Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold40
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: 1915636
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 67970 characters in sequence are not A, C, G, or T
File 5 of 6
Found at i:1317037 original size:22 final size:20
Alignment explanation
Indices: 1316995--1317037 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
1316985 ATTTTTCTGG
**
1316995 AAATTGTTGGTTGAGTTATT
1 AAATTGTTGGTTGAGAAATT
1317015 AAATTGTATGGTATGAGAAATT
1 AAATTGT-TGGT-TGAGAAATT
1317037 A
1 A
1317038 TTACTTTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AAATTGTTGGTTGAGAAATT
Found at i:1319151 original size:25 final size:25
Alignment explanation
Indices: 1319104--1319152 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1319094 CCGAAATACC
* *
1319104 CTCGATGGGTAAATGATCGAAATAA
1 CTCGATGGGTAAATGACCAAAATAA
1319129 CTCGATGGGTAAATTG-CCAAAATA
1 CTCGATGGGTAAA-TGACCAAAATA
1319153 CCCTCGATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.24
Consensus pattern (25 bp):
CTCGATGGGTAAATGACCAAAATAA
Found at i:1319177 original size:26 final size:26
Alignment explanation
Indices: 1319096--1319234 Score: 106
Period size: 26 Copynumber: 5.3 Consensus size: 26
1319086 GATGTTGACC
* *
1319096 GAAATACCCTCGATGGGTAAATGA-T
1 GAAATACCCTCGATAGGTAAATTACT
* * * *
1319121 CGAAATA-ACTCGATGGGTAAATTGCC
1 -GAAATACCCTCGATAGGTAAATTACT
* *
1319147 AAAATACCCTCGATAGGCAAATTACT
1 GAAATACCCTCGATAGGTAAATTACT
*
1319173 GAAATACCCCCGAT-GAGTAAATTACT
1 GAAATACCCTCGATAG-GTAAATTACT
* * *
1319199 AAAATACCCCCG-TAAGGCAAAATTACT
1 GAAATACCCTCGAT-AGG-TAAATTACT
1319226 GAAATACCC
1 GAAATACCC
1319235 CCAGAAGGGT
Statistics
Matches: 91, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
25 21 0.23
26 53 0.58
27 17 0.19
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (26 bp):
GAAATACCCTCGATAGGTAAATTACT
Found at i:1319205 original size:52 final size:52
Alignment explanation
Indices: 1319097--1319236 Score: 151
Period size: 52 Copynumber: 2.7 Consensus size: 52
1319087 ATGTTGACCG
* * * * * * *
1319097 AAATACCCTCGATGGGTAAATGA-TCGAAATA-ACTCGATGGGTAAATTGCCA
1 AAATACCCTCGATAGGCAAATTACT-GAAATACCCCCGATGAGTAAATTACCA
*
1319148 AAATACCCTCGATAGGCAAATTACTGAAATACCCCCGATGAGTAAATTACTA
1 AAATACCCTCGATAGGCAAATTACTGAAATACCCCCGATGAGTAAATTACCA
*
1319200 AAATACCCCCG-TAAGGCAAAATTACTGAAATACCCCC
1 AAATACCCTCGAT-AGGC-AAATTACTGAAATACCCCC
1319237 AGAAGGGTAG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
51 27 0.36
52 30 0.39
53 19 0.25
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (52 bp):
AAATACCCTCGATAGGCAAATTACTGAAATACCCCCGATGAGTAAATTACCA
Found at i:1319235 original size:26 final size:25
Alignment explanation
Indices: 1319148--1319242 Score: 109
Period size: 26 Copynumber: 3.6 Consensus size: 25
1319138 TAAATTGCCA
*
1319148 AAATACCCTCGATAGGCAAATTACTG
1 AAATACCCCCGA-AGGCAAATTACTG
* * *
1319174 AAATACCCCCGATGAGTAAATTACTA
1 AAATACCCCCGAAG-GCAAATTACTG
1319200 AAATACCCCCGTAAGGCAAAATTACTG
1 AAATACCCCCG-AAGGC-AAATTACTG
1319227 AAATACCCCCAGAAGG
1 AAATACCCCC-GAAGG
1319243 GTAGATTGAC
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
25 1 0.02
26 32 0.55
27 24 0.41
28 1 0.02
ACGTcount: A:0.41, C:0.25, G:0.15, T:0.19
Consensus pattern (25 bp):
AAATACCCCCGAAGGCAAATTACTG
Found at i:1319258 original size:53 final size:52
Alignment explanation
Indices: 1319161--1319263 Score: 120
Period size: 53 Copynumber: 1.9 Consensus size: 52
1319151 TACCCTCGAT
*
1319161 AGGCAAATTACTGAAATACCCCCGATGAGTAAATTACTAAAATAC-CCCCGTA
1 AGGCAAATTACTGAAATACCCCCGAAGAGTAAATTAC-AAAATACACCCCGTA
* * *
1319213 AGGCAAAATTACTGAAATACCCCCAGAAGGGTAGATTGAC-CAATACACCCC
1 AGGC-AAATTACTGAAATACCCCC-GAAGAGTAAATT-ACAAAATACACCCC
1319264 AATTAGATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
52 4 0.09
53 24 0.56
54 13 0.30
55 2 0.05
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.18
Consensus pattern (52 bp):
AGGCAAATTACTGAAATACCCCCGAAGAGTAAATTACAAAATACACCCCGTA
Found at i:1326624 original size:26 final size:26
Alignment explanation
Indices: 1326588--1326728 Score: 178
Period size: 26 Copynumber: 5.4 Consensus size: 26
1326578 CGGTGTTAAC
1326588 CGAAATACCCTCGATGGGCAAATTAT
1 CGAAATACCCTCGATGGGCAAATTAT
*
1326614 CGAAATACCCTCGATGGGTAAATTAT
1 CGAAATACCCTCGATGGGCAAATTAT
* *
1326640 TGAAATACCCTCGATGGGAAAATTAT
1 CGAAATACCCTCGATGGGCAAATTAT
* * *
1326666 CGAAATACCCTCGATAGGTAAATTAC
1 CGAAATACCCTCGATGGGCAAATTAT
1326692 CGAAATA-CCTCCG-TAGGGCAAAATTAT
1 CGAAATACCCT-CGAT-GGGC-AAATTAT
*
1326719 TGAAATACCC
1 CGAAATACCC
1326729 CCAGAAGGGT
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
25 4 0.04
26 82 0.82
27 12 0.12
28 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (26 bp):
CGAAATACCCTCGATGGGCAAATTAT
Found at i:1326667 original size:52 final size:52
Alignment explanation
Indices: 1326586--1326728 Score: 200
Period size: 52 Copynumber: 2.7 Consensus size: 52
1326576 CACGGTGTTA
* *
1326586 ACCGAAATACCCTCGATGGGCAAATTATCGAAATACCCTCGATGGGTAAATT
1 ACCGAAATACCCTCGATGGGAAAATTATCGAAATACCCTCGATAGGTAAATT
**
1326638 ATTGAAATACCCTCGATGGGAAAATTATCGAAATACCCTCGATAGGTAAATT
1 ACCGAAATACCCTCGATGGGAAAATTATCGAAATACCCTCGATAGGTAAATT
*
1326690 ACCGAAATA-CCTCCG-TAGGGCAAAATTATTGAAATACCC
1 ACCGAAATACCCT-CGAT-GGG-AAAATTATCGAAATACCC
1326729 CCAGAAGGGT
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
51 4 0.05
52 60 0.74
53 17 0.21
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (52 bp):
ACCGAAATACCCTCGATGGGAAAATTATCGAAATACCCTCGATAGGTAAATT
Found at i:1327189 original size:33 final size:36
Alignment explanation
Indices: 1327128--1327195 Score: 97
Period size: 33 Copynumber: 2.0 Consensus size: 36
1327118 AGGCCCACAC
*
1327128 TAATGCTATTGGGGCTAAGGCCCGCACTG-TACTGA
1 TAATGCTATTGGGGCTAAGGCCCACACTGATACTGA
*
1327163 TAATG-TATT-GGGCTAAGGCCTACACTGATACTG
1 TAATGCTATTGGGGCTAAGGCCCACACTGATACTG
1327196 GAAAGGGCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 16 0.53
34 9 0.30
35 5 0.17
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (36 bp):
TAATGCTATTGGGGCTAAGGCCCACACTGATACTGA
Found at i:1327505 original size:21 final size:22
Alignment explanation
Indices: 1327481--1327525 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
1327471 TACAAATAAG
1327481 TTTTCACA-ACAAACAC-TATTT
1 TTTTCA-AGACAAACACGTATTT
1327502 TTTTCAAGACAAACACGTATTT
1 TTTTCAAGACAAACACGTATTT
1327524 TT
1 TT
1327526 AACTTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 1 0.05
21 14 0.64
22 7 0.32
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (22 bp):
TTTTCAAGACAAACACGTATTT
Found at i:1327709 original size:24 final size:24
Alignment explanation
Indices: 1327673--1327722 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
1327663 ATTTTCTTCG
*
1327673 TTAGACTTCGATTTCATAGAACAC
1 TTAGAATTCGATTTCATAGAACAC
* *
1327697 TTAGAATTTGATTTTATAGAACAC
1 TTAGAATTCGATTTCATAGAACAC
1327721 TT
1 TT
1327723 CTATGTGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (24 bp):
TTAGAATTCGATTTCATAGAACAC
Found at i:1328072 original size:75 final size:74
Alignment explanation
