Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 154 of 199
Found at i:45468895 original size:18 final size:19
Alignment explanation
Indices: 45468856--45468951 Score: 115
Period size: 19 Copynumber: 5.2 Consensus size: 19
45468846 ATTTTATATT
*
45468856 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGATTTA
*
45468875 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGATTTA
* *
45468893 TTAAATTAAAATAGAATTA
1 TTAAATGAAAATAGATTTA
*
45468912 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGATTTA
* *
45468930 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGATTTA
45468949 TTA
1 TTA
45468952 CTTAATTAGA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
18 30 0.47
19 34 0.53
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (19 bp):
TTAAATGAAAATAGATTTA
Found at i:45468897 original size:37 final size:37
Alignment explanation
Indices: 45468856--45468951 Score: 174
Period size: 37 Copynumber: 2.6 Consensus size: 37
45468846 ATTTTATATT
*
45468856 TTAAATGAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
*
45468893 TTAAATTAAAATAGAATTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
45468930 TTAAATTAAAATAGAGTTATTA
1 TTAAATTAAAATAGAGTTATTA
45468952 CTTAATTAGA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
Found at i:45469659 original size:26 final size:27
Alignment explanation
Indices: 45469608--45469670 Score: 119
Period size: 26 Copynumber: 2.4 Consensus size: 27
45469598 TTTTTTTGGT
45469608 ATATTTTGGTAAATAAAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAAATTATA
45469635 ATATTTTGGTAAAT-AAAAAAATTATA
1 ATATTTTGGTAAATAAAAAAAATTATA
45469661 ATATTTTGGT
1 ATATTTTGGT
45469671 TATTTTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 22 0.61
27 14 0.39
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAATTATA
Found at i:45470160 original size:11 final size:11
Alignment explanation
Indices: 45470144--45470190 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
45470134 TGAAAATAAT
45470144 AAATAATATTA
1 AAATAATATTA
45470155 AAATAATATT-
1 AAATAATATTA
* *
45470165 GAATAAT-GTA
1 AAATAATATTA
45470175 AACATAATATTA
1 AA-ATAATATTA
45470187 AAAT
1 AAAT
45470191 TTTTATACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
9 1 0.03
10 7 0.24
11 17 0.59
12 4 0.14
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (11 bp):
AAATAATATTA
Found at i:45470363 original size:20 final size:20
Alignment explanation
Indices: 45470325--45470362 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
45470315 TTTTACAATT
45470325 TATATGATTTTTAGATTTTA
1 TATATGATTTTTAGATTTTA
*
45470345 TATAT-ATTTTTATATTTT
1 TATATGATTTTTAGATTTT
45470363 TTAATGTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TATATGATTTTTAGATTTTA
Found at i:45476750 original size:11 final size:11
Alignment explanation
Indices: 45476736--45476837 Score: 85
Period size: 11 Copynumber: 9.8 Consensus size: 11
45476726 TAAAAAAAGC
45476736 ATTTTAAAAAT
1 ATTTTAAAAAT
45476747 ATTTT--AAA-
1 ATTTTAAAAAT
*
45476755 A-TTTAAAAAA
1 ATTTTAAAAAT
45476765 ATTTTAAAAAGT
1 ATTTTAAAAA-T
45476777 ATTTTAAAAAT
1 ATTTTAAAAAT
45476788 ATTTT--AAA-
1 ATTTTAAAAAT
*
45476796 A-TTAAAAAAT
1 ATTTTAAAAAT
* **
45476806 AATAAAAAAAGT
1 ATTTTAAAAA-T
45476818 ATTTTAAAAAT
1 ATTTTAAAAAT
45476829 ATTTTAAAA
1 ATTTTAAAA
45476838 TTAAAAAAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
7 5 0.07
8 2 0.03
9 12 0.16
10 2 0.03
11 36 0.48
12 18 0.24
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:45476751 original size:32 final size:31
Alignment explanation
Indices: 45476714--45476787 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 31
45476704 ACCAAAAATT
45476714 TATTTTAAAAATTAAAAAAAGCATTTTAAAAA-
1 TATTTTAAAAATTAAAAAAA--ATTTTAAAAAG
*
45476746 TATTTT-AAAATTTAAAAAAATTTTAAAAAG
1 TATTTTAAAAATTAAAAAAAATTTTAAAAAG
45476776 TATTTTAAAAAT
1 TATTTTAAAAAT
45476788 ATTTTAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
29 10 0.26
30 6 0.15
31 17 0.44
32 6 0.15
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (31 bp):
TATTTTAAAAATTAAAAAAAATTTTAAAAAG
Found at i:45476781 original size:41 final size:40
Alignment explanation
Indices: 45476720--45476854 Score: 207
Period size: 41 Copynumber: 3.3 Consensus size: 40
45476710 AATTTATTTT
*
45476720 AAAAATTAAAAAAAGCATTTTAAAAATATTTTAAAATTTAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA-TTAA
**
45476761 AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
*
45476801 AAAATAATAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAA-ATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
*
45476842 AAAAATTTAAAAA
1 AAAAATTAAAAAA
45476855 TAAATATATT
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
40 15 0.18
41 70 0.82
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (40 bp):
AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
Found at i:45476843 original size:17 final size:17
Alignment explanation
Indices: 45476821--45476865 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
45476811 AAAAAGTATT
45476821 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
*
45476838 TTAAAAA-AATTTAAAA
1 TTAAAAATATTTTAAAA
* *
45476854 ATAAATATATTT
1 TTAAAAATATTT
45476866 ATTATATCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:45477505 original size:28 final size:28
Alignment explanation
Indices: 45477469--45477545 Score: 73
Period size: 33 Copynumber: 2.6 Consensus size: 28
45477459 TGCCATTTTT
*
45477469 TAGGGTTTAGGGTTTTGCTTATTTAAAG
1 TAGGATTTAGGGTTTTGCTTATTTAAAG
* *
45477497 TAGGTTTTAGGTTAATGTTTTGTTTATTTAAAG
1 TAGGATTTAGG-----GTTTTGCTTATTTAAAG
*
45477530 TAAGATTTAGGGTTTT
1 TAGGATTTAGGGTTTT
45477546 TTTAGATTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
28 15 0.38
33 25 0.62
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (28 bp):
TAGGATTTAGGGTTTTGCTTATTTAAAG
Found at i:45480100 original size:25 final size:24
Alignment explanation
Indices: 45480067--45480143 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 24
45480057 TATCATTTCT
*
45480067 GCTCTTTCGAGCCATGATTGGTAA
1 GCTCTTTCGAGCCATGAATGGTAA
* *
45480091 GCTCATTTCGAGCTGAAGAATGGTAA
1 GCTC-TTTCGAGC-CATGAATGGTAA
*
45480117 GCTCTATCGAG-C-TGAAATGGTAA
1 GCTCTTTCGAGCCATG-AATGGTAA
45480140 GCTC
1 GCTC
45480144 ATAAGAGCTG
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
22 1 0.02
23 12 0.27
24 4 0.09
25 14 0.32
26 13 0.30
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (24 bp):
GCTCTTTCGAGCCATGAATGGTAA
Found at i:45480118 original size:26 final size:24
Alignment explanation
Indices: 45480085--45480172 Score: 99
Period size: 26 Copynumber: 3.5 Consensus size: 24
45480075 GAGCCATGAT
*
45480085 TGGTAAGCTCATTTCGAGCTGAAGAA
1 TGGTAAGCTCATATCGAGCTG-A-AA
45480111 TGGTAAGCTC-TATCGAGCTGAAA
1 TGGTAAGCTCATATCGAGCTGAAA
*
45480134 TGGTAAGCTCATA-AGAGCTGATATA
1 TGGTAAGCTCATATCGAGCTGA-A-A
45480159 TCGGTAAGCTCATA
1 T-GGTAAGCTCATA
45480173 CAAGTTGTGG
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
23 19 0.34
24 4 0.07
25 11 0.20
26 22 0.39
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (24 bp):
TGGTAAGCTCATATCGAGCTGAAA
Found at i:45480139 original size:23 final size:24
Alignment explanation
Indices: 45480085--45480169 Score: 84
Period size: 23 Copynumber: 3.4 Consensus size: 24
45480075 GAGCCATGAT
*
45480085 TGGTAAGCTCATTTCGAGCTGAAGAA
1 TGGTAAGCTC-TATCGAGCTG-AGAA
45480111 TGGTAAGCTCTATCGAGCTGA-AA
1 TGGTAAGCTCTATCGAGCTGAGAA
* *
45480134 TGGTAAGCTC-ATAAGAGCTGATATA
1 TGGTAAGCTCTAT-CGAGCTGAGA-A
45480159 TCGGTAAGCTC
1 T-GGTAAGCTC
45480170 ATACAAGTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
22 2 0.04
23 19 0.36
24 2 0.04
25 11 0.21
26 19 0.36
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (24 bp):
TGGTAAGCTCTATCGAGCTGAGAA
Found at i:45485548 original size:13 final size:13
Alignment explanation
Indices: 45485506--45485588 Score: 69
Period size: 13 Copynumber: 6.3 Consensus size: 13
45485496 TCATACATCT
45485506 ATTTCCATATAATC
1 ATTT-CATATAATC
* * *
45485520 AATTCACATAACC
1 ATTTCATATAATC
* *
45485533 ATTTCATTTATTC
1 ATTTCATATAATC
*
45485546 ATTTTATATAATC
1 ATTTCATATAATC
* *
45485559 ATTTCGTACAA-C
1 ATTTCATATAATC
45485571 TATTTCATATAATC
1 -ATTTCATATAATC
45485585 ATTT
1 ATTT
45485589 TATTTCACAC
Statistics
Matches: 51, Mismatches: 16, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
12 1 0.02
13 46 0.90
14 4 0.08
ACGTcount: A:0.35, C:0.18, G:0.01, T:0.46
Consensus pattern (13 bp):
ATTTCATATAATC
Found at i:45485555 original size:39 final size:39
Alignment explanation
Indices: 45485512--45485591 Score: 97
Period size: 39 Copynumber: 2.1 Consensus size: 39
45485502 ATCTATTTCC
* * *
45485512 ATATAATCAATTCACATAACCATTTCATTTATTCATTTT
1 ATATAATCAATTCACACAACCATTTCATATAATCATTTT
* ** *
45485551 ATATAATCATTTCGTACAACTATTTCATATAATCATTTT
1 ATATAATCAATTCACACAACCATTTCATATAATCATTTT
45485590 AT
1 AT
45485592 TTCACACATT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.36, C:0.16, G:0.01, T:0.46
Consensus pattern (39 bp):
ATATAATCAATTCACACAACCATTTCATATAATCATTTT
Found at i:45485827 original size:45 final size:45
Alignment explanation
Indices: 45485763--45485933 Score: 215
