Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold145
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: 1177157
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.31
Warning! 98840 characters in sequence are not A, C, G, or T
File 4 of 3
Found at i:749872 original size:32 final size:32
Alignment explanation
Indices: 749827--749902 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
749817 GATCAGCTGA
749827 CTCTCTCTCTCTGTCTCTGTCTGTCTGTCTCT
1 CTCTCTCTCTCTGTCTCTGTCTGTCTGTCTCT
* *
749859 CTCTCTCTTTCTGTCTCTGTCTGTCTGTCTGT
1 CTCTCTCTCTCTGTCTCTGTCTGTCTGTCTCT
749891 CTCTCTCTCTCT
1 CTCTCTCTCTCT
749903 CTAAAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.00, C:0.37, G:0.12, T:0.51
Consensus pattern (32 bp):
CTCTCTCTCTCTGTCTCTGTCTGTCTGTCTCT
Found at i:749932 original size:16 final size:14
Alignment explanation
Indices: 749905--749957 Score: 65
Period size: 15 Copynumber: 3.9 Consensus size: 14
749895 CTCTCTCTCT
749905 AAAAAAAAACAAAC
1 AAAAAAAAACAAAC
*
749919 --AAACAAACAAAC
1 AAAAAAAAACAAAC
*
749931 AAAAAAAACAAAAAC
1 AAAAAAAA-ACAAAC
749946 AAAAAAAAACAA
1 AAAAAAAAACAA
749958 GGCGGCTCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
12 11 0.34
14 8 0.25
15 13 0.41
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAACAAAC
Found at i:756534 original size:2 final size:2
Alignment explanation
Indices: 756527--756570 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
756517 GAAAGAGTAT
* *
756527 TC TC TC TC TC TC TC TT TC TC TC TC TC TC TT 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
756569 TC
1 TC
756571 ACACACAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:756548 original size:14 final size:14
Alignment explanation
Indices: 756529--756569 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
756519 AAGAGTATTC
756529 TCTCTCTCTCTCTT
1 TCTCTCTCTCTCTT
756543 TCTCTCTCTCTCTT
1 TCTCTCTCTCTCTT
756557 TCTCTCTCTCTCT
1 TCTCTCTCTCTCT
756570 CACACACAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (14 bp):
TCTCTCTCTCTCTT
Found at i:757608 original size:15 final size:15
Alignment explanation
Indices: 757588--757616 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
757578 AAAGAAGTAG
757588 TTAATATAAAAAAAA
1 TTAATATAAAAAAAA
757603 TTAATATAAAAAAA
1 TTAATATAAAAAAA
757617 TCATAACTAT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
TTAATATAAAAAAAA
Found at i:759251 original size:2 final size:2
Alignment explanation
Indices: 759244--759298 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
759234 ACTGACATAC
759244 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
759286 GA GA GA GA GA GA G
1 GA GA GA GA GA GA G
759299 NNNNNNNNNN
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
Found at i:759963 original size:19 final size:20
Alignment explanation
Indices: 759921--759963 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
759911 AGGAACAGTG
*
759921 AACATTTATGACTACATAAG
1 AACATTTATGACTACATAAA
759941 AACATTTAT-AGCT-CATAAA
1 AACATTTATGA-CTACATAAA
759960 AACA
1 AACA
759964 GCAGCTTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.28
Consensus pattern (20 bp):
AACATTTATGACTACATAAA
Found at i:764306 original size:22 final size:23
Alignment explanation
Indices: 764277--764335 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 23
764267 AAAACAACAG
*
764277 CAACAAAAAAAAAAATTA-CCAA
1 CAACAAAAAAAAAAAATACCCAA
*
764299 -AACAAAAAACTAAAAATACCCAA
1 CAACAAAAAA-AAAAAATACCCAA
*
764322 CAACAAAAACAAAA
1 CAACAAAAAAAAAA
764336 TATAAAAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 9 0.30
22 6 0.20
23 7 0.23
24 8 0.27
ACGTcount: A:0.73, C:0.20, G:0.00, T:0.07
Consensus pattern (23 bp):
CAACAAAAAAAAAAAATACCCAA
Found at i:764307 original size:23 final size:24
Alignment explanation
Indices: 764271--764335 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
764261 CATAAAAAAA
*
764271 CAACAGCAACAAAAAAAAAAATTA-C
1 CAACAACAA-AAAAAAAAAAA-TACC
**
764296 CAA-AACAAAAAACTAAAAATACC
1 CAACAACAAAAAAAAAAAAATACC
*
764319 CAACAACAAAAACAAAA
1 CAACAACAAAAAAAAAA
764336 TATAAAAAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
22 2 0.06
23 13 0.41
24 14 0.44
25 3 0.09
ACGTcount: A:0.71, C:0.22, G:0.02, T:0.06
Consensus pattern (24 bp):
CAACAACAAAAAAAAAAAAATACC
Found at i:764336 original size:21 final size:20
Alignment explanation
Indices: 764277--764337 Score: 56
Period size: 23 Copynumber: 3.0 Consensus size: 20
764267 AAAACAACAG
764277 CAACAA-AAAAA-AAAATTAC
1 CAACAACAAAAACAAAA-TAC
764296 CAA-AACAAAAAACTAAAAATACC
1 CAACAAC-AAAAAC--AAAATA-C
764319 CAACAACAAAAACAAAATA
1 CAACAACAAAAACAAAATA
764338 TAAAAAGACC
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
18 2 0.06
19 3 0.09
20 5 0.14
21 6 0.17
22 2 0.06
23 14 0.40
24 3 0.09
ACGTcount: A:0.72, C:0.20, G:0.00, T:0.08
Consensus pattern (20 bp):
CAACAACAAAAACAAAATAC
Found at i:764399 original size:14 final size:14
Alignment explanation
Indices: 764382--764410 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
764372 CAAAATATTG
764382 AAAAAAAAAAATAA
1 AAAAAAAAAAATAA
764396 AAAAAAAAAAATAA
1 AAAAAAAAAAATAA
764410 A
1 A
764411 GGAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (14 bp):
AAAAAAAAAAATAA
Found at i:765061 original size:19 final size:20
Alignment explanation
Indices: 765025--765062 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
765015 TAATTTATAA
* *
765025 ATTATTAAAAAGAGCAAAAC
1 ATTAATAAAAAGACCAAAAC
765045 ATTAATAAAAA-ACCAAAA
1 ATTAATAAAAAGACCAAAA
765063 TAATTAGCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.66, C:0.11, G:0.05, T:0.18
Consensus pattern (20 bp):
ATTAATAAAAAGACCAAAAC
Found at i:771849 original size:2 final size:2
Alignment explanation
Indices: 771844--771892 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
771834 TTAAAAATAA
771844 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
771886 CT CT CT C
1 CT CT CT C
771893 CATAAACACA
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:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:796421 original size:24 final size:23
Alignment explanation
Indices: 796381--796428 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
796371 TTATGTATAG
796381 AATGGACAATATGCGTATTTCTAA
1 AATGGACAATATGCGTATTT-TAA
*
796405 AATGGAC-ATAATTCGTATTTTAA
1 AATGGACAAT-ATGCGTATTTTAA
796428 A
1 A
796429 CACTTCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (23 bp):
AATGGACAATATGCGTATTTTAA
Found at i:798260 original size:21 final size:21
Alignment explanation
Indices: 798236--798280 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
798226 CTGAGGAAGT
798236 ACAAAACATAACGATAAAAGC
1 ACAAAACATAACGATAAAAGC
* * * *
798257 ACAACACATTATGATACAAGC
1 ACAAAACATAACGATAAAAGC
798278 ACA
1 ACA
798281 CCACATAATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.22, G:0.09, T:0.13
Consensus pattern (21 bp):
ACAAAACATAACGATAAAAGC
Found at i:798285 original size:21 final size:21
Alignment explanation
Indices: 798241--798524 Score: 394
Period size: 21 Copynumber: 13.5 Consensus size: 21
798231 GAAGTACAAA
* * *
798241 ACATAACGATAAAAGCACAAC
1 ACATAATGATACAAGCACACC
*
798262 ACATTATGATACAAGCACACC
1 ACATAATGATACAAGCACACC
*
798283 ACATAATGATACAAGGACACC
1 ACATAATGATACAAGCACACC
* *
798304 ACACAATGATATAAGCACA-C
1 ACATAATGATACAAGCACACC
798324 ACATAATGATACAAGGACACACC
1 ACATAATGATACAA-G-CACACC
798347 ACATAATGATACAAGCACACC
1 ACATAATGATACAAGCACACC
798368 ACATAATGATACAAGCACACC
1 ACATAATGATACAAGCACACC
*
798389 ACATAATGATACAAGAACACC
1 ACATAATGATACAAGCACACC
*
798410 ACATAATGATACACTG-ACACC
1 ACATAATGATACA-AGCACACC
798431 ACATAATGATACAAGCACACC
1 ACATAATGATACAAGCACACC
*
798452 ACATAATGATACAAGGACACC
1 ACATAATGATACAAGCACACC
*
798473 ACATAATGATACAAGCTCACC
1 ACATAATGATACAAGCACACC
** *
798494 ACATAATGATA-AAGCATGCT
1 ACATAATGATACAAGCACACC
798514 ACATAATGATA
1 ACATAATGATA
798525 TATTTGCATA
Statistics
Matches: 237, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
20 30 0.13
21 186 0.78
22 6 0.03
23 15 0.06
ACGTcount: A:0.48, C:0.25, G:0.11, T:0.16
Consensus pattern (21 bp):
ACATAATGATACAAGCACACC
Found at i:805228 original size:25 final size:25
Alignment explanation
Indices: 805191--805266 Score: 100
Period size: 25 Copynumber: 3.0 Consensus size: 25
805181 GTCCATCATG
*
805191 TCTCTGGTAGTGTGTTGTTTTAAGT
