Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397264.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_130.0, whole genome shotgun sequence
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: 8132550
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 35170 characters in sequence are not A, C, G, or T
File 13 of 14
Found at i:6767215 original size:45 final size:45
Alignment explanation
Indices: 6767160--6767248 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
6767150 TTCACTATAA
*
6767160 TTCAACTAATATAAATTAATATTACATTTATTAGTTTATGAAAAG
1 TTCAACTAATATAAATTAATATTACATTTATTAATTTATGAAAAG
* *
6767205 TTCAACTAATATAAATTAATATTTCATTTATTAATTTATTAAAA
1 TTCAACTAATATAAATTAATATTACATTTATTAATTTATGAAAA
6767249 AATAAGTTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (45 bp):
TTCAACTAATATAAATTAATATTACATTTATTAATTTATGAAAAG
Found at i:6774904 original size:3 final size:3
Alignment explanation
Indices: 6774896--6774921 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6774886 AGTTCAAGCA
6774896 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
6774922 AAAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6775994 original size:2 final size:2
Alignment explanation
Indices: 6775987--6776012 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6775977 AGAGTTGCAC
6775987 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
6776013 TAGACAAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6779720 original size:2 final size:2
Alignment explanation
Indices: 6779713--6779749 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
6779703 TTGGAAATCC
*
6779713 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT AT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
6779750 AAATGCTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.03, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:6784605 original size:12 final size:12
Alignment explanation
Indices: 6784588--6784614 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6784578 TTTCTCTTTA
6784588 TCTCCTCCTCCT
1 TCTCCTCCTCCT
6784600 TCTCCTCCTCCT
1 TCTCCTCCTCCT
6784612 TCT
1 TCT
6784615 TTAGGTGCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (12 bp):
TCTCCTCCTCCT
Found at i:6789560 original size:14 final size:16
Alignment explanation
Indices: 6789541--6789572 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
6789531 TTTAGATATG
6789541 AATTAA-ATTTAA-AA
1 AATTAATATTTAATAA
6789555 AATTAATATTTAATAA
1 AATTAATATTTAATAA
6789571 AA
1 AA
6789573 AAATTTTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 6 0.38
16 4 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTAATATTTAATAA
Found at i:6802011 original size:8 final size:9
Alignment explanation
Indices: 6801985--6802009 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6801975 ACGTACGGCC
6801985 AACAACCCA
1 AACAACCCA
6801994 AACAACCCA
1 AACAACCCA
6802003 AACAACC
1 AACAACC
6802010 AATTGTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.44, G:0.00, T:0.00
Consensus pattern (9 bp):
AACAACCCA
Found at i:6802247 original size:2 final size:2
Alignment explanation
Indices: 6802240--6802292 Score: 72
Period size: 2 Copynumber: 27.0 Consensus size: 2
6802230 TGGTTTGGTT
* * *
6802240 TC TC TC TC TC TC TC TC TC TC TC T- TA AC TC CC 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
6802281 TC TC TC TC TC TC
1 TC TC TC TC TC TC
6802293 CGCTTGAGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.04, C:0.49, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:6826629 original size:49 final size:49
Alignment explanation
Indices: 6826557--6826655 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
6826547 TATGAAAACA
*
6826557 ATCTAATGAACCCAAGACATTGGTAAGCTCTGCAAATAAGACTCATTTC
1 ATCTAATGAACCCAAGACATTGGTAAGCTCTGCAAATAAGACTCACTTC
* *
6826606 ATCTAGTGTACCCAAGACATTGGTAAGCTCTGCAAATAAGACTCACTTC
1 ATCTAATGAACCCAAGACATTGGTAAGCTCTGCAAATAAGACTCACTTC
6826655 A
1 A
6826656 CAGTTGCACT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.26
Consensus pattern (49 bp):
ATCTAATGAACCCAAGACATTGGTAAGCTCTGCAAATAAGACTCACTTC
Found at i:6829970 original size:75 final size:75
Alignment explanation
Indices: 6829847--6829996 Score: 228
Period size: 75 Copynumber: 2.0 Consensus size: 75
6829837 TAAGGTTTTC
** * * *
6829847 TTTGCCACGGCAGCATTCTTGGAGCTGCTAAACTACTTGGTATCAATACAATCTAATGAACGAAG
1 TTTGCCACGGCAGCATTCTTGGAGCCCCTAAACTACCTGGTATCAATACAATCTAATAAACCAAG
6829912 AGATTTGTAA
66 AGATTTGTAA
* * *
6829922 TTTGCCGCGGCAGCATTCTTGGAGCCCCTACACTGCCTGGTATCAATACAATCTAATAAACCAAG
1 TTTGCCACGGCAGCATTCTTGGAGCCCCTAAACTACCTGGTATCAATACAATCTAATAAACCAAG
6829987 AGATTTGTAA
66 AGATTTGTAA
6829997 GCTCTGCAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (75 bp):
TTTGCCACGGCAGCATTCTTGGAGCCCCTAAACTACCTGGTATCAATACAATCTAATAAACCAAG
AGATTTGTAA
Found at i:6830315 original size:59 final size:59
Alignment explanation
Indices: 6830219--6830338 Score: 213
Period size: 59 Copynumber: 2.0 Consensus size: 59
6830209 CGGTATCAAT
*
6830219 ACAATCTACTGAACCAAGAGATTTGTAAGCTCAGCAAATGAGACTCATTTCAAAGTTGC
1 ACAATCTAATGAACCAAGAGATTTGTAAGCTCAGCAAATGAGACTCATTTCAAAGTTGC
* *
6830278 ACAATCTAATGAACCAAGAGATTTGTAAGCTCTGCAAATGAGACTCATTTCACAGTTGC
1 ACAATCTAATGAACCAAGAGATTTGTAAGCTCAGCAAATGAGACTCATTTCAAAGTTGC
6830337 AC
1 AC
6830339 TTTGAGCAAC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (59 bp):
ACAATCTAATGAACCAAGAGATTTGTAAGCTCAGCAAATGAGACTCATTTCAAAGTTGC
Found at i:6841060 original size:32 final size:32
Alignment explanation
Indices: 6840997--6841056 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
6840987 TTTATTTGTA
* *
6840997 TTAAAATAAAAATAATATTAAAAGAATTTAAT
1 TTAAAAGAAAAATAATATTAAAAAAATTTAAT
6841029 TTAAAAGAAAAAT-AT-TTAAATAAAATTT
1 TTAAAAGAAAAATAATATTAAA-AAAATTT
6841057 TAATCTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 5 0.20
31 8 0.32
32 12 0.48
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (32 bp):
TTAAAAGAAAAATAATATTAAAAAAATTTAAT
Found at i:6845497 original size:3 final size:3
Alignment explanation
Indices: 6845491--6845519 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6845481 CTTTTTTTTG
6845491 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
6845520 GTCCTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:6853533 original size:20 final size:19
Alignment explanation
Indices: 6853496--6853541 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
6853486 ATTATTAACA
6853496 AAAATTAATTTAATAAATT
1 AAAATTAATTTAATAAATT
6853515 AAAATTAATTAGTAA-AAATT
1 AAAATTAATT--TAATAAATT
6853535 AAAATTA
1 AAAATTA
6853542 TATTCACAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.40
20 12 0.48
21 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATTAATTTAATAAATT
Found at i:6854165 original size:47 final size:48
Alignment explanation
Indices: 6854111--6854209 Score: 146
Period size: 49 Copynumber: 2.1 Consensus size: 48
6854101 CACTTTGCTC
* *
6854111 AATTTTTATCTTCTTGCC-ATTCATTTTAGAAGTTGGAAATAGAATAT
1 AATTTTTATCTTCTTGCCAATTCATTTTAGAAATTGAAAATAGAATAT
* *
6854158 AATTTTTATTTTCTTGCCATATTCATTTTAGAAATTGAAAATATAATAT
1 AATTTTTATCTTCTTGCCA-ATTCATTTTAGAAATTGAAAATAGAATAT
6854207 AAT
1 AAT
6854210 GATAATGCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 17 0.37
49 29 0.63
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.46
Consensus pattern (48 bp):
AATTTTTATCTTCTTGCCAATTCATTTTAGAAATTGAAAATAGAATAT
Found at i:6880637 original size:17 final size:18
Alignment explanation
Indices: 6880599--6880637 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
6880589 TATTTTCACA
*
6880599 GTTTTAATTTATTTTCTT
1 GTTTTAAATTATTTTCTT
6880617 -TTTTAAATTATTTT-TT
1 GTTTTAAATTATTTTCTT
6880633 GTTTT
1 GTTTT
6880638 TTTATGCAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (18 bp):
GTTTTAAATTATTTTCTT
Found at i:6886570 original size:2 final size:2
Alignment explanation
Indices: 6886565--6886613 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
6886555 GTGTGTGAAT
* * * *
6886565 TA TA TA TA TA TA TA CA TA CA TA CA TA TA CA TA 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
6886607 TA TA TA T
1 TA TA TA T
6886614 GCATCATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:6891059 original size:12 final size:12
Alignment explanation
Indices: 6891024--6891062 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
6891014 ACACACACAT
*
6891024 ATACATATATAT
1 ATACATATATAC
*
6891036 ATATATATATAC
1 ATACATATATAC
*
6891048 ATACATAAATAC
1 ATACATATATAC
6891060 ATA
1 ATA