Period size: 45 Copynumber: 3.8 Consensus size: 45
45485753 CAATTGTTCA
** * * *
45485763 ATGA-TGCCATAGCATCTTTCAACCATGGTCATATTTATTTCCGAC
1 ATGAGTGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCG-C
45485808 ATGA-TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGGC
1 ATGAGTGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCC-GC
*
45485853 AT-AGTGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTG-
1 ATGAGTGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGC
* *
45485896 GTGTAGTGCCATAGTGTCTTTCAAATATGGTCTTATTC
1 ATG-AGTGCCATAGTGTCTTTCAACTATGGTCTTATTC
45485934 GTTTTTCAAG
Statistics
Matches: 114, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 110 0.96
46 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.40
Consensus pattern (45 bp):
ATGAGTGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCCGC
Found at i:45498019 original size:18 final size:17
Alignment explanation
Indices: 45497963--45498019 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
45497953 AACACACTCA
45497963 ATTTTTCACATTCTTTTTC
1 ATTTTTCAC-TTC-TTTTC
*
45497982 -TTTTTCA-TTGTTTTC
1 ATTTTTCACTTCTTTTC
*
45497997 TTTTTTCACTCTCTTTTC
1 ATTTTTCACT-TCTTTTC
45498015 ATTTT
1 ATTTT
45498020 CTTTTACAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 5 0.16
16 9 0.28
17 1 0.03
18 17 0.53
ACGTcount: A:0.11, C:0.19, G:0.02, T:0.68
Consensus pattern (17 bp):
ATTTTTCACTTCTTTTC
Found at i:45509009 original size:20 final size:20
Alignment explanation
Indices: 45508981--45509019 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
45508971 ATAATATCTA
*
45508981 GCGTTGATGCATCTTCGTGG
1 GCGTCGATGCATCTTCGTGG
45509001 GCGTCGATGCATCTTCGTG
1 GCGTCGATGCATCTTCGTG
45509020 ATCGCGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.23, G:0.33, T:0.33
Consensus pattern (20 bp):
GCGTCGATGCATCTTCGTGG
Found at i:45511853 original size:51 final size:51
Alignment explanation
Indices: 45511798--45511932 Score: 182
Period size: 51 Copynumber: 2.6 Consensus size: 51
45511788 AAAGTGATGG
*
45511798 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGT-TTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGTAAT-GA
* * * * *
45511849 TCACGTGTGTAGTATTATGTGCAGGCTACTACGTGTATCGGATGGTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGTAATGA
* *
45511900 TCACATGCGTAGTACTATGTGCAGGCTACTATG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
45511933 TGAACCAAAC
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 72 0.99
52 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGTAATGA
Found at i:45511992 original size:45 final size:45
Alignment explanation
Indices: 45511941--45512029 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
45511931 TGTGAACCAA
* *
45511941 ACATCATTGATTAGTAAGGCGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGCGGTTGCTATGTGCTGAATCCACCGG
*
45511986 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ACATCATTGATTAATAAGGCGGTTGCTATGTGCTGAATCCACCG
45512030 AGTATCTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGCGGTTGCTATGTGCTGAATCCACCGG
Found at i:45519634 original size:13 final size:13
Alignment explanation
Indices: 45519616--45519641 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45519606 TAACCGTTAA
45519616 TTTTATTTTTTAT
1 TTTTATTTTTTAT
45519629 TTTTATTTTTTAT
1 TTTTATTTTTTAT
45519642 AAGTTTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:45520463 original size:35 final size:35
Alignment explanation
Indices: 45520417--45520487 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
45520407 CCTATGCATT
45520417 CCAGCTGTATTCAATGGGTCCACAATAAACAATTG
1 CCAGCTGTATTCAATGGGTCCACAATAAACAATTG
45520452 CCAGCTGTATTCAATGGGTCCACAATAAACAATTG
1 CCAGCTGTATTCAATGGGTCCACAATAAACAATTG
45520487 C
1 C
45520488 TTGGTTTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (35 bp):
CCAGCTGTATTCAATGGGTCCACAATAAACAATTG
Found at i:45522519 original size:22 final size:21
Alignment explanation
Indices: 45522469--45522575 Score: 79
Period size: 20 Copynumber: 5.4 Consensus size: 21
45522459 CACATTACTT
45522469 ATAATATTTATTATTTTATAA
1 ATAATATTTATTATTTTATAA
45522490 A-AATATTTATTATCTTGTA-AA
1 ATAATATTTATTAT-TT-TATAA
*
45522511 ATAATA-TT-TT-TTTGAT-A
1 ATAATATTTATTATTTTATAA
* ** *
45522528 AT-TTCA-TTATTAAATTAAAA
1 ATAAT-ATTTATTATTTTATAA
45522548 ATAATATTTATTATTTTATAA
1 ATAATATTTATTATTTTATAA
45522569 A-AATATT
1 ATAATATT
45522576 AAAATTTTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 21
0.68 0.10 0.22
Matches are distributed among these distances:
16 1 0.02
17 7 0.11
18 4 0.06
19 3 0.05
20 24 0.36
21 21 0.32
22 6 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
ATAATATTTATTATTTTATAA
Found at i:45526588 original size:61 final size:58
Alignment explanation
Indices: 45526463--45526608 Score: 181
Period size: 61 Copynumber: 2.5 Consensus size: 58
45526453 TTATTAATTC
45526463 ATAT-TTTAATAATAATTATATTAAAA-ATGTTATTAAATTATATATTATTTTATTAAA
1 ATATATTTAATAATAATTATATTAAAATATG-TATTAAATTATATATTATTTTATTAAA
* * * *
45526520 TTGTATTTAACAATAATTATGTTAAAATATG-ATTAAATTATTTATTATTATTTTTATTAAA
1 ATATATTTAATAATAATTATATTAAAATATGTATTAAATTA--TA-TATTA-TTTTATTAAA
*
45526581 ATATATTTAATAATAATCATATTAAAAT
1 ATATATTTAATAATAATTATATTAAAAT
45526609 TTAATAACAA
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
57 11 0.15
58 20 0.27
59 5 0.07
60 5 0.07
61 33 0.45
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (58 bp):
ATATATTTAATAATAATTATATTAAAATATGTATTAAATTATATATTATTTTATTAAA
Found at i:45527354 original size:18 final size:18
Alignment explanation
Indices: 45527327--45527381 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
45527317 TTAACTTTTG
* *
45527327 AAAATCTAAAATATTATT
1 AAAATTTAAAATATTATA
45527345 AAAATTTAAAATATTTATA
1 AAAATTTAAAATA-TTATA
45527364 AAAATTCTAAAA-ATTATA
1 AAAATT-TAAAATATTATA
45527382 TAAGAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 17 0.52
19 11 0.33
20 5 0.15
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTTAAAATATTATA
Found at i:45527949 original size:13 final size:13
Alignment explanation
Indices: 45527931--45527955 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45527921 TTATGAAAAT
45527931 TTAAAAATTTTGC
1 TTAAAAATTTTGC
45527944 TTAAAAATTTTG
1 TTAAAAATTTTG
45527956 AAGGAATTAA
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:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
TTAAAAATTTTGC
Found at i:45532360 original size:42 final size:42
Alignment explanation
Indices: 45532301--45532388 Score: 149
Period size: 42 Copynumber: 2.1 Consensus size: 42
45532291 GATCAACCGA
45532301 AGAAGTATTGGACTGAGATTGCACCAAATCAACATCTCATGG
1 AGAAGTATTGGACTGAGATTGCACCAAATCAACATCTCATGG
* **
45532343 AGAAGTATTGGACTGAGATTGCACCAAATCAATATCTGGTGG
1 AGAAGTATTGGACTGAGATTGCACCAAATCAACATCTCATGG
45532385 AGAA
1 AGAA
45532389 CCTAGTAGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (42 bp):
AGAAGTATTGGACTGAGATTGCACCAAATCAACATCTCATGG
Found at i:45534338 original size:18 final size:18
Alignment explanation
Indices: 45534315--45534351 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
45534305 TGACCATCAG
45534315 CTGCATAGTAACCTTGAC
1 CTGCATAGTAACCTTGAC
45534333 CTGCATAGTAACCTTGAC
1 CTGCATAGTAACCTTGAC
45534351 C
1 C
45534352 ATAAGAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (18 bp):
CTGCATAGTAACCTTGAC
Found at i:45538247 original size:5 final size:5
Alignment explanation
Indices: 45538237--45538271 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
45538227 TCATTTTCAA
45538237 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
45538272 CCTAATCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:45543083 original size:17 final size:16
Alignment explanation
Indices: 45543057--45543090 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
45543047 TTTTTCTCAC
45543057 AAAAAAAAAAGGAAAA
1 AAAAAAAAAAGGAAAA
45543073 AAAAAAGAAAAGGAAAA
1 AAAAAA-AAAAGGAAAA
45543090 A
1 A
45543091 CAATTCAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAGGAAAA
Found at i:45551377 original size:21 final size:20
Alignment explanation
Indices: 45551351--45551404 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
45551341 ATAAATACTA
*
45551351 AAAATAAAATAAATGAAAGAC
1 AAAATAAAATAAATCAAA-AC
*
45551372 AAAATAAAATAAATCAAAAT
1 AAAATAAAATAAATCAAAAC
45551392 AAAAGTAAAATAA
1 AAAA-TAAAATAA
45551405 TAAATAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 5 0.17
21 25 0.83
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.17
Consensus pattern (20 bp):
AAAATAAAATAAATCAAAAC
Found at i:45551391 original size:15 final size:16
Alignment explanation
Indices: 45551371--45551400 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45551361 AAATGAAAGA
45551371 CAAAATAAAA-TAAAT
1 CAAAATAAAAGTAAAT
45551386 CAAAATAAAAGTAAA
1 CAAAATAAAAGTAAA
45551401 ATAATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.17
Consensus pattern (16 bp):
CAAAATAAAAGTAAAT
Found at i:45551413 original size:21 final size:20
Alignment explanation
Indices: 45551351--45551415 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
45551341 ATAAATACTA
* *
45551351 AAAATAAAATAAATGAAAGAC
1 AAAATAAAATAAAT-AAAAAT
