Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold157
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: 1658850
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.32
Warning! 45522 characters in sequence are not A, C, G, or T
File 5 of 5
Found at i:1420849 original size:27 final size:27
Alignment explanation
Indices: 1420808--1420944 Score: 184
Period size: 27 Copynumber: 5.1 Consensus size: 27
1420798 GGTGTTACAC
* *
1420808 GGGCATTACGGTCATTTTATCCTATAG
1 GGGCATTACGATCATTTTACCCTATAG
1420835 GGGCATTACGATCATTTTACCCTATAG
1 GGGCATTACGATCATTTTACCCTATAG
* * *
1420862 GGTCATTACGGTTATTTTACCCTATAG
1 GGGCATTACGATCATTTTACCCTATAG
* * *
1420889 GGGTATTACGATCATTTTACCCTACAA
1 GGGCATTACGATCATTTTACCCTATAG
* *
1420916 GGGCATTACGATCAGTTTATCCTATAG
1 GGGCATTACGATCATTTTACCCTATAG
1420943 GG
1 GG
1420945 TGTTAGAGTA
Statistics
Matches: 94, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGGCATTACGATCATTTTACCCTATAG
Found at i:1420879 original size:54 final size:54
Alignment explanation
Indices: 1420803--1420944 Score: 205
Period size: 54 Copynumber: 2.6 Consensus size: 54
1420793 TAAGGGGTGT
*
1420803 TACACGGGCATTACGGTCATTTTATCCTATAGGGGCATTACGATCATTTTACCC
1 TACAAGGGCATTACGGTCATTTTATCCTATAGGGGCATTACGATCATTTTACCC
* * * *
1420857 TA-TAGGGTCATTACGGTTATTTTACCCTATAGGGGTATTACGATCATTTTACCC
1 TACAAGGG-CATTACGGTCATTTTATCCTATAGGGGCATTACGATCATTTTACCC
* *
1420911 TACAAGGGCATTACGATCAGTTTATCCTATAGGG
1 TACAAGGGCATTACGGTCATTTTATCCTATAGGG
1420945 TGTTAGAGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
53 3 0.04
54 69 0.91
55 4 0.05
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (54 bp):
TACAAGGGCATTACGGTCATTTTATCCTATAGGGGCATTACGATCATTTTACCC
Found at i:1422487 original size:27 final size:27
Alignment explanation
Indices: 1422444--1422516 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
1422434 GATCCAACAT
* * *
1422444 AGGGGCATTACGATCATTTTACCCTAC
1 AGGGGCATTACGGTCATTTTACCATAA
*
1422471 AGGGGCATTATGGTCATTTTACCATAA
1 AGGGGCATTACGGTCATTTTACCATAA
*
1422498 AAGGGCATTACGGTCATTT
1 AGGGGCATTACGGTCATTT
1422517 AACAACCTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (27 bp):
AGGGGCATTACGGTCATTTTACCATAA
Found at i:1425671 original size:44 final size:41
Alignment explanation
Indices: 1425607--1425763 Score: 158
Period size: 44 Copynumber: 3.7 Consensus size: 41
1425597 TAACCGTTAC
1425607 ACGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCT-ATG-TCAAAGGAT
* * *
1425650 CCCGGTGGAATCAGCACTTAGCAACCACCTTATAATC-AATGAT
1 -ACGGTGGAATCAGCACTTAGCAACCACC-TAT-GTCAAAGGAT
* * *
1425693 ACGG-GGAATCAGCACATAGCAACC-CCTTTGACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTATGTC-A--AAGGAT
*
1425735 ACGGTGGAACCAGCACTTAGCAACCACCT
1 ACGGTGGAATCAGCACTTAGCAACCACCT
1425764 TTATAATCAA
Statistics
Matches: 94, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 2 0.02
40 2 0.02
41 19 0.20
42 12 0.13
43 23 0.24
44 34 0.36
45 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (41 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTATGTCAAAGGAT
Found at i:1425815 original size:42 final size:41
Alignment explanation
Indices: 1425656--1425847 Score: 206
Period size: 42 Copynumber: 4.6 Consensus size: 41
1425646 GGATCCCGGT
* *
1425656 GGAATCAGCACTTAGCAACCACC-TTATAATCAATGATACGG
1 GGAATCTGCACTTAGCAACC-CCTTTATAATCAATGATTCGG
* * * * *
1425697 GGAATCAGCACATAGCAACCCCTTTGACAATCAAGGATACGG
1 GGAATCTGCACTTAGCAACCCCTTT-ATAATCAATGATTCGG
* * *
1425739 TGGAACCAGCACTTAGCAACCACCTTTATAATCAATGATTTGG
1 -GGAATCTGCACTTAGCAACC-CCTTTATAATCAATGATTCGG
* * *
1425782 GGAATCTGCACTTAGCAACCCTTTTTTTTATCAATGATTCGG
1 GGAATCTGCACTTAGCAACCC-CTTTATAATCAATGATTCGG
*
1425824 GGAATCTCCACTTAGCAACCCCTT
1 GGAATCTGCACTTAGCAACCCCTT
1425848 ACATTCAAAG
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
40 2 0.02
41 24 0.19
42 68 0.53
43 30 0.23
44 5 0.04
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (41 bp):
GGAATCTGCACTTAGCAACCCCTTTATAATCAATGATTCGG
Found at i:1429022 original size:95 final size:95
Alignment explanation
Indices: 1428857--1429043 Score: 295
Period size: 95 Copynumber: 2.0 Consensus size: 95
1428847 TAAGGTTATA
* *
1428857 TTTCTCACTGGTGACATTGAAGAGACGGTTTATATGGTGCAACCAAAAATGTAACACCCCTAACC
1 TTTCTCAATGGTAACATTGAAGAGACGGTTTATATGGTGCAACCAAAAATGTAACACCCCTAACC
1428922 CGTATCCGTCACCGGAATAGGGTTACAAAG
66 CGTATCCGTCACCGGAATAGGGTTACAAAG
* * *
1428952 TTTCTCAATGGTAACATTGACA-AGACGGTTTATATGGTGGAACTAGAAATGTAACACCCCTAAC
1 TTTCTCAATGGTAACATTGA-AGAGACGGTTTATATGGTGCAACCAAAAATGTAACACCCCTAAC
* *
1429016 CTGTATCCGTCGCCGGAATAGGGTTACA
65 CCGTATCCGTCACCGGAATAGGGTTACA
1429044 GAGCATTACC
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 83 0.99
96 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (95 bp):
TTTCTCAATGGTAACATTGAAGAGACGGTTTATATGGTGCAACCAAAAATGTAACACCCCTAACC
CGTATCCGTCACCGGAATAGGGTTACAAAG
Found at i:1430387 original size:31 final size:31
Alignment explanation
Indices: 1430350--1430426 Score: 113
Period size: 29 Copynumber: 2.5 Consensus size: 31
1430340 AACCAAAGCT
*
1430350 ATCCCTTTTCATAATTTTGATGGTCGTTACC
1 ATCCCTTTTCATAATTTTGATGGTCGTCACC
*
1430381 ATCCCTTTTCAT--TGTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTTTGATGGTCGTCACC
*
1430410 ATCCCTTTACATAATTT
1 ATCCCTTTTCATAATTT
1430427 GATAGCCGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
29 26 0.65
31 14 0.35
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.44
Consensus pattern (31 bp):
ATCCCTTTTCATAATTTTGATGGTCGTCACC
Found at i:1440740 original size:29 final size:29
Alignment explanation
Indices: 1440681--1440752 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
1440671 ATAGCCGAAG
*
1440681 CCATACCTTTTCATAGTTCAATGGTCGTCA
1 CCAT-CCTTTTCATAGATCAATGGTCGTCA
* *
1440711 CCATCCCTTTTCATA-ATCGATGGTTGTCA
1 CCAT-CCTTTTCATAGATCAATGGTCGTCA
1440740 CCATCCTTTTCAT
1 CCATCCTTTTCAT
1440753 TTGTTGATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 9 0.24
29 15 0.39
30 14 0.37
ACGTcount: A:0.21, C:0.29, G:0.11, T:0.39
Consensus pattern (29 bp):
CCATCCTTTTCATAGATCAATGGTCGTCA
Found at i:1440761 original size:29 final size:29
Alignment explanation
Indices: 1440585--1440752 Score: 97
Period size: 30 Copynumber: 5.7 Consensus size: 29
1440575 TTTTTTTATA
** *
1440585 GTCGTCACCATCCCTTTTCATTGTTGATG
1 GTCGTCACCATCCCTTTTCATAATCGATG
* * * * *
1440614 GTCGTCACAATCCCCTTACATAATTTGATA
1 GTCGTCACCATCCCTTTTCATAA-TCGATG
* ** * * * *
1440644 GCCGAAACTATCCCCTTTCATGATTCGATA
1 GTCGTCACCATCCCTTTTCAT-AATCGATG
* * * * *
1440674 GCCG-AAGCCATACCTTTTCATAGTTCAATG
1 GTCGTCA-CCATCCCTTTTCATA-ATCGATG
1440704 GTCGTCACCATCCCTTTTCATAATCGATG
1 GTCGTCACCATCCCTTTTCATAATCGATG
*
1440733 GTTGTCACCAT-CCTTTTCAT
1 GTCGTCACCATCCCTTTTCAT
1440753 TTGTTGATGA
Statistics
Matches: 110, Mismatches: 24, Indels: 11
0.76 0.17 0.08
Matches are distributed among these distances:
28 9 0.08
29 36 0.33
30 63 0.57
31 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.35
Consensus pattern (29 bp):
GTCGTCACCATCCCTTTTCATAATCGATG
Found at i:1452032 original size:48 final size:48
Alignment explanation
Indices: 1451974--1452065 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 48
1451964 TGATGAATTT
1451974 GAAATGTTGGTTGATATTTAAAAGTATTTTGTTAAGTAATTTTGTTAA
1 GAAATGTTGGTTGATATTTAAAAGTATTTTGTTAAGTAATTTTGTTAA
*
1452022 GAAATTTTGGTTGATATTTAAAAGTATTTTGTTAAGTAATTTTG
1 GAAATGTTGGTTGATATTTAAAAGTATTTTGTTAAGTAATTTTG
1452066 ATGAATTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (48 bp):
GAAATGTTGGTTGATATTTAAAAGTATTTTGTTAAGTAATTTTGTTAA
Found at i:1452065 original size:13 final size:13
Alignment explanation
Indices: 1451995--1452030 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
1451985 TGATATTTAA
1451995 AAGT-ATTTTGTT
1 AAGTAATTTTGTT
1452007 AAGTAATTTTGTT
1 AAGTAATTTTGTT
*
1452020 AAGAAATTTTG
1 AAGTAATTTTG
1452031 GTTGATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (13 bp):
AAGTAATTTTGTT
Found at i:1459541 original size:32 final size:32
Alignment explanation
Indices: 1459505--1459572 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
1459495 TATATATTAA
1459505 TAAATGAAA-A-AATATATAAAATTATTAAATAT
1 TAAATGAAAGATAATATA-AAAATTATTAAA-AT
* * *
1459537 TAAATTAAAGATAATATAAATATTTTTAAAAT
1 TAAATGAAAGATAATATAAAAATTATTAAAAT
1459569 TAAA
1 TAAA
1459573 AAAAATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 14 0.45
33 11 0.35
34 6 0.19
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (32 bp):
TAAATGAAAGATAATATAAAAATTATTAAAAT
Found at i:1462265 original size:66 final size:66
Alignment explanation
Indices: 1462188--1462370 Score: 215
Period size: 66 Copynumber: 2.8 Consensus size: 66
1462178 GTTAGTAGCC