6891063 AATCATATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (12 bp):
ATACATATATAC
Found at i:6897087 original size:23 final size:24
Alignment explanation
Indices: 6897034--6897092 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
6897024 AAATATTAAT
6897034 AATTTTTAAAATATTTATTTTAGA
1 AATTTTTAAAATATTTATTTTAGA
* * *
6897058 AAATTTTAAACT-TTTACTTTTACA
1 AATTTTTAAAATATTTA-TTTTAGA
*
6897082 ATTTTTTAAAA
1 AATTTTTAAAA
6897093 ATAATATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTTTTAAAATATTTATTTTAGA
Found at i:6897873 original size:11 final size:9
Alignment explanation
Indices: 6897844--6897875 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
6897834 TTTATATACA
6897844 TGTATAGTG
1 TGTATAGTG
6897853 TGTATAGTG
1 TGTATAGTG
6897862 TGTATAGTG
1 TGTATAGTG
6897871 TGTAT
1 TGTAT
6897876 GATTATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (9 bp):
TGTATAGTG
Found at i:6900491 original size:23 final size:23
Alignment explanation
Indices: 6900463--6900509 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
6900453 TTCTATTTTG
*
6900463 TATTTTATCATAATCGTTTATTT
1 TATTTTATCATAATCGTTCATTT
6900486 TATTTTATCATAATCGTTCATTT
1 TATTTTATCATAATCGTTCATTT
6900509 T
1 T
6900510 GTCATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.60
Consensus pattern (23 bp):
TATTTTATCATAATCGTTCATTT
Found at i:6907219 original size:130 final size:130
Alignment explanation
Indices: 6906986--6907247 Score: 524
Period size: 130 Copynumber: 2.0 Consensus size: 130
6906976 ATCACTGAAA
6906986 TTGTCTGGGGTAATTGTAAAGGTCTTTGAATTGCCAAGTGCTAGAATTACAAGTTCATTGTCAAG
1 TTGTCTGGGGTAATTGTAAAGGTCTTTGAATTGCCAAGTGCTAGAATTACAAGTTCATTGTCAAG
6907051 AAGGCTGTTGGCTTAGCCACAATCTTAAGCACTATTACTCATTCGGCCCCTCTGGCTGATGGCCC
66 AAGGCTGTTGGCTTAGCCACAATCTTAAGCACTATTACTCATTCGGCCCCTCTGGCTGATGGCCC
6907116 TTGTCTGGGGTAATTGTAAAGGTCTTTGAATTGCCAAGTGCTAGAATTACAAGTTCATTGTCAAG
1 TTGTCTGGGGTAATTGTAAAGGTCTTTGAATTGCCAAGTGCTAGAATTACAAGTTCATTGTCAAG
6907181 AAGGCTGTTGGCTTAGCCACAATCTTAAGCACTATTACTCATTCGGCCCCTCTGGCTGATGGCCC
66 AAGGCTGTTGGCTTAGCCACAATCTTAAGCACTATTACTCATTCGGCCCCTCTGGCTGATGGCCC
6907246 TT
1 TT
6907248 TTTTCTTCAA
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 132 1.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (130 bp):
TTGTCTGGGGTAATTGTAAAGGTCTTTGAATTGCCAAGTGCTAGAATTACAAGTTCATTGTCAAG
AAGGCTGTTGGCTTAGCCACAATCTTAAGCACTATTACTCATTCGGCCCCTCTGGCTGATGGCCC
Found at i:6924973 original size:2 final size:2
Alignment explanation
Indices: 6924966--6925006 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
6924956 TTGTTCTTAC
* *
6924966 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT TT 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
6925007 GAGGGGAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6932260 original size:2 final size:2
Alignment explanation
Indices: 6932253--6932281 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6932243 AATTTTCAGA
6932253 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6932282 ATTGAATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6932345 original size:56 final size:56
Alignment explanation
Indices: 6932254--6932379 Score: 216
Period size: 56 Copynumber: 2.2 Consensus size: 56
6932244 ATTTTCAGAA
* *
6932254 GAGAGAGAGAGAGAGAGAGAGAGAGAGAATTGAATGAACTCATAAAGAGAGGTGATG
1 GAGA-AGAGAAAGCGAGAGAGAGAGAGAATTGAATGAACTCATAAAGAGAGGTGATG
6932311 GAGAAGAGAAAGCGAGAGAGAGAGAGAATTGAATGAACTCATAAAGAGAGGTGATG
1 GAGAAGAGAAAGCGAGAGAGAGAGAGAATTGAATGAACTCATAAAGAGAGGTGATG
*
6932367 GAGAATAGAAAGC
1 GAGAAGAGAAAGC
6932380 TGCTTCTTTG
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
56 62 0.94
57 4 0.06
ACGTcount: A:0.47, C:0.05, G:0.37, T:0.12
Consensus pattern (56 bp):
GAGAAGAGAAAGCGAGAGAGAGAGAGAATTGAATGAACTCATAAAGAGAGGTGATG
Found at i:6934011 original size:2 final size:2
Alignment explanation
Indices: 6934004--6934034 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6933994 ATGATACAGA
6934004 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
6934035 TTCTGTCTTT
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:6938739 original size:12 final size:12
Alignment explanation
Indices: 6938724--6938757 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
6938714 AGAATGCAAT
6938724 AGAGAAAGAAAG
1 AGAGAAAGAAAG
6938736 AGAGAAAGAAAG
1 AGAGAAAGAAAG
*
6938748 AGAGACAGAA
1 AGAGAAAGAA
6938758 GAAGGGCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.65, C:0.03, G:0.32, T:0.00
Consensus pattern (12 bp):
AGAGAAAGAAAG
Found at i:6952453 original size:75 final size:75
Alignment explanation
Indices: 6952330--6952479 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
6952320 ATCCAAGAAA
6952330 GAGTAATCAACTGGCAGAGTTGAAACGTGGCCAATGAACAAAAACTCATTATGTAGGAACAAAAT
1 GAGTAATCAACTGGCAGAGTTGAAACGTGGCCAATGAACAAAAACTCATTATGTAGGAACAAAAT
6952395 CTCTGTCCTG
66 CTCTGTCCTG
*
6952405 GAGTAATCAACTGGCAGAGTTGAAACGTGGCCAATGAACCAAAACTCATTATGTAGGAACAAAAT
1 GAGTAATCAACTGGCAGAGTTGAAACGTGGCCAATGAACAAAAACTCATTATGTAGGAACAAAAT
6952470 CTCTGTCCTG
66 CTCTGTCCTG
6952480 AAACAGAGTA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (75 bp):
GAGTAATCAACTGGCAGAGTTGAAACGTGGCCAATGAACAAAAACTCATTATGTAGGAACAAAAT
CTCTGTCCTG
Found at i:6964336 original size:2 final size:2
Alignment explanation
Indices: 6964329--6964359 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6964319 AGTTTATACT
6964329 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 T
6964360 TAGGTAAATA
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6986247 original size:26 final size:28
Alignment explanation
Indices: 6986191--6986247 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
6986181 AAAAATTAAT
* *
6986191 AATTTTTATTTTTTATTATATTTAATTA
1 AATTTTTATTTTTTATTATATTGAATCA
6986219 AATTTTTATATTTTTA-T-T-TTGAATCA
1 AATTTTTAT-TTTTTATTATATTGAATCA
6986245 AAT
1 AAT
6986248 AAATTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 9 0.35
27 1 0.04
28 10 0.38
29 6 0.23
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (28 bp):
AATTTTTATTTTTTATTATATTGAATCA
Found at i:6986251 original size:30 final size:29
Alignment explanation
Indices: 6986191--6986258 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
6986181 AAAAATTAAT
* * *
6986191 AATTTTTAT-TTTTTATTATATTTAATTA
1 AATTTTTATATTTTTATTATAATCAAATA
*
6986219 AATTTTTATATTTTTATTTTGAATCAAATA
1 AATTTTTATATTTTTATTAT-AATCAAATA
6986249 AATTTTTATA
1 AATTTTTATA
6986259 ATTAATAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 9 0.26
29 9 0.26
30 16 0.47
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (29 bp):
AATTTTTATATTTTTATTATAATCAAATA
Found at i:6999666 original size:2 final size:2
Alignment explanation
Indices: 6999659--6999683 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6999649 CATGATATTT
6999659 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 T
6999684 TTCCGATTAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7014699 original size:72 final size:75
Alignment explanation
Indices: 7014623--7014761 Score: 169
Period size: 75 Copynumber: 1.9 Consensus size: 75
7014613 TTGATGTATT
* * *
7014623 TAGAGATATAGA-AT-TCTTT-TTTCTTTTCGTTTTAGTTC-ATACTTCTCCATACGTACGATCT
1 TAGAGATAGAGATATCTCTTTCTTTCTTTTCGTTTTA-ATCGATACTTCTCCAAACGTACGATCT
7014684 TTATTATAAAC
65 TTATTATAAAC
* * * * *
7014695 TAGAGGTAGAGATTTCTCTTTCTTTTTTTTTGTTTTAATCGATACTTCTCCAAATGTACGATCTT
1 TAGAGATAGAGATATCTCTTTCTTTCTTTTCGTTTTAATCGATACTTCTCCAAACGTACGATCTT
7014760 TA
66 TA
7014762 CTACAGATTG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
72 10 0.18
73 1 0.02
74 7 0.13
75 37 0.67
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (75 bp):
TAGAGATAGAGATATCTCTTTCTTTCTTTTCGTTTTAATCGATACTTCTCCAAACGTACGATCTT
TATTATAAAC
Found at i:7015376 original size:30 final size:30
Alignment explanation
Indices: 7015340--7015443 Score: 172
Period size: 30 Copynumber: 3.5 Consensus size: 30
7015330 GCATTAGTGG
* *
7015340 CAGATACACTTTCCATTTCAAGAATTGGAT
1 CAGATACACCTTCCATTTCAAGAATTGCAT
*
7015370 CGGATACACCTTCCATTTCAAGAATTGCAT
1 CAGATACACCTTCCATTTCAAGAATTGCAT
*
7015400 CAGATACATCTTCCATTTCAAGAATTGCAT
1 CAGATACACCTTCCATTTCAAGAATTGCAT
7015430 CAGATACACCTTCC
1 CAGATACACCTTCC
7015444 TTCCATGGAA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.31
Consensus pattern (30 bp):
CAGATACACCTTCCATTTCAAGAATTGCAT
Found at i:7018575 original size:354 final size:356
Alignment explanation
Indices: 7017885--7018589 Score: 968
Period size: 356 Copynumber: 2.0 Consensus size: 356
7017875 CATACATCCA
* * *