1 TCTCTTGTAGTGTGTTGTTTTAAGT
*
805216 TCTCTTG-AGGTGTGTTGTTTAAAGT
1 TCTCTTGTA-GTGTGTTGTTTTAAGT
* *
805241 TCTCTTGTACTGTATTGTTTTAAGT
1 TCTCTTGTAGTGTGTTGTTTTAAGT
805266 T
1 T
805267 TTTTTCAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
24 1 0.02
25 42 0.95
26 1 0.02
ACGTcount: A:0.14, C:0.09, G:0.24, T:0.53
Consensus pattern (25 bp):
TCTCTTGTAGTGTGTTGTTTTAAGT
Found at i:809683 original size:21 final size:23
Alignment explanation
Indices: 809657--809704 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
809647 AAAAAGTCTG
*
809657 ATTATAT-ATC-GAACTTTATTA
1 ATTATATAATCAGAACTTCATTA
809678 ATTATATCAATCAGAACTTCATTA
1 ATTATAT-AATCAGAACTTCATTA
809702 ATT
1 ATT
809705 TTACCAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
23 3 0.13
24 13 0.57
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (23 bp):
ATTATATAATCAGAACTTCATTA
Found at i:809716 original size:24 final size:24
Alignment explanation
Indices: 809667--809717 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
809657 ATTATATATC
* * *
809667 GAACTTTATTAATTATATCAATCA
1 GAACTTCATTAATTATACCAACCA
*
809691 GAACTTCATTAATTTTACCAACCA
1 GAACTTCATTAATTATACCAACCA
809715 GAA
1 GAA
809718 AAGAAAGTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (24 bp):
GAACTTCATTAATTATACCAACCA
Found at i:810850 original size:2 final size:2
Alignment explanation
Indices: 810845--810890 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
810835 GATGATGTGT
810845 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
810887 GA GA
1 GA GA
810891 AGGAATAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:821516 original size:14 final size:14
Alignment explanation
Indices: 821497--821524 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
821487 ATGTCAACTG
821497 ATATAGATACAAAC
1 ATATAGATACAAAC
821511 ATATAGATACAAAC
1 ATATAGATACAAAC
821525 TTCTATACTA
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:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (14 bp):
ATATAGATACAAAC
Found at i:829047 original size:65 final size:65
Alignment explanation
Indices: 828943--829073 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
828933 TGTTTTCACT
828943 CGTGGTGCTATGCCAAAAATGGCCGACTTTTAACTCGTAATTTACGGTGTCTTAAGGTTTGAAGA
1 CGTGGTGCTATGCCAAAAATGGCCGACTTTTAACTCGTAATTTACGGTGTCTTAAGGTTTGAAGA
829008 CGTGGTGCTATGCCAAAAATGGCCGACTTTTAACTCGTAATTTACGGTGTCTTAAGGTTTGAAGA
1 CGTGGTGCTATGCCAAAAATGGCCGACTTTTAACTCGTAATTTACGGTGTCTTAAGGTTTGAAGA
829073 C
1 C
829074 ACGTTTTGAG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (65 bp):
CGTGGTGCTATGCCAAAAATGGCCGACTTTTAACTCGTAATTTACGGTGTCTTAAGGTTTGAAGA
Found at i:830966 original size:17 final size:17
Alignment explanation
Indices: 830944--830977 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
830934 AACAATGCAC
* *
830944 TGGCGAGAAATGGTCAT
1 TGGCGAAAAATCGTCAT
830961 TGGCGAAAAATCGTCAT
1 TGGCGAAAAATCGTCAT
830978 ATGCCAGTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (17 bp):
TGGCGAAAAATCGTCAT
Found at i:831430 original size:77 final size:77
Alignment explanation
Indices: 831160--831430 Score: 357
Period size: 77 Copynumber: 3.5 Consensus size: 77
831150 AACCAAACTT
** * * *
831160 AAATCTACATACCCCGTTTATCGATTGGT-GAAAACTCACAACGACTGAAACAAGCTGACCGGAA
1 AAATCTACACGCCCCGTTTATCGATTGGTCGAAACCT-ACAACGACTGAAACTAGCTGACAGGAA
831224 ACTGACAGGACTG
65 ACTGACAGGACTG
* * * * * *
831237 AAATCTACATGCCCCTTTTATCTATTGGTGGAAACCTATAACGACTGAATCTAGCTGACAGGAAA
1 AAATCTACACGCCCCGTTTATCGATTGGTCGAAACCTACAACGACTGAAACTAGCTGACAGGAAA
831302 CTGACAGGACTG
66 CTGACAGGACTG
* * *
831314 AAATATACACGCCCCGTTTATCGCTTGGTCGAAAGCTACAACGACTGAAACTAGCTGACAGGAAA
1 AAATCTACACGCCCCGTTTATCGATTGGTCGAAACCTACAACGACTGAAACTAGCTGACAGGAAA
*
831379 CTGAGAGGACTG
66 CTGACAGGACTG
* *
831391 AAATCTACACGTCCCC-TTTATCGATTTGTCGATACCTACA
1 AAATCTACACG-CCCCGTTTATCGATTGGTCGAAACCTACA
831431 GCGATCTACG
Statistics
Matches: 169, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
77 159 0.94
78 10 0.06
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (77 bp):
AAATCTACACGCCCCGTTTATCGATTGGTCGAAACCTACAACGACTGAAACTAGCTGACAGGAAA
CTGACAGGACTG
Found at i:832219 original size:32 final size:33
Alignment explanation
Indices: 832153--832229 Score: 138
Period size: 33 Copynumber: 2.4 Consensus size: 33
832143 GATTTTGGTC
832153 TCAATTTTCAACGTTGAAAAATGACCCCCCGGG
1 TCAATTTTCAACGTTGAAAAATGACCCCCCGGG
*
832186 TCAATATTCAACGTTGAAAAATGA-CCCCCGGG
1 TCAATTTTCAACGTTGAAAAATGACCCCCCGGG
832218 TCAATTTTCAAC
1 TCAATTTTCAAC
832230 CCGGGTCAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
32 19 0.45
33 23 0.55
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (33 bp):
TCAATTTTCAACGTTGAAAAATGACCCCCCGGG
Found at i:842841 original size:25 final size:25
Alignment explanation
Indices: 842807--842858 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
842797 AATTATTTTT
* * *
842807 ATATATGTGAAGTGTGAGCTAGCTG
1 ATATAAGTGAAATGTGAGATAGCTG
*
842832 ATATAAGTGAAATGTGAGATAGTTG
1 ATATAAGTGAAATGTGAGATAGCTG
842857 AT
1 AT
842859 GTTGTCATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.33
Consensus pattern (25 bp):
ATATAAGTGAAATGTGAGATAGCTG
Found at i:845659 original size:4 final size:4
Alignment explanation
Indices: 845652--845698 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
845642 AGAAAAAGAG
* * *
845652 AGAC AGAC AGAT GGAC AGAC AGAC AGAC AGAC AGAC AGAG AGAC AGA
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGA
845699 TGCATACACC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.49, C:0.19, G:0.30, T:0.02
Consensus pattern (4 bp):
AGAC
Found at i:856819 original size:47 final size:47
Alignment explanation
Indices: 856774--857673 Score: 1710
Period size: 47 Copynumber: 19.1 Consensus size: 47
856764 ATGTGATTTT
*
856774 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGATTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
*
856821 AGTTTGACTTGTCTTGCAGTAATTGATCTGTAACATTCTGTGGTTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
* * * *
856868 AGTCTGACTTGTCTAGGAGTACTTGATCTGTAACATTCTGTGATTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
856915 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
856962 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
857009 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
857056 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
857103 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
857150 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
857197 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
857244 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
857291 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
857338 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
857385 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
857432 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
857479 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
* *
857526 AGTTTGACTTGTGTTGGAGTAATTGATCTGTAACATTCTGTGATTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
857573 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
* *
857620 AGTTTGACTTGTGTTGGAGTAATTGATCTGTAACATTCTGTGATTTC
1 AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
857667 AGTTTGA
1 AGTTTGA
857674 TGCCAATTTA
Statistics
Matches: 836, Mismatches: 17, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 836 1.00
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.44
Consensus pattern (47 bp):
AGTTTGACTTGTCTTGGAGTAATTGATCTGTAACATTCTGTGGTTTC
Found at i:858510 original size:63 final size:63
Alignment explanation
Indices: 858411--858674 Score: 510
Period size: 63 Copynumber: 4.2 Consensus size: 63
858401 AAGAGATGAG
*
858411 GGTATAAACCAGTCCATGTCAATTGTGTGTGTGTGATTGAGATTTGATTGATGTCTTGATATA
1 GGTATAAACCAGGCCATGTCAATTGTGTGTGTGTGATTGAGATTTGATTGATGTCTTGATATA
858474 GGTATAAACCAGGCCATGTCAATTGTGTGTGTGTGATTGAGATTTGATTGATGTCTTGATATA
1 GGTATAAACCAGGCCATGTCAATTGTGTGTGTGTGATTGAGATTTGATTGATGTCTTGATATA
858537 GGTATAAACCAGGCCATGTCAATTGTGTGTGTGTGATTGAGATTTGATTGATGTCTTGATATA
1 GGTATAAACCAGGCCATGTCAATTGTGTGTGTGTGATTGAGATTTGATTGATGTCTTGATATA
*
858600 GGTATAAACCAGGCCATGTCAATTGTGTGTGTGTGATTGAGATTTGATTGATGTCTTCATATA
1 GGTATAAACCAGGCCATGTCAATTGTGTGTGTGTGATTGAGATTTGATTGATGTCTTGATATA
858663 GGTATAAACCAG
1 GGTATAAACCAG
