATTATACA
31555 AT-TCTATATTACTGAAACCA
1 ATATC-ATATTA-T---A-CA
31575 ATATCATATTATACA
1 ATATCATATTATACA
** *
31590 ATATTGTATGATACA
1 ATATCATATTATACA
31605 ATAT
1 ATAT
31609 TATAGAATAT
Statistics
Matches: 102, Mismatches: 19, Indels: 22
0.71 0.13 0.15
Matches are distributed among these distances:
14 2 0.02
15 69 0.68
16 5 0.05
17 1 0.01
18 12 0.12
19 2 0.02
20 9 0.09
21 2 0.02
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (15 bp):
ATATCATATTATACA
Found at i:31650 original size:32 final size:32
Alignment explanation
Indices: 31584--31650 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
31574 AATATCATAT
* **
31584 TATACAATATTGTATGATACAATATTATAGAA
1 TATACAATATTGTATCATACAATACAATAGAA
** *
31616 TATACAATATTGTATCATAGGATACAATATAA
1 TATACAATATTGTATCATACAATACAATAGAA
31648 TAT
1 TAT
31651 TTTGCAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.37
Consensus pattern (32 bp):
TATACAATATTGTATCATACAATACAATAGAA
Found at i:31874 original size:20 final size:20
Alignment explanation
Indices: 31851--31903 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
31841 ATATGATATC
31851 ATATTGTATCATATCAAACA
1 ATATTGTATCATATCAAACA
* *
31871 ATATTGTTTCATATCATACA
1 ATATTGTATCATATCAAACA
* *
31891 ATACTATATCATA
1 ATATTGTATCATA
31904 GGAATCATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.40
Consensus pattern (20 bp):
ATATTGTATCATATCAAACA
Found at i:38406 original size:21 final size:21
Alignment explanation
Indices: 38382--38427 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
38372 TTACTTGCAA
38382 AAGTGTGGCGTTATATCACGT
1 AAGTGTGGCGTTATATCACGT
* *
38403 AAGTTTGGGGTTATATCACGT
1 AAGTGTGGCGTTATATCACGT
38424 AAGT
1 AAGT
38428 TTCACGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (21 bp):
AAGTGTGGCGTTATATCACGT
Found at i:38531 original size:21 final size:21
Alignment explanation
Indices: 38424--38502 Score: 113
Period size: 21 Copynumber: 3.8 Consensus size: 21
38414 TATATCACGT
38424 AAGTTTCACGTTTATTCATGA
1 AAGTTTCACGTTTATTCATGA
** *
38445 AAGTAACGCGTTTATTCATGA
1 AAGTTTCACGTTTATTCATGA
*
38466 AAGTTTCACGTTTATTTATGA
1 AAGTTTCACGTTTATTCATGA
*
38487 AAGTTTCACATTTATT
1 AAGTTTCACGTTTATT
38503 TGCAAAAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.43
Consensus pattern (21 bp):
AAGTTTCACGTTTATTCATGA
Found at i:40121 original size:12 final size:12
Alignment explanation
Indices: 40104--40167 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
40094 AACTGAAGTG
*
40104 GGACAGATAGAT
1 GGACAGACAGAT
40116 GGACAGACAGAT
1 GGACAGACAGAT
* *
40128 GGACGGACAGAC
1 GGACAGACAGAT
* * *
40140 GGACGGACGGAC
1 GGACAGACAGAT
* *
40152 GGACGGACTGAT
1 GGACAGACAGAT
40164 GGAC
1 GGAC
40168 GCAGAGCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.33, C:0.19, G:0.41, T:0.08
Consensus pattern (12 bp):
GGACAGACAGAT
Found at i:40126 original size:16 final size:16
Alignment explanation
Indices: 40105--40139 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
40095 ACTGAAGTGG
*
40105 GACAGATAGATGGACA
1 GACAGATAGACGGACA
*
40121 GACAGATGGACGGACA
1 GACAGATAGACGGACA
40137 GAC
1 GAC
40140 GGACGGACGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.34, T:0.09
Consensus pattern (16 bp):
GACAGATAGACGGACA
Found at i:40135 original size:4 final size:4
Alignment explanation
Indices: 40128--40159 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
40118 ACAGACAGAT
*
40128 GGAC GGAC AGAC GGAC GGAC GGAC GGAC GGAC
1 GGAC GGAC GGAC GGAC GGAC GGAC GGAC GGAC
40160 TGATGGACGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.47, T:0.00
Consensus pattern (4 bp):
GGAC
Found at i:40168 original size:12 final size:12
Alignment explanation
Indices: 40112--40168 Score: 69
Period size: 12 Copynumber: 4.8 Consensus size: 12
40102 TGGGACAGAT
*
40112 AGATGGACAGAC
1 AGATGGACGGAC
40124 AGATGGACGGAC
1 AGATGGACGGAC
*
40136 AGACGGACGGAC
1 AGATGGACGGAC
* *
40148 GGACGGACGGAC
1 AGATGGACGGAC
*
40160 TGATGGACG
1 AGATGGACG
40169 CAGAGCAAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.32, C:0.19, G:0.42, T:0.07
Consensus pattern (12 bp):
AGATGGACGGAC
Found at i:48123 original size:160 final size:160
Alignment explanation
Indices: 47858--48146 Score: 389
Period size: 160 Copynumber: 1.8 Consensus size: 160
47848 GAGTTTCTGT
* * *
47858 TCATTTTCTTTGCAGAGGATTAACAAATTGAAATGAAATTTCGTATATAGGTTAATCATAATAAT
1 TCATTTTCTTTGCAAAGGATGAACAAATTGAAATGAAATTTCGTATACAGGTTAATCATAATAAT
* * * * *
47923 ATCTAGATCAAGTTTAATATTGGGTACGATCGAACAATTTTCGACCGAGTTATGCCCCTTGGACG
66 ATCTAGATCAAATTTAATATTAGATACGATCGAACAATTTTAGACAGAGTTATGCCCCTTGGACG
47988 ATAAAAATTCCAATTATTTGCAGTTTCCGC
131 ATAAAAATTCCAATTATTTGCAGTTTCCGC
* * * *
48018 TCATTTTCTTTGCAAAGGATGAACATATTGAAATGAAATTTGGTATACAGGTTTATCATGATAAT
1 TCATTTTCTTTGCAAAGGATGAACAAATTGAAATGAAATTTCGTATACAGGTTAATCATAATAAT
* * * * * * * * *
48083 ATGTAGGTCAAATTTGATATTATATATGATTGAGCAATTTTATACAGAGTTATGCCCTTTGGAC
66 ATCTAGATCAAATTTAATATTAGATACGATCGAACAATTTTAGACAGAGTTATGCCCCTTGGAC
48147 TTAGAAAAAT
Statistics
Matches: 108, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
160 108 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (160 bp):
TCATTTTCTTTGCAAAGGATGAACAAATTGAAATGAAATTTCGTATACAGGTTAATCATAATAAT
ATCTAGATCAAATTTAATATTAGATACGATCGAACAATTTTAGACAGAGTTATGCCCCTTGGACG
ATAAAAATTCCAATTATTTGCAGTTTCCGC
Found at i:55805 original size:19 final size:19
Alignment explanation
Indices: 55758--55797 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
55748 TTTCAGATGC
* *
55758 TGGAGGAGGTTAAGGTTTT
1 TGGAGCAGGTTAAAGTTTT
55777 TGGAGCAGGTTAAAGTTTT
1 TGGAGCAGGTTAAAGTTTT
55796 TG
1 TG
55798 TTGCAGGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.03, G:0.38, T:0.38
Consensus pattern (19 bp):
TGGAGCAGGTTAAAGTTTT
Found at i:56043 original size:176 final size:177
Alignment explanation
Indices: 55748--56306 Score: 728
Period size: 177 Copynumber: 3.2 Consensus size: 177
55738 GGGTCCTAAA
* ** * *
55748 TTTCAGATGCTGGAGGAGGTTAAGGTTTTTGGAGCAGGTTAAAGTTTTTGTTGCAGGTGCCCTTT
1 TTTCGGATGCTGGAGGAGGTTAAGGTTTTAAGAGCTGGTTAAAGTTTTTGTTGCAGGTGCCCTCT
* * * *
55813 GAT-AGCAATATCTAAGTTACTCTTGGTCCTAACTTCACCAAACTTGCATGGATGGTGTGTCTTA
66 GATGA-TAATATCTTAGTTACTCCTGGTCCTAACTTCACCAAACTTGCATGGATGGTGCGTCTTA
* * *
55877 TGATACTGATGCACCAGACAGGCTTGAGTGCTGAATCTGAGCTATAGG
130 TGATACTGATGCACCTGACAGGCTTGAATGCTGAATCTGAGCCATAGG
* *
55925 TTTCGGATGTTGGAGGTGGTTAAGGTTTTAAGAGCTGGTTAAAG-TTTTGTTGCAGGTGCCCTCT
1 TTTCGGATGCTGGAGGAGGTTAAGGTTTTAAGAGCTGGTTAAAGTTTTTGTTGCAGGTGCCCTCT
* * * * **
55989 AATGATAATATCTTAGCTACTCCTGGTCCAAACTTCATCAAACTTGTGTGGATGGTGCGTCTTAT
66 GATGATAATATCTTAGTTACTCCTGGTCCTAACTTCACCAAACTTGCATGGATGGTGCGTCTTAT
*
56054 TATACTGATGCACCTGA-ACGGCTTGAATGCTGAATCTGAGCCATAGG
131 GATACTGATGCACCTGACA-GGCTTGAATGCTGAATCTGAGCCATAGG
***
56101 TTTCGGATGCTGGAGGAGGTTAAGGTTTTAAGAGCTGGTTAAAGTTTTTGAAACAGGTGCCCTCT
1 TTTCGGATGCTGGAGGAGGTTAAGGTTTTAAGAGCTGGTTAAAGTTTTTGTTGCAGGTGCCCTCT
* * * * * * * * *
56166 GATGATGATATCTTAGTTATTACTTGTTCTAACTTCACCAGACTTCCATGGATTGTGCGTTTTAT
66 GATGATAATATCTTAGTTACTCCTGGTCCTAACTTCACCAAACTTGCATGGATGGTGCGTCTTAT
* * *
56231 GATACTGATGCACCTGGCAGGCCTGAATGCTGAGTCTGAGCCATAGG
131 GATACTGATGCACCTGACAGGCTTGAATGCTGAATCTGAGCCATAGG
** *
56278 TTTCGGATGCTGGATAAGGTTAAGTTTTT
1 TTTCGGATGCTGGAGGAGGTTAAGGTTTT
56307 TTTAACAGGT
Statistics
Matches: 330, Mismatches: 48, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
175 1 0.00
176 155 0.47
177 173 0.52
178 1 0.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.34
Consensus pattern (177 bp):
TTTCGGATGCTGGAGGAGGTTAAGGTTTTAAGAGCTGGTTAAAGTTTTTGTTGCAGGTGCCCTCT
GATGATAATATCTTAGTTACTCCTGGTCCTAACTTCACCAAACTTGCATGGATGGTGCGTCTTAT
GATACTGATGCACCTGACAGGCTTGAATGCTGAATCTGAGCCATAGG
Found at i:57136 original size:15 final size:15
Alignment explanation
Indices: 57102--57151 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
57092 ACAATAGTAT
*
57102 ATATTGTATC-TATA
1 ATATTGTATCATATG
57116 ATATTGTATCATATG
1 ATATTGTATCATATG
*
57131 ATATTGTATAATATG
1 ATATTGTATCATATG
57146 ATATTG
1 ATATTG
57152 GTTTCTGTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
14 10 0.30
15 23 0.70
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGTATCATATG
Found at i:57248 original size:33 final size:33
Alignment explanation
Indices: 57186--57248 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
57176 ATGTGAAATT
* *
57186 GTATTATATGATATTGTAATATCATATATTATC
1 GTATGATATGATATTGTAATAACATATATTATC
57219 GTATGATATGATATTGT-ATAACATGATATT
1 GTATGATATGATATTGTAATAACAT-ATATT
57249 GGTTTATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 6 0.22
33 21 0.78
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.46
Consensus pattern (33 bp):
GTATGATATGATATTGTAATAACATATATTATC
Found at i:57307 original size:15 final size:15
Alignment explanation
Indices: 57183--57317 Score: 56