*
45551372 AAAATAAAATAAATCAAAAT
1 AAAATAAAATAAATAAAAAT
45551392 AAAAGTAAAAT-AATAAATAAT
1 AAAA-TAAAATAAATAAA-AAT
45551413 AAA
1 AAA
45551416 TAGATAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.32
21 26 0.68
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAATAAAATAAATAAAAAT
Found at i:45561356 original size:41 final size:41
Alignment explanation
Indices: 45561311--45561466 Score: 278
Period size: 41 Copynumber: 3.8 Consensus size: 41
45561301 TGATTCAGTA
45561311 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATGTAT
45561352 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
45561393 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
* *
45561434 CACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTG
45561467 TATTACATTC
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
40 2 0.02
41 110 0.98
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTAT
Found at i:45570006 original size:10 final size:10
Alignment explanation
Indices: 45569986--45570017 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
45569976 TAAACTTGAG
45569986 ATTTAAGGTAC
1 ATTT-AGGTAC
45569997 ATTTAGGTAC
1 ATTTAGGTAC
45570007 ATTTAGGTAC
1 ATTTAGGTAC
45570017 A
1 A
45570018 CACAACCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (10 bp):
ATTTAGGTAC
Found at i:45573044 original size:7 final size:7
Alignment explanation
Indices: 45573032--45573074 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
45573022 TATGCATGCC
45573032 ATATGAT
1 ATATGAT
45573039 ATATGAT
1 ATATGAT
45573046 ATATGAT
1 ATATGAT
45573053 ATATGTAT
1 ATATG-AT
*
45573061 GTATGAT
1 ATATGAT
*
45573068 ATTTGAT
1 ATATGAT
45573075 TAAGATATGC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (7 bp):
ATATGAT
Found at i:45573083 original size:22 final size:22
Alignment explanation
Indices: 45573040--45573083 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
45573030 CCATATGATA
*
45573040 TATGATATATGATATATGTATG
1 TATGATATATGATATAAGTATG
*
45573062 TATGATATTTGAT-TAAGATATG
1 TATGATATATGATATAAG-TATG
45573084 CATATGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (22 bp):
TATGATATATGATATAAGTATG
Found at i:45573585 original size:30 final size:27
Alignment explanation
Indices: 45573551--45573611 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 27
45573541 TAAGTATTAT
*
45573551 GGACTTTCTTTTGTTTAATATGGACGTTTA
1 GGACTTTCTTTGGTTT--TATGGAC-TTTA
*
45573581 GGACTTTCTTTGGTTTTATGGACTTTT
1 GGACTTTCTTTGGTTTTATGGACTTTA
45573608 GGAC
1 GGAC
45573612 ATTTTAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 7 0.24
28 7 0.24
30 15 0.52
ACGTcount: A:0.16, C:0.11, G:0.23, T:0.49
Consensus pattern (27 bp):
GGACTTTCTTTGGTTTTATGGACTTTA
Found at i:45575119 original size:39 final size:40
Alignment explanation
Indices: 45575062--45575153 Score: 141
Period size: 39 Copynumber: 2.3 Consensus size: 40
45575052 AAATATATTT
* * * *
45575062 ATTTTTTAAATTTTAAAATATTTTTTACATAC-TTTTTTA
1 ATTTTTTTAATTTAAAAATATTTTTAAAATACTTTTTTTA
45575101 ATTTTTTTAATTTAAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTAAAAATATTTTTAAAATACTTTTTTTA
45575141 ATTTTTTTAATTT
1 ATTTTTTTAATTT
45575154 TTTTAATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
39 28 0.58
40 20 0.42
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (40 bp):
ATTTTTTTAATTTAAAAATATTTTTAAAATACTTTTTTTA
Found at i:45575186 original size:31 final size:31
Alignment explanation
Indices: 45575151--45575211 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
45575141 ATTTTTTTAA
45575151 TTTTTTTA-ATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAGATTTTAAAA-ATTTTTAAAATAC
* *
45575182 TTTTTTTAGTTTTTTAAAATTTTTAAAATA
1 TTTTTTTAGATTTTAAAAATTTTTAAAATA
45575212 AAAATGGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (31 bp):
TTTTTTTAGATTTTAAAAATTTTTAAAATAC
Found at i:45575187 original size:50 final size:49
Alignment explanation
Indices: 45575072--45575205 Score: 191
Period size: 49 Copynumber: 2.7 Consensus size: 49
45575062 ATTTTTTAAA
45575072 TTTTAAAATA--TTTTTTACATACTTTTTTAATTTTTTTAATTTAAAAATAT
1 TTTTAAAATACTTTTTTTA-AT--TTTTTTAATTTTTTTAATTTAAAAATAT
*
45575122 TTTTAAAATACTTTTTTTAATTTTTTTAATTTTTTTAATTTTAAAATAT
1 TTTTAAAATACTTTTTTTAATTTTTTTAATTTTTTTAATTTAAAAATAT
* * *
45575171 TTTTAAAATACTTTTTTTAGTTTTTTAAAATTTTT
1 TTTTAAAATACTTTTTTTAATTTTTTTAATTTTTT
45575206 AAAATAAAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
49 59 0.76
50 10 0.13
51 2 0.03
52 7 0.09
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (49 bp):
TTTTAAAATACTTTTTTTAATTTTTTTAATTTTTTTAATTTAAAAATAT
Found at i:45578625 original size:38 final size:40
Alignment explanation
Indices: 45578574--45578653 Score: 137
Period size: 38 Copynumber: 2.0 Consensus size: 40
45578564 AGTAGTGAGG
*
45578574 GTGTTGGAGTGATTTTAGGAGGAAAATATGGGA-T-TGGA
1 GTGTTGGAGTGATTTTAGAAGGAAAATATGGGACTGTGGA
45578612 GTGTTGGAGTGATTTTAGAAGGAAAATATGGGACTGTGGA
1 GTGTTGGAGTGATTTTAGAAGGAAAATATGGGACTGTGGA
45578652 GT
1 GT
45578654 TATCCCAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 32 0.82
39 1 0.03
40 6 0.15
ACGTcount: A:0.29, C:0.01, G:0.39, T:0.31
Consensus pattern (40 bp):
GTGTTGGAGTGATTTTAGAAGGAAAATATGGGACTGTGGA
Found at i:45580172 original size:34 final size:35
Alignment explanation
Indices: 45580150--45580214 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
45580140 TAATGCTTAT
*
45580150 TGATACTGAAATGGGCTTAGG-CCTAAACTGATAC
1 TGATACTGAAAAGGGCTTAGGCCCTAAACTGATAC
45580184 TGATACTGAAAAGGGCTTAGGCCC-AAACTGA
1 TGATACTGAAAAGGGCTTAGGCCCTAAACTGA
45580215 GATTATTTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (35 bp):
TGATACTGAAAAGGGCTTAGGCCCTAAACTGATAC
Found at i:45582027 original size:42 final size:43
Alignment explanation
Indices: 45581967--45582064 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 43
45581957 TGAGATTTAT
* *
45581967 GTGTAAGACCATGTCTGGGAG-ATTGGCATCG-TATATGATTAC
1 GTGTAAGACCATGCCTGGG-GCAATGGCATCGTTATATGATTAC
* * *
45582009 GTGTAAGACCTTGCCTGGGGCAATGGCATCGTTGTTTGATTAC
1 GTGTAAGACCATGCCTGGGGCAATGGCATCGTTATATGATTAC
*
45582052 ATGTAAGACCATG
1 GTGTAAGACCATG
45582065 TCTAGGACGT
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
41 1 0.02
42 26 0.55
43 20 0.43
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATGCCTGGGGCAATGGCATCGTTATATGATTAC
Found at i:45582079 original size:43 final size:42
Alignment explanation
Indices: 45581922--45582080 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 42
45581912 AAAGTGACAT
* * *
45581922 CGTGTAAGACCACGTCTAGGGCGTTGGCCTCGATTTGA-GATTTA
1 CGTGTAAGACCATGTCTAGGACGTTGGCATCG-TTT-ATGA-TTA
* * *
45581966 TGTGTAAGACCATGTCTGGGA-GATTGGCATCGTATATGATTA
1 CGTGTAAGACCATGTCTAGGACG-TTGGCATCGTTTATGATTA
* * * * ** *
45582008 CGTGTAAGACCTTGCCTGGGGCAATGGCATCGTTGTTTGATTA
1 CGTGTAAGACCATGTCTAGGACGTTGGCATCGTT-TATGATTA
*
45582051 CATGTAAGACCATGTCTAGGACGTTGGCAT
1 CGTGTAAGACCATGTCTAGGACGTTGGCAT
45582081 TGTATGAGCT
Statistics
Matches: 90, Mismatches: 21, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
42 30 0.33
43 35 0.39
44 25 0.28
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTAGGACGTTGGCATCGTTTATGATTA
Found at i:45590502 original size:16 final size:16
Alignment explanation
Indices: 45590481--45590512 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45590471 GTTTTGTTGC
*
45590481 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
45590497 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
45590513 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:45590794 original size:51 final size:51
Alignment explanation
Indices: 45590730--45590930 Score: 221
Period size: 51 Copynumber: 4.0 Consensus size: 51
45590720 ATTAATGATA
* * *
45590730 CCGGTTCACGTAGTAGCCTGCACATAGTACTACACATGTAACCATCACTAT
1 CCGGTACACGTAGTACCCTGCACATAGTACTACACACGTAACCATCACTAT
* * * *
45590781 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTAT
1 CCGGTACACGTAGTACCCTGCACATAGTACTACACACGT-AACCATCA-CTAT
* * * **
45590832 CCGGTACGCATAGTACCCTGCACATAGTACTACACATGCGACCTATCA-T-T
1 CCGGTACACGTAGTACCCTGCACATAGTACTACACACGTAACC-ATCACTAT
* *
45590882 CTGGTACACGTAGTACCCTGCACATAGTACTACACACGTGACCATCACT
1 CCGGTACACGTAGTACCCTGCACATAGTACTACACACGTAACCATCACT
45590931 TTCACTTTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
49 4 0.03
50 42 0.34
51 75 0.60
52 3 0.02
53 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (51 bp):
CCGGTACACGTAGTACCCTGCACATAGTACTACACACGTAACCATCACTAT
Found at i:45590918 original size:101 final size:102
Alignment explanation
Indices: 45590740--45590922 Score: 289
Period size: 101 Copynumber: 1.8 Consensus size: 102
45590730 CCGGTTCACG
* * *
45590740 TAGTAGCCTGCACATAGTACTACACATGTAACCATCACTATCCGATACACGTAGTAGCCTGCACA
1 TAGTACCCTGCACATAGTACTACACATGCAACCATCACTATCCGATACACGTAGTACCCTGCACA
45590805 TAGTACTACACACGTGATCGAAGCTATCCGGTACGCA
66 TAGTACTACACACGTGATCGAAGCTATCCGGTACGCA
* * *
45590842 TAGTACCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTACCCTGCAC
1 TAGTACCCTGCACATAGTACTACACATGCAACC-ATCACTATCCGATACACGTAGTACCCTGCAC
45590905 ATAGTACTACACACGTGA
65 ATAGTACTACACACGTGA
45590923 CCATCACTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 39 0.53