858675 CGCCCAAGAA
Statistics
Matches: 199, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 199 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.38
Consensus pattern (63 bp):
GGTATAAACCAGGCCATGTCAATTGTGTGTGTGTGATTGAGATTTGATTGATGTCTTGATATA
Found at i:869760 original size:19 final size:18
Alignment explanation
Indices: 869738--869773 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
869728 AAATTAGTTA
869738 ACATGTAGTGAGATTGATT
1 ACATGTAGTGAG-TTGATT
*
869757 ACATGTATTGAGTTGAT
1 ACATGTAGTGAGTTGAT
869774 CATATGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.39
Consensus pattern (18 bp):
ACATGTAGTGAGTTGATT
Found at i:869780 original size:18 final size:19
Alignment explanation
Indices: 869738--869781 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
869728 AAATTAGTTA
*
869738 ACATGTAGTGAGATTGATT
1 ACATGTAGTGAGATTGATC
*
869757 ACATGTATTGAG-TTGATC
1 ACATGTAGTGAGATTGATC
*
869775 ATATGTA
1 ACATGTA
869782 ATAAAGTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.39
Consensus pattern (19 bp):
ACATGTAGTGAGATTGATC
Found at i:870269 original size:31 final size:31
Alignment explanation
Indices: 870241--871034 Score: 1408
Period size: 31 Copynumber: 25.6 Consensus size: 31
870231 AGATACAATA
* * * *
870241 TACAACACCACAGACCATTACAGATACAATG
1 TACAACACCACAGAACGTTACAGTTACAGTG
*
870272 TACAACACCACAGAACATTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870303 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
*
870334 TACAACACCACAGAACGTTACAGATACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870365 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870396 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870427 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870458 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
*
870489 TACAACACCACAGAACGTTACAGATACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
*
870520 TACAACACCACAGAACGTTACAGATACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870551 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870582 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870613 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870644 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870675 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870706 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870737 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870768 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870799 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870830 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
870861 TACAACACCACAGAACGTTACAGTTACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
*
870892 TACAACACCACAGAACGTTACAGATACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
*
870923 TACAACACCACAGAACGTTACAGATACAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
* * **
870954 TACAACACCACAGAACATTACAGATGTAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
* *
870985 TACAACACCACAGAACGTTACAGATGCAGTG
1 TACAACACCACAGAACGTTACAGTTACAGTG
* * * *
871016 TTCAAAATCATAGAACGTT
1 TACAACACCACAGAACGTT
871035 TAAGATGCAG
Statistics
Matches: 745, Mismatches: 18, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 745 1.00
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.19
Consensus pattern (31 bp):
TACAACACCACAGAACGTTACAGTTACAGTG
Found at i:896445 original size:14 final size:14
Alignment explanation
Indices: 896428--896458 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
896418 TTTGTTTCTG
*
896428 TAAGTTTATCCGGA
1 TAAGTGTATCCGGA
896442 TAAGTGTATCCGGA
1 TAAGTGTATCCGGA
896456 TAA
1 TAA
896459 TCTGCAACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (14 bp):
TAAGTGTATCCGGA
Found at i:898301 original size:2 final size:2
Alignment explanation
Indices: 898296--898326 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
898286 TATTTTTTAT
898296 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
898327 TTGGAGTGGG
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:898667 original size:2 final size:2
Alignment explanation
Indices: 898660--898690 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
898650 AACAAACTTT
898660 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 T
898691 TTAGACATGC
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:922318 original size:18 final size:18
Alignment explanation
Indices: 922295--922331 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
922285 TTTCCTTAGT
922295 TAGAATAATCTAACTGTG
1 TAGAATAATCTAACTGTG
922313 TAGAATAATCTAACTGTG
1 TAGAATAATCTAACTGTG
922331 T
1 T
922332 CTCGGGAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (18 bp):
TAGAATAATCTAACTGTG
Found at i:922971 original size:23 final size:23
Alignment explanation
Indices: 922945--922996 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
922935 AGTAGTAAAG
*
922945 ATTATAGCATTATATAGAATATA
1 ATTATAGCATTATATAAAATATA
* *
922968 ATTATCGCATTTTATAAAATATA
1 ATTATAGCATTATATAAAATATA
922991 ATTATA
1 ATTATA
922997 ACCATAAACG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (23 bp):
ATTATAGCATTATATAAAATATA
Found at i:923679 original size:2 final size:2
Alignment explanation
Indices: 923672--923743 Score: 81
Period size: 2 Copynumber: 35.0 Consensus size: 2
923662 NNNNATAGAT
* * * *
923672 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA AA CCA TA CA TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA -TA TA TA TA
*
923716 TA TA TA TA TA TA TA TC TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
923744 GACCAAACCT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 57 0.97
3 2 0.03
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:927950 original size:31 final size:31
Alignment explanation
Indices: 927915--928023 Score: 94
Period size: 32 Copynumber: 3.5 Consensus size: 31
927905 ATTATTCCTG
927915 GTACGACTTAACAAAACCCGAATGATTTTAA
1 GTACGACTTAACAAAACCCGAATGATTTTAA
* **** *
927946 GTACGATTTAACAAAAACCTTTTTGATTTCAA
1 GTACGACTTAAC-AAAACCCGAATGATTTTAA
* * * *
927978 GAACGACTTTAAAAAAATCCGAATG-TGTTTGA
1 GTACGAC-TTAACAAAACCCGAATGAT-TTTAA
928010 GTACGACTTAACAA
1 GTACGACTTAACAA
928024 TTATTTTTGG
Statistics
Matches: 57, Mismatches: 18, Indels: 6
0.70 0.22 0.07
Matches are distributed among these distances:
31 18 0.32
32 35 0.61
33 4 0.07
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (31 bp):
GTACGACTTAACAAAACCCGAATGATTTTAA
Found at i:929051 original size:436 final size:433
Alignment explanation
Indices: 928197--929179 Score: 1348
Period size: 436 Copynumber: 2.3 Consensus size: 433
928187 AGCTGCTTTG
* * * * * *
928197 TTGCTTTATAATAAATATC-AAATTTTGGTCAGAAAAGAGTTATCGTAAAAAGACTTAGTAGCCC
1 TTGCTTTATAATTAATAACAAAATATTGTTCAGTAAAGAGTTATTGTAAAAAGACTTAG-AGCCC
* ** * *
928261 TTGTACCCCCTAATTTGTGGAGCCAGCCCCTTTTTCTTGATATCAAATAAAAGGTCTCGCTAATA
65 TTTTGGCCCCTAATTTGAGG-GCCAGCCCCTTTTTCTTGATATCAAATAAAAGGTCTCGCAAATA
* *
928326 TAAACATATTTTGTTCTACAAGTGTTCATGAATTGTAAACCGTTCTCGAGATATATGTACAAATG
129 TAAACATATTTTGTTCAACAAGTGTTCATGAAATGTAAACCGTTCTCGAGATATATGTACAAATG
* * ** *
928391 TGTTTTAAGGGCCGACCCTTTAACCCCTTACCGGGGCCACTAACAACAAAATTTTTGGTTTAATA
194 TGTTTTAAGGGCCGACCCTTTAACCCCTAAACGGGGCCACTAACAACAAAATTTAAGGTATAATA
* **
928456 TTGTTCAGAACATTATTTTGAACAACTTTTGTTCTACACTGCTTTTTAAAATATTTCTCCTTTTT
259 TTGTACAGAACACCATTTTGAACAACTTTTGTTCTACACTGCTTTTTAAAATATTTCTCCTTTTT
* * * * *
928521 CAGATATTAATGATCATAGTTTTGAGTTCTGGCCCCTTGAAACCCCTAATTAGGTAATATATGAC
324 CAGATATTAATGATAAAAGTTTTGACTTCTGGCCCCTTGAAACCCCTAATTACGTAACATATGAC
* * * *
928586 TTAGGTATGGTACTGTATAGTTGAACAGCTGTACAATGAACATTT
389 TTAAGTATGATACTGTATAGATAAACAGCTGTACAATGAACATTT
928631 TTGCTTCTATAATTAATAACAAAATATTGTTCAGTAAAGAGTTATTGTAAAAAGACATTAGAGCC
1 TTGCTT-TATAATTAATAACAAAATATTGTTCAGTAAAGAGTTATTGTAAAAAGAC-TTAGAGCC
** *
928696 CTTTTGGCCCCTAATTTGAGAGGCCAGCCCCTTTTTCTTGATATCAAATTTAAGGTCTTGCAAAT
64 CTTTTGGCCCCTAATTTGAG-GGCCAGCCCCTTTTTCTTGATATCAAATAAAAGGTCTCGCAAAT
* * * * *
928761 TTAAACATATTTTGTTCAACAAGTGTTCATGAAATGTTAACCGTTCTTGAGATATCTGTACGAAT
128 ATAAACATATTTTGTTCAACAAGTGTTCATGAAATGTAAACCGTTCTCGAGATATATGTACAAAT
* * * * *
928826 GTGTTTTAGGGGCCGACCCTTTAACTCCTAAATGGGGTCA-TAAACAA-AAACATTTAAGGTATC
193 GTGTTTTAAGGGCCGACCCTTTAACCCCTAAACGGGGCCACT-AACAACAAA-ATTTAAGGTATA
*