7017885 ATGGGATTCAATTAGATCATGCAGGTCCGTCTTCATCAGTACAGATTGGGTTTCCATTCCATGTA
1 ATGGGATTCAATTAGATCATGCAGGTCCATCTTCATCAGTACAGACTGGGTTTCCATTCCATGCA
* * * * * *
7017950 TCATCATCTGAACAGACTACGGACCTCTTTCACGAAAGCAACGTAGATTCTGCAGCTAAGCTAAG
66 TCATCATCTGAAAACACTACAGACCTCTTCCACGAAAGCAACATAGATTCTGCAACTAAGCTAAG
* * * **
7018015 CAGGAAATATGAACAGTGGTTTGCAGAACAATCTAGAGATTAATTTATTCCTTGGAATGCATGTG
131 CAGGAAATATGAACAGTGGCTTACAGAACAATCCAGAGATTAATTTATTCCTTGGAATGCATGCA
* * **
7018080 GCATACCCAGAAAGATATTGCTCAAAATCTTCCAGATGTGGCTTCCATGAGCATAGCCTCTCAGA
196 GCATACCCAGAAAGATATTGCCCAAAATCTTCCAAACATGGCTTCCATGAGCATAGCCTCTCAGA
* * * * *
7018145 ATGGACCCCAGGAAGCAATTGATTTAACTTAACCTTCACAAAAAGGGGAATGGGATGTCGCTATA
261 ATGAACCCCAAGAAGCAATTGATCTAACTCAACCTTCACAAAAAGGGGAAGGGGATGTCGCTATA
*
7018210 TCTAATGAATATGCGTTGAGGGAGATGGATC
326 TCTAATGAATATACGTTGAGGGAGATGGATC
* *
7018241 ATGGGATTCAGTTGGATCATGCAAGGT-CATCTTCATCAGTACAGACTGGGTTTCCATTCCATGC
1 ATGGGATTCAATTAGATCATGC-AGGTCCATCTTCATCAGTACAGACTGGGTTTCCATTCCATGC
* * * * *
7018305 ATTATCATCTGAAAACACTACAGACCTCTTCCATGAAAGCAACATAGATTTTGTAACTGAGCTAA
65 ATCATCATCTGAAAACACTACAGACCTCTTCCACGAAAGCAACATAGATTCTGCAACTAAGCTAA
* * * * *
7018370 GTATGAAATATGAACAGTGGCTTACAGAATAGTCCA-AGATTAATTTGTTCCTTGGAATGCATGC
130 GCAGGAAATATGAACAGTGGCTTACAGAACAATCCAGAGATTAATTTATTCCTTGGAATGCATGC
* **
7018434 AGCATACCTAG-AAGATATTGCCCTCAATCTTCCAAACATGGCTTCCATGAGCATAGCCTCTCAG
195 AGCATACCCAGAAAGATATTGCCCAAAATCTTCCAAACATGGCTTCCATGAGCATAGCCTCTCAG
* * * *
7018498 AATGAACCCCAATAAGCAATTGATCTAGCTCAACCTTCACAAGAAGGGGAAGGGGATGTCGCTGG
260 AATGAACCCCAAGAAGCAATTGATCTAACTCAACCTTCACAAAAAGGGGAAGGGGATGTCGCT-A
*
7018563 T-TCTAATGAATATATGTTGAGGGAGAT
324 TATCTAATGAATATACGTTGAGGGAGAT
7018590 TTCTCCTTCT
Statistics
Matches: 303, Mismatches: 44, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
354 126 0.42
355 36 0.12
356 137 0.45
357 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (356 bp):
ATGGGATTCAATTAGATCATGCAGGTCCATCTTCATCAGTACAGACTGGGTTTCCATTCCATGCA
TCATCATCTGAAAACACTACAGACCTCTTCCACGAAAGCAACATAGATTCTGCAACTAAGCTAAG
CAGGAAATATGAACAGTGGCTTACAGAACAATCCAGAGATTAATTTATTCCTTGGAATGCATGCA
GCATACCCAGAAAGATATTGCCCAAAATCTTCCAAACATGGCTTCCATGAGCATAGCCTCTCAGA
ATGAACCCCAAGAAGCAATTGATCTAACTCAACCTTCACAAAAAGGGGAAGGGGATGTCGCTATA
TCTAATGAATATACGTTGAGGGAGATGGATC
Found at i:7019158 original size:135 final size:135
Alignment explanation
Indices: 7018682--7019218 Score: 702
Period size: 134 Copynumber: 4.0 Consensus size: 135
7018672 ACTGCATACA
*
7018682 CAATATACACAATAGGACTCCTCTAAGAATGTATCATTTGCTAGTTCAAATGGTTTCCATTGTTT
1 CAATATACACAATAGGACT-CTCTAAGAATGTATCATTTGCTAGTTCAAATGGTCTCCATTGTTT
* * * *
7018747 CCATAATCTTGATTCCTGAAGCAATATCCAAACCATTTGATCAATTTATCAGGTTGAAACTTTAT
65 CCACAATCTCGATTCCTGAAGCAATATCCAAACCATTTGATCAATTTATCAGCTTGAAACTTTGT
* *
7018812 ATAAAG
130 TTGAAG
* * * * * * * *
7018818 CAATATACA-TATAGAACTCCCTAAAAATGTATCATTTACTAGTCCAAATGGTTTCTATTGTTTC
1 CAATATACACAATAGGACTCTCTAAGAATGTATCATTTGCTAGTTCAAATGGTCTCCATTGTTTC
* * *
7018882 CACAATCTCGATTCTTGAATCAATATCCAAACCATTTGGTCAATTTATCAGCTTGAAAC-TTGTT
66 CACAATCTCGATTCCTGAAGCAATATCCAAACCATTTGATCAATTTATCAGCTTGAAACTTTGTT
7018946 TGAAG
131 TGAAG
* * * **
7018951 CAATATTCACAATAAGAGTC-CTTAAGAATGTATCATTTGCTAGTTCAAATGGTCTCTTTTGTTT
1 CAATATACACAATAGGACTCTC-TAAGAATGTATCATTTGCTAGTTCAAATGGTCTCCATTGTTT
* * * * * *
7019015 CCACAATCTCAAATCTTGAGGCAATATCCAAACCATTTGGTCAATTTATTAGCTTGAAACTTTGT
65 CCACAATCTCGATTCCTGAAGCAATATCCAAACCATTTGATCAATTTATCAGCTTGAAACTTTGT
7019080 TTGAAG
130 TTGAAG
* * ** * *
7019086 CAATGTACGCAATAGGACTCTCTAAGAATGTGGCATCTGCAAGTTCAAATGGTCTCCATTGTTTC
1 CAATATACACAATAGGACTCTCTAAGAATGTATCATTTGCTAGTTCAAATGGTCTCCATTGTTTC
* *
7019151 CACAATCTCGATTCCTGAAGTAATATCCAAACCATTTGATCAATTTATCAACTTGAAACTTTGTT
66 CACAATCTCGATTCCTGAAGCAATATCCAAACCATTTGATCAATTTATCAGCTTGAAACTTTGTT
7019216 TGA
131 TGA
7019219 GCACTTTATG
Statistics
Matches: 347, Mismatches: 50, Indels: 9
0.85 0.12 0.02
Matches are distributed among these distances:
133 16 0.05
134 192 0.55
135 129 0.37
136 10 0.03
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (135 bp):
CAATATACACAATAGGACTCTCTAAGAATGTATCATTTGCTAGTTCAAATGGTCTCCATTGTTTC
CACAATCTCGATTCCTGAAGCAATATCCAAACCATTTGATCAATTTATCAGCTTGAAACTTTGTT
TGAAG
Found at i:7024301 original size:2 final size:2
Alignment explanation
Indices: 7024294--7024336 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7024284 ATGTTATTGT
7024294 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
7024336 T
1 T
7024337 GTCAACCACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7056707 original size:65 final size:65
Alignment explanation
Indices: 7056599--7056727 Score: 222
Period size: 65 Copynumber: 2.0 Consensus size: 65
7056589 TTGAGTTATG
* *
7056599 TAAGATTAAAATTCCATAGTTTCCATCTTGACTAACGCGTGGCTATGAGAAAATTGGTGTAGCTA
1 TAAGATTAAAATGCCATAGTTTCCATCTTGACTAACGCATGGCTATGAGAAAATTGGTGTAGCTA
* *
7056664 TAAGATTAAAATGCCATGGTTTCCATCTTTACTAACGCATGGCTATGAGAAAATTGGTGTAGCT
1 TAAGATTAAAATGCCATAGTTTCCATCTTGACTAACGCATGGCTATGAGAAAATTGGTGTAGCT
7056728 TTGTAGTTCA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (65 bp):
TAAGATTAAAATGCCATAGTTTCCATCTTGACTAACGCATGGCTATGAGAAAATTGGTGTAGCTA
Found at i:7076442 original size:2 final size:2
Alignment explanation
Indices: 7076429--7076470 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
7076419 CCTGCTAAGA
7076429 AG AG ATG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG A-G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7076471 AGGGAAGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (2 bp):
AG
Found at i:7079032 original size:2 final size:2
Alignment explanation
Indices: 7079025--7079065 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
7079015 TGCTTTGATC
7079025 AT AT AT 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
7079066 GAACGGCTCG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7080797 original size:5 final size:5
Alignment explanation
Indices: 7080787--7080815 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
7080777 TTAGGTCAAA
7080787 TTGGG TTGGG TTGGG TTGGG TTGGG TTGG
1 TTGGG TTGGG TTGGG TTGGG TTGGG TTGG
7080816 AATATTTCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.59, T:0.41
Consensus pattern (5 bp):
TTGGG
Found at i:7101265 original size:19 final size:20
Alignment explanation
Indices: 7101224--7101265 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
7101214 ATTTTAAATT
* *
7101224 TATAATTTTTACTTAATAGA
1 TATAATTTTGACTTAATAAA
*
7101244 TATAATTTTGAGTTAA-AAA
1 TATAATTTTGACTTAATAAA
7101263 TAT
1 TAT
7101266 TAAATCTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (20 bp):
TATAATTTTGACTTAATAAA
Found at i:7107442 original size:139 final size:139
Alignment explanation
Indices: 7107106--7107442 Score: 351
Period size: 139 Copynumber: 2.4 Consensus size: 139
7107096 TTAATTTTTA
* * *
7107106 AAAATTACACGATTGAGGTTTAAAAAATTATTAAGTCA-ATAATACTTGAACTTGGATTTTTATT
1 AAAATTACATGATTGAGGTTTAAAAAATTATTAAGTCAGA-AGTACTTGAACTTGAATTTTTATT
* * *
7107170 AAATCACAATACTTTCAAAATTTTTTCTTTTTTAAAATCAATAAAAATATCATACAATACACCAT
65 AAATCACAATACTTTCAAAATTTTTTCTTTTCTAAAATCAATAAAAATACCATACAATACACAAT
*
7107235 TCAGAATTTG
130 TCAGAATTTC
* * ** * * * *
7107245 AAAATTACATAATTGAGGTTTAAAAAATTATTAAATCAGTGGAACATGAACATAAATTTTTATTA
1 AAAATTACATGATTGAGGTTTAAAAAATTATTAAGTCAGAAGTACTTGAACTTGAATTTTTATTA
* * * * * * *
7107310 AATTACGATGCTTT-TAAATTTTATTCTTCTTCT-AAATCATTGAAAATACCATTACGATACA-A
66 AATCACAATACTTTCAAAATTTT-TTCTT-TTCTAAAATCAATAAAAATACCA-TACAATACACA
7107372 ATTCAGAATTTC
128 ATTCAGAATTTC
* * * * *
7107384 ATAATTACATGATT-AGGGTTCAAAAAGTTATTAAGCCAGAAGTACTTGCACTTGAATTT
1 AAAATTACATGATTGA-GGTTTAAAAAATTATTAAGTCAGAAGTACTTGAACTTGAATTT
7107443 GAATTTTTAT
Statistics
Matches: 158, Mismatches: 35, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
138 8 0.05
139 139 0.88
140 11 0.07
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.37
Consensus pattern (139 bp):
AAAATTACATGATTGAGGTTTAAAAAATTATTAAGTCAGAAGTACTTGAACTTGAATTTTTATTA
AATCACAATACTTTCAAAATTTTTTCTTTTCTAAAATCAATAAAAATACCATACAATACACAATT
CAGAATTTC
Found at i:7110132 original size:4 final size:4
Alignment explanation
Indices: 7110123--7110147 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7110113 TGATGACTGC
7110123 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
7110148 CATAACCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:7117163 original size:32 final size:32
Alignment explanation
Indices: 7117121--7117219 Score: 189
Period size: 32 Copynumber: 3.1 Consensus size: 32