Indices: 1327945--1328159 Score: 179
Period size: 75 Copynumber: 2.9 Consensus size: 74
1327935 GGATCAACTA
* * *
1327945 TTGTTGGTTATTCGACTAGCACTGGGCGCAATCTTTGTCGATTTATTCGACTAGTGCTAGGCACA
1 TTGTTGGTTATCCGAATAGCACTGGGCGCAAACTTTGTCGATTTATTCGACTAGTGCTAGGCACA
1328010 ATATCATAC
66 ATATCATAC
* * * *
1328019 TTGTTGGTTTATCCGAATAGCGCTGGGTGCAAACTTTGTC-AGTTTA-TCTGACTAGTGTTTGGC
1 TTGTTGG-TTATCCGAATAGCACTGGGCGCAAACTTTGTCGA-TTTATTC-GACTAGTGCTAGGC
** *
1328082 ACACCATTATA-
63 ACAATATCATAC
* * ** * * *
1328093 TTTTTCGGTT-TGCCTGACTAGCGTTGGGCGC-AACTTTCATCGATTTGTTCGACTAGTGCTGGG
1 TTGTT-GGTTAT-CC-GAATAGCACTGGGCGCAAACTTT-GTCGATTTATTCGACTAGTGCTAGG
1328156 CACA
62 CACA
1328160 TCTATCGTTA
Statistics
Matches: 114, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
73 1 0.01
74 24 0.21
75 86 0.75
76 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (74 bp):
TTGTTGGTTATCCGAATAGCACTGGGCGCAAACTTTGTCGATTTATTCGACTAGTGCTAGGCACA
ATATCATAC
Found at i:1340810 original size:90 final size:90
Alignment explanation
Indices: 1340637--1340801 Score: 222
Period size: 90 Copynumber: 1.8 Consensus size: 90
1340627 ATCGTTGGAA
** *
1340637 ATATAGGTGGATGCTATGTGTTGATTCCACCCGGTATTAATGAAAATAAAGTTGGTTGCTATGTG
1 ATATAGGTGGATGCTATGTGTTGATTCCACCCGGTACCAATGAAAATAAAGGTGGTTGCTATGTG
*
1340702 TTGATTTCACCAGATACTAATAGTT
66 CTGATTTCACCAGATACTAATAGTT
* * * * ** *
1340727 ATATAGGTGGTTGCTATGTGTTGATTTCACCCTGTACCATTGAGTATAAAGGTGGTTGCTCTGTG
1 ATATAGGTGGATGCTATGTGTTGATTCCACCCGGTACCAATGAAAATAAAGGTGGTTGCTATGTG
*
1340792 CTGCTTTCAC
66 CTGATTTCAC
1340802 TGAGTACTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
90 63 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (90 bp):
ATATAGGTGGATGCTATGTGTTGATTCCACCCGGTACCAATGAAAATAAAGGTGGTTGCTATGTG
CTGATTTCACCAGATACTAATAGTT
Found at i:1340814 original size:45 final size:44
Alignment explanation
Indices: 1340641--1340840 Score: 152
Period size: 45 Copynumber: 4.5 Consensus size: 44
1340631 TTGGAAATAT
* * * * * * **
1340641 AGGTGGATGCTATGTGTTGATTCCACCCGGTATTAATGAAAATAA
1 AGGTGGTTGCTATGTGCTGATTTCA-CCAGTACTATTGAGTATAA
* * * *
1340686 AGTTGGTTGCTATGTGTTGATTTCACCAGATACTAAT-AGTTATAT
1 AGGTGGTTGCTATGTGCTGATTTCACCAG-TACTATTGAG-TATAA
* * *
1340731 AGGTGGTTGCTATGTGTTGATTTCACCCTGTACCATTGAGTATAA
1 AGGTGGTTGCTATGTGCTGATTTCA-CCAGTACTATTGAGTATAA
* * * *
1340776 AGGTGGTTGCTCTGTGCTGCTTTCACTGAGTACTATTGACTATAA
1 AGGTGGTTGCTATGTGCTGATTTCAC-CAGTACTATTGAGTATAA
* *
1340821 GGGTGG-TGCTGTGTGCTGAT
1 AGGTGGTTGCTATGTGCTGAT
1340841 CCACCGTGTA
Statistics
Matches: 127, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
44 17 0.13
45 105 0.83
46 5 0.04
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (44 bp):
AGGTGGTTGCTATGTGCTGATTTCACCAGTACTATTGAGTATAA
Found at i:1353846 original size:15 final size:15
Alignment explanation
Indices: 1353823--1353858 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1353813 TGCACCTATG
1353823 TTTGCATTTTCCTTC
1 TTTGCATTTTCCTTC
*
1353838 TTTGTATTTTCCTTC
1 TTTGCATTTTCCTTC
*
1353853 ATTGCA
1 TTTGCA
1353859 CCTATGTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.08, T:0.58
Consensus pattern (15 bp):
TTTGCATTTTCCTTC
Found at i:1356310 original size:27 final size:27
Alignment explanation
Indices: 1356122--1356322 Score: 226
Period size: 27 Copynumber: 7.5 Consensus size: 27
1356112 TAGGGGTAAA
* * *
1356122 CAGTCATTCTACCTTATGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
1356149 -TGATCATTTTACCCTAT-TGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
1356175 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
1356202 CGGTCATTTTACCCCATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * * * *
1356229 CGGTCATTCTATCCTATAGAGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
** *
1356256 TGGTCATTCTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
1356283 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
1356310 CAATTATTTTACC
1 CAGTCATTTTACC
1356323 TATTTTAAGG
Statistics
Matches: 149, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
26 23 0.15
27 126 0.85
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:1357809 original size:27 final size:27
Alignment explanation
Indices: 1357790--1358177 Score: 407
Period size: 27 Copynumber: 14.4 Consensus size: 27
1357780 GGTATTTATA
1357790 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
1357817 TCATTCTACCCTATAGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
1357844 TCATTTTACCTTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
1357871 TTATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * *
1357898 TCATTTTATCCGATGAGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
1357925 TCATTTTATCCTTTGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
1357952 TCATTTTACCCTATGGGGGTATTTCCG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * *
1357979 TCATTCTACCCTATAGAGATATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * ** * *
1358006 TCATTCTACCTTATTAGGATATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * *
1358033 TTATCTTACCCTATAGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * ***
1358060 TCATTTTACCCTCTAGGGGTATTTTAA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
1358087 TCATTTTACCCTGTAGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * **
1358114 TCATTTTAACCTATAGGGGTATTTTAG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
1358141 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
1358168 TCATTTTACC
1 TCATTTTACC
1358178 TAATTTGGGG
Statistics
Matches: 303, Mismatches: 58, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 303 1.00
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:1359575 original size:27 final size:25
Alignment explanation
Indices: 1359543--1359805 Score: 204
Period size: 27 Copynumber: 9.8 Consensus size: 25
1359533 TCGCAAATCA
1359543 GGGTATTTATGTCATTTTACCCTATG
1 GGGTATTT-TGTCATTTTACCCTATG
* *
1359569 GGTGTATTTCGGTCATTCTACCCTATAG
1 GG-GTATTT-TGTCATTTTACCCTAT-G
* *
1359597 GGGTATTTCAGTCATTTTATCCTATGG
1 GGGTATTT-TGTCATTTTACCCTAT-G
*
1359624 GGGTATTTCGATCATTTTACCCTATAG
1 GGGTATTTTG-TCATTTTACCCTAT-G
* * *
1359651 AGGTATTTTGGACATTCTACCCTATAG
1 GGGTATTTT-GTCATTTTACCCTAT-G
* *
1359678 AGGTATTTCAGTCATTTTACCCTATAG
1 GGGTATTT-TGTCATTTTACCCTAT-G
* * * *
1359705 GGGAATTTCGGTCATTTTACCTTATTT
1 GGGTATTT-TGTCATTTTACCCTA-TG
*
1359732 GGGTATTTCGGTCATTTTACCCTATG
1 GGGTATTT-TGTCATTTTACCCTATG
*
1359758 AGGGTATTTTAGTTATTTTA-CCTATGG
1 -GGGTATTTT-GTCATTTTACCCTAT-G
1359785 GGGTATTTTGGTCATTTTACC
1 GGGTATTTT-GTCATTTTACC
1359806 TATTTTGGGG
Statistics
Matches: 198, Mismatches: 29, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
26 26 0.13
27 167 0.84
28 5 0.03
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (25 bp):
GGGTATTTTGTCATTTTACCCTATG
Found at i:1359630 original size:54 final size:53
Alignment explanation
Indices: 1359543--1359805 Score: 296
Period size: 54 Copynumber: 4.9 Consensus size: 53
1359533 TCGCAAATCA
* *
1359543 GGGTATTT-ATGTCATTTTACCCTATGGGTGTATTTCGGTCATTCTACCCTATAG
1 GGGTATTTCA-GTCATTTTA-CCTATGGGGGTATTTCGGTCATTTTACCCTATAG
*