928889 ATATTG-ACAAGAACACCATTTT-AAGCAACTTTTGTTCTACATTGC-TTTTAAAATATTTCTCC
256 ATATTGTAC-AGAACACCATTTTGAA-CAACTTTTGTTCTACACTGCTTTTTAAAATATTTCTCC
928951 TTTTTCAGATATTAATGATAAAAGTTTTGAACTTCTGGCCCCTTGAAACCCCTAATTACGTAACA
319 TTTTTCAGATATTAATGATAAAAGTTTTG-ACTTCTGGCCCCTTGAAACCCCTAATTACGTAACA
929016 TATGACTTAAGTATGATACTGTATAGATAAACAGCTGTACAATGAACATTT
383 TATGACTTAAGTATGATACTGTATAGATAAACAGCTGTACAATGAACATTT
* * *
929067 TTGCTTATATAATTAATAACAAATTATTGTTCAGTAAAGAGTTATTGTAAGAGGACTTTAGAGCC
1 TTGCTT-TATAATTAATAACAAAATATTGTTCAGTAAAGAGTTATTGTAAAAAGAC-TTAGAGCC
** * *
929132 CCCTTGGCCCCTTATTTGAGGGGTCAGCCCCTTTTTCTTGATATCAAA
64 CTTTTGGCCCCTAATTTGA-GGGCCAGCCCCTTTTTCTTGATATCAAA
929180 GGAAAGCTCG
Statistics
Matches: 486, Mismatches: 53, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
434 6 0.01
435 62 0.13
436 412 0.85
437 6 0.01
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.36
Consensus pattern (433 bp):
TTGCTTTATAATTAATAACAAAATATTGTTCAGTAAAGAGTTATTGTAAAAAGACTTAGAGCCCT
TTTGGCCCCTAATTTGAGGGCCAGCCCCTTTTTCTTGATATCAAATAAAAGGTCTCGCAAATATA
AACATATTTTGTTCAACAAGTGTTCATGAAATGTAAACCGTTCTCGAGATATATGTACAAATGTG
TTTTAAGGGCCGACCCTTTAACCCCTAAACGGGGCCACTAACAACAAAATTTAAGGTATAATATT
GTACAGAACACCATTTTGAACAACTTTTGTTCTACACTGCTTTTTAAAATATTTCTCCTTTTTCA
GATATTAATGATAAAAGTTTTGACTTCTGGCCCCTTGAAACCCCTAATTACGTAACATATGACTT
AAGTATGATACTGTATAGATAAACAGCTGTACAATGAACATTT
Found at i:930998 original size:437 final size:436
Alignment explanation
Indices: 930174--931099 Score: 1214
Period size: 437 Copynumber: 2.1 Consensus size: 436
930164 ATGACTTTGT
* * *
930174 AGCCCTTTTAGCCCCTTATTTGAGGGGCTGACCCCTTTTTCTTGATATCAAATGAAAGGTCTTGA
1 AGCCCTTTTAGCCCCTTATTTGAGGGGC-CAGCCCTTTTTCTTGATATCAAATAAAAGGTCTTGA
* * * *
930239 AAATATAAACATATTTTGTTACACAAGTATTCACGAATTGCTAACCGTTCTAGAGATATCCAAAC
65 AAATATAAACACATTTTGTCACACAAGTATTCACGAACTGCTAACCGTTCTAAAGATATCCAAAC
* * * *
930304 AACTGTGTTTCAGGGGCCGACCCTTAAACTCCTTACCAGGGCCACCAAAAAAATATTTTTAGATC
130 AACTGTGTTTCAGGGGCCGACCCTTAAAATCCTTACCAGGGCCACCAAAAAAATATATTAAGATA
** * * *
930369 CCATATTGTTAAGAACATTTTTTTGAGCAACTTTTCTTCTACAAGGCTTTTCAAAATATTTCTCC
195 CCATATTGTTAAGAACATCATTCTAAGCAACTTTTCTTCTACAAGGCTTATCAAAATATTTCTCC
* * * * * *
930434 TTTTCTAGATATTAAAATGAAATTTTTTAGACCTCTGGCCCCTTGAAACCCCTAATTACGTATCA
260 TTTTCTAGAAACTAAAATCAAAGTTTTGAGACCTCTGGCCCCTTGAAACCCCTAATTACGTAACA
* * * * * *
930499 TATGTCTTAAGTATGGTACCGTATAGATAAACAGATGTTCAATTAACATTTTTGGTTCTATAACT
325 TATGACTTAAGCATGGTACCGTATAAATAAACAGATATACAATGAACATTTTTGGTTCTATAACT
**
930564 GATAACAAATTATTTTTCAGTAAAGAGTTATTATTAAAAGACTTAAG
390 GATAACAAATTATTTTTCAGTAAAGAGTTATTACCAAAAGACTTAAG
* * * *
930611 AGCCCTCTTGGCCCCTTATTTGAGGGGCCAGCCCTTATTCCTTGATATCAAATAAAAGGTCTTGT
1 AGCCCTTTTAGCCCCTTATTTGAGGGGCCAGCCCTT-TTTCTTGATATCAAATAAAAGGTCTTGA
* * * **
930676 AAATATAAAGACATTTTGCTCA-ACAAGTGA-TCA-GAAACTGTTGACCGTTCTAAAGATATCTG
65 AAATATAAACACATTTTG-TCACACAAGT-ATTCACG-AACTGCTAACCGTTCTAAAGATATCCA
* * **
930738 AACAATTGTGTTTTAGGGGCCGACCCTTAAAATCCTTACTGGGGCCACCAACAAAAAT-TATTAA
127 AACAACTGTGTTTCAGGGGCCGACCCTTAAAATCCTTACCAGGGCCACCAA-AAAAATATATTAA
* * ** * * *
930802 GGTAGCATATTGTTAAGAACATCATTCTAAGCATTTTTTGTTCTATAATGCTTATCAAAATATTT
191 GATACCATATTGTTAAGAACATCATTCTAAGCAACTTTTCTTCTACAAGGCTTATCAAAATATTT
*
930867 CTCCTTTTCTAGAAACTAAAGATCAAAGTTTTGA-ACTTCTGGCCCCTTGAAACCCCTAATTACG
256 CTCCTTTTCTAGAAACTAAA-ATCAAAGTTTTGAGACCTCTGGCCCCTTGAAACCCCTAATTACG
* *
930931 TAACATATGACTTAGGCATGGTACTGTATAAATAAACAGATATACAATGAACATTTTTGGTTCTA
320 TAACATATGACTTAAGCATGGTACCGTATAAATAAACAGATATACAATGAACATTTTTGGTTCTA
* * *
930996 TAATTGATTACAAATTATTTTTCAGTAAAGAGTTATTGCCAAAAGACTTAAG
385 TAACTGATAACAAATTATTTTTCAGTAAAGAGTTATTACCAAAAGACTTAAG
* * *
931048 AGCCATTTTTGCCCCTTATTTGAGGGGCCAGCCCCTTTTTCTTGAAATCAAA
1 AGCCCTTTTAGCCCCTTATTTGAGGGGCCAG-CCCTTTTTCTTGATATCAAA
931100 CGCATGTCCT
Statistics
Matches: 421, Mismatches: 61, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
436 7 0.02
437 390 0.93
438 24 0.06
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (436 bp):
AGCCCTTTTAGCCCCTTATTTGAGGGGCCAGCCCTTTTTCTTGATATCAAATAAAAGGTCTTGAA
AATATAAACACATTTTGTCACACAAGTATTCACGAACTGCTAACCGTTCTAAAGATATCCAAACA
ACTGTGTTTCAGGGGCCGACCCTTAAAATCCTTACCAGGGCCACCAAAAAAATATATTAAGATAC
CATATTGTTAAGAACATCATTCTAAGCAACTTTTCTTCTACAAGGCTTATCAAAATATTTCTCCT
TTTCTAGAAACTAAAATCAAAGTTTTGAGACCTCTGGCCCCTTGAAACCCCTAATTACGTAACAT
ATGACTTAAGCATGGTACCGTATAAATAAACAGATATACAATGAACATTTTTGGTTCTATAACTG
ATAACAAATTATTTTTCAGTAAAGAGTTATTACCAAAAGACTTAAG
Found at i:932880 original size:433 final size:435
Alignment explanation
Indices: 932055--932938 Score: 1153
Period size: 433 Copynumber: 2.0 Consensus size: 435
932045 AGGGATCAGA
* *
932055 CCCTTTTTCTTGATATCAAATAAAAGATCTCGCTAATATAAACATATTTTGTTCTACAAATGTTC
1 CCCTTTTTCTTGATATCAAATAAAAGATCTCGCAAATATAAACATATTTTGTTCAACAAATGTTC
* * *
932120 ACGAATGGTTATCCGTTACCGAGATATCTAAACAACTGTATTTTAGGGGCCGACCCTTTAACTCT
66 ACGAATGGTTAACCGTTACCGAGATATCTAAACAAATGTATTTTAGGGGCCGACCCTTTAACTCC
*** * * * *
932185 TTGCCGGGGCCACTAACAACAAAATTTATGGCATCATATTGTTCAGAACATTATTTTGAACAACT
131 TAAACGGGGCCACTAACAACAAAATTTAAGGCAGCATATTGTACAAAACATTATTTTGAACAACT
* *
932250 TTTGTTCTACATTGCTTTTAAAAATATTTCTCCTTTTTCAGATATTAATGATCAAAGTTTTGAAT
196 TTAGTTCTACAATGCTTTTAAAAATATTTCTCCTTTTTCAGATATTAATGATCAAAGTTTTGAAT
* *
932315 TCTGGCCCCTTGAAATCCCTAATTACGTAAAATATGACTTAGTATGATACTGTATAGATAAACAG
261 TCTGGCCACTTGAAACCCCTAATTACGTAAAATATGACTTAGTATGATACTGTATAGATAAACAG
* * *
932380 TCCAACAATGAACATTTTTGCTTCTATAATTAATAACAAATTATTGTTCAATAAAGAGTTCTTGT
326 CCCAACAATGAACATTTTTGCTTCTATAATTAATAACAAATTATTATTCAATAAAGAGTTATTGT
*
932445 AAGAAG-TTTTA-AGACCCCTCTTGACCCCTAAATGGAGGGGCCAGC
391 AAGAAGACTTTACAG--CCCTCTTGACCCCTAAATGGAGGGGCCAGC
* * * * * *
932490 CCCTTTTTCTTGATATCAACTGAAAGGTCTTGCAAATATAAACATGTTTTGTTCAACAAGTGTTC
1 CCCTTTTTCTTGATATCAAATAAAAGATCTCGCAAATATAAACATATTTTGTTCAACAAATGTTC
** ** * * *
932555 ACGAAAT-GTTAACCGTT-CTTAGGATATCTTTACAAATG-GTTTTAGGGGCCGGCCCTTTATCT
66 ACG-AATGGTTAACCGTTACCGA-GATATCTAAACAAATGTATTTTAGGGGCCGACCCTTTAACT
* * * **
932617 CCTAAATGGGGTCA-TGAGCAA-AAAGATTTAAGGTGGCATATTGTACAAAACATTATTTT-AAG
129 CCTAAACGGGGCCACT-AACAACAAA-ATTTAAGGCAGCATATTGTACAAAACATTATTTTGAA-
** *
932679 CAACTTTAGTTCTACAATGCTTTTTGAAATA-TT-T-CTTTTTCATATATTAATGATCGAAA-TT
191 CAACTTTAGTTCTACAATGCTTTTAAAAATATTTCTCCTTTTTCAGATATTAATGATC-AAAGTT
* * * *
932740 TTGAATTTCTGGCCACTTGAAACCCCTTATTACGTAACATATGACTTAAGTATGGTACTGTTTAG
255 TTGAA-TTCTGGCCACTTGAAACCCCTAATTACGTAAAATATGACTT-AGTATGATACTGTATAG
*
932805 ATAAACAGCCCAACAATGAACATTTTTGCTTCTATAATTAATAACAAATTATTATTCAGTAAAGA
318 ATAAACAGCCCAACAATGAACATTTTTGCTTCTATAATTAATAACAAATTATTATTCAATAAAGA
* * *
932870 GTTATTGTAAGAAGACTTTACAGCCCTCTTGGCCCCTAATTTGAGGGGCCAGC
383 GTTATTGTAAGAAGACTTTACAGCCCTCTTGACCCCTAAATGGAGGGGCCAGC
932923 CCCTTTTTCTTGATAT
1 CCCTTTTTCTTGATAT
932939 TAAACGAAAG
Statistics
Matches: 390, Mismatches: 49, Indels: 22
0.85 0.11 0.05
Matches are distributed among these distances:
431 27 0.07
432 41 0.11
433 141 0.36
434 94 0.24
435 84 0.22
436 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (435 bp):
CCCTTTTTCTTGATATCAAATAAAAGATCTCGCAAATATAAACATATTTTGTTCAACAAATGTTC
ACGAATGGTTAACCGTTACCGAGATATCTAAACAAATGTATTTTAGGGGCCGACCCTTTAACTCC
TAAACGGGGCCACTAACAACAAAATTTAAGGCAGCATATTGTACAAAACATTATTTTGAACAACT
TTAGTTCTACAATGCTTTTAAAAATATTTCTCCTTTTTCAGATATTAATGATCAAAGTTTTGAAT
TCTGGCCACTTGAAACCCCTAATTACGTAAAATATGACTTAGTATGATACTGTATAGATAAACAG
CCCAACAATGAACATTTTTGCTTCTATAATTAATAACAAATTATTATTCAATAAAGAGTTATTGT
AAGAAGACTTTACAGCCCTCTTGACCCCTAAATGGAGGGGCCAGC
Found at i:934658 original size:16 final size:16
Alignment explanation
Indices: 934637--934668 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
934627 AGTTGCGTCT
934637 ACAGACAGACGGACAG
1 ACAGACAGACGGACAG
934653 ACAGACAGACGGACAG
1 ACAGACAGACGGACAG
934669 GGTGAAANNN
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.31, T:0.00
Consensus pattern (16 bp):
ACAGACAGACGGACAG
Found at i:939334 original size:1 final size:1
Alignment explanation
Indices: 939328--939357 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
939318 TATTCAATGT
*
939328 AAAAAAAAAAACAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
939358 CAGTCGGCGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:942226 original size:17 final size:17
Alignment explanation
