Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 215 of 284
Found at i:71340857 original size:14 final size:15
Alignment explanation
Indices: 71340816--71340858 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
71340806 ATATGTTTTC
*
71340816 TTTTTTATTCTTTTAT
1 TTTTTTGTTC-TTTAT
71340832 TTTTTTGTTCTTTAT
1 TTTTTTGTTCTTTAT
71340847 TTTTTTG-TCTTT
1 TTTTTTGTTCTTT
71340859 TTACTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 5 0.19
15 12 0.46
16 9 0.35
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.81
Consensus pattern (15 bp):
TTTTTTGTTCTTTAT
Found at i:71341003 original size:19 final size:20
Alignment explanation
Indices: 71340972--71341011 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
71340962 ATAATTCACA
*
71340972 AAATAATATTTAAAATATAT
1 AAATAATATTTAAAAAATAT
71340992 AAATAA-ATTTAAAAAATAT
1 AAATAATATTTAAAAAATAT
71341011 A
1 A
71341012 TTCAAGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATAATATTTAAAAAATAT
Found at i:71342798 original size:15 final size:15
Alignment explanation
Indices: 71342780--71342811 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
71342770 TATTAGGGTT
71342780 AGATTTATAGTAAAA
1 AGATTTATAGTAAAA
71342795 AGATTTATAGTAAAA
1 AGATTTATAGTAAAA
71342810 AG
1 AG
71342812 TGAAAAATCA
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:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (15 bp):
AGATTTATAGTAAAA
Found at i:71344307 original size:21 final size:21
Alignment explanation
Indices: 71344282--71344327 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
71344272 TGATAATTAA
71344282 CCAAATCAATTATCCATCTAG
1 CCAAATCAATTATCCATCTAG
71344303 CCAAATCAATTATCCATCTAG
1 CCAAATCAATTATCCATCTAG
71344324 CCAA
1 CCAA
71344328 TAAATGAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.30, G:0.04, T:0.26
Consensus pattern (21 bp):
CCAAATCAATTATCCATCTAG
Found at i:71344994 original size:43 final size:43
Alignment explanation
Indices: 71344926--71345052 Score: 123
Period size: 43 Copynumber: 3.0 Consensus size: 43
71344916 ATATATCTCG
* * * *
71344926 TACAATGCC-ATATCTCATATATGGTCTTACATGTTACCAC-A
1 TACAATGCCAATATCCCAGACATGGTCTTACATGTAACCACAA
* * * * *
71344967 TATCGATGCCAATGTCCCAGACATGGTCTTGCACGTAATCACAA
1 TA-CAATGCCAATATCCCAGACATGGTCTTACATGTAACCACAA
* * *
71345011 TACAATGCCAATATTCCAGACATGGCCTTACATGTAATCACA
1 TACAATGCCAATATCCCAGACATGGTCTTACATGTAACCACA
71345053 TCTCGGCAAT
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
41 2 0.03
42 6 0.09
43 57 0.84
44 3 0.04
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATATCCCAGACATGGTCTTACATGTAACCACAA
Found at i:71351761 original size:18 final size:19
Alignment explanation
Indices: 71351728--71351766 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
71351718 AAAAAGGACT
71351728 AAATTGAATAAGAGA-TAA
1 AAATTGAATAAGAGATTAA
* *
71351746 AAATTGAATTATAGATTAA
1 AAATTGAATAAGAGATTAA
71351765 AA
1 AA
71351767 GAAAGTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.13, T:0.28
Consensus pattern (19 bp):
AAATTGAATAAGAGATTAA
Found at i:71352015 original size:18 final size:18
Alignment explanation
Indices: 71351992--71352027 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
71351982 TGTGATATTT
71351992 TATTTAATTAG-TAAAATA
1 TATTT-ATTAGATAAAATA
71352010 TATTTATTAGATAAAATA
1 TATTTATTAGATAAAATA
71352028 ATTAAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
TATTTATTAGATAAAATA
Found at i:71353092 original size:17 final size:18
Alignment explanation
Indices: 71353070--71353105 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
71353060 TAGATGAGTT
71353070 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
71353087 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
71353105 A
1 A
71353106 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:71360606 original size:25 final size:25
Alignment explanation
Indices: 71360576--71360635 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
71360566 CTCGCATGAA
* *
71360576 CTTCCCATTATGCAGCCCGGATAAG
1 CTTCCCATTATACAACCCGGATAAG
* *
71360601 CTTCCCGTTATACAACCTGGATAAG
1 CTTCCCATTATACAACCCGGATAAG
*
71360626 CTTCTCATTA
1 CTTCCCATTA
71360636 CATGGCTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (25 bp):
CTTCCCATTATACAACCCGGATAAG
Found at i:71365458 original size:25 final size:25
Alignment explanation
Indices: 71365428--71365487 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
71365418 CTCGCATGAA
* *
71365428 CTTCCCATTATGCAGCCCGGATAAG
1 CTTCCCATTATACAACCCGGATAAG
* *
71365453 CTTCCCGTTATACAACCTGGATAAG
1 CTTCCCATTATACAACCCGGATAAG
*
71365478 CTTCTCATTA
1 CTTCCCATTA
71365488 CATGGCTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (25 bp):
CTTCCCATTATACAACCCGGATAAG
Found at i:71368000 original size:96 final size:96
Alignment explanation
Indices: 71367832--71368101 Score: 287
Period size: 96 Copynumber: 2.8 Consensus size: 96
71367822 TATGTGTGCT
* * * *
71367832 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCA-CAATATGAGAGCCAGTGTAAAACCATGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGATATGTGAGCTAGTGTAAAACCATGTT
*
71367896 TGGAACATGGCATCGACAATGT-AATGAGAGCC
65 AGGAACATGGCATCGACAATGTGAAT-AGAGCC
* * * *
71367928 AGTGTAAGACCATGTCTGGGACATTGCATCGGCATTGATATGTGCGCTAGTGTAAAACTATGTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAAACCATGT-T
* * * * *
71367993 AGG-ACATGTCATCGGCATTGTGACTAGAGCT
65 AGGAACATGGCATCGACAATGTGAATAGAGCC
* * * * * *
71368024 AGTGTAAGACCATGTTTGGGACATGGTATCGGCCTCGACATGTGAGCTAGTGCAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAAACCATG-TT
*
71368089 A-GAACTTGGCATC
65 AGGAACATGGCATC
71368102 AGCAATTCAC
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
95 3 0.02
96 134 0.94
97 6 0.04
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGTGAGCTAGTGTAAAACCATGTTA
GGAACATGGCATCGACAATGTGAATAGAGCC
Found at i:71368010 original size:48 final size:48
Alignment explanation
Indices: 71367832--71368101 Score: 199
Period size: 48 Copynumber: 5.6 Consensus size: 48
71367822 TATGTGTGCT
* **
71367832 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCA-CAATATGAGAGCC
1 AGTGTAAAACCATGTCTAGGACATGGCATCGG-CATTGATATGAGAGCC
* * *
71367880 AGTGTAAAACCATGT-TTGGAACATGGCATCGACAATG-TAATGAGAGCC
1 AGTGTAAAACCATGTCTAGG-ACATGGCATCGGCATTGAT-ATGAGAGCC
* * * * * *
71367928 AGTGTAAGACCATGTCTGGGACATTGCATCGGCATTGATATGTGCGCT
1 AGTGTAAAACCATGTCTAGGACATGGCATCGGCATTGATATGAGAGCC
* * *
71367976 AGTGTAAAACTATGTCTAGGACATGTCATCGGCATTG-TGACT-AGAGCT
1 AGTGTAAAACCATGTCTAGGACATGGCATCGGCATTGAT-A-TGAGAGCC
* * * * * * * * *
71368024 AGTGTAAGACCATGTTTGGGACATGGTATCGGCCTCGACATGTGAGCT
1 AGTGTAAAACCATGTCTAGGACATGGCATCGGCATTGATATGAGAGCC
* * * * *
71368072 AGTGCAAGACCATGTTTAGAACTTGGCATC
1 AGTGTAAAACCATGTCTAGGACATGGCATC
71368102 AGCAATTCAC
Statistics
Matches: 178, Mismatches: 35, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
47 8 0.04
48 165 0.93
49 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
AGTGTAAAACCATGTCTAGGACATGGCATCGGCATTGATATGAGAGCC
Found at i:71369992 original size:29 final size:29
Alignment explanation
Indices: 71369951--71370036 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
71369941 AATCCATCTC
*
71369951 GTCAAAATAATTTTTTCAGAACACATCA-T
1 GTCAAAATTATTTTTTCAGAACACAT-ATT
* * * * *
71369980 GTTAAATTTATTTTTTTAAAACCCATATT
1 GTCAAAATTATTTTTTCAGAACACATATT
*
71370009 GTCAAAATTATTTTTCCAGAACA-ATATT
1 GTCAAAATTATTTTTTCAGAACACATATT
71370037 TAACAATTAA
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
28 6 0.14
29 38 0.86
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (29 bp):
GTCAAAATTATTTTTTCAGAACACATATT
Found at i:71372077 original size:22 final size:22
Alignment explanation
Indices: 71372051--71372095 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
71372041 GGGCCCTTAA
*
71372051 AGCCCAAAACATATATTTAAAC
1 AGCCCAAAACATACATTTAAAC
71372073 AGCCCAAAACATACATTTAAAC
1 AGCCCAAAACATACATTTAAAC
71372095 A
1 A
71372096 TTCAATTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.24, G:0.04, T:0.20
Consensus pattern (22 bp):
AGCCCAAAACATACATTTAAAC
Found at i:71372178 original size:18 final size:18
Alignment explanation
Indices: 71372155--71372195 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
71372145 CTCAATTCAA
71372155 GTTGCACGAACTTACTTC
1 GTTGCACGAACTTACTTC
*
71372173 GTTGCACGAACTTACTTT
1 GTTGCACGAACTTACTTC
71372191 GTTGC
1 GTTGC
71372196 TTATTCGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (18 bp):
GTTGCACGAACTTACTTC
Found at i:71372922 original size:51 final size:51
Alignment explanation
Indices: 71372846--71373014 Score: 230
Period size: 51 Copynumber: 3.3 Consensus size: 51
71372836 CTCAAACTTC
* * * * *
71372846 CTTCATACTTCATCCGAAATTATTACCTTGTTACTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCGAAATAATTACTTTGTTGCTCTAGCTTCAACAAGAG
* * * *
71372897 CTTCATATTTCATCCGGAATAATTACTTTGTTGCTCTAGCTTTAATAAAAG
1 CTTCATATTTCATCCGAAATAATTACTTTGTTGCTCTAGCTTCAACAAGAG
* *
71372948 CTTCATATTTCATCCGAAAAAATTACTTTGCTGCTCTAGCTTCAACAAGAG
1 CTTCATATTTCATCCGAAATAATTACTTTGTTGCTCTAGCTTCAACAAGAG
*
71372999 CTTCATATTTTATCCG