Period size: 15 Copynumber: 8.2 Consensus size: 15
57173 ATTATGTGAA
* *
57183 ATTGTATTATATGAT
1 ATTGTATAATATAAT
*
57198 ATTGTAATATCATATATT
1 ATTGT-ATA--ATATAAT
* * *
57216 ATCGTATGATATGAT
1 ATTGTATAATATAAT
* *
57231 ATTGTATAACATGAT
1 ATTGTATAATATAAT
*
57246 ATTGGTTTATATGATATAT
1 ATT-GTATA-AT-ATA-AT
57265 CATTGTATCATATGATACA-
1 -ATTGTAT-A-AT-ATA-AT
57284 ATATGTATAATATAAT
1 AT-TGTATAATATAAT
*
57300 ATTGTATAATACAAT
1 ATTGTATAATATAAT
57315 ATT
1 ATT
57318 TTACCTATCA
Statistics
Matches: 93, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
15 41 0.44
16 11 0.12
17 5 0.05
18 14 0.15
19 10 0.11
20 12 0.13
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (15 bp):
ATTGTATAATATAAT
Found at i:65657 original size:36 final size:36
Alignment explanation
Indices: 65608--66023 Score: 427
Period size: 36 Copynumber: 11.2 Consensus size: 36
65598 CACCATCAGG
65608 AACATCAACGACAACTCTCCCATATTTAATCAGGTA
1 AACATCAACGACAACTCTCCCATATTTAATCAGGTA
* * *
65644 AACATCAATGACAACTCTCCTATTTTTAATCACTGACAGGTA
1 AACATCAACGACAACTCTCCCATATTT-A--A-T--CAGGTA
* * *
65686 ATCATCAACGACAACTCTTCTATATTTAATCAGGTA
1 AACATCAACGACAACTCTCCCATATTTAATCAGGTA
* * ** *
65722 AAAATCAATGACAACTCTCCTGTGTTTAATCAGGTA
1 AACATCAACGACAACTCTCCCATATTTAATCAGGTA
*
65758 ATCATCAACGACAACTCTCCCATATTTAATCAGGTA
1 AACATCAACGACAACTCTCCCATATTTAATCAGGTA
* * *
65794 AACATCAATGACAACTCTCCTATTTTTAATCACTGACAGGTA
1 AACATCAACGACAACTCTCCCATATTT-A--A-T--CAGGTA
* **
65836 ATCATCAACGACAACTCTCCCATATTTAATCTTGTA
1 AACATCAACGACAACTCTCCCATATTTAATCAGGTA
* * * *
65872 AAAATCAATGACAACTCTCCTATATTTGATCAGGTA
1 AACATCAACGACAACTCTCCCATATTTAATCAGGTA
* *
65908 AACATCAACAACAATTCTCCCATATTTAATCAGGTA
1 AACATCAACGACAACTCTCCCATATTTAATCAGGTA
* * * *
65944 AACATCAACAACGACTCGCCCATATTTAATTAGGTA
1 AACATCAACGACAACTCTCCCATATTTAATCAGGTA
* * * * *
65980 AACATCAACAACGACTCGCCCATATTCAATTAGGTA
1 AACATCAACGACAACTCTCCCATATTTAATCAGGTA
66016 AACATCAA
1 AACATCAA
66024 TCTAGCTAAA
Statistics
Matches: 321, Mismatches: 47, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
36 251 0.78
37 2 0.01
38 2 0.01
39 4 0.01
40 2 0.01
41 2 0.01
42 58 0.18
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.29
Consensus pattern (36 bp):
AACATCAACGACAACTCTCCCATATTTAATCAGGTA
Found at i:65801 original size:72 final size:72
Alignment explanation
Indices: 65602--66024 Score: 490
Period size: 72 Copynumber: 5.7 Consensus size: 72
65592 GTATGTCACC
65602 ATCAGG-AA-CATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCT
1 ATCAGGTAATCATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCT
*
65665 ATTTTTAA
66 ATATTT-A
* * *
65673 TCACTGACAGGTAATCATCAACGACAACTCTTCTATATTTAATCAGGTAAAAATCAATGACAACT
1 --A-T--CAGGTAATCATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACT
* *
65738 CTCCTGTGTTTA
61 CTCCTATATTTA
65750 ATCAGGTAATCATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCT
1 ATCAGGTAATCATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCT
*
65815 ATTTTTAA
66 ATATTT-A
** *
65823 TCACTGACAGGTAATCATCAACGACAACTCTCCCATATTTAATCTTGTAAAAATCAATGACAACT
1 --A-T--CAGGTAATCATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACT
*
65888 CTCCTATATTTG
61 CTCCTATATTTA
* * * ** * * *
65900 ATCAGGTAAACATCAACAACAATTCTCCCATATTTAATCAGGTAAACATCAACAACGACTCGCCC
1 ATCAGGTAATCATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCT
65965 ATATTTA
66 ATATTTA
* * * * * * *
65972 ATTAGGTAAACATCAACAACGACTCGCCCATATTCAATTAGGTAAACATCAAT
1 ATCAGGTAATCATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAAT
66025 CTAGCTAAAA
Statistics
Matches: 305, Mismatches: 34, Indels: 23
0.84 0.09 0.06
Matches are distributed among these distances:
72 168 0.55
73 2 0.01
74 3 0.01
75 3 0.01
76 5 0.02
77 3 0.01
78 121 0.40
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (72 bp):
ATCAGGTAATCATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCT
ATATTTA
Found at i:65834 original size:114 final size:111
Alignment explanation
Indices: 65611--66023 Score: 406
Period size: 114 Copynumber: 3.7 Consensus size: 111
65601 CATCAGGAAC
*
65611 ATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCTATTTTTAATCA
1 ATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCTATATTT-A--A
* *
65676 CTGACAGGTAATCATCAACGACAACTCTTCTATATTT-A--ATCAGGTAAAA
63 -T--CAGGTAAACATCAACGACAACTCTCCTATATTTAATCATCAGGTAAAA
* ** * * * *
65725 ATCAATGACAACTCTCCTGTGTTTAATCAGGTAATCATCAACGACAACTCTCCCATATTTAATCA
1 ATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCTATATTTAATCA
* * **
65790 GGTAAACATCAATGACAACTCTCCTATTTTTAATCACTGACAGGTAATC
66 GGTAAACATCAACGACAACTCTCCTATATTTAATCA-T--CAGGTAAAA
** * *
65839 ATCAACGACAACTCTCCCATATTTAATCTTGTAAAAATCAATGACAACTCTCCTATATTTGATCA
1 ATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCTATATTTAATCA
* * * *
65904 GGTAAACATCAACAACAATTCTCCCATATTT-A--ATCAGGTAAAC
66 GGTAAACATCAACGACAACTCTCCTATATTTAATCATCAGGTAAAA
* * * * ** * * * * *
65947 ATCAACAACGACTCGCCCATATTTAATTAGGTAAACATCAACAACGACTCGCCCATATTCAATTA
1 ATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCTATATTTAATCA
66012 GGTAAACATCAA
66 GGTAAACATCAA
66024 TCTAGCTAAA
Statistics
Matches: 247, Mismatches: 46, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
108 99 0.40
109 1 0.00
110 2 0.01
111 3 0.01
112 1 0.00
113 2 0.01
114 139 0.56
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (111 bp):
ATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCTATATTTAATCA
GGTAAACATCAACGACAACTCTCCTATATTTAATCATCAGGTAAAA
Found at i:65973 original size:150 final size:150
Alignment explanation
Indices: 65608--65951 Score: 598
Period size: 150 Copynumber: 2.3 Consensus size: 150
65598 CACCATCAGG
65608 AACATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCTATTTTTAA
1 AACATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCTATTTTTAA
* *
65673 TCACTGACAGGTAATCATCAACGACAACTCTTCTATATTTAATCAGGTAAAAATCAATGACAACT
66 TCACTGACAGGTAATCATCAACGACAACTCTCCCATATTTAATCAGGTAAAAATCAATGACAACT
* *
65738 CTCCTGTGTTTAATCAGGTA
131 CTCCTATATTTAATCAGGTA
*
65758 ATCATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCTATTTTTAA
1 AACATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCTATTTTTAA
**
65823 TCACTGACAGGTAATCATCAACGACAACTCTCCCATATTTAATCTTGTAAAAATCAATGACAACT
66 TCACTGACAGGTAATCATCAACGACAACTCTCCCATATTTAATCAGGTAAAAATCAATGACAACT
*
65888 CTCCTATATTTGATCAGGTA
131 CTCCTATATTTAATCAGGTA
* *
65908 AACATCAACAACAATTCTCCCATATTTAATCAGGTAAACATCAA
1 AACATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAA
65952 CAACGACTCG
Statistics
Matches: 183, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
150 183 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.30
Consensus pattern (150 bp):
AACATCAACGACAACTCTCCCATATTTAATCAGGTAAACATCAATGACAACTCTCCTATTTTTAA
TCACTGACAGGTAATCATCAACGACAACTCTCCCATATTTAATCAGGTAAAAATCAATGACAACT
CTCCTATATTTAATCAGGTA
Found at i:67239 original size:21 final size:21
Alignment explanation
Indices: 67210--67297 Score: 97
Period size: 21 Copynumber: 4.2 Consensus size: 21
67200 TCAGGAGACC
67210 CTGACAGTGAGTAGACTGAGA
1 CTGACAGTGAGTAGACTGAGA
* *
67231 CTGAGAGTGAGTAGACCGAGA
1 CTGACAGTGAGTAGACTGAGA
* * *
67252 CTGACAGTGACTAAACTCAGA
1 CTGACAGTGAGTAGACTGAGA
* *
67273 CTGATAGTGAGT-GACCTTAGA
1 CTGACAGTGAGTAGA-CTGAGA
67294 CTGA
1 CTGA
67298 TTAAACTAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 1 0.02
21 54 0.98
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (21 bp):
CTGACAGTGAGTAGACTGAGA
Found at i:67260 original size:42 final size:42
Alignment explanation
Indices: 67210--67297 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
67200 TCAGGAGACC
* * *
67210 CTGACAGTGAGTAGACTGAGACTGAGAGTGAGTAGACC-GAGA
1 CTGACAGTGACTAAACTCAGACTGAGAGTGAGT-GACCTGAGA
* *
67252 CTGACAGTGACTAAACTCAGACTGATAGTGAGTGACCTTAGA
1 CTGACAGTGACTAAACTCAGACTGAGAGTGAGTGACCTGAGA
67294 CTGA
1 CTGA
67298 TTAAACTAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 4 0.10
42 36 0.90
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (42 bp):
CTGACAGTGACTAAACTCAGACTGAGAGTGAGTGACCTGAGA
Found at i:67325 original size:21 final size:21
Alignment explanation
Indices: 67299--67424 Score: 70
Period size: 21 Copynumber: 6.3 Consensus size: 21
67289 TTAGACTGAT
67299 TAAACTAAGATTGACAGTGAC
1 TAAACTAAGATTGACAGTGAC
* * * *
67320 TAAACTCAGACTAACAGTGAG
1 TAAACTAAGATTGACAGTGAC
* * * *
67341 TAAAATCAGACTTG-CAATGAG
1 TAAACTAAGA-TTGACAGTGAC
* * *
67362 TAAAC-ACAGACTGATAGTGAG
1 TAAACTA-AGATTGACAGTGAC
*
67383 TAAACT--CA--GAC--TGAC
1 TAAACTAAGATTGACAGTGAC
67398 TAAACTAAGATTGACAGTGAC
1 TAAACTAAGATTGACAGTGAC
67419 TAAACT
1 TAAACT
67425 CAGTTTGAGT
Statistics
Matches: 78, Mismatches: 17, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
15 9 0.12
17 3 0.04
19 4 0.05
20 2 0.03
21 59 0.76
22 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (21 bp):
TAAACTAAGATTGACAGTGAC