Indices: 942204--942237 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
942194 TGCTAAAACG
942204 CGGAACGGAAAACGGAA
1 CGGAACGGAAAACGGAA
942221 CGGAACGGAAAACGGAA
1 CGGAACGGAAAACGGAA
942238 AAAAACTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.18, G:0.35, T:0.00
Consensus pattern (17 bp):
CGGAACGGAAAACGGAA
Found at i:943775 original size:12 final size:12
Alignment explanation
Indices: 943754--943806 Score: 88
Period size: 12 Copynumber: 4.4 Consensus size: 12
943744 ATATGATATT
943754 TTCCGTTTTCCG
1 TTCCGTTTTCCG
**
943766 TTCCACTTTCCG
1 TTCCGTTTTCCG
943778 TTCCGTTTTCCG
1 TTCCGTTTTCCG
943790 TTCCGTTTTCCG
1 TTCCGTTTTCCG
943802 TTCCG
1 TTCCG
943807 CGTTCTAAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.02, C:0.36, G:0.15, T:0.47
Consensus pattern (12 bp):
TTCCGTTTTCCG
Found at i:945298 original size:13 final size:13
Alignment explanation
Indices: 945280--945319 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
945270 ACAACAGGGT
945280 AGGTAACAGTTGA
1 AGGTAACAGTTGA
945293 AGGTAACAGTTGA
1 AGGTAACAGTTGA
*
945306 GGGTAACAGTTGA
1 AGGTAACAGTTGA
945319 A
1 A
945320 ATTGACACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.23
Consensus pattern (13 bp):
AGGTAACAGTTGA
Found at i:947826 original size:18 final size:18
Alignment explanation
Indices: 947803--947838 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
947793 GATAGAATGT
947803 TCTATCGTTAAAATGACA
1 TCTATCGTTAAAATGACA
947821 TCTATCGTTAAAATGACA
1 TCTATCGTTAAAATGACA
947839 GATGTTCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
TCTATCGTTAAAATGACA
Found at i:951088 original size:20 final size:20
Alignment explanation
Indices: 951026--951088 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
951016 ACATGATTCC
* * * *
951026 TATGATATAGTATTCTATGA
1 TATGATACAATATTATATAA
* * *
951046 TATGATACACTATTGTTTAA
1 TATGATACAATATTATATAA
*
951066 TATGATACAATATTATATCA
1 TATGATACAATATTATATAA
951086 TAT
1 TAT
951089 AATAATATTG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (20 bp):
TATGATACAATATTATATAA
Found at i:951280 original size:20 final size:20
Alignment explanation
Indices: 951255--951295 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
951245 ATCATGCATA
951255 TACAATATCATA-CTATATGT
1 TACAATATCATATC-ATATGT
*
951275 TACAATATTATATCATATGT
1 TACAATATCATATCATATGT
951295 T
1 T
951296 TAAATATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (20 bp):
TACAATATCATATCATATGT
Found at i:951797 original size:145 final size:143
Alignment explanation
Indices: 951534--951962 Score: 478
Period size: 145 Copynumber: 3.0 Consensus size: 143
951524 AAATTTGTAA
* *
951534 AGAAAAAGTGCAAAATTCGTGTCCGGTCCATATCTTTCTTTTG-GACAAATGTTGATGTTCTTAC
1 AGAAAAAGTGCAAAATTCGTGTCC-GTCCATATCTTTCTTATGAGA-AAAT-TTGAAGTTCTTAC
*
951598 TTTACACAAAGATTGCTTATGACCTAAGGGTGTGTCATGACCTTGAC-CAAAGGTCATTT-GGAC
63 TTCACACAAAGATTGCTTATGACCTAAGGGTGTGTCATGACCTTGACTC-AAGGTCATTTGGGA-
* *
951661 AAGGTGAAGGTCACTGGC
126 AAGGTCAAGGTCACTGAC
**
951679 AGAAAAAGTGCAAACGTCG-GTCCGCTCCATATCTTTCTTATGAAGAAACATTTGAAGTTCTTAC
1 AGAAAAAGTGCAAAATTCGTGTCCG-TCCATATCTTTCTTATG-AGAAA-ATTTGAAGTTCTTAC
** * ** *
951743 TTCATGCAAAGATTGTTTATGGTCTAAGGGTGTGTCATGACCTTGACTCGAGGTCATTTGGGAAA
63 TTCACACAAAGATTGCTTATGACCTAAGGGTGTGTCATGACCTTGACTCAAGGTCATTTGGGAAA
951808 GGTCAAGGTCACTGAC
128 GGTCAAGGTCACTGAC
* * *
951824 AG-AAAAGTGCAAAATTTGTGTCCAGTCCATATCTTTCCTATG-GACAGATATTGGAAGTTCTTA
1 AGAAAAAGTGCAAAATTCGTGTCC-GTCCATATCTTTCTTATGAGA-A-A-ATTTGAAGTTCTTA
* * * * * *
951887 ATTCACATAAAGATTGCTTATAACCTGACGGTGTGTCATGACCTTGACTTAAGGTCA-TTGAGG-
62 CTTCACACAAAGATTGCTTATGACCTAAGGGTGTGTCATGACCTTGACTCAAGGTCATTTG-GGA
*
951950 AAGTTCAAGGTCA
126 AAGGTCAAGGTCA
951963 TTTTAAAAAA
Statistics
Matches: 241, Mismatches: 32, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
143 3 0.01
144 49 0.20
145 180 0.75
146 9 0.04
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (143 bp):
AGAAAAAGTGCAAAATTCGTGTCCGTCCATATCTTTCTTATGAGAAAATTTGAAGTTCTTACTTC
ACACAAAGATTGCTTATGACCTAAGGGTGTGTCATGACCTTGACTCAAGGTCATTTGGGAAAGGT
CAAGGTCACTGAC
Found at i:954869 original size:29 final size:29
Alignment explanation
Indices: 954827--954887 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
954817 AGTTAAAGGC
954827 AGGGGGTCCTGAAATCTAGATATTTTGAA
1 AGGGGGTCCTGAAATCTAGATATTTTGAA
954856 AGGGGGTCCTGAAATCTAGATATTTTGAA
1 AGGGGGTCCTGAAATCTAGATATTTTGAA
954885 AGG
1 AGG
954888 CAAAATCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.30
Consensus pattern (29 bp):
AGGGGGTCCTGAAATCTAGATATTTTGAA
Found at i:956786 original size:162 final size:161
Alignment explanation
Indices: 956356--956823 Score: 521
Period size: 162 Copynumber: 2.8 Consensus size: 161
956346 TTGCTGCTCG
* * * *
956356 GAAACTAATCAGCCAGGAGAGCCGAAACCTGTGTTGAAGTATCCTCAGTTAGCGTAGATTCAAAG
1 GAAACTAATCAGCCAGGAAAGCTGAAACCTGTGTAGAAGTATCCTCAGTTAGTGTAGATTCAAAG
* * * * * *
956421 TTATGAAAATCATGACCCCCAGGGGATAGGG-TG-GCGCAACCATGGGGA-TTGAATTTTTACCT
66 TTTTGAAAATCATGACCCCCA-GGG-T-GGGATGAG-GCCACAATGGGGAGTCGAATTATTACAT
* *
956483 AGGAATATATCAAGTAAATCTTCTTAAGTCTTCTCA
127 AGGAATATAT-GAGTAAACCTTCTTAAGTCTTCTCA
* * * * * * * * *
956519 GAAACAAATCAGCCATTTACCTGGGAAGCTGGAACTTG-GAAGGAAGCATCCGCAGGTAGTTTAG
1 GAAACTAATCAGCC----A---GGAAAGCTGAAACCTGTGTA-GAAGTATCCTCAGTTAGTGTAG
* *
956583 ATTCAAAGTTTAGAAAATCATGACCCCCAGGATGGGATGAGGCCACAATGGGGAGTCGAATTATT
58 ATTCAAAGTTTTGAAAATCATGACCCCCAGGGTGGGATGAGGCCACAATGGGGAGTCGAATTATT
956648 ACATAGGAATATAGTGAGTAAACCTTCTTAAGTCTTCTCA
123 ACATAGGAATATA-TGAGTAAACCTTCTTAAGTCTTCTCA
*
956688 GAAACTAACCAGCCAGGAAAGCTGAAACCTGTGTAGAAGTATCCTCAGTTAGTGTAGATTCAAAG
1 GAAACTAATCAGCCAGGAAAGCTGAAACCTGTGTAGAAGTATCCTCAGTTAGTGTAGATTCAAAG
* * * * *
956753 TTTTGAAAATCAAGACCCTCAGGGTGGGATGAGGCCACAATGGGGAGTCGAATTACTACTTAGGG
66 TTTTGAAAATCATGACCCCCAGGGTGGGATGAGGCCACAATGGGGAGTCGAATTATTACATAGGA
956818 ATATAT
131 ATATAT
956824 TGAGAAAAAT
Statistics
Matches: 252, Mismatches: 40, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
161 1 0.00
162 102 0.40
163 15 0.06
165 1 0.00
167 4 0.02
168 14 0.06
169 59 0.23
170 56 0.22
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (161 bp):
GAAACTAATCAGCCAGGAAAGCTGAAACCTGTGTAGAAGTATCCTCAGTTAGTGTAGATTCAAAG
TTTTGAAAATCATGACCCCCAGGGTGGGATGAGGCCACAATGGGGAGTCGAATTATTACATAGGA
ATATATGAGTAAACCTTCTTAAGTCTTCTCA
Found at i:958594 original size:152 final size:153
Alignment explanation
Indices: 958317--958825 Score: 622
Period size: 152 Copynumber: 3.3 Consensus size: 153
958307 TTTACTGTAG
* * * * **
958317 TGTGTTAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGA-GGAAATTTTGGCT
1 TGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGAATTCTTTGACAAAAATTTTGGCT
* * * *
958381 -AAAATAAACAAAGT-ACTCATTTAACAGGAAGTTAACGTCTGATTGGTCCGAAAATACATCCCA
66 AAAAATAAAC-AAGTCA-TCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCA
*
958444 CAATATAGCATGCCTTAACAAACAC
129 CAATATGGCATGCCTTAACAAACAC
958469 TGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGAATTCTTTGACAAAAATTTTGGCT
1 TGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGAATTCTTTGACAAAAATTTTGGCT
* *
958534 AAAAATAAAC-AGTCATCATTTAACAGGAAGTTGACGTCTGATTGGAACAAAAATATATCCCACG
66 AAAAATAAACAAGTCATCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACA
**
958598 ATATGGCATGCC-TATACAAATTC
131 ATATGGCATGCCTTA-ACAAACAC
*
958621 T-TGGTAAAAATTTCAAGCATCTGCGATGAACAGTTGCTGAGAATTCTTTGACAAAAATTTGTTT
1 TGT-GTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGAATTCTTTGACAAAAA--T-TTT
** *
958685 GAAAATTTTTGCTAAAAATAAACAAAGTCGGCATTTAAGAGGAAGTTGACG--TGATTGGTACAA
62 G---------GCTAAAAATAAAC-AAGTCATCATTTAACAGGAAGTTGACGTCTGATTGGTACAA
958748 AAATATATCCCACAATATGGCATGCCTTAACAAACAC
117 AAATATATCCCACAATATGGCATGCCTTAACAAACAC
*
958785 TGTGTAAAAATTTCAA-CATCTGCGATAAATAGTTGCTGAGA
1 TGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGA
958826 TAAATGCGAC
Statistics
Matches: 311, Mismatches: 25, Indels: 31
0.85 0.07 0.08
Matches are distributed among these distances:
151 3 0.01
152 164 0.53
153 12 0.04
154 10 0.03
155 4 0.01
163 23 0.07
164 69 0.22
165 3 0.01
166 23 0.07
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (153 bp):
TGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGAATTCTTTGACAAAAATTTTGGCT
AAAAATAAACAAGTCATCATTTAACAGGAAGTTGACGTCTGATTGGTACAAAAATATATCCCACA
ATATGGCATGCCTTAACAAACAC