7117111 ATTTCTTTTT
7117121 TTTTGGCAGAGGGGGGAAGAAGGTATTGGGTG
1 TTTTGGCAGAGGGGGGAAGAAGGTATTGGGTG
*
7117153 TTTTGCCAGAGGGGGGAAGAAGGTATTGGGTG
1 TTTTGGCAGAGGGGGGAAGAAGGTATTGGGTG
7117185 TTTTGGCAGAGGGGGGAAGAAGGTATTGGGTG
1 TTTTGGCAGAGGGGGGAAGAAGGTATTGGGTG
7117217 TTT
1 TTT
7117220 AATATGATGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.21, C:0.04, G:0.47, T:0.27
Consensus pattern (32 bp):
TTTTGGCAGAGGGGGGAAGAAGGTATTGGGTG
Found at i:7121238 original size:2 final size:2
Alignment explanation
Indices: 7121225--7121257 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
7121215 GAGGAAACTA
*
7121225 AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7121258 TGTCAAATTG
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:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7124734 original size:2 final size:2
Alignment explanation
Indices: 7124727--7124779 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
7124717 TCCCTAGGAC
7124727 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
7124769 TA TA TA TA TA T
1 TA TA TA TA TA T
7124780 GTGCATGTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7147720 original size:74 final size:73
Alignment explanation
Indices: 7147642--7147785 Score: 198
Period size: 74 Copynumber: 2.0 Consensus size: 73
7147632 AAATAGAATG
* * * * * * *
7147642 AATCTTACTAGTAATTGTAATAAATAATATTTCAATGATCATCATTTGATGAATGCACATTTATA
1 AATCTTACAAATAATTATAATAAAAAATATTTCAATAATCATCATTTAATGAATACACATTTATA
7147707 ATATGTTTA
66 A-ATGTTTA
* *
7147716 AATCTTACAAATAATTATAATAAAAAATATTTTAATAATCATCATTTAATGAATACATATTTATA
1 AATCTTACAAATAATTATAATAAAAAATATTTCAATAATCATCATTTAATGAATACACATTTATA
7147781 AATGT
66 AATGT
7147786 AAGTTTTGGA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
73 4 0.07
74 57 0.93
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.41
Consensus pattern (73 bp):
AATCTTACAAATAATTATAATAAAAAATATTTCAATAATCATCATTTAATGAATACACATTTATA
AATGTTTA
Found at i:7173533 original size:2 final size:2
Alignment explanation
Indices: 7173487--7173518 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7173477 AGAAACAAAC
*
7173487 GA GA AA 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
7173519 CCTGGAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7175384 original size:34 final size:34
Alignment explanation
Indices: 7175341--7175410 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
7175331 AGAAATAAAC
7175341 TTTATGTTGCTGTTAAATGATTATTAGTATTAAT
1 TTTATGTTGCTGTTAAATGATTATTAGTATTAAT
7175375 TTTATGTTGCTGTTAAATGATTATTAGTATTAAT
1 TTTATGTTGCTGTTAAATGATTATTAGTATTAAT
7175409 TT
1 TT
7175411 AACTCATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (34 bp):
TTTATGTTGCTGTTAAATGATTATTAGTATTAAT
Found at i:7178811 original size:31 final size:31
Alignment explanation
Indices: 7178722--7178821 Score: 141
Period size: 31 Copynumber: 3.2 Consensus size: 31
7178712 CTAGTGTTGC
7178722 TAATTTATAATTTAATTAATCAAGAAAACTG
1 TAATTTATAATTTAATTAATCAAGAAAACTG
*
7178753 TAATTAAGTATTAATTT--TTAATGAAGAAAACTG
1 TAATT---TA-TAATTTAATTAATCAAGAAAACTG
7178786 TAATTTATAATTTAATTAATCAAGAAAACTG
1 TAATTTATAATTTAATTAATCAAGAAAACTG
7178817 TAATT
1 TAATT
7178822 GAGTTATGAT
Statistics
Matches: 61, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
29 6 0.10
30 2 0.03
31 25 0.41
33 20 0.33
34 2 0.03
35 6 0.10
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.40
Consensus pattern (31 bp):
TAATTTATAATTTAATTAATCAAGAAAACTG
Found at i:7193228 original size:14 final size:15
Alignment explanation
Indices: 7193200--7193229 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7193190 CTATCTCCAG
7193200 CACCTGAAGCTGCCT
1 CACCTGAAGCTGCCT
7193215 CACCTGAA-CTGCCT
1 CACCTGAAGCTGCCT
7193229 C
1 C
7193230 CCCTTCCACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.20, C:0.43, G:0.17, T:0.20
Consensus pattern (15 bp):
CACCTGAAGCTGCCT
Found at i:7195048 original size:2 final size:2
Alignment explanation
Indices: 7195036--7195071 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
7195026 CATTTTTATG
*
7195036 AT AT AT TT AT AT AT AT AT AT AT AT AT GAT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT A
7195072 AATGACTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7226858 original size:2 final size:2
Alignment explanation
Indices: 7226851--7226876 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7226841 TGAGTCCATT
7226851 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7226877 ATCTCGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7244258 original size:18 final size:17
Alignment explanation
Indices: 7244215--7244259 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
7244205 AAAAAAATAT
*
7244215 TTATTATGTTATATTAA
1 TTATTATATTATATTAA
*
7244232 TATATTATATTATTATTTA
1 T-TATTATATTA-TATTAA
7244251 TTATTATAT
1 TTATTATAT
7244260 CACATCAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 17 0.71
19 6 0.25
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
TTATTATATTATATTAA
Found at i:7244396 original size:30 final size:30
Alignment explanation
Indices: 7244333--7244396 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
7244323 AAATATTTAT
* *
7244333 TTAATTTAAAATAAAAATATAATAACTTAA
1 TTAACTTAAAATAAAAATAGAATAACTTAA
*
7244363 TTAACTTAAAATAAAAATACGAAT-ACTTGA
1 TTAACTTAAAATAAAAATA-GAATAACTTAA
7244393 TTAA
1 TTAA
7244397 ATATAACAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (30 bp):
TTAACTTAAAATAAAAATAGAATAACTTAA
Found at i:7247842 original size:1 final size:1
Alignment explanation
Indices: 7247836--7247866 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
7247826 AGAACGAAGT
7247836 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
7247867 AGGCGGGGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:7312930 original size:2 final size:2
Alignment explanation
Indices: 7312923--7312963 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
7312913 NNNNNNNNNN
7312923 TA TA TA 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 TA TA TA T
7312964 CATCAAATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7314546 original size:24 final size:24
Alignment explanation
Indices: 7314518--7314567 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
7314508 AACAAAGCTC
7314518 AATGGTTAAAGATACAAAACTCTA
1 AATGGTTAAAGATACAAAACTCTA
*
7314542 AATGGTTAAAGATTCAAAACTCTA
1 AATGGTTAAAGATACAAAACTCTA
7314566 AA
1 AA
7314568 ATGTGCTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (24 bp):
AATGGTTAAAGATACAAAACTCTA
Found at i:7316626 original size:21 final size:18
Alignment explanation
Indices: 7316595--7316636 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 18
7316585 AAAAAGGAAA
7316595 TTTTTTGAATTATAAATAT
1 TTTTTTGAATTATAAA-AT
7316614 TTTTTTGTAAATTATAAAAT
1 TTTTTTG--AATTATAAAAT
7316634 TTT
1 TTT
7316637 AAATCCATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (18 bp):
TTTTTTGAATTATAAAAT
Found at i:7317808 original size:26 final size:26
Alignment explanation
Indices: 7317756--7317831 Score: 68
Period size: 28 Copynumber: 2.9 Consensus size: 26
7317746 TTTTTTAAAT
* *
7317756 TATAATATTAAAATTTATAAATTTTATC
1 TATAATA-TAAAATATATAAA-TTTATA
7317784 TATAATTATAAAATATATAAA-TTATA
1 TATAA-TATAAAATATATAAATTTATA
*
7317810 TATAA-AT-ATATATATAATATTT
1 TATAATATAAAATATATAA-ATTT
7317832 TTTTATTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
23 9 0.21
24 3 0.07
25 2 0.05
26 9 0.21
28 17 0.40
29 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (26 bp):
TATAATATAAAATATATAAATTTATA
Found at i:7317821 original size:28 final size:29
Alignment explanation
Indices: 7317756--7317821 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 29
7317746 TTTTTTAAAT
* * *
7317756 TATAATAT-TAAAATTTATAAATTTTATC
1 TATAATATATAAAATATATAAATTATATA
7317784 TATAAT-TATAAAATATATAAATTATATA
1 TATAATATATAAAATATATAAATTATATA
7317812 TA-AATATATA
1 TATAATATATA
7317822 TATAATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 4 0.12
28 29 0.88
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
TATAATATATAAAATATATAAATTATATA
Found at i:7317829 original size:19 final size:20
Alignment explanation
Indices: 7317784--7317829 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
7317774 AAATTTTATC
7317784 TATAAT-TATAAAATATATA
1 TATAATATATAAAATATATA
* *
7317803 AATTATATAT-AAATATATA
1 TATAATATATAAAATATATA
7317822 TATAATAT
1 TATAATAT
7317830 TTTTTTATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TATAATATATAAAATATATA
Found at i:7318374 original size:21 final size:19
Alignment explanation