Found at i:67417 original size:36 final size:36
Alignment explanation
Indices: 67316--67536 Score: 158
Period size: 36 Copynumber: 6.0 Consensus size: 36
67306 AGATTGACAG
* * *
67316 TGACTAAACTCAGACTAACAGTGAGTAAAATCAGACTTGC
1 TGACTAAACTCAGATTGACAGTGAGTAAACTCAGA----C
* * * *
67356 AATGAGTAAACACAGACTGATAGTGAGTAAACTCAGAC
1 --TGACTAAACTCAGATTGACAGTGAGTAAACTCAGAC
* * **
67394 TGACTAAACTAAGATTGACAGTGACTAAACTCAGTT
1 TGACTAAACTCAGATTGACAGTGAGTAAACTCAGAC
* * * * *
67430 TGAGTAAACCCAGACTGACAGTGATTAAACTCATAC
1 TGACTAAACTCAGATTGACAGTGAGTAAACTCAGAC
* * * * *
67466 TGACTAAAATGAGATTGAGAGTAATTAAACTCAGAC
1 TGACTAAACTCAGATTGACAGTGAGTAAACTCAGAC
*
67502 TGAGTAAA-TCCAG-TCTGACAGTGAGTAAACTCAGA
1 TGACTAAACT-CAGAT-TGACAGTGAGTAAACTCAGA
67537 TGCTAGTCCT
Statistics
Matches: 143, Mismatches: 34, Indels: 10
0.76 0.18 0.05
Matches are distributed among these distances:
35 2 0.01
36 110 0.77
38 1 0.01
42 30 0.21
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (36 bp):
TGACTAAACTCAGATTGACAGTGAGTAAACTCAGAC
Found at i:67453 original size:72 final size:72
Alignment explanation
Indices: 67358--67536 Score: 241
Period size: 72 Copynumber: 2.5 Consensus size: 72
67348 AGACTTGCAA
* * * *
67358 TGAGTAAACACAGACTGATAGTGAGTAAACTCAGACTGACTAAACTAAGATTGACAGTGACTAAA
1 TGAGTAAACCCAGACTGACAGTGAGTAAACTCAGACTGACTAAAATAAGATTGACAGTAACTAAA
**
67423 CTCAGTT
66 CTCAGAC
* * * * *
67430 TGAGTAAACCCAGACTGACAGTGATTAAACTCATACTGACTAAAATGAGATTGAGAGTAATTAAA
1 TGAGTAAACCCAGACTGACAGTGAGTAAACTCAGACTGACTAAAATAAGATTGACAGTAACTAAA
67495 CTCAGAC
66 CTCAGAC
* *
67502 TGAGTAAATCCAGTCTGACAGTGAGTAAACTCAGA
1 TGAGTAAACCCAGACTGACAGTGAGTAAACTCAGA
67537 TGCTAGTCCT
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 92 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (72 bp):
TGAGTAAACCCAGACTGACAGTGAGTAAACTCAGACTGACTAAAATAAGATTGACAGTAACTAAA
CTCAGAC
Found at i:93029 original size:94 final size:97
Alignment explanation
Indices: 92849--93043 Score: 279
Period size: 94 Copynumber: 2.0 Consensus size: 97
92839 TTACATAGTC
* * **
92849 AAGTTAAACACCTAAGGGATGTACATAATAACAATACCGTTAATTCTTACATCTGTATAGTAACA
1 AAGTCAAACAACTAAGGGACATACATAATAACAATACCG-T-ATTCTTACATCTG-ATAGTAACA
92914 TTACATAGTCAGGTCCAACAACTAGGTGTATGCGT
63 TTACATAGTCAGGTCCAACAACTAGGTGTATGCGT
* *
92949 AAGTCAAACAACTAAGGGACATACATAATAACAATATC-T-TTCTTACATCTG-TAGTATCATTA
1 AAGTCAAACAACTAAGGGACATACATAATAACAATACCGTATTCTTACATCTGATAGTAACATTA
*
93011 CATAGTTAGGTCCAACAACTAGGTGTATGCGT
66 CATAGTCAGGTCCAACAACTAGGTGTATGCGT
93043 A
1 A
93044 CCATGAACTC
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
94 42 0.48
96 12 0.14
98 1 0.01
100 33 0.38
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.29
Consensus pattern (97 bp):
AAGTCAAACAACTAAGGGACATACATAATAACAATACCGTATTCTTACATCTGATAGTAACATTA
CATAGTCAGGTCCAACAACTAGGTGTATGCGT
Found at i:96100 original size:18 final size:17
Alignment explanation
Indices: 96077--96115 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
96067 ATCCGTTCCT
96077 AACCTAACCATAACCTCA
1 AACCTAACCATAACCT-A
*
96095 AACCTAACCCTAACCTA
1 AACCTAACCATAACCTA
96112 AACC
1 AACC
96116 GAAACTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (17 bp):
AACCTAACCATAACCTA
Found at i:108772 original size:54 final size:53
Alignment explanation
Indices: 108681--108786 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 53
108671 CTTCTGGGCA
** *
108681 GCTGAGTAAAACCCTGGCCCCTGGGTCTGAGCAGGAGGGGGAGGGGGTGGGGTG
1 GCTGAGTAAAACCCTGGCCCCTGGCCCTGAG-AGGAGGGGGAGGGGGAGGGGTG
*
108735 GCTGAGTAGAACCCTGGCCCCTGGCCCTGCATG-GGAGGGGGAGGGGGAGGGG
1 GCTGAGTAAAACCCTGGCCCCTGGCCCTG-A-GAGGAGGGGGAGGGGGAGGGG
108787 CAGCCGGCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
54 44 0.96
55 1 0.02
56 1 0.02
ACGTcount: A:0.16, C:0.21, G:0.50, T:0.13
Consensus pattern (53 bp):
GCTGAGTAAAACCCTGGCCCCTGGCCCTGAGAGGAGGGGGAGGGGGAGGGGTG
Found at i:109739 original size:54 final size:53
Alignment explanation
Indices: 109648--109753 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 53
109638 CTTCTGGGCA
** *
109648 GCTGAGTAAAACCCTGGCCCCTGGGTCTGAGCAGGAGGGGGAGGGGGTGGGGTG
1 GCTGAGTAAAACCCTGGCCCCTGGCCCTGAG-AGGAGGGGGAGGGGGAGGGGTG
*
109702 GCTGAGTAGAACCCTGGCCCCTGGCCCTGCATG-GGAGGGGGAGGGGGAGGGG
1 GCTGAGTAAAACCCTGGCCCCTGGCCCTG-A-GAGGAGGGGGAGGGGGAGGGG
109754 CAGCCGGCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
54 44 0.96
55 1 0.02
56 1 0.02
ACGTcount: A:0.16, C:0.21, G:0.50, T:0.13
Consensus pattern (53 bp):
GCTGAGTAAAACCCTGGCCCCTGGCCCTGAGAGGAGGGGGAGGGGGAGGGGTG
Found at i:111351 original size:24 final size:21
Alignment explanation
Indices: 111306--111366 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 21
111296 CCTCTGAAAA
111306 ATAGATTTATATAAATCACTT
1 ATAGATTTATATAAATCACTT
*
111327 ATAGATTTATAATTAAAATCCCTT
1 ATAGATTTAT-A-T-AAATCACTT
* *
111351 ATATATCTATATAAAT
1 ATAGATTTATATAAAT
111367 GACATATATC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 14 0.41
22 2 0.06
23 2 0.06
24 16 0.47
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (21 bp):
ATAGATTTATATAAATCACTT
Found at i:114625 original size:2 final size:2
Alignment explanation
Indices: 114618--114656 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
114608 TGGCATTATA
114618 CT CT CT CT CT CT CT CT CT CT 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 C
114657 CATTTTATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:125317 original size:37 final size:37
Alignment explanation
Indices: 125267--125341 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
125257 ATACAATCTA
125267 ATTAAAATTAGACGTTCTGAATCCGCTACCGCTTCTC
1 ATTAAAATTAGACGTTCTGAATCCGCTACCGCTTCTC
125304 ATTAAAATTAGACGTTCTGAATCCGCTACCGCTTCTC
1 ATTAAAATTAGACGTTCTGAATCCGCTACCGCTTCTC
125341 A
1 A
125342 AAGCGGTAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (37 bp):
ATTAAAATTAGACGTTCTGAATCCGCTACCGCTTCTC
Found at i:132885 original size:15 final size:15
Alignment explanation
Indices: 132865--132915 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
132855 CGATCTATTG
132865 GACTGCCGGTCAATA
1 GACTGCCGGTCAATA
* * *
132880 GACTG-CGATCTATTG
1 GACTGCCGGTC-AATA
*
132895 GACCGCCGGTCAATA
1 GACTGCCGGTCAATA
132910 GACTGC
1 GACTGC
132916 GATCTATTGG
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (15 bp):
GACTGCCGGTCAATA
Found at i:132891 original size:30 final size:30
Alignment explanation
Indices: 132855--132928 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
132845 CCGCCAGTCT
*
132855 CGATCTATTGGACTGCCGGTCAATAGACTG
1 CGATCTATTGGACCGCCGGTCAATAGACTG
132885 CGATCTATTGGACCGCCGGTCAATAGACTG
1 CGATCTATTGGACCGCCGGTCAATAGACTG
132915 CGATCTATTGGACC
1 CGATCTATTGGACC
132929 AGCGACGTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (30 bp):
CGATCTATTGGACCGCCGGTCAATAGACTG
Found at i:133434 original size:43 final size:43
Alignment explanation
Indices: 133373--133458 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
133363 CAGTATGATC
133373 TATTGCCCTCGGCCGTTGACCTCGGGCAATAGATCATACTGAG
1 TATTGCCCTCGGCCGTTGACCTCGGGCAATAGATCATACTGAG
133416 TATTGCCCTCGGCCGTTGACCTCGGGCAATAGATCATACTGAG
1 TATTGCCCTCGGCCGTTGACCTCGGGCAATAGATCATACTGAG
133459 CTGTTCCCTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.26
Consensus pattern (43 bp):
TATTGCCCTCGGCCGTTGACCTCGGGCAATAGATCATACTGAG
Found at i:136554 original size:36 final size:36
Alignment explanation
Indices: 136504--136743 Score: 191
Period size: 36 Copynumber: 6.7 Consensus size: 36
136494 CTGGTTTGAG
* *
136504 TTACTAGAAGCGACTTTACAGGTGATCTGGTA-TAAC
1 TTACTAGGAGCGACTTTACAGGTGATCT-GTACTGAC
* * * * *
136540 TTACCAGGATCGACTTTACAGGAGACCTGAACTGAC
1 TTACTAGGAGCGACTTTACAGGTGATCTGTACTGAC
* * * * ** * *
136576 TTACTACGAGCGACTTTACAAGAGATTTAAACTAAT
1 TTACTAGGAGCGACTTTACAGGTGATCTGTACTGAC
* ** *
136612 TTACCAGGAATGACTCTACAGGTGATCTGGT-CTGAC
1 TTACTAGGAGCGACTTTACAGGTGATCT-GTACTGAC
* * *
136648 TTATTAGGAACGACTTGACAGGTGATCT-TAACTGAC
1 TTACTAGGAGCGACTTTACAGGTGATCTGT-ACTGAC
* *
136684 TTACAAGGAGCGACTTGACAGGTGATCTTGT-CTGAC
1 TTACTAGGAGCGACTTTACAGGTGATC-TGTACTGAC
*
136720 TTACTAGGAGCGACTTTGCAGGTG
1 TTACTAGGAGCGACTTTACAGGTG
136744 GCCGACTCGT
Statistics
Matches: 159, Mismatches: 39, Indels: 12
0.76 0.19 0.06
Matches are distributed among these distances:
34 1 0.01
35 2 0.01
36 154 0.97
37 1 0.01
38 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (36 bp):
TTACTAGGAGCGACTTTACAGGTGATCTGTACTGAC
Found at i:136588 original size:72 final size:70
Alignment explanation
Indices: 136489--136743 Score: 219
Period size: 72 Copynumber: 3.5 Consensus size: 70
136479 AACTTGACAT
* * *
136489 GTGACCTGGTTTGAGTTACTAGAAGCGACTTTACAGGTGATCTGGTA-TAACTTACCAGGATCGA
1 GTGACCT-GTCTGACTTACTAGGAGCGACTTTACAGGTGATCT--TACTAACTTACCAGGATCGA
136553 CTTTACAG
63 CTTTACAG
* * * * * *
136561 GAGACCTGAACTGACTTACTACGAGCGACTTTACAAGAGAT-TTAAACTAATTTACCAGGAAT-G