*
1462188 TCACACGGCCTAGCACATGGGCGTGTGGCTTGGCCATGTGACACAAGTCAGTATACCCATCATTT
1 TCACACGGCCTAGCACACGGGCGTGTGGCTTGGCCATGTGACACAAGTCAGTATACCCATCATTT
1462253 T
66 T
* * * * * * *
1462254 TCACACGGCCTAGCACACGGGCGTGTAGCTTAGCCGTATGTCACAAGTCAGTATGCCCTTCATTT
1 TCACACGGCCTAGCACACGGGCGTGTGGCTTGGCCATGTGACACAAGTCAGTATACCCATCATTT
1462319 T
66 T
** * * * * * *
1462320 TCACACAACCTGGTATACGGTCGTGTGGCTTGGTCATGTGACCCAAG-CAGT
1 TCACACGGCCTAGCACACGGGCGTGTGGCTTGGCCATGTGACACAAGTCAGT
1462371 GAGTTATACG
Statistics
Matches: 96, Mismatches: 21, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
65 4 0.04
66 92 0.96
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (66 bp):
TCACACGGCCTAGCACACGGGCGTGTGGCTTGGCCATGTGACACAAGTCAGTATACCCATCATTT
T
Found at i:1466859 original size:29 final size:29
Alignment explanation
Indices: 1466826--1466883 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
1466816 AATAAGACCA
1466826 AACGATGAAATAAACTAAGCCTGGCCAGT
1 AACGATGAAATAAACTAAGCCTGGCCAGT
1466855 AACGATGAAATAAACTAAGCCTGGCCAGT
1 AACGATGAAATAAACTAAGCCTGGCCAGT
1466884 TATGTACCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.21, G:0.21, T:0.17
Consensus pattern (29 bp):
AACGATGAAATAAACTAAGCCTGGCCAGT
Found at i:1470368 original size:15 final size:16
Alignment explanation
Indices: 1470338--1470371 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1470328 AAAGTAAAAT
1470338 TTTATCATTTTAATAA
1 TTTATCATTTTAATAA
*
1470354 TTTAT-ATTTTTATAA
1 TTTATCATTTTAATAA
1470369 TTT
1 TTT
1470372 TTAAAGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATCATTTTAATAA
Found at i:1472347 original size:116 final size:116
Alignment explanation
Indices: 1472143--1472357 Score: 412
Period size: 116 Copynumber: 1.9 Consensus size: 116
1472133 CTCACAAAAG
*
1472143 CAAGACTACATGCATAAGCAAGACTAAAAAATGTACTACAAGAGTAGACAAAAACTTCTAAAAGT
1 CAAGACTACATGCATAAGCAAGACTAAAAAACGTACTACAAGAGTAGACAAAAACTTCTAAAAGT
1472208 GAAGACTTATTAAATAATGAAAAAACAAAAAAAAACATATAAAACGTACTA
66 GAAGACTTATTAAATAATGAAAAAACAAAAAAAAACATATAAAACGTACTA
1472259 CAAGACTACATGCATAAGCAAGACTAAAAAACGTACTACAAGAGTAGACAAAAACTTCTAAAAGT
1 CAAGACTACATGCATAAGCAAGACTAAAAAACGTACTACAAGAGTAGACAAAAACTTCTAAAAGT
*
1472324 GAAGGCTTATTAAATAATGAAAAAACAAAAAAAA
66 GAAGACTTATTAAATAATGAAAAAACAAAAAAAA
1472358 TATAAAACTT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 97 1.00
ACGTcount: A:0.56, C:0.14, G:0.12, T:0.18
Consensus pattern (116 bp):
CAAGACTACATGCATAAGCAAGACTAAAAAACGTACTACAAGAGTAGACAAAAACTTCTAAAAGT
GAAGACTTATTAAATAATGAAAAAACAAAAAAAAACATATAAAACGTACTA
Found at i:1475892 original size:101 final size:101
Alignment explanation
Indices: 1475787--1475990 Score: 399
Period size: 101 Copynumber: 2.0 Consensus size: 101
1475777 ATTTTTAGTA
1475787 TTTTTGATGTATTATGTATATTTAAAAATTATGTAAAAATAATATAATATAAAAATTTAATATGG
1 TTTTTGATGTA-TATGTATATTTAAAAATTATGTAAAAATAATATAATATAAAAATTTAATATGG
1475852 GCGGGCCAGATCAGGCTCAGGTTTTAGCATATTTATT
65 GCGGGCCAGATCAGGCTCAGGTTTTAGCATATTTATT
1475889 TTTTTGATGTATATGTATATTTAAAAATTATGTAAAAATAATATAATATAAAAATTTAATATGGG
1 TTTTTGATGTATATGTATATTTAAAAATTATGTAAAAATAATATAATATAAAAATTTAATATGGG
1475954 CGGGCCAGATCAGGCTCAGGTTTTAGCATATTTATT
66 CGGGCCAGATCAGGCTCAGGTTTTAGCATATTTATT
1475990 T
1 T
1475991 GGGCTGGGCT
Statistics
Matches: 102, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
101 91 0.89
102 11 0.11
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (101 bp):
TTTTTGATGTATATGTATATTTAAAAATTATGTAAAAATAATATAATATAAAAATTTAATATGGG
CGGGCCAGATCAGGCTCAGGTTTTAGCATATTTATT
Found at i:1476150 original size:16 final size:16
Alignment explanation
Indices: 1476116--1476166 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
1476106 AGTTGGGGAG
* *
1476116 AATGGAATAGGGCTAT
1 AATGGAATAGAGCTGT
*
1476132 AATGGAATAAAGCTGT
1 AATGGAATAGAGCTGT
*
1476148 AATAGAATAGAGCTGT
1 AATGGAATAGAGCTGT
1476164 AAT
1 AAT
1476167 TAGTAATTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.43, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:1476434 original size:38 final size:39
Alignment explanation
Indices: 1476343--1476455 Score: 131
Period size: 41 Copynumber: 2.8 Consensus size: 39
1476333 TTATTAAATT
* *
1476343 TTAATAAGATTATTATTAAATATAATTAATTTAATCATATT
1 TTAATATGATTATTATTAAATATAATTAA--TAATCATATC
* *
1476384 TTAACATAATTATTATTAAATATAATTTAATAA-CAT-TC
1 TTAATATGATTATTATTAAATATAA-TTAATAATCATATC
1476422 TTAATATGATTATTATTAAAATATGAATTAATAA
1 TTAATATGATTATTATT-AAATAT-AATTAATAA
1476456 AAATTATAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
38 16 0.25
39 16 0.25
40 5 0.08
41 22 0.35
42 4 0.06
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (39 bp):
TTAATATGATTATTATTAAATATAATTAATAATCATATC
Found at i:1479172 original size:26 final size:27
Alignment explanation
Indices: 1479143--1479197 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
1479133 CTTTAACATG
*
1479143 ATTTTTGGT-TGTTTA-ATTAAAGGTTA
1 ATTTTTGGTAT-TTTATAATAAAGGTTA
1479169 A-TTTTGGTATTTTATAATAAAGGTTA
1 ATTTTTGGTATTTTATAATAAAGGTTA
1479195 ATT
1 ATT
1479198 AATTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 11 0.44
26 13 0.52
27 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (27 bp):
ATTTTTGGTATTTTATAATAAAGGTTA
Found at i:1480377 original size:20 final size:20
Alignment explanation
Indices: 1480339--1480377 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1480329 TATGGTTGGA
* *
1480339 TTACTGTTGATATGTATAAG
1 TTACTGTTGATAAGGATAAG
1480359 TTACTGTTGATAAGGATAA
1 TTACTGTTGATAAGGATAA
1480378 ATTTCTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (20 bp):
TTACTGTTGATAAGGATAAG
Found at i:1483489 original size:92 final size:93
Alignment explanation
Indices: 1483324--1483508 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 93
1483314 AAGTACTTTT
*
1483324 GAGAAATAAAATGTCCATTTTAGACATGGTGTTATAAAGTAACAAATAAGCATTTAAATAATGTT
1 GAGAAATAAAATGTCCATTTTAGACATGGTGTTATAAAGTAACAAATAAGCATTTAAATAATGTC
1483389 CAAAGTAGTTAATATTATGATATTTAAA
66 CAAAGTAGTTAATATTATGATATTTAAA
*
1483417 GAGAAAT-AAATGTCCATTTTAGACATGGTGTTATAAAGTAACAAATAAGCATTTAAGTAATGTC
1 GAGAAATAAAATGTCCATTTTAGACATGGTGTTATAAAGTAACAAATAAGCATTTAAATAATGTC
1483481 CAAAGTAGTTAATATTATGATATTTAAA
66 CAAAGTAGTTAATATTATGATATTTAAA
1483509 TAATAATATA
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
92 83 0.92
93 7 0.08
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (93 bp):
GAGAAATAAAATGTCCATTTTAGACATGGTGTTATAAAGTAACAAATAAGCATTTAAATAATGTC
CAAAGTAGTTAATATTATGATATTTAAA
Found at i:1485533 original size:5 final size:5
Alignment explanation
Indices: 1485525--1485558 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
1485515 AGTTAAGTTA
1485525 TATAT TATA- TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1485559 AATAAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:1486547 original size:22 final size:22
Alignment explanation
Indices: 1486512--1486624 Score: 120
Period size: 22 Copynumber: 5.0 Consensus size: 22
1486502 CTCTGATATG
*
1486512 TAGCACGTCAGTGCTCTCTGTT
1 TAGCACATCAGTGCTCTCTGTT
*
1486534 TAGCACATCTGTGCTCTCTGATT
1 TAGCACATCAGTGCTCTCTG-TT
*
1486557 GCTAGCACGTCAGTGCTCTCTGTT
1 --TAGCACATCAGTGCTCTCTGTT
* *
1486581 TAACACAT-ATGTGCTCTCTGTA
1 TAGCACATCA-GTGCTCTCTGTT
* *
1486603 TAGCACTTCAATGCTCTCTGTT
1 TAGCACATCAGTGCTCTCTGTT
1486625 CATTAGTGCA
Statistics
Matches: 75, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
21 1 0.01
22 51 0.68
23 3 0.04
24 2 0.03
25 18 0.24
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.37
Consensus pattern (22 bp):
TAGCACATCAGTGCTCTCTGTT
Found at i:1486568 original size:47 final size:46
Alignment explanation
Indices: 1486499--1486624 Score: 175
Period size: 47 Copynumber: 2.7 Consensus size: 46
1486489 ACTCTAGCGC
* *
1486499 GCTCTCTGATATGTAGCACGTCAGTGCTCTCTGTTTAGCACATCTGT
1 GCTCTCTGAT-TGTAGCACGTCAGTGCTCTCTGTTTAACACATATGT
1486546 GCTCTCTGATTGCTAGCACGTCAGTGCTCTCTGTTTAACACATATGT
1 GCTCTCTGATTG-TAGCACGTCAGTGCTCTCTGTTTAACACATATGT
* * *
1486593 GCTCTCTG--TATAGCACTTCAATGCTCTCTGTT
1 GCTCTCTGATTGTAGCACGTCAGTGCTCTCTGTT
1486625 CATTAGTGCA
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
44 20 0.27
45 1 0.01
46 2 0.03
47 50 0.68
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.37
Consensus pattern (46 bp):
GCTCTCTGATTGTAGCACGTCAGTGCTCTCTGTTTAACACATATGT
Found at i:1486572 original size:25 final size:24
Alignment explanation
Indices: 1486499--1486578 Score: 110
Period size: 25 Copynumber: 3.3 Consensus size: 24
1486489 ACTCTAGCGC
1486499 GCTCTCTGATATGTAGCACGTCAGT
1 GCTCTCTGAT-TGTAGCACGTCAGT
* *
1486524 GCTCTCTG-TT-TAGCACATCTGT
1 GCTCTCTGATTGTAGCACGTCAGT
1486546 GCTCTCTGATTGCTAGCACGTCAGT
1 GCTCTCTGATTG-TAGCACGTCAGT