102 31 0.42
103 4 0.05
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (102 bp):
TAGTACCCTGCACATAGTACTACACATGCAACCATCACTATCCGATACACGTAGTACCCTGCACA
TAGTACTACACACGTGATCGAAGCTATCCGGTACGCA
Found at i:45591152 original size:16 final size:16
Alignment explanation
Indices: 45591131--45591161 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45591121 AATCCAGTCC
45591131 AAAAATCACATTTTGG
1 AAAAATCACATTTTGG
*
45591147 AAAAATTACATTTTG
1 AAAAATCACATTTTG
45591162 CCCCTAAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (16 bp):
AAAAATCACATTTTGG
Found at i:45593837 original size:34 final size:35
Alignment explanation
Indices: 45593812--45593879 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
45593802 CCCTAATGCT
* *
45593812 TACTGATACTGAAATGGGCTTAGG-CCTAAACTGA
1 TACTGATACTAAAAAGGGCTTAGGCCCTAAACTGA
*
45593846 TACTGATACTAAAAAGAGCTTAGGCCC-AAACTGA
1 TACTGATACTAAAAAGGGCTTAGGCCCTAAACTGA
45593880 GATTACCTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 28 0.93
35 2 0.07
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (35 bp):
TACTGATACTAAAAAGGGCTTAGGCCCTAAACTGA
Found at i:45596234 original size:19 final size:21
Alignment explanation
Indices: 45596192--45596233 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
45596182 AATATGGACG
* *
45596192 AATTGAGATTGTATAAATTAA
1 AATTGAAATTGTATAAACTAA
45596213 AATTGAAATTGTA-AAACTAA
1 AATTGAAATTGTATAAACTAA
45596233 A
1 A
45596234 TAGAATAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.33
Consensus pattern (21 bp):
AATTGAAATTGTATAAACTAA
Found at i:45598148 original size:13 final size:13
Alignment explanation
Indices: 45598130--45598170 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
45598120 AACATGCAAG
45598130 AAAATAAAAATAA
1 AAAATAAAAATAA
* *
45598143 AAAATATATATAA
1 AAAATAAAAATAA
45598156 AAAATAAAAATAA
1 AAAATAAAAATAA
45598169 AA
1 AA
45598171 TTGGGTTGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:45599259 original size:19 final size:19
Alignment explanation
Indices: 45599235--45599271 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
45599225 TTAAAGTTAT
45599235 TTAGGTAGATAAATCTTAC
1 TTAGGTAGATAAATCTTAC
*
45599254 TTAGGTGGATAAATCTTA
1 TTAGGTAGATAAATCTTA
45599272 GAATAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (19 bp):
TTAGGTAGATAAATCTTAC
Found at i:45600063 original size:24 final size:24
Alignment explanation
Indices: 45600035--45600084 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
45600025 AATTTTAGGA
45600035 CATAGTCTCGGGGAGGATGATTAG
1 CATAGTCTCGGGGAGGATGATTAG
45600059 CATAGTCTCGGGGAGGATGATTAG
1 CATAGTCTCGGGGAGGATGATTAG
45600083 CA
1 CA
45600085 ATGCTAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.14, G:0.36, T:0.24
Consensus pattern (24 bp):
CATAGTCTCGGGGAGGATGATTAG
Found at i:45603120 original size:19 final size:19
Alignment explanation
Indices: 45603096--45603136 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
45603086 TATTTTAAAG
45603096 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
45603115 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
45603134 TTA
1 TTA
45603137 GAATAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:45607151 original size:15 final size:15
Alignment explanation
Indices: 45607133--45607162 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
45607123 TTTATACTTC
45607133 TTATGCCTATAAATA
1 TTATGCCTATAAATA
45607148 TTATGCCTATAAATA
1 TTATGCCTATAAATA
45607163 GAGACTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (15 bp):
TTATGCCTATAAATA
Found at i:45608174 original size:34 final size:33
Alignment explanation
Indices: 45608136--45608234 Score: 88
Period size: 34 Copynumber: 3.2 Consensus size: 33
45608126 TAAACACAAC
*
45608136 AATTTATAACAGAATCCTAAATTACTAATAAATT
1 AATTTATAACA-AATCCTAAATTACTAACAAATT
* *
45608170 AATTT-T-A-AAA---T-AATTACAAACACAA-C
1 AATTTATAACAAATCCTAAATTACTAACA-AATT
45608196 AATTTATAACATAATCCTAAATTACTAACAAATT
1 AATTTATAACA-AATCCTAAATTACTAACAAATT
45608230 AATTT
1 AATTT
45608235 TAAAATAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 20
0.67 0.07 0.27
Matches are distributed among these distances:
26 14 0.28
27 4 0.08
28 1 0.02
29 1 0.02
30 4 0.08
31 1 0.02
32 1 0.02
33 4 0.08
34 20 0.40
ACGTcount: A:0.52, C:0.13, G:0.01, T:0.34
Consensus pattern (33 bp):
AATTTATAACAAATCCTAAATTACTAACAAATT
Found at i:45608194 original size:60 final size:60
Alignment explanation
Indices: 45608127--45608245 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
45608117 ATACTAAACT
*
45608127 AAACACAACAATTTATAACAGAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACAGAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
*
45608187 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAACAATTTATAACAGAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
45608246 TAAAAAAAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (60 bp):
AAACACAACAATTTATAACAGAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:45608540 original size:26 final size:25
Alignment explanation
Indices: 45608510--45608566 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 25
45608500 AATATTTCTA
45608510 ATAAAAATAAAATAATAATATTTTATT
1 ATAAAAAT-AAA-AATAATATTTTATT
*
45608537 -T-AAAGTAAAAATAATATTTTATT
1 ATAAAAATAAAAATAATATTTTATT
45608560 ATAAAAA
1 ATAAAAA
45608567 AAGTGATTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 14 0.54
24 4 0.15
25 7 0.27
26 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (25 bp):
ATAAAAATAAAAATAATATTTTATT
Found at i:45608910 original size:32 final size:33
Alignment explanation
Indices: 45608849--45608930 Score: 112
Period size: 32 Copynumber: 2.4 Consensus size: 33
45608839 TTTGTTAAAT
*
45608849 ATTTATGTGAGGCATGATAGACAAAAAAAAATATAC
1 ATTTATATGAGG-ATGATAGAC--AAAAAAATATAC
*
45608885 ATTTATATGAGGATGATAGAC-AAAAAATATAT
1 ATTTATATGAGGATGATAGACAAAAAAATATAC
45608917 ATTTATATGAGGAT
1 ATTTATATGAGGAT
45608931 TTAGTTATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
32 24 0.55
35 9 0.20
36 11 0.25
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.30
Consensus pattern (33 bp):
ATTTATATGAGGATGATAGACAAAAAAATATAC
Found at i:45611657 original size:31 final size:25
Alignment explanation
Indices: 45611591--45611650 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
45611581 TAGAAAGACC
*
45611591 AAAATTGAAAATTAATTATTGTTAT
1 AAAATTAAAAATTAATTATTGTTAT
45611616 AAAATTAAAAATTAATTATTGTTAT
1 AAAATTAAAAATTAATTATTGTTAT
*
45611641 AAAATGAAAA
1 AAAATTAAAA
45611651 TAAAAAACAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (25 bp):
AAAATTAAAAATTAATTATTGTTAT
Found at i:45620352 original size:19 final size:17
Alignment explanation
Indices: 45620323--45620368 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
45620313 ATGCACTCAA
45620323 TTTTTCACTTTCTCTTT
1 TTTTTCACTTTCTCTTT
*
45620340 CTTTTTCATCTTTTTC-TT
1 -TTTTTCA-CTTTCTCTTT
45620358 TTTTTCACTTT
1 TTTTTCACTTT
45620369 ATTTTCCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 4 0.15
17 7 0.27
18 9 0.35
19 6 0.23
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTCACTTTCTCTTT
Found at i:45622586 original size:28 final size:28
Alignment explanation
Indices: 45622540--45622619 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
45622530 ATTATATATA
*
45622540 TTTTTTAATTTCGA--TTTTTTTAACTT
1 TTTTTTAATTTCAATTTTTTTTTAACTT
*
45622566 TTTTTTAATTTCAATTTTTTTTCAACTT
1 TTTTTTAATTTCAATTTTTTTTTAACTT
*
45622594 TTTTTTCATTTCGAATTCTTTTTTTA
1 TTTTTTAATTTC-AATT-TTTTTTTA
45622620 CGTACCTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.28
28 22 0.48
29 4 0.09
30 7 0.15
ACGTcount: A:0.19, C:0.10, G:0.03, T:0.69
Consensus pattern (28 bp):
TTTTTTAATTTCAATTTTTTTTTAACTT
Found at i:45625280 original size:15 final size:16
Alignment explanation
Indices: 45625246--45625281 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
45625236 TTATCATTAA
*
45625246 AAATAAAAAAAAACTC
1 AAATTAAAAAAAACTC
45625262 AAATTAAAAAAAACT-
1 AAATTAAAAAAAACTC
45625277 AAATT
1 AAATT
45625282 TCTGAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.19
Consensus pattern (16 bp):
AAATTAAAAAAAACTC
Found at i:45627443 original size:34 final size:34
Alignment explanation
Indices: 45627388--45627453 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
45627378 CAAACACTAG
*
45627388 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
*
45627423 AAAACATTTTCCCG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
45627454 ATATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:45627955 original size:11 final size:10
Alignment explanation
Indices: 45627928--45627968 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
45627918 TCCTTATTTG
45627928 CATAATTAAA
1 CATAATTAAA
45627938 CATAATTAAA
1 CATAATTAAA
*
45627948 CAATAATTAAT
1 C-ATAATTAAA
*
45627959 CATAAATAAA
1 CATAATTAAA
45627969 TGTTAAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (10 bp):
CATAATTAAA
Found at i:45627955 original size:21 final size:21
Alignment explanation
Indices: 45627929--45627968 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45627919 CCTTATTTGC
*
45627929 ATAATTAAACATAATTAAACA