Indices: 7318317--7318421 Score: 60
Period size: 18 Copynumber: 5.5 Consensus size: 19
7318307 TATATATTAT
* *
7318317 TATATATTATAATATTAACA
1 TATAAATTATAAT-TTAAAA
7318337 TATAAATTATATTATTTAAAA
1 TATAAATTATA--ATTTAAAA
*
7318358 TATAAAACTTATAATTT--CA
1 TAT-AAA-TTATAATTTAAAA
* *
7318377 TATTAA-TATAAATTTATAA
1 TATAAATTAT-AATTTAAAA
7318396 -ATAAATATATAA-TTAAAA
1 TATAAAT-TATAATTTAAAA
7318414 T-TAAATTA
1 TATAAATTA
7318422 CTATGATTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 23
0.69 0.07 0.23
Matches are distributed among these distances:
16 3 0.04
17 7 0.10
18 16 0.24
19 7 0.10
20 13 0.19
21 12 0.18
22 5 0.07
23 5 0.07
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
TATAAATTATAATTTAAAA
Found at i:7326211 original size:4 final size:4
Alignment explanation
Indices: 7326202--7326231 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
7326192 TCTACCCACG
7326202 ACAA ACAA ACAA ACAA ACAA ACAA GACAA A
1 ACAA ACAA ACAA ACAA ACAA ACAA -ACAA A
7326232 ACAAGAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.73, C:0.23, G:0.03, T:0.00
Consensus pattern (4 bp):
ACAA
Found at i:7336451 original size:17 final size:17
Alignment explanation
Indices: 7336429--7336472 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
7336419 ATAAAGAGGT
7336429 AAAAAGACAAAACAAAA
1 AAAAAGACAAAACAAAA
*
7336446 AAAAAGA-AAAACAAGA
1 AAAAAGACAAAACAAAA
*
7336462 AAGAA-ACAAAA
1 AAAAAGACAAAA
7336473 AACCCTCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 1 0.04
16 16 0.67
17 7 0.29
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAGACAAAACAAAA
Found at i:7336456 original size:16 final size:17
Alignment explanation
Indices: 7336429--7336473 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
7336419 ATAAAGAGGT
7336429 AAAAAGACAAAACAA-AA
1 AAAAAGA-AAAACAAGAA
7336446 AAAAAGAAAAACAAGAA
1 AAAAAGAAAAACAAGAA
* *
7336463 AGAAACAAAAA
1 AAAAAGAAAAA
7336474 ACCCTCCCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.28
17 18 0.72
ACGTcount: A:0.82, C:0.09, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAACAAGAA
Found at i:7337659 original size:16 final size:17
Alignment explanation
Indices: 7337638--7337677 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
7337628 TCAGTTAAAC
7337638 TGAAAAAGTAAA-AAAG
1 TGAAAAAGTAAAGAAAG
*
7337654 TGAAAAATTAAAGAAAG
1 TGAAAAAGTAAAGAAAG
7337671 -GAAAAAG
1 TGAAAAAG
7337678 AAGTAAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.68, C:0.00, G:0.20, T:0.12
Consensus pattern (17 bp):
TGAAAAAGTAAAGAAAG
Found at i:7350445 original size:3 final size:3
Alignment explanation
Indices: 7350437--7350479 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
7350427 TTCACGAATG
7350437 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7350480 GGCCCATATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7351242 original size:3 final size:3
Alignment explanation
Indices: 7351234--7351268 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
7351224 ATTGTTAGGA
*
7351234 TGG TGG TGG TGG TGG TGG TGG TGG TGT TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
7351269 CTGCCTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.63, T:0.37
Consensus pattern (3 bp):
TGG
Found at i:7351448 original size:3 final size:3
Alignment explanation
Indices: 7351442--7351466 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7351432 CAGCTACATC
7351442 CAA CAA CAA CAA CAA CAA CAA CAA C
1 CAA CAA CAA CAA CAA CAA CAA CAA C
7351467 TGCCCACCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.36, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:7371228 original size:105 final size:106
Alignment explanation
Indices: 7371110--7371299 Score: 240
Period size: 105 Copynumber: 1.8 Consensus size: 106
7371100 CGCAATCGTG
* ** ** * * *
7371110 TAATTATTAAATTGAGATTTTAATAAGTGAGATAGGTTTGTCTTAA-TTTCAATTACAAAAAC-A
1 TAATTATCAAATTGAGAACTTAATAAGCAAAATAGGTTTGT-ATAAGTTTCAACTACAAAAACTA
7371173 TTTAAAAATTTACGATCATAATTATAAGAAATGAGAATTATA
65 TTTAAAAATTTACGATCATAATTATAAGAAATGAGAATTATA
* * *
7371215 TAATTATCAAATTGAGAACTTAATTAGCAAAATATGTTTGTATAAGTTTCAACTACAAAAACTTT
1 TAATTATCAAATTGAGAACTTAATAAGCAAAATAGGTTTGTATAAGTTTCAACTACAAAAACTAT
* *
7371280 TTAAAGATTTACGTTCATAA
66 TTAAAAATTTACGATCATAA
7371300 ACACAATATC
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
104 3 0.04
105 48 0.69
106 19 0.27
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.38
Consensus pattern (106 bp):
TAATTATCAAATTGAGAACTTAATAAGCAAAATAGGTTTGTATAAGTTTCAACTACAAAAACTAT
TTAAAAATTTACGATCATAATTATAAGAAATGAGAATTATA
Found at i:7378456 original size:75 final size:75
Alignment explanation
Indices: 7378332--7378477 Score: 177
Period size: 75 Copynumber: 1.9 Consensus size: 75
7378322 TTCTAGAGCC
* *
7378332 AAAATGCCTATGGTCAGGTCATCCTCAGTGCCCGTGAAAGTTCGCGATTTCAAAGAAAAAATGGA
1 AAAATGCCTATGGTCAGGTCATCCTCAGTGCCCGTGAAAGTTAGAGATTTCAAAGAAAAAATGGA
*
7378397 GGCTGCACAG
66 AGCTGCACAG
* * * * * * * *
7378407 AAAATGCCTATGGT-TGGATCTTCTTCTGTGCCCTTGAAAGTTAGAGATTTGAAAGAGAAAGTGG
1 AAAATGCCTATGGTCAGG-TCATCCTCAGTGCCCGTGAAAGTTAGAGATTTCAAAGAAAAAATGG
7378471 AAGCTGC
65 AAGCTGC
7378478 CCAAAAAACA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
74 2 0.03
75 57 0.97
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (75 bp):
AAAATGCCTATGGTCAGGTCATCCTCAGTGCCCGTGAAAGTTAGAGATTTCAAAGAAAAAATGGA
AGCTGCACAG
Found at i:7391882 original size:83 final size:83
Alignment explanation
Indices: 7391738--7391901 Score: 292
Period size: 83 Copynumber: 2.0 Consensus size: 83
7391728 TGATTTCTCT
* *
7391738 TTCTAGGACCATGACATCTTCTCTTACTTCTTGTTGGGAATTTCTTTTCAATGTGAGACTTTGTG
1 TTCTAGGACCATGACATCTTCCCTTACTTCTTGTTGGGAATTTCTTTTCAATGTGAAACTTTGTG
7391803 ACTCAACTCGATAAGAAC
66 ACTCAACTCGATAAGAAC
**
7391821 TTCTAGGACCATGGTATCTTCCCTTACTTCTTGTTGGGAATTTCTTTTCAATGTGAAACTTTGTG
1 TTCTAGGACCATGACATCTTCCCTTACTTCTTGTTGGGAATTTCTTTTCAATGTGAAACTTTGTG
7391886 ACTCAACTCGATAAGA
66 ACTCAACTCGATAAGA
7391902 GTATTATCTT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (83 bp):
TTCTAGGACCATGACATCTTCCCTTACTTCTTGTTGGGAATTTCTTTTCAATGTGAAACTTTGTG
ACTCAACTCGATAAGAAC
Found at i:7392378 original size:121 final size:121
Alignment explanation
Indices: 7392141--7392370 Score: 284
Period size: 121 Copynumber: 1.9 Consensus size: 121
7392131 CTTATATTCT
* ** * *
7392141 TAATATCACCCTAGTATATAGTTGTGTGGGATTCATAGCTCTCTTCTCTAGGACCATGACATCCT
1 TAATATCACCCTAGTACATAGTTGTGTGGGATTCATAGCTCTCTAATCTAAGACCAAGACATCCT
* * * *
7392206 CCCTTATATGTCGACGATATGGGATTCATGTTCACATGAGGATCATCACATCCTCC
66 CCCTTATATCTCGACGATATCGGATTCACGTCCACATGAGGATCATCACATCCTCC
* * * * * *
7392262 TAATATTACTCTAGTACATAGTTGATGTGGGATTCATGGCTCTCTAATCTAAGACTAAGGCA-CT
1 TAATATCACCCTAGTACATAGTTG-TGTGGGATTCATAGCTCTCTAATCTAAGACCAAGACATCC
*
7392326 TCCCTTATATCTCGACGATGTCGGATTCACGTCCACGA-GAGGATC
65 TCCCTTATATCTCGACGATATCGGATTCACGTCCAC-ATGAGGATC
7392371 GTGACATCTT
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
121 60 0.66
122 31 0.34
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (121 bp):
TAATATCACCCTAGTACATAGTTGTGTGGGATTCATAGCTCTCTAATCTAAGACCAAGACATCCT
CCCTTATATCTCGACGATATCGGATTCACGTCCACATGAGGATCATCACATCCTCC
Found at i:7406973 original size:3 final size:3
Alignment explanation
Indices: 7406965--7406992 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7406955 TACCTCTTGA
7406965 AGG AGG AGG AGG AGG AGG AGG AGG AGG A
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG A
7406993 ACTGGAGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:7409460 original size:2 final size:2
Alignment explanation
Indices: 7409453--7409493 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
7409443 TAACACGCGC
* * *
7409453 AT AT AT AT AC AT AC AT AC 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
7409494 CACGATTGAT
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:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:7411389 original size:22 final size:22
Alignment explanation
Indices: 7411364--7411405 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7411354 CAAGGGAAAA
7411364 GGAAGAGAT-GCAAGAGAGAACG
1 GGAAGAGATAG-AAGAGAGAACG
*
7411386 GGAAGGGATAGAAGAGAGAA
1 GGAAGAGATAGAAGAGAGAA
7411406 AAAGAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.48, C:0.05, G:0.43, T:0.05
Consensus pattern (22 bp):
GGAAGAGATAGAAGAGAGAACG
Found at i:7411514 original size:2 final size:2
Alignment explanation
Indices: 7411501--7411545 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
7411491 CCTATCTATC
* * *