1486571 GCTCTCTG
1 GCTCTCTG
1486579 TTTAACACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
22 18 0.38
23 3 0.06
24 1 0.02
25 26 0.54
ACGTcount: A:0.15, C:0.28, G:0.23, T:0.35
Consensus pattern (24 bp):
GCTCTCTGATTGTAGCACGTCAGT
Found at i:1487941 original size:159 final size:161
Alignment explanation
Indices: 1487641--1487953 Score: 477
Period size: 159 Copynumber: 2.0 Consensus size: 161
1487631 CACTATCAAT
* * *
1487641 AAACACAAAAATAAATTTTATACAGTTTGTCAAGAGTTAATAACAACAAAGTGAATAGAAGGAGA
1 AAACACAAAAATAAATCTTATACAGTTTGTCAAGAGTTAAGAACAACAAAGTAAATAGAA-GAGA
*
1487706 CCAAACAAAACCCGTTTTTAGATGGAGACCAAAACCATTTACCTCTCACAAAGAAAATAGAAAAG
65 CCAAACAAAACCCATTTTTAGATGGAGACCAAAACCATTTACCTCTCACAAAGAAAATAGAAAAG
*
1487771 GAAAAATAAAATAAAAAAGCATACACTGAAGG
130 GAAAAAGAAAATAAAAAAGCATACACTGAAGG
*
1487803 AAACACAAAAATAAATCTTATACAGTTTGTCAATAGTTAAGAACAACAAAGTAAATAG-A-AGAC
1 AAACACAAAAATAAATCTTATACAGTTTGTCAAGAGTTAAGAACAACAAAGTAAATAGAAGAGAC
* * *** *
1487866 CAAACAAAACTCATTTTTAGATGGAGACCAAAGCCATTTACCTCTCACGGGGAAAGTAGAAAAGG
66 CAAACAAAACCCATTTTTAGATGGAGACCAAAACCATTTACCTCTCACAAAGAAAATAGAAAAGG
* *
1487931 GAAAAGAAAATAGAAAAGCATAC
131 AAAAAGAAAATAAAAAAGCATAC
1487954 CTTGAAAGAA
Statistics
Matches: 137, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
159 82 0.60
161 1 0.01
162 54 0.39
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (161 bp):
AAACACAAAAATAAATCTTATACAGTTTGTCAAGAGTTAAGAACAACAAAGTAAATAGAAGAGAC
CAAACAAAACCCATTTTTAGATGGAGACCAAAACCATTTACCTCTCACAAAGAAAATAGAAAAGG
AAAAAGAAAATAAAAAAGCATACACTGAAGG
Found at i:1491066 original size:11 final size:11
Alignment explanation
Indices: 1491050--1491075 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1491040 CTATAATTTA
1491050 ATTTTTATTGG
1 ATTTTTATTGG
1491061 ATTTTTATTGG
1 ATTTTTATTGG
1491072 ATTT
1 ATTT
1491076 CAGTTTCACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.65
Consensus pattern (11 bp):
ATTTTTATTGG
Found at i:1491345 original size:13 final size:13
Alignment explanation
Indices: 1491327--1491354 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1491317 GTATGATGTT
1491327 AACAAATCATTTC
1 AACAAATCATTTC
1491340 AACAAATCATTTC
1 AACAAATCATTTC
1491353 AA
1 AA
1491355 AAAAACAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (13 bp):
AACAAATCATTTC
Found at i:1491393 original size:83 final size:82
Alignment explanation
Indices: 1491254--1491457 Score: 300
Period size: 83 Copynumber: 2.5 Consensus size: 82
1491244 GGTATACATC
* *
1491254 TTTCAACAAATGATTTCAAAAAACTAACAAAATATGTTATACTAACAAAATAATCCTATAACAGT
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATAATCCTATAACAGT
* *
1491319 ATGATGTTAACAAATCA
66 AAGATGTTAACAAACCA
* * **
1491336 TTTCAACAAATCATTTCAAAAAAACAAACAAAATATGTTATGCTAACAAAATGATCCTATAGTAG
1 TTTCAACAAATCATTTC-AAAAAACAAACAAAATATGTTATACTAACAAAATAATCCTATAACAG
*
1491401 TAAGATGTTAACTAACCA
65 TAAGATGTTAACAAACCA
* *
1491419 TTTTAACGAATCATTTCAAAAAACAAACAAAATATGTTA
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTA
1491458 ACCATCTCAA
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
82 38 0.35
83 72 0.65
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.29
Consensus pattern (82 bp):
TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATAATCCTATAACAGT
AAGATGTTAACAAACCA
Found at i:1491821 original size:157 final size:156
Alignment explanation
Indices: 1491535--1491988 Score: 431
Period size: 156 Copynumber: 2.9 Consensus size: 156
1491525 ATGCCATCCT
* * * * * * * * * *
1491535 TTTTTGGCTTCTAGTTTTCATACTCGTACCAGATTGAGA--ACAAAAATCTGAACCCCAAATTAG
1 TTTTTGGCTTCTAATTCTCGTACTCATACCAGACTAAGACCAAAAAAATC-AAAACCCAAATTAC
* * * * * * *
1491598 ATTTAAATAATTTGGAATTGATTAA--AAAAAATGTTTACAATATACTTGTGATCCAGTTGTGTT
65 ATTAAAATATTTTGGAATTGA-CAATGAAAAAGTGTTTACGA-ATACCTGTGATCCAGTTGTATT
* **
1491661 AGGTTGAATGCATGGTGTTCTGTTGTTCTT
128 AGGTTGAATGCATGGTGTTATGTTGTT-AG
*
1491691 TTTTTGGCTTCTAGTTCGT-GTACTCATACCAGACTAAGACCAAAAAAATCAAAAACCCAAATTA
1 TTTTTGGCTTCTAATTC-TCGTACTCATACCAGACTAAGACCAAAAAAATC-AAAACCCAAATTA
* * *
1491755 GATTAAAATATTTTTGAATTGAC-ATTAAAATAGT-TTATACG-ATACCTGTGATCCAGTTGTAT
64 CATTAAAATATTTTGGAATTGACAATGAAAA-AGTGTT-TACGAATACCTGTGATCCAGTTGTAT
1491817 TAGGTTGAATGCATGGTGTTATGTTGTTAG
127 TAGGTTGAATGCATGGTGTTATGTTGTTAG
* * * ** *
1491847 TTTTTGGGTTCTAATTCTCGTACTCGTACTAGACTAAGACCAAAAAGTTCAGAACCCAAATTACA
1 TTTTTGGCTTCTAATTCTCGTACTCATACCAGACTAAGACCAAAAAAATCAAAACCCAAATTACA
*** * * *
1491912 TTTTCATATTTTGGAATTGACAATGAAAAAGTGTTTACGATATACCTGTGTTCCTA-TTTTTTTA
66 TTAAAATATTTTGGAATTGACAATGAAAAAGTGTTTACGA-ATACCTGTGATCC-AGTTGTATTA
1491976 GGTTGAATGCATG
129 GGTTGAATGCATG
1491989 ATATTTTGTT
Statistics
Matches: 249, Mismatches: 36, Indels: 25
0.80 0.12 0.08
Matches are distributed among these distances:
155 38 0.15
156 83 0.33
157 78 0.31
158 45 0.18
159 5 0.02
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (156 bp):
TTTTTGGCTTCTAATTCTCGTACTCATACCAGACTAAGACCAAAAAAATCAAAACCCAAATTACA
TTAAAATATTTTGGAATTGACAATGAAAAAGTGTTTACGAATACCTGTGATCCAGTTGTATTAGG
TTGAATGCATGGTGTTATGTTGTTAG
Found at i:1492482 original size:15 final size:16
Alignment explanation
Indices: 1492449--1492485 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1492439 CTTGGTTTCG
1492449 TTTTTATCTTTATTAT
1 TTTTTATCTTTATTAT
1492465 TTTTTAT-TTTCATT-T
1 TTTTTATCTTT-ATTAT
1492480 TTTTTA
1 TTTTTA
1492486 CAAACTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTATCTTTATTAT
Found at i:1493266 original size:28 final size:28
Alignment explanation
Indices: 1493228--1493288 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
1493218 ATCATTTTCT
*
1493228 TTATTATTTTA-ATGTATTATCATTTATTA
1 TTATTATTTTACA-ATATTATCATTTA-TA
1493257 TTATTA-TTTACAATATTATCATTTATA
1 TTATTATTTTACAATATTATCATTTATA
1493284 TTATT
1 TTATT
1493289 TATCATACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 7 0.23
28 16 0.53
29 7 0.23
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (28 bp):
TTATTATTTTACAATATTATCATTTATA
Found at i:1498370 original size:21 final size:21
Alignment explanation
Indices: 1498341--1498382 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1498331 ATGAAACAAT
* *
1498341 ACAGTCATGTAGCTGATATGG
1 ACAGCCATGTAGCCGATATGG
1498362 ACAGCCATGTAGCCGATATGG
1 ACAGCCATGTAGCCGATATGG
1498383 TCCCTGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (21 bp):
ACAGCCATGTAGCCGATATGG
Found at i:1504977 original size:108 final size:108
Alignment explanation
Indices: 1504788--1504984 Score: 277
Period size: 108 Copynumber: 1.8 Consensus size: 108
1504778 CATTTTGTAT
* * * *
1504788 CTTAGCAAAATTTACTATTTTGATTAATTTATTCATTTCAAGCTTTGTTCTCAATAAAATTTCAT
1 CTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCAAGCCTTATTCTCAATAAAATTCCAT
*
1504853 CTTATTCATTGTGATAATCCTTTTAATCTTTTTTATTATGAAC
66 CTTATCCATTGTGATAATCCTTTTAATCTTTTTTATTATGAAC
* * ** *
1504896 CTTAGCAAAATTTGCTATCTTGATTAATTTATTTATTTTGAGCCTTATTCTCAATTAAATTCCAT
1 CTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCAAGCCTTATTCTCAATAAAATTCCAT
* * *
1504961 CTTGTCCATTTTGATAATCTTTTT
66 CTTATCCATTGTGATAATCCTTTT
1504985 TAAGAATTTT
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
108 76 1.00
ACGTcount: A:0.28, C:0.15, G:0.07, T:0.50
Consensus pattern (108 bp):
CTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCAAGCCTTATTCTCAATAAAATTCCAT
CTTATCCATTGTGATAATCCTTTTAATCTTTTTTATTATGAAC
Found at i:1506244 original size:44 final size:44
Alignment explanation
Indices: 1506178--1506607 Score: 406
Period size: 44 Copynumber: 9.8 Consensus size: 44
1506168 AAGCCACCAG
* * *
1506178 TCCTATCTCCCTAAGCAATAGTGGAGTAGGTCGAAGATGGTAGG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* *
1506222 TCCTGTCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* *
1506266 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CG-ACGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTA-G-A
* * * * ** *****
1506310 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* *
1506353 TCCTATATCCCTAAGTAGTAGTGGAGCAGGTCGAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* *
1506397 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGGCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
*
1506441 T-CTCATCTCCCTAAGCAGTAGTGGAGCAGGGT-AAAGATGGTAGA
1 TCCT-ATCTCCCTAAGCAGTAGTGGAGCA-GGTCGAAGATGGTAGA
* * * * *
1506485 TCCCATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGG-CGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAG-A
* * * * * ** *****
1506529 TCTTATCTTCCTAAGCAGTAATGAAGCAGATTTAAGCCACCA-A
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
1506572 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAG
1506608 TAGTGGAGCA
Statistics