1 CTTCATATTTCATCCG
71373015 GAAAACTTAG
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 102 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (51 bp):
CTTCATATTTCATCCGAAATAATTACTTTGTTGCTCTAGCTTCAACAAGAG
Found at i:71377585 original size:11 final size:11
Alignment explanation
Indices: 71377526--71377586 Score: 52
Period size: 11 Copynumber: 5.4 Consensus size: 11
71377516 TTCCTTCTTT
71377526 AATACTTAAT-A
1 AATA-TTAATAA
*
71377537 AATAATAATAA
1 AATATTAATAA
* *
71377548 AAAAATAATAA
1 AATATTAATAA
*
71377559 AATATCTTATTAA
1 AATA--TTAATAA
71377572 AATATTAATAA
1 AATATTAATAA
71377583 AATA
1 AATA
71377587 ATATTTATCT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
10 4 0.10
11 28 0.68
13 9 0.22
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
AATATTAATAA
Found at i:71377866 original size:30 final size:31
Alignment explanation
Indices: 71377814--71377872 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
71377804 CACCCTTAAA
* * *
71377814 ATATTTGCACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACTATTAGCCCTTCAAATTTTTC
71377845 ATATTTACACT-TTAGCCCTTCAAATTTT
1 ATATTTACACTATTAGCCCTTCAAATTTT
71377873 GAGTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.25, C:0.22, G:0.05, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAGCCCTTCAAATTTTTC
Found at i:71377880 original size:30 final size:31
Alignment explanation
Indices: 71377814--71377881 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
71377804 CACCCTTAAA
* * *
71377814 ATATTTGCACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACTATTAGCCCTTCAACATTTTC
*
71377845 ATATTTACACT-TTAGCCCTTCAA-ATTTTG
1 ATATTTACACTATTAGCCCTTCAACATTTTC
71377874 AGTATTTA
1 A-TATTTA
71377882 TTCTTGTGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.16
30 17 0.53
31 10 0.31
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAGCCCTTCAACATTTTC
Found at i:71378941 original size:26 final size:26
Alignment explanation
Indices: 71378912--71379019 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
71378902 TGGTACAAAT
71378912 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
71378938 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
71378964 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
71378990 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
71379016 TGAT
1 TGAT
71379020 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:71382250 original size:14 final size:14
Alignment explanation
Indices: 71382228--71382267 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
71382218 ACTGTTATTC
71382228 TTTTTAAAAACA-AA
1 TTTTTAAAAA-ATAA
*
71382242 TTTTCAAAAAATAA
1 TTTTTAAAAAATAA
71382256 TTTTTAAAAAAT
1 TTTTTAAAAAAT
71382268 TGTTACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 1 0.04
14 22 0.96
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (14 bp):
TTTTTAAAAAATAA
Found at i:71382947 original size:25 final size:24
Alignment explanation
Indices: 71382894--71382960 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
71382884 AAATTGAAAT
* *
71382894 ATATATTTATTATTAGA-ATATTAAT
1 ATATATTT-TTAATA-ATATATTAAA
71382919 ATATATTTTTAATAATATATTAAA
1 ATATATTTTTAATAATATATTAAA
71382943 A-ATATTATTTAA-AATATA
1 ATATATT-TTTAATAATATA
71382961 AAATTATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 12 0.32
24 18 0.47
25 8 0.21
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
ATATATTTTTAATAATATATTAAA
Found at i:71385699 original size:14 final size:14
Alignment explanation
Indices: 71385680--71385706 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
71385670 TTGTTTAAAT
71385680 AAATCATTATTTTG
1 AAATCATTATTTTG
71385694 AAATCATTATTTT
1 AAATCATTATTTT
71385707 ATTTTACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
AAATCATTATTTTG
Found at i:71386497 original size:15 final size:15
Alignment explanation
Indices: 71386477--71386509 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
71386467 ATTATTGGTT
71386477 TTGTTAATTTGTTAG
1 TTGTTAATTTGTTAG
*
71386492 TTGTTAGTTTGTTAG
1 TTGTTAATTTGTTAG
71386507 TTG
1 TTG
71386510 GTATTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.24, T:0.61
Consensus pattern (15 bp):
TTGTTAATTTGTTAG
Found at i:71386506 original size:8 final size:8
Alignment explanation
Indices: 71386476--71386508 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
71386466 AATTATTGGT
*
71386476 TTTGTTAA
1 TTTGTTAG
71386484 TTTGTTAG
1 TTTGTTAG
71386492 -TTGTTAG
1 TTTGTTAG
71386499 TTTGTTAG
1 TTTGTTAG
71386507 TT
1 TT
71386509 GGTATTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.64
Consensus pattern (8 bp):
TTTGTTAG
Found at i:71386910 original size:131 final size:130
Alignment explanation
Indices: 71386673--71386986 Score: 454
Period size: 131 Copynumber: 2.4 Consensus size: 130
71386663 TTATTTGAAG
* *
71386673 ATTCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTTGGGGAGTCGTGCCCTATCATGCTGG
1 ATTCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCATGCTGG
* * *
71386738 GTTGTAATTTCCCGTTTGTTCAAAATAATCAAGTATTCCTTTGGAATTTCACTCATGTCTTTAAA
66 GTTGTAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGT-TTTAAA
71386803 A
130 A
* * * *
71386804 ATTCTTTAAAACGAAAGAAATGTTCGATGTTTGGCAATTCGGGGAATCATGCCCTATCATGCTGG
1 ATTCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCATGCTGG
* **
71386869 GTTGTAATTTCCTGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGTTTTCTAA
66 GTTGTAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGTTTTAAAA
* * * *
71386934 ATTC--TAAAAC-AAGGCAATGTTCAATGTCTAGAAATTCAGGGAATCGTGCCCTA
1 ATTCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTA
71386987 CTACGCTGGG
Statistics
Matches: 163, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
127 35 0.21
128 6 0.04
130 9 0.06
131 113 0.69
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (130 bp):
ATTCTTTAAAACGAAGGCAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATCATGCTGG
GTTGTAATTTCCCGTTTGTTCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGTTTTAAAA
Found at i:71407822 original size:31 final size:31
Alignment explanation
Indices: 71407784--71407853 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
71407774 TTTTGCCCAC
71407784 TTTAGTCCATAACGTTATCAGACATTCTCAA
1 TTTAGTCCATAACGTTATCAGACATTCTCAA
* *
71407815 TTTAGTCCCTAATGTTATCAGACATTCTCAA
1 TTTAGTCCATAACGTTATCAGACATTCTCAA
*
71407846 TTCAGTCC
1 TTTAGTCC
71407854 TTTGGATGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (31 bp):
TTTAGTCCATAACGTTATCAGACATTCTCAA
Found at i:71407964 original size:23 final size:22
Alignment explanation
Indices: 71407930--71407977 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
71407920 AAAAACCCTT
*
71407930 AAAAATCTTTAAAAATTGGAAAA
1 AAAAATCTTT-AAAATAGGAAAA
71407953 AAAAAT-TATTAAAATAGGAAAA
1 AAAAATCT-TTAAAATAGGAAAA
71407975 AAA
1 AAA
71407978 TTATAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (22 bp):
AAAAATCTTTAAAATAGGAAAA
Found at i:71408366 original size:19 final size:17
Alignment explanation
Indices: 71408343--71408396 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 17
71408333 TGTTTTTAAA
71408343 AATTTTAGTAAATTTTTT
1 AATTTTA-TAAATTTTTT
*
71408361 ATATTTTATATACTTTTTGT
1 A-ATTTTATA-AATTTTT-T
71408381 AATTTTAT-AATTTTTT
1 AATTTTATAAATTTTTT
71408397 TCTCTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 1 0.03
17 6 0.19
18 3 0.10
19 19 0.61
20 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (17 bp):
AATTTTATAAATTTTTT
Found at i:71409835 original size:20 final size:20
Alignment explanation
Indices: 71409810--71409874 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
71409800 ATATTTTTTA
*
71409810 AAAAAATTACAAAAATTATT
1 AAAAAATTACAAAAAATATT
* *
71409830 AAAAAA-TAGAGAAAAAAATT
1 AAAAAATTACA-AAAAATATT
* *
71409850 ATAAAATTACAAAAAGTATAT
1 AAAAAATTACAAAAAATAT-T
71409871 AAAA
1 AAAA
71409875 TATAAAAAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
19 3 0.09
20 24 0.71
21 7 0.21
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAAATTACAAAAAATATT
Found at i:71410520 original size:20 final size:20
Alignment explanation
Indices: 71410474--71410519 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
71410464 TAAATTTTAG
*
71410474 TATTTTTATAATGTTTATTG
1 TATTTTTATAATGTTTATTC
*
71410494 TAATTTTATAAT-TTTATTC
1 TATTTTTATAATGTTTATTC
71410513 TATTTTT
1 TATTTTT
71410520 TTACTAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
TATTTTTATAATGTTTATTC
Found at i:71411894 original size:66 final size:65
Alignment explanation
Indices: 71411809--71411942 Score: 171
Period size: 66 Copynumber: 2.0 Consensus size: 65
71411799 ATTCTGAAAC
* * * *
71411809 TGTAGCTGGAGTTCGTCATATTTTCTGCTT-GCCTCTACTTCTCTCGCTGCTTCCTCCGCTTTAA
1 TGTAGCTAGAGTTCGTCATATTTTCT--TTAGCCTCTACTTCTCTCGATGCTGCCTCCACTTTAA
71411873 GT
64 GT
* * *
71411875 TGTAGCTAGAGTTCTTCATATTTTCTTTGAGCCTCTGCTTCTCTCGATGCTGGCTCCACTTTAAG
1 TGTAGCTAGAGTTCGTCATATTTTCTTT-AGCCTCTACTTCTCTCGATGCTGCCTCCACTTTAAG
71411940 T
65 T
71411941 TG
1 TG
71411943 AGAAATTTGC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
64 2 0.03
66 57 0.97