7411501 TA TA TA TT TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7411543 TA T
1 TA T
7411546 TAGGTTAGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (2 bp):
TA
Found at i:7428000 original size:16 final size:17
Alignment explanation
Indices: 7427968--7428000 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7427958 ATTTAATAAA
*
7427968 AAAAATTTTCTTGTATT
1 AAAAATTTTCTTCTATT
7427985 AAAAATTTT-TTCTATT
1 AAAAATTTTCTTCTATT
7428001 TGTAACCTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (17 bp):
AAAAATTTTCTTCTATT
Found at i:7443824 original size:38 final size:38
Alignment explanation
Indices: 7443782--7443875 Score: 127
Period size: 38 Copynumber: 2.5 Consensus size: 38
7443772 GTCTCAAACG
* * * *
7443782 ACTTAATTTGTAATTTAAAGTGTT-GTTCCAAACTTATA
1 ACTTAATTTATAATTTAAAAT-TTCGTCCCAAACTTACA
7443820 ACTTAATTTATAATTTAAAATTTCGTCCCAAACTTACA
1 ACTTAATTTATAATTTAAAATTTCGTCCCAAACTTACA
*
7443858 ACTTAATCTATAATTTAA
1 ACTTAATTTATAATTTAA
7443876 GATCCTAAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
37 2 0.04
38 48 0.96
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (38 bp):
ACTTAATTTATAATTTAAAATTTCGTCCCAAACTTACA
Found at i:7458205 original size:2 final size:2
Alignment explanation
Indices: 7458198--7458234 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
7458188 AGGGAAAGAT
*
7458198 AG AG AG AG AG AG AG TG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7458235 AACGAAGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.03
Consensus pattern (2 bp):
AG
Found at i:7483541 original size:1 final size:1
Alignment explanation
Indices: 7483535--7483564 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
7483525 GATAGAGGCA
7483535 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
7483565 CGCAGAGGAG
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:7490636 original size:31 final size:31
Alignment explanation
Indices: 7490600--7490663 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
7490590 AACTGGATTC
7490600 TCTCAATCAAGATAATCACATTTAT-TGGAAT
1 TCTCAATCAAGATAATCA-ATTTATATGGAAT
*
7490631 TCTCAATCAAGATAATCAATTTATATTGAAT
1 TCTCAATCAAGATAATCAATTTATATGGAAT
7490662 TC
1 TC
7490664 CAAATCGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 6 0.19
31 25 0.81
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.38
Consensus pattern (31 bp):
TCTCAATCAAGATAATCAATTTATATGGAAT
Found at i:7496301 original size:20 final size:21
Alignment explanation
Indices: 7496253--7496302 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
7496243 TACATAACAC
7496253 ATAAC-AAAAGATTGTAAAAT
1 ATAACAAAAAGATTGTAAAAT
* * *
7496273 GTAATAAAAAG-TTGTAATAT
1 ATAACAAAAAGATTGTAAAAT
7496293 ATAACAAAAA
1 ATAACAAAAA
7496303 ATGAGCATCC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.60, C:0.04, G:0.10, T:0.26
Consensus pattern (21 bp):
ATAACAAAAAGATTGTAAAAT
Found at i:7500141 original size:60 final size:60
Alignment explanation
Indices: 7500046--7500161 Score: 223
Period size: 60 Copynumber: 1.9 Consensus size: 60
7500036 CATATAAAGA
*
7500046 TTCTGTTAGACTAGAATTCATCCTTGCAATGTGAAAAGGAGCAGAAAAAGTTAATTTAGG
1 TTCTGTTAGACTAGAATTCATCCTTGCAATATGAAAAGGAGCAGAAAAAGTTAATTTAGG
7500106 TTCTGTTAGACTAGAATTCATCCTTGCAATATGAAAAGGAGCAGAAAAAGTTAATT
1 TTCTGTTAGACTAGAATTCATCCTTGCAATATGAAAAGGAGCAGAAAAAGTTAATT
7500162 CAAAATACTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (60 bp):
TTCTGTTAGACTAGAATTCATCCTTGCAATATGAAAAGGAGCAGAAAAAGTTAATTTAGG
Found at i:7515899 original size:12 final size:12
Alignment explanation
Indices: 7515882--7515913 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
7515872 GGAGCTGCTG
7515882 GTGGTGGTAGTA
1 GTGGTGGTAGTA
7515894 GTGGTGGTAGTA
1 GTGGTGGTAGTA
7515906 GTGGTGGT
1 GTGGTGGT
7515914 TCGACCGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.53, T:0.34
Consensus pattern (12 bp):
GTGGTGGTAGTA
Found at i:7515900 original size:15 final size:15
Alignment explanation
Indices: 7515880--7515913 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7515870 GAGGAGCTGC
*
7515880 TGGTGGTGGTAGTAG
1 TGGTGGTAGTAGTAG
*
7515895 TGGTGGTAGTAGTGG
1 TGGTGGTAGTAGTAG
7515910 TGGT
1 TGGT
7515914 TCGACCGTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.53, T:0.35
Consensus pattern (15 bp):
TGGTGGTAGTAGTAG
Found at i:7526378 original size:27 final size:27
Alignment explanation
Indices: 7526340--7526393 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
7526330 AAGTAAGGCA
7526340 GGTCTTAGCTAATAAGTATTAACTATT
1 GGTCTTAGCTAATAAGTATTAACTATT
7526367 GGTCTTAGCTAATAAGTATTAACTATT
1 GGTCTTAGCTAATAAGTATTAACTATT
7526394 ACAAAATGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (27 bp):
GGTCTTAGCTAATAAGTATTAACTATT
Found at i:7539710 original size:3 final size:3
Alignment explanation
Indices: 7539702--7539729 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7539692 AAACGGATCC
7539702 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
7539730 GTTTTTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:7540213 original size:23 final size:23
Alignment explanation
Indices: 7540165--7540221 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
7540155 ATTTTTATTT
* * *
7540165 TTTATATTAAAAATCATTGAATA
1 TTTATATTATAAATAATTCAATA
7540188 TTTATATTATAAATAAGTTCAA-A
1 TTTATATTATAAATAA-TTCAATA
*
7540211 TTT-TAATATAA
1 TTTATATTATAA
7540222 TATATATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 7 0.24
23 18 0.62
24 4 0.14
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (23 bp):
TTTATATTATAAATAATTCAATA
Found at i:7543299 original size:47 final size:47
Alignment explanation
Indices: 7543165--7543359 Score: 272
Period size: 46 Copynumber: 4.2 Consensus size: 47
7543155 GGCCGAGCTA
* *
7543165 GCCCTGCCC-CCATCCTCCTGCTCCCACGAGTCCCGGTTCCCCCTGCG
1 GCCCTGCCCGCC-CCCTCCGGCTCCCACGAGTCCCGGTTCCCCCTGCG
*
7543212 GCCCTGCCCGCCCCCTTCCGGCTCCCACGAGTCCCTGTTCCCCCCTGCG
1 GCCCTGCCCGCCCCC-TCCGGCTCCCACGAGTCCCGGTT-CCCCCTGCG
*
7543261 GCCCTGCCCG-CCCCTCCGGCTCCCAGGAGTCCCGGTTCCCCCTGCG
1 GCCCTGCCCGCCCCCTCCGGCTCCCACGAGTCCCGGTTCCCCCTGCG
* * *
7543307 GCCCTG-CCGCCCCCTCCAGCTCCCACGAGTCCCGATTTCCCCTGCG
1 GCCCTGCCCGCCCCCTCCGGCTCCCACGAGTCCCGGTTCCCCCTGCG
7543353 G-CCTGCC
1 GCCCTGCC
7543360 GGGCTGGCTC
Statistics
Matches: 134, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
45 7 0.05
46 49 0.37
47 32 0.24
48 27 0.20
49 19 0.14
ACGTcount: A:0.06, C:0.55, G:0.22, T:0.17
Consensus pattern (47 bp):
GCCCTGCCCGCCCCCTCCGGCTCCCACGAGTCCCGGTTCCCCCTGCG
Found at i:7557639 original size:2 final size:2
Alignment explanation
Indices: 7557634--7557660 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7557624 GTGTGTGTGT
7557634 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 G
7557661 CATGACTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7583581 original size:12 final size:13
Alignment explanation
Indices: 7583558--7583586 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
7583548 ATTGCTTTCG
7583558 GTTTCTTTCTTTT
1 GTTTCTTTCTTTT
7583571 GTTTC-TTCTTTT
1 GTTTCTTTCTTTT
7583583 GTTT
1 GTTT
7583587 GCTTAGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.00, C:0.14, G:0.10, T:0.76
Consensus pattern (13 bp):
GTTTCTTTCTTTT
Found at i:7589704 original size:23 final size:21
Alignment explanation
Indices: 7589666--7589725 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 21
7589656 CATAATTTTG
*
7589666 TATATTAAAAACATTAAATATT
1 TATATTAAAAAAATTAAAT-TT
7589688 TATATTATAAAAAATTAAATTT
1 TATATTA-AAAAAATTAAATTT
7589710 TAATATTAAATAAAAT
1 T-ATATTAAA-AAAAT
7589726 AGATTAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
22 12 0.35
23 22 0.65
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TATATTAAAAAAATTAAATTT
Found at i:7596865 original size:15 final size:15
Alignment explanation
Indices: 7596845--7596876 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7596835 AGTTCACTCC
7596845 CAGCAGCAGCAACAG
1 CAGCAGCAGCAACAG
7596860 CAGCAGCAGCAACAG
1 CAGCAGCAGCAACAG
7596875 CA
1 CA
7596877 AGCTCAGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.34, G:0.25, T:0.00
Consensus pattern (15 bp):
CAGCAGCAGCAACAG
Found at i:7603589 original size:14 final size:14
Alignment explanation
Indices: 7603528--7603633 Score: 59
Period size: 14 Copynumber: 7.3 Consensus size: 14
7603518 AGAACCTTCC
7603528 AAAACTTTGGAGGG
1 AAAACTTTGGAGGG
* *
7603542 AAATCTTTTGGGGGGGG
1 AAAAC-TTT--GGAGGG
* * **
7603559 AATACTTTGAATTG
1 AAAACTTTGGAGGG
7603573 AAAACTTTGGAGGG
1 AAAACTTTGGAGGG
* *
7603587 AAATCTTTTGGGGGG
1 AAAAC-TTTGGAGGG
* * ***