1 ATAATTAAACATAAATAAACA
*
45627950 ATAATTAATCATAAATAAA
1 ATAATTAAACATAAATAAA
45627969 TGTTAAAATC
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:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAATTAAACATAAATAAACA
Found at i:45633727 original size:36 final size:37
Alignment explanation
Indices: 45633668--45633739 Score: 112
Period size: 35 Copynumber: 2.0 Consensus size: 37
45633658 TTAATAAACA
45633668 TTAAAAATCATTTTAAAAATTAAAAAAATAAAAATATT
1 TTAAAAATCATTTTAAAAATT-AAAAAATAAAAATATT
*
45633706 TTAAAAGT-ATTTT-AAAATTAAAAAATAAAAATAT
1 TTAAAAATCATTTTAAAAATTAAAAAATAAAAATAT
45633740 ATATTTATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 15 0.45
36 6 0.18
37 5 0.15
38 7 0.21
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (37 bp):
TTAAAAATCATTTTAAAAATTAAAAAATAAAAATATT
Found at i:45633761 original size:5 final size:5
Alignment explanation
Indices: 45633754--45633789 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
45633744 TTATTATATT
*
45633754 CGGGT CGGGC CGGGC CGGGC CGGGC CGGGC CAGGGC
1 CGGGC CGGGC CGGGC CGGGC CGGGC CGGGC C-GGGC
45633790 AAAAAAGTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.03, C:0.36, G:0.58, T:0.03
Consensus pattern (5 bp):
CGGGC
Found at i:45634479 original size:13 final size:13
Alignment explanation
Indices: 45634442--45634492 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
45634432 TTCTTCATTG
45634442 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
*
45634455 -TTGTGGAAAAGTA
1 CTT-TTGAAAAGTA
* *
45634468 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
45634481 CTTTTGAAAAGT
1 CTTTTGAAAAGT
45634493 TTAGTTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 2 0.06
13 27 0.87
14 2 0.06
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:45637599 original size:16 final size:16
Alignment explanation
Indices: 45637578--45637616 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
45637568 ACCTTATCAT
45637578 AAGCTTTACTCATATC
1 AAGCTTTACTCATATC
45637594 AAGCTTTACTCATATC
1 AAGCTTTACTCATATC
*
45637610 AACCTTT
1 AAGCTTT
45637617 TTGTAGGCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (16 bp):
AAGCTTTACTCATATC
Found at i:45641614 original size:22 final size:22
Alignment explanation
Indices: 45641589--45641635 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
45641579 ATACTATATG
45641589 AAATAAAAATATATT-ATTAAAT
1 AAATAAAAATA-ATTAATTAAAT
*
45641611 AAATTAAAATAATTAATTAAAT
1 AAATAAAAATAATTAATTAAAT
45641633 AAA
1 AAA
45641636 AATAACTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATAAAAATAATTAATTAAAT
Found at i:45641640 original size:18 final size:18
Alignment explanation
Indices: 45641604--45641645 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
45641594 AAAATATATT
*
45641604 ATTAAATAAATTAAAATA
1 ATTAAATAAATAAAAATA
*
45641622 ATTAATTAAATAAAAATA
1 ATTAAATAAATAAAAATA
*
45641640 ACTAAA
1 ATTAAA
45641646 CACATAATAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
ATTAAATAAATAAAAATA
Found at i:45648554 original size:28 final size:27
Alignment explanation
Indices: 45648507--45648560 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
45648497 TTTCAATTAA
*
45648507 TAAAATAATTAATTAAATAAATAAAAC
1 TAAAATAATTAATTAAATAAAAAAAAC
*
45648534 TAAAAGTAATTGAA-TATATAAAAAAAA
1 TAAAA-TAATT-AATTAAATAAAAAAAA
45648561 TCATATTATC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 5 0.22
28 16 0.70
29 2 0.09
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (27 bp):
TAAAATAATTAATTAAATAAAAAAAAC
Found at i:45655505 original size:25 final size:24
Alignment explanation
Indices: 45655454--45655504 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
45655444 TTGAATATTA
* *
45655454 TTTAATATTTTTTATTTATGTAAT
1 TTTAATAATTTTTATTTATATAAT
45655478 TTTAATTAATTTTTATTT-TATAAT
1 TTTAA-TAATTTTTATTTATATAAT
45655502 TTT
1 TTT
45655505 TTATAACAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTAATAATTTTTATTTATATAAT
Found at i:45657057 original size:18 final size:18
Alignment explanation
Indices: 45657034--45657076 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
45657024 TGTCAGGTGC
*
45657034 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
45657052 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
45657070 GTTTCCT
1 GTATCCT
45657077 TTTCTCAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:45661061 original size:126 final size:126
Alignment explanation
Indices: 45660620--45661140 Score: 731
Period size: 126 Copynumber: 4.1 Consensus size: 126
45660610 GGCCAAACAT
* * *
45660620 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTAAGTAATTCTGTTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * *
45660685 CTGCTTGAAGCGTTTTTGACACTATTTTTTTTAGAATCGTCTTCTCAAAATTATTTTTTCTG
66 CTGCTTGAAGCGTTTTTGACACTA-TTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTCAG
* * * *
45660747 AAACTATTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
45660812 CTGCTTGAAGTGTTTTTGACACTATTTTTTCAAAACTGTCTTCTCAAAATTA-TTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTCAG
* * * *
45660872 GAACTACTGTAGAAATAGAGCGTCTACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * *
45660937 CTGCTTGAAGAGTTTTTGAAACTATTTTTTCAGAACCGTCTTCTTAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTCAG
* * * *
45660998 GAACTACTGTAGAAAAGGAGCATCCACTTGGGAGCTTTTTTCAGTAAGTTTGCTAACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * * * *
45661063 CTGCTTGAAGCGTTTTTGGCATTATCTTCTCAAAACCGTCTTCTCAAAATTAATTTTTCTA-
66 CTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTC-AG
*
45661124 AAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
45661141 AACAAAATCC
Statistics
Matches: 349, Mismatches: 43, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
125 113 0.32
126 154 0.44
127 82 0.23
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTTCAG
Found at i:45661071 original size:251 final size:253
Alignment explanation
Indices: 45660620--45661140 Score: 760
Period size: 251 Copynumber: 2.1 Consensus size: 253
45660610 GGCCAAACAT
*
45660620 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTAAGTAATTCTGTTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTAAGTAATTCTGCTGACAGTGCATC
* * * * *
45660685 CTGCTTGAAGCGTTTTTGACACTATTTTTTTTAGAATCGTCTTCTCAAAATTATTTTTTCTGAAA
66 CTGCTTGAAGAGTTTTTGAAACTATTTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGAAA
* * * *
45660750 CTATTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGATAGTGCATCCTG
131 CTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGTAAGTTTGCTAACAGTGCATCCTG
* * * *
45660815 CTTGAAGTGTTTTTGACACTATTTTTTCAAAACTGTCTTCTCAAAATT-ATTTTTC-A
196 CTTGAAGCGTTTTTGACACTATCTTCTCAAAACCGTCTTCTCAAAATTAATTTTTCTA
* * * * * *
45660871 GGAACTACTGTAGAAATAGAGCGTCTACGTGGGAGCTTTTTTCAGTAATTTTGCTGATAGTGCAT
1 -GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTAAGTAATTCTGCTGACAGTGCAT
* *
45660936 CCTGCTTGAAGAGTTTTTGAAACTA-TTTTTTCAGAACCGTCTTCTTAAAATTATTTTTTCAGGA
65 CCTGCTTGAAGAGTTTTTGAAACTATTTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGAA
* * *
45661000 ACTACTGTAGAAAAGGAGCATCCACTTGGGAGCTTTTTTCAGTAAGTTTGCTAACAGTGCATCCT
130 ACTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGTAAGTTTGCTAACAGTGCATCCT
* *
45661065 GCTTGAAGCGTTTTTGGCATTATCTTCTCAAAACCGTCTTCTCAAAATTAATTTTTCTA
195 GCTTGAAGCGTTTTTGACACTATCTTCTCAAAACCGTCTTCTCAAAATTAATTTTTCTA
*
45661124 AAACTACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
45661141 AACAAAATCC
Statistics
Matches: 238, Mismatches: 29, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
251 135 0.57
252 102 0.43
253 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (253 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTAAGTAATTCTGCTGACAGTGCATC
CTGCTTGAAGAGTTTTTGAAACTATTTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTCAGAAA
CTACTGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGTAAGTTTGCTAACAGTGCATCCTG
CTTGAAGCGTTTTTGACACTATCTTCTCAAAACCGTCTTCTCAAAATTAATTTTTCTA
Found at i:45661296 original size:29 final size:29
Alignment explanation
Indices: 45661260--45661327 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
45661250 CCTAATTTAA
* *
45661260 TTAATTTATTTAAAACTCTAAAATCTAAT
1 TTAATTTATTTAAAACCCTAAAACCTAAT
45661289 TTAATTTATTTAAAACCCTAAAACCTAAT
1 TTAATTTATTTAAAACCCTAAAACCTAAT
45661318 TTAA-TTATTT
1 TTAATTTATTT
45661328 TTTAAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
28 6 0.16
29 31 0.84
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.46
Consensus pattern (29 bp):
TTAATTTATTTAAAACCCTAAAACCTAAT
Found at i:45661344 original size:34 final size:32
Alignment explanation
Indices: 45661195--45661334 Score: 153
Period size: 34 Copynumber: 4.4 Consensus size: 32
45661185 CTAAACACAA
** *
45661195 AATTATTTTAAAAAACTAAACCCTAATTTAATT
1 AATT-TTTTAAAACTCTAAAACCTAATTTAATT
*
45661228 AATTTTCTTAAACACTCTAAACCCTAATTTAATT
1 AATTTT-TTAAA-ACTCTAAAACCTAATTTAATT
*
45661262 AATTTATTTAAAACTCTAAAATCTAATTTAA-T
1 AATTT-TTTAAAACTCTAAAACCTAATTTAATT
* *
45661294 --TTATTTAAAACCCTAAAACCTAATTTAATT
1 AATTTTTTAAAACTCTAAAACCTAATTTAATT
45661324 -ATTTTTTAAAA
1 AATTTTTTAAAA
45661335 AAACTCTAAA
Statistics