Matches: 315, Mismatches: 60, Indels: 23
0.79 0.15 0.06
Matches are distributed among these distances:
42 1 0.00
43 67 0.21
44 242 0.77
45 4 0.01
46 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
Found at i:1506380 original size:87 final size:87
Alignment explanation
Indices: 1506162--1506425 Score: 280
Period size: 87 Copynumber: 3.0 Consensus size: 87
1506152 NNNNNNNNNN
* * * * * * *
1506162 AGATTTAAGCCACCAGTCCTATCTCCCTAAGCAATAGTGGAGTAGGTCGAAGATGGTAGGTCCTG
1 AGATTTAAGCCACCAGTCCTATATCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAGATCCTA
*
1506227 TCTCCCTAAGCAGTAGTGGAGC
66 TCTCCCTAAGCAGTAGTGAAGC
* ** ***** *
1506249 AGGTCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-G-ACGAATC
1 AGATTTAAGCCACCAG-TCCTATATCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTA-G-ATC
* *
1506312 TTATCTTCCTAAGCAGTAGTGAAGC
63 CTATCTCCCTAAGCAGTAGTGAAGC
* * *
1506337 AGATTTAAGCCACCAGTCCTATATCCCTAAGTAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTA
1 AGATTTAAGCCACCAGTCCTATATCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAGATCCTA
*
1506402 TCTCCCTAAGCAGTAGTGGAGC
66 TCTCCCTAAGCAGTAGTGAAGC
1506424 AG
1 AG
1506426 GGCAAAGATG
Statistics
Matches: 140, Mismatches: 32, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
86 1 0.01
87 71 0.51
88 67 0.48
89 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (87 bp):
AGATTTAAGCCACCAGTCCTATATCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAGATCCTA
TCTCCCTAAGCAGTAGTGAAGC
Found at i:1506453 original size:175 final size:174
Alignment explanation
Indices: 1506162--1506793 Score: 606
Period size: 175 Copynumber: 3.5 Consensus size: 174
1506152 NNNNNNNNNN
* * * * *
1506162 AGATTTAAGCCACCAGTCCTATCTCCCTAAGCAATAGTGGAGTAGGTCGAAGATGGTAGGTCCTG
1 AGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCGAAGATGGTAGATCCTA
*
1506227 TCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAG
66 TCTCCCTAAGCAGTAGTGGAGCAGGGCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAG
*
1506292 CAGATCGAAGACGACGAATCTTATCTTCCTAAGCAGTAGTGAAGC
131 CAGATCGAAGACG-CGAATCTTATCTTCCTAAGTAGTAGTGAAGC
* * *
1506337 AGATTTAAGCCACCAGTCCTATATCCCTAAGTAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTA
1 AGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCGAAGATGGTAGATCCTA
1506402 TCTCCCTAAGCAGTAGTGGAGCAGGGCAAAGATGGTAGAT-CTCATCTCCCTAAGCAGTAGTGGA
66 TCTCCCTAAGCAGTAGTGGAGCAGGGCAAAGATGGTAGATCCT-ATCTCCCTAAGCAGTAGTGGA
* * * ** * *
1506466 GCAGGGT-AAAGATG-GTAGATCCCATCTCCCTAAGTAGTAGTGGAGC
130 GCA-GATCGAAGACGCG-A-ATCTTATCTTCCTAAGTAGTAGTGAAGC
** ** * * * * * * ** *****
1506512 AGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAATGAAGCAGATTTAAGCCACCA-ATCCT
1 AGATTTAAG-CCACCAGTCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCGAAGATGGTAGATCCT
1506576 ATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGTAGTGGAGCAGGTCAAAGATGGTAGATCCTATC
65 ATCTCCCTAAGCAGTAGT-G-G-A-G-C----------AG--GG-CAAAGATGGTAGATCCTATC
1506641 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGTAGTAGTGAAGC
112 TCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-GCGAATCTTATCTTCCTAAGTAGTAGTGAAGC
* * * * * ** *
1506705 AGATTTAAGCCACTAGTCCTATCTCCCTGAGCAGCAGTGAAGTAGGTTGAAGATTTTAGATCTTA
1 AGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCGAAGATGGTAGATCCTA
* * *
1506770 TCTCTCTAAGCAATAGTAGAGCAG
66 TCTCCCTAAGCAGTAGTGGAGCAG
1506794 ATCGCATCCA
Statistics
Matches: 364, Mismatches: 65, Indels: 53
0.76 0.13 0.11
Matches are distributed among these distances:
173 1 0.00
174 3 0.01
175 180 0.49
176 34 0.09
177 1 0.00
178 3 0.01
179 1 0.00
180 1 0.00
188 1 0.00
189 1 0.00
190 3 0.01
191 1 0.00
192 36 0.10
193 93 0.26
194 4 0.01
195 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (174 bp):
AGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGAAGCAGGTCGAAGATGGTAGATCCTA
TCTCCCTAAGCAGTAGTGGAGCAGGGCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAG
CAGATCGAAGACGCGAATCTTATCTTCCTAAGTAGTAGTGAAGC
Found at i:1506557 original size:219 final size:219
Alignment explanation
Indices: 1506178--1506607 Score: 711
Period size: 219 Copynumber: 2.0 Consensus size: 219
1506168 AAGCCACCAG
* * * * *
1506178 TCCTATCTCCCTAAGCAATAGTGGAGTAGGTCGAAGATGGTAGGTCCTGTCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAATAGTGGAGCAGGGCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
*
1506243 TGGAGCAGGTCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACG
66 TGGAGCAGGTCAAAGATGGTAGATCCCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACG
* * *
1506308 AATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAGTCCTATATCCCTAAGTAGTA
131 AATCTTATCTTCCTAAGCAGTAATGAAGCAGATTTAAGCCACCAATCCTATATCCCTAAGCAGTA
1506373 GTGGAGCAGGTCGAAGATGGTAGA
196 GTGGAGCAGGTCGAAGATGGTAGA
*
1506397 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGGCAAAGATGGTAGAT-CTCATCTCCCTAAGCAGTA
1 TCCTATCTCCCTAAGCAATAGTGGAGCAGGGCAAAGATGGTAGATCCT-ATCTCCCTAAGCAGTA
* *
1506461 GTGGAGCAGGGT-AAAGATGGTAGATCCCATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGG
65 GTGGAGCA-GGTCAAAGATGGTAGATCCCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
*
1506525 CGAATCTTATCTTCCTAAGCAGTAATGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAGCAG
129 CGAATCTTATCTTCCTAAGCAGTAATGAAGCAGATTTAAGCCACCAATCCTATATCCCTAAGCAG
1506590 TAGTGGAGCAGGTCGAAG
194 TAGTGGAGCAGGTCGAAG
1506608 TAGTGGAGCA
Statistics
Matches: 196, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
218 2 0.01
219 191 0.97
220 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (219 bp):
TCCTATCTCCCTAAGCAATAGTGGAGCAGGGCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
TGGAGCAGGTCAAAGATGGTAGATCCCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACG
AATCTTATCTTCCTAAGCAGTAATGAAGCAGATTTAAGCCACCAATCCTATATCCCTAAGCAGTA
GTGGAGCAGGTCGAAGATGGTAGA
Found at i:1506685 original size:44 final size:44
Alignment explanation
Indices: 1506606--1506708 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
1506596 AGCAGGTCGA
* * *
1506606 AGTAGTGGAGCAGGTCAAAGATGGTAGATCCTATCTCCCTAAGC
1 AGTAGTGGAGCAGATCAAAGACGGGAGATCCTATCTCCCTAAGC
* * * *
1506650 AGTAGTGGAGCAGATCGAAGACGGCGA-ATCTTATCTTCCTAAGT
1 AGTAGTGGAGCAGATCAAAGACGG-GAGATCCTATCTCCCTAAGC
*
1506694 AGTAGTGAAGCAGAT
1 AGTAGTGGAGCAGAT
1506709 TTAAGCCACT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
44 49 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.23
Consensus pattern (44 bp):
AGTAGTGGAGCAGATCAAAGACGGGAGATCCTATCTCCCTAAGC
Found at i:1506727 original size:149 final size:149
Alignment explanation
Indices: 1506457--1506743 Score: 486
Period size: 149 Copynumber: 1.9 Consensus size: 149
1506447 CTCCCTAAGC
*
1506457 AGTAGTGGAGCAGGGTAAAGATGGTAGATCCCATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGA
1 AGTAGTGGAGCAGGGTAAAGATGGTAGATCCCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1506522 CGGCGAATCTTATCTTCCTAAGCAGTAATGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAG
66 CGGCGAATCTTATCTTCCTAAGCAGTAATGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAG
*
1506587 CAGTAGTGGAGCAGGTCGA
131 CAGCAGTGGAGCAGGTCGA
*
1506606 AGTAGTGGAGCA-GGTCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
1 AGTAGTGGAGCAGGGT-AAAGATGGTAGATCCCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
* * * * *
1506670 ACGGCGAATCTTATCTTCCTAAGTAGTAGTGAAGCAGATTTAAGCCACTAGTCCTATCTCCCTGA
65 ACGGCGAATCTTATCTTCCTAAGCAGTAATGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAA
1506735 GCAGCAGTG
130 GCAGCAGTG
1506744 AAGTAGGTTG
Statistics
Matches: 129, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
148 3 0.02
149 126 0.98
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (149 bp):
AGTAGTGGAGCAGGGTAAAGATGGTAGATCCCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
CGGCGAATCTTATCTTCCTAAGCAGTAATGAAGCAGATTTAAGCCACCAATCCTATCTCCCTAAG
CAGCAGTGGAGCAGGTCGA
Found at i:1507533 original size:15 final size:16
Alignment explanation
Indices: 1507500--1507536 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1507490 CTTCGTTTCG
1507500 TTTTTATCTTTATTAT
1 TTTTTATCTTTATTAT
1507516 TTTTTAT-TTTCATT-T
1 TTTTTATCTTT-ATTAT
1507531 TTTTTA
1 TTTTTA
1507537 CAAACGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTATCTTTATTAT
Found at i:1516370 original size:15 final size:16
Alignment explanation
Indices: 1516347--1516402 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
1516337 TTTTTATGTT
*
1516347 TTATATATATTATTTTA
1 TTATATATA-TATTATA
*
1516364 TTATATAATATAATATA
1 TTATAT-ATATATTATA
*
1516381 TTATAT-TGTATTATA
1 TTATATATATATTATA
1516396 TTATATA
1 TTATATA
1516403 AATTAAATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 13 0.39