1359597 GGGTATTTCAGTCATTTTATCCTATGGGGGTATTTCGATCATTTTACCCTATAG
1 GGGTATTTCAGTCATTTTA-CCTATGGGGGTATTTCGGTCATTTTACCCTATAG
* ** * * * * *
1359651 AGGTATTTTGGACATTCTACCCTATAGAGGTATTTCAGTCATTTTACCCTATAG
1 GGGTATTTCAGTCATTTTA-CCTATGGGGGTATTTCGGTCATTTTACCCTATAG
* * **
1359705 GGGAATTTCGGTCATTTTACCTTATTTGGGTATTTCGGTCATTTTACCCTAT-G
1 GGGTATTTCAGTCATTTTACC-TATGGGGGTATTTCGGTCATTTTACCCTATAG
* * *
1359758 AGGGTATTTTAGTTATTTTACCTATGGGGGTATTTTGGTCATTTTACC
1 -GGGTATTTCAGTCATTTTACCTATGGGGGTATTTCGGTCATTTTACC
1359806 TATTTTGGGG
Statistics
Matches: 176, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
53 26 0.15
54 149 0.85
55 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (53 bp):
GGGTATTTCAGTCATTTTACCTATGGGGGTATTTCGGTCATTTTACCCTATAG
Found at i:1359683 original size:81 final size:78
Alignment explanation
Indices: 1359543--1359805 Score: 321
Period size: 81 Copynumber: 3.3 Consensus size: 78
1359533 TCGCAAATCA
** *
1359543 GGGTATTTATGTCATTTTACCCTATGGGTGTATTTCGGTCATTCTACCCTATAGGGGTATTTCAG
1 GGGTATTTCGGTCATTTTACCCTAT-GG-GTATTTCGGTCATTCTACCCTATAGAGGTATTTCAG
1359608 TCATTTTATCCTATGG
64 TCATTTTA-CCTATGG
* * *
1359624 GGGTATTTCGATCATTTTACCCTATAGAGGTATTTTGGACATTCTACCCTATAGAGGTATTTCAG
1 GGGTATTTCGGTCATTTTACCCTAT-G-GGTATTTCGGTCATTCTACCCTATAGAGGTATTTCAG
*
1359689 TCATTTTACCCTATAG
64 TCATTTTA-CCTATGG
* * * *
1359705 GGGAATTTCGGTCATTTTACCTTATTTGGGTATTTCGGTCATTTTACCCTAT-GAGGGTATTTTA
1 GGGTATTTCGGTCATTTTACCCTA--TGGGTATTTCGGTCATTCTACCCTATAGA-GGTATTTCA
*
1359769 GTTATTTTACCTATGG
63 GTCATTTTACCTATGG
*
1359785 GGGTATTTTGGTCATTTTACC
1 GGGTATTTCGGTCATTTTACC
1359806 TATTTTGGGG
Statistics
Matches: 158, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
80 27 0.17
81 128 0.81
82 2 0.01
83 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.43
Consensus pattern (78 bp):
GGGTATTTCGGTCATTTTACCCTATGGGTATTTCGGTCATTCTACCCTATAGAGGTATTTCAGTC
ATTTTACCTATGG
Found at i:1368832 original size:17 final size:18
Alignment explanation
Indices: 1368802--1368835 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1368792 TTTAATTAGA
*
1368802 ATAAAATATTAACAATTC
1 ATAAAATATGAACAATTC
1368820 ATAAAAT-TGAACAATT
1 ATAAAATATGAACAATT
1368836 AAATAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAAAATATGAACAATTC
Found at i:1368841 original size:18 final size:19
Alignment explanation
Indices: 1368795--1368841 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
1368785 CCAAAAATTT
*
1368795 AATTAGAATAAAATATTAAC
1 AATTA-AATAAAATATGAAC
*
1368815 AATT-CATAAAAT-TGAAC
1 AATTAAATAAAATATGAAC
1368832 AATTAAATAA
1 AATTAAATAA
1368842 TTAAATCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 8 0.35
18 11 0.48
20 4 0.17
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (19 bp):
AATTAAATAAAATATGAAC
Found at i:1381829 original size:41 final size:41
Alignment explanation
Indices: 1381795--1381938 Score: 207
Period size: 41 Copynumber: 3.5 Consensus size: 41
1381785 ACCGGCACTT
* *
1381795 AGCCTGCTAGACATAAAGTCTGATATGTTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGGTATGTTTCACCGGCATCA
* *
1381836 AGCCTGCTAGATGTAAAGTCTGGTATGTTTCACTGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGGTATGTTTCACCGGCATCA
* ** *
1381877 AGCCTGCTAAACGTAATTTCTGGTATGTTTCATCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGGTATGTTTCACCGGCATCA
*
1381918 AGCCTGCTAGACGTAATGTCT
1 AGCCTGCTAGACGTAAAGTCT
1381939 AGTGTCGAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 91 1.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGGTATGTTTCACCGGCATCA
Found at i:1386832 original size:21 final size:20
Alignment explanation
Indices: 1386807--1386907 Score: 87
Period size: 21 Copynumber: 4.8 Consensus size: 20
1386797 ATATTTGAGG
*
1386807 ATTGAGGATTGAAAATTCAAA
1 ATTGAAGATTGAAAATT-AAA
*
1386828 ATTGAAAATTGAAAATTAAA
1 ATTGAAGATTGAAAATTAAA
*
1386848 ATTTGAAGATTGAAATTATAAA
1 A-TTGAAGATTGAAAAT-TAAA
***
1386870 ATTGGAA-ATTGGGGATTAAA
1 ATT-GAAGATTGAAAATTAAA
*
1386890 TATTGAAGATTGAGAATT
1 -ATTGAAGATTGAAAATT
1386908 TAGGAAGAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
20 11 0.17
21 46 0.71
22 8 0.12
ACGTcount: A:0.48, C:0.01, G:0.19, T:0.33
Consensus pattern (20 bp):
ATTGAAGATTGAAAATTAAA
Found at i:1386850 original size:6 final size:7
Alignment explanation
Indices: 1386814--1386880 Score: 66
Period size: 7 Copynumber: 9.6 Consensus size: 7
1386804 AGGATTGAGG
1386814 ATTGAAA
1 ATTGAAA
*
1386821 ATTCAAA
1 ATTGAAA
1386828 ATTGAAA
1 ATTGAAA
1386835 ATTGAAA
1 ATTGAAA
1386842 ATT-AAA
1 ATTGAAA
*
1386848 ATTTGAAG
1 A-TTGAAA
1386856 ATTG-AA
1 ATTGAAA
*
1386862 ATTATAAA
1 ATT-GAAA
*
1386870 ATTGGAA
1 ATTGAAA
1386877 ATTG
1 ATTG
1386881 GGGATTAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
6 8 0.16
7 33 0.67
8 8 0.16
ACGTcount: A:0.52, C:0.01, G:0.13, T:0.33
Consensus pattern (7 bp):
ATTGAAA
Found at i:1393145 original size:2 final size:2
Alignment explanation
Indices: 1393138--1393175 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1393128 AGAAGTGAGT
1393138 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1393176 CTATTTTGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1394088 original size:5 final size:5
Alignment explanation
Indices: 1394078--1394108 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
1394068 TTATTAAAAA
1394078 ATATT ATATT ATATT ATATT ATATT ATATT A
1 ATATT ATATT ATATT ATATT ATATT ATATT A
1394109 ACACTGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:1397076 original size:15 final size:16
Alignment explanation
Indices: 1397056--1397086 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1397046 AGTATAATAA
1397056 AAATAT-CTCATATTT
1 AAATATACTCATATTT
1397071 AAATATACTCATATTT
1 AAATATACTCATATTT
1397087 TACTTTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATATACTCATATTT
Found at i:1400830 original size:11 final size:11
Alignment explanation
Indices: 1400814--1400846 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
1400804 ATGTTCTTTA
1400814 AAATGATTTTC
1 AAATGATTTTC
1400825 AAATGATTTTC
1 AAATGATTTTC
1400836 AAATGAGTTTT
1 AAATGA-TTTT
1400847 GAAAAGATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (11 bp):
AAATGATTTTC
Found at i:1412206 original size:147 final size:145
Alignment explanation
Indices: 1412021--1412351 Score: 456
Period size: 147 Copynumber: 2.3 Consensus size: 145
1412011 AAGTTTTGAT
* *
1412021 TTTTTTTAAAATAGAAAGTTTAGATTTTAAAAAATAAAAATACGTTTTTTT-AGTCATTTTAAAG
1 TTTTTTTAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAAT-CGTTTTTTTAAGTCATTTTAAAG
1412085 GAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTCAACTATTTCCAAATAAAAGTTTTAAT
65 GAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTT-AACTATTTCCAAAT-AAAGTTTTAAT
*
1412150 CTTTAAGAAAAATATTG-
128 CTTTAAGAAAAATAATGA
*
1412167 TTTTTTTAAAAGGAGAAAGTTTAGATTTTGAAAAATAAAAATCTTTTTTTTAAGTCATTTTAAAG
1 TTTTTTTAAAA-GAGAAAGTTTAGATTTTGAAAAATAAAAATCGTTTTTTTAAGTCATTTTAAAG
** * * * *
1412232 GAAAGTTTAAGTTTTTAAAATAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAGTTTTAATTT
65 GAAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTAACTATTTCCAAATAAAGTTTTAATCT