Matches: 94, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
29 23 0.24
30 3 0.03
31 9 0.10
32 3 0.03
33 26 0.28
34 29 0.31
35 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (32 bp):
AATTTTTTAAAACTCTAAAACCTAATTTAATT
Found at i:45667771 original size:52 final size:54
Alignment explanation
Indices: 45667706--45667821 Score: 159
Period size: 54 Copynumber: 2.2 Consensus size: 54
45667696 ATAGAAATGG
*
45667706 TGAAAATGAAGAAATAAGAAA-TATTTGGAAATG-AT-T-ATGGTTTTCTCCAAAA
1 TGAAAATGAAGAAAT--GAAACCATTTGGAAATGAATATGATGGTTTTCTCCAAAA
* *
45667758 TGAAAATGGAGAAATGAAACCATTTGGAAATGAATATGGTGGTTTTCTCCAAAA
1 TGAAAATGAAGAAATGAAACCATTTGGAAATGAATATGATGGTTTTCTCCAAAA
45667812 TGAAAATGAA
1 TGAAAATGAA
45667822 TATGACCTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
50 4 0.07
51 11 0.20
52 16 0.29
53 1 0.02
54 24 0.43
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (54 bp):
TGAAAATGAAGAAATGAAACCATTTGGAAATGAATATGATGGTTTTCTCCAAAA
Found at i:45668646 original size:12 final size:12
Alignment explanation
Indices: 45668629--45668653 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45668619 GGTGTGCATT
45668629 CGGTTAACCGAC
1 CGGTTAACCGAC
45668641 CGGTTAACCGAC
1 CGGTTAACCGAC
45668653 C
1 C
45668654 CGATATAGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:45668826 original size:9 final size:9
Alignment explanation
Indices: 45668812--45668891 Score: 124
Period size: 9 Copynumber: 8.9 Consensus size: 9
45668802 TGGTTAAAAA
*
45668812 TTAACCGAC
1 TTAACCGAT
*
45668821 TTAACCGAC
1 TTAACCGAT
45668830 TTAACCGAT
1 TTAACCGAT
*
45668839 TTAACCAAT
1 TTAACCGAT
45668848 TTAACCGAT
1 TTAACCGAT
*
45668857 TTAACCGAC
1 TTAACCGAT
45668866 TTAACCGAT
1 TTAACCGAT
45668875 TTAACCGAT
1 TTAACCGAT
45668884 TTAACCGA
1 TTAACCGA
45668892 ATTGAATCAC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 66 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (9 bp):
TTAACCGAT
Found at i:45668943 original size:37 final size:37
Alignment explanation
Indices: 45668893--45669004 Score: 197
Period size: 37 Copynumber: 3.0 Consensus size: 37
45668883 TTTAACCGAA
*
45668893 TTGAATCACTACATAATTAAAAAAATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
45668930 TTGAATCAATACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
45668967 TTGAATCACTACATAATTAAAAACATTAGATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
45669004 T
1 T
45669005 GAAATTAACA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:45668944 original size:20 final size:20
Alignment explanation
Indices: 45668919--45668982 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
45668909 TTAAAAAAAT
45668919 TACATAAGTCTTTGAATCAA
1 TACATAAGTCTTTGAATCAA
** * *
45668939 TACATAA---TTAAAAACAT
1 TACATAAGTCTTTGAATCAA
*
45668956 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAA
45668976 TACATAA
1 TACATAA
45668983 TTAAAAACAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 13 0.39
20 20 0.61
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAA
Found at i:45668961 original size:17 final size:17
Alignment explanation
Indices: 45668902--45668999 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
45668892 ATTGAATCAC
*
45668902 TACATAATTAAAAAAAT
1 TACATAATTAAAAACAT
** * *
45668919 TACATAAGTCTTTGAATCAA
1 TACATAA---TTAAAAACAT
45668939 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
45668956 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
45668976 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
*
45668993 TAGATAA
1 TACATAA
45669000 GTCTTGAAAT
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
17 32 0.56
20 25 0.44
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:45672590 original size:13 final size:13
Alignment explanation
Indices: 45672572--45672600 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
45672562 TGTTAGAGAC
45672572 TTAGACTTTAGTT
1 TTAGACTTTAGTT
45672585 TTAGACTTTAGTT
1 TTAGACTTTAGTT
45672598 TTA
1 TTA
45672601 TTGGGTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGACTTTAGTT
Found at i:45672704 original size:51 final size:45
Alignment explanation
Indices: 45672586--45672679 Score: 172
Period size: 44 Copynumber: 2.1 Consensus size: 45
45672576 ACTTTAGTTT
*
45672586 TAGACTTTAGTTTTATTGGGTTGGTAAATGGTAGTTGGGTTTGGG
1 TAGACTTTAGTTTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
45672631 TAGACTTTAG-TTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
1 TAGACTTTAGTTTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
45672675 TAGAC
1 TAGAC
45672680 AAGGGTTTTA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 38 0.79
45 10 0.21
ACGTcount: A:0.20, C:0.03, G:0.34, T:0.43
Consensus pattern (45 bp):
TAGACTTTAGTTTTATTGGGTTGGTAAATGGTAATTGGGTTTGGG
Found at i:45675178 original size:21 final size:21
Alignment explanation
Indices: 45675154--45675196 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
45675144 TGTATGGTAA
* *
45675154 GATGTGATTGTCCGCCCTTAT
1 GATGTGATTATCCACCCTTAT
*
45675175 GATGTGGTTATCCACCCTTAT
1 GATGTGATTATCCACCCTTAT
45675196 G
1 G
45675197 GTAAGTTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.37
Consensus pattern (21 bp):
GATGTGATTATCCACCCTTAT
Found at i:45678245 original size:14 final size:14
Alignment explanation
Indices: 45678211--45678238 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45678201 AAAATAACCA
45678211 CTTTTTCTTATTCT
1 CTTTTTCTTATTCT
45678225 CTTTTTCTTATTCT
1 CTTTTTCTTATTCT
45678239 TATTTTCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.71
Consensus pattern (14 bp):
CTTTTTCTTATTCT
Found at i:45678259 original size:26 final size:27
Alignment explanation
Indices: 45678229--45678299 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 27
45678219 TATTCTCTTT
45678229 TTCTTATTCTTATTTTCGT-TCACACC
1 TTCTTATTCTTATTTTCGTATCACACC
* * *
45678255 TTCTT-TTCCTATTATCGTATCACTCC
1 TTCTTATTCTTATTTTCGTATCACACC
* *
45678281 TCCTTAGTCTT-TTTT-GTAT
1 TTCTTATTCTTATTTTCGTAT
45678300 AACTTAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
25 15 0.42
26 18 0.50
27 3 0.08
ACGTcount: A:0.14, C:0.25, G:0.06, T:0.55
Consensus pattern (27 bp):
TTCTTATTCTTATTTTCGTATCACACC
Found at i:45681478 original size:219 final size:217
Alignment explanation
Indices: 45681059--45681486 Score: 793
Period size: 219 Copynumber: 2.0 Consensus size: 217
45681049 CGACCTTGAA
* *
45681059 GTACGCAACTAACAACACCTTCTACAATTTCACCATAAAAAAAGAACGTACACCTAAAACACTTC
1 GTACACAACTAACAACACCTTCTACAATTTCACCATAAAAAAAGAACGTACACCTAAAACACTAC
45681124 GTTATTTATCTTCAACAAATTTTTGAGCTCTCCTACTAAACACAACAATTTCTTTTTTTTCTTCT
66 GTTATTTATCTTCAACAAATTTTTGAGCTCTCCTACTAAACACAACAATTTCTTTTTTTTCTTCT
45681189 CTTCTAGTTCATCTATTACAAAAATGCTTCAATATATCTATATATGTAGGACAACCAAGGTGGTG
131 CTTCTAGTTCATCTATTACAAAAATGCTTCAATATATCTATATATGTAGGACAACCAAGGTGGTG
45681254 GAGCCATAAAGAATTTTTGAGC
196 GAGCCATAAAGAATTTTTGAGC
*
45681276 GTACACAACTAACAACACCTTCTACAATTTCACCATAAAAAAAGAATGTACACCTAAAACACTAC
1 GTACACAACTAACAACACCTTCTACAATTTCACCATAAAAAAAGAACGTACACCTAAAACACTAC
* *
45681341 GTTATTTATCTTCAACAAAATTTTTTAGCTCTCTTACTAAACACAACAATTTCTTTTTTTTTCTT
66 GTTATTTATCTTCAAC-AAATTTTTGAGCTCTCCTACTAAACACAACAATTTC-TTTTTTTTCTT
45681406 CTCTTCTAGTTCATCTATTACAAAAATGCTTCAATATATCTATATATGTAGGACAACCAAGGTGG
129 CTCTTCTAGTTCATCTATTACAAAAATGCTTCAATATATCTATATATGTAGGACAACCAAGGTGG
45681471 TGGAGCCATAAAGAAT
194 TGGAGCCATAAAGAAT
45681487 GGCTCTACCA
Statistics
Matches: 204, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
217 78 0.38
218 34 0.17
219 92 0.45
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (217 bp):
GTACACAACTAACAACACCTTCTACAATTTCACCATAAAAAAAGAACGTACACCTAAAACACTAC
GTTATTTATCTTCAACAAATTTTTGAGCTCTCCTACTAAACACAACAATTTCTTTTTTTTCTTCT
CTTCTAGTTCATCTATTACAAAAATGCTTCAATATATCTATATATGTAGGACAACCAAGGTGGTG
GAGCCATAAAGAATTTTTGAGC
Found at i:45688238 original size:24 final size:24
Alignment explanation
Indices: 45688168--45688238 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 24
45688158 AACTAGATCT
*
45688168 TATGAGCTTCCCGATTAATGGCTCT
1 TATGAGCTTCCCG-TTAATGGCTCG
* * *** *
45688193 TAGGA-CTTACTAATATTGGCTCG
1 TATGAGCTTCCCGTTAATGGCTCG
45688216 TATGAGCTTCCCGTTAATGGCTC
1 TATGAGCTTCCCGTTAATGGCTC
45688239 TCCGGAGCTT
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
23 12 0.38
24 16 0.50
25 4 0.12
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (24 bp):
TATGAGCTTCCCGTTAATGGCTCG
Found at i:45688271 original size:25 final size:24
Alignment explanation
Indices: 45688217--45688276 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 24
45688207 ATTGGCTCGT
* *
45688217 ATGAGCTTCCCGTTAATGGCTCTC
1 ATGAGCTTTCCGTTAATGGCTCAC
** *
45688241 CGGAGCTTTCCGTTTCATGGCTCAC
1 ATGAGCTTTCCG-TTAATGGCTCAC
45688266 ATGAGCTTTCC
1 ATGAGCTTTCC
45688277 ATTTATGTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.15, C:0.30, G:0.22, T:0.33
Consensus pattern (24 bp):
ATGAGCTTTCCGTTAATGGCTCAC
Found at i:45690649 original size:26 final size:27
Alignment explanation
Indices: 45690620--45690681 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
45690610 AATTTTCTTG
*
45690620 AAATTTTACCAGGATTAAAATTGTC-A
1 AAATTTTACCAGGAGTAAAATTGTCAA
* * *
45690646 AAATTTTATCGGGGGTAAAATTGTCAA
