Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 24 of 54
Found at i:10339529 original size:26 final size:27
Alignment explanation
Indices: 10339448--10339554 Score: 155
Period size: 27 Copynumber: 4.0 Consensus size: 27
10339438 TTACGGTATT
10339448 CATCCACTTCTGGTGGTAAAAATTATC
1 CATCCACTTCTGGTGGTAAAAATTATC
* *
10339475 CATCTACTTTTGGTGGTAAAAATTATC
1 CATCCACTTCTGGTGGTAAAAATTATC
* * *
10339502 CATCTACTTTTGGTGG-CAAAATTATC
1 CATCCACTTCTGGTGGTAAAAATTATC
10339528 CATCCACTTCTGGTGGT-AAAATTATC
1 CATCCACTTCTGGTGGTAAAAATTATC
10339554 C
1 C
10339555 TTAGATTCTA
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
26 33 0.45
27 41 0.55
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (27 bp):
CATCCACTTCTGGTGGTAAAAATTATC
Found at i:10339588 original size:51 final size:51
Alignment explanation
Indices: 10339466--10339628 Score: 193
Period size: 51 Copynumber: 3.2 Consensus size: 51
10339456 TCTGGTGGTA
* * * * * *
10339466 AAAATTATCCATCTACTTTTGGTGGTAAAAATTATCCATCTA-CTTTTGGTGGC
1 AAAATTATCCATCTACTTCTGGTGGT-AAAATTATCC-T-TAGATTCTGATAGT
* *
10339519 AAAATTATCCATCCACTTCTGGTGGTAAAATTATCCTTAGATTCTAATAGT
1 AAAATTATCCATCTACTTCTGGTGGTAAAATTATCCTTAGATTCTGATAGT
* * *
10339570 AAAATTATCCATTTACTTCTGATGGTAAAATTATTCTTAGATTCTGATAGT
1 AAAATTATCCATCTACTTCTGGTGGTAAAATTATCCTTAGATTCTGATAGT
10339621 AAAATTAT
1 AAAATTAT
10339629 TATCCATGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
50 2 0.02
51 60 0.62
52 10 0.10
53 24 0.25
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (51 bp):
AAAATTATCCATCTACTTCTGGTGGTAAAATTATCCTTAGATTCTGATAGT
Found at i:10339597 original size:26 final size:26
Alignment explanation
Indices: 10339448--10339603 Score: 172
Period size: 26 Copynumber: 6.0 Consensus size: 26
10339438 TTACGGTATT
*
10339448 CATCCACTTCTGGTGGTAAAAATTATC
1 CATCTACTTCTGGTGGT-AAAATTATC
*
10339475 CATCTACTTTTGGTGGTAAAAATTATC
1 CATCTACTTCTGGTGGT-AAAATTATC
* *
10339502 CATCTACTTTTGGTGGCAAAATTATC
1 CATCTACTTCTGGTGGTAAAATTATC
*
10339528 CATCCACTTCTGGTGGTAAAATTATC
1 CATCTACTTCTGGTGGTAAAATTATC
* ** *
10339554 C-T-TAGATTCTAATAGTAAAATTATC
1 CATCTA-CTTCTGGTGGTAAAATTATC
* *
10339579 CATTTACTTCTGATGGTAAAATTAT
1 CATCTACTTCTGGTGGTAAAATTAT
10339604 TCTTAGATTC
Statistics
Matches: 112, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
24 1 0.01
25 18 0.16
26 50 0.45
27 43 0.38
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (26 bp):
CATCTACTTCTGGTGGTAAAATTATC
Found at i:10339629 original size:25 final size:25
Alignment explanation
Indices: 10339543--10339628 Score: 111
Period size: 25 Copynumber: 3.4 Consensus size: 25
10339533 ACTTCTGGTG
*
10339543 GTAAAATTATCCTTAGATTCTAATA
1 GTAAAATTATCCTTAGATTCTGATA
* *
10339568 GTAAAATTATCCATTTA-CTTCTGATG
1 GTAAAATTATCC--TTAGATTCTGATA
*
10339594 GTAAAATTATTCTTAGATTCTGATA
1 GTAAAATTATCCTTAGATTCTGATA
10339619 GTAAAATTAT
1 GTAAAATTAT
10339629 TATCCATGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
24 3 0.06
25 29 0.56
26 17 0.33
27 3 0.06
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.42
Consensus pattern (25 bp):
GTAAAATTATCCTTAGATTCTGATA
Found at i:10342134 original size:4 final size:5
Alignment explanation
Indices: 10342082--10342132 Score: 79
Period size: 5 Copynumber: 10.6 Consensus size: 5
10342072 TATCTTGTTA
*
10342082 TTTTC TTTTC CTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTC -TTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
10342130 TTT
1 TTT
10342133 CTCTCCCACC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
4 8 0.19
5 35 0.81
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:10342693 original size:2 final size:2
Alignment explanation
Indices: 10342686--10342720 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10342676 NNNNNNNNNN
10342686 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10342721 TATTTCTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10348936 original size:16 final size:16
Alignment explanation
Indices: 10348915--10348948 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
10348905 AGTCAATTTT
*
10348915 AAAAGTTAAACTGCCA
1 AAAAGTCAAACTGCCA
10348931 AAAAGTCAAACTGCCA
1 AAAAGTCAAACTGCCA
10348947 AA
1 AA
10348949 CCCAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.21, G:0.12, T:0.15
Consensus pattern (16 bp):
AAAAGTCAAACTGCCA
Found at i:10352496 original size:2 final size:2
Alignment explanation
Indices: 10352458--10352486 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10352448 CAAATAACAA
10352458 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10352487 TAAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10360589 original size:30 final size:30
Alignment explanation
Indices: 10360555--10360616 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
10360545 AGGATTTCAT
*
10360555 TTTCAGATTCAAATAACATAGATTCAACTC
1 TTTCAAATTCAAATAACATAGATTCAACTC
* * *
10360585 TTTCAAATTCAGATGACATAGATTTAACTC
1 TTTCAAATTCAAATAACATAGATTCAACTC
10360615 TT
1 TT
10360617 GGAGACATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (30 bp):
TTTCAAATTCAAATAACATAGATTCAACTC
Found at i:10370754 original size:13 final size:15
Alignment explanation
Indices: 10370731--10370762 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10370721 TTTTTAAAAT
10370731 AAGAAAGATGA-ATA
1 AAGAAAGATGAGATA
10370745 AAGAAA-ATGAGATA
1 AAGAAAGATGAGATA
10370759 AAGA
1 AAGA
10370763 GAGTAATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.22, T:0.12
Consensus pattern (15 bp):
AAGAAAGATGAGATA
Found at i:10371912 original size:63 final size:63
Alignment explanation
Indices: 10371813--10371943 Score: 262
Period size: 63 Copynumber: 2.1 Consensus size: 63
10371803 ATCTAGCATG
10371813 CAAATTTAAATTCTCAAAGAGATTGAATTTGAAAGTAGTCGGTCATGGTTAAGACTCTACTGC
1 CAAATTTAAATTCTCAAAGAGATTGAATTTGAAAGTAGTCGGTCATGGTTAAGACTCTACTGC
10371876 CAAATTTAAATTCTCAAAGAGATTGAATTTGAAAGTAGTCGGTCATGGTTAAGACTCTACTGC
1 CAAATTTAAATTCTCAAAGAGATTGAATTTGAAAGTAGTCGGTCATGGTTAAGACTCTACTGC
10371939 CAAAT
1 CAAAT
10371944 GGAGGTTGTG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (63 bp):
CAAATTTAAATTCTCAAAGAGATTGAATTTGAAAGTAGTCGGTCATGGTTAAGACTCTACTGC
Found at i:10372094 original size:24 final size:24
Alignment explanation
Indices: 10372076--10372132 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
10372066 TAGACATGCT
10372076 TGTTGAAACTTAATAAGACACATC
1 TGTTGAAACTTAATAAGACACATC
* *
10372100 TGTTGAAACTTAATAACACACGTC
1 TGTTGAAACTTAATAAGACACATC
*
10372124 TATTGAAAC
1 TGTTGAAAC
10372133 ACAATAGACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (24 bp):
TGTTGAAACTTAATAAGACACATC
Found at i:10385317 original size:27 final size:28
Alignment explanation
Indices: 10385260--10385317 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
10385250 GAAAAAATGT
*
10385260 CCTGGTGGTGGAAAATTACAATTTTGCC
1 CCTGGTGGTGGAAAATTACAATTTTGAC
10385288 CCTGG-GGTGGCAAAATTATC-ATTTT-AC
1 CCTGGTGGTGG-AAAATTA-CAATTTTGAC
10385315 CCT
1 CCT
10385318 TTTACTCTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 9 0.33
28 17 0.63
29 1 0.04
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (28 bp):
CCTGGTGGTGGAAAATTACAATTTTGAC
Found at i:10385388 original size:20 final size:20
Alignment explanation
Indices: 10385371--10385408 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
10385361 CCTCAAATCT
10385371 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
10385391 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
10385409 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:10390260 original size:31 final size:31
Alignment explanation
Indices: 10390225--10390287 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
10390215 TACTTAGAAT
10390225 TTTTATGTGATGTAGAGAAAGTTTATGTTGA
1 TTTTATGTGATGTAGAGAAAGTTTATGTTGA
*
10390256 TTTTATGTGATTTAGAGAAAGTTTATGTTGA
1 TTTTATGTGATGTAGAGAAAGTTTATGTTGA
10390287 T
1 T
10390288 AAAAAGTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.48
Consensus pattern (31 bp):
TTTTATGTGATGTAGAGAAAGTTTATGTTGA
Found at i:10392632 original size:25 final size:25
Alignment explanation
Indices: 10392604--10392655 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
10392594 TGTGGGATTG
10392604 ATACAATTTATTTGGGAAAGATGGA
1 ATACAATTTATTTGGGAAAGATGGA
10392629 ATACAATTTATTTGGGAAAGATGGA
1 ATACAATTTATTTGGGAAAGATGGA
10392654 AT
1 AT
10392656 TGGTAAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.33
Consensus pattern (25 bp):
ATACAATTTATTTGGGAAAGATGGA
Found at i:10395463 original size:2 final size:2
Alignment explanation
Indices: 10395454--10395493 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
10395444 AATTTTTTTA
10395454 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10395494 CACACACACA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10395508 original size:16 final size:16
Alignment explanation
Indices: 10395489--10395519 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10395479 ATATATATAT
10395489 ATATACACACACACAC
1 ATATACACACACACAC
10395505 ATATACACACACACA
1 ATATACACACACACA
10395520 TAAAAGAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.35, G:0.00, T:0.13
Consensus pattern (16 bp):
ATATACACACACACAC
Found at i:10395512 original size:14 final size:14
Alignment explanation
Indices: 10395495--10395521 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10395485 ATATATATAC
10395495 ACACACACACATAT
1 ACACACACACATAT
10395509 ACACACACACATA
1 ACACACACACATA
10395522 AAAGAGTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.37, G:0.00, T:0.11
Consensus pattern (14 bp):
ACACACACACATAT
Found at i:10400081 original size:23 final size:23
Alignment explanation
Indices: 10400055--10400099 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
10400045 ATGACATGTA
10400055 ACATGTTGTGAACATGGCGTGTG
1 ACATGTTGTGAACATGGCGTGTG
* *