ACGTcount: A:0.13, C:0.26, G:0.19, T:0.43
Consensus pattern (65 bp):
TGTAGCTAGAGTTCGTCATATTTTCTTTAGCCTCTACTTCTCTCGATGCTGCCTCCACTTTAAGT
Found at i:71424968 original size:13 final size:13
Alignment explanation
Indices: 71424946--71424978 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
71424936 AAGGGTTTGT
71424946 TTAT-TAAACTAA
1 TTATCTAAACTAA
71424958 TTATCTAAACTAA
1 TTATCTAAACTAA
*
71424971 TTAACTAA
1 TTATCTAA
71424979 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:71430950 original size:55 final size:54
Alignment explanation
Indices: 71430863--71431117 Score: 269
Period size: 55 Copynumber: 4.8 Consensus size: 54
71430853 ATTAGGGTTT
*
71430863 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
71430918 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
71430973 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
71431026 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * *
71431075 AAGGATACCACGTAAGACCATGACAAGTCATCGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
71431118 ATACCCGTGT
Statistics
Matches: 171, Mismatches: 22, Indels: 20
0.80 0.10 0.09
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 41 0.24
54 12 0.07
55 68 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:71431069 original size:108 final size:110
Alignment explanation
Indices: 71430870--71431070 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
71430860 TTTAAGGATA
*
71430870 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
71430935 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
71430980 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
71431042 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
71431071 TCAAAAGGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.56
109 7 0.08
110 27 0.32
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:71431212 original size:23 final size:24
Alignment explanation
Indices: 71431186--71431230 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
71431176 AAGGTAAGGT
*
71431186 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
71431209 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
71431231 GAAGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:71432979 original size:4 final size:4
Alignment explanation
Indices: 71432972--71433005 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
71432962 TTGCTTGTAC
*
71432972 ATAA ATAA ATAA ATAAA ATGA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA ATAA ATAA ATAA ATAA A
71433006 GGCTCAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:71433564 original size:191 final size:190
Alignment explanation
Indices: 71433234--71433610 Score: 655
Period size: 191 Copynumber: 2.0 Consensus size: 190
71433224 ACCATGTCTT
71433234 AAAAAAAATTCTTTTTAATTAATAATGCCTTGCAAATTTTGGATTCAAACTCAATTTAGTGAAAT
1 AAAAAAAATTCTTTTTAATTAATAATGCCTTGCAAATTTTGGATTCAAACTCAATTTAGTGAAAT
* * * *
71433299 TGTTTAGTTTACATATTCCAATTTTACGACACTTGTTGATTAAACTATATATTCTGAGCATTTGT
66 AGTTTAGTTTACATATTCCAATTTTACGACACTTGTTGATTAAACTATATAATCTAAGAATTTGT
*
71433364 TTATTTTTGCCTATGATGTTTGCGTTGATTATGGATGTGGAAAAGAGGCTCGATTTATTC
131 TTATTTTTGCCTATGATGTTTGCGTTAATTATGGATGTGGAAAAGAGGCTCGATTTATTC
* *
71433424 AAAAAATAATTCTTTTTAATTAATAATGTCTTGCAAATTTTGGATTCAAACTCAATTTGGTGAAA
1 AAAAAA-AATTCTTTTTAATTAATAATGCCTTGCAAATTTTGGATTCAAACTCAATTTAGTGAAA
** *
71433489 TAGTTTAGTTTACATATTCCAATTTTGTGATACTTGTTGATTAAACTATATAATCTAAGAATTTG
65 TAGTTTAGTTTACATATTCCAATTTTACGACACTTGTTGATTAAACTATATAATCTAAGAATTTG
71433554 TTTATTTTTGCCTATGATGTTTGCGTTAATTATGGATGTGGAAAAGAGGCTCGATTT
130 TTTATTTTTGCCTATGATGTTTGCGTTAATTATGGATGTGGAAAAGAGGCTCGATTT
71433611 GTAATAAATT
Statistics
Matches: 176, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
190 6 0.03
191 170 0.97
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.43
Consensus pattern (190 bp):
AAAAAAAATTCTTTTTAATTAATAATGCCTTGCAAATTTTGGATTCAAACTCAATTTAGTGAAAT
AGTTTAGTTTACATATTCCAATTTTACGACACTTGTTGATTAAACTATATAATCTAAGAATTTGT
TTATTTTTGCCTATGATGTTTGCGTTAATTATGGATGTGGAAAAGAGGCTCGATTTATTC
Found at i:71433948 original size:7 final size:6
Alignment explanation
Indices: 71433922--71433963 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
71433912 CAAAAATAGA
* *
71433922 ATTTCT ATTTTT ATTTTT ATTTATT A-TTTT ATTTTG ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTT-TT ATTTTT ATTTTT ATTTTT
71433964 TGTTAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
5 3 0.10
6 25 0.81
7 3 0.10
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:71439728 original size:35 final size:34
Alignment explanation
Indices: 71439676--71439741 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
71439666 ATATGAAAAT
*
71439676 TTTAACTTTAAAATTAAATATAA-AAATTAATGAA
1 TTTAAATTTAAAATTAAA-ATAATAAATTAATGAA
*
71439710 TTTAAATTTAGAATTTAAAATAATAAATTAAT
1 TTTAAATTTA-AAATTAAAATAATAAATTAAT
71439742 AACACAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 13 0.46
35 15 0.54
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.41
Consensus pattern (34 bp):
TTTAAATTTAAAATTAAAATAATAAATTAATGAA
Found at i:71443098 original size:31 final size:32
Alignment explanation
Indices: 71443032--71443104 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
71443022 ATTGGTAACT
* *
71443032 AGATATTTATTATTTATTATTATTAAGTTAAA
1 AGATATTTATTAATTATAATTATTAAGTTAAA
*
71443064 AGATATTTATTAATTA-AATTATTATA-TTATA
1 AGATATTTATTAATTATAATTATTA-AGTTAAA
*
71443095 AGATTTTTAT
1 AGATATTTAT
71443105 ATGATAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 20 0.56
32 16 0.44
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.53
Consensus pattern (32 bp):
AGATATTTATTAATTATAATTATTAAGTTAAA
Found at i:71443842 original size:22 final size:24
Alignment explanation
Indices: 71443814--71443857 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
71443804 TATGGCAAGA
71443814 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
71443836 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
71443858 AACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:71445869 original size:25 final size:25
Alignment explanation
Indices: 71445809--71445870 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
71445799 TTACACCTCG
* *
71445809 ATGCAACAGAGGAGTGTTGACGGCG
1 ATGCAGCAGAGGAGTGTTGACGGCA
* * *
71445834 ATGCGGAAGAGGAGTGTTGATGGCA
1 ATGCAGCAGAGGAGTGTTGACGGCA
*
71445859 ATGTAGCAGAGG
1 ATGCAGCAGAGG
71445871 GGACAATTGA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.29, C:0.11, G:0.42, T:0.18
Consensus pattern (25 bp):
ATGCAGCAGAGGAGTGTTGACGGCA
Found at i:71446670 original size:112 final size:113
Alignment explanation
Indices: 71446530--71446756 Score: 420
Period size: 114 Copynumber: 2.0 Consensus size: 113
71446520 TAAGATGTTT
71446530 GGGCATAACATGAATCATTTGAAGATGGATAAGAAATCTA-GAGAGGATCTATCACTCAAAGTGA
1 GGGCATAACATGAATCATTTGAAGATGGATAAGAAATCTAGGAGAGGATCTATCACTCAAAGTGA
*
71446594 TACTATAAACATATCTCATTTGTCATGGTTAATTTGATCAATACTTTG
66 TACTATAAACATATCTCATTTGCCATGGTTAATTTGATCAATACTTTG
*
71446642 GGGCATAACATGAATCATTTGAAGATGGATAAGTAATCTAGGGAGAGGATCTATCACTCAAAGTG
1 GGGCATAACATGAATCATTTGAAGATGGATAAGAAATCTA-GGAGAGGATCTATCACTCAAAGTG
71446707 ATACTATAAACATATCTCATTTGCCATGGTTAATTTGATCAATACTTTG
65 ATACTATAAACATATCTCATTTGCCATGGTTAATTTGATCAATACTTTG
71446756 G
1 G
71446757 TTTATAACAT
Statistics
Matches: 111, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
112 39 0.35
114 72 0.65
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (113 bp):
GGGCATAACATGAATCATTTGAAGATGGATAAGAAATCTAGGAGAGGATCTATCACTCAAAGTGA
TACTATAAACATATCTCATTTGCCATGGTTAATTTGATCAATACTTTG
Found at i:71446838 original size:98 final size:98
Alignment explanation
Indices: 71446669--71446852 Score: 323
Period size: 98 Copynumber: 1.9 Consensus size: 98
71446659 TTTGAAGATG
* *
71446669 GATAAGTAATCTAGGGAGAGGATCTATCACTCAAAGTGATACTATAAACATATCTCATTTGCCAT
1 GATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTGATACTATAAACATATCTCATTCGCCAT
*
71446734 GGTTAATTTGATCAATACTTTGGTTTATAACAT
66 GGTTAATTTCATCAATACTTTGGTTTATAACAT
*
71446767 GATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTGATACTATAAACATATCTCATTCGCTAT
1 GATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTGATACTATAAACATATCTCATTCGCCAT
*
71446832 GGTTAATTTCATGAATACTTT
66 GGTTAATTTCATCAATACTTT
71446853 AACTAGAGCA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 81 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (98 bp):
GATAAGTAATCTAGAGAGAGGATCTATCACTCAAAGTGATACTATAAACATATCTCATTCGCCAT
GGTTAATTTCATCAATACTTTGGTTTATAACAT
Found at i:71448146 original size:20 final size:20
Alignment explanation
Indices: 71448123--71448162 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
71448113 AAATATATTT
71448123 TACAAAAT-GGTTGAATATGG
1 TACAAAATGGGTT-AATATGG
*
71448143 TACAAAGTGGGTTAATATGG
1 TACAAAATGGGTTAATATGG
71448163 GCCTGTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.30
Consensus pattern (20 bp):
TACAAAATGGGTTAATATGG
Found at i:71473735 original size:18 final size:18
Alignment explanation
Indices: 71473714--71473996 Score: 133