1 GTGACCTG-TCTGACTTACTAGGAGCGACTTTACAGGTGATCTT--ACTAACTTACCAGG-ATCG
*
136624 ACTCTACAG
62 ACTTTACAG
* * * * * * *
136633 GTGATCTGGTCTGACTTATTAGGAACGACTTGACAGGTGATCTTAACTGACTTACAAGGAGCGAC
1 GTGACCT-GTCTGACTTACTAGGAGCGACTTTACAGGTGATCTT-ACTAACTTACCAGGATCGAC
*
136698 TTGACAG
64 TTTACAG
* *
136705 GTGATCTTGTCTGACTTACTAGGAGCGACTTTGCAGGTG
1 GTGA-CCTGTCTGACTTACTAGGAGCGACTTTACAGGTG
136744 GCCGACTCGT
Statistics
Matches: 143, Mismatches: 31, Indels: 18
0.74 0.16 0.09
Matches are distributed among these distances:
69 1 0.01
71 4 0.03
72 132 0.92
73 6 0.04
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (70 bp):
GTGACCTGTCTGACTTACTAGGAGCGACTTTACAGGTGATCTTACTAACTTACCAGGATCGACTT
TACAG
Found at i:136742 original size:108 final size:108
Alignment explanation
Indices: 136480--136743 Score: 251
Period size: 108 Copynumber: 2.4 Consensus size: 108
136470 CCAAGGAATA
* * * * * *
136480 ACTTGACATGTGACCTGGTTTGAGTTACTAGAAGCGACTTTACAGGTGATCTGGTATAACTTACC
1 ACTTGACAAGTGATCTTGTCTGACTTACTAGGAGCGACTTTACAGGTGATCTGGTATAACTTACC
* * *
136545 AGGATCGACTTTACAGGAGACCTGAACTGACTTACTACGAGCG
66 AGGAACGACTTGACAGGAGACCTGAACTGACTTACAACGAGCG
* * ** * * * ** * * * *
136588 ACTTTACAAGAGAT-TTAAACTAATTTACCAGGAATGACTCTACAGGTGATCTGGTCTGACTTAT
1 ACTTGACAAGTGATCTT-GTCTGACTTACTAGGAGCGACTTTACAGGTGATCTGGTATAACTTAC
* * * * *
136652 TAGGAACGACTTGACAGGTGATCTTAACTGACTTACAAGGAGCG
65 CAGGAACGACTTGACAGGAGACCTGAACTGACTTACAACGAGCG
* *
136696 ACTTGACAGGTGATCTTGTCTGACTTACTAGGAGCGACTTTGCAGGTG
1 ACTTGACAAGTGATCTTGTCTGACTTACTAGGAGCGACTTTACAGGTG
136744 GCCGACTCGT
Statistics
Matches: 116, Mismatches: 38, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
107 1 0.01
108 113 0.97
109 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (108 bp):
ACTTGACAAGTGATCTTGTCTGACTTACTAGGAGCGACTTTACAGGTGATCTGGTATAACTTACC
AGGAACGACTTGACAGGAGACCTGAACTGACTTACAACGAGCG
Found at i:137590 original size:5 final size:5
Alignment explanation
Indices: 137571--137656 Score: 70
Period size: 5 Copynumber: 17.4 Consensus size: 5
137561 CTGTAAAGTG
* * * *
137571 CGAAA CGAAA TCGAAA CGAAA TTG-AA CGAAA CCAAT CGAAA CGAAA CCAAA
1 CGAAA CGAAA -CGAAA CGAAA -CGAAA CGAAA CGAAA CGAAA CGAAA CGAAA
* * *
137622 CGAAA GGAAA CCAAA --AAT CGAAA CGAAA CGAAA CG
1 CGAAA CGAAA CGAAA CGAAA CGAAA CGAAA CGAAA CG
137657 GAATTATTAA
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
3 2 0.03
4 1 0.02
5 54 0.86
6 6 0.10
ACGTcount: A:0.56, C:0.21, G:0.17, T:0.06
Consensus pattern (5 bp):
CGAAA
Found at i:137885 original size:2 final size:2
Alignment explanation
Indices: 137878--137920 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
137868 TCAGACGTTT
137878 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
137920 A
1 A
137921 TGTCTTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:138259 original size:3 final size:3
Alignment explanation
Indices: 138251--138300 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
138241 CCCTTCAGTG
* *
138251 TCA TCA TCA TCA TCA TCA TCA TCA TAA TCA TCA TCA TAA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
138299 TC
1 TC
138301 TCTCTCTCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:141038 original size:14 final size:14
Alignment explanation
Indices: 141019--141046 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
141009 ATATGTATAG
141019 TACGGAAGCGTATT
1 TACGGAAGCGTATT
141033 TACGGAAGCGTATT
1 TACGGAAGCGTATT
141047 AGTGCCACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (14 bp):
TACGGAAGCGTATT
Found at i:141108 original size:21 final size:21
Alignment explanation
Indices: 141082--141330 Score: 372
Period size: 21 Copynumber: 11.9 Consensus size: 21
141072 TTTTATTTTC
** *
141082 TACACTTTAAAGTGTAAATTT
1 TACACTTTAATCTGTAAAATT
141103 TACACTTTAATCTGTAAAATT
1 TACACTTTAATCTGTAAAATT
141124 TACACTTTAATCTGTAAAATT
1 TACACTTTAATCTGTAAAATT
* **
141145 CACACTTTAAAGTGTAAAATT
1 TACACTTTAATCTGTAAAATT
*
141166 TACACTTTAATCTGTAAATTT
1 TACACTTTAATCTGTAAAATT
141187 TACACTTTAATCTGTAAAATT
1 TACACTTTAATCTGTAAAATT
* *
141208 CACACTTTAACCTGTAAAATT
1 TACACTTTAATCTGTAAAATT
**
141229 TACACTTTAAAGTGTAAAATT
1 TACACTTTAATCTGTAAAATT
*
141250 CACACTTTAATCTGTAAAATT
1 TACACTTTAATCTGTAAAATT
* *
141271 TGCACTTTAATCTGTAAATTT
1 TACACTTTAATCTGTAAAATT
141292 TACACTTTAATCTGTAAAATT
1 TACACTTTAATCTGTAAAATT
141313 TACACTTTAATCTGTAAA
1 TACACTTTAATCTGTAAA
141331 NCTAGGTCGT
Statistics
Matches: 204, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 204 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (21 bp):
TACACTTTAATCTGTAAAATT
Found at i:141936 original size:21 final size:21
Alignment explanation
Indices: 141912--141953 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
141902 TTTAGATNTT
*
141912 AAATTTACAGATTAAAGTGTA
1 AAATTTACACATTAAAGTGTA
*
141933 AAATTTACACTTTAAAGTGTA
1 AAATTTACACATTAAAGTGTA
141954 GAAAATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (21 bp):
AAATTTACACATTAAAGTGTA
Found at i:142662 original size:30 final size:30
Alignment explanation
Indices: 142623--142742 Score: 222
Period size: 30 Copynumber: 4.0 Consensus size: 30
142613 GAAAAGTGAT
*
142623 CAACAAATTACCCAGTACGTCTACCTTAAA
1 CAACAAATTACCCAGTACATCTACCTTAAA
*
142653 CAAAAAATTACCCAGTACATCTACCTTAAA
1 CAACAAATTACCCAGTACATCTACCTTAAA
142683 CAACAAATTACCCAGTACATCTACCTTAAA
1 CAACAAATTACCCAGTACATCTACCTTAAA
142713 CAACAAATTACCCAGTACATCTACCTTAAA
1 CAACAAATTACCCAGTACATCTACCTTAAA
142743 TTTTGGATAT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 87 1.00
ACGTcount: A:0.43, C:0.29, G:0.04, T:0.23
Consensus pattern (30 bp):
CAACAAATTACCCAGTACATCTACCTTAAA
Found at i:151723 original size:2 final size:2
Alignment explanation
Indices: 151716--151765 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
151706 TGACTTGAAT
151716 GA GA GA GA GA GA GA GA -A GA GA GA GA GA GA GA GA GA GA -A GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
151756 GA GA GA GA GA
1 GA GA GA GA GA
151766 AAGTGAATTG
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:151742 original size:21 final size:21
Alignment explanation
Indices: 151716--151765 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
151706 TGACTTGAAT
151716 GAGAGAGAGAGAGAGAAGAGA
1 GAGAGAGAGAGAGAGAAGAGA
151737 GAGAGAGAGAGAGAGAAGAGA
1 GAGAGAGAGAGAGAGAAGAGA
151758 GAGAGAGA
1 GAGAGAGA
151766 AAGTGAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (21 bp):
GAGAGAGAGAGAGAGAAGAGA
Found at i:164156 original size:24 final size:24
Alignment explanation
Indices: 164109--164157 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
164099 ATTGTTTTCC
**
164109 AAATTAAAGGAATAAAAATTAAAT
1 AAATTAAAGGAATAAAAAAAAAAT
164133 AAATTCAAA-GAATAAAAAAAAAAT
1 AAATT-AAAGGAATAAAAAAAAAAT
164157 A
1 A
164158 CTTCAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.20
Consensus pattern (24 bp):
AAATTAAAGGAATAAAAAAAAAAT
Found at i:167091 original size:15 final size:15
Alignment explanation
Indices: 167071--167103 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
167061 ATTTCATGAA
167071 GTTACATGTATAAAG
1 GTTACATGTATAAAG
167086 GTTACATGTATAAAG
1 GTTACATGTATAAAG
167101 GTT
1 GTT
167104 TATTAAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (15 bp):
GTTACATGTATAAAG
Found at i:168720 original size:52 final size:51
Alignment explanation
Indices: 168641--168745 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 51
168631 GGGGTTTCTT
168641 TACTACTGCAACAAAATGTTTAATGGAATGTAGAAGCAAATATAATTTGCA
1 TACTACTGCAACAAAATGTTTAATGGAATGTAGAAGCAAATATAATTTGCA
168692 TNACTACTGCAACAAAATGTTTAATGGAATGTAGAAGCAAATATAATTTGCA
1 T-ACTACTGCAACAAAATGTTTAATGGAATGTAGAAGCAAATATAATTTGCA
168744 TA
1 TA
168746 TCTATATTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
51 2 0.04
52 51 0.96
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (51 bp):
TACTACTGCAACAAAATGTTTAATGGAATGTAGAAGCAAATATAATTTGCA
Found at i:181674 original size:32 final size:31
Alignment explanation
Indices: 181632--181694 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
181622 ATACAATATT
* *
181632 AATTATATCAGATATTGCATGTTACTATATAC
1 AATTACATCAGATATTACATGTTACT-TATAC
*
181664 AATTACATCAGATATTACATGTTGCTTATAC
1 AATTACATCAGATATTACATGTTACTTATAC
181695 TAAATTATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 5 0.18
32 23 0.82
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.40
Consensus pattern (31 bp):
AATTACATCAGATATTACATGTTACTTATAC
Found at i:181784 original size:32 final size:32
Alignment explanation
Indices: 181700--181934 Score: 229
Period size: 32 Copynumber: 6.9 Consensus size: 32
181690 TATACTAAAT
* * * *
181700 TATACAACTTTATTAAATATAACAAGTTACTATAA
1 TATACAACTATATCAAATATTACATGTTAC--T-A
* * * *
181735 TATAAAACTATTTCAAATATTACATGGTACTT
1 TATACAACTATATCAAATATTACATGTTACTA
* *
181767 TATACAGCTATATCAAATATAACAATCATGTTACTATAA
1 TATACAACTATATCAAATAT---TA-CATGTTAC--T-A