Found at i:958794 original size:164 final size:162
Alignment explanation
Indices: 958522--958825 Score: 443
Period size: 164 Copynumber: 1.9 Consensus size: 162
958512 TTCTTTGACA
*
958522 AAAATTTTGGCTAAAAATAAACAGTCATCATTTAACAGGAAGTTGACGTCTGATTGGAACAAAAA
1 AAAATTTTGGCTAAAAATAAACAGTCAGCATTTAACAGGAAGTTGACG-CTGATTGGAACAAAAA
* ** *
958587 TATATCCCACGATATGGCATGCCTATACAAATTCTTGGTAAAAATTTCAAGCATCTGCGATGAAC
65 TATATCCCACAATATGGCATGCCTATACAAACACTTGGTAAAAATTTCAA-CATCTGCGATAAAC
958652 AGTTGCTGAGAATTCTTTGACAAAAATTTGTTTG
129 AGTTGCTGAGAATTCTTTGACAAAAATTTGTTTG
* * * *
958686 AAAATTTTTGCTAAAAATAAACAAAGTCGGCATTTAAGAGGAAGTTGACG-TGATTGGTACAAAA
1 AAAATTTTGGCTAAAAATAAAC--AGTCAGCATTTAACAGGAAGTTGACGCTGATTGGAACAAAA
958750 ATATATCCCACAATATGGCATGCCT-TAACAAACAC-TGTGTAAAAATTTCAACATCTGCGATAA
64 ATATATCCCACAATATGGCATGCCTAT-ACAAACACTTG-GTAAAAATTTCAACATCTGCGATAA
*
958813 ATAGTTGCTGAGA
127 ACAGTTGCTGAGA
958826 TAAATGCGAC
Statistics
Matches: 126, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
163 26 0.21
164 77 0.61
166 23 0.18
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (162 bp):
AAAATTTTGGCTAAAAATAAACAGTCAGCATTTAACAGGAAGTTGACGCTGATTGGAACAAAAAT
ATATCCCACAATATGGCATGCCTATACAAACACTTGGTAAAAATTTCAACATCTGCGATAAACAG
TTGCTGAGAATTCTTTGACAAAAATTTGTTTG
Found at i:961420 original size:18 final size:18
Alignment explanation
Indices: 961397--961434 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
961387 ATACATCATT
*
961397 GTTGAGAAAAGAAGTTAA
1 GTTGAGAAAAGAAGTAAA
961415 GTTGAGAAAAGAAGTAAA
1 GTTGAGAAAAGAAGTAAA
961433 GT
1 GT
961435 ATGGCACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (18 bp):
GTTGAGAAAAGAAGTAAA
Found at i:969513 original size:2 final size:2
Alignment explanation
Indices: 969502--969534 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
969492 AATGAAAGAT
969502 AG AG AG -G AG AG AG AG AG AG AG -G AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
969535 AATACACAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:969520 original size:13 final size:12
Alignment explanation
Indices: 969502--969534 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
969492 AATGAAAGAT
969502 AGAGAG-GAGAG
1 AGAGAGAGAGAG
969513 AGAGAGAGAG-G
1 AGAGAGAGAGAG
969524 AGAGAGAGAGA
1 AGAGAGAGAGA
969535 AATACACAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 17 0.85
12 3 0.15
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (12 bp):
AGAGAGAGAGAG
Found at i:969522 original size:15 final size:15
Alignment explanation
Indices: 969502--969534 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
969492 AATGAAAGAT
969502 AGAGAGGAGAGAGAG
1 AGAGAGGAGAGAGAG
969517 AGAGAGGAGAGAGAG
1 AGAGAGGAGAGAGAG
969532 AGA
1 AGA
969535 AATACACAGG
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (15 bp):
AGAGAGGAGAGAGAG
Found at i:971551 original size:57 final size:57
Alignment explanation
Indices: 971463--972088 Score: 906
Period size: 57 Copynumber: 11.0 Consensus size: 57
971453 GAGTTGGAGG
*
971463 GAAACACTGAAGACAGGGCTAGTGTACCCACAGAACGACCTTTGACCATTCCAGGTA
1 GAAACACTGAAGACAGGGCTAGTGTACCCACAGAACGACCTTTGACCTTTCCAGGTA
* *
971520 GAAACACTGAAGACAGGGCTAGTGTACCCACAGTACGACCTTTGACCTTTCTAGGTA
1 GAAACACTGAAGACAGGGCTAGTGTACCCACAGAACGACCTTTGACCTTTCCAGGTA
* * * * *
971577 GAAACACTTAAGACAGGGCTAGTGTACCTACAGAACGACCTCTGACCATCCCAGGTA
1 GAAACACTGAAGACAGGGCTAGTGTACCCACAGAACGACCTTTGACCTTTCCAGGTA
** *
971634 GAAACACTGAAGACAGGGCGGGCTAGTGTACCCACATTACGACCTTTGACCTTTCTAGGTA
1 GAAACACTGAAGACA----GGGCTAGTGTACCCACAGAACGACCTTTGACCTTTCCAGGTA
* *
971695 G-AA-AC-----ACAGGGCTAGTGTACCCACAGAACGACCTCTGACCATTCCAGGTA
1 GAAACACTGAAGACAGGGCTAGTGTACCCACAGAACGACCTTTGACCTTTCCAGGTA
* *
971745 GAAACACTGAAGACAGGGCTAGTGTACCCACAGAACGACCTCTGACCATTCCAGGTA
1 GAAACACTGAAGACAGGGCTAGTGTACCCACAGAACGACCTTTGACCTTTCCAGGTA
* * *
971802 GAAACACTGAAGACAGGGCTAGCGTACCCACAGTACGACCTTTGACCTTTCTAGGTA
1 GAAACACTGAAGACAGGGCTAGTGTACCCACAGAACGACCTTTGACCTTTCCAGGTA
* * * * *
971859 GAAACATTTAAGACAGGGCTAGTGTAACCACAGAACGACCTTAGACCATTCCAGGTA
1 GAAACACTGAAGACAGGGCTAGTGTACCCACAGAACGACCTTTGACCTTTCCAGGTA
*
971916 GAAACACTGAAGACAGGGCTAGTGTACCCACAGAACGACCTTTGACCTTTCTAGGTA
1 GAAACACTGAAGACAGGGCTAGTGTACCCACAGAACGACCTTTGACCTTTCCAGGTA
* *
971973 GAAACACTGAAGACAGGGCTAGTGTACCCACAGAGCGACCTTTGACCTTTCTAGGTA
1 GAAACACTGAAGACAGGGCTAGTGTACCCACAGAACGACCTTTGACCTTTCCAGGTA
* * *
972030 GAAACATTTAAGACAGGGCTAGTGTACCCACAGAACGACCTTTGACCTTTTCAGGTA
1 GAAACACTGAAGACAGGGCTAGTGTACCCACAGAACGACCTTTGACCTTTCCAGGTA
972087 GA
1 GA
972089 CAAAGGAAGC
Statistics
Matches: 510, Mismatches: 48, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
50 38 0.07
51 2 0.00
52 2 0.00
54 3 0.01
57 425 0.83
59 2 0.00
60 2 0.00
61 36 0.07
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.20
Consensus pattern (57 bp):
GAAACACTGAAGACAGGGCTAGTGTACCCACAGAACGACCTTTGACCTTTCCAGGTA
Found at i:978240 original size:16 final size:16
Alignment explanation
Indices: 978219--978250 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
978209 ATTTAAAAAT
978219 AACTGCATGCACATGC
1 AACTGCATGCACATGC
978235 AACTGCATGCACATGC
1 AACTGCATGCACATGC
978251 TGTACAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (16 bp):
AACTGCATGCACATGC
Found at i:981358 original size:1 final size:1
Alignment explanation
Indices: 981352--981381 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
981342 GTGTGTGTGT
981352 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
981382 CTGGACAACT
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:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:986877 original size:14 final size:15
Alignment explanation
Indices: 986860--986889 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
986850 TTGTTCTTTC
986860 TTTGAA-TTTCTGAA
1 TTTGAATTTTCTGAA
986874 TTTGAATTTTCTGAA
1 TTTGAATTTTCTGAA
986889 T
1 T
986890 AATGAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (15 bp):
TTTGAATTTTCTGAA
Found at i:995550 original size:2 final size:2
Alignment explanation
Indices: 995543--995593 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
995533 CCACCCATAC
995543 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
995585 AG AG AG AG A
1 AG AG AG AG A
995594 ATTATACGAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1000896 original size:2 final size:2
Alignment explanation
Indices: 1000889--1000913 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1000879 CCTACGTGCC
1000889 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 C
1000914 CGTCATTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1002291 original size:19 final size:19
Alignment explanation
Indices: 1002256--1002292 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
1002246 TGTGTGTCTG
1002256 GTTTGGTTTTTTGTTTTTT
1 GTTTGGTTTTTTGTTTTTT
1002275 GTTT-GTTTATTT-TTTTTT
1 GTTTGGTTT-TTTGTTTTTT
1002293 ATTGTCGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.03, C:0.00, G:0.16, T:0.81
Consensus pattern (19 bp):
GTTTGGTTTTTTGTTTTTT
Found at i:1010795 original size:12 final size:12
Alignment explanation
Indices: 1010778--1010803 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1010768 CTACATGTTG
1010778 TCTAATAGAAAT
1 TCTAATAGAAAT
1010790 TCTAATAGAAAT
1 TCTAATAGAAAT
1010802 TC
1 TC
1010804 AAATGAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.35
Consensus pattern (12 bp):
TCTAATAGAAAT
Found at i:1015038 original size:20 final size:20
Alignment explanation
Indices: 1015013--1015056 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1015003 ACCACTAGCC
1015013 CTCATTCATTCAT-TCTTTCT
1 CTCATTCATTC-TCTCTTTCT
*
1015033 CTCATTCGTTCTCTCTTTCT
1 CTCATTCATTCTCTCTTTCT
1015053 CTCA
1 CTCA
1015057 AAAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.11, C:0.34, G:0.02, T:0.52
Consensus pattern (20 bp):
CTCATTCATTCTCTCTTTCT
Found at i:1029235 original size:18 final size:18
Alignment explanation
Indices: 1029214--1029248 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1029204 ACTAAAGAGC
1029214 AAACAACAACCGCAGAAA
1 AAACAACAACCGCAGAAA
*
1029232 AAACCACAACCGCAGAA
1 AAACAACAACCGCAGAA
1029249 CAACCAATAA
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:0.57, C:0.31, G:0.11, T:0.00
Consensus pattern (18 bp):
AAACAACAACCGCAGAAA
Found at i:1030721 original size:18 final size:18
Alignment explanation