17 17 0.52
18 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TTATATATATATTATA
Found at i:1516386 original size:5 final size:5
Alignment explanation
Indices: 1516347--1516401 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
1516337 TTTTTATGTT
* *
1516347 TTATA -TATA TTAT- TT-TA TTATA TAATATA ATATA TTATA TTGTA TTATA
1 TTATA TTATA TTATA TTATA TTATA T--TATA TTATA TTATA TTATA TTATA
1516396 TTATA T
1 TTATA T
1516402 AAATTAAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 1 0.02
4 8 0.20
5 28 0.68
7 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:1516387 original size:27 final size:29
Alignment explanation
Indices: 1516348--1516403 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 29
1516338 TTTTATGTTT
*
1516348 TATATATATTATTTTATTATATAATATAA
1 TATATATATTATTGTATTATATAATATAA
*
1516377 TATAT-TA-TATTGTATTATATTATATAA
1 TATATATATTATTGTATTATATAATATAA
1516404 ATTAAATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 18 0.72
28 2 0.08
29 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (29 bp):
TATATATATTATTGTATTATATAATATAA
Found at i:1519696 original size:6 final size:6
Alignment explanation
Indices: 1519685--1519901 Score: 113
Period size: 6 Copynumber: 33.8 Consensus size: 6
1519675 AAGCCACCCC
*
1519685 ATTTTT ATTTTTT ATTTTT ATTTTTT ATTTTCT A-TTAT ATTTTTT ATTTTT
1 ATTTTT A-TTTTT ATTTTT A-TTTTT ATTTT-T ATTTTT A-TTTTT ATTTTT
*
1519736 ATTTTT ATTTTT ATTTTATT ATTTTACT ATTTTTT AATTTTTT ACCTTTT
1 ATTTTT ATTTTT A-TTT-TT ATTTT--T A-TTTTT -A-TTTTT A-TTTTT
* *
1519786 ATTTTT GTTTTT ATTTTTT ATTTTT -TTATT -TTTTT ATTTTT -TTATTT
1 ATTTTT ATTTTT A-TTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATT-TTT
* * *
1519833 -TTTATT ATTCTTAT ACTTAT ATTTTAA ATTTATT -TTTTT ATTTTTT
1 ATTT-TT ATT-TT-T ATTTTT ATTTT-T ATTT-TT ATTTTT A-TTTTT
* * * *
1519879 ATCTTT CTTTTT AATTTT GTTTT
1 ATTTTT ATTTTT ATTTTT ATTTT
1519902 AGTTGCTTTA
Statistics
Matches: 167, Mismatches: 22, Indels: 44
0.72 0.09 0.19
Matches are distributed among these distances:
5 15 0.09
6 80 0.48
7 51 0.31
8 17 0.10
9 4 0.02
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:1519698 original size:7 final size:7
Alignment explanation
Indices: 1519686--1519838 Score: 142
Period size: 7 Copynumber: 22.1 Consensus size: 7
1519676 AGCCACCCCA
1519686 TTTTTAT
1 TTTTTAT
1519693 TTTTTA-
1 TTTTTAT
1519699 TTTTTAT
1 TTTTTAT
1519706 TTTTTAT
1 TTTTTAT
*
1519713 TTTCTA-
1 TTTTTAT
*
1519719 -TTATAT
1 TTTTTAT
1519725 TTTTTA-
1 TTTTTAT
1519731 TTTTTA-
1 TTTTTAT
1519737 TTTTTA-
1 TTTTTAT
1519743 TTTTTAT
1 TTTTTAT
1519750 TTTATTAT
1 TTT-TTAT
*
1519758 TTTACTAT
1 TTT-TTAT
1519766 TTTTTAAT
1 TTTTT-AT
*
1519774 TTTTTAC
1 TTTTTAT
*
1519781 CTTTTA-
1 TTTTTAT
*
1519787 TTTTT-G
1 TTTTTAT
1519793 TTTTTAT
1 TTTTTAT
1519800 TTTTTATT
1 TTTTTA-T
1519808 TTTTTATT
1 TTTTTA-T
1519816 TTTTTATT
1 TTTTTA-T
1519824 TTTTTAT
1 TTTTTAT
1519831 TTTTTAT
1 TTTTTAT
1519838 T
1 T
1519839 ATTCTTATAC
Statistics
Matches: 128, Mismatches: 9, Indels: 18
0.83 0.06 0.12
Matches are distributed among these distances:
5 4 0.03
6 33 0.26
7 47 0.37
8 44 0.34
ACGTcount: A:0.16, C:0.03, G:0.01, T:0.80
Consensus pattern (7 bp):
TTTTTAT
Found at i:1519749 original size:50 final size:49
Alignment explanation
Indices: 1519686--1519901 Score: 174
Period size: 51 Copynumber: 4.3 Consensus size: 49
1519676 AGCCACCCCA
*
1519686 TTTTTATTTTT-TATTTTTATTTTTTATT-TTCTATTATATTTTTTATTTTTA
1 TTTTTATTTTTAT-TTTTTA-TTTTTATTATT-T-TTTTATTTTTTATTTTTA
* * *
1519737 TTTTTATTTTTATTTTATTA-TTTTACTATTTTTTAATTTTTTACCTTTTA
1 TTTTTATTTTTATTTT-TTATTTTTATTATTTTTTTATTTTTTA-TTTTTA
*
1519787 TTTTTGTTTTTATTTTTTATTTTT-TTATTTTTTTATTTTTT-TATTTT-
1 TTTTTATTTTTATTTTTTATTTTTATTATTTTTTTATTTTTTAT-TTTTA
* * * * * * *
1519834 TTATTATTCTTATACTTATATTTTAAATTTATTTTTTTATTTTTTATCTTTC
1 TTTTTATTTTTAT-TTTTTATTTT-TA-TTATTTTTTTATTTTTTATTTTTA
* *
1519886 TTTTTAATTTTGTTTT
1 TTTTTATTTTTATTTT
1519902 AGTTGCTTTA
Statistics
Matches: 133, Mismatches: 20, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
47 10 0.08
48 12 0.09
49 28 0.21
50 31 0.23
51 38 0.29
52 14 0.11
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.78
Consensus pattern (49 bp):
TTTTTATTTTTATTTTTTATTTTTATTATTTTTTTATTTTTTATTTTTA
Found at i:1519761 original size:57 final size:57
Alignment explanation
Indices: 1519685--1519840 Score: 185
Period size: 57 Copynumber: 2.7 Consensus size: 57
1519675 AAGCCACCCC
*
1519685 ATTTTTATTTT-TTATTTTTATTTTTTATTTTCTATTATATTTTTTATTTTTATTTTT
1 ATTTTTATTTTATTATTTTTATTTTTTATTTTTTATTATA-TTTTTATTTTTATTTTT
* *
1519742 ATTTTTATTTTATTATTTTACTATTTTTTAATTTTTTACCTTTTATTTTTGTTTTTATTTTT
1 ATTTTTATTTTATTATTTT--TATTTTTT-ATTTTTTA--TTATATTTTTATTTTTATTTTT
*
1519804 -TATTT-TTTTATT-TTTTTATTTTTTTATTTTTTATTAT
1 ATTTTTATTTTATTATTTTTA-TTTTTTATTTTTTATTAT
1519841 TCTTATACTT
Statistics
Matches: 87, Mismatches: 5, Indels: 16
0.81 0.05 0.15
Matches are distributed among these distances:
55 3 0.03
57 21 0.24
58 13 0.15
59 4 0.05
60 15 0.17
61 11 0.13
62 16 0.18
63 4 0.05
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.79
Consensus pattern (57 bp):
ATTTTTATTTTATTATTTTTATTTTTTATTTTTTATTATATTTTTATTTTTATTTTT
Found at i:1528748 original size:46 final size:44
Alignment explanation
Indices: 1528358--1528818 Score: 263
Period size: 44 Copynumber: 10.5 Consensus size: 44
1528348 ACGAATATTT
* * *
1528358 GGTTACAGTGGAGCAGATTGAAG-CT-AGTAATCCTATCTCCCTGA
1 GGTTACAGTGGAGCAGATCGAAGAATCAG--ATCTTATCTCCCTGA
* * * * *
1528402 GATTACAGTGGAGCGGAT-TAA-AATAAAGGATCTTATCTCTCTGA
1 GGTTACAGTGGAGCAGATCGAAGAAT-CA-GATCTTATCTCCCTGA
* ** * * *
1528446 AGTTACAGCAGAGTAGATC---GCATCAGGTCTTATCTCCCTGA
1 GGTTACAGTGGAGCAGATCGAAGAATCAGATCTTATCTCCCTGA
* *
1528487 GGTTACAGTGGAGTAGATCGAAGAATTTCAAATCTTATCTCCCTGA
1 GGTTACAGTGGAGCAGATCGAAGAA--TCAGATCTTATCTCCCTGA
* * * *
1528533 GGTTACGGTGGAGCAGATTGAAGCCA-GAGATCTTATCTCCCTGA
1 GGTTACAGTGGAGCAGATCGAAG-AATCAGATCTTATCTCCCTGA
* * * * * *
1528577 GATTACAGCGGAGCAGATCCAAG-A-CACTATCCTATCTCGCTGA
1 GGTTACAGTGGAGCAGATCGAAGAATCA-GATCTTATCTCCCTGA
* * * * * *
1528620 AGTTACAGTGGAGCGGAT-TAA-AATAAAGGATCTCATCTCTCTGA
1 GGTTACAGTGGAGCAGATCGAAGAAT-CA-GATCTTATCTCCCTGA
* * ** * *
1528664 AGTTACAGTAGAATAGATC---GCATCATG-TCTTATTTCCCTGA
1 GGTTACAGTGGAGCAGATCGAAGAATCA-GATCTTATCTCCCTGA
* *
1528705 GGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
1 GGTTACAGTGGAGCAGATCGAAGAA--TCAGATCTTATCTCCCTGA
* * *
1528751 GGTTACAGTGGAGCAGATTGAAGCCA-GAGATCTTATCTCCCTGA
1 GGTTACAGTGGAGCAGATCGAAG-AATCAGATCTTATCTCCCTGA
* * *
1528795 GATTACAGCGGAGCAGATCCAAGA
1 GGTTACAGTGGAGCAGATCGAAGA
1528819 CACTATCCAG
Statistics
Matches: 318, Mismatches: 74, Indels: 51
0.72 0.17 0.12
Matches are distributed among these distances:
41 56 0.18
42 8 0.03
43 34 0.11
44 142 0.45
45 2 0.01
46 74 0.23
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
GGTTACAGTGGAGCAGATCGAAGAATCAGATCTTATCTCCCTGA
Found at i:1528765 original size:218 final size:213
Alignment explanation
Indices: 1528387--1528896 Score: 825
Period size: 218 Copynumber: 2.4 Consensus size: 213
1528377 GAAGCTAGTA
1528387 ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
1 ATCCTATCT-CCTGAG-TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
* *
1528452 AGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTTCA
64 AGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
*
1528517 AATCTTATCTCCCTGAGGTTACGGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
129 AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTA
1528582 CAGCGGAGCAGATCCAAGACAC
194 CAGCGGAGCAGATCCAAG--AC
*
1528604 TATCCTATCTCGCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTA
1 -ATCCTATCTC-CTG-AGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTA
* * *
1528669 CAGTAGAATAGATCGCATCATGTCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
63 CAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
*
1528734 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATT
128 AAATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATT
1528799 ACAGCGGAGCAGATCCAAGAC
193 ACAGCGGAGCAGATCCAAGAC
*
1528820 A--CTA--TCC--AGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAG
1 ATCCTATCTCCTGAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAG
*
1528879 TAGAGTAGATCACATCAG
66 TAGAGTAGATCGCATCAG
1528897 ATTGAAGCCG
Statistics
Matches: 277, Mismatches: 13, Indels: 15
0.91 0.04 0.05
Matches are distributed among these distances:
207 65 0.23
210 1 0.00
211 2 0.01
213 3 0.01
215 1 0.00
216 2 0.01
217 1 0.00
218 200 0.72
219 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (213 bp):
ATCCTATCTCCTGAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAG
TAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAAA
TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACA
GCGGAGCAGATCCAAGAC
Found at i:1529164 original size:43 final size:43
Alignment explanation
Indices: 1529060--1529156 Score: 185
Period size: 43 Copynumber: 2.3 Consensus size: 43
1529050 CTGACGTAGC
*
1529060 AGTGGATTGAAACTACAAACCGTATCTCTTTGAAGTGCGGTGG
1 AGTGGATTGAAACTACAAGCCGTATCTCTTTGAAGTGCGGTGG
1529103 AGTGGATTGAAACTACAAGCCGTATCTCTTTGAAGTGCGGTGG
1 AGTGGATTGAAACTACAAGCCGTATCTCTTTGAAGTGCGGTGG
1529146 AGTGGATTGAA
1 AGTGGATTGAA
1529157 GCAACAAGAC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (43 bp):
AGTGGATTGAAACTACAAGCCGTATCTCTTTGAAGTGCGGTGG
Found at i:1530570 original size:3 final size:3
Alignment explanation
Indices: 1530562--1530641 Score: 65
Period size: 3 Copynumber: 25.7 Consensus size: 3
1530552 TTTAGTCCCG
* * *
1530562 TTA TTA TTA TTA TTA TTA -AA CTAA TCA GTT- TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA
*
1530607 TTA TTA TTA TTGCA TTTA TTA TTA TAA TTA TTA TT
1 TTA TTA TTA TT--A -TTA TTA TTA TTA TTA TTA TT
1530642 TACCCATTTA
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
2 3 0.05
3 55 0.85
4 4 0.06
5 1 0.02
6 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:1530649 original size:27 final size:27
Alignment explanation
Indices: 1530595--1530652 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
1530585 ATCAGTTTTA
* **
1530595 TTATTATTATTATTATTATTATTGCAT
1 TTATTATTATAATTATTATTATCCCAT
1530622 TTATTATTATAATTATTATT-TACCCAT
1 TTATTATTATAATTATTATTAT-CCCAT
1530649 TTAT
1 TTAT
1530653 ACCGTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (27 bp):
TTATTATTATAATTATTATTATCCCAT
Found at i:1530701 original size:23 final size:21
Alignment explanation
Indices: 1530657--1530699 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1530647 ATTTATACCG
1530657 TTTTTTAGATTTTGTTATATA
1 TTTTTTAGATTTTGTTATATA
1530678 TTTTTTAGATTTTGTTATATA
1 TTTTTTAGATTTTGTTATATA
1530699 T
1 T
1530700 ATACATACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.67
Consensus pattern (21 bp):
TTTTTTAGATTTTGTTATATA
Found at i:1530713 original size:16 final size:16
Alignment explanation
Indices: 1530692--1530731 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
1530682 TTAGATTTTG
*
1530692 TTATATATATACATAC
1 TTATATATATACACAC
1530708 TTATATATATACACAC
1 TTATATATATACACAC
*
1530724 TTACATAT
1 TTATATAT
1530732 TTCTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (16 bp):
TTATATATATACACAC
Found at i:1540039 original size:26 final size:26
Alignment explanation
Indices: 1540003--1540055 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
1539993 TTTTAAAAAT
*
1540003 ATTTTTTTAAT-ATTTGAATATTTTAA
1 ATTTTTATAATAATTT-AATATTTTAA
*
1540029 ATTTTTATAATAATTTTATATTTTAA
1 ATTTTTATAATAATTTAATATTTTAA
1540055 A
1 A
1540056 ATGAAATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTTTTATAATAATTTAATATTTTAA
Found at i:1552266 original size:25 final size:24
Alignment explanation
Indices: 1552226--1552272 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
1552216 TCAGCTTTTA
1552226 ATTAATTTTTTAAATTTAAAAAAG
1 ATTAATTTTTTAAATTTAAAAAAG
* *
1552250 ATTAACTTTTTTTAATTTTAAAA
1 ATTAA-TTTTTTAAATTTAAAAA
1552273 TAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
ATTAATTTTTTAAATTTAAAAAAG
Found at i:1552281 original size:27 final size:26
Alignment explanation
Indices: 1552231--1552294 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
1552221 TTTTAATTAA
*
1552231 TTTTTTAAATTTAAAAAAGATTAA-C
1 TTTTTTAATTTTAAAAAAGATTAATC
**
1552256 TTTTTTTAATTTTAAAATAATTTTAATGC
1 -TTTTTTAATTTTAAAA-AAGATTAAT-C
1552285 TTTTTTAATT
1 TTTTTTAATT
1552295 ATTTAAAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 15 0.47
27 6 0.19
28 10 0.31
29 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (26 bp):
TTTTTTAATTTTAAAAAAGATTAATC
Found at i:1558124 original size:6 final size:6
Alignment explanation
Indices: 1558113--1558138 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1558103 CGCCTGAGCC
1558113 GCGTCG GCGTCG GCGTCG GCGTCG GC
1 GCGTCG GCGTCG GCGTCG GCGTCG GC
1558139 CTGTTTACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.50, T:0.15
Consensus pattern (6 bp):
GCGTCG
Found at i:1558496 original size:153 final size:149
Alignment explanation
Indices: 1558316--1558599 Score: 347
Period size: 153 Copynumber: 1.9 Consensus size: 149
1558306 ATTTAATCAC
* *** * * *
1558316 TTTAAATAATATAATTGTACGAATTATTTGTTGTTGATAACATTTTTATCTAT-TTTTAACAGAT
1 TTTAAATAAGATAATTGTACGAATTATTTACCGTTCATAACATTTTCAT-TATCTTTTAACAAAT
* * * * *
1558380 TGCTACATGGCACATTAGCTCATTGATTGAC-TGATATGTGATATTTTTTTATTGACTTTTGACT
65 TACTACATGGCACATTAGCTCAATGAATGACATG-TA---G-TACTTTTTTATTGACTTTTAACT
1558444 AAAGTTTAGTGATCACTCTATAAAA
125 AAAGTTTAGTGATCACTCTATAAAA
* * * * *
1558469 TTTAAATAAGATGATTGTGCGAATTATTTACCGTTCTTAACATTTTCGTTTTCTTTTAACAAATT
1 TTTAAATAAGATAATTGTACGAATTATTTACCGTTCATAACATTTTCATTATCTTTTAACAAATT
1558534 ACTACATGGCACATTAGCTCAATGAATGACATGTAGTACTTTTTTATTGACTTTTAACTAAAGTT
66 ACTACATGGCACATTAGCTCAATGAATGACATGTAGTACTTTTTTATTGACTTTTAACTAAAGTT
1558599 T
131 T
1558600 TAGACTAATT
Statistics
Matches: 112, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
149 28 0.25
150 1 0.01
152 2 0.02
153 79 0.71
154 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (149 bp):
TTTAAATAAGATAATTGTACGAATTATTTACCGTTCATAACATTTTCATTATCTTTTAACAAATT
ACTACATGGCACATTAGCTCAATGAATGACATGTAGTACTTTTTTATTGACTTTTAACTAAAGTT
TAGTGATCACTCTATAAAA
Found at i:1564345 original size:345 final size:345
Alignment explanation
Indices: 1563714--1564394 Score: 1362
Period size: 345 Copynumber: 2.0 Consensus size: 345
1563704 AAGCAAATGT
1563714 GAAAAATAGTAACAAAATTAACAATAAAACAAGAGTTATACAACATCCAAATAATAAAAAAAATA
1 GAAAAATAGTAACAAAATTAACAATAAAACAAGAGTTATACAACATCCAAATAATAAAAAAAATA
1563779 GTAACAACATAATTGTGAAACGGTAGCAAAATAGTGAAAAAAAGAGAGAAGAAAATGATAAAAAA
66 GTAACAACATAATTGTGAAACGGTAGCAAAATAGTGAAAAAAAGAGAGAAGAAAATGATAAAAAA
1563844 AAACTGAAAAAAAAGTAATAAAAAAACAAATTTTTTGTTTTCATATTCGGGCCGAGCTCGGGCTA
131 AAACTGAAAAAAAAGTAATAAAAAAACAAATTTTTTGTTTTCATATTCGGGCCGAGCTCGGGCTA
1563909 AAAAACCTTATTCGAGGCCCAGTCCGTTTTCCAAATGGGTCTTATTTTTTTGTCCAAGCCCATTT
196 AAAAACCTTATTCGAGGCCCAGTCCGTTTTCCAAATGGGTCTTATTTTTTTGTCCAAGCCCATTT
1563974 TTCTAGCGAACTAGCGAGCATTCGAGTAAGATGGCCCAACCCATGGACAAGTATAATCCTATTGT
261 TTCTAGCGAACTAGCGAGCATTCGAGTAAGATGGCCCAACCCATGGACAAGTATAATCCTATTGT
1564039 ATTCAATTATTAACAAGCAA
326 ATTCAATTATTAACAAGCAA
1564059 GAAAAATAGTAACAAAATTAACAATAAAACAAGAGTTATACAACATCCAAATAATAAAAAAAATA
1 GAAAAATAGTAACAAAATTAACAATAAAACAAGAGTTATACAACATCCAAATAATAAAAAAAATA
1564124 GTAACAACATAATTGTGAAACGGTAGCAAAATAGTGAAAAAAAGAGAGAAGAAAATGATAAAAAA
66 GTAACAACATAATTGTGAAACGGTAGCAAAATAGTGAAAAAAAGAGAGAAGAAAATGATAAAAAA
1564189 AAACTGAAAAAAAAGTAATAAAAAAACAAATTTTTTGTTTTCATATTCGGGCCGAGCTCGGGCTA
131 AAACTGAAAAAAAAGTAATAAAAAAACAAATTTTTTGTTTTCATATTCGGGCCGAGCTCGGGCTA
1564254 AAAAACCTTATTCGAGGCCCAGTCCGTTTTCCAAATGGGTCTTATTTTTTTGTCCAAGCCCATTT
196 AAAAACCTTATTCGAGGCCCAGTCCGTTTTCCAAATGGGTCTTATTTTTTTGTCCAAGCCCATTT
1564319 TTCTAGCGAACTAGCGAGCATTCGAGTAAGATGGCCCAACCCATGGACAAGTATAATCCTATTGT
261 TTCTAGCGAACTAGCGAGCATTCGAGTAAGATGGCCCAACCCATGGACAAGTATAATCCTATTGT
1564384 ATTCAATTATT
326 ATTCAATTATT
1564395 CTTGAGTTAA
Statistics
Matches: 336, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
345 336 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (345 bp):
GAAAAATAGTAACAAAATTAACAATAAAACAAGAGTTATACAACATCCAAATAATAAAAAAAATA
GTAACAACATAATTGTGAAACGGTAGCAAAATAGTGAAAAAAAGAGAGAAGAAAATGATAAAAAA
AAACTGAAAAAAAAGTAATAAAAAAACAAATTTTTTGTTTTCATATTCGGGCCGAGCTCGGGCTA
AAAAACCTTATTCGAGGCCCAGTCCGTTTTCCAAATGGGTCTTATTTTTTTGTCCAAGCCCATTT
TTCTAGCGAACTAGCGAGCATTCGAGTAAGATGGCCCAACCCATGGACAAGTATAATCCTATTGT
ATTCAATTATTAACAAGCAA
Found at i:1570266 original size:3 final size:3
Alignment explanation
Indices: 1570258--1570286 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1570248 ATGTTGGAAA
1570258 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1570287 GAAATTCACC
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1574319 original size:32 final size:32
Alignment explanation
Indices: 1574276--1574342 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
1574266 CATTACATTT
*
1574276 CAGTCCGGTGTCGCCTGTAGCAGGCCCTCCAC
1 CAGTCCAGTGTCGCCTGTAGCAGGCCCTCCAC
* *
1574308 CAGTCCAGTGTCGTCTGTGGCAGGCCCTCCAC
1 CAGTCCAGTGTCGCCTGTAGCAGGCCCTCCAC
1574340 CAG
1 CAG
1574343 GCTGTCATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.13, C:0.39, G:0.28, T:0.19
Consensus pattern (32 bp):
CAGTCCAGTGTCGCCTGTAGCAGGCCCTCCAC