10400078 ACATTTTTTGAACATGGCGTGT
1 ACATGTTGTGAACATGGCGTGT
10400100 AACAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.36
Consensus pattern (23 bp):
ACATGTTGTGAACATGGCGTGTG
Found at i:10403769 original size:76 final size:75
Alignment explanation
Indices: 10403666--10404041 Score: 466
Period size: 76 Copynumber: 5.0 Consensus size: 75
10403656 GATGCCACGT
* * *
10403666 TCCAATTGTTAGATGTTGTTGACATCTTGTGGTGACATGTTGAGTGGTTGCAGTATTATAGGGTG
1 TCCAATTGTTAGATGTTGTTGACATCTTGTGGTGACACGTTGAGTCGTTGTAGTATTAT-GGGTG
* **
10403731 ACATGCCATGC
65 ACACGCCACAC
** * * *
10403742 TTTAATTGTTAGATGTTGTTGACATCTTGTGGTGATAGGTTGAGTCCTTGTAGTATTATGCGGTG
1 TCCAATTGTTAGATGTTGTTGACATCTTGTGGTGACACGTTGAGTCGTTGTAGTATTATG-GGTG
10403807 ACACGCCACAC
65 ACACGCCACAC
* **
10403818 TCCAATTGTTAGATGTCGTTGACATCTTGTGGTGACACACTGAGTCGTTGTAGTATTATGGGTTG
1 TCCAATTGTTAGATGTTGTTGACATCTTGTGGTGACACGTTGAGTCGTTGTAGTATTATGGG-TG
* *
10403883 ACACGTCACGC
65 ACACGCCACAC
* * * ** * *
10403894 TCCAATTGTTAAATGTCGTTGACATCTTGTAGTGACACACTAAGTCATTGTAGTATTATGAGGTG
1 TCCAATTGTTAGATGTTGTTGACATCTTGTGGTGACACGTTGAGTCGTTGTAGTATTATG-GGTG
*
10403959 ACACACCACAC
65 ACACGCCACAC
* *
10403970 TCCAATTGTTAGATGTTGTTGACATCTTGTGGTGGCACGTTGAGTCGTTGCAGTATTAT-GGTGA
1 TCCAATTGTTAGATGTTGTTGACATCTTGTGGTGACACGTTGAGTCGTTGTAGTATTATGGGTGA
*
10404034 CACACCAC
66 CACGCCAC
10404042 GCTTGTTAGA
Statistics
Matches: 261, Mismatches: 36, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
74 13 0.05
75 3 0.01
76 243 0.93
77 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (75 bp):
TCCAATTGTTAGATGTTGTTGACATCTTGTGGTGACACGTTGAGTCGTTGTAGTATTATGGGTGA
CACGCCACAC
Found at i:10403919 original size:152 final size:151
Alignment explanation
Indices: 10403666--10404044 Score: 517
Period size: 152 Copynumber: 2.5 Consensus size: 151
10403656 GATGCCACGT
* *
10403666 TCCAATTGTTAGATGTTGTTGACATCTTGTGGTGACATGTTGAGTGGTTGCAGTATTATAGGGTG
1 TCCAATTGTTAGATGTTGTTGACATCTTGTGGTGACACGTTGAGTCGTTGCAGTATTAT-GGGTG
* * ** * * * * *** * *
10403731 ACATGCCATGCTTTAATTGTTAGATGTTGTTGACATCTTGTGGTGATAGGTTGAGTCCTTGTAGT
65 ACACGCCACGCTCCAATTGTTAAATGTCGTTGACATCTTGTAGTGACACACTAAGTCATTGTAGT
* *
10403796 ATTATGCGGTGACACGCCACAC
130 ATTATGAGGTGACACACCACAC
* ** *
10403818 TCCAATTGTTAGATGTCGTTGACATCTTGTGGTGACACACTGAGTCGTTGTAGTATTATGGGTTG
1 TCCAATTGTTAGATGTTGTTGACATCTTGTGGTGACACGTTGAGTCGTTGCAGTATTATGGG-TG
*
10403883 ACACGTCACGCTCCAATTGTTAAATGTCGTTGACATCTTGTAGTGACACACTAAGTCATTGTAGT
65 ACACGCCACGCTCCAATTGTTAAATGTCGTTGACATCTTGTAGTGACACACTAAGTCATTGTAGT
10403948 ATTATGAGGTGACACACCACAC
130 ATTATGAGGTGACACACCACAC
*
10403970 TCCAATTGTTAGATGTTGTTGACATCTTGTGGTGGCACGTTGAGTCGTTGCAGTATTAT-GGTGA
1 TCCAATTGTTAGATGTTGTTGACATCTTGTGGTGACACGTTGAGTCGTTGCAGTATTATGGGTGA
*
10404034 CACACCACGCT
66 CACGCCACGCT
10404045 TGTTAGATGT
Statistics
Matches: 197, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
150 12 0.06
151 5 0.03
152 180 0.91
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (151 bp):
TCCAATTGTTAGATGTTGTTGACATCTTGTGGTGACACGTTGAGTCGTTGCAGTATTATGGGTGA
CACGCCACGCTCCAATTGTTAAATGTCGTTGACATCTTGTAGTGACACACTAAGTCATTGTAGTA
TTATGAGGTGACACACCACAC
Found at i:10406521 original size:152 final size:151
Alignment explanation
Indices: 10406304--10406648 Score: 428
Period size: 152 Copynumber: 2.3 Consensus size: 151
10406294 GTAATGATAG
* * *
10406304 AAATTACTGTGTTATTCGATAA--ACATATGAAAATGTTGAACACAAATTGTTAGAATCATTCTT
1 AAATTACTGTGTTATTCGATAATCACATATGGAATTGTTGAACACAAATTGTTAGAACCATTCTT
* * * * *** *
10406367 ACTAGCGGCTAGTTAATACTATGGGACTGAA-CAGGACCTGTTGGTGGTTGAAGAGCTGTTGTCG
66 ACTAACGGCTAGTTAACACTATGGGACT-AAGAAGGACCTATCAATGGTTGAAGAGCTGTCGTC-
10406431 GCATGGGTCAACTGCAATA-ACAA
129 GCATGGGTCAACTGCAA-ACACAA
* * * *
10406454 AAATTACTATGTTATTCGATAATCATATATGGAATTGTTGAACACAAATTGTTAGAACCGTTTTT
1 AAATTACTGTGTTATTCGATAATCACATATGGAATTGTTGAACACAAATTGTTAGAACCATTCTT
* * * * *
10406519 ACTAACGGCTCGTTAACACTATGTGACTAAGAAGGGCTTATCAATGGTTGAGGAGCTGTCGTCGC
66 ACTAACGGCTAGTTAACACTATGGGACTAAGAAGGACCTATCAATGGTTGAAGAGCTGTCGTCGC
*
10406584 ATGGGTCAACTGCAAACACAG
131 ATGGGTCAACTGCAAACACAA
* *
10406605 ATATTATTGTGTTATTCGATAATCACATATGGAATTGTTGAACA
1 AAATTACTGTGTTATTCGATAATCACATATGGAATTGTTGAACA
10406649 TAATCAATAA
Statistics
Matches: 166, Mismatches: 25, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
150 22 0.13
151 62 0.37
152 82 0.49
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (151 bp):
AAATTACTGTGTTATTCGATAATCACATATGGAATTGTTGAACACAAATTGTTAGAACCATTCTT
ACTAACGGCTAGTTAACACTATGGGACTAAGAAGGACCTATCAATGGTTGAAGAGCTGTCGTCGC
ATGGGTCAACTGCAAACACAA
Found at i:10406662 original size:151 final size:151
Alignment explanation
Indices: 10406411--10406821 Score: 442
Period size: 151 Copynumber: 2.7 Consensus size: 151
10406401 GACCTGTTGG
* *
10406411 TGGTTGAAGAGCTGTTGTCGGCATGGGTCAACTGCAATA-ACAAAAATTACTATGTTATTCGATA
1 TGGTTGAGGAGCTGTTGTC-GCATGGGTCAACTGCAA-ACACAAATATTACTATGTTATTCGATA
* * ** * * **
10406475 ATCATATATGGAATTGTTGAACACAAAT-TGTTAGAACCGTTTTTA-CTAACGGCTCGTTA-ACA
64 ATCACATATGGAATTGTTGAACA-TAATCAATAAGAACCATCCTTATC-AACGGCTCGTTACA-A
*
10406537 CTATGTG-A-CTAAGAAGGGCTTATCA-A
126 C--TGTGCATCTAAGAAGGGCTT-GCAGA
* * * *
10406563 TGGTTGAGGAGCTGTCGTCGCATGGGTCAACTGCAAACACAGATATTATTGTGTTATTCGATAAT
1 TGGTTGAGGAGCTGTTGTCGCATGGGTCAACTGCAAACACAAATATTACTATGTTATTCGATAAT
*
10406628 CACATATGGAATTGTTGAACATAATCAATAAGAACCATCCTTATCAATGGCTCGTTACAACTGTG
66 CACATATGGAATTGTTGAACATAATCAATAAGAACCATCCTTATCAACGGCTCGTTACAACTGTG
* * * * *
10406693 CATTTGAGCAGGTCTTGCAGG
131 CATCTAAGAAGGGCTTGCAGA
** * *
10406714 TGGTTGAGGAGCAATTGTCACATGGGTTC-ATTGCAAACACAAATATTACTATGTTATTCGATAA
1 TGGTTGAGGAGCTGTTGTCGCATGGG-TCAACTGCAAACACAAATATTACTATGTTATTCGATAA
* *
10406778 TCACATATGAAATTGTTGAACATAATCCATAAGAACCATCCTTA
65 TCACATATGGAATTGTTGAACATAATCAATAAGAACCATCCTTA
10406822 CCGGCTGTTC
Statistics
Matches: 220, Mismatches: 31, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
149 4 0.02
150 7 0.03
151 188 0.85
152 21 0.10
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (151 bp):
TGGTTGAGGAGCTGTTGTCGCATGGGTCAACTGCAAACACAAATATTACTATGTTATTCGATAAT
CACATATGGAATTGTTGAACATAATCAATAAGAACCATCCTTATCAACGGCTCGTTACAACTGTG
CATCTAAGAAGGGCTTGCAGA
Found at i:10408267 original size:23 final size:23
Alignment explanation
Indices: 10408235--10408281 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10408225 ATTTTTTTAT
10408235 TTCAAACCATAGCGTGTCACATA
1 TTCAAACCATAGCGTGTCACATA
* * *
10408258 TTCAAGCCATGGTGTGTCACATA
1 TTCAAACCATAGCGTGTCACATA
10408281 T
1 T
10408282 ATGCTTACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (23 bp):
TTCAAACCATAGCGTGTCACATA
Found at i:10408336 original size:23 final size:23
Alignment explanation
Indices: 10408291--10408638 Score: 123
Period size: 23 Copynumber: 15.1 Consensus size: 23
10408281 TATGCTTACT
* * *
10408291 ATGCCATGTCACAGATTCCCACC
1 ATGCCGTGTTACAGATTCTCACC
* * *
10408314 ATGCTGTGTTATAGTTTCTCACC
1 ATGCCGTGTTACAGATTCTCACC
* *
10408337 GTGCCGTGTTACAGATTCTCATC
1 ATGCCGTGTTACAGATTCTCACC
* * * *
10408360 ATGTCGTCTCACACGATT-TCAAC
1 ATGCCGTGTTACA-GATTCTCACC
*
10408383 ATGCCGTGTCACAGATTCTCACC
1 ATGCCGTGTTACAGATTCTCACC
* * * * *
10408406 ATGGCATGTCACACATTCCCACC
1 ATGCCGTGTTACAGATTCTCACC
* * * * *
10408429 ATGGCGTGTCACAAACTCTAAACC
1 ATGCCGTGTTACAGATTCT-CACC
* * * * *
10408453 CTACCGTGTCACATATTCTCACA
1 ATGCCGTGTTACAGATTCTCACC
** * * * **
10408476 ATGTAGTCTCACACATTCTCAAA
1 ATGCCGTGTTACAGATTCTCACC
* *
10408499 ATGCCATGTTACAAATTCTCACC
1 ATGCCGTGTTACAGATTCTCACC
* * * * *
10408522 ATGTCGTGTCACAAACTCTAAACC
1 ATGCCGTGTTACAGATTCT-CACC
* * * * * *
10408546 CTGCCATGTCACATATGCTCATC
1 ATGCCGTGTTACAGATTCTCACC
*
10408569 ATGCCGT-TTCACATATTCTCACC
1 ATGCCGTGTT-ACAGATTCTCACC
* *
10408592 ATGGCGTG-T-CACATTCTCA-C
1 ATGCCGTGTTACAGATTCTCACC
* *
10408612 ACTAG-CGTGTCACATATTCTCACC
1 A-T-GCCGTGTTACAGATTCTCACC
10408636 ATG
1 ATG
10408639 TAGTCCACAT
Statistics
Matches: 242, Mismatches: 72, Indels: 23
0.72 0.21 0.07
Matches are distributed among these distances:
20 2 0.01
21 14 0.06
22 7 0.03
23 180 0.74
24 39 0.16
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (23 bp):
ATGCCGTGTTACAGATTCTCACC
Found at i:10408581 original size:47 final size:47
Alignment explanation
Indices: 10408410--10408581 Score: 168
Period size: 47 Copynumber: 3.7 Consensus size: 47
10408400 CTCACCATGG
* * * *
10408410 CATGTCACACATTCCCACCATGGCGTGTCACAAACTCTAAACCCTAC
1 CATGTCACATATTCTCACCATGTCGTGTCACAAACTCTAAACCCTGC
* * * * * * *
10408457 CGTGTCACATATTCTCACAATGTAGTCTCACACATTCTCAAA--ATGC
1 CATGTCACATATTCTCACCATGTCGTGTCACAAACTCT-AAACCCTGC
* *
10408503 CATGTTACAAATTCTCACCATGTCGTGTCACAAACTCTAAACCCTGC
1 CATGTCACATATTCTCACCATGTCGTGTCACAAACTCTAAACCCTGC
* * * *
10408550 CATGTCACATATGCTCATCATGCCGTTTCACA
1 CATGTCACATATTCTCACCATGTCGTGTCACA
10408582 TATTCTCACC
Statistics
Matches: 96, Mismatches: 26, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
45 3 0.03
46 32 0.33
47 58 0.60
48 3 0.03
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (47 bp):
CATGTCACATATTCTCACCATGTCGTGTCACAAACTCTAAACCCTGC
Found at i:10408581 original size:93 final size:92
Alignment explanation
Indices: 10408381--10408589 Score: 256
Period size: 93 Copynumber: 2.2 Consensus size: 92
10408371 CACGATTTCA
* * ** * *
10408381 ACATGCCGTGTCACAGATTCTCACCATGGCATGTCACACATTCCCACCATGGCGTGTCACAAACT
1 ACATGCCGTCTCACACATTCTCAAAATGCCATGTCACAAATTCCCACCATGGCGTGTCACAAACT
* *
10408446 CTAAACCCTACCGTGTCACATATTCTC
66 CTAAACCCTACCATGTCACATATGCTC
** * * *
10408473 ACAATGTAGTCTCACACATTCTCAAAATGCCATGTTACAAATTCTCACCATGTCGTGTCACAAAC
1 AC-ATGCCGTCTCACACATTCTCAAAATGCCATGTCACAAATTCCCACCATGGCGTGTCACAAAC
*
10408538 TCTAAACCCTGCCATGTCACATATGCTC
65 TCTAAACCCTACCATGTCACATATGCTC
* *
10408566 ATCATGCCGTTTCACATATTCTCA
1 A-CATGCCGTCTCACACATTCTCA
10408590 CCATGGCGTG
Statistics