1 AAATTTTACCAGGAGTAAAATTGTCAA
45690673 AAATTTTAC
1 AAATTTTAC
45690682 TAAGGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (27 bp):
AAATTTTACCAGGAGTAAAATTGTCAA
Found at i:45690688 original size:26 final size:26
Alignment explanation
Indices: 45690635--45690691 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
45690625 TTACCAGGAT
**
45690635 TAAAATTGTCAAAATTTTATCGGGGG
1 TAAAATTGTCAAAATTTTATCGAAGG
*
45690661 TAAAATTGTCAAAAATTTTA-CTAAGG
1 TAAAATTGTC-AAAATTTTATCGAAGG
45690687 TAAAA
1 TAAAA
45690692 CTAGGATGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (26 bp):
TAAAATTGTCAAAATTTTATCGAAGG
Found at i:45697887 original size:158 final size:159
Alignment explanation
Indices: 45697532--45697929 Score: 710
Period size: 158 Copynumber: 2.5 Consensus size: 159
45697522 CTTATCAATG
*
45697532 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCG
1 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTTCGGTTCGAGTCCG
* *
45697597 GGCGAAGCCATTGCTTCAAACATAATTTTAGTCTTTTTAGTTTCTGCGCATTTTAGTTTTTTGAC
66 GGCGAAGCCATTGCTTCAAACATAATTTTAGTCTTTTTAGTTTCTGCACATTTTAGTTTTATGAC
45697662 TAAAATTAAATGTCAAAAGCCATTGACTC
131 TAAAATTAAATGTCAAAAGCCATTGACTC
* *
45697691 CGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTTTAACACACTGAAGGTCTTCGGTTCGAGTCCG
1 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTTCGGTTCGAGTCCG
45697756 GGCGAAGCCATTGCTTCAAACA-AATTTTTAGTC-TTTTAGTTTCTGCACATTTTAGTTTTATGA
66 GGCGAAGCCATTGCTTCAAACATAA-TTTTAGTCTTTTTAGTTTCTGCACATTTTAGTTTTATGA
*
45697819 CTAAAATTAAATGTCAAAAGCTATTGACTC
130 CTAAAATTAAATGTCAAAAGCCATTGACTC
45697849 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTTCGGTTCGAGTCCG
1 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTTCGGTTCGAGTCCG
*
45697914 GGCGAAGCCCTTGCTT
66 GGCGAAGCCATTGCTT
45697930 TTTAAATTTA
Statistics
Matches: 229, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
158 137 0.60
159 92 0.40
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (159 bp):
TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTTCGGTTCGAGTCCG
GGCGAAGCCATTGCTTCAAACATAATTTTAGTCTTTTTAGTTTCTGCACATTTTAGTTTTATGAC
TAAAATTAAATGTCAAAAGCCATTGACTC
Found at i:45699877 original size:45 final size:47
Alignment explanation
Indices: 45699824--45699934 Score: 122
Period size: 49 Copynumber: 2.4 Consensus size: 47
45699814 TTCATATAAA
* *
45699824 ACTACACTTCTTTTATTT-TATT-TTAGAATAAGGT-TTTTCAACCTT
1 ACTACACTTCATCTATTTATATTATTAGAATAAGGTGTTTT-AACCTT
* *
45699869 ATTACACTTCATCTATTTGATATTGATTAGAATAAGGTGTTTTAATCTT
1 ACTACACTTCATCTATTT-ATATT-ATTAGAATAAGGTGTTTTAACCTT
45699918 ACTACAC-TCATTCTATT
1 ACTACACTTCA-TCTATT
45699935 AGAATATGGT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
45 15 0.27
47 4 0.07
48 3 0.05
49 29 0.53
50 4 0.07
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (47 bp):
ACTACACTTCATCTATTTATATTATTAGAATAAGGTGTTTTAACCTT
Found at i:45705803 original size:14 final size:14
Alignment explanation
Indices: 45705786--45705816 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45705776 GATTTAAGGT
*
45705786 TTATGGGTTAGTGG
1 TTATGGGTTAGAGG
45705800 TTATGGGTTAGAGG
1 TTATGGGTTAGAGG
45705814 TTA
1 TTA
45705817 AAAGTTAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.42
Consensus pattern (14 bp):
TTATGGGTTAGAGG
Found at i:45705934 original size:70 final size:70
Alignment explanation
Indices: 45705860--45705997 Score: 240
Period size: 70 Copynumber: 2.0 Consensus size: 70
45705850 TTAGGTTAGA
* *
45705860 GTTTAGGGTTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATATTTAGGGGTTAGTGG
1 GTTTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATATTTAAGGGTTAGTGG
45705925 TTAAG
66 TTAAG
* *
45705930 GTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAAGGGTTAGTGG
1 GTTTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATATTTAAGGGTTAGTGG
45705995 TTA
66 TTA
45705998 GGGGTTTGGG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (70 bp):
GTTTAGGATTTAGATTAATTAGTGTATTTTAATTTATATATTAAATAATATTTAAGGGTTAGTGG
TTAAG
Found at i:45706183 original size:14 final size:14
Alignment explanation
Indices: 45706164--45706243 Score: 63
Period size: 15 Copynumber: 5.4 Consensus size: 14
45706154 GAATTGAGGT
45706164 TTAGGGGTTAGGGA
1 TTAGGGGTTAGGGA
45706178 TTAGGGGTTAGAGG-
1 TTAGGGGTTAG-GGA
*
45706192 TTAGGAGTTTAGGGGA
1 TTAGG-GGTTA-GGGA
* * *
45706208 TTTAAGGTTTAGGGG
1 -TTAGGGGTTAGGGA
*
45706223 TTAGGGGTTTAGGGT
1 TTAGGGG-TTAGGGA
45706238 TTAGGG
1 TTAGGG
45706244 TGTCAAGGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
14 21 0.39
15 23 0.43
16 6 0.11
17 4 0.07
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.34
Consensus pattern (14 bp):
TTAGGGGTTAGGGA
Found at i:45706224 original size:38 final size:36
Alignment explanation
Indices: 45706161--45706243 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 36
45706151 TTGGAATTGA
*
45706161 GGTTTAGGGGTTAGGGATTAGGGGTTAGAGG-TTAG
1 GGTTTAGGGGTTAAGGATTAGGGGTTAGAGGTTTAG
* *
45706196 GAGTTTAGGGGATTTAAGGTTTAGGGGTTAGGGGTTTAG
1 G-GTTTAGGGG--TTAAGGATTAGGGGTTAGAGGTTTAG
45706235 GGTTTAGGG
1 GGTTTAGGG
45706244 TGTCAAGGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
35 1 0.02
36 9 0.22
38 26 0.63
39 5 0.12
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.34
Consensus pattern (36 bp):
GGTTTAGGGGTTAAGGATTAGGGGTTAGAGGTTTAG
Found at i:45706244 original size:7 final size:7
Alignment explanation
Indices: 45706161--45706244 Score: 71
Period size: 7 Copynumber: 11.4 Consensus size: 7
45706151 TTGGAATTGA
45706161 GGTTTAG
1 GGTTTAG
*
45706168 GGGTTAG
1 GGTTTAG
*
45706175 GGATTAG
1 GGTTTAG
*
45706182 GGGTTAG
1 GGTTTAG
45706189 AGG-TTAG
1 -GGTTTAG
45706196 GAGTTTAGG
1 G-GTTTA-G
*
45706205 GGATTTAA
1 GG-TTTAG
45706213 GGTTTAG
1 GGTTTAG
*
45706220 GGGTTAGG
1 GGTTTA-G
45706228 GGTTTAG
1 GGTTTAG
45706235 GGTTTAG
1 GGTTTAG
45706242 GGT
1 GGT
45706245 GTCAAGGGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
6 1 0.02
7 43 0.67
8 14 0.22
9 6 0.09
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (7 bp):
GGTTTAG
Found at i:45706294 original size:13 final size:13
Alignment explanation
Indices: 45706278--45706302 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45706268 TTAAGCTTAG
45706278 ATTAATTAATTTT
1 ATTAATTAATTTT
45706291 ATTAATTAATTT
1 ATTAATTAATTT
45706303 ATATATTAAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTAATTAATTTT
Found at i:45706694 original size:2 final size:2
Alignment explanation
Indices: 45706678--45706711 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
45706668 TATTTAGGAG
*
45706678 AT AT AT A- AT AG AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45706712 GATCACTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:45706914 original size:21 final size:22
Alignment explanation
Indices: 45706890--45706934 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
45706880 GGACAGGACC
* *
45706890 AAAATATAAGAA-AATATAAAA
1 AAAATATAAAAAGAAAATAAAA
45706911 AAAATATAAAAAGAAAATAAAA
1 AAAATATAAAAAGAAAATAAAA
45706933 AA
1 AA
45706935 CTAAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (22 bp):
AAAATATAAAAAGAAAATAAAA
Found at i:45706916 original size:11 final size:11
Alignment explanation
Indices: 45706890--45706934 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
45706880 GGACAGGACC
*
45706890 AAAATAT-AAG
1 AAAATATAAAA
45706900 AAAATATAAAA
1 AAAATATAAAA
45706911 AAAATATAAAA
1 AAAATATAAAA
45706922 AGAAA-ATAAAA
1 A-AAATATAAAA
45706933 AA
1 AA
45706935 CTAAAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 8 0.25
11 21 0.66
12 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (11 bp):
AAAATATAAAA
Found at i:45706941 original size:13 final size:13
Alignment explanation
Indices: 45706897--45706934 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
45706887 ACCAAAATAT
45706897 AAGAAAATAT-AA
1 AAGAAAATATAAA
45706909 AA-AAAATATAAA
1 AAGAAAATATAAA
45706921 AAGAAAATA-AAA
1 AAGAAAATATAAA
45706933 AA
1 AA
45706935 CTAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.29
12 11 0.46
13 6 0.25
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (13 bp):
AAGAAAATATAAA
Found at i:45706965 original size:21 final size:21
Alignment explanation
Indices: 45706941--45706990 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 21
45706931 AAAACTAAAA
45706941 TTTATAATTTTA-TCAAAAACT
1 TTTATAATTTTACT-AAAAACT
* *
45706962 TTTA-AATATTACTTAAAACT
1 TTTATAATTTTACTAAAAACT
*
45706982 TTAATAATT
1 TTTATAATT
45706991 ATTTATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTATAATTTTACTAAAAACT
Found at i:45709680 original size:19 final size:19
Alignment explanation
Indices: 45709653--45709697 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
45709643 TTATATACAG
45709653 TTTTAATATATATATT-AAAA
1 TTTT-ATATATAT-TTGAAAA
45709673 TTTTATATATATTTGAAAA
1 TTTTATATATATTTGAAAA
*
45709692 ATTTAT
1 TTTTAT
45709698 CAATCATATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 2 0.09
19 17 0.74
20 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTTATATATATTTGAAAA
Found at i:45709776 original size:12 final size:12
Alignment explanation
Indices: 45709759--45709879 Score: 67