7603602 AATACTTTGAATTA
1 AAAACTTTGGAGGG
7603616 AAAACTTTGGAGGG
1 AAAACTTTGGAGGG
7603630 AAAA
1 AAAA
7603634 GTGGGTGGGG
Statistics
Matches: 62, Mismatches: 26, Indels: 8
0.65 0.27 0.08
Matches are distributed among these distances:
14 37 0.60
15 14 0.23
16 3 0.05
17 8 0.13
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (14 bp):
AAAACTTTGGAGGG
Found at i:7603614 original size:43 final size:44
Alignment explanation
Indices: 7603528--7603632 Score: 185
Period size: 43 Copynumber: 2.4 Consensus size: 44
7603518 AGAACCTTCC
*
7603528 AAAACTTTGGAGGGAAATCTTTTGGGGGGGGAATACTTTGAATTG
1 AAAACTTTGGAGGGAAATCTTTT-GGGGGGGAATACTTTGAATTA
7603573 AAAACTTTGGAGGGAAATCTTTT-GGGGGGAATACTTTGAATTA
1 AAAACTTTGGAGGGAAATCTTTTGGGGGGGAATACTTTGAATTA
7603616 AAAACTTTGGAGGGAAA
1 AAAACTTTGGAGGGAAA
7603633 AGTGGGTGGG
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
43 36 0.61
45 23 0.39
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (44 bp):
AAAACTTTGGAGGGAAATCTTTTGGGGGGGAATACTTTGAATTA
Found at i:7603701 original size:12 final size:12
Alignment explanation
Indices: 7603684--7603712 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
7603674 TTGTGTAAAT
7603684 CATCCATTTTTG
1 CATCCATTTTTG
7603696 CATCCATTTTTG
1 CATCCATTTTTG
7603708 CATCC
1 CATCC
7603713 TTTGTATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.31, G:0.07, T:0.45
Consensus pattern (12 bp):
CATCCATTTTTG
Found at i:7605282 original size:2 final size:2
Alignment explanation
Indices: 7605277--7605308 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7605267 GAGAGTTTCT
*
7605277 AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7605309 TGGATTAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7614600 original size:15 final size:15
Alignment explanation
Indices: 7614582--7614632 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
7614572 AGGAGACCCT
7614582 TGGAGGTGGATTTGG
1 TGGAGGTGGATTTGG
* *
7614597 TGGAGGT-GCTGGTGG
1 TGGAGGTGGAT-TTGG
* *
7614612 TGGTGGTGGAATTGG
1 TGGAGGTGGATTTGG
7614627 TGGAGG
1 TGGAGG
7614633 GCTTGGTGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
14 2 0.07
15 24 0.89
16 1 0.04
ACGTcount: A:0.12, C:0.02, G:0.57, T:0.29
Consensus pattern (15 bp):
TGGAGGTGGATTTGG
Found at i:7614620 original size:30 final size:30
Alignment explanation
Indices: 7614582--7614650 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
7614572 AGGAGACCCT
*
7614582 TGGAGGTGGATTTGGTGGAGGTGC-TGGTGG
1 TGGAGGTGGAATTGGTGGAGG-GCTTGGTGG
*
7614612 TGGTGGTGGAATTGGTGGAGGGCTTGGTGG
1 TGGAGGTGGAATTGGTGGAGGGCTTGGTGG
7614642 TGGAGGTGG
1 TGGAGGTGG
7614651 TGCAGGTGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 2 0.06
30 33 0.94
ACGTcount: A:0.10, C:0.03, G:0.58, T:0.29
Consensus pattern (30 bp):
TGGAGGTGGAATTGGTGGAGGGCTTGGTGG
Found at i:7614674 original size:54 final size:54
Alignment explanation
Indices: 7614580--7614845 Score: 165
Period size: 54 Copynumber: 4.7 Consensus size: 54
7614570 GAAGGAGACC
* ** * ** * * *
7614580 CTTGGAGGTGGATTTGGTGGAGGTGCTGGTGGTGGTGGTGGAATTGGTGGAGGG
1 CTTGGTGGTGGAGGTGGTGCAGGTGGGGGTGTTGGAGGTGGAAATGGTGGAGGG
* ** *
7614634 CTTGGTGGTGGAGGTGGTGCAGGTGGGGGTTTTGGAGGTGGAGCTGGTGGCGGTG
1 CTTGGTGGTGGAGGTGGTGCAGGTGGGGGTGTTGGAGGTGGAAATGGTGGAGG-G
*** ** *
7614689 CTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGAGGTGTAGGAGTTGGAGGTGGAGCTGGAGGAGGG
1 CT--TGGTGG---TGGAGGTGGTGCAGGTGG-GG-GT----GTTGGAGGTGGAAATGGTGGAGGG
* *
7614754 CTTGGTGGTGGAGGTGGTGCAGGTGGGGGTTTTGGAGGTGGAAAAGGTGGAGGTG
1 CTTGGTGGTGGAGGTGGTGCAGGTGGGGGTGTTGGAGGTGGAAATGGTGGAGG-G
* * * * * *
7614809 -TAGGAGTTGGAGGTGGAGCCGGTGGTGGTGTTGGAGG
1 CTTGGTGGTGGAGGTGGTGCAGGTGGGGGTGTTGGAGG
7614846 AGGATTAGGT
Statistics
Matches: 166, Mismatches: 33, Indels: 26
0.74 0.15 0.12
Matches are distributed among these distances:
54 89 0.54
55 4 0.02
57 6 0.04
58 2 0.01
59 2 0.01
60 30 0.18
61 2 0.01
62 2 0.01
63 6 0.04
65 3 0.02
66 20 0.12
ACGTcount: A:0.13, C:0.05, G:0.56, T:0.26
Consensus pattern (54 bp):
CTTGGTGGTGGAGGTGGTGCAGGTGGGGGTGTTGGAGGTGGAAATGGTGGAGGG
Found at i:7614719 original size:36 final size:36
Alignment explanation
Indices: 7614649--7614724 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
7614639 TGGTGGAGGT
*** *
7614649 GGTGCAGGTGGGGGTTTTGGAGGTGGAGCTGGTGGC
1 GGTGCAGGTGGGGGTTTTGGAGGTGGAAAAGGTGGA
* *
7614685 GGTGCTGGTGGTGGTTTTGGAGGTGGAAAAGGTGGA
1 GGTGCAGGTGGGGGTTTTGGAGGTGGAAAAGGTGGA
7614721 GGTG
1 GGTG
7614725 TAGGAGTTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.12, C:0.05, G:0.57, T:0.26
Consensus pattern (36 bp):
GGTGCAGGTGGGGGTTTTGGAGGTGGAAAAGGTGGA
Found at i:7614738 original size:21 final size:23
Alignment explanation
Indices: 7614714--7614770 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 23
7614704 GAGGTGGAAA
*
7614714 AGGTGGAGGTGTAGGA-G-TTGG
1 AGGTGGAGGTGGAGGAGGCTTGG
*
7614735 AGGTGGAGCTGGAGGAGGGCTTGG
1 AGGTGGAGGTGGAGGA-GGCTTGG
*
7614759 TGGTGGAGGTGG
1 AGGTGGAGGTGG
7614771 TGCAGGTGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 14 0.48
23 1 0.03
24 14 0.48
ACGTcount: A:0.16, C:0.04, G:0.60, T:0.21
Consensus pattern (23 bp):
AGGTGGAGGTGGAGGAGGCTTGG
Found at i:7614794 original size:30 final size:30
Alignment explanation
Indices: 7614635--7614945 Score: 102
Period size: 30 Copynumber: 10.4 Consensus size: 30
7614625 GGTGGAGGGC
* *
7614635 TTGGTGGTGGAGGTGGTGCAGGTGGGGGTT
1 TTGGAGGTGGAGGTGGTGCAGGTGGGGGTG
* **
7614665 TTGGAGGTGGAGCTGGTGGC-GGTGCTGGTG
1 TTGGAGGTGGAGGTGGT-GCAGGTGGGGGTG
* *** *** *
7614695 GTGGTTTTGGAGGTGGAAAAGGTGGAGGTG
1 TTGGAGGTGGAGGTGGTGCAGGTGGGGGTG
* * * * * *
7614725 TAGGAGTTGGAGGTGGAGCTGGAGGAGGG-C
1 TTGGAGGTGGAGGTGGTGCAGGTGG-GGGTG
*
7614755 TTGGTGGTGGAGGTGGTGCAGGTGGGGGT-
1 TTGGAGGTGGAGGTGGTGCAGGTGGGGGTG
*** *
7614784 TT-----TGGAGGTGGAAAAGGTGGAGGTG
1 TTGGAGGTGGAGGTGGTGCAGGTGGGGGTG
* * * * *
7614809 TAGGAGTTGGAGGTGGAGCCGGTGGTGGTG
1 TTGGAGGTGGAGGTGGTGCAGGTGGGGGTG
* * * **
7614839 TTGGAGGAGGATTAGGTGGTGGAGGTGGTGCAG
1 TTGGAGGTGG---AGGTGGTGCAGGTGGGGGTG
* ** *
7614872 GTGGAGGTGCTGGTGGTGGCA-TTGGAGGAG-G
1 TTGGAGGTGGAGGTGGT-GCAGGTGG-GG-GTG
* *
7614903 ATTAGGTGGTGGAGGTGGTGCAGGTGGGGGTT
1 -TT-GGAGGTGGAGGTGGTGCAGGTGGGGGTG
7614935 TTGGAGGTGGA
1 TTGGAGGTGGA
7614946 AAAGGTGGAG
Statistics
Matches: 198, Mismatches: 63, Indels: 40
0.66 0.21 0.13
Matches are distributed among these distances:
24 18 0.09
25 1 0.01
29 5 0.03
30 120 0.61
31 11 0.06
32 6 0.03
33 37 0.19
ACGTcount: A:0.14, C:0.04, G:0.57, T:0.25
Consensus pattern (30 bp):
TTGGAGGTGGAGGTGGTGCAGGTGGGGGTG
Found at i:7614856 original size:54 final size:54
Alignment explanation
Indices: 7614760--7615007 Score: 182
Period size: 54 Copynumber: 4.8 Consensus size: 54
7614750 AGGGCTTGGT
* * * * **
7614760 GGTGGAGGTGGTGCAGGTGGGGGTTTTGGAGGTGGAAAAGGTGGAGGTGTAGGA
1 GGTGGAGGTGGAGCAGGTGGTGGTGTTGGAGGAGGATTAGGTGGAGGTGTAGGA
* *
7614814 GTTGGAGGTGGAGCCGGTGGTGGTGTTGGAGGAGGATTAGGT----G-GT-GGA
1 GGTGGAGGTGGAGCAGGTGGTGGTGTTGGAGGAGGATTAGGTGGAGGTGTAGGA
* * * * * *
7614862 GGT---GGT---GCAGGTGGAGGTGCTGGTGGTGGCATT-GGAGGAGGAT-TAGGT
1 GGTGGAGGTGGAGCAGGTGGTGGTGTTGGAGGAGG-ATTAGGTGGAGG-TGTAGGA
* * * * **
7614910 GGTGGAGGTGGTGCAGGTGGGGGTTTTGGAGGTGGAAAAGGTGGAGGTGTAGGA
1 GGTGGAGGTGGAGCAGGTGGTGGTGTTGGAGGAGGATTAGGTGGAGGTGTAGGA
* *
7614964 GTTGGAGGTGGAGCCGGTGGTGGTGTTGGAGGAGGATTAGGTGG
1 GGTGGAGGTGGAGCAGGTGGTGGTGTTGGAGGAGGATTAGGTGG
7615008 TGGAGGTGGT
Statistics
Matches: 146, Mismatches: 32, Indels: 32
0.70 0.15 0.15
Matches are distributed among these distances:
42 20 0.14
43 3 0.02
45 3 0.02
46 1 0.01
47 1 0.01
48 10 0.07
49 2 0.01
50 1 0.01
51 3 0.02
53 2 0.01
54 100 0.68
ACGTcount: A:0.16, C:0.04, G:0.56, T:0.24
Consensus pattern (54 bp):
GGTGGAGGTGGAGCAGGTGGTGGTGTTGGAGGAGGATTAGGTGGAGGTGTAGGA
Found at i:7614946 original size:150 final size:150
Alignment explanation
Indices: 7614744--7615049 Score: 587
Period size: 150 Copynumber: 2.0 Consensus size: 150
7614734 GAGGTGGAGC
*
7614744 TGGAGGAGGGCTTGGTGGTGGAGGTGGTGCAGGTGGGGGTTTTGGAGGTGGAAAAGGTGGAGGTG
1 TGGAGGAGGGATTGGTGGTGGAGGTGGTGCAGGTGGGGGTTTTGGAGGTGGAAAAGGTGGAGGTG
7614809 TAGGAGTTGGAGGTGGAGCCGGTGGTGGTGTTGGAGGAGGATTAGGTGGTGGAGGTGGTGCAGGT
66 TAGGAGTTGGAGGTGGAGCCGGTGGTGGTGTTGGAGGAGGATTAGGTGGTGGAGGTGGTGCAGGT
7614874 GGAGGTGCTGGTGGTGGCAT
131 GGAGGTGCTGGTGGTGGCAT
7614894 TGGAGGA-GGATTAGGTGGTGGAGGTGGTGCAGGTGGGGGTTTTGGAGGTGGAAAAGGTGGAGGT
1 TGGAGGAGGGATT-GGTGGTGGAGGTGGTGCAGGTGGGGGTTTTGGAGGTGGAAAAGGTGGAGGT
7614958 GTAGGAGTTGGAGGTGGAGCCGGTGGTGGTGTTGGAGGAGGATTAGGTGGTGGAGGTGGTGCAGG
65 GTAGGAGTTGGAGGTGGAGCCGGTGGTGGTGTTGGAGGAGGATTAGGTGGTGGAGGTGGTGCAGG