Matches: 97, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
92 2 0.02
93 94 0.97
94 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.12, T:0.28
Consensus pattern (92 bp):
ACATGCCGTCTCACACATTCTCAAAATGCCATGTCACAAATTCCCACCATGGCGTGTCACAAACT
CTAAACCCTACCATGTCACATATGCTC
Found at i:10408609 original size:21 final size:22
Alignment explanation
Indices: 10408329--10408638 Score: 140
Period size: 23 Copynumber: 13.5 Consensus size: 22
10408319 GTGTTATAGT
* * *
10408329 TTCTCACCGTGCCGTGTTACAGA
1 TTCTCACCATGGCGTGTCACA-A
* * *
10408352 TTCTCATCATGTCGTCTCACACGA
1 TTCTCACCATGGCGTGTCACA--A
* *
10408376 TT-TCAACATGCCGTGTCACAGA
1 TTCTCACCATGGCGTGTCACA-A
*
10408398 TTCTCACCATGGCATGTCACACA
1 TTCTCACCATGGCGTGTCACA-A
*
10408421 TTCCCACCATGGCGTGTCACAAA
1 TTCTCACCATGGCGTGTCAC-AA
* * * **
10408444 CTCTAAACCCTACCGTGTCACATA
1 TTCT-CACCATGGCGTGTCACA-A
* ** *
10408468 TTCTCACAATGTAGTCTCACACA
1 TTCTCACCATGGCGTGTCACA-A
** * * *
10408491 TTCTCAAAATGCCATGTTACAAA
1 TTCTCACCATGGCGTGTCAC-AA
*
10408514 TTCTCACCATGTCGTGTCACAAA
1 TTCTCACCATGGCGTGTCAC-AA
* * * * *
10408537 CTCTAAACCCTGCCATGTCACATA
1 TTCT-CACCATGGCGTGTCACA-A
* * * *
10408561 TGCTCATCATGCCGTTTCACATA
1 TTCTCACCATGGCGTGTCACA-A
10408584 TTCTCACCATGGCGTGTCAC-A
1 TTCTCACCATGGCGTGTCACAA
*
10408605 TTCTCA-CACTAGCGTGTCACATA
1 TTCTCACCA-TGGCGTGTCACA-A
10408628 TTCTCACCATG
1 TTCTCACCATG
10408639 TAGTCCACAT
Statistics
Matches: 217, Mismatches: 58, Indels: 24
0.73 0.19 0.08
Matches are distributed among these distances:
20 2 0.01
21 17 0.08
22 4 0.02
23 155 0.71
24 39 0.18
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (22 bp):
TTCTCACCATGGCGTGTCACAA
Found at i:10408769 original size:23 final size:23
Alignment explanation
Indices: 10408743--10408820 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 23
10408733 GTGTCACAAT
* **
10408743 CGTGTCACATATTTTCACCATGA
1 CGTGTCACACATTCCCACCATGA
*
10408766 CGTGTCACACATTCCCACCATGT
1 CGTGTCACACATTCCCACCATGA
* * *
10408789 CGTGTCACTCATTCCTACCATGC
1 CGTGTCACACATTCCCACCATGA
*
10408812 CGTTTCACA
1 CGTGTCACA
10408821 AACTCTAAAC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.31
Consensus pattern (23 bp):
CGTGTCACACATTCCCACCATGA
Found at i:10415539 original size:2 final size:2
Alignment explanation
Indices: 10415532--10415564 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10415522 TAACTTTCTT
*
10415532 TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10415565 AAGCTAAGGG
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:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:10415820 original size:31 final size:31
Alignment explanation
Indices: 10415745--10415822 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
10415735 AGAAAGAAAT
* * * *
10415745 AAATATTGTTACACGCTATGCGTACCAAGTA
1 AAATGTTGTTACATGCTAAGCATACCAAGTA
*
10415776 AAATGTTGTTACATGCTAAGCATACCAAGTC
1 AAATGTTGTTACATGCTAAGCATACCAAGTA
10415807 AAATGTTGTTACATGC
1 AAATGTTGTTACATGC
10415823 CAACGTTGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.31
Consensus pattern (31 bp):
AAATGTTGTTACATGCTAAGCATACCAAGTA
Found at i:10416492 original size:23 final size:23
Alignment explanation
Indices: 10416460--10416506 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10416450 TATTTTCTAT
10416460 TTCAAACCATGGCATGTCACATA
1 TTCAAACCATGGCATGTCACATA
* **
10416483 TTCAAGCCATGGTGTGTCACATA
1 TTCAAACCATGGCATGTCACATA
10416506 T
1 T
10416507 ATGCTCACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (23 bp):
TTCAAACCATGGCATGTCACATA
Found at i:10416580 original size:23 final size:23
Alignment explanation
Indices: 10416554--10416656 Score: 91
Period size: 23 Copynumber: 4.5 Consensus size: 23
10416544 GCATCATAGT
* * *
10416554 TTCTCACCGTGCCGTGTCACAAA
1 TTCTCACCATGCCATGTCACAGA
* * *
10416577 TTCTTACCATGCTATCTCACACGA
1 TTCTCACCATGCCATGTCACA-GA
* *
10416601 TT-TCAACATGCCGTGTCACAGA
1 TTCTCACCATGCCATGTCACAGA
* *
10416623 TTCTCACCATGGCATGTCACACA
1 TTCTCACCATGCCATGTCACAGA
*
10416646 TTCCCACCATG
1 TTCTCACCATG
10416657 GTGTGTCATA
Statistics
Matches: 62, Mismatches: 16, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
22 4 0.06
23 55 0.89
24 3 0.05
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (23 bp):
TTCTCACCATGCCATGTCACAGA
Found at i:10416663 original size:23 final size:23
Alignment explanation
Indices: 10416607--10416664 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
10416597 ACGATTTCAA
* * *
10416607 CATGCCGTGTCACAGATTCTCAC
1 CATGGCGTGTCACACATTCCCAC
*
10416630 CATGGCATGTCACACATTCCCAC
1 CATGGCGTGTCACACATTCCCAC
*
10416653 CATGGTGTGTCA
1 CATGGCGTGTCA
10416665 TAAACTCTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.26
Consensus pattern (23 bp):
CATGGCGTGTCACACATTCCCAC
Found at i:10416774 original size:104 final size:104
Alignment explanation
Indices: 10416616--10416866 Score: 297
Period size: 104 Copynumber: 2.4 Consensus size: 104
10416606 ACATGCCGTG
* * *
10416616 TCACAGATTCTCACCATGGCATGTCACACATTCCCACCATGGT-GTGTCATAAACTCTAAACTCT
1 TCACACATTCTCACCATGGCATGTCACACATTCTCACCAT-GTCGTGTCACAAACTCTAAACTCT
* * *
10416680 ACCATGTTACAACCGTGTCACATATTCTCACCATACAGTC
65 ACCATGTCACAACCATGTCACATATGCTCACCATACAGTC
** * * * *
10416720 TCACACATTCTCAAAATGTCATGTTACAGATTCTCACCATGTCGTGTCACAAACTCTAAACTCTG
1 TCACACATTCTCACCATGGCATGTCACACATTCTCACCATGTCGTGTCACAAACTCTAAACTCTA
** * * * * *
10416785 CTGTGTCATAGCCATGTCACATATGCTCACCATGCCGTT
66 CCATGTCACAACCATGTCACATATGCTCACCATACAGTC
* *
10416824 TCACATATTCTCACCATGGCATGTCACATATTCTCACCATGTC
1 TCACACATTCTCACCATGGCATGTCACACATTCTCACCATGTC
10416867 TTCTCACGTA
Statistics
Matches: 121, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
103 2 0.02
104 119 0.98
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.30
Consensus pattern (104 bp):
TCACACATTCTCACCATGGCATGTCACACATTCTCACCATGTCGTGTCACAAACTCTAAACTCTA
CCATGTCACAACCATGTCACATATGCTCACCATACAGTC
Found at i:10416827 original size:23 final size:23
Alignment explanation
Indices: 10416795--10416943 Score: 118
Period size: 23 Copynumber: 6.5 Consensus size: 23
10416785 CTGTGTCATA
*
10416795 GCCATGTCACATATGCTCACCAT
1 GCCATGTCACATATTCTCACCAT
* *
10416818 GCCGTTTCACATATTCTCACCAT
1 GCCATGTCACATATTCTCACCAT
*
10416841 GGCATGTCACATATTCTCACCAT
1 GCCATGTCACATATTCTCACCAT
* * * * * ** *
10416864 GTCTTCTCACGTATTCCCTTCAA
1 GCCATGTCACATATTCTCACCAT
*** *
10416887 GTTGTGTCACATATTCTCACCCT
1 GCCATGTCACATATTCTCACCAT
* * *
10416910 TCCATGTCACATATTCTCTCAAT
1 GCCATGTCACATATTCTCACCAT
*
10416933 GGCATGTCACA
1 GCCATGTCACA
10416944 AACTCTAAAC
Statistics
Matches: 94, Mismatches: 32, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 94 1.00
ACGTcount: A:0.23, C:0.32, G:0.11, T:0.34
Consensus pattern (23 bp):
GCCATGTCACATATTCTCACCAT
Found at i:10416864 original size:46 final size:45
Alignment explanation
Indices: 10416797--10416943 Score: 141
Period size: 46 Copynumber: 3.2 Consensus size: 45
10416787 GTGTCATAGC
* *
10416797 CATGTCACATATGCTCACCATGCCGTTTCACATATTCTCACCATGG
1 CATGTCACATATTCTCACCATGCC-TTTCACATATTCTCTCCATGG
* * * * * *
10416843 CATGTCACATATTCTCACCATGTCTTCTCACGTATTCCCTTCAAGT
1 CATGTCACATATTCTCACCATGCCTT-TCACATATTCTCTCCATGG
** * * * *
10416889 TGTGTCACATATTCTCACCCTTCCATGTCACATATTCTCTCAATGG
1 CATGTCACATATTCTCACCATGCC-TTTCACATATTCTCTCCATGG
10416935 CATGTCACA
1 CATGTCACA
10416944 AACTCTAAAC
Statistics
Matches: 77, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
45 2 0.03
46 74 0.96
47 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.11, T:0.34
Consensus pattern (45 bp):
CATGTCACATATTCTCACCATGCCTTTCACATATTCTCTCCATGG
Found at i:10417014 original size:23 final size:23
Alignment explanation
Indices: 10416970--10417047 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 23
10416960 GTGTCACAAC
* ** *
10416970 CGTGTCACATATTTTCATCATGA
1 CGTGTCACACATTCCCACCATGA
*
10416993 CGTGTCACACATTCCCACCATGT
1 CGTGTCACACATTCCCACCATGA
** *
10417016 CGTGTTGCACATTCCCACCATGG
1 CGTGTCACACATTCCCACCATGA
*
10417039 CGTTTCACA
1 CGTGTCACA
10417048 AACTCTAAAC
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.22, C:0.32, G:0.15, T:0.31
Consensus pattern (23 bp):
CGTGTCACACATTCCCACCATGA
Found at i:10437167 original size:21 final size:21
Alignment explanation
Indices: 10437116--10437169 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
10437106 TGGAATGGAA
*
10437116 GTCTCAATACCTTTAGGGGAG
1 GTCTCAATACCTTTAGCGGAG
* * * *
10437137 GTATCGATACTTTTAGCTGAG
1 GTCTCAATACCTTTAGCGGAG
10437158 GTCTCAATACCT
1 GTCTCAATACCT
10437170 CCTCTAAGGG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (21 bp):
GTCTCAATACCTTTAGCGGAG
Found at i:10437597 original size:40 final size:40
Alignment explanation
Indices: 10437502--10437610 Score: 134
Period size: 40 Copynumber: 2.7 Consensus size: 40
10437492 AAAACATACT
*
10437502 ATTGGTAATGGTATAGCCCCCATTACCTTGGGACAAACTG
1 ATTGGTAATGGTATAGCCCCCATTACCTTAGGACAAACTG
* *
10437542 -TTAGTAATGGAATAGCCCCCATT-CCATTTAGGACAAAC-G
1 ATTGGTAATGGTATAGCCCCCATTACC--TTAGGACAAACTG
*
10437581 ATTGGTAAGGGTATAGCCCCCCATTACCTT
1 ATTGGTAATGGTATAG-CCCCCATTACCTT
10437611 GGGTCAATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
38 2 0.03
39 22 0.38
40 24 0.41
41 8 0.14
42 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (40 bp):
ATTGGTAATGGTATAGCCCCCATTACCTTAGGACAAACTG
Found at i:10439715 original size:20 final size:20
Alignment explanation
Indices: 10439686--10439728 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
10439676 ATTAGGTCAC
10439686 TTTTAAGTTAGTT-ATTTTAA
1 TTTTAAGTTA-TTCATTTTAA
* *
10439706 TTTTATGTTATTCCTTTTAA
1 TTTTAAGTTATTCATTTTAA
10439726 TTT
1 TTT
10439729 GGTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTAAGTTATTCATTTTAA
Found at i:10444625 original size:17 final size:18
Alignment explanation
Indices: 10444594--10444627 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10444584 AGAGTCAAGC