Found at i:1574428 original size:11 final size:10
Alignment explanation
Indices: 1574393--1574430 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
1574383 ATTAATACTA
*
1574393 TTTTGGTATT
1 TTTTTGTATT
1574403 TTTTT-TATT
1 TTTTTGTATT
1574412 TTTTTGTATT
1 TTTTTGTATT
1574422 ATTTTTGTA
1 -TTTTTGTA
1574431 AAATACCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 9 0.36
10 8 0.32
11 8 0.32
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.76
Consensus pattern (10 bp):
TTTTTGTATT
Found at i:1576745 original size:6 final size:6
Alignment explanation
Indices: 1576734--1576762 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1576724 TAACTTTCTT
1576734 ATATAA ATATAA ATATAA ATATAA ATATA
1 ATATAA ATATAA ATATAA ATATAA ATATA
1576763 GTATAACTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAA
Found at i:1579606 original size:84 final size:84
Alignment explanation
Indices: 1579518--1579707 Score: 335
Period size: 84 Copynumber: 2.3 Consensus size: 84
1579508 TAAGGAAGTT
* * *
1579518 TATTAATTATAATTTATTAAATAAAGATTATCTTAGTTAAAATATTATTTTAATAAAATGTTTAA
1 TATTAATTATATTTTATTAAATAAAAATAATCTTAGTTAAAATATTATTTTAATAAAATGTTTAA
1579583 ATTTCACATGAAAAAAATC
66 ATTTCACATGAAAAAAATC
*
1579602 TATTAATTATATTTTATTAAATAAAAATAATTTTAGTTAAAATATTATTTTAATAAAATGTTTAA
1 TATTAATTATATTTTATTAAATAAAAATAATCTTAGTTAAAATATTATTTTAATAAAATGTTTAA
1579667 ATTTCACATGAAAAAAATC
66 ATTTCACATGAAAAAAATC
*
1579686 TATTAATTATATTTTGTTAAAT
1 TATTAATTATATTTTATTAAAT
1579708 GAAATAAGCT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 101 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (84 bp):
TATTAATTATATTTTATTAAATAAAAATAATCTTAGTTAAAATATTATTTTAATAAAATGTTTAA
ATTTCACATGAAAAAAATC
Found at i:1580636 original size:22 final size:22
Alignment explanation
Indices: 1580610--1580652 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1580600 TAAAAATAAG
*
1580610 AATAAAAACTCACTTTCTTTAC
1 AATAAAAACCCACTTTCTTTAC
**
1580632 AATAACTACCCACTTTCTTTA
1 AATAAAAACCCACTTTCTTTA
1580653 AAACAATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (22 bp):
AATAAAAACCCACTTTCTTTAC
Found at i:1583435 original size:41 final size:43
Alignment explanation
Indices: 1583363--1583449 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 43
1583353 CACTTTCCCA
** * *
1583363 CATTGCCTCAAACCTCTCCACTTAATGACAAATTCAACT-AAT
1 CATTGCCTCAAACCTCTCCACTTAAACACAAACTCAAATCAAT
*
1583405 CATTGCC-CAAACTTC-CCACTTCAAACACAAACTCAAATCAAT
1 CATTGCCTCAAACCTCTCCACTT-AAACACAAACTCAAATCAAT
1583447 CAT
1 CAT
1583450 CTTACCATCA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
40 6 0.16
41 19 0.50
42 13 0.34
ACGTcount: A:0.38, C:0.33, G:0.03, T:0.25
Consensus pattern (43 bp):
CATTGCCTCAAACCTCTCCACTTAAACACAAACTCAAATCAAT
Found at i:1591235 original size:2 final size:2
Alignment explanation
Indices: 1591228--1591257 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1591218 TCCCTCTTGT
1591228 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
1591258 CACTTTATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1595431 original size:16 final size:16
Alignment explanation
Indices: 1595380--1595424 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
1595370 GGGTGAGAAG
1595380 TAAAAGTTTATGGGGAAAA
1 TAAAAGTTT-TGGGG--AA
1595399 TAAAAAGTTTTGGGGAA
1 T-AAAAGTTTTGGGGAA
1595416 TAAAAGTTT
1 TAAAAGTTT
1595425 GAGGGAAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 8 0.32
17 3 0.12
19 6 0.24
20 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.31
Consensus pattern (16 bp):
TAAAAGTTTTGGGGAA
Found at i:1599384 original size:46 final size:46
Alignment explanation
Indices: 1599331--1600929 Score: 3108
Period size: 46 Copynumber: 34.8 Consensus size: 46
1599321 ACATTGCTAT
* *
1599331 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
1599377 AACTCAGTATGGTTTTCCTCACTGAAACACCATACCTACTTTTCAT
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
1599423 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* *
1599469 AAATCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
1599515 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
1599561 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
*
1599607 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1599653 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1599699 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1599745 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1599791 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1599837 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1599883 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1599929 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1599975 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600021 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600067 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600113 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600159 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600205 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600251 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600297 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600343 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600389 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600435 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600481 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600527 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600573 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600619 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600665 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600711 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600757 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600803 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600849 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1600895 AACTCAGTATGGTTTTCTTCACTGAAACACCATAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATAC
1600930 TGAAATTTTA
Statistics
Matches: 1543, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 1543 1.00
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:1602543 original size:193 final size:193
Alignment explanation
Indices: 1602209--1602594 Score: 727
Period size: 193 Copynumber: 2.0 Consensus size: 193
1602199 CCATCGATAG
1602209 CCTTCATACTTATAGACCAAGGATTAGGTCCTATATTTTAGATTTTTATGCACAACGGGATTATG
1 CCTTCATACTTATAGACCAAGGATTAGGTCCTATATTTTAGATTTTTATGCACAACGGGATTATG
*
1602274 TGAAAAGGCTTGTACATGCTAGTGACGAGACATGTATTGAACAAGTTAGGATGAATAGATTTGTC
66 TGAAAAGGCTTGTACATGCTAGTGACGAGACATGTATTGAACAAGTTAGGATGAATAGATTTGCC
1602339 TTTTTCAAACTATGTGAGATGTTACAAACGTTAGGGGGATTGAAGTCGTCAAGGCACATGCTT
131 TTTTTCAAACTATGTGAGATGTTACAAACGTTAGGGGGATTGAAGTCGTCAAGGCACATGCTT
* *
1602402 CCTTTATACTTATAGACCAAGGATTAGGTCCTATATTTTAGATTTTTATGCACAATGGGATTATG
1 CCTTCATACTTATAGACCAAGGATTAGGTCCTATATTTTAGATTTTTATGCACAACGGGATTATG
* *
1602467 TGAAAAGGCTTGTACATGCTAGTGACGAGACCTGTCTTGAACAAGTTAGGATGAATAGATTTGCC
66 TGAAAAGGCTTGTACATGCTAGTGACGAGACATGTATTGAACAAGTTAGGATGAATAGATTTGCC
1602532 TTTTTCAAACTATGTGAGATGTTACAAACGTTAGGGGGATTGAAGTCGTCAAGGCACATGCTT
131 TTTTTCAAACTATGTGAGATGTTACAAACGTTAGGGGGATTGAAGTCGTCAAGGCACATGCTT
1602595 GTTGATGAGC
Statistics
Matches: 188, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
193 188 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (193 bp):
CCTTCATACTTATAGACCAAGGATTAGGTCCTATATTTTAGATTTTTATGCACAACGGGATTATG
TGAAAAGGCTTGTACATGCTAGTGACGAGACATGTATTGAACAAGTTAGGATGAATAGATTTGCC
TTTTTCAAACTATGTGAGATGTTACAAACGTTAGGGGGATTGAAGTCGTCAAGGCACATGCTT
Found at i:1605333 original size:32 final size:31
Alignment explanation
Indices: 1605278--1605348 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
1605268 TGTATTGCAG
*
1605278 TTTAATAATAATAAAGTAGATTATAAATTATA
1 TTTAATAATAATAAAGTAAATTAT-AATTATA
* ** *
1605310 TTTAATAATAATTATTTAAATTATATTTATA
1 TTTAATAATAATAAAGTAAATTATAATTATA
1605341 -TTAATAAT
1 TTTAATAAT
1605349 CTTATTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 8 0.24
31 6 0.18
32 20 0.59
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (31 bp):
TTTAATAATAATAAAGTAAATTATAATTATA
Found at i:1605486 original size:39 final size:42
Alignment explanation
Indices: 1605441--1605542 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 42
1605431 TTTCCTTATG
*
1605441 CTATTACACCTCTATTC-CATTCAACCAAACACAAGAA-TAC
1 CTATTACACCTCTATTCACATTCAACCAAACAAAAGAATTAC
1605481 C-ATTACACCTCTATTTCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACACCTCTA-TTC---ACATTCAACCAAACAAAAGAATTAC
* *
1605526 CTATTACGCTTCTATTC