*
1412297 TTAAGAAAAGTAATGA
130 TTAAGAAAAATAATGA
* *
1412313 TTTTTTCT-AAAGA-AAACTTT-GATTTTGCAAAAAAAAAAA
1 TTTTTT-TAAAAGAGAAAGTTTAGATTTTG-AAAAATAAAAA
1412352 AAAATCCGGT
Statistics
Matches: 167, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
143 7 0.04
144 16 0.10
145 27 0.16
146 41 0.25
147 76 0.46
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (145 bp):
TTTTTTTAAAAGAGAAAGTTTAGATTTTGAAAAATAAAAATCGTTTTTTTAAGTCATTTTAAAGG
AAAGTTTAAAATTTTAAAACAAAATTTTGATTTTTTTAACTATTTCCAAATAAAGTTTTAATCTT
TAAGAAAAATAATGA
Found at i:1412488 original size:13 final size:13
Alignment explanation
Indices: 1412470--1412494 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1412460 AGGAAGAGGT
1412470 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
1412483 TTTTTCTTTTTT
1 TTTTTCTTTTTT
1412495 TGAAAAAAAT
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:1415800 original size:21 final size:21
Alignment explanation
Indices: 1415753--1415794 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1415743 AAAATCCGTG
*
1415753 TAATTTCTCTTTAACGAAATC
1 TAATTTCTCTTTAACAAAATC
*
1415774 TAATTTCTCTTTAATAAAATC
1 TAATTTCTCTTTAACAAAATC
1415795 AGATTTGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (21 bp):
TAATTTCTCTTTAACAAAATC
Found at i:1418035 original size:19 final size:17
Alignment explanation
Indices: 1418013--1418055 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 17
1418003 TGTTAATTTC
1418013 ATGAATTATATTATGTATG
1 ATGAATTATATT-TGT-TG
1418032 ATGAGA-TATATTTGTTG
1 ATGA-ATTATATTTGTTG
1418049 ATGAATT
1 ATGAATT
1418056 GAGAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 1 0.05
17 7 0.32
18 3 0.14
19 10 0.45
20 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.47
Consensus pattern (17 bp):
ATGAATTATATTTGTTG
Found at i:1418215 original size:51 final size:51
Alignment explanation
Indices: 1418135--1418245 Score: 213
Period size: 51 Copynumber: 2.2 Consensus size: 51
1418125 TTATTCAGTA
1418135 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
*
1418186 ACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
1418237 ACAAGTGAT
1 ACAAGTGAT
1418246 GTGATATGTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.30
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
Found at i:1426087 original size:11 final size:12
Alignment explanation
Indices: 1426047--1426089 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
1426037 TTGCCTAAAT
*
1426047 AAAAAGAACAACA
1 AAAAAGAA-ACCA
*
1426060 AAACAACAAACCA
1 AAA-AAGAAACCA
1426073 AAAAAGAAACCA
1 AAAAAGAAACCA
1426085 AAAAA
1 AAAAA
1426090 ATAAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 13 0.50
13 9 0.35
14 4 0.15
ACGTcount: A:0.77, C:0.19, G:0.05, T:0.00
Consensus pattern (12 bp):
AAAAAGAAACCA
Found at i:1426559 original size:42 final size:42
Alignment explanation
Indices: 1426495--1427009 Score: 652
Period size: 42 Copynumber: 12.3 Consensus size: 42
1426485 AAGGAAAGCA
* * *
1426495 TTCATTGCATTTAGAGGCCCAGGTGTAGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * *
1426537 GTAATTGCATTTAGAGATCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * **
1426579 TTCGTTGCATTTAGAGGCCCAAGTGTGGAGGTCTGTTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * *
1426621 TTCATTGCATTTAGAGGCCTAAGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* *
1426663 TTCATTGCATTTAGATATCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * *
1426705 TTCGTTGCATTTAGAGGCCCAGGTGTGGAGATCCGTTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * *
1426747 TTCATTGCATTTAGAGGCGCAGGTATGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* *
1426789 TTCATTGCATTTAGAGACCTAGGTGTGGAGGTCCATTCACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * *
1426831 TTCATTACATTTAGAGACCCAGGTGTGGAGGTCTATTTGCTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * * *
1426873 TTTATTGCATTTAGAGGCTCAGGCGTGGAGGTCCATTTGCTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
** *
1426915 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCTGTTTAATT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
* * * *
1426957 TTCATTGAATTTAAAGGCCCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
1426999 TTCATTGCATT
1 TTCATTGCATT
1427010 GTATATGAAG
Statistics
Matches: 405, Mismatches: 68, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 405 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (42 bp):
TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTACTT
Found at i:1428132 original size:145 final size:145
Alignment explanation
Indices: 1427842--1428161 Score: 359
Period size: 145 Copynumber: 2.2 Consensus size: 145
1427832 TTTTTTAAAA
* * * * *
1427842 AAAGAGAAAGTTTAGATTTTAAAAAATAAAAATTTGTTTTTTTTTTAGTCTTTTTAAGGGAAAGT
1 AAAGAGAAAGTTTAGATTTT-GAAAA-AAAAATCTG--TTTTTTTAAGTCATTTTAAAGGAAAGT
** *
1427907 TTAAAATTTTTAAAACAATTTTTTTATTTTTTTCAACTATTTCAAAATAAAATTTTTAATCTTTA
62 TTAAAATTTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAAAATAAAATTTTTAATCTTTA
* *
1427972 AGAAATATAGTTTTTTTTT
127 AGAAATATAGCTTTTTTCT
1427991 AAAGGAGAAAGTTTAGATTTTGAAAAAAAAATCTG-TTTTTTAAGTCATTTTAAAGGAAAGTTTA
1 AAA-GAGAAAGTTTAGATTTTGAAAAAAAAATCTGTTTTTTTAAGTCATTTTAAAGGAAAGTTTA
* * *
1428055 AAA-TTTTAAAACAAAGTTTTGATTTTTTT-AACTATTTCGAAAT-AATTTTTTGAGT-TTTAAG
65 AAATTTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAAAATAAAATTTTT-AATCTTTAAG
1428116 AAA-AGTAATGACTTTTTTCT
129 AAATA-T-A-G-CTTTTTTCT
* *
1428136 AAAGA-AAACTTT-GATTTTGTAAAAAA
1 AAAGAGAAAGTTTAGATTTTGAAAAAAA
1428162 CAAAAATTTT
Statistics
Matches: 150, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
141 1 0.01
142 30 0.20
143 22 0.15
144 26 0.17
145 39 0.26
148 8 0.05
149 7 0.05
150 17 0.11
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (145 bp):
AAAGAGAAAGTTTAGATTTTGAAAAAAAAATCTGTTTTTTTAAGTCATTTTAAAGGAAAGTTTAA
AATTTTTAAAACAAAGTTTTGATTTTTTTCAACTATTTCAAAATAAAATTTTTAATCTTTAAGAA
ATATAGCTTTTTTCT
Found at i:1429273 original size:3 final size:3
Alignment explanation
Indices: 1429267--1429310 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
1429257 TTATTAATTA
1429267 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1429311 AGGATCGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1430020 original size:3 final size:3
Alignment explanation
Indices: 1430014--1430057 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
1430004 TTATTAATTA
1430014 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1430058 AGGATCGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1430081 original size:747 final size:744
Alignment explanation
Indices: 1428649--1430136 Score: 2581
Period size: 747 Copynumber: 2.0 Consensus size: 744
1428639 TATTATTATT
* *
1428649 ATCATCATGTTAAGGTCTTATTTATTTATTTTATTTAATCTTTCTTTTTATTACTGCTATTCTGA
1 ATCATCATGTGAAGGTCTTACTTATTTATTTTATTTAATCTTTCTTTTTATTACTGCTATTCTGA
* * **
1428714 AAGAGTTTTAACTTTTCATCAACTTTAGCCAATTTAATTAATTTTCCTATTTTATTACTATTTGT
66 AAGAGTTTGAACTTTTCATCAACTTTAGCCAATTTAATTAATTTTCCTAGTTTATTACTATTCAT
* *
1428779 TTTAAAATAGAAAACTTTAGGTCATTTTTCCATCTTATAATTGCTAACATGAAGTTAGTTAAGTA