Indices: 1030651--1030730 Score: 70
Period size: 18 Copynumber: 4.4 Consensus size: 18
1030641 AAAAACAAGC
* * *
1030651 CAGAGCAAACCACAACCA
1 CAGAACAAACAACAACCG
* * *
1030669 CAAAACAAACAATAACTG
1 CAGAACAAACAACAACCG
* * *
1030687 CGGAGCTAACAACAACCG
1 CAGAACAAACAACAACCG
*
1030705 CAGAACAAACCACAACCG
1 CAGAACAAACAACAACCG
1030723 CAGAACAA
1 CAGAACAA
1030731 CCAATAACTA
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.51, C:0.33, G:0.12, T:0.04
Consensus pattern (18 bp):
CAGAACAAACAACAACCG
Found at i:1047787 original size:11 final size:11
Alignment explanation
Indices: 1047771--1047797 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1047761 CAATTGAGAA
1047771 CATTGGAATAT
1 CATTGGAATAT
1047782 CATTGGAATAT
1 CATTGGAATAT
1047793 CATTG
1 CATTG
1047798 CGTCTGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (11 bp):
CATTGGAATAT
Found at i:1057895 original size:13 final size:13
Alignment explanation
Indices: 1057877--1057925 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
1057867 AGAGTGTCAA
1057877 TTTTGTTTTTTTG
1 TTTTGTTTTTTTG
1057890 TTTTGTTTTTTT-
1 TTTTGTTTTTTTG
*
1057902 TTTCGGTTTTTTTG
1 TTT-TGTTTTTTTG
*
1057916 CTTTGTTTTT
1 TTTTGTTTTT
1057926 GTTTTGTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 3 0.10
13 26 0.84
14 2 0.06
ACGTcount: A:0.00, C:0.04, G:0.14, T:0.82
Consensus pattern (13 bp):
TTTTGTTTTTTTG
Found at i:1057936 original size:26 final size:27
Alignment explanation
Indices: 1057880--1057936 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
1057870 GTGTCAATTT
* *
1057880 TGTTTTTTTGTTTTGTTTTTTTTTTCG
1 TGTTTTTTTGCTTTGTTTTTGTTTTCG
1057907 -GTTTTTTTGCTTTGTTTTTGTTTT-G
1 TGTTTTTTTGCTTTGTTTTTGTTTTCG
1057932 TGTTT
1 TGTTT
1057937 GTATGTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.00, C:0.04, G:0.18, T:0.79
Consensus pattern (27 bp):
TGTTTTTTTGCTTTGTTTTTGTTTTCG
Found at i:1067987 original size:16 final size:16
Alignment explanation
Indices: 1067948--1067987 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1067938 TTTCCTCTGC
* *
1067948 GTCCGTCAGTCCGTCT
1 GTCCGTCCGTCCGGCT
1067964 GTCCGTCCGTCCGGCT
1 GTCCGTCCGTCCGGCT
*
1067980 GTCTGTCC
1 GTCCGTCC
1067988 CACTTCAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.03, C:0.40, G:0.28, T:0.30
Consensus pattern (16 bp):
GTCCGTCCGTCCGGCT
Found at i:1073127 original size:17 final size:17
Alignment explanation
Indices: 1073105--1073137 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1073095 CTGGTACTGT
1073105 ACCAGTTATCGGCTAAG
1 ACCAGTTATCGGCTAAG
1073122 ACCAGTTATCGGCTAA
1 ACCAGTTATCGGCTAA
1073138 ACTGAGAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (17 bp):
ACCAGTTATCGGCTAAG
Found at i:1084594 original size:46 final size:46
Alignment explanation
Indices: 1084541--1084700 Score: 302
Period size: 46 Copynumber: 3.5 Consensus size: 46
1084531 TGTATACTTT
1084541 TAACCCAATGCTATCTCTACCATTATCGTTAGGCTGTAACCTTAAA
1 TAACCCAATGCTATCTCTACCATTATCGTTAGGCTGTAACCTTAAA
1084587 TAACCCAATGCTATCTCTACCATTATCGTTAGGCTGTAACCTTAAA
1 TAACCCAATGCTATCTCTACCATTATCGTTAGGCTGTAACCTTAAA
* *
1084633 AAACCCAATGCTATCTCTACCATTATCGTTAGGCTGTAACCTTAAG
1 TAACCCAATGCTATCTCTACCATTATCGTTAGGCTGTAACCTTAAA
1084679 TAACCCAATGCTATCTCTACCA
1 TAACCCAATGCTATCTCTACCA
1084701 AGAGCTGTGT
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 111 1.00
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.31
Consensus pattern (46 bp):
TAACCCAATGCTATCTCTACCATTATCGTTAGGCTGTAACCTTAAA
Found at i:1086623 original size:59 final size:59
Alignment explanation
Indices: 1086558--1086806 Score: 286
Period size: 59 Copynumber: 4.0 Consensus size: 59
1086548 CAAGTTAGTT
*
1086558 GTGTCAAGTGTACATTGGCCCTATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGAC
1 GTGTCAAGTGTACATTGGCCCAATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGAC
1086617 GTGTCAAGTGTACATTGGCCCAATG-TGTGCCCAACGCTGTGTTCCCAACTAATATTGAC
1 GTGTCAAGTGTACATTGGCCCAATGTTG-GCCCAACGCTGTGTTCCCAACTAATATTGAC
* * * * * *
1086676 -TCTCAACTTAGATGTGTCAAGTGTACATTGGCCCAATGTTGGTCCAACGCTGTGTTCCCAACTA
1 GTGTC-A---AG-TGT-AC-ATTG-GC----CC--AATGTTGGCCCAACGCTGTGTTCCCAACTA
1086740 ATATTGAC
52 ATATTGAC
1086748 GTGTCAAGTGTACATTGGCCCAATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGAC
1 GTGTCAAGTGTACATTGGCCCAATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGAC
1086807 TCTGAACTTA
Statistics
Matches: 160, Mismatches: 13, Indels: 34
0.77 0.06 0.16
Matches are distributed among these distances:
58 5 0.03
59 93 0.58
61 1 0.01
62 2 0.01
63 3 0.02
64 1 0.01
65 4 0.03
66 4 0.03
67 1 0.01
68 3 0.02
69 2 0.01
70 1 0.01
72 35 0.22
73 5 0.03
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (59 bp):
GTGTCAAGTGTACATTGGCCCAATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGAC
Found at i:1086760 original size:131 final size:131
Alignment explanation
Indices: 1086508--1086971 Score: 651
Period size: 131 Copynumber: 3.4 Consensus size: 131
1086498 TTGACCCAAT
* * * * * *
1086508 ATGTTGGCCCGACGTTGCGTTCCCAACTAACATTGACTCTCAAGTTAGTTGTGTCAAGTGTACAT
1 ATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACTCTCAACTTAGATGTGTCAAGTGTACAT
*
1086573 TGGCCCTATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACGTGTCAAGTGTACATTGGCCC
66 TGGCCCAATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACGTGTCAAGTGTACATTGGCCC
1086638 A
131 A
1086639 ATG-TGTGCCCAACGCTGTGTTCCCAACTAATATTGACTCTCAACTTAGATGTGTCAAGTGTACA
1 ATGTTG-GCCCAACGCTGTGTTCCCAACTAATATTGACTCTCAACTTAGATGTGTCAAGTGTACA
*
1086703 TTGGCCCAATGTTGGTCCAACGCTGTGTTCCCAACTAATATTGACGTGTCAAGTGTACATTGGCC
65 TTGGCCCAATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACGTGTCAAGTGTACATTGGCC
1086768 CA
130 CA
* *
1086770 ATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACTCTGAACTTAGATGGGTCAAGTGTACAT
1 ATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACTCTCAACTTAGATGTGTCAAGTGTACAT
* * *
1086835 TGGCCCAATGTTGGCCCAACGTTGCGTTCCCAACTAACATTGACTCTCAAGTTAGTTGTGTCAAG
66 TGGCCCAATGTTGGCCCAACGCTGTGTTCCCAACT-A-A-T-A-T-T---G--A--CGTGTCAAG
1086900 TGTACATTGGCCCA
118 TGTACATTGGCCCA
* * *
1086914 ATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACTCTCAAGTTAGTTGTATCAAG
1 ATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACTCTCAACTTAGATGTGTCAAG
1086972 CCAACGCCAA
Statistics
Matches: 299, Mismatches: 19, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
130 2 0.01
131 212 0.71
132 3 0.01
133 1 0.00
134 1 0.00
135 1 0.00
136 1 0.00
137 1 0.00
140 1 0.00
142 1 0.00
144 75 0.25
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (131 bp):
ATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACTCTCAACTTAGATGTGTCAAGTGTACAT
TGGCCCAATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACGTGTCAAGTGTACATTGGCCC
A
Found at i:1086962 original size:72 final size:72
Alignment explanation
Indices: 1086748--1086971 Score: 376
Period size: 72 Copynumber: 3.1 Consensus size: 72
1086738 TAATATTGAC
*
1086748 GTGTCAAGTGTACATTGGCCCAATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACTCTGAA
1 GTGTCAAGTGTACATTGGCCCAATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACTCTCAA
* *
1086813 CTTAGAT
66 GTTAGTT
* * * *
1086820 GGGTCAAGTGTACATTGGCCCAATGTTGGCCCAACGTTGCGTTCCCAACTAACATTGACTCTCAA
1 GTGTCAAGTGTACATTGGCCCAATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACTCTCAA
1086885 GTTAGTT
66 GTTAGTT
1086892 GTGTCAAGTGTACATTGGCCCAATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACTCTCAA
1 GTGTCAAGTGTACATTGGCCCAATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACTCTCAA
1086957 GTTAGTT
66 GTTAGTT
*
1086964 GTATCAAG
1 GTGTCAAG
1086972 CCAACGCCAA
Statistics
Matches: 140, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 140 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (72 bp):
GTGTCAAGTGTACATTGGCCCAATGTTGGCCCAACGCTGTGTTCCCAACTAATATTGACTCTCAA
GTTAGTT
Found at i:1095275 original size:23 final size:23
Alignment explanation
Indices: 1095230--1095277 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
1095220 TGTTTTCTTT
* *
1095230 TGGGTTTTTTTTTTCATTTTTCA
1 TGGGTTTTTTTTTTCAATATTCA
1095253 TGGG-TTTTTTTTTCAGATATTCA
1 TGGGTTTTTTTTTTCA-ATATTCA
1095276 TG
1 TG
1095278 CATAACAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.12, C:0.08, G:0.17, T:0.62
Consensus pattern (23 bp):
TGGGTTTTTTTTTTCAATATTCA