Period size: 18 Copynumber: 15.3 Consensus size: 18
71473704 GAACAATTAT
71473714 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
71473732 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
71473750 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
* *
71473768 TTATTTAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
71473794 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
71473812 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
71473829 ATATTTAGTAACAATTAAG
1 TTATTCAGTAAC-AGTCAG
71473848 TTATTCAGTAACAGTCA-
1 TTATTCAGTAACAGTCAG
** *
71473865 TTCATTCAGCGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
71473884 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
71473902 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
*
71473920 TTATTCAGTAATAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * * *
71473938 ATATCCAGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * *
71473956 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
71473974 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
71473992 TTATT
1 TTATT
71473997 TTATACCTTT
Statistics
Matches: 196, Mismatches: 53, Indels: 32
0.70 0.19 0.11
Matches are distributed among these distances:
17 16 0.08
18 147 0.75
19 18 0.09
21 2 0.01
22 1 0.01
23 2 0.01
26 10 0.05
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:71473754 original size:36 final size:36
Alignment explanation
Indices: 71473701--71473996 Score: 188
Period size: 36 Copynumber: 8.0 Consensus size: 36
71473691 TCATTAACAC
* * *
71473701 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
71473736 TCGGTAACAATCAATTATTCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * * *
71473772 TTAGTATCGATCAATTGATCGGTTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAACAATCAGTTAT
* *
71473816 TCAGTAA-AATCAGA-TATTTAGTAACAATTAAGTTAT
1 TCAGTAACAATCA-ATTATTCAGTAACAA-TCAGTTAT
* **
71473852 TCAGTAACAGTC-ATTCATTCAGCGACAATCAGTTAT
1 TCAGTAACAATCAATT-ATTCAGTAACAATCAGTTAT
** * *
71473888 TCAGTAATGATCAATTATTCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
71473924 TCAGTAATAGTCTAA-TATCCAGTAACAATCAATTAT
1 TCAGTAACAATC-AATTATTCAGTAACAATCAGTTAT
* * * *
71473960 CCGGTAACAGTCAATTATTCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
71473996 T
1 T
71473997 TTATACCTTT
Statistics
Matches: 196, Mismatches: 48, Indels: 33
0.71 0.17 0.12
Matches are distributed among these distances:
35 13 0.07
36 138 0.70
37 19 0.10
42 2 0.01
43 6 0.03
44 18 0.09
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
Found at i:71473857 original size:54 final size:55
Alignment explanation
Indices: 71473793--71473997 Score: 195
Period size: 54 Copynumber: 3.8 Consensus size: 55
71473783 CAATTGATCG
* * *
71473793 GTTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGATATTTAGTAACAATTAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAATAATCAGTTATTTAGTAACAATCAA
** * * **
71473847 GTTATTCAGTAACAGTC-ATTCATTCAGCGACAATCAGTTATTCAGTAATGATCAA
1 GTTATTCAGTAACAGTCAATT-ATTCAGTAATAATCAGTTATTTAGTAACAATCAA
* * * * * **
71473902 -TTATTCAGTAATATTCAGTTATTCAGTAATAGTCTA-ATATCCAGTAACAATCAA
1 GTTATTCAGTAACAGTCAATTATTCAGTAATAATC-AGTTATTTAGTAACAATCAA
* *
71473956 -TTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATTT
1 GTTATTCAGTAACAGTCAATTATTCAGTAATAATCAGTTATTT
71473998 TATACCTTTA
Statistics
Matches: 118, Mismatches: 28, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
53 4 0.03
54 92 0.78
55 22 0.19
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (55 bp):
GTTATTCAGTAACAGTCAATTATTCAGTAATAATCAGTTATTTAGTAACAATCAA
Found at i:71474232 original size:45 final size:45
Alignment explanation
Indices: 71474160--71474268 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 45
71474150 ACAAATCTGG
* *
71474160 AACAGTAACAATAACAGTATTCAACACACAAAGTGCTGAATCAAT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCAAT
* * **
71474205 AACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCAAT
71474250 AACAGTAAC-GATAACAGTA
1 AACAGTAACAG-TAACAGTA
71474269 ACAGTAGTCG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 1 0.02
45 55 0.98
ACGTcount: A:0.45, C:0.20, G:0.17, T:0.18
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCAAT
Found at i:71474269 original size:51 final size:45
Alignment explanation
Indices: 71474165--71474283 Score: 130
Period size: 45 Copynumber: 2.5 Consensus size: 45
71474155 TCTGGAACAG
* * * *
71474165 TAACAATAACAGTATTCAACACACAAAGTGCTGAATCAATAACGG
1 TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAATAACGA
71474210 TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGGTAACAGTAACGA
1 TAACAGTAACAGTATTCGACACACAAAGTGCCGAATC----A-A-TAACGA
* *
71474261 TAACAGTAACAGTAGTCGGCACA
1 TAACAGTAACAGTATTCGACACA
71474284 TAAGTACCTG
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
45 34 0.55
49 1 0.02
50 1 0.02
51 26 0.42
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (45 bp):
TAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAATAACGA
Found at i:71475884 original size:15 final size:15
Alignment explanation
Indices: 71475864--71475894 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
71475854 CAATTTTTCC
*
71475864 TTTTTTTTCTTTCTT
1 TTTTTTTTCCTTCTT
71475879 TTTTTTTTCCTTCTT
1 TTTTTTTTCCTTCTT
71475894 T
1 T
71475895 CCTTCCCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTTCCTTCTT
Found at i:71480160 original size:21 final size:21
Alignment explanation
Indices: 71480136--71480187 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
71480126 TTTTTCCTAA
* *
71480136 AATGTGAATTGGATTGAATTG
1 AATGTAAATTGGATTAAATTG
*
71480157 AATGTAAATTGTATTAAATTG
1 AATGTAAATTGGATTAAATTG
71480178 -ATGTTAAATT
1 AATG-TAAATT
71480188 CATTCGTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (21 bp):
AATGTAAATTGGATTAAATTG
Found at i:71480340 original size:22 final size:23
Alignment explanation
Indices: 71480314--71480369 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
71480304 TGTGTATATT
*
71480314 TATATGTTTGAATTGGAT-ACTG
1 TATATGTTTGAATTGGATAAATG
*
71480336 TATATG--TGAATTGTATAAATG
1 TATATGTTTGAATTGGATAAATG
71480357 TCATATGTTTGAA
1 T-ATATGTTTGAA
71480370 ATTGATCGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 9 0.32
21 4 0.14
22 11 0.39
24 4 0.14
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.45
Consensus pattern (23 bp):
TATATGTTTGAATTGGATAAATG
Found at i:71480670 original size:25 final size:26
Alignment explanation
Indices: 71480641--71480689 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
71480631 CCCTTTATAG
71480641 GCTCTTTG-GAACTTCCCGATTAAAA
1 GCTCTTTGTGAACTTCCCGATTAAAA
* *
71480666 GCTCTTTGTGAGCTTCCTGATTAA
1 GCTCTTTGTGAACTTCCCGATTAA
71480690 TGGCTCTCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (26 bp):
GCTCTTTGTGAACTTCCCGATTAAAA
Found at i:71480687 original size:26 final size:25
Alignment explanation
Indices: 71480641--71480712 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
71480631 CCCTTTATAG
* *
71480641 GCTCTTTGGAACTTCCCGATTAAAA
1 GCTCTTTGGAGCTTCCTGATTAAAA
**
71480666 GCTCTTTGTGAGCTTCCTGATTAATG
1 GCTCTTTG-GAGCTTCCTGATTAAAA
**
71480692 GCTCTCCGGAGCTTCCTGATT
1 GCTCTTTGGAGCTTCCTGATT
71480713 GGCTCGCTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 21 0.52
26 19 0.47
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (25 bp):
GCTCTTTGGAGCTTCCTGATTAAAA
Found at i:71480709 original size:25 final size:25
Alignment explanation
Indices: 71480675--71480816 Score: 77
Period size: 25 Copynumber: 5.9 Consensus size: 25
71480665 AGCTCTTTGT
71480675 GAGCTTCCTGATTAATGGCTCTCCG
1 GAGCTTCCTGATTAATGGCTCTCCG
* **
71480700 GAGCTTCCTGA-T--TGGCTCGCTT
1 GAGCTTCCTGATTAATGGCTCTCCG
* * * *
71480722 GAACTT-TTCGA-TATATGGCTATCTG
1 GAGCTTCCT-GATTA-ATGGCTCTCCG
* *
71480747 GAGCTTCCTGATTAATGGCTCTTCA
1 GAGCTTCCTGATTAATGGCTCTCCG
* **
71480772 GAGCTATCC-G-TTATTGGCT-TGCAT
1 GAGCT-TCCTGATTAATGGCTCT-CCG
71480796 GAGCTTCCTGATT-ATGGCTCT
1 GAGCTTCCTGATTAATGGCTCT
71480817 TATGAGCTTC
Statistics
Matches: 87, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
21 1 0.01
22 15 0.17
23 4 0.05
24 20 0.23
25 41 0.47
26 6 0.07
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (25 bp):
GAGCTTCCTGATTAATGGCTCTCCG
Found at i:71480813 original size:24 final size:23
Alignment explanation
Indices: 71480747--71480833 Score: 81
Period size: 24 Copynumber: 3.6 Consensus size: 23
71480737 TGGCTATCTG
71480747 GAGCTTCCTGATTAATGGCTCTTCA-
1 GAGCTTCCTG-TT-ATGGCTC-TCAT
71480772 GAGCTATCC-GTTATTGGCT-TGCAT
1 GAGCT-TCCTGTTA-TGGCTCT-CAT
*
71480796 GAGCTTCCTGATTATGGCTCTTAT
1 GAGCTTCCTG-TTATGGCTCTCAT
71480820 GAGCTTCCTGTTAT
1 GAGCTTCCTGTTAT
71480834 ATAGCCCAGA
Statistics
Matches: 54, Mismatches: 1, Indels: 16
0.76 0.01 0.23
Matches are distributed among these distances:
22 1 0.02
23 10 0.19
24 30 0.56
25 10 0.19
26 3 0.06
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (23 bp):
GAGCTTCCTGTTATGGCTCTCAT
Found at i:71480889 original size:25 final size:25
Alignment explanation
Indices: 71480779--71480890 Score: 84
Period size: 25 Copynumber: 4.6 Consensus size: 25