131 TTTAAAAGAGAAAACTTTAGGTCATTTTTCCATCCTATAATTGCTAACATGAAGTTAGTTAAGTA
* *
1428844 AGTGTTATATTTTACTGAAACCATAAGGTTTTTATATTTGGATTTAGGTTAGTCCTTAAGATCTT
196 AGTGTTATATTTTAATGAAACCATAAGGTTTTTACATTTGGATTTAGGTTAGTCCTTAAGATCTT
*
1428909 ACCTACCATTTACCTTAGAAAAATTATAAATAATATGTAGGATTTTTTTAAGGTTTTAAAGTAAT
261 ACCTACCATTTACCTTAGAAAAATTATAAACAATATGTAGGATTTTTTTAAGGTTTTAAAGTAAT
1428974 TTTAAAATATCATATAGGATTAGAATCTTAAGTTAATATGTAAATATTCTTTAGGACTTTATTCA
326 TTTAAAATATCATATAGGATTAGAATCTTAAGTTAATATGTAAATATTCTTTAGGACTTTATTCA
1429039 AGATTAAAACTAAAAATTTTTGTAGGTGAATTGTAAATCATGAGTAGGTCTTTCTAAGTATTTTA
391 AGATTAAAACTAAAAATTTTTGTAGGTGAATTGTAAATCATGAGTAGGTCTTTCTAAGTATTTTA
1429104 TTTTAGAAACATTTTTAAAAAGCTAATAAATGTTATTTAAGATTTATTGTTTTAGGATTTTGACA
456 TTTTAGAAACATTTTTAAAAAGCTAATAAATGTTATTTAAGATTTATTGTTTTAGGATTTTGACA
1429169 AATTTAAATCTTAGATCAAGAATTTTAAAGTAAGATAAATCATAAACCCGACATAGAATAATTTT
521 AATTTAAATCTTAGATCAAGAATTTTAAAGTAAGATAAATCATAAACCCGACATAGAATAATTTT
1429234 GTTAAATCTTGATAGGTTCAACATTATTAATTAAATAATAATAATAATAATAATAATAATAATAA
586 GTTAAATCTTGATAGGTTCAACATTATTAATTAAATAATAATAATAATAATAATAATAATAATAA
* *
1429299 TAATAATAATAAAGGATCGAATAAGTTGTAGATGGA-TTTAACATTTCTCTTGATTCATTGGTAA
651 TAATAATAATAAAGGATCGAATAAGTTATAGATGGATTTTAACATTTCTCTTGATTCATTAGTAA
*
1429363 TTTTTAGGTTTTTTTTAGAATTCCAAAATTTC
716 TTTCTA--TTTTTTTTA-AATTCCAAAATTTC
* * *
1429395 ATCATCATGTGAAGGTCTTACTTATTTCA-TTTATTTAATTTTTCTTTTTATTATTG-TCATTTT
1 ATCATCATGTGAAGGTCTTACTTATTT-ATTTTATTTAATCTTTCTTTTTATTACTGCT-ATTCT
*
1429458 GAAAGAGTTTGAACTTTTCATTAACTTTAGCCAATTTAATTAATTTTCCTAGTTTATTACTATTC
64 GAAAGAGTTTGAACTTTTCATCAACTTTAGCCAATTTAATTAATTTTCCTAGTTTATTACTATTC
* * * *
1429523 ATTTTAAAAGAGGAAA-TTCTAGGTCATTTTTTCATCCTATAATTGTTGACATGAAGTTAGTTAA
129 ATTTTAAAAGAGAAAACTT-TAGGTCATTTTTCCATCCTATAATTGCTAACATGAAGTTAGTTAA
*
1429587 GTAGGTGTTATATTTTAATGAAACCATAAGGTTTTTACATTTGGATTTAGGTTAGTCCTTAAGAT
193 GTAAGTGTTATATTTTAATGAAACCATAAGGTTTTTACATTTGGATTTAGGTTAGTCCTTAAGAT
* *
1429652 CTTACCTACCATTTACCTTAGAAAAATTATAAACAATATGTAAGATATTTTTTTAGGGTTTTAAA
258 CTTACCTACCATTTACCTTAGAAAAATTATAAACAATATGT-AG-GATTTTTTTAAGGTTTTAAA
* * **
1429717 TTAGTTTT-AAATATTGTATAGGATTAGAATCTTAAGTTAATATGTAAATATTCTTTAGGACTTT
321 GTAATTTTAAAATATCATATAGGATTAGAATCTTAAGTTAATATGTAAATATTCTTTAGGACTTT
1429781 ATTCAAGATTAAAACTAAAAATTTTTGTAGGTGAATTGTAAATCATGAGTAGGTCTTTCTAAGTA
386 ATTCAAGATTAAAACTAAAAATTTTTGTAGGTGAATTGTAAATCATGAGTAGGTCTTTCTAAGTA
1429846 TTTTATTTTAGAAACATTTTTAAAAAGCTAATAAATGTTATTTAAGATTTATTGTTTTAGGATTT
451 TTTTATTTTAGAAACATTTTTAAAAAGCTAATAAATGTTATTTAAGATTTATTGTTTTAGGATTT
1429911 TGACAAATTTAAATCTTAGATCAAGAATTTTAAAGTAAGATAAATCATAAACCCGACATAGAATA
516 TGACAAATTTAAATCTTAGATCAAGAATTTTAAAGTAAGATAAATCATAAACCCGACATAGAATA
1429976 ATTTTGTTAAATCTTGATAGGTTCAACATTATTAATTAAATAATAATAATAATAATAATAATAAT
581 ATTTTGTTAAATCTTGATAGGTTCAACATTATTAATTAAATAATAATAATAATAATAATAATAAT
*
1430041 AATAATAATAATAATAAAGGATCGAATAAGTTATAGATGGATTTTAATATTTCTCTTGATTCATT
646 AATAATAATAATAATAAAGGATCGAATAAGTTATAGATGGATTTTAACATTTCTCTTGATTCATT
* *
1430106 ATTAATTTCTATTTTTTTTAAATTCTAAAAT
711 AGTAATTTCTATTTTTTTTAAATTCCAAAAT
1430137 AGAATTAATT
Statistics
Matches: 704, Mismatches: 32, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
745 13 0.02
746 280 0.40
747 357 0.51
748 54 0.08
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (744 bp):
ATCATCATGTGAAGGTCTTACTTATTTATTTTATTTAATCTTTCTTTTTATTACTGCTATTCTGA
AAGAGTTTGAACTTTTCATCAACTTTAGCCAATTTAATTAATTTTCCTAGTTTATTACTATTCAT
TTTAAAAGAGAAAACTTTAGGTCATTTTTCCATCCTATAATTGCTAACATGAAGTTAGTTAAGTA
AGTGTTATATTTTAATGAAACCATAAGGTTTTTACATTTGGATTTAGGTTAGTCCTTAAGATCTT
ACCTACCATTTACCTTAGAAAAATTATAAACAATATGTAGGATTTTTTTAAGGTTTTAAAGTAAT
TTTAAAATATCATATAGGATTAGAATCTTAAGTTAATATGTAAATATTCTTTAGGACTTTATTCA
AGATTAAAACTAAAAATTTTTGTAGGTGAATTGTAAATCATGAGTAGGTCTTTCTAAGTATTTTA
TTTTAGAAACATTTTTAAAAAGCTAATAAATGTTATTTAAGATTTATTGTTTTAGGATTTTGACA
AATTTAAATCTTAGATCAAGAATTTTAAAGTAAGATAAATCATAAACCCGACATAGAATAATTTT
GTTAAATCTTGATAGGTTCAACATTATTAATTAAATAATAATAATAATAATAATAATAATAATAA
TAATAATAATAAAGGATCGAATAAGTTATAGATGGATTTTAACATTTCTCTTGATTCATTAGTAA
TTTCTATTTTTTTTAAATTCCAAAATTTC
Found at i:1430838 original size:19 final size:20
Alignment explanation
Indices: 1430815--1430886 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
1430805 AAAATTACAA
*
1430815 AAAAAATCAAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
*
1430835 AAAAATTGAAAATAATTTT-
1 AAAAATTCAAAATAATTTTC
* *
1430854 TAAAATTTAAAAT-ATTTAT-
1 AAAAATTCAAAATAATTT-TC
1430873 AAAAATTCTAAAAT
1 AAAAATTC-AAAAT
1430887 TTGTTTTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
18 4 0.09
19 18 0.41
20 22 0.50
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:1430846 original size:20 final size:19
Alignment explanation
Indices: 1430823--1430879 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
1430813 AAAAAAAATC
1430823 AAAATAATTTTCAAAAATTG
1 AAAATAATTTT-AAAAATTG
* *
1430843 AAAATAATTTTTAAAATTT
1 AAAATAATTTTAAAAATTG
1430862 AAAAT-ATTTATAAAAATT
1 AAAATAATTT-TAAAAATT
1430880 CTAAAATTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.12
19 18 0.55
20 11 0.33
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
AAAATAATTTTAAAAATTG
Found at i:1437379 original size:22 final size:22
Alignment explanation
Indices: 1437354--1437397 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1437344 ATCTATTTAA
1437354 AAGACTAGATAACATTAAAAAC
1 AAGACTAGATAACATTAAAAAC
1437376 AAGACTAGATAACATTAAAAAC
1 AAGACTAGATAACATTAAAAAC
1437398 TAGTAAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.14, G:0.09, T:0.18
Consensus pattern (22 bp):
AAGACTAGATAACATTAAAAAC
Found at i:1447182 original size:96 final size:96
Alignment explanation
Indices: 1447018--1447201 Score: 368
Period size: 96 Copynumber: 1.9 Consensus size: 96
1447008 AGCTCCTCTT
1447018 AATCACTTGATCAGTTAGCGCCCTTCTTTCCCAACTCAATTAGCACCGGTTTCAATGGCTTGATC
1 AATCACTTGATCAGTTAGCGCCCTTCTTTCCCAACTCAATTAGCACCGGTTTCAATGGCTTGATC
1447083 AGAGCTTCCTCAACAATTTTAGCACACTCCG
66 AGAGCTTCCTCAACAATTTTAGCACACTCCG
1447114 AATCACTTGATCAGTTAGCGCCCTTCTTTCCCAACTCAATTAGCACCGGTTTCAATGGCTTGATC
1 AATCACTTGATCAGTTAGCGCCCTTCTTTCCCAACTCAATTAGCACCGGTTTCAATGGCTTGATC
1447179 AGAGCTTCCTCAACAATTTTAGC
66 AGAGCTTCCTCAACAATTTTAGC
1447202 CTTCTCGACC
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 88 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (96 bp):
AATCACTTGATCAGTTAGCGCCCTTCTTTCCCAACTCAATTAGCACCGGTTTCAATGGCTTGATC
AGAGCTTCCTCAACAATTTTAGCACACTCCG
Found at i:1461161 original size:12 final size:12
Alignment explanation
Indices: 1461144--1461169 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1461134 AGCAAGTAAT
1461144 ATATGCAAAGAA
1 ATATGCAAAGAA
1461156 ATATGCAAAGAA
1 ATATGCAAAGAA
1461168 AT
1 AT
1461170 TTAAAAACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.08, G:0.15, T:0.19
Consensus pattern (12 bp):
ATATGCAAAGAA
Found at i:1463570 original size:20 final size:21
Alignment explanation
Indices: 1463530--1463570 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1463520 TTCTTAGTAT
*
1463530 TTTCCTTTTTAGTTTTAAGGA
1 TTTCCTTGTTAGTTTTAAGGA
*
1463551 TTTCCTTGTT-GTTTTGAGGA