*
10444594 CACCAGAGCCGCCATCAG
1 CACCAGAGCCACCATCAG
10444612 CACCA-AGCCACCATCA
1 CACCAGAGCCACCATCA
10444628 CAGCATACAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.47, G:0.15, T:0.06
Consensus pattern (18 bp):
CACCAGAGCCACCATCAG
Found at i:10466308 original size:2 final size:2
Alignment explanation
Indices: 10466301--10466333 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10466291 TGCAAGCATA
10466301 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
10466334 ATAGCAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:10466517 original size:21 final size:21
Alignment explanation
Indices: 10466487--10466541 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
10466477 ATGAATTTTA
* *
10466487 AACTTGTTTGAGTGATCCTTG
1 AACTTGTTTGAATCATCCTTG
* *
10466508 AACTTATTTGAATCATCTTTG
1 AACTTGTTTGAATCATCCTTG
10466529 AACTTGTTTGAAT
1 AACTTGTTTGAAT
10466542 GTGCTCTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (21 bp):
AACTTGTTTGAATCATCCTTG
Found at i:10468000 original size:98 final size:100
Alignment explanation
Indices: 10467898--10468132 Score: 370
Period size: 98 Copynumber: 2.4 Consensus size: 100
10467888 TTTGTCAATC
10467898 CTTTAATTTACTCTTCAAATTATTTTTGACACACTTTGATATACTGTTGCATTTTA-TTAATTTG
1 CTTTAATTTACTCTTCAAATTATTTTTGACACACTTTGATATACTGTTGCATTTTATTTAATTTG
10467962 AAAAG-TTTG-AAATTTTGTTCTTAACTTGTTTATT
66 AAAAGTTTTGAAAATTTT-TTCTTAACTTGTTTATT
* * * *
10467996 CTTTAATTTACTCTTCAAGTTATTTTTGACATACTTTGATATACTTTTGCATTTTATTTACTTTG
1 CTTTAATTTACTCTTCAAATTATTTTTGACACACTTTGATATACTGTTGCATTTTATTTAATTTG
*
10468061 AAGAGTTTTGAAAATTTTTTCTTAACTTGTTTATT
66 AAAAGTTTTGAAAATTTTTTCTTAACTTGTTTATT
*
10468096 CTTTAATTTACTCTTCAAATTACTTTTT-TCACACTTT
1 CTTTAATTTACTCTTCAAATTA-TTTTTGACACACTTT
10468133 AACCAAAAAA
Statistics
Matches: 125, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
98 53 0.42
99 11 0.09
100 49 0.39
101 12 0.10
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.54
Consensus pattern (100 bp):
CTTTAATTTACTCTTCAAATTATTTTTGACACACTTTGATATACTGTTGCATTTTATTTAATTTG
AAAAGTTTTGAAAATTTTTTCTTAACTTGTTTATT
Found at i:10490834 original size:2 final size:2
Alignment explanation
Indices: 10490827--10490867 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
10490817 TTTAGAGACA
* * *
10490827 AT AT AT AT AT AT AT AT AT TT AT AT TT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10490868 CGAGTTTGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:10490844 original size:12 final size:12
Alignment explanation
Indices: 10490827--10490867 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
10490817 TTTAGAGACA
*
10490827 ATATATATATAT
1 ATATATTTATAT
10490839 ATATATTTATAT
1 ATATATTTATAT
*
10490851 TTATATTTATAT
1 ATATATTTATAT
10490863 ATATA
1 ATATA
10490868 CGAGTTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATATATTTATAT
Found at i:10491916 original size:10 final size:11
Alignment explanation
Indices: 10491899--10491931 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
10491889 TTTTACTTTC
10491899 TTCTATTTTTT
1 TTCTATTTTTT
10491910 TTC-A-TTTTT
1 TTCTATTTTTT
10491919 TTCTATTTTTT
1 TTCTATTTTTT
10491930 TT
1 TT
10491932 ACTTTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.40
10 2 0.10
11 10 0.50
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (11 bp):
TTCTATTTTTT
Found at i:10491924 original size:20 final size:19
Alignment explanation
Indices: 10491889--10491941 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 19
10491879 TTTCCTCTTC
*
10491889 TTTTACTTTCTTCTATTTT
1 TTTTACTTTTTTCTATTTT
*
10491908 TTTTCATTTTTTTCTATTTT
1 TTTT-ACTTTTTTCTATTTT
10491928 TTTTACTTTTTTCT
1 TTTTACTTTTTTCT
10491942 TGGACTTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTACTTTTTTCTATTTT
Found at i:10492307 original size:15 final size:16
Alignment explanation
Indices: 10492287--10492319 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10492277 TTATTTATTC
10492287 TTATGTAT-ATTTTGT
1 TTATGTATGATTTTGT
*
10492302 TTATGTATGCTTTTGT
1 TTATGTATGATTTTGT
10492318 TT
1 TT
10492320 CAAATGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.67
Consensus pattern (16 bp):
TTATGTATGATTTTGT
Found at i:10492396 original size:19 final size:18
Alignment explanation
Indices: 10492372--10492407 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
10492362 AATATAAGAA
10492372 AAAGTATTTAGAGAGAAAG
1 AAAGTATTTAGAG-GAAAG
10492391 AAAGTATTTAGAGGAAA
1 AAAGTATTTAGAGGAAA
10492408 TAAGAAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (18 bp):
AAAGTATTTAGAGGAAAG
Found at i:10493648 original size:164 final size:164
Alignment explanation
Indices: 10493377--10496957 Score: 7135
Period size: 164 Copynumber: 21.8 Consensus size: 164
10493367 GTATAAGGGN
10493377 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10493442 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10493507 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10493541 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10493606 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10493671 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10493705 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10493770 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10493835 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10493869 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10493934 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10493999 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10494033 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10494098 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10494163 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10494197 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10494262 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10494327 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10494361 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10494426 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10494491 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10494525 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10494590 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10494655 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10494689 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10494754 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10494819 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10494853 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10494918 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10494983 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10495017 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10495082 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10495147 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10495181 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10495246 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10495311 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10495345 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10495410 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10495475 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10495509 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10495574 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10495639 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10495673 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10495738 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10495803 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10495837 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10495902 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10495967 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10496001 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10496066 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10496131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10496165 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10496230 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10496295 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10496329 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10496394 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10496459 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10496493 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
10496558 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10496623 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10496657 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
*
10496722 GCTTTTAATATATCCTTCCTTTAACTAGGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10496787 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
131 GAATTTCACTTGACTAAATTTGTTTAACACTAAT
10496821 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
1 TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
* *
10496886 GCTTTTAATATATCCTTCCTTTAACTATGCTATGCAAATAGTATTATTCTCATATAACGTTGTTG
66 GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
10496951 GAATTTC
131 GAATTTC
10496958 CTTCTTGGTT
Statistics
Matches: 3413, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 3413 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (164 bp):
TTCACCCTTTTCTTGGAGATCATGAGTGAAGAAGAATTTTGACGAACTATGTGTTTTGTTCGATT
GCTTTTAATATATCCTTCCTTTAACTATGTTATGCAAGTAGTATTATTCTCATATAACGTTGTTG
GAATTTCACTTGACTAAATTTGTTTAACACTAAT
Found at i:10498310 original size:63 final size:63
Alignment explanation
Indices: 10498140--10498310 Score: 220
Period size: 63 Copynumber: 2.7 Consensus size: 63
10498130 AGCTCATATG
* * * **
10498140 CATCA-TT-ACCGGCATGTGCACTGCCCACTTCGCACATGCACGGTAGTAATTATCGCAACAT
1 CATCATTTAACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAACTATCAAAACAT
* * * ** *
10498201 CATCATTCAACCGGCATGTGCACTACCCACTCTGCACATTTACGGTTGTAACTATCAAAACCT
1 CATCATTTAACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAACTATCAAAACAT
*
10498264 CATCATTTAACCGGCATATGCACTGCCCACTCCGCACATGCACGGTT
1 CATCATTTAACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTT
10498311 ACATCCATTA
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
61 5 0.05
62 1 0.01
63 85 0.93
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (63 bp):
CATCATTTAACCGGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAACTATCAAAACAT
Found at i:10499308 original size:32 final size:32
Alignment explanation
Indices: 10499292--10499395 Score: 114
Period size: 32 Copynumber: 3.5 Consensus size: 32
10499282 TGACAGAGGG
10499292 AGTGGACGGCTGTGATTAGAAGAAAGAAAGGA
1 AGTGGACGGCTGTGATTAGAAGAAAGAAAGGA
* **
10499324 AGTGGACGGCTGTG---A-AAG-GAG-ATCG-
1 AGTGGACGGCTGTGATTAGAAGAAAGAAAGGA
*
10499349 AGTGGACGGTTGTGATTAGAAGAAAGAAAGGA
1 AGTGGACGGCTGTGATTAGAAGAAAGAAAGGA
*
10499381 AGTGGACGGTTGTGA
1 AGTGGACGGCTGTGA
10499396 AAGGAGATGG
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
25 13 0.22
26 2 0.03
27 2 0.03
28 4 0.07
29 4 0.07
30 2 0.03
31 2 0.03
32 29 0.50
ACGTcount: A:0.35, C:0.07, G:0.40, T:0.18
Consensus pattern (32 bp):
AGTGGACGGCTGTGATTAGAAGAAAGAAAGGA
Found at i:10499379 original size:57 final size:57
Alignment explanation
Indices: 10499291--10499441 Score: 232
Period size: 57 Copynumber: 2.6 Consensus size: 57
10499281 ATGACAGAGG
*
10499291 GAGTGGACGGCTGTGATTAGAAGAAAGAAAGGAAGTGGACGGCTGTGAAAGGAGATC
1 GAGTGGACGGTTGTGATTAGAAGAAAGAAAGGAAGTGGACGGCTGTGAAAGGAGATC
* *
10499348 GAGTGGACGGTTGTGATTAGAAGAAAGAAAGGAAGTGGACGGTTGTGAAAGGAGATG
1 GAGTGGACGGTTGTGATTAGAAGAAAGAAAGGAAGTGGACGGCTGTGAAAGGAGATC
* * *
10499405 GAATGGACGGTTGTGATTA-AAAAAAGGAAAGGGAGTG
1 GAGTGGACGGTTGTGATTAGAAGAAA-GAAAGGAAGTG
10499442 ATGGTTGTGA
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
56 5 0.06
57 82 0.94
ACGTcount: A:0.36, C:0.05, G:0.40, T:0.18
Consensus pattern (57 bp):
GAGTGGACGGTTGTGATTAGAAGAAAGAAAGGAAGTGGACGGCTGTGAAAGGAGATC
Found at i:10499412 original size:25 final size:26
Alignment explanation
Indices: 10499321--10499420 Score: 96
Period size: 25 Copynumber: 3.7 Consensus size: 26
10499311 AAGAAAGAAA
*
10499321 GGAAGTGGACGGCTGTGAAAGGAGAT
1 GGAAGTGGACGGTTGTGAAAGGAGAT
* * *
10499347 CG-AGTGGACGGTTGTGATTAGAAGAAAGAAA
1 GGAAGTGGACGGTTGTG---A-AAG-GAG-AT
10499378 GGAAGTGGACGGTTGTGAAAGGAGAT
1 GGAAGTGGACGGTTGTGAAAGGAGAT
10499404 GGAA-TGGACGGTTGTGA
1 GGAAGTGGACGGTTGTGA
10499421 TTAAAAAAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
25 26 0.43
26 6 0.10
27 2 0.03
28 4 0.07
29 4 0.07
30 2 0.03
31 2 0.03
32 14 0.23
ACGTcount: A:0.32, C:0.06, G:0.43, T:0.19
Consensus pattern (26 bp):
GGAAGTGGACGGTTGTGAAAGGAGAT
Found at i:10499472 original size:31 final size:31
Alignment explanation
Indices: 10499413--10499473 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
10499403 TGGAATGGAC
* **
10499413 GGTTGTGATTAAAAAAAGGAAAGGGAGTGAT
1 GGTTGTGATTAAAAAAAAGAAAAAGAGTGAT
10499444 GGTTGTGATTAAAAAAAAGAAAAAGAGTGA
1 GGTTGTGATTAAAAAAAAGAAAAAGAGTGA
10499474 GTGAGTGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (31 bp):
GGTTGTGATTAAAAAAAAGAAAAAGAGTGAT
Found at i:10500855 original size:19 final size:20
Alignment explanation
Indices: 10500828--10500872 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
10500818 AGAAGACAAG
*
10500828 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
10500847 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
10500866 ATAATAT
1 ATAATAT
10500873 GAAATACCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:10507918 original size:57 final size:57
Alignment explanation
Indices: 10507848--10507999 Score: 209
Period size: 57 Copynumber: 2.7 Consensus size: 57
10507838 GTCGTGACAG
* *
10507848 GACGGCTGTGATTAGAAGAAAGAAAGGAAGTGGATGGTTATGAAAGGAGATGGAGTA
1 GACGGTTGTGATTAGAAGAAAGAAAGGAAGTGGATGGCTATGAAAGGAGATGGAGTA
* * *
10507905 GACGGTTGTGATTAGAAGAAAGAAAGGAAGTGGACGGCTGTGAAAGGAGATGGAGTG
1 GACGGTTGTGATTAGAAGAAAGAAAGGAAGTGGATGGCTATGAAAGGAGATGGAGTA
* * *
10507962 GACGGTTGTGCTTA-AAAAAAGGAAAGGGAGT-GATGGCT
1 GACGGTTGTGATTAGAAGAAA-GAAAGGAAGTGGATGGCT
10508000 GTGATTAAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
56 11 0.13
57 74 0.87
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.19
Consensus pattern (57 bp):
GACGGTTGTGATTAGAAGAAAGAAAGGAAGTGGATGGCTATGAAAGGAGATGGAGTA
Found at i:10507992 original size:32 final size:32
Alignment explanation
Indices: 10507947--10508024 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 32
10507937 GACGGCTGTG
* * * *
10507947 AAAGGAGATGGAGTGGACGGTTGTGCTTAAAA
1 AAAGGAAAGGGAGTGGACGGCTGTGATTAAAA
*
10507979 AAAGGAAAGGGAGT-GATGGCTGTGATTAAAA
1 AAAGGAAAGGGAGTGGACGGCTGTGATTAAAA
* *
10508010 AAAGAAAAGAGAGTG
1 AAAGGAAAGGGAGTG
10508025 AGTGAGTGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.68
32 12 0.32
ACGTcount: A:0.42, C:0.04, G:0.36, T:0.18
Consensus pattern (32 bp):
AAAGGAAAGGGAGTGGACGGCTGTGATTAAAA
Found at i:10509192 original size:32 final size:31
Alignment explanation
Indices: 10509130--10509330 Score: 115
Period size: 32 Copynumber: 6.7 Consensus size: 31
10509120 GAGCAACAGC
* *
10509130 CGGCTGTGATTAAA-AATGACATAGGGAGTGGA
1 CGGCTGTGATTAAAGAAAGA-A-AGGAAGTGGA
10509162 CGGCTGTGATTAGAAGAAAGAAAGGAAGTGGA
1 CGGCTGTGATTA-AAGAAAGAAAGGAAGTGGA
* * **
10509194 CGG-T-TG-TGAAAG-GAG-ATCG-AGTGGA
1 CGGCTGTGATTAAAGAAAGAAAGGAAGTGGA
* *
10509219 CGGTTGTGATTAGAAGAAAGAAAGAAAGTGGA
1 CGGCTGTGATTA-AAGAAAGAAAGGAAGTGGA
* *
10509251 CGGCTGTG---AAAG-GAG-ATGG-AGTGGA
1 CGGCTGTGATTAAAGAAAGAAAGGAAGTGGA
* * *
10509276 CGGTTGTGATTAAAAAAAGGAAAGGGAGT-GA
1 CGGCTGTGATTAAAGAAA-GAAAGGAAGTGGA
* *
10509307 TGGCTGTGATTAAAAAAAGGAAAG
1 CGGCTGTGATTAAAGAAA-GAAAG
10509331 ATAGTGAGTG
Statistics
Matches: 132, Mismatches: 21, Indels: 33
0.71 0.11 0.18
Matches are distributed among these distances:
25 22 0.17
26 5 0.04
27 6 0.05
28 11 0.08
29 7 0.05
30 5 0.04
31 29 0.22
32 40 0.30
33 3 0.02
34 4 0.03
ACGTcount: A:0.38, C:0.06, G:0.37, T:0.19
Consensus pattern (31 bp):
CGGCTGTGATTAAAGAAAGAAAGGAAGTGGA
Found at i:10509217 original size:25 final size:25
Alignment explanation
Indices: 10509188--10509284 Score: 86
Period size: 25 Copynumber: 3.6 Consensus size: 25
10509178 AAAGAAAGGA
*
10509188 AGTGGACGGTTGTGAAAGGAGATCG
1 AGTGGACGGTTGTGAAAGGAGATAG
* *
10509213 AGTGGACGGTTGTGATTAGAAGAAAGAAAG
1 AGTGGACGGTTGTG---A-AAG-GAGATAG
* *
10509243 AAAGTGGACGGCTGTGAAAGGAGATGG
1 --AGTGGACGGTTGTGAAAGGAGATAG
10509270 AGTGGACGGTTGTGA
1 AGTGGACGGTTGTGA
10509285 TTAAAAAAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
25 28 0.49
27 4 0.07
28 4 0.07
29 4 0.07
30 4 0.07
32 13 0.23
ACGTcount: A:0.32, C:0.06, G:0.42, T:0.20
Consensus pattern (25 bp):
AGTGGACGGTTGTGAAAGGAGATAG
Found at i:10509299 original size:57 final size:57
Alignment explanation
Indices: 10509154--10509287 Score: 232
Period size: 57 Copynumber: 2.4 Consensus size: 57
10509144 AATGACATAG
* * *
10509154 GGAGTGGACGGCTGTGATTAGAAGAAAGAAAGGAAGTGGACGGTTGTGAAAGGAGAT
1 GGAGTGGACGGTTGTGATTAGAAGAAAGAAAGAAAGTGGACGGCTGTGAAAGGAGAT
*
10509211 CGAGTGGACGGTTGTGATTAGAAGAAAGAAAGAAAGTGGACGGCTGTGAAAGGAGAT
1 GGAGTGGACGGTTGTGATTAGAAGAAAGAAAGAAAGTGGACGGCTGTGAAAGGAGAT
10509268 GGAGTGGACGGTTGTGATTA
1 GGAGTGGACGGTTGTGATTA
10509288 AAAAAAGGAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 72 1.00
ACGTcount: A:0.34, C:0.06, G:0.41, T:0.19
Consensus pattern (57 bp):
GGAGTGGACGGTTGTGATTAGAAGAAAGAAAGAAAGTGGACGGCTGTGAAAGGAGAT
Found at i:10510500 original size:32 final size:32
Alignment explanation
Indices: 10510438--10510567 Score: 116
Period size: 32 Copynumber: 4.3 Consensus size: 32
10510428 GAGCAACAGC
* *
10510438 CGGCTGTGATT-GAA-AATGACAGAGGGAGTGGA
1 CGGCTGTGATTAGAAGAAAGA-A-AGGAAGTGGA
*
10510470 CGACTGTGATTAGAAGAAAGAAAGGAAGTGGA
1 CGGCTGTGATTAGAAGAAAGAAAGGAAGTGGA
* * *
10510502 CGG-T-TG-TGA-AAG-GAG-ATGG-AGTGGA
1 CGGCTGTGATTAGAAGAAAGAAAGGAAGTGGA
*
10510527 CGGTTGTGATTAGAAGAAAGAAAGGAAGTGGA
1 CGGCTGTGATTAGAAGAAAGAAAGGAAGTGGA
10510559 CGGCTGTGA
1 CGGCTGTGA
10510568 AAGGAGATGG
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
25 9 0.12
26 4 0.05
27 4 0.05
28 5 0.06
29 5 0.06
30 4 0.05
31 4 0.05
32 35 0.45
33 4 0.05
34 4 0.05
ACGTcount: A:0.35, C:0.07, G:0.40, T:0.18
Consensus pattern (32 bp):
CGGCTGTGATTAGAAGAAAGAAAGGAAGTGGA
Found at i:10510525 original size:25 final size:25
Alignment explanation
Indices: 10510496--10510592 Score: 104
Period size: 25 Copynumber: 3.6 Consensus size: 25
10510486 AAAGAAAGGA
10510496 AGTGGACGGTTGTGAAAGGAGATGG
1 AGTGGACGGTTGTGAAAGGAGATGG
* *
10510521 AGTGGACGGTTGTGATTAGAAGAAAGAAAGG
1 AGTGGACGGTTGTG---A-AAG-GAG-ATGG
*
10510552 AAGTGGACGGCTGTGAAAGGAGATGG
1 -AGTGGACGGTTGTGAAAGGAGATGG
10510578 AGTGGACGGTTGTGA
1 AGTGGACGGTTGTGA
10510593 TTAAAAAAAG
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
25 28 0.47
26 3 0.05
27 2 0.03
28 4 0.07
29 4 0.07
30 2 0.03
31 3 0.05
32 13 0.22
ACGTcount: A:0.31, C:0.05, G:0.44, T:0.20
Consensus pattern (25 bp):
AGTGGACGGTTGTGAAAGGAGATGG
Found at i:10510550 original size:57 final size:57
Alignment explanation
Indices: 10510462--10510623 Score: 247
Period size: 57 Copynumber: 2.9 Consensus size: 57
10510452 AATGACAGAG
** *
10510462 GGAGTGGACGACTGTGATTAGAAGAAAGAAAGGAAGTGGACGGTTGTGAAAGGAGAT
1 GGAGTGGACGGTTGTGATTAGAAGAAAGAAAGGAAGTGGACGGCTGTGAAAGGAGAT
10510519 GGAGTGGACGGTTGTGATTAGAAGAAAGAAAGGAAGTGGACGGCTGTGAAAGGAGAT
1 GGAGTGGACGGTTGTGATTAGAAGAAAGAAAGGAAGTGGACGGCTGTGAAAGGAGAT
* * *
10510576 GGAGTGGACGGTTGTGATTA-AAAAAAGGAAAGGGAGT-GATGGCTGTGA
1 GGAGTGGACGGTTGTGATTAGAAGAAA-GAAAGGAAGTGGACGGCTGTGA
10510624 TTAAAAAAAG
Statistics
Matches: 98, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