71480769 TCAGAGCTAT
**
71480779 CCGTTAT-TGGCTTGCATGAGCTTC
1 CCGTTATATGGCTCACATGAGCTTC
* * **
71480803 CTGAT-TATGGCTCTTATGAGCTTC
1 CCGTTATATGGCTCACATGAGCTTC
* * * * *
71480827 CTGTTATATAGCCCAGATAAGCTTC
1 CCGTTATATGGCTCACATGAGCTTC
* * *
71480852 TCGTTACAAGGCTCACATGAGCTTC
1 CCGTTATATGGCTCACATGAGCTTC
71480877 CCGTTATATGGCTC
1 CCGTTATATGGCTC
71480891 GAGAGAAAGC
Statistics
Matches: 64, Mismatches: 22, Indels: 3
0.72 0.25 0.03
Matches are distributed among these distances:
23 1 0.02
24 21 0.33
25 42 0.66
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (25 bp):
CCGTTATATGGCTCACATGAGCTTC
Found at i:71482743 original size:14 final size:15
Alignment explanation
Indices: 71482724--71482765 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
71482714 CTGTTTCTGA
71482724 TTGTATATTTGATG-
1 TTGTATATTTGATGC
71482738 TTGTATATTTGCATGC
1 TTGTATATTTG-ATGC
71482754 TTG-AT-TTTGATG
1 TTGTATATTTGATG
71482766 GGTTACACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.12
14 15 0.58
15 5 0.19
16 3 0.12
ACGTcount: A:0.19, C:0.05, G:0.21, T:0.55
Consensus pattern (15 bp):
TTGTATATTTGATGC
Found at i:71485029 original size:42 final size:42
Alignment explanation
Indices: 71484966--71485092 Score: 179
Period size: 42 Copynumber: 3.0 Consensus size: 42
71484956 CTTCGTTTTC
** * *
71484966 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
71485009 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
71485050 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
71485091 TC
1 TC
71485093 TCACTGATGC
Statistics
Matches: 78, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
41 11 0.14
42 65 0.83
43 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:71485154 original size:47 final size:46
Alignment explanation
Indices: 71485051--71485174 Score: 167
Period size: 47 Copynumber: 2.7 Consensus size: 46
71485041 ATTCACATAT
* * * * *
71485051 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
71485097 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
71485144 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
71485175 GAAATCACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 27 0.40
47 41 0.60
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:71485234 original size:31 final size:31
Alignment explanation
Indices: 71485199--71485378 Score: 290
Period size: 31 Copynumber: 5.8 Consensus size: 31
71485189 CTTGTCACTT
*
71485199 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
71485230 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
71485261 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
71485292 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
71485323 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
71485354 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
71485379 TGTCATTTGT
Statistics
Matches: 140, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
30 3 0.02
31 135 0.96
32 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:71485460 original size:50 final size:51
Alignment explanation
Indices: 71485354--71485482 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
71485344 CACTGATCAG
* * *
71485354 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
71485405 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
71485455 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
71485483 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:71489377 original size:18 final size:17
Alignment explanation
Indices: 71489333--71489377 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
71489323 ATTGATTAAT
*
71489333 AATTTAAAATTATAAAA
1 AATTTAAAATAATAAAA
*
71489350 ATATTCAAAATAAATAAAA
1 A-ATTTAAAAT-AATAAAA
71489369 AATTTAAAA
1 AATTTAAAA
71489378 AAGTTTAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 1 0.04
18 15 0.65
19 7 0.30
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AATTTAAAATAATAAAA
Found at i:71493660 original size:3 final size:3
Alignment explanation
Indices: 71493652--71493677 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
71493642 AGATGAACAT
71493652 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
71493678 TAGGGTTATT
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:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:71498224 original size:15 final size:15
Alignment explanation
Indices: 71498200--71498229 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71498190 ATCCTAAAAA
*
71498200 TTCTATTTCTATTTT
1 TTCTAATTCTATTTT
71498215 TTCTAATTCTATTTT
1 TTCTAATTCTATTTT
71498230 CTTAGGACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (15 bp):
TTCTAATTCTATTTT
Found at i:71509065 original size:19 final size:18
Alignment explanation
Indices: 71509030--71509103 Score: 71
Period size: 19 Copynumber: 4.1 Consensus size: 18
71509020 GTAATTAATT
*
71509030 AATTTTTAAAA-TATAAA
1 AATTTTAAAAAGTATAAA
71509047 AATTTTAAAAAAGTAT-AA
1 AATTTT-AAAAAGTATAAA
* * *
71509065 ATTTATTAAAAATTAAAAA
1 AATT-TTAAAAAGTATAAA
71509084 AATATTTAAAAAGTATAAA
1 AAT-TTTAAAAAGTATAAA
71509103 A
1 A
71509104 TTATAATTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
17 6 0.13
18 16 0.36
19 22 0.49
20 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
AATTTTAAAAAGTATAAA
Found at i:71509075 original size:18 final size:18
Alignment explanation
Indices: 71509045--71509107 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
71509035 TTAAAATATA
71509045 AAAATT-TTAAAAAAGTAT
1 AAAATTATT-AAAAAGTAT
* * *
71509063 AAATTTATTAAAAATTAA
1 AAAATTATTAAAAAGTAT
*
71509081 AAAAATATTTAAAAAGTAT
1 AAAATTA-TTAAAAAGTAT
71509100 AAAATTAT
1 AAAATTAT
71509108 AATTTTTTTA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 18 0.51
19 17 0.49
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
AAAATTATTAAAAAGTAT
Found at i:71509779 original size:32 final size:33
Alignment explanation
Indices: 71509743--71509815 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
71509733 TGTTTGTCTA
*
71509743 ATATTATATT-AAATTCAT-ATATAA-GATAATTT
1 ATATTATATTCAAATT-ATGATA-AATAATAATTT
*
71509775 ATATT-TATTCAAATTTTGATAAATAATAATTT
1 ATATTATATTCAAATTATGATAAATAATAATTT
71509807 ATATTATAT
1 ATATTATAT
71509816 ATTTTGAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
31 7 0.20
32 25 0.71
33 3 0.09
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (33 bp):
ATATTATATTCAAATTATGATAAATAATAATTT
Found at i:71513857 original size:24 final size:22
Alignment explanation
Indices: 71513827--71513886 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
71513817 GTTTTATATT
*
71513827 TTTTAATTATTTATATAATTAATA
1 TTTTAATAATTTA-ATAA-TAATA
* *
71513851 TTTTAATAATTTAATTATCATA
1 TTTTAATAATTTAATAATAATA
*
71513873 TTTTAATAAATTAA
1 TTTTAATAATTTAA
71513887 ATTTTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 17 0.53
23 3 0.09
24 12 0.38
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTAATAATTTAATAATAATA
Found at i:71514926 original size:3 final size:3
Alignment explanation
Indices: 71514918--71514967 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
71514908 AAAAAGAGGA
71514918 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
71514966 AA
1 AA
71514968 AAAAAGAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:71517526 original size:11 final size:11
Alignment explanation
Indices: 71517510--71517553 Score: 72
Period size: 11 Copynumber: 4.1 Consensus size: 11
71517500 TAACTCAACC
71517510 TTTCTTTTTTT
1 TTTCTTTTTTT
*
71517521 TTTC-TTTTCT
1 TTTCTTTTTTT
71517531 TTTCTTTTTTT
1 TTTCTTTTTTT
71517542 TTTCTTTTTTT
1 TTTCTTTTTTT
71517553 T
1 T
71517554 GGGGTGGGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 9 0.30
11 21 0.70
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:71517534 original size:21 final size:20
Alignment explanation
Indices: 71517510--71517553 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 20
71517500 TAACTCAACC
71517510 TTTCTTTTTTTTTTCTTTTCT
1 TTTCTTTTTTTTTTCTTTT-T
71517531 TTTCTTTTTTTTTTCTTTTT
1 TTTCTTTTTTTTTTCTTTTT
71517551 TTT
1 TTT
71517554 GGGGTGGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (20 bp):
TTTCTTTTTTTTTTCTTTTT
Found at i:71519210 original size:20 final size:21
Alignment explanation
Indices: 71519185--71519226 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
71519175 CAAGGTCCAA
*
71519185 GGTCTAAAGTTTAGGG-TCAG
1 GGTCTAAAGTTGAGGGTTCAG
*
71519205 GGTCTAAGGTTGAGGGTTCAG
1 GGTCTAAAGTTGAGGGTTCAG
71519226 G
1 G
71519227 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.21, C:0.10, G:0.40, T:0.29
Consensus pattern (21 bp):
GGTCTAAAGTTGAGGGTTCAG
Found at i:71528842 original size:31 final size:34
Alignment explanation
Indices: 71528807--71528881 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 34
71528797 AATAATGAGT
* *
71528807 ATTTTCAAAAAAAATTAAGAGCT-TA-ATT-AAA
1 ATTTTCAAAAAAAATTAAAAGATATATATTGAAA
*
71528838 ATTTT-TAAAAAAATTAAAAGATATATATTGAAA
1 ATTTTCAAAAAAAATTAAAAGATATATATTGAAA
*
71528871 ATTTCCAAAAA
1 ATTTTCAAAAA
71528882 TTTTGGGGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 14 0.40
31 7 0.20
32 3 0.09
33 7 0.20