*
181806 TATACAACTATATCAAATATAACATGTTACTA
1 TATACAACTATATCAAATATTACATGTTACTA
181838 TA-ACATGTTACTATATCAAATATTACATGTTACTA
1 TATACA----ACTATATCAAATATTACATGTTACTA
181873 TATACAACTATATCAAATATTACATGTTACTA
1 TATACAACTATATCAAATATTACATGTTACTA
*
181905 TATACAATTATATCAAATATTACATGTTAC
1 TATACAACTATATCAAATATTACATGTTAC
181935 CCTATAAAAG
Statistics
Matches: 171, Mismatches: 17, Indels: 27
0.80 0.08 0.13
Matches are distributed among these distances:
31 3 0.02
32 75 0.44
33 2 0.01
35 59 0.35
36 12 0.07
38 1 0.01
39 19 0.11
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.37
Consensus pattern (32 bp):
TATACAACTATATCAAATATTACATGTTACTA
Found at i:181824 original size:106 final size:106
Alignment explanation
Indices: 181549--181892 Score: 300
Period size: 106 Copynumber: 3.2 Consensus size: 106
181539 ATTCTACAAA
* * ** * * *
181549 ATATACAACTATATCAAATATAAC-ATTATATCTGTTATTATATACAATTATGTCAAATATGAA-
1 ATATACAACTATATCAAATATAACAATCATGT-TACTATAATATACAACTATATCAAATAT-AAC
* * * * * * *
181612 ATGTTACAATATACAATATTAATTATATCAGATATTGCATGTTACT
64 AAGTTACTATA-AC-ATA-AAACTATATCAAATATTACATGGTACT
* * * * ** * *
181658 ATATACAATTACATCAGATATTAC-ATGTTGCTTA-TACTAAATTATACAACTTTATTAAATATA
1 ATATACAACTATATCAAATATAACAATCATG-TTACTA-T-AA-TATACAACTATATCAAATATA
* *
181721 ACAAGTTACTATAATATAAAACTATTTCAAATATTACATGGTACT
62 ACAAGTTACTATAACATAAAACTATATCAAATATTACATGGTACT
* * *
181766 TTATACAGCTATATCAAATATAACAATCATGTTACTATAATATACAACTATATCAAATATAACAT
1 ATATACAACTATATCAAATATAACAATCATGTTACTATAATATACAACTATATCAAATATAACAA
*** *
181831 GTTACTATAACATGTTACTATATCAAATATTACATGTTACT
66 GTTACTATAACATAAAACTATATCAAATATTACATGGTACT
181872 ATATACAACTATATCAAATAT
1 ATATACAACTATATCAAATAT
181893 TACATGTTAC
Statistics
Matches: 187, Mismatches: 41, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
106 76 0.41
107 2 0.01
108 45 0.24
109 34 0.18
110 5 0.03
111 25 0.13
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (106 bp):
ATATACAACTATATCAAATATAACAATCATGTTACTATAATATACAACTATATCAAATATAACAA
GTTACTATAACATAAAACTATATCAAATATTACATGGTACT
Found at i:181841 original size:13 final size:13
Alignment explanation
Indices: 181823--181852 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
181813 CTATATCAAA
181823 TATAACATGTTAC
1 TATAACATGTTAC
181836 TATAACATGTTAC
1 TATAACATGTTAC
181849 TATA
1 TATA
181853 TCAAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (13 bp):
TATAACATGTTAC
Found at i:181887 original size:67 final size:64
Alignment explanation
Indices: 181700--181934 Score: 220
Period size: 67 Copynumber: 3.5 Consensus size: 64
181690 TATACTAAAT
* * * * * * * *
181700 TATACAACTTTATTAAATATAACAAGTTACTATAATATAAAACTATTTCAAATATTACATGGTAC
1 TATACAACTATATCAAATATTACATGTTAC--T-ATATACAACTATATCAAATATAACATGTTAC
*
181765 TT
63 TA
* *
181767 TATACAGCTATATCAAATATAACAATCATGTTACTATAATATACAACTATATCAAATATAACATG
1 TATACAACTATATCAAATAT---TA-CATGTTAC--T-ATATACAACTATATCAAATATAACATG
181832 TTACTA
59 TTACTA
*
181838 TA-ACATGTTACTATATCAAATATTACATGTTACTATATACAACTATATCAAATATTACATGTTA
1 TATACA----ACTATATCAAATATTACATGTTACTATATACAACTATATCAAATATAACATGTTA
181902 CTA
62 CTA
*
181905 TATACAATTATATCAAATATTACATGTTAC
1 TATACAACTATATCAAATATTACATGTTAC
181935 CCTATAAAAG
Statistics
Matches: 146, Mismatches: 13, Indels: 21
0.81 0.07 0.12
Matches are distributed among these distances:
64 23 0.16
67 51 0.35
68 4 0.03
70 13 0.09
71 42 0.29
74 13 0.09
ACGTcount: A:0.44, C:0.14, G:0.04, T:0.37
Consensus pattern (64 bp):
TATACAACTATATCAAATATTACATGTTACTATATACAACTATATCAAATATAACATGTTACTA
Found at i:187117 original size:30 final size:29
Alignment explanation
Indices: 187059--187122 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
187049 CCGGAAAGGT
* *
187059 TTTTGTTAAGTCGTACGTAAAATTATTCGG
1 TTTTGTTAAGTCGTACG-AAAATAATTCGA
187089 TTTTGTTAAGTCGTAC-AAGGAATAATTCGA
1 TTTTGTTAAGTCGTACGAA--AATAATTCGA
187119 TTTT
1 TTTT
187123 TTCATCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 2 0.07
30 28 0.93
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (29 bp):
TTTTGTTAAGTCGTACGAAAATAATTCGA
Found at i:200103 original size:2 final size:2
Alignment explanation
Indices: 200096--200144 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
200086 TCCATCCATT
200096 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
200138 TC TC TC T
1 TC TC TC T
200145 GTGTGTGTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:200505 original size:22 final size:22
Alignment explanation
Indices: 200477--200519 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
200467 GCACAAACAA
200477 CAAGTACACTGGTAAGTGTCGC
1 CAAGTACACTGGTAAGTGTCGC
200499 CAAGTACACTGGTAAGTGTCG
1 CAAGTACACTGGTAAGTGTCG
200520 ACGTGCCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (22 bp):
CAAGTACACTGGTAAGTGTCGC
Found at i:200586 original size:53 final size:54
Alignment explanation
Indices: 200499--200626 Score: 168
Period size: 53 Copynumber: 2.4 Consensus size: 54
200489 TAAGTGTCGC
* ** *
200499 CAAGTACACTGGTAAGTGTCGACGTGCCTTGCCCAAGAGGCTGTGCACAAACAA
1 CAAGTACACTGATAAGTGTCGACGTGCCACGCCCAACAGGCTGTGCACAAACAA
* * * * *
200553 C-AGTACACTGCTAAGTGTCGACGTGCCACGCCCACCAGTCTGTGCATAAACGA
1 CAAGTACACTGATAAGTGTCGACGTGCCACGCCCAACAGGCTGTGCACAAACAA
200606 CAAGTACACTGATAAGTGTCG
1 CAAGTACACTGATAAGTGTCG
200627 CCGAGTACAC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 45 0.70
54 19 0.30
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (54 bp):
CAAGTACACTGATAAGTGTCGACGTGCCACGCCCAACAGGCTGTGCACAAACAA
Found at i:200669 original size:129 final size:126
Alignment explanation
Indices: 200434--200719 Score: 369
Period size: 129 Copynumber: 2.3 Consensus size: 126
200424 CAACAAACAT
* *
200434 ACTGGTAAGTGTGGACGTGCCACGCCCACCA-GTGCACAAACAACAAGTACACTGGTAAGTGTCG
1 ACTGGTAAGTGTCGACGTGCCACGCCCACCAGGTGCACAAACAACAAGTACACTGATAAGTGTCG
** * * *
200498 CCAAGTACACTGGTAAGTGTCGACGTGCCTTGCCCAAGAGGCTGTGCACAAACAACAGTAC
66 CCAAGTACACTGGTAAGTGTCGACGTGCCACGCCCAACAGGCTGTACACAAACAACAATAC
* * *
200559 ACTGCTAAGTGTCGACGTGCCACGCCCACCAGTCTGTGCATAAACGACAAGTACACTGATAAGTG
1 ACTGGTAAGTGTCGACGTGCCACGCCCACCAG---GTGCACAAACAACAAGTACACTGATAAGTG
* ** * *
200624 TCGCCGAGTACACTGGTAAGTGTC-ACTGTTTCACGCCCACCAGGCTGTACACAAACACCAATAC
63 TCGCCAAGTACACTGGTAAGTGTCGAC-GTGCCACGCCCAACAGGCTGTACACAAACAACAATAC
* *
200688 ACTGGTAGGTGTCGACGTGCCACTCCCACCAG
1 ACTGGTAAGTGTCGACGTGCCACGCCCACCAG
200720 ACTATGCGCA
Statistics
Matches: 138, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
125 29 0.21
128 2 0.01
129 107 0.78
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (126 bp):
ACTGGTAAGTGTCGACGTGCCACGCCCACCAGGTGCACAAACAACAAGTACACTGATAAGTGTCG
CCAAGTACACTGGTAAGTGTCGACGTGCCACGCCCAACAGGCTGTACACAAACAACAATAC
Found at i:200716 original size:53 final size:53
Alignment explanation
Indices: 200632--200965 Score: 297
Period size: 53 Copynumber: 6.3 Consensus size: 53
200622 TGTCGCCGAG
** * *
200632 TACACTGGTAAGTGTC-ACTGTTTCACGCCCACCAGGCTGTACACAAACACCAA
1 TACACTGGTAAGTGTCGAC-GTGCCACGCCCACCAGACTGTGCACAAACACCAA
* * * * *
200685 TACACTGGTAGGTGTCGACGTGCCACTCCCACCAGACTATGCGCAAATACC-A
1 TACACTGGTAAGTGTCGACGTGCCACGCCCACCAGACTGTGCACAAACACCAA
* * *
200737 TACACTGAT-AGTGTC-ACTGTGTCACGCCCACCAGGCTGTGCACAAACACCAA
1 TACACTGGTAAGTGTCGAC-GTGCCACGCCCACCAGACTGTGCACAAACACCAA
* * * * * *
200789 TAAAATGTACTGGTAAGTGT-TACCGTGTCACGCCCACCAGGCTGTACACAAACACCTA
1 T---A--CACTGGTAAGTGTCGA-CGTGCCACGCCCACCAGACTGTGCACAAACACCAA
* * *
200847 TACATTAGTAAGTGTCGACGTGCCACGCCCACCAGAC-GTTGCACAAACA-TAA
1 TACACTGGTAAGTGTCGACGTGCCACGCCCACCAGACTG-TGCACAAACACCAA
* * *
200899 TGCACTGGTAGGTGTCGACGTGCCACGCCCACCAGACTGTGCACAAACA-TAA
1 TACACTGGTAAGTGTCGACGTGCCACGCCCACCAGACTGTGCACAAACACCAA
* *
200951 TGCATTGGTAAGTGT
1 TACACTGGTAAGTGT
200966 GTAATGTGTC
Statistics
Matches: 231, Mismatches: 36, Indels: 29
0.78 0.12 0.10
Matches are distributed among these distances:
50 2 0.01
51 31 0.13
52 72 0.31
53 76 0.33
54 3 0.01
55 2 0.01
57 5 0.02
58 39 0.17
59 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (53 bp):
TACACTGGTAAGTGTCGACGTGCCACGCCCACCAGACTGTGCACAAACACCAA
Found at i:200979 original size:105 final size:103
Alignment explanation
Indices: 200632--200984 Score: 300
Period size: 105 Copynumber: 3.3 Consensus size: 103
200622 TGTCGCCGAG
* * * * * * *
200632 TACACTGGTAAGTGTCACTGTTTCACGCCCACCAGGCTGTACACAAACACCAATACACTGGTAGG
1 TACATTGGTAAGTGTGAATGTGTCACGCCCACCAGGCTGTGCACAAACA-TAATGCACTGGTAGG
* * * * *
200697 TGTCGACGTGCCACTCCCACCAGACTATGCGCAAATACCA
65 TGTCGACGTGCCACGCCCACCAGACTGTGCACAAACA-TA
* * * * *
200737 TACACTGAT-AGTGTCACTGTGTCACGCCCACCAGGCTGTGCACAAACACCAATAAAATGTACTG
1 TACATTGGTAAGTGTGAATGTGTCACGCCCACCAGGCTGTGCAC-AA-A-C-AT--AATGCACTG
* * * * *
200801 GTAAGTGT-TACCGTGTCACGCCCACCAGGCTGTACACAAACACCTA
60 GTAGGTGTCGA-CGTGCCACGCCCACCAGACTGTGCACAAACA--TA
* * * *