1 TTTCCTTGTTAGTTTTAAGGA
1463571 GGTATTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.15, C:0.10, G:0.20, T:0.56
Consensus pattern (21 bp):
TTTCCTTGTTAGTTTTAAGGA
Found at i:1469302 original size:14 final size:14
Alignment explanation
Indices: 1469240--1469303 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 14
1469230 AATAATATTA
1469240 TAAAATA-TAAAAT
1 TAAAATATTAAAAT
*
1469253 TAAATTATGTTTAAAAT
1 TAAA--AT-ATTAAAAT
*
1469270 TAAAATATAAAAAT
1 TAAAATATTAAAAT
* *
1469284 T-AAATCTTAAATT
1 TAAAATATTAAAAT
1469297 TAAAATA
1 TAAAATA
1469304 ATAGAGAGAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
13 14 0.36
14 11 0.28
15 4 0.10
17 10 0.26
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (14 bp):
TAAAATATTAAAAT
Found at i:1472227 original size:21 final size:21
Alignment explanation
Indices: 1472201--1472242 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1472191 TCGAATGGAG
*
1472201 CAGCTCTTATGAGCTTCTGTT
1 CAGCTCTTACGAGCTTCTGTT
1472222 CAGCTCTTACGAGCTTCTGTT
1 CAGCTCTTACGAGCTTCTGTT
1472243 GGCGTGTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.40
Consensus pattern (21 bp):
CAGCTCTTACGAGCTTCTGTT
Found at i:1472279 original size:39 final size:40
Alignment explanation
Indices: 1472222--1472398 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
1472212 AGCTTCTGTT
* * *
1472222 CAGCTCTTACGAGCTTCTG-TTGGCGTGTTTCAGG-TGGAC
1 CAGCTCTTATGAGCTTCTGTTTGGCATATTTC-GGTTGGAC
* *
1472261 CAACTCTTATGAGCTTCTGTTTGGCATATTTCGGTTGGAT
1 CAGCTCTTATGAGCTTCTGTTTGGCATATTTCGGTTGGAC
* *
1472301 CAGCTCTTATGAGCTTCTG-TTGGCATGTTTCGGGTGGAC
1 CAGCTCTTATGAGCTTCTGTTTGGCATATTTCGGTTGGAC
** *
1472340 CAGCTCTTATGAGCTTCTGTTTGGTGTATTTCGGTTGGAT
1 CAGCTCTTATGAGCTTCTGTTTGGCATATTTCGGTTGGAC
1472380 CAGCTCTTATGAGCTTCTG
1 CAGCTCTTATGAGCTTCTG
1472399 CCTGGTGTGT
Statistics
Matches: 121, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 55 0.45
40 66 0.55
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (40 bp):
CAGCTCTTATGAGCTTCTGTTTGGCATATTTCGGTTGGAC
Found at i:1472352 original size:79 final size:79
Alignment explanation
Indices: 1472221--1472398 Score: 302
Period size: 79 Copynumber: 2.3 Consensus size: 79
1472211 GAGCTTCTGT
* *
1472221 TCAGCTCTTACGAGCTTCTGTTGGCGTGTTTCAGGTGGACCAACTCTTATGAGCTTCTGTTTGGC
1 TCAGCTCTTATGAGCTTCTGTTGGCATGTTTCAGGTGGACCAACTCTTATGAGCTTCTGTTTGGC
1472286 ATATTTCGGTTGGA
66 ATATTTCGGTTGGA
* * *
1472300 TCAGCTCTTATGAGCTTCTGTTGGCATGTTTCGGGTGGACCAGCTCTTATGAGCTTCTGTTTGGT
1 TCAGCTCTTATGAGCTTCTGTTGGCATGTTTCAGGTGGACCAACTCTTATGAGCTTCTGTTTGGC
*
1472365 GTATTTCGGTTGGA
66 ATATTTCGGTTGGA
1472379 TCAGCTCTTATGAGCTTCTG
1 TCAGCTCTTATGAGCTTCTG
1472399 CCTGGTGTGT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 93 1.00
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (79 bp):
TCAGCTCTTATGAGCTTCTGTTGGCATGTTTCAGGTGGACCAACTCTTATGAGCTTCTGTTTGGC
ATATTTCGGTTGGA
Found at i:1480882 original size:9 final size:10
Alignment explanation
Indices: 1480858--1480882 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1480848 TTGCCGTCCC
1480858 CTTTTTATTT
1 CTTTTTATTT
1480868 CTTTTTATTT
1 CTTTTTATTT
1480878 CTTTT
1 CTTTT
1480883 CTTTTCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (10 bp):
CTTTTTATTT
Found at i:1484604 original size:17 final size:18
Alignment explanation
Indices: 1484578--1484611 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1484568 ATAAATTATA
*
1484578 TATGTATATATAAAATAG
1 TATGTATATAAAAAATAG
1484596 TATGT-TATAAAAAATA
1 TATGTATATAAAAAATA
1484612 TATTCATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (18 bp):
TATGTATATAAAAAATAG
Found at i:1484837 original size:3 final size:3
Alignment explanation
Indices: 1484829--1484870 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
1484819 GTATAAAAAT
* * *
1484829 ATA ATA ATA ATA CTA ATA ATA ATA ATA GTA ATA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1484871 GATTAATTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:1484849 original size:15 final size:15
Alignment explanation
Indices: 1484829--1484870 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
1484819 GTATAAAAAT
1484829 ATAATAATAATACTA
1 ATAATAATAATACTA
*
1484844 ATAATAATAATAGTA
1 ATAATAATAATACTA
*
1484859 ATAATAAAAATA
1 ATAATAATAATA
1484871 GATTAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAATAATAATACTA
Found at i:1484871 original size:15 final size:15
Alignment explanation
Indices: 1484829--1484886 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
1484819 GTATAAAAAT
* *
1484829 ATAATAATAATACTA
1 ATAATAAAAATAGTA
*
1484844 ATAATAATAATAGTA
1 ATAATAAAAATAGTA
1484859 ATAATAAAAATAGATTA
1 ATAATAAAAATAG--TA
1484876 ATTAATAAAAA
1 A-TAATAAAAA
1484887 AACTAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
15 26 0.68
17 3 0.08
18 9 0.24
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (15 bp):
ATAATAAAAATAGTA
Found at i:1486557 original size:45 final size:45
Alignment explanation
Indices: 1486416--1486628 Score: 243
Period size: 44 Copynumber: 4.8 Consensus size: 45
1486406 CGTTTTAATT
* *
1486416 TGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTCAATC
* *
1486460 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTGGTATCTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTCAATC
* * * *
1486504 TGCTCCACTGCAACTTTAGAGAGATAAGGTTTGTTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTCAATC
* * * * *
1486549 TGTTCCACTGCAACTTCAGGGAGATAAGACTTATTATGGTGT-GATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTAT-CT-TCAATC
* * *
1486595 TGCTCTACTGCAACTTTAGAGAGATAAGATTTGT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
1486629 AGCTCTTCGA
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
43 2 0.01
44 64 0.45
45 43 0.30
46 31 0.22
47 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (45 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTATCTTCAATC
Found at i:1486616 original size:89 final size:86
Alignment explanation
Indices: 1486416--1486632 Score: 220
Period size: 89 Copynumber: 2.4 Consensus size: 86
1486406 CGTTTTAATT
*
1486416 TGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGG
1 TGCTCCACTGCAACTTTA--GAGATAAGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGG
*
1486481 AGATAAGATTGGTATCTTCAACC
64 AGATAAGATTAGTATCTTCAACC
* * * * *
1486504 TGCTCCACTGCAACTTTAGAGAGATAAGGTTTGTTATCTTCAGTCTGTTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTT--AGAGATAAGATTAG-TAGCTTCAATCTGCTCCACTGCAACTTCAGG
* * * *
1486569 GAGATAAGACTTATTATGGTGT-GATC
63 GAGATAAGA-TTAGTAT-CT-TCAACC
* *
1486595 TGCTCTACTGCAACTTTAGAGAGATAAGATTTGTAGCT
1 TGCTCCACTGCAACTTT--AGAGATAAGATTAGTAGCT
1486633 CTTCGAGGAA
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
88 27 0.25
89 37 0.34
90 10 0.09
91 34 0.31
92 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (86 bp):
TGCTCCACTGCAACTTTAGAGATAAGATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATTAGTATCTTCAACC
Found at i:1486816 original size:44 final size:44
Alignment explanation
Indices: 1486768--1487110 Score: 293
Period size: 44 Copynumber: 7.9 Consensus size: 44