34 4 0.11
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (34 bp):
ATTTTCAAAAAAAATTAAAAGATATATATTGAAA
Found at i:71531972 original size:27 final size:26
Alignment explanation
Indices: 71531904--71531973 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
71531894 TCGACATCAT
* *
71531904 AAATAGTCCATTAGGACATTAAACCA
1 AAATAGTCCATTGGGACAATAAACCA
* * *
71531930 AGATAGTCCGTCGGGACAATAAACACA
1 AAATAGTCCATTGGGACAATAAAC-CA
*
71531957 AAATAGTTCATTGGGAC
1 AAATAGTCCATTGGGAC
71531974 GTGAAACACG
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
26 19 0.56
27 15 0.44
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (26 bp):
AAATAGTCCATTGGGACAATAAACCA
Found at i:71534939 original size:7 final size:7
Alignment explanation
Indices: 71534927--71534951 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
71534917 ATATAATAAT
71534927 TCTGGTA
1 TCTGGTA
71534934 TCTGGTA
1 TCTGGTA
71534941 TCTGGTA
1 TCTGGTA
71534948 TCTG
1 TCTG
71534952 ATAATCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.16, G:0.28, T:0.44
Consensus pattern (7 bp):
TCTGGTA
Found at i:71551728 original size:7 final size:7
Alignment explanation
Indices: 71551716--71551742 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
71551706 GAATTCGAAC
71551716 TCAAATG
1 TCAAATG
71551723 TCAAATG
1 TCAAATG
71551730 TCAAATG
1 TCAAATG
71551737 TCAAAT
1 TCAAAT
71551743 TTTAAATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (7 bp):
TCAAATG
Found at i:71551903 original size:21 final size:22
Alignment explanation
Indices: 71551877--71551924 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
71551867 AGTGTTTGAA
*
71551877 TGTCTCGAGA-CAAAGATCACT
1 TGTCTCGAGACCAAAGATCAAT
*
71551898 TGTCTCGAGACCTAAGATCAAT
1 TGTCTCGAGACCAAAGATCAAT
71551920 TGTCT
1 TGTCT
71551925 TAAGAACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (22 bp):
TGTCTCGAGACCAAAGATCAAT
Found at i:71552747 original size:16 final size:16
Alignment explanation
Indices: 71552726--71552760 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
71552716 TTAGGTTGAC
71552726 GTCGCGAAGTTATAGG
1 GTCGCGAAGTTATAGG
71552742 GTCGCGAAGTTATAGG
1 GTCGCGAAGTTATAGG
71552758 GTC
1 GTC
71552761 CCTCGTCGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.37, T:0.26
Consensus pattern (16 bp):
GTCGCGAAGTTATAGG
Found at i:71558316 original size:46 final size:46
Alignment explanation
Indices: 71558249--71558340 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
71558239 ATTCAAAGTC
*
71558249 ATGAAAGCACAGACTAGAATTGGCTACTCGTCTACGGCTTTTACCT
1 ATGAAAGCACAGACTACAATTGGCTACTCGTCTACGGCTTTTACCT
71558295 ATGAAAGCACAGACTACAATTGGCTACTCGTCTACGGCTTTTACCT
1 ATGAAAGCACAGACTACAATTGGCTACTCGTCTACGGCTTTTACCT
71558341 TTCTTTTATC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (46 bp):
ATGAAAGCACAGACTACAATTGGCTACTCGTCTACGGCTTTTACCT
Found at i:71570248 original size:11 final size:12
Alignment explanation
Indices: 71570226--71570280 Score: 60
Period size: 13 Copynumber: 4.5 Consensus size: 12
71570216 GAAAATTGAT
71570226 AAATATTCAATAA
1 AAATATT-AATAA
71570239 AAATA-TAAT-A
1 AAATATTAATAA
*
71570249 AAATATTAAAAA
1 AAATATTAATAA
71570261 TAAATATTTAATAA
1 -AAATA-TTAATAA
71570275 AAATAT
1 AAATAT
71570281 ATATTAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
10 6 0.17
11 6 0.17
12 3 0.08
13 15 0.42
14 6 0.17
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATATTAATAA
Found at i:71570517 original size:16 final size:18
Alignment explanation
Indices: 71570483--71570520 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
71570473 GGTCCCTATA
71570483 TTTTTTCGTTTTGAGTAT
1 TTTTTTCGTTTTGAGTAT
*
71570501 TTTTTTC-TTTT-ATTAT
1 TTTTTTCGTTTTGAGTAT
71570517 TTTT
1 TTTT
71570521 AACTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 4 0.21
18 7 0.37
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTTTTCGTTTTGAGTAT
Found at i:71573937 original size:21 final size:21
Alignment explanation
Indices: 71573898--71573937 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
71573888 TTTATTTAAA
*
71573898 AATATAAATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
71573919 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
71573938 TACTGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:71575790 original size:117 final size:117
Alignment explanation
Indices: 71575579--71575868 Score: 517
Period size: 117 Copynumber: 2.5 Consensus size: 117
71575569 ATTTGACAAA
* *
71575579 TAAAACCATGGTTGGGCCATGGCAGTGTTTATATATAAGACCATAGTTGGGCTATGACATTAATG
1 TAAAACCATGGTTGGACCATGGCAGTGTTTATATATAAGACCATAGTTGGGCTATGACATTAAAG
* *
71575644 TAAAGGATGAATTGACGGATAAGATCATAACTGGGTTATGGTACTCTAAACG
66 TAAAGGATGAATTGACGGATAAGACCATAACTGGGTTATGGTACTATAAACG
*
71575696 TAAAACCATGGTTAGACCATGGCAGTGTTTATATATAAGACCATAGTTGGGCTATGACATTAAAG
1 TAAAACCATGGTTGGACCATGGCAGTGTTTATATATAAGACCATAGTTGGGCTATGACATTAAAG
71575761 TAAAGGATGAATTGACGGATAAGACCATAACTGGGTTATGGTACTATAAACG
66 TAAAGGATGAATTGACGGATAAGACCATAACTGGGTTATGGTACTATAAACG
* *
71575813 TAAAACCATGGTTGGACCATGGCAGTGTTTATATGTAAAACCATAGTTGGGCTATG
1 TAAAACCATGGTTGGACCATGGCAGTGTTTATATATAAGACCATAGTTGGGCTATG
71575869 GAATTCTGAT
Statistics
Matches: 165, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 165 1.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (117 bp):
TAAAACCATGGTTGGACCATGGCAGTGTTTATATATAAGACCATAGTTGGGCTATGACATTAAAG
TAAAGGATGAATTGACGGATAAGACCATAACTGGGTTATGGTACTATAAACG
Found at i:71576984 original size:21 final size:21
Alignment explanation
Indices: 71576955--71576994 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
71576945 TTAGGGGTGT
*
71576955 TACACATTTCATATGTGCATG
1 TACAAATTTCATATGTGCATG
71576976 TACAAATTTCATATGTGCA
1 TACAAATTTCATATGTGCA
71576995 ATTTATTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
TACAAATTTCATATGTGCATG
Found at i:71591987 original size:22 final size:22
Alignment explanation
Indices: 71591941--71591987 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
71591931 TATTAGATAT
**
71591941 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
71591963 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
71591985 TAA
1 TAA
71591988 TTATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:71594208 original size:46 final size:46
Alignment explanation
Indices: 71594156--71594293 Score: 267
Period size: 46 Copynumber: 3.0 Consensus size: 46
71594146 AGTGTGCTCT
*
71594156 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
71594202 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
71594248 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
71594294 NNNNNNNNNN
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 91 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:71597415 original size:16 final size:17
Alignment explanation
Indices: 71597394--71597426 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
71597384 ATGATGGAGC
*
71597394 ATGAAAT-ATTTATATA
1 ATGAAATGATTGATATA
71597410 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
71597427 TACTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:71599546 original size:46 final size:46
Alignment explanation
Indices: 71599485--71599655 Score: 270
Period size: 46 Copynumber: 3.6 Consensus size: 46
71599475 TTTGAGTACT
71599485 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
71599531 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTA
71599577 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
71599629 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
71599656 GCTACACTTA
Statistics
Matches: 116, Mismatches: 3, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
46 72 0.62
52 44 0.38
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:71599611 original size:52 final size:52
Alignment explanation
Indices: 71599537--71599655 Score: 193
Period size: 52 Copynumber: 2.2 Consensus size: 52
71599527 CTTATCTGAT
*
71599537 CAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGA
*
71599590 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGA
*
71599642 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
71599656 GCTACACTTA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
52 44 0.71
53 18 0.29
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGA
Found at i:71599665 original size:37 final size:37
Alignment explanation
Indices: 71599618--71599727 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
71599608 TGATAGCTTC
*
71599618 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
71599655 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
71599692 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
71599727 G
1 G
71599728 ATCATACGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:71601647 original size:14 final size:14
Alignment explanation
Indices: 71601628--71601660 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
71601618 AAAACAGAAT
71601628 GAAAATATACAA-AA
1 GAAAATA-ACAACAA
71601642 GAAAATAACAACAA
1 GAAAATAACAACAA
71601656 GAAAA
1 GAAAA
71601661 AATTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.73, C:0.09, G:0.09, T:0.09