56 15 0.15
57 83 0.85
ACGTcount: A:0.35, C:0.05, G:0.41, T:0.19
Consensus pattern (57 bp):
GGAGTGGACGGTTGTGATTAGAAGAAAGAAAGGAAGTGGACGGCTGTGAAAGGAGAT
Found at i:10510612 original size:32 final size:32
Alignment explanation
Indices: 10510567--10510644 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 32
10510557 GACGGCTGTG
* * *
10510567 AAAGGAGATGGAGTGGACGGTTGTGATTAAAA
1 AAAGGAAAGGGAGTGGACGGCTGTGATTAAAA
*
10510599 AAAGGAAAGGGAGT-GATGGCTGTGATTAAAA
1 AAAGGAAAGGGAGTGGACGGCTGTGATTAAAA
*
10510630 AAAGGAAAGAGAGTG
1 AAAGGAAAGGGAGTG
10510645 AGTGAGTGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 28 0.70
32 12 0.30
ACGTcount: A:0.42, C:0.03, G:0.37, T:0.18
Consensus pattern (32 bp):
AAAGGAAAGGGAGTGGACGGCTGTGATTAAAA
Found at i:10511468 original size:28 final size:29
Alignment explanation
Indices: 10511422--10511485 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
10511412 GTCTATGGGC
**
10511422 AATTTTTCAATTT-TTGGGGTAAAAATGT
1 AATTTTTCAATTTACGGGGGTAAAAATGT
* *
10511450 AATTTTTCACTTTACGGGGGTAAAAGTGT
1 AATTTTTCAATTTACGGGGGTAAAAATGT
10511479 AATTTTT
1 AATTTTT
10511486 AAAAATTTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.30, C:0.06, G:0.19, T:0.45
Consensus pattern (29 bp):
AATTTTTCAATTTACGGGGGTAAAAATGT
Found at i:10514982 original size:13 final size:13
Alignment explanation
Indices: 10514955--10514989 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
10514945 TGATCTATAA
10514955 TCATATGTC-TAT
1 TCATATGTCATAT
10514967 TCATATGTCATAT
1 TCATATGTCATAT
10514980 TCATATGTCA
1 TCATATGTCA
10514990 ATTACTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.29, C:0.17, G:0.09, T:0.46
Consensus pattern (13 bp):
TCATATGTCATAT
Found at i:10517622 original size:31 final size:30
Alignment explanation
Indices: 10517587--10517680 Score: 75
Period size: 31 Copynumber: 3.1 Consensus size: 30
10517577 AATAATTATG
10517587 ATGTCATTCACATGCTCGATAGAATGTTTGT
1 ATGTCATTCACATGCTCGATAGAATG-TTGT
** * * * * *
10517618 ATGTCAAAC-CCTGCTTTG-TAAAATAATTAT
1 ATGTCATTCACATGC-TCGATAGAAT-GTTGT
10517648 AATGTCATTCACATGCTCGATAGAATGTTGT
1 -ATGTCATTCACATGCTCGATAGAATGTTGT
10517679 AT
1 AT
10517681 ATTTAGGAAG
Statistics
Matches: 44, Mismatches: 14, Indels: 11
0.64 0.20 0.16
Matches are distributed among these distances:
30 14 0.32
31 21 0.48
32 9 0.20
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (30 bp):
ATGTCATTCACATGCTCGATAGAATGTTGT
Found at i:10517654 original size:62 final size:61
Alignment explanation
Indices: 10517557--10517680 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 61
10517547 ATCTGAAACT
*
10517557 TGTCAAACCCTACTTTGTAAAATAATTATGATGTCATTCACATGCTCGATAGAATGTTTGTA
1 TGTCAAACCCTACTTTGTAAAATAATTATAATGTCATTCACATGCTCGATAGAATG-TTGTA
*
10517619 TGTCAAACCCTGCTTTGTAAAATAATTATAATGTCATTCACATGCTCGATAGAATGTTGTA
1 TGTCAAACCCTACTTTGTAAAATAATTATAATGTCATTCACATGCTCGATAGAATGTTGTA
10517680 T
1 T
10517681 ATTTAGGAAG
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 6 0.10
62 54 0.90
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (61 bp):
TGTCAAACCCTACTTTGTAAAATAATTATAATGTCATTCACATGCTCGATAGAATGTTGTA
Found at i:10527284 original size:20 final size:20
Alignment explanation
Indices: 10527239--10527276 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
10527229 TTTTGGCCCC
10527239 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
10527259 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
10527277 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:10532977 original size:17 final size:17
Alignment explanation
Indices: 10532955--10532987 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10532945 AATTTAAAAA
10532955 CTATTACTTTTCATAAG
1 CTATTACTTTTCATAAG
10532972 CTATTACTTTTCATAA
1 CTATTACTTTTCATAA
10532988 AAACTTTATA
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:0.18, G:0.03, T:0.48
Consensus pattern (17 bp):
CTATTACTTTTCATAAG
Found at i:10533645 original size:23 final size:23
Alignment explanation
Indices: 10533619--10533687 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 23
10533609 AAAAATATCT
10533619 TTTATTATAATATTAATTTTTAA
1 TTTATTATAATATTAATTTTTAA
*
10533642 TTTA--A-AATATTTATTTTTTATAA
1 TTTATTATAATA-TTA-ATTTT-TAA
10533665 TTTATTAATAATATTAATATTTT
1 TTTATT-ATAATATTAAT-TTTT
10533688 TTTTTCACAG
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
20 4 0.11
21 4 0.11
22 4 0.11
23 11 0.31
25 2 0.06
26 7 0.19
27 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTATTATAATATTAATTTTTAA
Found at i:10533789 original size:27 final size:27
Alignment explanation
Indices: 10533737--10533790 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
10533727 TTTTATTTTA
* *
10533737 AAAATATTAATAATTTAAAGTTTATTT
1 AAAATATTAATAAATTAAAGTCTATTT
10533764 AAAATATTAATAAATTATAAG-CTATTT
1 AAAATATTAATAAATTA-AAGTCTATTT
10533791 TCAGAGCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (27 bp):
AAAATATTAATAAATTAAAGTCTATTT
Found at i:10534815 original size:23 final size:21
Alignment explanation
Indices: 10534787--10534844 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 21
10534777 ATTATAAAAC
*
10534787 TTATATATTTTATTTTCATTTC
1 TTATATATTTTATTTT-ATTTA
*
10534809 TTAATATAATTT-TTTTA--TA
1 TT-ATATATTTTATTTTATTTA
10534828 TTATATATTTTATTTTA
1 TTATATATTTTATTTTA
10534845 ATTTTTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 8 0.26
19 8 0.26
21 1 0.03
22 6 0.19
23 8 0.26
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATATATTTTATTTTATTTA
Found at i:10538623 original size:2 final size:2
Alignment explanation
Indices: 10538616--10538728 Score: 67
Period size: 2 Copynumber: 57.5 Consensus size: 2
10538606 CCGTAATCTA
* * * *
10538616 AT AT AT AT AT AT AT AT AT AGT AA AC CT A- AT AT AT AGT CT A- AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT
* * *
10538658 AT A- AT AT AT AT AT AT AT AGT CT A- AT AT AT AT -T GT -T AT TT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
* *
10538697 AT GT AT CT ACT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A
10538729 ACATACTTAA
Statistics
Matches: 86, Mismatches: 15, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
1 6 0.07
2 74 0.86
3 6 0.07
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:10538678 original size:25 final size:25
Alignment explanation
Indices: 10538644--10538726 Score: 89
Period size: 25 Copynumber: 3.3 Consensus size: 25
10538634 AGTAAACCTA
10538644 ATATATAGTCTAATATAATATATAT
1 ATATATAGTCTAATATAATATATAT
*
10538669 ATATATAGTCTAATAT-ATATTGTTAT
1 ATATATAGTCTAATATAATA-T-ATAT
* * *
10538695 TTATGTA-TCTACTATATATATATAT
1 ATATATAGTCTAATATA-ATATATAT
10538720 ATATATA
1 ATATATA
10538727 TAACATACTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
24 3 0.06
25 32 0.68
26 9 0.19
27 3 0.06
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (25 bp):
ATATATAGTCTAATATAATATATAT
Found at i:10538682 original size:37 final size:37
Alignment explanation
Indices: 10538612--10538687 Score: 109
Period size: 41 Copynumber: 2.0 Consensus size: 37
10538602 CGGGCCGTAA
10538612 TCTAATATATATATATATATATAGTAAACCTAATATATAG
1 TCTAATATATATATATATATATAGT--A-CTAATATATAG
10538652 TCTAATATAATATATATATATATAGT-CTAATATATA
1 TCTAATAT-ATATATATATATATAGTACTAATATATA
10538688 TTGTTATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
37 10 0.29
40 8 0.23
41 17 0.49
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (37 bp):
TCTAATATATATATATATATATAGTACTAATATATAG
Found at i:10538801 original size:11 final size:10
Alignment explanation
Indices: 10538783--10538836 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
10538773 TGAAGGGCAT
*
10538783 AGAAAAAAGA
1 AGAAAAAAAA
10538793 AGAAAAAAAAA
1 AG-AAAAAAAA
*
10538804 AGTAAAAAAA
1 AGAAAAAAAA
*
10538814 AGAAAAATAA
1 AGAAAAAAAA
* *
10538824 ATAAATAAAA
1 AGAAAAAAAA
10538834 AGA
1 AGA
10538837 GACAACGCAC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
10 26 0.74
11 9 0.26
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.07
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:10538815 original size:24 final size:23
Alignment explanation
Indices: 10538785--10538834 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
10538775 AAGGGCATAG
10538785 AAAAAAGAAGAAA-AAAAAAAGTAA
1 AAAAAAGAA-AAATAAAAAAA-TAA
*
10538809 AAAAAAGAAAAATAAATAAATAA
1 AAAAAAGAAAAATAAAAAAATAA
10538832 AAA
1 AAA
10538835 GAGACAACGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (23 bp):
AAAAAAGAAAAATAAAAAAATAA
Found at i:10540745 original size:25 final size:25
Alignment explanation
Indices: 10540703--10540752 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
10540693 AATATTTGCA
* **
10540703 ATGTGTCATTGAGGACAATAAGCCC
1 ATGTGTCACTGACAACAATAAGCCC
*
10540728 ATGTGTCACTGACAACAATGAGCCC
1 ATGTGTCACTGACAACAATAAGCCC
10540753 TTGTTGGAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (25 bp):
ATGTGTCACTGACAACAATAAGCCC
Found at i:10543638 original size:9 final size:9
Alignment explanation
Indices: 10543624--10543652 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
10543614 CTTAACGTGT
10543624 CAGACACGA
1 CAGACACGA
10543633 CAGACACGA
1 CAGACACGA
10543642 CAGACACGA
1 CAGACACGA
10543651 CA
1 CA
10543653 AATACGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.34, G:0.21, T:0.00
Consensus pattern (9 bp):
CAGACACGA
Found at i:10543967 original size:9 final size:9
Alignment explanation
Indices: 10543950--10543988 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
10543940 ATATTTTTAT
*
10543950 TTAATCGTG
1 TTAAACGTG
10543959 TTAAACGTG
1 TTAAACGTG
10543968 TTAATA-GTG
1 TTAA-ACGTG
10543977 TTAAACGTG
1 TTAAACGTG
10543986 TTA
1 TTA
10543989 TTAATCGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
8 1 0.04
9 25 0.93
10 1 0.04
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (9 bp):