7615023 TGGAGGTGCTGGTGGTGGCAT
130 TGGAGGTGCTGGTGGTGGCAT
7615044 TGGAGG
1 TGGAGG
7615050 TGGTAAAGGT
Statistics
Matches: 154, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
149 4 0.03
150 150 0.97
ACGTcount: A:0.15, C:0.04, G:0.57, T:0.24
Consensus pattern (150 bp):
TGGAGGAGGGATTGGTGGTGGAGGTGGTGCAGGTGGGGGTTTTGGAGGTGGAAAAGGTGGAGGTG
TAGGAGTTGGAGGTGGAGCCGGTGGTGGTGTTGGAGGAGGATTAGGTGGTGGAGGTGGTGCAGGT
GGAGGTGCTGGTGGTGGCAT
Found at i:7614952 original size:96 final size:96
Alignment explanation
Indices: 7614757--7615030 Score: 261
Period size: 96 Copynumber: 2.9 Consensus size: 96
7614747 AGGAGGGCTT
* ** * ** * * *
7614757 GGTGGTGGAGGTGGTGCAGGTGGGGGTTTTGGAGGTGGAAAAGGTGGAGG-TGTAGGAGTTGGAG
1 GGTGGTGGAGGTGGTGCAGGTGGAGGTGCTGGTGGTGGAATTGGAGGAGGAT-TAGGTGGTGGAG
* * * **
7614821 GTGGAGCCGGTGGTGGTGTTGGAGGAGGATTA
65 GTGGTGCAGGTGGGGGTGTTGGAGGAGGAAAA
*
7614853 GGTGGTGGAGGTGGTGCAGGTGGAGGTGCTGGTGGTGGCATTGGAGGAGGATTAGGTGGTGGAGG
1 GGTGGTGGAGGTGGTGCAGGTGGAGGTGCTGGTGGTGGAATTGGAGGAGGATTAGGTGGTGGAGG
* *
7614918 TGGTGCAGGTGGGGGTTTTGGAGGTGGAAAA
66 TGGTGCAGGTGGGGGTGTTGGAGGAGGAAAA
* * * **
7614949 ---GGTGGAGGT-GTAGGAGTTGGAGGTGGAGCCGGTGGTGGTGTTGGAGGAGGATTAGGTGGTG
1 GGTGGTGGAGGTGGT-GCAGGTGGAGGT---GCTGGTGGTGGAATTGGAGGAGGATTAGGTGGTG
*
7615010 GAGGTGGTGCAGGTGGAGGTG
62 GAGGTGGTGCAGGTGGGGGTG
7615031 CTGGTGGTGG
Statistics
Matches: 149, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
92 2 0.01
93 19 0.13
96 127 0.85
97 1 0.01
ACGTcount: A:0.16, C:0.04, G:0.57, T:0.24
Consensus pattern (96 bp):
GGTGGTGGAGGTGGTGCAGGTGGAGGTGCTGGTGGTGGAATTGGAGGAGGATTAGGTGGTGGAGG
TGGTGCAGGTGGGGGTGTTGGAGGAGGAAAA
Found at i:7615028 original size:30 final size:30
Alignment explanation
Indices: 7614898--7615028 Score: 82
Period size: 30 Copynumber: 4.2 Consensus size: 30
7614888 TGGCATTGGA
7614898 GGAGGATTAGGTGGTGGAGGTGGTGCAGGT
1 GGAGGATTAGGTGGTGGAGGTGGTGCAGGT
* * * * *** *
7614928 GGGGGTTTTGGAGGTGGAAAAGGTGGAGGT
1 GGAGGATTAGGTGGTGGAGGTGGTGCAGGT
* * * ** *
7614958 GTAGGAGTTGGAGGTGGAGCCGGTGGTGGTGTTGGA
1 GGAGGA-TT--AGGT-G-G-TGGAGGTGGTGCAGGT
7614994 GGAGGATTAGGTGGTGGAGGTGGTGCAGGT
1 GGAGGATTAGGTGGTGGAGGTGGTGCAGGT
7615024 GGAGG
1 GGAGG
7615029 TGCTGGTGGT
Statistics
Matches: 68, Mismatches: 27, Indels: 12
0.64 0.25 0.11
Matches are distributed among these distances:
30 41 0.60
31 3 0.04
32 1 0.01
33 6 0.09
34 1 0.01
35 3 0.04
36 13 0.19
ACGTcount: A:0.17, C:0.03, G:0.57, T:0.23
Consensus pattern (30 bp):
GGAGGATTAGGTGGTGGAGGTGGTGCAGGT
Found at i:7615030 original size:24 final size:24
Alignment explanation
Indices: 7614757--7614890 Score: 69
Period size: 24 Copynumber: 5.6 Consensus size: 24
7614747 AGGAGGGCTT
*
7614757 GGTGGTGGAGGTGGTGCAGGTGGG
1 GGTGGTGGAGGTGGTGCAGGTGGA
** ***
7614781 GGTTTTGGAGGTGGAAAAGGTGGA
1 GGTGGTGGAGGTGGTGCAGGTGGA
*
7614805 GGT-GTAGGA-GT--TGGAGGTGGA
1 GGTGGT-GGAGGTGGTGCAGGTGGA
** * * * *
7614826 GCCGGTGGTGGTGTTGGAGGAGGATTA
1 GGTGGTGGAGGTGGTGCAGGTGG---A
7614853 GGTGGTGGAGGTGGTGCAGGTGGA
1 GGTGGTGGAGGTGGTGCAGGTGGA
* *
7614877 GGTGCTGGTGGTGG
1 GGTGGTGGAGGTGG
7614891 CATTGGAGGA
Statistics
Matches: 80, Mismatches: 22, Indels: 16
0.68 0.19 0.14
Matches are distributed among these distances:
21 10 0.12
22 4 0.05
23 3 0.04
24 45 0.56
27 18 0.22
ACGTcount: A:0.14, C:0.04, G:0.58, T:0.24
Consensus pattern (24 bp):
GGTGGTGGAGGTGGTGCAGGTGGA
Found at i:7615108 original size:150 final size:149
Alignment explanation
Indices: 7614787--7615095 Score: 478
Period size: 150 Copynumber: 2.1 Consensus size: 149
7614777 TGGGGGTTTT
7614787 GGAGGTGGAAAAGGTGGAGGTGTAGGAGTTGGAGGTGGAGCCGGTGGTGGTGTTGGAGGAGGATT
1 GGAGGTGGAAAAGGTGGAGGTGTAGGAGTTGGAGGTGGAGCCGGTGGTGGTGTTGGAGGAGGATT
* *
7614852 AGGTGGTGGAGGTGGTGCAGGTGGAGGTGCTGGTGGTGGCATTGGAGGAGGATTAGGTGGTGGAG
66 AGGTGGTGGAGGTGGTGCAGGTGGAGGTGCTGGTGGTGGCATTGGAGGAGGATAAGGTGGCGGA-
* * * * *
7614917 GTGGTGCAGGTGGGGGTTTT
130 GTGGAGCAGGAGGAGGATTA
7614937 GGAGGTGGAAAAGGTGGAGGTGTAGGAGTTGGAGGTGGAGCCGGTGGTGGTGTTGGAGGAGGATT
1 GGAGGTGGAAAAGGTGGAGGTGTAGGAGTTGGAGGTGGAGCCGGTGGTGGTGTTGGAGGAGGATT
*
7615002 AGGTGGTGGAGGTGGTGCAGGTGGAGGTGCTGGTGGTGGCATTGGAGGTGG-TAAAGGTGGCGGT
66 AGGTGGTGGAGGTGGTGCAGGTGGAGGTGCTGGTGGTGGCATTGGAGGAGGAT-AAGGTGGCGG-
*
7615066 A-TAGGAGCTGGAGGAGGATTA
129 AGT-GGAGCAGGAGGAGGATTA
*
7615087 GGTGGTGGA
1 GGAGGTGGA
7615096 GGTGGTGCAG
Statistics
Matches: 146, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
149 2 0.01
150 143 0.98
151 1 0.01
ACGTcount: A:0.17, C:0.04, G:0.55, T:0.23
Consensus pattern (149 bp):
GGAGGTGGAAAAGGTGGAGGTGTAGGAGTTGGAGGTGGAGCCGGTGGTGGTGTTGGAGGAGGATT
AGGTGGTGGAGGTGGTGCAGGTGGAGGTGCTGGTGGTGGCATTGGAGGAGGATAAGGTGGCGGAG
TGGAGCAGGAGGAGGATTA
Found at i:7615234 original size:12 final size:11
Alignment explanation
Indices: 7615218--7615265 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
7615208 GTGGTGGACT
7615218 CGGTGGTGGTG
1 CGGTGGTGGTG
*
7615229 CAGGTGGAGGTG
1 C-GGTGGTGGTG
*
7615241 CTGGTGGTGGTTT
1 C-GGTGGTGG-TG
7615254 CGGTGGTGGTG
1 CGGTGGTGGTG
7615265 C
1 C
7615266 TGGAGGAGGA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
11 3 0.10
12 25 0.83
13 2 0.07
ACGTcount: A:0.04, C:0.10, G:0.56, T:0.29
Consensus pattern (11 bp):
CGGTGGTGGTG
Found at i:7637048 original size:13 final size:14
Alignment explanation
Indices: 7637019--7637051 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
7637009 CAAAAATTAT
*
7637019 AACTTATAAATAAA
1 AACTTATAAAAAAA
7637033 AACTTA-AAAAAAA
1 AACTTATAAAAAAA
7637046 AACTTA
1 AACTTA
7637052 CCAAACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (14 bp):
AACTTATAAAAAAA
Found at i:7639177 original size:12 final size:12
Alignment explanation
Indices: 7639132--7639178 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
7639122 TAGATATTAT
*
7639132 TTAATTAATAAA
1 TTAATTAATACA
**
7639144 TTAATT-ATTTA
1 TTAATTAATACA
*
7639155 TTAATTTATACA
1 TTAATTAATACA
7639167 TTAATTAATACA
1 TTAATTAATACA
7639179 AAATTAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (12 bp):
TTAATTAATACA
Found at i:7640001 original size:16 final size:17
Alignment explanation
Indices: 7639977--7640030 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 17
7639967 GAGATATATA
*
7639977 AAAAATATT-ATTAATT
1 AAAATTATTAATTAATT
*
7639993 AAAATTATTAATTTATT
1 AAAATTATTAATTAATT
* *
7640010 -AAA-TATTAATTTATC
1 AAAATTATTAATTAATT
7640025 AAAATT
1 AAAATT
7640031 TTATTGTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 11 0.34
16 14 0.44
17 7 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAATTATTAATTAATT
Found at i:7640016 original size:15 final size:16
Alignment explanation
Indices: 7639978--7640029 Score: 63
Period size: 15 Copynumber: 3.3 Consensus size: 16
7639968 AGATATATAA
*
7639978 AAAATATT-ATTAATT
1 AAAATATTAATTTATT
7639993 AAAATTATTAATTTATT
1 AAAA-TATTAATTTATT
*
7640010 -AAATATTAATTTATC
1 AAAATATTAATTTATT
7640025 AAAAT
1 AAAAT
7640030 TTTATTGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 15 0.47
16 11 0.34
17 6 0.19
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
AAAATATTAATTTATT
Found at i:7648886 original size:19 final size:19
Alignment explanation
Indices: 7648864--7648902 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7648854 TATTAATTTT
7648864 TAAAATAAA-TATTTTATTC
1 TAAAA-AAATTATTTTATTC
*
7648883 TAAAAAAATTATTTTTTTC
1 TAAAAAAATTATTTTATTC
7648902 T
1 T
7648903 TGACACATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
TAAAAAAATTATTTTATTC
Found at i:7651768 original size:22 final size:22
Alignment explanation
Indices: 7651743--7651784 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7651733 AATTTCTAAT
7651743 TTTAAAAATATTATTTTTATAA
1 TTTAAAAATATTATTTTTATAA
* *
7651765 TTTATAAATATTTTTTTTAT
1 TTTAAAAATATTATTTTTAT
7651785 TTTTCCTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTAAAAATATTATTTTTATAA
Found at i:7664017 original size:60 final size:60
Alignment explanation
Indices: 7663913--7664033 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
7663903 TGCAAACTAG
*
7663913 ATAGTTAATACAGTCAAACCTTTATTTACATTAAGAACACGATAGTTCATAACCTAACAC
1 ATAGTTAATACAGACAAACCTTTATTTACATTAAGAACACGATAGTTCATAACCTAACAC
*
7663973 ATAGTTAATACAGACAAACCTTTATTTACATTACAG-ACATGATAGTTCATAACCTAACAC
1 ATAGTTAATACAGACAAACCTTTATTTACATTA-AGAACACGATAGTTCATAACCTAACAC
7664033 A
1 A
7664034 CTTCTTCTAC
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 56 0.97
61 2 0.03
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (60 bp):
ATAGTTAATACAGACAAACCTTTATTTACATTAAGAACACGATAGTTCATAACCTAACAC
Done.