200847 TACATTAGTAAGTGTCG-ACGTGCCACGCCCACCAGAC-GTTGCACAAACATAATGCACTGGTAG
1 TACATTGGTAAGTGT-GAATGTGTCACGCCCACCAGGCTG-TGCACAAACATAATGCACTGGTAG
200910 GTGTCGACGTGCCACGCCCACCAGACTGTGCACAAACATAA
64 GTGTCGACGTGCCACGCCCACCAGACTGTGCACAAACAT-A
*
200951 TGCATTGGTAAGTGTGTAATGTGTCACGCCCACC
1 TACATTGGTAAGTGTG-AATGTGTCACGCCCACC
200985 TTTTTCACTA
Statistics
Matches: 199, Mismatches: 34, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
103 2 0.01
104 46 0.23
105 67 0.34
106 2 0.01
107 3 0.02
108 3 0.02
109 39 0.20
110 11 0.06
111 26 0.13
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (103 bp):
TACATTGGTAAGTGTGAATGTGTCACGCCCACCAGGCTGTGCACAAACATAATGCACTGGTAGGT
GTCGACGTGCCACGCCCACCAGACTGTGCACAAACATA
Found at i:206053 original size:31 final size:31
Alignment explanation
Indices: 206015--206080 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
206005 TTGGAAAGAT
**
206015 TTTTGTTAAGTCGTACTTGAAATAATTCGAA
1 TTTTGTTAAGTCGTACCAGAAATAATTCGAA
* *
206046 TTTTGTTAAGTCGTACCAGGAATAATTCGAT
1 TTTTGTTAAGTCGTACCAGAAATAATTCGAA
206077 TTTT
1 TTTT
206081 TTCATCTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.44
Consensus pattern (31 bp):
TTTTGTTAAGTCGTACCAGAAATAATTCGAA
Found at i:206853 original size:31 final size:31
Alignment explanation
Indices: 206782--206859 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 31
206772 ATTCGGATTT
* *
206782 TTTTTGTTAAGTCGTTCTTGAAATCAGAAAGG
1 TTTTTGTTAAGTCGTTCTTAAAATCA-AAACG
**
206814 TTTTTGTTAAGTCGTTCTTAAAATC-ATTCG
1 TTTTTGTTAAGTCGTTCTTAAAATCAAAACG
206844 TATTTTGTTAAGTCGT
1 T-TTTTGTTAAGTCGT
206860 ACCAGGAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
30 3 0.07
31 14 0.34
32 24 0.59
ACGTcount: A:0.24, C:0.10, G:0.18, T:0.47
Consensus pattern (31 bp):
TTTTTGTTAAGTCGTTCTTAAAATCAAAACG
Found at i:210805 original size:13 final size:14
Alignment explanation
Indices: 210780--210819 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
210770 ATGTCAACTG
210780 ATATAGATACAAAC
1 ATATAGATACAAAC
*
210794 ATATTG-TACAAA-
1 ATATAGATACAAAC
210806 ATATAGATACAAAC
1 ATATAGATACAAAC
210820 TTCTATAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.23
13 12 0.55
14 5 0.23
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.25
Consensus pattern (14 bp):
ATATAGATACAAAC
Found at i:231477 original size:41 final size:40
Alignment explanation
Indices: 231381--231519 Score: 165
Period size: 40 Copynumber: 3.5 Consensus size: 40
231371 ATAAGTTGTA
* * * * *
231381 TGAGGTGAGATACTGAGACTATGACGTGAGTGTCT-GGGAA
1 TGAGGTGAGATACTGAGACTAAGACTTGAGAGT-TAGTGAG
* *
231421 TGAAGTGAAATACTGAGACTAAAGACTTGAGAGTTAGTGAG
1 TGAGGTGAGATACTGAGACT-AAGACTTGAGAGTTAGTGAG
*
231462 TGAAGG-GAGATACTGAGACTAAGACTTGAGAGTTTGTGAG
1 TG-AGGTGAGATACTGAGACTAAGACTTGAGAGTTAGTGAG
231502 TGAGGTGAGATACTGAGA
1 TGAGGTGAGATACTGAGA
231520 TGTAAAATTC
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
39 3 0.04
40 52 0.61
41 28 0.33
42 2 0.02
ACGTcount: A:0.33, C:0.08, G:0.35, T:0.24
Consensus pattern (40 bp):
TGAGGTGAGATACTGAGACTAAGACTTGAGAGTTAGTGAG
Found at i:233077 original size:1 final size:1
Alignment explanation
Indices: 233039--233068 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
233029 GGGGGGGGGG
233039 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
233069 GACCCCCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:245140 original size:16 final size:16
Alignment explanation
Indices: 245119--245166 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
245109 CATGAATGCT
245119 GGAGAAAACGTACCCA
1 GGAGAAAACGTACCCA
245135 GGAGAAAACGTACCCA
1 GGAGAAAACGTACCCA
*
245151 GGAGAAAACTTACCCA
1 GGAGAAAACGTACCCA
245167 TTTCCTAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (16 bp):
GGAGAAAACGTACCCA
Found at i:248260 original size:76 final size:76
Alignment explanation
Indices: 248134--248291 Score: 280
Period size: 76 Copynumber: 2.1 Consensus size: 76
248124 TTTATCACAT
248134 AATATCCTATTTAGAAATTTTGCAAAACAATTTCCTTGTTAAAGCAAACCTTCATTTTCTTCCCA
1 AATATCCTATTTAGAAATTTTGCAAAACAATTTCCTTGTTAAAGCAAACCTTCATTTTCTTCCCA
248199 GACTCCCCCTC
66 GACTCCCCCTC
* * *
248210 AATATCCTATTTAGAAATTTTGGAAGACAATTTCCTTGTTAAAGCGAACCTTCATTTTCTTCCCA
1 AATATCCTATTTAGAAATTTTGCAAAACAATTTCCTTGTTAAAGCAAACCTTCATTTTCTTCCCA
*
248275 GACTCTCCCTC
66 GACTCCCCCTC
248286 AATATC
1 AATATC
248292 GGCAGATAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (76 bp):
AATATCCTATTTAGAAATTTTGCAAAACAATTTCCTTGTTAAAGCAAACCTTCATTTTCTTCCCA
GACTCCCCCTC
Found at i:285623 original size:2 final size:2
Alignment explanation
Indices: 285616--285653 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
285606 CGAACAAGTC
*
285616 AG AG AG AG AG AG AG AG AG AG AG AA 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
285654 GAAATTCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:286446 original size:145 final size:145
Alignment explanation
Indices: 286183--286619 Score: 847
Period size: 145 Copynumber: 3.0 Consensus size: 145
286173 ATTTTTGGTC
286183 CCTAAATTCACTAAAATTTGTCATCCAAACATTGAATTATTAAACATTCAATGATTGATTTGTGC
1 CCTAAATTCACTAAAATTTGTCATCCAAACATTGAATTATTAAACATTCAATGATTGATTTGTGC
*
286248 ATTAAAACTAGAGAATTGAGATACCCTTGCTAATTCACACCATAAGGTGTAAATTATGTCCTTCA
66 ATTAAAACTAGAGAATTGAGATACCCTTGCTAATTCACATCATAAGGTGTAAATTATGTCCTTCA
286313 TTTATATTGTACATA
131 TTTATATTGTACATA
*
286328 CCTAAATTCACTAAAATTTGTCATCCTAACATTGAATTATTAAACATTCAATGATTGATTTGTGC
1 CCTAAATTCACTAAAATTTGTCATCCAAACATTGAATTATTAAACATTCAATGATTGATTTGTGC
*
286393 ATTAAAACTAGAGAATTGAGATACCCTTGCTAATTCACATCATAAGGTGTAAATGATGTCCTTCA
66 ATTAAAACTAGAGAATTGAGATACCCTTGCTAATTCACATCATAAGGTGTAAATTATGTCCTTCA
286458 TTTATATTGTACATA
131 TTTATATTGTACATA
286473 CCTAAATTCACTAAAATTTGTCATCCAAACATTGAATTATTAAACATTCAATGATTGATTTGTGC
1 CCTAAATTCACTAAAATTTGTCATCCAAACATTGAATTATTAAACATTCAATGATTGATTTGTGC
286538 ATTAAAACTAGAGAATTGAGATACCCTTGCTAATTCACATCATAAGGTGTAAATTATGTCCTTCA
66 ATTAAAACTAGAGAATTGAGATACCCTTGCTAATTCACATCATAAGGTGTAAATTATGTCCTTCA
286603 TTTATATTGTACATA
131 TTTATATTGTACATA
286618 CC
1 CC
286620 AGGGTATATA
Statistics
Matches: 287, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
145 287 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (145 bp):
CCTAAATTCACTAAAATTTGTCATCCAAACATTGAATTATTAAACATTCAATGATTGATTTGTGC
ATTAAAACTAGAGAATTGAGATACCCTTGCTAATTCACATCATAAGGTGTAAATTATGTCCTTCA
TTTATATTGTACATA
Found at i:289924 original size:12 final size:13
Alignment explanation
Indices: 289895--289927 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
289885 CCGTAATTTA
289895 TTTACATTGTTAG
1 TTTACATTGTTAG
289908 TTTACATTGTT-G
1 TTTACATTGTTAG
289920 TTTACATT
1 TTTACATT
289928 ACTTGTTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.21, C:0.09, G:0.12, T:0.58
Consensus pattern (13 bp):
TTTACATTGTTAG
Found at i:292168 original size:135 final size:135
Alignment explanation
Indices: 291769--292176 Score: 600
Period size: 135 Copynumber: 3.0 Consensus size: 135
291759 TGGCAAGTAT
* * * * *
291769 GGTGGGAATCTTCACCATTTTCAAGATATTCGGGCACTTCCTGTTTTAGGGGGGTCAGGTCCACC
1 GGTGGGGATCTTAACCATTTTCAAGATATTTGGGCACTTCCTGTTTGAGGGGGGTCAGGACCACC
* * * * *
291834 CCAAGGGCCCATAACCTACATACCATTTGATGCCCCTTAACACATGGAACAATAATATATCTGGA
66 CCAAGGGCCCATGACCTACATACCATTTGATGCCCCTTAACACATGGAACAAGAATACATATGGT
* *
291899 ATAGA
131 TTAGG
* * * *
291904 AGTGGGGTTCTTAACCGTTTTCAAGATATTTGGGCACTTCCTGTTTGAGGGGGGTCAGGACCATC
1 GGTGGGGATCTTAACCATTTTCAAGATATTTGGGCACTTCCTGTTTGAGGGGGGTCAGGACCACC
* * *
291969 CCAAGGGCCCATGACCTACATACCATTTGATGCCCCTTGACACAAGGAACAAGAATACTTATGGT
66 CCAAGGGCCCATGACCTACATACCATTTGATGCCCCTTAACACATGGAACAAGAATACATATGGT
292034 TTAGG
131 TTAGG
* *
292039 GGTGGGGATCTTAACCATTTTCAAGTTATTTGGGCACTTCCTGTTTGAGGGGGGTCAAGACCACC
1 GGTGGGGATCTTAACCATTTTCAAGATATTTGGGCACTTCCTGTTTGAGGGGGGTCAGGACCACC
* * *
292104 CCCAGGGCCCATGACCTACATACCATTTGATGCCCCTTAACACATGGAAGAAGAATACGTATGGT
66 CCAAGGGCCCATGACCTACATACCATTTGATGCCCCTTAACACATGGAACAAGAATACATATGGT
292169 TTAGG
131 TTAGG
292174 GGT
1 GGT
292177 CAGGATTCTA
Statistics
Matches: 243, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
135 243 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (135 bp):
GGTGGGGATCTTAACCATTTTCAAGATATTTGGGCACTTCCTGTTTGAGGGGGGTCAGGACCACC
CCAAGGGCCCATGACCTACATACCATTTGATGCCCCTTAACACATGGAACAAGAATACATATGGT
TTAGG
Found at i:292726 original size:16 final size:16
Alignment explanation
Indices: 292705--292739 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
292695 TCAATGAGAC
292705 GAGGCATCACCTTTAT
1 GAGGCATCACCTTTAT
*
292721 GAGGCATCACCTTTTT
1 GAGGCATCACCTTTAT
292737 GAG
1 GAG
292740 ACCACCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (16 bp):
GAGGCATCACCTTTAT
Found at i:293104 original size:20 final size:20
Alignment explanation
Indices: 293070--293118 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
293060 ACAATATCAC
293070 AATATTGTAACATA-TGATAT