1486758 AACTTAGAAT
*
1486768 AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGAG
1 AGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAGAG
* * ** * * *
1486812 AGATAGGAT-TG-GTTTCTTTCGTCTGCTCCACTACAAGTTCAGGG
1 AGATAAGATCTGTG-AT-TTTAATCTGCTCCACTGCAACTTCAGAG
* *** *
1486856 AGATAA-AACTG-GA-TGCGATCTGCTCTACTGCAACTTCAGAG
1 AGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAGAG
*
1486897 AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGAG
1 AGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAGAG
* **
1486941 AGATAGGAT-TGGTG-TCTTTCGTCTGCTCCACTGCAACTTCAG-G
1 AGATAAGATCT-GTGAT-TTTAATCTGCTCCACTGCAACTTCAGAG
* *
1486984 CAGATAAGA-CTG-GA-TGTAATCTGCTCTACTGCAACTTCAGAG
1 -AGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAGAG
1487026 AGATAAGATCTGTGATTTTAATCTGCTCCACAT-CAACTTCATG-G
1 AGATAAGATCTGTGATTTTAATCTGCTCCAC-TGCAACTTCA-GAG
* * **
1487070 AGATAGGAT-TG-GTTTCTTTTGTCTGCTCCACTGCAACTTCA
1 AGATAAGATCTGTG-AT-TTTAATCTGCTCCACTGCAACTTCA
1487111 AGGGGATAAG
Statistics
Matches: 239, Mismatches: 40, Indels: 40
0.75 0.13 0.13
Matches are distributed among these distances:
41 56 0.23
42 11 0.05
43 16 0.07
44 154 0.64
45 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (44 bp):
AGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAGAG
Found at i:1486904 original size:129 final size:129
Alignment explanation
Indices: 1486729--1487119 Score: 585
Period size: 129 Copynumber: 3.0 Consensus size: 129
1486719 TTTTAAGAAA
* * * *
1486729 ATAAAATCT-GATGCGAACTGATCTACTGTAACTT-AGAATAGATAAGATCTGTGATTTTAATCC
1 ATAAAA-CTGGATGCGATCTGCTCTACTGCAACTTCAG-AGAGATAAGATCTGTGATTTTAATCC
* *
1486792 GCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTTCGTCTGCTCCACTACAAGTTCAGGGA
64 GCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTTCGTCTGCTCCACTGCAACTTCAGGGA
1486857 G
129 G
1486858 ATAAAACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGC
1 ATAAAACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGC
* *
1486923 TCCACTGCAACTTCAGAGAGATAGGATTGGTGTCTTTCGTCTGCTCCACTGCAACTTCAGGCAG
66 TCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAG
* ** *
1486987 ATAAGACTGGATGTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCTGC
1 ATAAAACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGC
*
1487052 TCCACAT-CAACTTCATG-GAGATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACTTCAAGGG
66 TCCAC-TGCAACTTCA-GAGAGATAGGATTGGTTTCTTTCGTCTGCTCCACTGCAACTTC-AGGG
1487115 -G
128 AG
1487116 ATAA
1 ATAA
1487120 GACTTGCTTT
Statistics
Matches: 242, Mismatches: 15, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
128 2 0.01
129 233 0.96
130 7 0.03
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (129 bp):
ATAAAACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGC
TCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTTCGTCTGCTCCACTGCAACTTCAGGGAG
Found at i:1487051 original size:85 final size:85
Alignment explanation
Indices: 1486768--1487110 Score: 279
Period size: 85 Copynumber: 4.0 Consensus size: 85
1486758 AACTTAGAAT
* * * * **
1486768 AGATAAGATCTGTGATTTTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTGGTTTCTTTCG
1 AGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGG---ATTTAA
* * *
1486833 TCTGCTCCACTACAAGTTCAGGG
63 TCTGCTCCACTGCAACTTCAGAG
* *** *
1486856 AGATAA-AACTG-GA-TGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 AGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-CTG-GA-TTTAA
*
1486918 TCCGCTCCACTGCAACTTCAGAG
63 TCTGCTCCACTGCAACTTCAGAG
* ** *
1486941 AGATAGGAT-TGGTG-TCTTTCGTCTGCTCCACTGCAACTTCAG-GCAGATAAGACTGGATGTAA
1 AGATAAGATCT-GTGAT-TTTAATCTGCTCCACTGCAACTTCAGAG-AGATAAGACTGGATTTAA
*
1487003 TCTGCTCTACTGCAACTTCAGAG
63 TCTGCTCCACTGCAACTTCAGAG
* * *
1487026 AGATAAGATCTGTGATTTTAATCTGCTCCACAT-CAACTTCATG-GAGATAGGATTGGTTTCTTT
1 AGATAAGATCTGTGATTTTAATCTGCTCCAC-TGCAACTTCA-GAGAGATAAGACTGG---ATTT
**
1487089 TGTCTGCTCCACTGCAACTTCA
61 AATCTGCTCCACTGCAACTTCA
1487111 AGGGGATAAG
Statistics
Matches: 204, Mismatches: 35, Indels: 32
0.75 0.13 0.12
Matches are distributed among these distances:
85 125 0.61
86 13 0.06
87 10 0.05
88 56 0.27
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (85 bp):
AGATAAGATCTGTGATTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATTTAATCT
GCTCCACTGCAACTTCAGAG
Found at i:1487144 original size:46 final size:44
Alignment explanation
Indices: 1486792--1487169 Score: 230
Period size: 44 Copynumber: 8.7 Consensus size: 44
1486782 ATTTTAATCC
* *
1486792 GCTCCACTGCAACTTC-AGAGAGATAGGATTGGTTTCTTTCGTCT
1 GCTCCACTGCAACTTCAAG-GAGATAAGATTGGTTTCTTTAGTCT
* * * * * * * *
1486836 GCTCCACTACAAGTTCAGGGAGATAAAACTGGATGC--GA-TCT
1 GCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTCTTTAGTCT
* * * *
1486877 GCTCTACTGCAACTTC-AGAGAGATAAGATCT-GTGAT-TTTAATCC
1 GCTCCACTGCAACTTCAAG-GAGATAAGAT-TGGT-TTCTTTAGTCT
* * *
1486921 GCTCCACTGCAACTTC-AGAGAGATAGGATTGGTGTCTTTCGTCT
1 GCTCCACTGCAACTTCAAG-GAGATAAGATTGGTTTCTTTAGTCT
* * * *
1486965 GCTCCACTGCAACTTC-AGGCAGATAAGACTGG---ATGTAATCT
1 GCTCCACTGCAACTTCAAGG-AGATAAGATTGGTTTCTTTAGTCT
* * *
1487006 GCTCTACTGCAACTTC-AGAGAGATAAGATCT-GTGAT-TTTAATCT
1 GCTCCACTGCAACTTCAAG-GAGATAAGAT-TGGT-TTCTTTAGTCT
* * *
1487050 GCTCCACAT-CAACTTCATGGAGATAGGATTGGTTTCTTTTGTCT
1 GCTCCAC-TGCAACTTCAAGGAGATAAGATTGGTTTCTTTAGTCT
* * *
1487094 GCTCCACTGCAACTTCAAGGGGATAAGACTTGCTTTTCTTTAGTTT
1 GCTCCACTGCAACTTCAAGGAGATAAGA-TTG-GTTTCTTTAGTCT
* ** *
1487140 GCTCCACTGTAGTTTCAGGGAGATAAGATT
1 GCTCCACTGCAACTTCAAGGAGATAAGATT
1487170 CGTGATCTTC
Statistics
Matches: 258, Mismatches: 53, Indels: 45
0.72 0.15 0.13
Matches are distributed among these distances:
40 1 0.00
41 56 0.22
42 3 0.01
43 7 0.03
44 150 0.58
45 8 0.03
46 33 0.13
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAAGGAGATAAGATTGGTTTCTTTAGTCT
Found at i:1496914 original size:13 final size:14
Alignment explanation
Indices: 1496898--1496938 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
1496888 TTTACAGATA
1496898 CAGATA-ACAGAAT
1 CAGATATACAGAAT
*
1496911 CAGATATGCAGAA-
1 CAGATATACAGAAT
*
1496924 CAAATATACAGAAT
1 CAGATATACAGAAT
1496938 C
1 C
1496939 CTACCCCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (14 bp):
CAGATATACAGAAT
Found at i:1498120 original size:6 final size:6
Alignment explanation
Indices: 1498109--1498160 Score: 104
Period size: 6 Copynumber: 8.7 Consensus size: 6
1498099 TTTGGAAAGA
1498109 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1498157 AAAA
1 AAAA
1498161 GATTTAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:1501448 original size:13 final size:14
Alignment explanation
Indices: 1501415--1501445 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1501405 TGTAAATTAG
1501415 AAAAGAAAGAAATA
1 AAAAGAAAGAAATA
1501429 AAAAGAAAGAAATA
1 AAAAGAAAGAAATA
1501443 AAA
1 AAA
1501446 GAAGAAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (14 bp):
AAAAGAAAGAAATA
Found at i:1503176 original size:23 final size:24
Alignment explanation
Indices: 1503125--1503178 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 24
1503115 TGAGGCAGTG