Period size: 12 Copynumber: 10.1 Consensus size: 12
45709749 TACACAACAC
45709759 ATAACTTACATA
1 ATAACTTACATA
45709771 ATAACTTAC---
1 ATAACTTACATA
*
45709780 ATAACTTATAT-
1 ATAACTTACATA
*
45709791 ATAAACTTATAT-
1 AT-AACTTACATA
45709803 ATAACTTACATA
1 ATAACTTACATA
*
45709815 TATAACTTAAATA
1 -ATAACTTACATA
* *
45709828 A-AATTTATAT-
1 ATAACTTACATA
*
45709838 ATAAACTTACACAACA
1 AT-AACTT--AC-ATA
*
45709854 CATAACTTACACA
1 -ATAACTTACATA
45709867 ATAACTTACATA
1 ATAACTTACATA
45709879 A
1 A
45709880 CTTATATATA
Statistics
Matches: 88, Mismatches: 9, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
9 8 0.09
10 1 0.01
11 17 0.19
12 37 0.42
13 14 0.16
14 3 0.03
15 1 0.01
16 5 0.06
17 2 0.02
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:45709783 original size:21 final size:21
Alignment explanation
Indices: 45709757--45709828 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
45709747 CTTACACAAC
45709757 ACATAACTTACATAATAACTT
1 ACATAACTTACATAATAACTT
*
45709778 ACATAACTTATAT-ATAAACTTAT
1 ACATAACTTACATAAT-AAC-T-T
*
45709801 ATATAACTTACATATATAACTT
1 ACATAACTTACATA-ATAACTT
*
45709823 AAATAA
1 ACATAA
45709829 AATTTATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
20 2 0.05
21 15 0.36
22 7 0.17
23 13 0.31
24 3 0.07
25 2 0.05
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (21 bp):
ACATAACTTACATAATAACTT
Found at i:45709806 original size:23 final size:23
Alignment explanation
Indices: 45709780--45709846 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
45709770 AATAACTTAC
*
45709780 ATAACTTATATATAAACTTATAT
1 ATAACTTATATATAAACTTAAAT
*
45709803 ATAACTTACATATATAACTTAAAT
1 ATAACTTATATATA-AACTTAAAT
* *
45709827 AAAATTTATATATAAACTTA
1 ATAACTTATATATAAACTTA
45709847 CACAACACAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
23 19 0.50
24 19 0.50
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (23 bp):
ATAACTTATATATAAACTTAAAT
Found at i:45709876 original size:96 final size:95
Alignment explanation
Indices: 45709703--45709905 Score: 343
Period size: 96 Copynumber: 2.1 Consensus size: 95
45709693 TTTATCAATC
* *
45709703 ATATCATAATTTACATACATAACATATATAAATTTATATATAAACTTACACAACACATAACTTAC
1 ATAT-ATAACTTACATACATAACATAAATAAATTTATATATAAACTTACACAACACATAACTTAC
*
45709768 ATAATAACTTACATAACTTATATATAAACTT
65 ACAATAACTTACATAACTTATATATAAACTT
* *
45709799 ATATATAACTTACATATATAACTTAAATAAAATTTATATATAAACTTACACAACACATAACTTAC
1 ATATATAACTTACATACATAACATAAAT-AAATTTATATATAAACTTACACAACACATAACTTAC
45709864 ACAATAACTTACATAACTTATATATAAACTT
65 ACAATAACTTACATAACTTATATATAAACTT
45709895 ATATATAACTT
1 ATATATAACTT
45709906 TCACAACTTA
Statistics
Matches: 101, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
95 20 0.20
96 81 0.80
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.35
Consensus pattern (95 bp):
ATATATAACTTACATACATAACATAAATAAATTTATATATAAACTTACACAACACATAACTTACA
CAATAACTTACATAACTTATATATAAACTT
Found at i:45709888 original size:49 final size:49
Alignment explanation
Indices: 45709707--45710115 Score: 242
Period size: 50 Copynumber: 7.9 Consensus size: 49
45709697 TCAATCATAT
* * * *
45709707 CATAATTTACATACATAACATATATAAATTTATATATAAACTTACACAACA
1 CATAACTTACATA-ATAACTTACAT-AACTTATATATAAACTTACACAACA
*
45709758 CATAACTTACATAATAACTTACATAACTTATATATAAACTT-----ATA
1 CATAACTTACATAATAACTTACATAACTTATATATAAACTTACACAACA
* * *
45709802 TATAACTTACATATATAACTTAAATAAAATTTATATATAAACTTACACAACA
1 CATAACTTACATA-ATAACTTACAT--AACTTATATATAAACTTACACAACA
* * * *
45709854 CATAACTTACACAATAACTTACATAACTTATATATAAACTTATATATAACTTT
1 CATAACTTACATAATAACTTACATAACTTATATATAAAC-T-TACACAAC--A
* ** * * * *
45709907 CACAACTTACTTATAATAACTTACATAACACATAGCCTACATGACTTACATAATA
1 CATAACTTAC--ATAATAACTTACATAACTTATA---TATA-AACTTACACAACA
* * *
45709962 CACAACTT--A-AATAACTTAAACAACTTACATAATACATAACTTACATTACACACAACTTA
1 CATAACTTACATAATAACTTACATAACTT--AT-AT--ATAA---AC-TT--ACACAAC--A
* *
45710021 CATAACTTACATTCATAACTTGA-ATAAAATTTATATATAAACTTACACAACA
1 CATAACTTACA-TAATAACTT-ACAT--AACTTATATATAAACTTACACAACA
45710073 CATAACTTACATATATAACTTACATAACTTATATATAAACTTA
1 CATAACTTACATA-ATAACTTACATAACTTATATATAAACTTA
45710116 TATATAACTT
Statistics
Matches: 279, Mismatches: 39, Indels: 81
0.70 0.10 0.20
Matches are distributed among these distances:
44 14 0.05
45 10 0.04
47 16 0.06
49 30 0.11
50 41 0.15
51 31 0.11
52 38 0.14
53 10 0.04
54 9 0.03
55 29 0.10
56 2 0.01
57 13 0.05
58 4 0.01
59 10 0.04
60 4 0.01
61 1 0.00
62 2 0.01
63 10 0.04
64 1 0.00
65 4 0.01
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (49 bp):
CATAACTTACATAATAACTTACATAACTTATATATAAACTTACACAACA
Found at i:45709899 original size:10 final size:11
Alignment explanation
Indices: 45709876--45709905 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
45709866 AATAACTTAC
45709876 ATAACTTATAT
1 ATAACTTATAT
45709887 ATAAACTTATAT
1 AT-AACTTATAT
45709899 ATAACTT
1 ATAACTT
45709906 TCACAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (11 bp):
ATAACTTATAT
Found at i:45709919 original size:96 final size:97
Alignment explanation
Indices: 45709732--45709925 Score: 329
Period size: 96 Copynumber: 2.0 Consensus size: 97
45709722 TAACATATAT
*
45709732 AAATTTATATATAAACTTACACAACACATAACTTACATAATAACTTACATAACTTATATATAAAC
1 AAATTTATATATAAACTTACACAACACATAACTTACACAATAACTTACATAACTTATATATAAAC
*
45709797 TTATATATAACTTACATATATAACTTA-AATA
66 TTATATATAACTTACACATATAACTTATAATA
45709828 AAATTTATATATAAACTTACACAACACATAACTTACACAATAACTTACATAACTTATATATAAAC
1 AAATTTATATATAAACTTACACAACACATAACTTACACAATAACTTACATAACTTATATATAAAC
* *
45709893 TTATATATAACTTTCACA-ACTTACTTATAATA
66 TTATATATAACTTACACATA-TAACTTATAATA
45709925 A
1 A
45709926 CTTACATAAC
Statistics
Matches: 92, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
95 1 0.01
96 86 0.93
97 5 0.05
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (97 bp):
AAATTTATATATAAACTTACACAACACATAACTTACACAATAACTTACATAACTTATATATAAAC
TTATATATAACTTACACATATAACTTATAATA
Found at i:45709963 original size:16 final size:16
Alignment explanation
Indices: 45709950--45710025 Score: 89
Period size: 16 Copynumber: 4.6 Consensus size: 16
45709940 AGCCTACATG
45709950 ACTTACATAATACACA
1 ACTTACATAATACACA
* *
45709966 ACTTAAATAACTTAAACA
1 ACTTACATAA--TACACA
*
45709984 ACTTACATAATACATA
1 ACTTACATAATACACA
* *
45710000 ACTTACATTACACACA
1 ACTTACATAATACACA
45710016 ACTTACATAA
1 ACTTACATAA
45710026 CTTACATTCA
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
16 35 0.71
18 14 0.29
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (16 bp):
ACTTACATAATACACA
Found at i:45710006 original size:9 final size:9
Alignment explanation
Indices: 45709922--45710267 Score: 128
Period size: 9 Copynumber: 40.9 Consensus size: 9
45709912 CTTACTTATA
45709922 ATAACTTAC
1 ATAACTTAC
45709931 ATAAC--AC
1 ATAACTTAC
* *
45709938 ATAGCCTAC
1 ATAACTTAC
*
45709947 ATGACTTAC
1 ATAACTTAC
45709956 ATAA--TAC
1 ATAACTTAC
* *
45709963 ACAACTTAA
1 ATAACTTAC
*
45709972 ATAACTTAA
1 ATAACTTAC
*
45709981 ACAACTTAC
1 ATAACTTAC
45709990 ATAA--TAC
1 ATAACTTAC
45709997 ATAACTTAC
1 ATAACTTAC
*
45710006 ATTAC--AC
1 ATAACTTAC
*
45710013 ACAACTTAC
1 ATAACTTAC
45710022 ATAACTTAC
1 ATAACTTAC
45710031 ---A-TT-C
1 ATAACTTAC
45710035 ATAACTTGA-
1 ATAACTT-AC
* *
45710044 ATAAAATTTATAT
1 AT--AA-CT-TAC
45710057 ATAAACTTAC
1 AT-AACTTAC
*
45710067 ACAAC--AC
1 ATAACTTAC
45710074 ATAACTTAC
1 ATAACTTAC
45710083 AT-A--T--
1 ATAACTTAC
45710087 ATAACTTAC
1 ATAACTTAC
*
45710096 ATAACTTATAT
1 ATAAC-T-TAC
*
45710107 ATAAACTTATAT
1 AT-AAC-T-TAC
*
45710119 ATAACTTTC
1 ATAACTTAC
45710128 ATAACTTAC
1 ATAACTTAC
*
45710137 -TTA-TT--
1 ATAACTTAC
45710142 ATAACTTAC
1 ATAACTTAC
45710151 ATAA--TAC
1 ATAACTTAC
* *
45710158 ATAGCCTAC
1 ATAACTTAC
*
45710167 ATGACTTAC
1 ATAACTTAC
45710176 ATAA--TAC
1 ATAACTTAC
* *
45710183 ACAACTTAA
1 ATAACTTAC
45710192 ATAACTTAC
1 ATAACTTAC
45710201 ATAA--TAC
1 ATAACTTAC
*
45710208 ATAACTTTC
1 ATAACTTAC
45710217 ATAACTTAC
1 ATAACTTAC
*
45710226 ATTA--TAC
1 ATAACTTAC
* *
45710233 ACAACTTAT
1 ATAACTTAC
45710242 ATAACTTAC
1 ATAACTTAC
45710251 ATAACTTAC
1 ATAACTTAC
*
45710260 ATAGCTTA
1 ATAACTTA
45710268 ATTATACTTA
Statistics
Matches: 252, Mismatches: 44, Indels: 82
0.67 0.12 0.22
Matches are distributed among these distances:
4 3 0.01
5 3 0.01
6 4 0.02
7 60 0.24
8 5 0.02
9 143 0.57
10 5 0.02
11 10 0.04
12 16 0.06
13 3 0.01
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:45710033 original size:25 final size:25
Alignment explanation
Indices: 45709922--45710032 Score: 100
Period size: 25 Copynumber: 4.4 Consensus size: 25
45709912 CTTACTTATA
* * *
45709922 ATAACTTACATAACACATAGCCTAC
1 ATAACTTACATAACACACAACTTAC
* * *
45709947 ATGACTTACATAATACACAACTTAA
1 ATAACTTACATAACACACAACTTAC
* * *
45709972 ATAACTTAAACAACTTACATAA--TAC
1 ATAACTTACATAAC--ACACAACTTAC
*
45709997 ATAACTTACATTACACACAACTTAC
1 ATAACTTACATAACACACAACTTAC
45710022 ATAACTTACAT
1 ATAACTTACAT
45710033 TCATAACTTG
Statistics
Matches: 66, Mismatches: 16, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
23 5 0.08
25 56 0.85
27 5 0.08
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.28
Consensus pattern (25 bp):
ATAACTTACATAACACACAACTTAC
Done.