Consensus pattern (14 bp):
GAAAATAACAACAA
Found at i:71602339 original size:21 final size:24
Alignment explanation
Indices: 71602315--71602360 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
71602305 AAATCAAAAG
71602315 ATATAT-AAA-TAATAA-AACATA
1 ATATATAAAACTAATAATAACATA
*
71602336 ATATTTAAAACTAATAATAACATA
1 ATATATAAAACTAATAATAACATA
71602360 A
1 A
71602361 CACATGCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 3 0.14
23 6 0.29
24 7 0.33
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (24 bp):
ATATATAAAACTAATAATAACATA
Found at i:71607509 original size:22 final size:21
Alignment explanation
Indices: 71607484--71607563 Score: 80
Period size: 22 Copynumber: 4.0 Consensus size: 21
71607474 AAGCCTGCTA
*
71607484 GGCATTAAGCCTGAATAACACT
1 GGCACTAAGCCTGAATAACA-T
*
71607506 GGCACTAAGCCTG-CT---A-
1 GGCACTAAGCCTGAATAACAT
71607522 GGCACTAAGCCTGAATAACAT
1 GGCACTAAGCCTGAATAACAT
*
71607543 CGGCATTAAGCCTGAATAACA
1 -GGCACTAAGCCTGAATAACA
71607564 CTGTATTTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
16 13 0.27
17 1 0.02
18 1 0.02
20 1 0.02
21 1 0.02
22 31 0.65
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (21 bp):
GGCACTAAGCCTGAATAACAT
Found at i:71607525 original size:38 final size:38
Alignment explanation
Indices: 71607474--71607556 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 38
71607464 CATTGGCTCA
*
71607474 AAGCCTGCTAGGCATTAAGCCTGAATAACA-CTGGCACT
1 AAGCCTGCTAGGCACTAAGCCTGAATAACATC-GGCACT
*
71607512 AAGCCTGCTAGGCACTAAGCCTGAATAACATCGGCATT
1 AAGCCTGCTAGGCACTAAGCCTGAATAACATCGGCACT
71607550 AAGCCTG
1 AAGCCTG
71607557 AATAACACTG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
38 41 0.98
39 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (38 bp):
AAGCCTGCTAGGCACTAAGCCTGAATAACATCGGCACT
Found at i:71611169 original size:18 final size:18
Alignment explanation
Indices: 71611130--71611163 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
71611120 TAAAAATTAA
71611130 AAAAATTTAAATAAAAAT
1 AAAAATTTAAATAAAAAT
71611148 AAAAA-TTAAA-AAAAAT
1 AAAAATTTAAATAAAAAT
71611164 TTAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAATTTAAATAAAAAT
Found at i:71612336 original size:24 final size:24
Alignment explanation
Indices: 71612309--71612356 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
71612299 ATCTGAAGAA
71612309 AACTATGCTGTTGTAATAACTATG
1 AACTATGCTGTTGTAATAACTATG
71612333 AACTATGCTGTTGTAATAACTATG
1 AACTATGCTGTTGTAATAACTATG
71612357 TTTTATCGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (24 bp):
AACTATGCTGTTGTAATAACTATG
Found at i:71612422 original size:48 final size:48
Alignment explanation
Indices: 71612351--71612444 Score: 179
Period size: 48 Copynumber: 2.0 Consensus size: 48
71612341 TGTTGTAATA
71612351 ACTATGTTTTATCGGATAAGATCCGGTTACAGGTAATAGATGAATAGG
1 ACTATGTTTTATCGGATAAGATCCGGTTACAGGTAATAGATGAATAGG
*
71612399 ACTATGTTTTGTCGGATAAGATCCGGTTACAGGTAATAGATGAATA
1 ACTATGTTTTATCGGATAAGATCCGGTTACAGGTAATAGATGAATA
71612445 AGGCTTAGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (48 bp):
ACTATGTTTTATCGGATAAGATCCGGTTACAGGTAATAGATGAATAGG
Found at i:71622879 original size:23 final size:23
Alignment explanation
Indices: 71622832--71622880 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
71622822 TCTAAGTACA
*
71622832 TTTGTATTTTTTATTTCAAGTTT
1 TTTGTATTTTTTAATTCAAGTTT
71622855 TTTGTTATTTTTTAATT-AATGTTT
1 TTTG-TATTTTTTAATTCAA-GTTT
71622879 TT
1 TT
71622881 AATTAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.71
Consensus pattern (23 bp):
TTTGTATTTTTTAATTCAAGTTT
Found at i:71622881 original size:13 final size:13
Alignment explanation
Indices: 71622863--71622887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71622853 TTTTTGTTAT
71622863 TTTTTAATTAATG
1 TTTTTAATTAATG
71622876 TTTTTAATTAAT
1 TTTTTAATTAAT
71622888 AAATATAGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:71625522 original size:28 final size:29
Alignment explanation
Indices: 71625482--71625537 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
71625472 TTGGGTTTTT
*
71625482 GGACACGGGCGTGT-CTAGGCCTTGTGAG
1 GGACACGGGCGTGTGCTAGGCCATGTGAG
*
71625510 GGACACGGGCGTGTGCTCGGCCATGTGA
1 GGACACGGGCGTGTGCTAGGCCATGTGA
71625538 AAACCCCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.14, C:0.23, G:0.43, T:0.20
Consensus pattern (29 bp):
GGACACGGGCGTGTGCTAGGCCATGTGAG
Found at i:71626548 original size:95 final size:93
Alignment explanation
Indices: 71626418--71626691 Score: 336
Period size: 95 Copynumber: 2.9 Consensus size: 93
71626408 GAATTTGTCA
* * * *
71626418 CTTTAATCTGCTTCACTGCAACTTCAATGAGATAAGATTAGTAGCTTCAATTTGCTCCACTACAA
1 CTTTAATCT-ATTCACTGCAACTTCAAGGA-ATAAGATTAGTATCTTCAATATGCTCCACTACAA
*
71626483 CTTCAGGGAGATAAGATTTGCAACTTGTAG
64 CTTCAGGGAAATAAGATTTGCAACTTGTAG
*
71626513 CTTTAATCTATTCTACTGCAACTTCAAGGCAATAAGATTCA-CATCTTCAATATGCTCCACTACA
1 CTTTAATCTATTC-ACTGCAACTTCAAGG-AATAAGATT-AGTATCTTCAATATGCTCCACTACA
* *
71626577 AATTCAGGGAAATAAGATTTGTAACTTGTAG
63 ACTTCAGGGAAATAAGATTTGCAACTTGTAG
* * * **
71626608 CTTTAATCTGTTCCACTGCAACTT-AAGGGAAGTAAGATTCGCTATCTTTAATATGCTCCACTGT
1 CTTTAATCTATT-CACTGCAACTTCAA-GGAA-TAAGATTAG-TATCTTCAATATGCTCCACTAC
71626672 AACTTCAGGGAAATAAGATT
62 AACTTCAGGGAAATAAGATT
71626692 CGCTATCTTT
Statistics
Matches: 156, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
94 7 0.04
95 109 0.70
96 40 0.26
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (93 bp):
CTTTAATCTATTCACTGCAACTTCAAGGAATAAGATTAGTATCTTCAATATGCTCCACTACAACT
TCAGGGAAATAAGATTTGCAACTTGTAG
Found at i:71626676 original size:45 final size:45
Alignment explanation
Indices: 71626608--71626736 Score: 179
Period size: 45 Copynumber: 2.9 Consensus size: 45
71626598 TAACTTGTAG
* * * *
71626608 CTTTAATCTGTTCCACTGCAACTTAAGGGAAGTAAGATTCGCTAT
1 CTTTAATATGCTCCACTGAAACTTAAGGGAAATAAGATTCGCTAT
* *
71626653 CTTTAATATGCTCCACTGTAACTTCAGGGAAATAAGATTCGCTAT
1 CTTTAATATGCTCCACTGAAACTTAAGGGAAATAAGATTCGCTAT
*
71626698 CTTTAATATGCTCCACTGAAACTTTAGGGAGAA-AAGATT
1 CTTTAATATGCTCCACTGAAACTTAAGGGA-AATAAGATT
71626737 TGTAACTTGT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
45 74 0.97
46 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (45 bp):
CTTTAATATGCTCCACTGAAACTTAAGGGAAATAAGATTCGCTAT
Found at i:71626738 original size:141 final size:140
Alignment explanation
Indices: 71626527--71626832 Score: 393
Period size: 141 Copynumber: 2.2 Consensus size: 140
71626517 AATCTATTCT
*
71626527 ACTGCAACTTCAAGGCAATAAGATTCACATCTTCAATATGCTCCACTACAAATTCAGGGAAATAA
1 ACTGCAACTTCAGGGCAATAAGATTCACATCTTCAATATGCTCCACTACAAATTCAGGGAAATAA
* * * *
71626592 GATTTGTAACTTGTAGCTTTAATCTGTTCCA-CTGCAACTTAAGGGAAGTAAGATTCGCTATCTT
66 GATTTGTAACTTGTAGCATTAATCTGTT-CAGCTGCAACTTAAGGAAAATAAGATTCGCTAACTT
*
71626656 TAATATGCTCC
130 CAATATGCTCC
* * * * * *
71626667 ACTGTAACTTCAGGGAAATAAGATTCGCTATCTTTAATATGCTCCACTGA-AACTTTAGGGAGAA
1 ACTGCAACTTCAGGGCAATAAGATTCAC-ATCTTCAATATGCTCCACT-ACAAATTCAGGGA-AA
* * * * *
71626731 -AAGATTTGTAACTTGTAGCATTAATCTGTTTAGCTGCAACTTCAGGAAAATAAGATTTGTTAAG
63 TAAGATTTGTAACTTGTAGCATTAATCTGTTCAGCTGCAACTTAAGGAAAATAAGATTCGCTAAC
*
71626795 TTCAATCTGCTCC
128 TTCAATATGCTCC
71626808 ACTGCAACTTCAGGGCAATAAGATT
1 ACTGCAACTTCAGGGCAATAAGATT
71626833 TGTAACTTGT
Statistics
Matches: 142, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
140 25 0.18
141 114 0.80
142 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (140 bp):
ACTGCAACTTCAGGGCAATAAGATTCACATCTTCAATATGCTCCACTACAAATTCAGGGAAATAA
GATTTGTAACTTGTAGCATTAATCTGTTCAGCTGCAACTTAAGGAAAATAAGATTCGCTAACTTC
AATATGCTCC
Found at i:71626972 original size:96 final size:96
Alignment explanation
Indices: 71626672--71626982 Score: 333
Period size: 96 Copynumber: 3.2 Consensus size: 96
71626662 GCTCCACTGT
* * * * * *
71626672 AACTTCAGGGAAATAAGATTCGCTATCTTTAATATGCTCCACTGA-AACTTTAGGGAGAAAAGAT
1 AACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCA-TTACAACTTCAGGGAGATAAGAT
* *
71626736 TTGTAACTTGTAGCATTAATCTGTTTAGCTGC
65 TTGTAACTTGTAGCTTTAATCTATTTAGCTGC
* *** ** * *
71626768 AACTTCAGGAAAATAAGATTTGTTAAGTTCAATCTGCTCCACTGCAACTTCAGGGCA-ATAAGAT
1 AACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCATTACAACTTCAGGG-AGATAAGAT
* *
71626832 TTGTAACTTGTAGCTTTAATCTATTCCA-ATGC
65 TTGTAACTTGTAGCTTTAATCTATT-TAGCTGC
* * * *
71626864 AACTTCAAGGAAATAAGATTCACTATCTTCAATCTGTTCCATTACAAATTCAGTGAGATAAGATT
1 AACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCATTACAACTTCAGGGAGATAAGATT
*
71626929 TGTAACTTGTAGCTTTAATCTATTTTGCTGC
66 TGTAACTTGTAGCTTTAATCTATTTAGCTGC
* *
71626960 AAATTTC-GGGAAATGAGATTCAC
1 -AACTTCAGGGAAATAAGATTCAC
71626983 CACGATGACT
Statistics
Matches: 175, Mismatches: 34, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
95 1 0.01
96 167 0.95
97 7 0.04
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (96 bp):
AACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCATTACAACTTCAGGGAGATAAGATT
TGTAACTTGTAGCTTTAATCTATTTAGCTGC
Found at i:71633369 original size:22 final size:22
Alignment explanation
Indices: 71633336--71633377 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