1 AATATTGTAACATATTG-TAT
293090 AATATTGT-ACAATATTGTAT
1 AATATTGTAAC-ATATTGTAT
*
293110 GATATTGTA
1 AATATTGTA
293119 TTGTATGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (20 bp):
AATATTGTAACATATTGTAT
Found at i:293119 original size:10 final size:10
Alignment explanation
Indices: 293070--293119 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
293060 ACAATATCAC
293070 AATATTGTA-
1 AATATTGTAT
293079 ACATA-TGATAT
1 A-ATATTG-TAT
*
293090 AATATTGTAC
1 AATATTGTAT
293100 AATATTGTAT
1 AATATTGTAT
*
293110 GATATTGTAT
1 AATATTGTAT
293120 TGTATGATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
9 3 0.09
10 28 0.82
11 3 0.09
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (10 bp):
AATATTGTAT
Found at i:293120 original size:15 final size:15
Alignment explanation
Indices: 293102--293134 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
293092 TATTGTACAA
293102 TATTGTATGATATTG
1 TATTGTATGATATTG
*
293117 TATTGTATGATTTTG
1 TATTGTATGATATTG
293132 TAT
1 TAT
293135 CATATTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (15 bp):
TATTGTATGATATTG
Found at i:293274 original size:20 final size:19
Alignment explanation
Indices: 293249--293287 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
293239 ATAATATAGC
293249 ATACAATATCATATCATATT
1 ATACAATATCATAT-ATATT
*
293269 ATACAATATTATATATATT
1 ATACAATATCATATATATT
293288 GCAATATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (19 bp):
ATACAATATCATATATATT
Found at i:304781 original size:2 final size:2
Alignment explanation
Indices: 304774--304838 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
304764 ACTTTATTAT
304774 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
304816 GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA G
304839 CGCATANNNN
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:304908 original size:2 final size:2
Alignment explanation
Indices: 304901--304931 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
304891 NNNNNNNNNN
304901 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 G
304932 CTTATTGCCT
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:308781 original size:9 final size:9
Alignment explanation
Indices: 308767--308800 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
308757 TTACATGTTT
308767 TTTTTTTTG
1 TTTTTTTTG
308776 TTTTTTTTG
1 TTTTTTTTG
*
308785 -TTTTTTGG
1 TTTTTTTTG
308793 TTTTTTTT
1 TTTTTTTT
308801 TTCATTTAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:308788 original size:17 final size:16
Alignment explanation
Indices: 308764--308802 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
308754 TGTTTACATG
308764 TTTTTTTTTTT-GTTT
1 TTTTTTTTTTTGGTTT
308779 TTTTTGTTTTTTGGTTT
1 TTTTT-TTTTTTGGTTT
308796 TTTTTTT
1 TTTTTTT
308803 CATTTAAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.23
16 8 0.36
17 9 0.41
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (16 bp):
TTTTTTTTTTTGGTTT
Found at i:318704 original size:19 final size:19
Alignment explanation
Indices: 318680--318716 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
318670 CAAATAGAAT
318680 CAGTTTATATTGATATATA
1 CAGTTTATATTGATATATA
*
318699 CAGTTTATATTTATATAT
1 CAGTTTATATTGATATAT
318717 CCCGTAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.51
Consensus pattern (19 bp):
CAGTTTATATTGATATATA
Found at i:325356 original size:16 final size:16
Alignment explanation
Indices: 325337--325420 Score: 69
Period size: 16 Copynumber: 4.8 Consensus size: 16
325327 TAGCAAGACT
325337 TTTAGGCCCCAAGATG
1 TTTAGGCCCCAAGATG
*
325353 TTTAGGCCCTTCATTGATAAG
1 TTTAGGCCC--CA-AGAT--G
325374 ATGCTTAGGCCCCAAGATG
1 -T--TTAGGCCCCAAGATG
*
325393 TTTAGGCCACAAGATG
1 TTTAGGCCCCAAGATG
*
325409 TTTAGGCACCAA
1 TTTAGGCCCCAA
325421 CCTACATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
16 33 0.60
18 3 0.05
19 4 0.07
21 4 0.07
22 3 0.05
24 8 0.15
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (16 bp):
TTTAGGCCCCAAGATG
Found at i:325533 original size:68 final size:68
Alignment explanation
Indices: 325408--325534 Score: 184
Period size: 68 Copynumber: 1.9 Consensus size: 68
325398 GCCACAAGAT
* * * * *
325408 GTTTAGGCACCAACCTACATTTTTCTAAGTTAATTATAATTTTCATTTTATCTTTTAAATGAATA
1 GTTTAGGCACCAACATACATTTGTATAAGTTAATTATAATTTACATTTAATCTTTTAAATGAATA
325473 ATG
66 ATG
*
325476 GTTTAGGCACCAGCATACATTTGTATAAGTTAATTATAATTTACATTTAAT-TATTTAAA
1 GTTTAGGCACCAACATACATTTGTATAAGTTAATTATAATTTACATTTAATCT-TTTAAA
325535 ACTTCATTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 1 0.02
68 51 0.98
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (68 bp):
GTTTAGGCACCAACATACATTTGTATAAGTTAATTATAATTTACATTTAATCTTTTAAATGAATA
ATG
Found at i:326472 original size:16 final size:16
Alignment explanation
Indices: 326451--326526 Score: 89
Period size: 16 Copynumber: 4.5 Consensus size: 16
326441 AACAACAGGT
326451 GCCTAAACATCTTGGG
1 GCCTAAACATCTTGGG
326467 GCCTAAACATCTTACCTGGG
1 GCCTAAACATC-T---TGGG
* *
326487 GCCTAACCGTCTTGGG
1 GCCTAAACATCTTGGG
*
326503 GCCTAAACATGTTGGG
1 GCCTAAACATCTTGGG
326519 GCCTAAAC
1 GCCTAAAC
326527 GTCTGCAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
16 36 0.71
17 1 0.02
19 1 0.02
20 13 0.25
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (16 bp):
GCCTAAACATCTTGGG
Found at i:327756 original size:2 final size:2
Alignment explanation
Indices: 327749--327807 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
327739 AATCATTGTA
* *
327749 AG AG AG AG AA AA 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
327791 AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG A
327808 AAACTGGTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:333722 original size:30 final size:26
Alignment explanation
Indices: 333666--333718 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
333656 CTTCCTTTTA
*
333666 AAGAGACCAGTCATAGTAGTTTATGT
1 AAGAGACCAATCATAGTAGTTTATGT
333692 AAGAGACCAATCATAGTAGTTTATGT
1 AAGAGACCAATCATAGTAGTTTATGT
333718 A
1 A
333719 TGTACATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (26 bp):
AAGAGACCAATCATAGTAGTTTATGT
Found at i:347354 original size:18 final size:21
Alignment explanation
Indices: 347333--347376 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
347323 CTTCTTGTCC
347333 TTTTTA-CTT-TTCT-TTTCT
1 TTTTTAGCTTCTTCTCTTTCT
347351 TTTTTAGTCTTCTTCTCTTTCT
1 TTTTTAG-CTTCTTCTCTTTCT
347373 TTTT
1 TTTT
347377 CCTTGTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.27
20 3 0.14
21 4 0.18
22 9 0.41
ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTTAGCTTCTTCTCTTTCT
Found at i:365757 original size:18 final size:21
Alignment explanation
Indices: 365736--365779 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
365726 CTTCTTGTCC
365736 TTTTTA-CTT-TTCT-TTTCT
1 TTTTTACCTTCTTCTCTTTCT
365754 TTTTTAGCCTTCTTCTCTTTCT
1 TTTTTA-CCTTCTTCTCTTTCT
365776 TTTT
1 TTTT
365780 CTTTGTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.27
20 3 0.14
21 4 0.18
22 9 0.41
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTTACCTTCTTCTCTTTCT
Found at i:381316 original size:2 final size:2
Alignment explanation
Indices: 381309--381352 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
381299 GCAGACTCAC
381309 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
381351 AG
1 AG
381353 GGAGGTATGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:390308 original size:2 final size:2
Alignment explanation
Indices: 390301--390341 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
390291 TAGGGGGAAG
390301 GA GA 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 GA GA G
390342 CGAGCGAGCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:390442 original size:2 final size:2
Alignment explanation
Indices: 390435--390462 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
390425 TGCGATGATG
390435 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
390463 ACAAAACCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:397976 original size:15 final size:15
Alignment explanation
Indices: 397956--397991 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
397946 GGTGTCATGA
397956 TTTTTAGCTTGTTAT
1 TTTTTAGCTTGTTAT
*
397971 TTTTTAGTTTGTTAT
1 TTTTTAGCTTGTTAT
*
397986 TGTTTA
1 TTTTTA
397992 AAATTTGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.03, G:0.14, T:0.69
Consensus pattern (15 bp):
TTTTTAGCTTGTTAT
Found at i:412057 original size:74 final size:74
Alignment explanation
Indices: 411932--412081 Score: 264
Period size: 74 Copynumber: 2.0 Consensus size: 74
411922 CTTTCCCATC
* *
411932 AGATGCTGATCAAATATGAATATTATTTTACAGTACACAAAAATGACTTCAATTACACCATTCTA
1 AGATGCTGATCAAATATGAATATTACTTTACAGTACACAAAAATGAATTCAATTACACCATTCTA
*
411997 ATGAGAATA
66 ATGAAAATA
*
412006 AGATGCTGATCAAATATGAATATTACTTTACAGTACACAAAAATGAATTCAATTACATCATTCTA