TTAAACGTG
Found at i:10543977 original size:18 final size:18
Alignment explanation
Indices: 10543950--10543988 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
10543940 ATATTTTTAT
*
10543950 TTAATCGTGTTAAACGTG
1 TTAATAGTGTTAAACGTG
10543968 TTAATAGTGTTAAACGTG
1 TTAATAGTGTTAAACGTG
10543986 TTA
1 TTA
10543989 TTAATCGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (18 bp):
TTAATAGTGTTAAACGTG
Found at i:10544663 original size:30 final size:30
Alignment explanation
Indices: 10544586--10544683 Score: 103
Period size: 30 Copynumber: 3.3 Consensus size: 30
10544576 TCAAAAAAAC
* *
10544586 TCAAATAAAT-ATTTATATTTTTATTAT-AT
1 TCAAATAAATCA-TTATATTTTTATTTTGAA
* * *
10544615 TCAATTAAGTTC-TTATATTTTTATTTTGAG
1 TCAAATAA-ATCATTATATTTTTATTTTGAA
*
10544645 TTAAATAAATCATTATATTTTTATTTTGAA
1 TCAAATAAATCATTATATTTTTATTTTGAA
10544675 TCAAATAAA
1 TCAAATAAA
10544684 CTATATAACT
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
29 23 0.41
30 33 0.59
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (30 bp):
TCAAATAAATCATTATATTTTTATTTTGAA
Found at i:10551712 original size:11 final size:11
Alignment explanation
Indices: 10551696--10551720 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10551686 ATGGAACAAA
10551696 TAATATGACAT
1 TAATATGACAT
10551707 TAATATGACAT
1 TAATATGACAT
10551718 TAA
1 TAA
10551721 GATGGAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (11 bp):
TAATATGACAT
Found at i:10562786 original size:9 final size:9
Alignment explanation
Indices: 10562772--10562804 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
10562762 GTAACATAGC
10562772 TTTTTGAAA
1 TTTTTGAAA
10562781 TTTTTG-AA
1 TTTTTGAAA
*
10562789 TTTTTGAAT
1 TTTTTGAAA
10562798 TTTTTGA
1 TTTTTGA
10562805 TAGTGTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (9 bp):
TTTTTGAAA
Found at i:10562794 original size:17 final size:17
Alignment explanation
Indices: 10562772--10562804 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10562762 GTAACATAGC
10562772 TTTTTGAAATTTTTGAA
1 TTTTTGAAATTTTTGAA
*
10562789 TTTTTGAATTTTTTGA
1 TTTTTGAAATTTTTGA
10562805 TAGTGTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (17 bp):
TTTTTGAAATTTTTGAA
Found at i:10562800 original size:7 final size:8
Alignment explanation
Indices: 10562772--10562801 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
10562762 GTAACATAGC
10562772 TTTTTGAAA
1 TTTTTG-AA
10562781 TTTTTGAA
1 TTTTTGAA
10562789 TTTTTGAA
1 TTTTTGAA
10562797 TTTTT
1 TTTTT
10562802 TGATAGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (8 bp):
TTTTTGAA
Found at i:10563278 original size:30 final size:30
Alignment explanation
Indices: 10563244--10563309 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
10563234 GGAGGGGAAT
*
10563244 AGTAACTCATGCATTATGGGT-TGGACAAAA
1 AGTAACTCATGCATTATAGGTAT-GACAAAA
* * *
10563274 AGTAACTTATGTATTATAGGTATTACAAAA
1 AGTAACTCATGCATTATAGGTATGACAAAA
10563304 AGTAAC
1 AGTAAC
10563310 ATGTATTAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (30 bp):
AGTAACTCATGCATTATAGGTATGACAAAA
Found at i:10571936 original size:4 final size:4
Alignment explanation
Indices: 10571929--10571982 Score: 67
Period size: 4 Copynumber: 13.8 Consensus size: 4
10571919 TCTCTTTTTC
* *
10571929 TCTT TCTT TCTT CCTT TCTC TCTT TC-T T-TT TCTT TCTT TCTT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT
10571975 TCCTT TCT
1 T-CTT TCT
10571983 CCAGGCCATT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
3 4 0.09
4 35 0.81
5 4 0.09
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (4 bp):
TCTT
Found at i:10571971 original size:26 final size:26
Alignment explanation
Indices: 10571914--10571983 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
10571904 CCTTAGCCGA
* *
10571914 TCCTCTCTCTTTTTCTCTTTCTTTCT
1 TCCTTTCTCTCTTTCTCTTTCTTTCT
*
10571940 TCCTTTCTCTCTTTCTTTTTCTTTCT
1 TCCTTTCTCTCTTTCTCTTTCTTTCT
* *
10571966 TTCTTTCTTTCCTTTCTC
1 TCCTTTCTCT-CTTTCTC
10571984 CAGGCCATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 31 0.84
27 6 0.16
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (26 bp):
TCCTTTCTCTCTTTCTCTTTCTTTCT
Found at i:10574914 original size:4 final size:4
Alignment explanation
Indices: 10574907--10574944 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
10574897 ATCCTGGACA
* *
10574907 ATAC ATAC ATAC ATAC ATAC ATAC ATGC ATAC GTAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
10574945 TCTCTCTCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:10574968 original size:2 final size:2
Alignment explanation
Indices: 10574963--10575007 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
10574953 TCTCTCTCTC
*
10574963 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10575005 TA T
1 TA T
10575008 TGAACAAGTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10575379 original size:29 final size:30
Alignment explanation
Indices: 10575328--10575385 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
10575318 TATTTTTATG
**
10575328 CAAAAAATGAATAGAAAGTAAAAAGCAAAA
1 CAAAAAATGAATAGAAAACAAAAAGCAAAA
* *
10575358 CAAAAGAT-AATAGAAAACAAAAGGCAAA
1 CAAAAAATGAATAGAAAACAAAAAGCAAA
10575386 TAGCAAATGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.69, C:0.09, G:0.14, T:0.09
Consensus pattern (30 bp):
CAAAAAATGAATAGAAAACAAAAAGCAAAA
Found at i:10587140 original size:2 final size:2
Alignment explanation
Indices: 10587133--10587162 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10587123 CTATAAATGG
*
10587133 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10587163 GTGCTGAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10592085 original size:27 final size:27
Alignment explanation
Indices: 10592047--10592101 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
10592037 TAACGCAAAG
10592047 AAAACTATTACGGCAGCTTGTTTGGGC
1 AAAACTATTACGGCAGCTTGTTTGGGC
10592074 AAAACTATTACGGCAGCTTGTTTGGGC
1 AAAACTATTACGGCAGCTTGTTTGGGC
10592101 A
1 A
10592102 CAGGACTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (27 bp):
AAAACTATTACGGCAGCTTGTTTGGGC
Found at i:10592781 original size:22 final size:21
Alignment explanation
Indices: 10592746--10592820 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 21
10592736 TTAACTCAAT
*
10592746 TTTATTTTTTTTATTTTTTCT-
1 TTTA-TTTATTTATTTTTTCTA
* *
10592767 TTTAATTTATATTATTATTTGTA
1 TTT-ATTTAT-TTATTTTTTCTA
*
10592790 TTTATTTATTTATTTCTTGCTA
1 TTTATTTATTTATTT-TTTCTA
10592812 TTCTATTTA
1 TT-TATTTA
10592821 CTCATATGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 12 0.28
22 22 0.51
23 9 0.21
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTATTTATTTATTTTTTCTA
Found at i:10595323 original size:21 final size:21
Alignment explanation
Indices: 10595292--10595362 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
10595282 GTGTAGACAC
10595292 TAAAA-AAAAAATAATAATA-A
1 TAAAATAAAAAATAA-AATATA
10595312 TAAAATAAAAAAT-AAATATA
1 TAAAATAAAAAATAAAATATA
* *
10595332 TAAATATAAAATATAAAAAATA
1 TAAA-ATAAAAAATAAAATATA
10595354 TATAAATAA
1 TA-AAATAA
10595363 TTAAAAAAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
19 4 0.09
20 11 0.25
21 15 0.34
22 12 0.27
23 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAAATAAAAAATAAAATATA
Found at i:10595334 original size:8 final size:8
Alignment explanation
Indices: 10595323--10595361 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
10595313 AAAATAAAAA
10595323 ATAAATAT
1 ATAAATAT
10595331 ATAAATAT
1 ATAAATAT
10595339 A-AAATAT
1 ATAAATAT
*
10595346 AAAAAATAT
1 -ATAAATAT
10595355 ATAAATA
1 ATAAATA
10595362 ATTAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 6 0.21
8 16 0.57
9 6 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (8 bp):
ATAAATAT
Found at i:10595334 original size:26 final size:25
Alignment explanation
Indices: 10595294--10595368 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 25
10595284 GTAGACACTA
10595294 AAAAAAAAATA-ATAATAATAAAAT
1 AAAAAAAAATATATAATAATAAAAT
10595318 AAAAAATAAATATATAA-ATATAAAAT
1 AAAAAA-AAATATATAATA-ATAAAAT
*
10595344 -ATAAAAAATATATAAATAATTAAAA
1 AAAAAAAAATATAT-AATAA-TAAAA
10595369 AAAGGAGAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
24 14 0.32
25 13 0.30
26 17 0.39
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (25 bp):
AAAAAAAAATATATAATAATAAAAT
Found at i:10595337 original size:24 final size:23
Alignment explanation
Indices: 10595292--10595371 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 23
10595282 GTGTAGACAC
10595292 TAAAAAAAAAAT-AATA-AT-AA
1 TAAAAAAAAAATAAATATATAAA
10595312 TAAAATAAAAAATAAATATATAAA
1 TAAAA-AAAAAATAAATATATAAA
*
10595336 TATAAAATATAAA-AAATATATAAA
1 TA-AAAA-AAAAATAAATATATAAA
*
10595360 TAATTAAAAAAA
1 TAA-AAAAAAAA
10595372 GGAGAGGAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
20 5 0.10
21 7 0.14
22 4 0.08
23 7 0.14
24 20 0.40
25 7 0.14
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (23 bp):
TAAAAAAAAAATAAATATATAAA
Found at i:10595369 original size:18 final size:16
Alignment explanation
Indices: 10595297--10595361 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
10595287 GACACTAAAA
*
10595297 AAAAAATAATAATAATAA
1 AAAAAAT-ATAA-AATAT
*
10595315 AATAAAAAAT-AAATAT
1 AA-AAAATATAAAATAT
*
10595331 -ATAAATATAAAATAT
1 AAAAAATATAAAATAT
10595346 AAAAAATATATAAATA
1 AAAAAATATA-AAATA
10595362 ATTAAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
14 5 0.13
15 7 0.18
16 12 0.32
17 6 0.16
18 4 0.11
19 4 0.11
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAATATAAAATAT
Found at i:10595370 original size:28 final size:26
Alignment explanation
Indices: 10595292--10595371 Score: 81
Period size: 28 Copynumber: 3.0 Consensus size: 26
10595282 GTGTAGACAC
* *
10595292 TAAAAAAAAAAT-AATAATAATAAAA
1 TAAAAAATAAATAAATAATAAAAAAA
* *
10595317 TAAAAAATAAATATATAAATATAAAATA