1 CTATTACACCTCTATTC
1605543 TATTACGCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
39 12 0.23
40 4 0.08
44 19 0.37
45 7 0.13
46 10 0.19
ACGTcount: A:0.37, C:0.29, G:0.03, T:0.30
Consensus pattern (42 bp):
CTATTACACCTCTATTCACATTCAACCAAACAAAAGAATTAC
Found at i:1605547 original size:16 final size:16
Alignment explanation
Indices: 1605526--1605564 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
1605516 AAAGAATTAC
*
1605526 CTATTACGCTTCTATT
1 CTATTACGCCTCTATT
1605542 CTATTACGCCTCTATT
1 CTATTACGCCTCTATT
*
1605558 CCATTAC
1 CTATTAC
1605565 AGCGAACCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.21, C:0.31, G:0.05, T:0.44
Consensus pattern (16 bp):
CTATTACGCCTCTATT
Found at i:1605898 original size:23 final size:24
Alignment explanation
Indices: 1605836--1605898 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
1605826 TATTCGAATT
*
1605836 ATTCGAGTT-ATTCGAATTCGAAA
1 ATTCGAGTTGATTCGAACTCGAAA
* * * *
1605859 ACTCAACTCGATTCGAACTCG-AA
1 ATTCGAGTTGATTCGAACTCGAAA
1605882 ATTCGAGTTGATTCGAA
1 ATTCGAGTTGATTCGAA
1605899 TAACTCAATT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (24 bp):
ATTCGAGTTGATTCGAACTCGAAA
Found at i:1606456 original size:34 final size:31
Alignment explanation
Indices: 1606396--1606457 Score: 79
Period size: 34 Copynumber: 1.9 Consensus size: 31
1606386 AATATCCCAA
**
1606396 TAACTTAAATAAAAACTTTTGGATAGTTTAG
1 TAACTTAAATAAAAACTTTTAAATAGTTTAG
1606427 TAACTTAAATAAAAAGAACTTTTAAATAGTT
1 TAACTTAAAT--AAA-AACTTTTAAATAGTT
1606458 CGGTGACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 10 0.38
33 3 0.12
34 13 0.50
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (31 bp):
TAACTTAAATAAAAACTTTTAAATAGTTTAG
Found at i:1607501 original size:22 final size:22
Alignment explanation
Indices: 1607451--1607494 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1607441 TTGCAGAGGT
1607451 AATTTCTGCTTCTTCTTCCATC
1 AATTTCTGCTTCTTCTTCCATC
1607473 AATTTCTGCTTCTTCTTCCATC
1 AATTTCTGCTTCTTCTTCCATC
1607495 GTTTTCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.32, G:0.05, T:0.50
Consensus pattern (22 bp):
AATTTCTGCTTCTTCTTCCATC
Found at i:1620145 original size:16 final size:18
Alignment explanation
Indices: 1620109--1620146 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1620099 CTGTTTTTTT
*
1620109 AAATTTTTTTCAAATATA
1 AAATTATTTTCAAATATA
1620127 AAATTATTTT-AAA-ATA
1 AAATTATTTTCAAATATA
1620143 AAAT
1 AAAT
1620147 AGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 3 0.16
18 9 0.47
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATTATTTTCAAATATA
Found at i:1620147 original size:23 final size:23
Alignment explanation
Indices: 1620120--1620163 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1620110 AATTTTTTTC
*
1620120 AAATATAAAATTA-TTTTAAAATA
1 AAATAGAAAA-TATTTTTAAAATA
1620143 AAATAGAAAATATTTTTAAAA
1 AAATAGAAAATATTTTTAAAA
1620164 ACCAAACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATAGAAAATATTTTTAAAATA
Found at i:1623343 original size:137 final size:138
Alignment explanation
Indices: 1623188--1623463 Score: 545
Period size: 137 Copynumber: 2.0 Consensus size: 138
1623178 AAAATTTATA
1623188 AATAGTCTTAATAAAATAAAAATAAAATATATATTATAACTAAATAAAAATAATTTTTAAAGTTT
1 AATAGTCTTAATAAAATAAAAATAAAATATATATTATAACTAAATAAAAATAATTTTTAAAGTTT
1623253 AAGTTATTCATTTTATAGTGGAACCATATGTATTAAATCAAATAAAATTATGAGAAAATTTGAAA
66 AAGTTATTCATTTTATAGTGGAACCATATGTATTAAATCAAATAAAATTATGAGAAAATTTGAAA
1623318 AAACACCT
131 AAACACCT
1623326 AATAGTCTTAA-AAAATAAAAATAAAATATATATTATAACTAAATAAAAATAATTTTTAAAGTTT
1 AATAGTCTTAATAAAATAAAAATAAAATATATATTATAACTAAATAAAAATAATTTTTAAAGTTT
1623390 AAGTTATTCATTTTATAGTGGAACCATATGTATTAAATCAAATAAAATTATGAGAAAATTTGAAA
66 AAGTTATTCATTTTATAGTGGAACCATATGTATTAAATCAAATAAAATTATGAGAAAATTTGAAA
1623455 AAACACCT
131 AAACACCT
1623463 A
1 A
1623464 TTTAGATGGA
Statistics
Matches: 138, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
137 127 0.92
138 11 0.08
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.34
Consensus pattern (138 bp):
AATAGTCTTAATAAAATAAAAATAAAATATATATTATAACTAAATAAAAATAATTTTTAAAGTTT
AAGTTATTCATTTTATAGTGGAACCATATGTATTAAATCAAATAAAATTATGAGAAAATTTGAAA
AAACACCT
Found at i:1624365 original size:36 final size:37
Alignment explanation
Indices: 1624299--1624370 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 37
1624289 CTCAAAAAAA
** * *
1624299 AAATATTTTAATATTTAAAATACTATTAAATGATAAT
1 AAATATTTTAATATTTAAAATAAAAATAAATAATAAT
*
1624336 AAATATTTTTATATTT-AAATAAAAATAAATAATAA
1 AAATATTTTAATATTTAAAATAAAAATAAATAATAA
1624371 CTTATTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 15 0.50
37 15 0.50
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (37 bp):
AAATATTTTAATATTTAAAATAAAAATAAATAATAAT
Found at i:1624860 original size:2 final size:2
Alignment explanation
Indices: 1624853--1624877 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1624843 AGAGGTGATA
1624853 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 A
1624878 ATACCTAATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1630750 original size:118 final size:119
Alignment explanation
Indices: 1630610--1630846 Score: 467
Period size: 118 Copynumber: 2.0 Consensus size: 119
1630600 ATTTTATTAG
1630610 AACAATAAATTATTTAACTATATCAATAATTTATTATTATGATTAAATATAAATATGCATGTTTA
1 AACAATAAATTATTTAACTATATCAATAATTTATTATTATGATTAAATATAAATATGCATGTTTA
1630675 ATAATATTGAAAATAATTTAATATTTTAAAGAATTAAAATTAAAAGTTCATCAT
66 ATAATATTGAAAATAATTTAATATTTTAAAGAATTAAAATTAAAAGTTCATCAT
1630729 AACAATAAA-TATTTAACTATATCAATAATTTATTATTATGATTAAATATAAATATGCATGTTTA
1 AACAATAAATTATTTAACTATATCAATAATTTATTATTATGATTAAATATAAATATGCATGTTTA
1630793 ATAATATTGAAAATAATTTAATATTTTAAAGAATTAAAATTAAAAGTTCATCAT
66 ATAATATTGAAAATAATTTAATATTTTAAAGAATTAAAATTAAAAGTTCATCAT
1630847 TAATATTTTA
Statistics
Matches: 118, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
118 109 0.92
119 9 0.08
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (119 bp):
AACAATAAATTATTTAACTATATCAATAATTTATTATTATGATTAAATATAAATATGCATGTTTA
ATAATATTGAAAATAATTTAATATTTTAAAGAATTAAAATTAAAAGTTCATCAT
Found at i:1634780 original size:16 final size:16
Alignment explanation
Indices: 1634759--1634790 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1634749 AATTTTTCTC
1634759 CTTTGCCCTCATTTTA
1 CTTTGCCCTCATTTTA
1634775 CTTTGCCCTCATTTTA
1 CTTTGCCCTCATTTTA
1634791 GTCTTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.31, G:0.06, T:0.50
Consensus pattern (16 bp):
CTTTGCCCTCATTTTA
Found at i:1641357 original size:17 final size:17
Alignment explanation
Indices: 1641337--1641370 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1641327 TTTTTTAGCA
* *
1641337 ATAAATATTAATTATTT
1 ATAAACATTAAATATTT
1641354 ATAAACATTAAATATTT
1 ATAAACATTAAATATTT
1641371 GTAATTAGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAAACATTAAATATTT
Found at i:1649968 original size:20 final size:20
Alignment explanation
Indices: 1649943--1649983 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1649933 TTACAACAAC
* *
1649943 TACTAATAAAATGGAACTAT
1 TACTAAAAAAAAGGAACTAT
*
1649963 TACTAAAAAAAAGGATCTAT
1 TACTAAAAAAAAGGAACTAT
1649983 T
1 T
1649984 GACTTGAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (20 bp):
TACTAAAAAAAAGGAACTAT
Found at i:1656224 original size:11 final size:11
Alignment explanation
Indices: 1656210--1656308 Score: 73
Period size: 11 Copynumber: 8.9 Consensus size: 11
1656200 ATAAATATGG
1656210 ATTTGAGAGAA
1 ATTTGAGAGAA
*
1656221 ATTTTGA-AGGA
1 A-TTTGAGAGAA
*
1656232 ATTTGAAAGCAA
1 ATTTGAGAG-AA
1656244 A-TTGAGAGGAA
1 ATTTGAGA-GAA
* *
1656255 ATTTAAAAGAA
1 ATTTGAGAGAA
1656266 A-TTGAGAGGAA
1 ATTTGAGA-GAA
1656277 ATTT-AGAAGAA
1 ATTTGAG-AGAA
1656288 A-TTGAGAGGAA
1 ATTTGAGA-GAA
1656299 ATTTGAGAGA
1 ATTTGAGAGA
1656309 GGATTAGTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
10 12 0.17
11 37 0.53
12 21 0.30
ACGTcount: A:0.47, C:0.01, G:0.26, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:1656253 original size:22 final size:22
Alignment explanation
Indices: 1656210--1656304 Score: 115
Period size: 22 Copynumber: 4.3 Consensus size: 22
1656200 ATAAATATGG
*
1656210 ATTTGAGAGAAATTTTGA-AGG-A
1 ATTTGAAAGAAA--TTGAGAGGAA
1656232 ATTTGAAAGCAAATTGAGAGGAA
1 ATTTGAAAG-AAATTGAGAGGAA
*
1656255 ATTTAAAAGAAATTGAGAGGAA
1 ATTTGAAAGAAATTGAGAGGAA
1656277 ATTT-AGAAGAAATTGAGAGGAA
1 ATTTGA-AAGAAATTGAGAGGAA
1656299 ATTTGA
1 ATTTGA
1656305 GAGAGGATTA
Statistics
Matches: 66, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
21 5 0.08
22 48 0.73
23 13 0.20
ACGTcount: A:0.47, C:0.01, G:0.25, T:0.26
Consensus pattern (22 bp):
ATTTGAAAGAAATTGAGAGGAA
Done.