1 AGATGCTGATCAAATATGAATATTACTTTACAGTACACAAAAATGAATTCAATTACACCATTCTA
412071 ATGAAAATA
66 ATGAAAATA
412080 AG
1 AG
412082 TCTTAATTTG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.31
Consensus pattern (74 bp):
AGATGCTGATCAAATATGAATATTACTTTACAGTACACAAAAATGAATTCAATTACACCATTCTA
ATGAAAATA
Found at i:415840 original size:33 final size:33
Alignment explanation
Indices: 415788--415905 Score: 218
Period size: 33 Copynumber: 3.6 Consensus size: 33
415778 TATACCATTA
* *
415788 TGCTCTCTAGTATTGCCCTACTATAATGCTCAG
1 TGCTGTCTATTATTGCCCTACTATAATGCTCAG
415821 TGCTGTCTATTATTGCCCTACTATAATGCTCAG
1 TGCTGTCTATTATTGCCCTACTATAATGCTCAG
415854 TGCTGTCTATTATTGCCCTACTATAATGCTCAG
1 TGCTGTCTATTATTGCCCTACTATAATGCTCAG
415887 TGCTGTCTATTATTGCCCT
1 TGCTGTCTATTATTGCCCT
415906 TCATTGTATG
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 83 1.00
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.40
Consensus pattern (33 bp):
TGCTGTCTATTATTGCCCTACTATAATGCTCAG
Found at i:417062 original size:24 final size:24
Alignment explanation
Indices: 417030--417080 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
417020 ATGTGACTCT
*
417030 AAGAACTCCAAATAAGACAATGTC
1 AAGAACTCCAAACAAGACAATGTC
417054 AAGAACTCCAAACAAGACAATGTC
1 AAGAACTCCAAACAAGACAATGTC
417078 AAG
1 AAG
417081 GAAATCAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.51, C:0.22, G:0.14, T:0.14
Consensus pattern (24 bp):
AAGAACTCCAAACAAGACAATGTC
Found at i:422816 original size:8 final size:7
Alignment explanation
Indices: 422803--422927 Score: 62
Period size: 8 Copynumber: 17.1 Consensus size: 7
422793 TTAGGTCGAG
422803 GTGCGAGA
1 GTGCGA-A
422811 GTGCGAA
1 GTGCGAA
422818 GTTGCGAA
1 G-TGCGAA
422826 G-GCGAAA
1 GTGCG-AA
422833 GTGCGAA
1 GTGCGAA
*
422840 GGTGCGAC
1 -GTGCGAA
422848 G-GCGAA
1 GTGCGAA
*
422854 GGAGCGAAA
1 -GTGCG-AA
*
422863 GTTCGAA
1 GTGCGAA
*
422870 GATGCGAC
1 G-TGCGAA
422878 G-GCGAA
1 GTGCGAA
*
422884 GCGCGAA
1 GTGCGAA
*
422891 GATGCGGA
1 G-TGCGAA
422899 G-GCGAAA
1 GTGCG-AA
422906 GTGCGAA
1 GTGCGAA
*
422913 GTTGTGAA
1 G-TGCGAA
422921 G-GCGAA
1 GTGCGAA
422927 G
1 G
422928 AAGCGACACT
Statistics
Matches: 92, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
6 20 0.22
7 23 0.25
8 47 0.51
9 2 0.02
ACGTcount: A:0.30, C:0.15, G:0.44, T:0.11
Consensus pattern (7 bp):
GTGCGAA
Found at i:422835 original size:22 final size:22
Alignment explanation
Indices: 422805--422870 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
422795 AGGTCGAGGT
*
422805 GCGAGAGTGCGAAGTTGCGAAG
1 GCGAAAGTGCGAAGTTGCGAAG
* *
422827 GCGAAAGTGCGAAGGTGCGACG
1 GCGAAAGTGCGAAGTTGCGAAG
* *
422849 GCGAAGGAGCGAAAGTT-CGAAG
1 GCGAAAGTGCG-AAGTTGCGAAG
422871 ATGCGACGGC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 32 0.89
23 4 0.11
ACGTcount: A:0.30, C:0.15, G:0.44, T:0.11
Consensus pattern (22 bp):
GCGAAAGTGCGAAGTTGCGAAG
Found at i:422837 original size:14 final size:14
Alignment explanation
Indices: 422803--422913 Score: 50
Period size: 14 Copynumber: 7.6 Consensus size: 14
422793 TTAGGTCGAG
*
422803 GTGCGAGAGTGCGAA
1 GTGCGA-AGAGCGAA
422818 GTTGCGAAG-GCGAAA
1 G-TGCGAAGAGCG-AA
* *
422833 GTGCGAAGGTGCGAC
1 GTGCGAA-GAGCGAA
422848 G-GCGAAGGAGCGAAA
1 GTGCGAA-GAGCG-AA
* *
422863 GTTCGAAGATGCGAC
1 GTGCGAAGA-GCGAA
*
422878 G-GCGAAGCGCGAA
1 GTGCGAAGAGCGAA
*
422891 GATGCGGAG-GCGAAA
1 G-TGCGAAGAGCG-AA
422906 GTGCGAAG
1 GTGCGAAG
422914 TTGTGAAGGC
Statistics
Matches: 76, Mismatches: 10, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
13 5 0.07
14 33 0.43
15 23 0.30
16 15 0.20
ACGTcount: A:0.30, C:0.16, G:0.44, T:0.10
Consensus pattern (14 bp):
GTGCGAAGAGCGAA
Found at i:422845 original size:30 final size:30
Alignment explanation
Indices: 422827--422884 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
422817 AGTTGCGAAG
*
422827 GCGAAAGTGCGAAGGTGCGACGGCGAAGGA
1 GCGAAAGTGCGAAGGTGCGAAGGCGAAGGA
* * *
422857 GCGAAAGTTCGAAGATGCGACGGCGAAG
1 GCGAAAGTGCGAAGGTGCGAAGGCGAAG
422885 CGCGAAGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.17, G:0.43, T:0.09
Consensus pattern (30 bp):
GCGAAAGTGCGAAGGTGCGAAGGCGAAGGA
Found at i:422882 original size:22 final size:22
Alignment explanation
Indices: 422857--422913 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
422847 CGGCGAAGGA
*
422857 GCGAAAGTTCGAAGATGC-GACG
1 GCGAAAGTGCGAAGATGCGGA-G
*
422879 GCG-AAGCGCGAAGATGCGGAG
1 GCGAAAGTGCGAAGATGCGGAG
422900 GCGAAAGTGCGAAG
1 GCGAAAGTGCGAAG
422914 TTGTGAAGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.32, C:0.18, G:0.42, T:0.09
Consensus pattern (22 bp):
GCGAAAGTGCGAAGATGCGGAG
Found at i:422923 original size:22 final size:22
Alignment explanation
Indices: 422857--422926 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
422847 CGGCGAAGGA
* *
422857 GCGAAAGTTCGAAGATGCGACG
1 GCGAAAGTGCGAAGATGCGAAG
* *
422879 GCG-AAGCGCGAAGATGCGGAG
1 GCGAAAGTGCGAAGATGCGAAG
* *
422900 GCGAAAGTGCGAAGTTGTGAAG
1 GCGAAAGTGCGAAGATGCGAAG
422922 GCGAA
1 GCGAA
422927 GAAGCGACAC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 17 0.44
22 22 0.56
ACGTcount: A:0.31, C:0.16, G:0.41, T:0.11
Consensus pattern (22 bp):
GCGAAAGTGCGAAGATGCGAAG
Found at i:423589 original size:22 final size:22
Alignment explanation
Indices: 423561--423609 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
423551 ATCAAAAAAG
423561 GCGAAGGCGAAAGTGCGAAGTT
1 GCGAAGGCGAAAGTGCGAAGTT
*
423583 GCGAAGGCGAGAGTGCGAAGTT
1 GCGAAGGCGAAAGTGCGAAGTT
423605 GCGAA
1 GCGAA
423610 TTAAGGCGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.43, T:0.12
Consensus pattern (22 bp):
GCGAAGGCGAAAGTGCGAAGTT
Found at i:423667 original size:22 final size:21
Alignment explanation
Indices: 423642--423758 Score: 69
Period size: 22 Copynumber: 5.3 Consensus size: 21
423632 GTATCGCTCC
423642 TTCGCATTCGCACCTTCGCACT
1 TTCGCATTCGCA-CTTCGCACT
423664 TTCGCCA-TCGCATCTTCGC-C-
1 TTCG-CATTCGCA-CTTCGCACT
* * * *
423684 GTCGCATCTTCGCAGTTTCGCTCC
1 TTCGCA--TTCGCA-CTTCGCACT
**
423708 TTCGCCGTCGCACTCTCGCACT
1 TTCGCATTCGCACT-TCGCACT
*
423730 TTCGCCTTCGCAACTTCGCACT
1 TTCGCATTCGC-ACTTCGCACT
*
423752 CTCGCAT
1 TTCGCAT
423759 CTTCGACCTA
Statistics
Matches: 74, Mismatches: 13, Indels: 16
0.72 0.13 0.16
Matches are distributed among these distances:
19 2 0.03
20 3 0.04
21 2 0.03
22 57 0.77
23 6 0.08
24 4 0.05
ACGTcount: A:0.11, C:0.42, G:0.16, T:0.31
Consensus pattern (21 bp):
TTCGCATTCGCACTTCGCACT
Found at i:423711 original size:30 final size:30
Alignment explanation
Indices: 423677--423757 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 30
423667 GCCATCGCAT
*
423677 CTTCGCCGTCGCA-TCTTCGCAGTTTCGCTC
1 CTTCGCCGTCGCACTC-TCGCACTTTCGCTC
423707 CTTCGCCGTCGCACTCTCGCACTTTCG--C
1 CTTCGCCGTCGCACTCTCGCACTTTCGCTC
*
423735 CTTCGCAACTTCGCACTCTCGCA
1 CTTCGC--CGTCGCACTCTCGCA
423758 TCTTCGACCT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
28 7 0.15
30 37 0.80
31 2 0.04
ACGTcount: A:0.10, C:0.43, G:0.17, T:0.30
Consensus pattern (30 bp):
CTTCGCCGTCGCACTCTCGCACTTTCGCTC
Found at i:423726 original size:14 final size:15
Alignment explanation
Indices: 423657--423723 Score: 61
Period size: 14 Copynumber: 4.6 Consensus size: 15
423647 ATTCGCACCT
*
423657 TCGCACT-TTCGCCA
1 TCGCACTCTTCGCCG
423671 TCGCA-TCTTCGCCG
1 TCGCACTCTTCGCCG
*
423685 TCGCA-TCTTCGCAG
1 TCGCACTCTTCGCCG
*
423699 TTTCGCTC-CTTCGCCG
1 --TCGCACTCTTCGCCG
423715 TCGCACTCT
1 TCGCACTCT
423724 CGCACTTTCG
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 1 0.02
14 29 0.67
15 2 0.05
16 11 0.26
ACGTcount: A:0.09, C:0.42, G:0.18, T:0.31
Consensus pattern (15 bp):
TCGCACTCTTCGCCG
Found at i:423747 original size:14 final size:16
Alignment explanation
Indices: 423715--423763 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
423705 TCCTTCGCCG
423715 TCGCACTCTCGC-ACTT
1 TCGCACTCTCGCAAC-T
423731 TCGC-CT-TCGCAACT
1 TCGCACTCTCGCAACT
*
423745 TCGCACTCTCGCATCT
1 TCGCACTCTCGCAACT
423761 TCG
1 TCG
423764 ACCTAAAGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 9 0.31
15 6 0.21
16 14 0.48
ACGTcount: A:0.12, C:0.43, G:0.14, T:0.31
Consensus pattern (16 bp):
TCGCACTCTCGCAACT
Found at i:426811 original size:2 final size:2
Alignment explanation
Indices: 426804--426873 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
426794 GAATTGATTT
426804 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
426846 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
426874 TGTACTTCCC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:427130 original size:2 final size:2
Alignment explanation
Indices: 427123--427177 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
427113 CAAGCACCTG
427123 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
427165 GA GA GA GA GA GA G
1 GA GA GA GA GA GA G
427178 CAATGAAACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Done.