71633326 TTTTTAAAAT
71633336 TATACATAATAATAAATAATTA
1 TATACATAATAATAAATAATTA
71633358 TATA-ATATATAATAAATAAT
1 TATACATA-ATAATAAATAAT
71633378 ATAGTGAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TATACATAATAATAAATAATTA
Found at i:71633412 original size:15 final size:15
Alignment explanation
Indices: 71633362--71633452 Score: 59
Period size: 15 Copynumber: 6.3 Consensus size: 15
71633352 TAATTATATA
*
71633362 ATATATAAT-AAATA
1 ATATATAATAAAATG
* *
71633376 ATATAGTGAACAATAT-
1 ATATA-T-AATAAAATG
*
71633392 ATATATGATAAAATG
1 ATATATAATAAAATG
*
71633407 ATATATAATGAAATG
1 ATATATAATAAAATG
*
71633422 -TATA-AATCAAA-G
1 ATATATAATAAAATG
*
71633434 -TATATAATAAAATA
1 ATATATAATAAAATG
71633448 ATATA
1 ATATA
71633453 ACCAATAATA
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
12 5 0.08
13 12 0.20
14 14 0.23
15 19 0.32
16 7 0.12
17 3 0.05
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (15 bp):
ATATATAATAAAATG
Found at i:71635312 original size:86 final size:88
Alignment explanation
Indices: 71634989--71635669 Score: 651
Period size: 88 Copynumber: 8.0 Consensus size: 88
71634979 CCCCACCAAA
* * * *
71634989 ACAGAGACGTCAAATC-AGCTATCCTCGATCTGCTCTCTGACAATACAGAAACGCCAAATCTGCT
1 ACAGAGATGCCAAATCTA-CTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * **
71635053 ATCTTCGATCTGCTCTCTGAGAAT
65 ATCTTTGATCTGCTCTCCGTCAAT
* * * * * * * *
71635077 ATAGAGATGCCAAATCTGCTATATTCGATTTGCTTTCTGACAATACAGAGATGTCAAATCCGCTA
1 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* * *
71635142 TCTTTGATCTGCTATCTGACAAT
66 TCTTTGATCTGCTCTCCGTCAAT
* *
71635165 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTA
1 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
71635230 TCTTTGATCTGCTCTCCGTCAAT
66 TCTTTGATCTGCTCTCCGTCAAT
* * * * *
71635253 ACAGAGATGCCAGATGT-C-ATCCTCGATCTGCTCTCTGTCAATACAGAAACGCCAAATCTGCTA
1 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
*
71635316 TCTTTGATCTGCTCTCCGTCATT
66 TCTTTGATCTGCTCTCCGTCAAT
* * * * *
71635339 ACAAAGATGCCAGATGT-C-ATATTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTA
1 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* * * **
71635402 TCTTCGATCTGTTCTCTGAAAAT
66 TCTTTGATCTGCTCTCCGTCAAT
* * * * * *
71635425 ATAGAGACGCAAAATCTACTATCTTCGATCTACTCTCTGACAATACAGAGATGCCAAATCTACTA
1 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* ** * * *
71635490 TCTTTAATCTATTTTCCATAAAT
66 TCTTTGATCTGCTCTCCGTCAAT
* * * *
71635513 ACAGAGATG------C--C-A--GTCGATCTGCTCTCTGTCAATATAGAGACGCC-AGTC-G--A
1 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
71635563 TC--T-A-CT-CTCT--GTCAAT
66 TCTTTGATCTGCTCTCCGTCAAT
* * * *
71635579 ACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTA
1 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
71635644 TCTTTGATCTGCTCTCCGTCAAT
66 TCTTTGATCTGCTCTCCGTCAAT
71635667 ACA
1 ACA
71635670 AAGACGTTAG
Statistics
Matches: 488, Mismatches: 80, Indels: 50
0.79 0.13 0.08
Matches are distributed among these distances:
66 12 0.02
68 2 0.00
69 2 0.00
70 1 0.00
71 1 0.00
72 1 0.00
73 3 0.01
74 1 0.00
75 1 0.00
76 3 0.01
77 56 0.11
78 3 0.01
79 2 0.00
80 1 0.00
81 3 0.01
82 1 0.00
83 1 0.00
84 1 0.00
85 2 0.00
86 154 0.32
87 2 0.00
88 235 0.48
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (88 bp):
ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
TCTTTGATCTGCTCTCCGTCAAT
Found at i:71635500 original size:44 final size:44
Alignment explanation
Indices: 71634989--71635493 Score: 586
Period size: 44 Copynumber: 11.6 Consensus size: 44
71634979 CCCCACCAAA
* * * *
71634989 ACAGAGACGTCAAATCAGCTATCCTCGATCTGCTCTCTGACAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * *
71635033 ACAGAAACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAGAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * * *
71635077 ATAGAGATGCCAAATCTGCTATATTCGATTTGCTTTCTGACAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * * *
71635121 ACAGAGATGTCAAATCCGCTATCTTTGATCTGCTATCTGACAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* *
71635165 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * *
71635209 ACAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTCCGTCAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * * *
71635253 ACAGAGATGCCAGATGT-C-ATCCTCGATCTGCTCTCTGTCAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * * * * *
71635295 ACAGAAACGCCAAATCTGCTATCTTTGATCTGCTCTCCGTCATT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * * * *
71635339 ACAAAGATGCCAGATGT-C-ATATTCGATCTGCTCTCTGTCAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * *
71635381 ACAGAGACGCCAAATCTGCTATCTTCGATCTGTTCTCTGAAAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * * * *
71635425 ATAGAGACGCAAAATCTACTATCTTCGATCTACTCTCTGACAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
*
71635469 ACAGAGATGCCAAATCTACTATCTT
1 ACAGAGATGCCAAATCTGCTATCTT
71635494 TAATCTATTT
Statistics
Matches: 388, Mismatches: 69, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
42 67 0.17
43 4 0.01
44 317 0.82
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (44 bp):
ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
Found at i:71635558 original size:33 final size:33
Alignment explanation
Indices: 71635510--71635590 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
71635500 ATTTTCCATA
* *
71635510 AATACAGAGATGCCAGTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAGTCGATCTACTCTCTGTC
*
71635543 AATATAGAGACGCCAGTCGATCTACTCTCTGTC
1 AATACAGAGACGCCAGTCGATCTACTCTCTGTC
71635576 AATACAGAGACGCCA
1 AATACAGAGACGCCA
71635591 AATCTGCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (33 bp):
AATACAGAGACGCCAGTCGATCTACTCTCTGTC
Found at i:71635624 original size:44 final size:44
Alignment explanation
Indices: 71635561--71635675 Score: 203
Period size: 44 Copynumber: 2.6 Consensus size: 44
71635551 GACGCCAGTC
*
71635561 GATCTACTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTT
71635605 GATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTT
* *
71635649 GATCTGCTCTCCGTCAATACAAAGACG
1 GATCTGCTCTCTGTCAATACAGAGACG
71635676 TTAGGTGTCA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (44 bp):
GATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTT
Found at i:71647497 original size:18 final size:20
Alignment explanation
Indices: 71647476--71647521 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
71647466 ACAATTTTTT
71647476 TAAAATTATACATAATA-ATAA
1 TAAAATTAT--ATAATATATAA
*
71647497 -ATAATTATATAATATATAA
1 TAAAATTATATAATATATAA
71647516 TAAAAT
1 TAAAAT
71647522 CCGAGGGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 6 0.29
19 4 0.19
20 11 0.52
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATTATATAATATATAA
Found at i:71647623 original size:29 final size:30
Alignment explanation
Indices: 71647590--71647647 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
71647580 TATAATGGTC
* *
71647590 ATTAGGACTAAATTGAAA-CAAAATAAAAG
1 ATTAGGACCAAATTGAAATAAAAATAAAAG
* *
71647619 ATTAGGGCCGAATTGAAATAAAAATAAAA
1 ATTAGGACCAAATTGAAATAAAAATAAAA
71647648 TGTAATTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.57, C:0.07, G:0.16, T:0.21
Consensus pattern (30 bp):
ATTAGGACCAAATTGAAATAAAAATAAAAG
Found at i:71654523 original size:21 final size:20
Alignment explanation
Indices: 71654486--71654527 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
71654476 TACTCAAGGA
*
71654486 AAGCCGATTGATCCATCTAAG
1 AAGCCGATTCATCCATC-AAG
71654507 AAGCCGGATTCAT-CATCAAG
1 AAGCC-GATTCATCCATCAAG
71654527 A
1 A
71654528 CTGAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
AAGCCGATTCATCCATCAAG
Found at i:71663831 original size:13 final size:13
Alignment explanation
Indices: 71663813--71663837 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71663803 TAAAAGAGTT
71663813 ATTAATTAAAAAG
1 ATTAATTAAAAAG
71663826 ATTAATTAAAAA
1 ATTAATTAAAAA
71663838 TAAAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Found at i:71665751 original size:6 final size:6
Alignment explanation
Indices: 71665740--71665764 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
71665730 ACCGTAAGGT
71665740 TAACAG TAACAG TAACAG TAACAG T
1 TAACAG TAACAG TAACAG TAACAG T
71665765 CAGGTACGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (6 bp):
TAACAG
Found at i:71678721 original size:17 final size:16
Alignment explanation
Indices: 71678695--71678726 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
71678685 ATAAATTCTA
71678695 TTAAATTATAATTATT
1 TTAAATTATAATTATT
71678711 TTAAATGTATAATTAT
1 TTAAAT-TATAATTAT
71678727 CATAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAAATTATAATTATT
Found at i:71683579 original size:21 final size:23
Alignment explanation
Indices: 71683550--71683591 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
71683540 CCGAAAGTTC
71683550 TTCGAAAAAATCTCA-AAAATAA
1 TTCGAAAAAATCTCAGAAAATAA
*
71683572 TTCG-AAAATTCTCAGAAAAT
1 TTCGAAAAAATCTCAGAAAAT
71683592 CTTAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.26
Consensus pattern (23 bp):
TTCGAAAAAATCTCAGAAAATAA
Done.