Found at i:1105011 original size:2 final size:2
Alignment explanation
Indices: 1105004--1105035 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1104994 TAGAACTTTT
1105004 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
1105036 NNNNNNNNNN
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1116899 original size:11 final size:11
Alignment explanation
Indices: 1116828--1116890 Score: 83
Period size: 11 Copynumber: 5.8 Consensus size: 11
1116818 TTCTGTGTCC
1116828 ACTCTGGGTTT
1 ACTCTGGGTTT
*
1116839 ACTTTGGGTTT
1 ACTCTGGGTTT
*
1116850 ACTCT-GGTCT
1 ACTCTGGGTTT
*
1116860 AATCTGGGTTT
1 ACTCTGGGTTT
*
1116871 ACTTTGGGTTT
1 ACTCTGGGTTT
1116882 ACTCTGGGT
1 ACTCTGGGT
1116891 CCACTCTGGT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
10 8 0.19
11 35 0.81
ACGTcount: A:0.11, C:0.16, G:0.27, T:0.46
Consensus pattern (11 bp):
ACTCTGGGTTT
Found at i:1119366 original size:27 final size:27
Alignment explanation
Indices: 1119334--1119414 Score: 110
Period size: 27 Copynumber: 3.0 Consensus size: 27
1119324 AACTGTATTG
1119334 CACAATCAATCTACAAAAATGTATTAA
1 CACAATCAATCTACAAAAATGTATTAA
1119361 CACAATCAATCTACAAAAATGTAATT-A
1 CACAATCAATCTACAAAAATGT-ATTAA
* * *
1119388 CACCATGAATCTACAAAACTGTTATTA
1 CACAATCAATCTACAAAAATG-TATTA
1119415 GTATACAGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
27 44 0.92
28 4 0.08
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (27 bp):
CACAATCAATCTACAAAAATGTATTAA
Found at i:1124762 original size:18 final size:18
Alignment explanation
Indices: 1124739--1124811 Score: 112
Period size: 18 Copynumber: 4.1 Consensus size: 18
1124729 AATATAATAA
1124739 TGTAATGAATTAGTGTAT
1 TGTAATGAATTAGTGTAT
1124757 TGTAATGAATTAGTGTAT
1 TGTAATGAATTAGTGTAT
*
1124775 TGTAATAAATTAGTGTAT
1 TGTAATGAATTAGTGTAT
*
1124793 TGTGAT-AGATTAGTGTAT
1 TGTAATGA-ATTAGTGTAT
1124811 T
1 T
1124812 ATCATTAAGT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
17 1 0.02
18 51 0.98
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.45
Consensus pattern (18 bp):
TGTAATGAATTAGTGTAT
Found at i:1125191 original size:18 final size:18
Alignment explanation
Indices: 1125101--1125202 Score: 84
Period size: 18 Copynumber: 5.7 Consensus size: 18
1125091 AAATCAGATG
* * *
1125101 AGTGTATTGTGATAAATT
1 AGTGTATTGTAATGAATA
*
1125119 AGTGTAGTGTAATG-ATA
1 AGTGTATTGTAATGAATA
* *
1125136 AGTGTTTTGTAA-GAAAA
1 AGTGTATTGTAATGAATA
*
1125153 ATGTGCTA-TGAAATGAATA
1 A-GTG-TATTGTAATGAATA
*
1125172 AGTGTATTGTAATGAGTA
1 AGTGTATTGTAATGAATA
*
1125190 AGTGTATTCTAAT
1 AGTGTATTGTAAT
1125203 TTATTGATAA
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
16 1 0.02
17 17 0.26
18 42 0.64
19 6 0.09
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.38
Consensus pattern (18 bp):
AGTGTATTGTAATGAATA
Found at i:1127370 original size:2 final size:2
Alignment explanation
Indices: 1127363--1127406 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1127353 AACTTACCAA
1127363 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
1127405 TC
1 TC
1127407 ATAATGAATA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1128861 original size:24 final size:24
Alignment explanation
Indices: 1128829--1128925 Score: 194
Period size: 24 Copynumber: 4.0 Consensus size: 24
1128819 TAAAACAGTT
1128829 TCTGAGATATCAACAATACCAATA
1 TCTGAGATATCAACAATACCAATA
1128853 TCTGAGATATCAACAATACCAATA
1 TCTGAGATATCAACAATACCAATA
1128877 TCTGAGATATCAACAATACCAATA
1 TCTGAGATATCAACAATACCAATA
1128901 TCTGAGATATCAACAATACCAATA
1 TCTGAGATATCAACAATACCAATA
1128925 T
1 T
1128926 GTAATTTTAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.26
Consensus pattern (24 bp):
TCTGAGATATCAACAATACCAATA
Found at i:1130309 original size:2 final size:2
Alignment explanation
Indices: 1130302--1130353 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
1130292 ATATAACACA
1130302 TC TC TC TC TC TC T- 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
1130343 TC TC TC TC TC T
1 TC TC TC TC TC T
1130354 GCACATTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1141602 original size:22 final size:20
Alignment explanation
Indices: 1141577--1141633 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 20
1141567 GGTGGGTCAA
1141577 TTGTGTGGACTATCTTGGTCTT
1 TTGTGTGGACTATCTT-GTC-T
*
1141599 TTGTATGG-CATATTCTTGTCT
1 TTGTGTGGAC-TA-TCTTGTCT
*
1141620 TTGTGTGAACTATC
1 TTGTGTGGACTATC
1141634 CAATACCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
20 2 0.07
21 10 0.34
22 13 0.45
23 4 0.14
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.49
Consensus pattern (20 bp):
TTGTGTGGACTATCTTGTCT
Found at i:1144350 original size:63 final size:63
Alignment explanation
Indices: 1144251--1144376 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
1144241 TCAGGGTAAT
1144251 GCTTTATATTCCTTGTAAAGTTTATCAAATTTAAAATAACAACTGTATAATTCATTATTGGAA
1 GCTTTATATTCCTTGTAAAGTTTATCAAATTTAAAATAACAACTGTATAATTCATTATTGGAA
1144314 GCTTTATATTCCTTGTAAAGTTTATCAAATTTAAAATAACAACTGTATAATTCATTATTGGAA
1 GCTTTATATTCCTTGTAAAGTTTATCAAATTTAAAATAACAACTGTATAATTCATTATTGGAA
1144377 ATATTGACAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (63 bp):
GCTTTATATTCCTTGTAAAGTTTATCAAATTTAAAATAACAACTGTATAATTCATTATTGGAA
Found at i:1150036 original size:27 final size:27
Alignment explanation
Indices: 1150006--1150250 Score: 400
Period size: 27 Copynumber: 9.1 Consensus size: 27
1149996 GGTCAGGCTT
* *
1150006 AGGGGTCATATGACCAAGGTCAAATAC
1 AGGGGTCACATGACCATGGTCAAATAC
*
1150033 AGGGGTCACATGAACATGGTCAAATAC
1 AGGGGTCACATGACCATGGTCAAATAC
1150060 AGGGGTCACATGACCATGGTCAAATAC
1 AGGGGTCACATGACCATGGTCAAATAC
*
1150087 AGGGGTCACATGACCATGGTCAAACAC
1 AGGGGTCACATGACCATGGTCAAATAC
*
1150114 AGGGGTCACATGAACATGGTCAAATAC
1 AGGGGTCACATGACCATGGTCAAATAC
*
1150141 AGGGGTCACATGACCATGGTCAAAAAC
1 AGGGGTCACATGACCATGGTCAAATAC
*
1150168 AGGGGTCACATGACCATGGTCAAACAC
1 AGGGGTCACATGACCATGGTCAAATAC
*
1150195 AGGGGTCACATGACCAAGGTCAAATAC
1 AGGGGTCACATGACCATGGTCAAATAC
* *
1150222 AGGGGTCACATGACCAAGGTTAAATAC
1 AGGGGTCACATGACCATGGTCAAATAC
1150249 AG
1 AG
1150251 AGGAGAATAT
Statistics
Matches: 205, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 205 1.00
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (27 bp):
AGGGGTCACATGACCATGGTCAAATAC
Found at i:1150470 original size:32 final size:32
Alignment explanation
Indices: 1150406--1150470 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
1150396 TGGTAAAGGT
* *
1150406 TGGATTCATTTTCATACAAATCGTGCAGAATA
1 TGGATTCATTTTCATACAAATCATGCACAATA
*
1150438 TGGATTTATTTTCATAC-AATGCATGCACAATA
1 TGGATTCATTTTCATACAAAT-CATGCACAATA
1150470 T
1 T
1150471 ATACATAGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 3 0.10
32 26 0.90
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (32 bp):
TGGATTCATTTTCATACAAATCATGCACAATA
Found at i:1158560 original size:22 final size:20
Alignment explanation
Indices: 1158491--1158567 Score: 82
Period size: 20 Copynumber: 3.7 Consensus size: 20
1158481 GAACTCACTG
*
1158491 TGTACGGTGATATCTGTCTC
1 TGTACTGTGATATCTGTCTC
* * * *
1158511 TCTACAGTGACATTTGGTCTC
1 TGTACTGTGATATCT-GTCTC
1158532 TGTACTGTGATATCTGTCTC
1 TGTACTGTGATATCTGTCTC
1158552 TGTGTACTGTGATATC
1 --TGTACTGTGATATC
1158568 CATCTGTTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.35
21 16 0.35
22 14 0.30
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
TGTACTGTGATATCTGTCTC
Found at i:1159824 original size:8 final size:8
Alignment explanation
Indices: 1159803--1159844 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
1159793 GATCACATTT
1159803 TGTCCGTC
1 TGTCCGTC
1159811 -GTCCGTC
1 TGTCCGTC
1159818 TGTCCGTC
1 TGTCCGTC
*
1159826 CGTCCGTC
1 TGTCCGTC
1159834 TGTCCGTC
1 TGTCCGTC
1159842 TGT
1 TGT
1159845 AAACTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 7 0.23
8 24 0.77
ACGTcount: A:0.00, C:0.38, G:0.26, T:0.36
Consensus pattern (8 bp):
TGTCCGTC
Found at i:1159826 original size:4 final size:4
Alignment explanation
Indices: 1159804--1159841 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
1159794 ATCACATTTT
* *
1159804 GTCC GT-C GTCC GTCT GTCC GTCC GTCC GTCT GTCC GTC
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTC
1159842 TGTAAACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.00, C:0.42, G:0.26, T:0.32
Consensus pattern (4 bp):
GTCC
Done.