1 TAAAAAATAAATAAAT-AATA-AAAAAA
*
10595345 TAAAAAATATATAAATAATTAAAAAAA
1 TAAAAAATAAATAAATAA-TAAAAAAA
10595372 GGAGAGGAGA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
25 11 0.25
26 2 0.05
27 11 0.25
28 20 0.45
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (26 bp):
TAAAAAATAAATAAATAATAAAAAAA
Found at i:10597222 original size:25 final size:25
Alignment explanation
Indices: 10597194--10597243 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
10597184 ATTACTCAAT
10597194 AAAAATAAT-A-AATAAATAATAATA
1 AAAAATAATGACAA-AAATAATAATA
*
10597218 AAAAATCATGACAAAAATAATAATA
1 AAAAATAATGACAAAAATAATAATA
10597243 A
1 A
10597244 TAATTCGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 8 0.35
25 13 0.57
26 2 0.09
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (25 bp):
AAAAATAATGACAAAAATAATAATA
Found at i:10597440 original size:20 final size:19
Alignment explanation
Indices: 10597415--10597523 Score: 84
Period size: 20 Copynumber: 5.7 Consensus size: 19
10597405 AATGTAAGGT
10597415 ATAAAAAATAATAATTAAAA
1 ATAAAAAATAA-AATTAAAA
* * *
10597435 ATAAAAAAGAAAATATGATA
1 ATAAAAAATAAAAT-TAAAA
*
10597455 ATAAAGAATAAAA-T-AAA
1 ATAAAAAATAAAATTAAAA
10597472 AT-AAAAATAATAATTAAATA
1 ATAAAAAATAA-AATTAAA-A
*
10597492 AT-AAAAATGACAAAATAAAA
1 ATAAAAAAT-A-AAATTAAAA
10597512 AT-AAAAATAAAA
1 ATAAAAAATAAAA
10597524 AATAATAATA
Statistics
Matches: 74, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
16 7 0.09
17 6 0.08
18 5 0.07
19 6 0.08
20 42 0.57
21 7 0.09
22 1 0.01
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (19 bp):
ATAAAAAATAAAATTAAAA
Found at i:10597441 original size:6 final size:6
Alignment explanation
Indices: 10597418--10597534 Score: 87
Period size: 6 Copynumber: 18.3 Consensus size: 6
10597408 GTAAGGTATA
* *
10597418 AAAAAT AATAATT AAAAAT AAAAA- AGAAAAT ATGATAAT AAAGAAT -AAAAT
1 AAAAAT AA-AAAT AAAAAT AAAAAT A-AAAAT A--AAAAT AAA-AAT AAAAAT
*
10597469 -AAAAT AAAAAT AATAATT AAATAAT AAAAAT GACAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AA-AAAT AAA-AAT AAAAAT -A-AAAAT AAAAAT AAAAAT
*
10597520 AAAAAAT AATAAT AA
1 -AAAAAT AAAAAT AA
10597535 CAAAATAGAT
Statistics
Matches: 93, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
5 9 0.10
6 46 0.49
7 27 0.29
8 11 0.12
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:10597474 original size:17 final size:17
Alignment explanation
Indices: 10597418--10597541 Score: 85
Period size: 17 Copynumber: 7.1 Consensus size: 17
10597408 GTAAGGTATA
10597418 AAAAATAATAATTAAAAAT
1 AAAAATAATAA-T-AAAAT
*
10597437 AAAAA-AGAAAATATGATAAT
1 AAAAATA-ATAATA--A-AAT
10597457 AAAGAATAA-AATAAAAT
1 AAA-AATAATAATAAAAT
*
10597474 AAAAATAATAATTAAAT
1 AAAAATAATAATAAAAT
* *
10597491 AATAAA-AATGACAAAAT
1 AA-AAATAATAATAAAAT
*
10597508 AAAAATAAAAATAAAA-
1 AAAAATAATAATAAAAT
* *
10597524 AATAATAATAACAAAAT
1 AAAAATAATAATAAAAT
10597541 A
1 A
10597542 GATAATTGCA
Statistics
Matches: 84, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
16 21 0.25
17 34 0.40
18 6 0.07
19 9 0.11
20 10 0.12
21 3 0.04
22 1 0.01
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAAATAATAATAAAAT
Found at i:10597486 original size:56 final size:56
Alignment explanation
Indices: 10597418--10597531 Score: 153
Period size: 56 Copynumber: 2.0 Consensus size: 56
10597408 GTAAGGTATA
* *
10597418 AAAAATAATAATTAAA-AATAAAAAAGA-AAATATGATAATAAAGAATAAAATAA-AAT
1 AAAAATAATAATTAAATAATAAAAAAGACAAA-ATAAAAATAAA-AATAAAA-AATAAT
*
10597474 AAAAATAATAATTAAATAATAAAAATGACAAAATAAAAATAAAAATAAAAAATAAT
1 AAAAATAATAATTAAATAATAAAAAAGACAAAATAAAAATAAAAATAAAAAATAAT
10597530 AA
1 AA
10597532 TAACAAAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
55 2 0.04
56 28 0.54
57 19 0.37
58 3 0.06
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.21
Consensus pattern (56 bp):
AAAAATAATAATTAAATAATAAAAAAGACAAAATAAAAATAAAAATAAAAAATAAT
Found at i:10597525 original size:14 final size:14
Alignment explanation
Indices: 10597464--10597541 Score: 56
Period size: 14 Copynumber: 5.4 Consensus size: 14
10597454 AATAAAGAAT
10597464 AAAAT-AAAATAAA
1 AAAATAAAAATAAA
10597477 AATAATAATTAAATAATA
1 AA-AATAA--AAATAA-A
10597495 AAAATGACAAAAT--A
1 AAAAT-A-AAAATAAA
10597509 AAAATAAAAAT-AA
1 AAAATAAAAATAAA
* *
10597522 AAAATAATAATAAC
1 AAAATAAAAATAAA
10597536 AAAATA
1 AAAATA
10597542 GATAATTGCA
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
12 5 0.09
13 14 0.26
14 16 0.30
15 1 0.02
17 13 0.24
18 4 0.07
19 1 0.02
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.21
Consensus pattern (14 bp):
AAAATAAAAATAAA
Found at i:10597546 original size:15 final size:13
Alignment explanation
Indices: 10597415--10597547 Score: 89
Period size: 13 Copynumber: 10.2 Consensus size: 13
10597405 AATGTAAGGT
10597415 ATAAAAAATAATA
1 ATAAAAAATAATA
*
10597428 ATTAAAAATAA-A
1 ATAAAAAATAATA
10597440 A-AAGAAAATATGATA
1 ATAA-AAAATA--ATA
*
10597455 ATAAAGAATAA-A
1 ATAAAAAATAATA
*
10597467 ATAAAATAAAAATA
1 ATAAAA-AATAATA
*
10597481 ATAATTAAATAATA
1 ATAA-AAAATAATA
** *
10597495 A-AAATGACAA-A
1 ATAAAAAATAATA
*
10597506 AT-AAAAATAAAA
1 ATAAAAAATAATA
10597518 ATAAAAAATAATA
1 ATAAAAAATAATA
10597531 ATAACAAAATAGATA
1 ATAA-AAAATA-ATA
10597546 AT
1 AT
10597548 TGCATTAGCC
Statistics
Matches: 92, Mismatches: 15, Indels: 24
0.70 0.11 0.18
Matches are distributed among these distances:
11 8 0.09
12 20 0.22
13 30 0.33
14 19 0.21
15 13 0.14
16 2 0.02
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (13 bp):
ATAAAAAATAATA
Found at i:10600498 original size:13 final size:13
Alignment explanation
Indices: 10600480--10600504 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10600470 CTAAAACTCA
10600480 AAGAAACAATATC
1 AAGAAACAATATC
10600493 AAGAAACAATAT
1 AAGAAACAATAT
10600505 TGGGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.12, G:0.08, T:0.16
Consensus pattern (13 bp):
AAGAAACAATATC
Found at i:10605124 original size:62 final size:62
Alignment explanation
Indices: 10605055--10605177 Score: 228
Period size: 62 Copynumber: 2.0 Consensus size: 62
10605045 ATTATTAGAA
*
10605055 CAAGTCCATAAATCATAACAACAGCTACCAACAAAACTATTATGAAAAATACAACATTCGAT
1 CAAGTCCATAAATCATAACAACAGCTACCAACAAAACTATCATGAAAAATACAACATTCGAT
*
10605117 CAAGTCCATAAATCATAACAACAGCTACCAACAAAACTATCGTGAAAAATACAACATTCGA
1 CAAGTCCATAAATCATAACAACAGCTACCAACAAAACTATCATGAAAAATACAACATTCGA
10605178 ATAAGCTGAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.50, C:0.24, G:0.07, T:0.20
Consensus pattern (62 bp):
CAAGTCCATAAATCATAACAACAGCTACCAACAAAACTATCATGAAAAATACAACATTCGAT
Found at i:10607697 original size:28 final size:28
Alignment explanation
Indices: 10607640--10607698 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
10607630 TTGTTATAAC
*
10607640 TTAGCAATACTGGGTGGCAGTCGGGTAT
1 TTAGCAATACTGGGTGGCAGTCAGGTAT
*
10607668 TTAGTAATACTGGGTGGCAGT-AGGTAAT
1 TTAGCAATACTGGGTGGCAGTCAGGT-AT
10607696 TTA
1 TTA
10607699 CTATTTGAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.25, C:0.10, G:0.32, T:0.32
Consensus pattern (28 bp):
TTAGCAATACTGGGTGGCAGTCAGGTAT
Found at i:10609797 original size:159 final size:160
Alignment explanation
Indices: 10609476--10609798 Score: 533
Period size: 161 Copynumber: 2.0 Consensus size: 160
10609466 ATAAGTGGTT
* * *
10609476 TGCATTTTCTTCTCTTCACTTGACTTTTCTCCTGATTTTGTTATTGAAACAAGGAATTTCAGCAA
1 TGCATTTTCTTCTCTTCACCTGACTTGTCTCCTGATTTTGTTATTGAAACAAAGAATTTCAGCAA
*
10609541 CATTGCTCTGCTTCACTTTCCCTTTTTCTCCACTCCCCTTTATCCAAACAAATTGTAAGAATAAT
66 CATTGCTCCGCTTCACTTT-CCTTTTTCTCCACTCCCCTTTATCCAAACAAATTGTAAGAATAAT
*
10609606 TGCTTTTAACAAGTGGAATTTTGAACCGCAC
130 TGCTTTTAACAAGTGGAATTTTGAACCACAC
*
10609637 TGCATTTTCTTCTCTTCGCCTGACTTGTCTCCTGATTTT-TTCATTGAAACAAAGAATTTCAGCA
1 TGCATTTTCTTCTCTTCACCTGACTTGTCTCCTGATTTTGTT-ATTGAAACAAAGAATTTCAGCA
* * *
10609701 ACATTGCTCCGCTTCACTTT-TTTTTTCTCCACTCCCCTTTATCGAACCAAATTGTAAGAATAAT
65 ACATTGCTCCGCTTCACTTTCCTTTTTCTCCACTCCCCTTTATCCAAACAAATTGTAAGAATAAT
10609765 TGCTTTTAACAAGTGGAATTTTGAACCACAC
130 TGCTTTTAACAAGTGGAATTTTGAACCACAC
10609796 TGC
1 TGC
10609799 TAATTCAAAA
Statistics
Matches: 152, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
159 74 0.49
160 2 0.01
161 76 0.50
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.39
Consensus pattern (160 bp):
TGCATTTTCTTCTCTTCACCTGACTTGTCTCCTGATTTTGTTATTGAAACAAAGAATTTCAGCAA
CATTGCTCCGCTTCACTTTCCTTTTTCTCCACTCCCCTTTATCCAAACAAATTGTAAGAATAATT
GCTTTTAACAAGTGGAATTTTGAACCACAC
Found at i:10617600 original size:54 final size:54
Alignment explanation
Indices: 10617541--10617649 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
10617531 TTTGTATCAT
10617541 GCTTTTGCAAATTTGGTTATGACAAGGGGGGAGAAACTGTGGAAAATAACTAAA
1 GCTTTTGCAAATTTGGTTATGACAAGGGGGGAGAAACTGTGGAAAATAACTAAA
*
10617595 GCTTTTGCCAATTTGGTTATGACAAGGGGGGAGAAACTGTGGAAAATAACTAAA
1 GCTTTTGCAAATTTGGTTATGACAAGGGGGGAGAAACTGTGGAAAATAACTAAA
10617649 G
1 G
10617650 TGATAGAGGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (54 bp):
GCTTTTGCAAATTTGGTTATGACAAGGGGGGAGAAACTGTGGAAAATAACTAAA
Found at i:10621520 original size:20 final size:20
Alignment explanation
Indices: 10621481--10621521 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
10621471 TTATAAAAGA
*
10621481 TTTTTTTTTTCTCATTTTCT
1 TTTTTTTTTTCTCATCTTCT
10621501 TTTTTTTCTTTCTC-TCTTCT
1 TTTTTTT-TTTCTCATCTTCT
10621521 T
1 T
10621522 GATTTGCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTTTTTCTCATCTTCT
Found at i:10625389 original size:19 final size:19
Alignment explanation
Indices: 10625352--10625387 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10625342 AAAAATATGA
*
10625352 GAAAAGAAAAGAAGAAAAT
1 GAAAAGAAAAAAAGAAAAT
10625371 GAAAA-AAAAAAAGAAAA
1 GAAAAGAAAAAAAGAAAA
10625388 ATATAAATTN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (19 bp):
GAAAAGAAAAAAAGAAAAT
Done.