1503125 TTGGTATGGTAGCTTAGCCTAATGC
1 TTGGTATGGTAGCTTAGCCTAAT-C
1503150 TTGGTAT-GT-GCTTAGCTGCTAAT-
1 TTGGTATGGTAGCTTAGC--CTAATC
1503173 TTGGTA
1 TTGGTA
1503179 ACTTTTGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 13 0.48
24 2 0.07
25 12 0.44
ACGTcount: A:0.19, C:0.13, G:0.28, T:0.41
Consensus pattern (24 bp):
TTGGTATGGTAGCTTAGCCTAATC
Found at i:1504899 original size:56 final size:52
Alignment explanation
Indices: 1504803--1505099 Score: 272
Period size: 50 Copynumber: 5.8 Consensus size: 52
1504793 ATTTGGGTAA
* *
1504803 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC--GAGA-CATG
*
1504859 AGAGGTCCCATGTAAGACCATGTCAGGGACATGGCGTTGGCACCGAGAC--G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATG
*
1504909 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGACACCGAG--ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATG
* * * * *
1504959 AGAGGTCCC-TCGTAAGACCATGTCTAGAACATGGCATGGGCACC--GATATG
1 AGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATG
** * * * * * * * *
1505009 AGAAATCCCATGTAAGACCATATTTGGGATATGACATCGGTA--G-TACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATG
* ** *
1505058 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
1505100 TGTTATTATC
Statistics
Matches: 203, Mismatches: 31, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
48 1 0.00
49 38 0.19
50 117 0.58
51 1 0.00
52 1 0.00
53 4 0.02
55 2 0.01
56 39 0.19
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (52 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATG
Found at i:1512370 original size:50 final size:50
Alignment explanation
Indices: 1512260--1512555 Score: 276
Period size: 50 Copynumber: 5.8 Consensus size: 50
1512250 ATTTGGGTAA
* * *
1512260 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC--GAGA-C--G
1512316 AGAGGTCCCATGTAAGACCATGT-TAGGGACATGGCGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCT-GGGACATGGCGTTGGCACCGAGACG
* *
1512366 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
** * * *
1512416 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGC-ATGAGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTG-GCACCGAGACG
** * * * * * *
1512466 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGACG
* ** * *
1512515 AAACATCCCAGGTAAGACCATGTCTGGGACATGGCTTTGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGC
1512556 GTGTTGTTAT
Statistics
Matches: 208, Mismatches: 27, Indels: 17
0.83 0.11 0.07
Matches are distributed among these distances:
48 1 0.00
49 39 0.19
50 120 0.58
51 3 0.01
52 1 0.00
53 4 0.02
55 3 0.01
56 37 0.18
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
Found at i:1512445 original size:100 final size:99
Alignment explanation
Indices: 1512260--1512551 Score: 304
Period size: 100 Copynumber: 2.9 Consensus size: 99
1512250 ATTTGGGTAA
*
1512260 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCCTTGAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATGAGAGGTCCC
*
1512325 ATGTAAGACCATGT-TAGGGACATGGCGTTGGCACCGAGACG
60 ACGTAAGACCATGTCT-GGGACATGGC-TTGGCACCGAGACG
* ** *
1512366 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAGAGGTCCCCCGTAA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACGTAA
* * *
1512431 GACCATGTCTGGGACATGGCATGAGCACCGATATG
66 GACCATGTCTGGGACATGGCTTG-GCACCGAGACG
* * * * * ** *
1512466 AGA-ACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACATGAAACATCCCAGGT
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCCCACGT
1512528 AAGACCATGTCTGGGACATGGCTT
64 AAGACCATGTCTGGGACATGGCTT
1512552 TGGCGTGTTG
Statistics
Matches: 160, Mismatches: 22, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
98 1 0.01
99 37 0.23
100 78 0.49
101 1 0.01
103 3 0.02
105 2 0.01
106 38 0.24
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (99 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCACGTAA
GACCATGTCTGGGACATGGCTTGGCACCGAGACG
Found at i:1518941 original size:21 final size:21
Alignment explanation
Indices: 1518917--1518978 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
1518907 TTAAGGGGAA
1518917 TTTTAAATATTTTAAATTTAT
1 TTTTAAATATTTTAAATTTAT
** * *
1518938 TTTTCTATATTTTTAATGTAT
1 TTTTAAATATTTTAAATTTAT
* *
1518959 CTTTGAATCATTTTTAAATT
1 TTTTAAAT-A-TTTTAAATT
1518979 AGCCCCAAAT
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
21 22 0.73
22 1 0.03
23 7 0.23
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (21 bp):
TTTTAAATATTTTAAATTTAT
Found at i:1528759 original size:14 final size:14
Alignment explanation
Indices: 1528740--1528771 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
1528730 AAAAGCAATG
1528740 TCTCTAACCTTATT
1 TCTCTAACCTTATT
1528754 TCTCTAACCTTATT
1 TCTCTAACCTTATT
1528768 TCTC
1 TCTC
1528772 CCCTAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (14 bp):
TCTCTAACCTTATT
Found at i:1531699 original size:17 final size:17
Alignment explanation
Indices: 1531677--1531713 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
1531667 TCATGTCCCA
1531677 TAAGTGTAGCATATAGC
1 TAAGTGTAGCATATAGC
1531694 TAAGTGTAGCATATAGC
1 TAAGTGTAGCATATAGC
1531711 TAA
1 TAA
1531714 CACTCTCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.30
Consensus pattern (17 bp):
TAAGTGTAGCATATAGC
Found at i:1545906 original size:30 final size:31
Alignment explanation
Indices: 1545863--1545920 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
1545853 CACGTAGCGG
*
1545863 TTAATATTAAATTT-ATACATCAATTTTGTT
1 TTAATATTAAATTTGATACATAAATTTTGTT
*
1545893 TTAATA-TATAATTTGATATATAAATTTT
1 TTAATATTA-AATTTGATACATAAATTTT
1545921 TATTTGGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 2 0.08
30 11 0.46
31 11 0.46
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (31 bp):
TTAATATTAAATTTGATACATAAATTTTGTT
Found at i:1547831 original size:24 final size:24
Alignment explanation
Indices: 1547780--1547826 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
1547770 AAATTTTCAA
1547780 TAAATTAAAATAATTATTAAATAT
1 TAAATTAAAATAATTATTAAATAT
1547804 TAAATTAAAATAA-TA-TAAATAT
1 TAAATTAAAATAATTATTAAATAT
1547826 T
1 T
1547827 TTAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.35
23 2 0.09
24 13 0.57
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAATTAAAATAATTATTAAATAT
Found at i:1547832 original size:19 final size:22
Alignment explanation
Indices: 1547783--1547838 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 22
1547773 TTTTCAATAA
1547783 ATTAAAATAATTATTAAATATT
1 ATTAAAATAATTATTAAATATT
1547805 AAATTAAAATAA-TA-TAAATATT
1 --ATTAAAATAATTATTAAATATT
*
1547827 -TTAAAAAAATTA
1 ATTAAAATAATTA
1547839 ATATGAACGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 8 0.27
20 2 0.07
22 8 0.27
23 2 0.07
24 10 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
ATTAAAATAATTATTAAATATT
Found at i:1551488 original size:99 final size:99
Alignment explanation
Indices: 1551317--1551512 Score: 338
Period size: 99 Copynumber: 2.0 Consensus size: 99
1551307 GGGATAAACC
* * *
1551317 AAAAGAGGAGTTTCAAGGTTCAGACAAGACCAGGTAGCAACAACTTATTAATCTCAGAAGAGATT
1 AAAAGAAGAGTTTCAAGGTTCAGACAACACCAGGTACCAACAACTTATTAATCTCAGAAGAGATT
1551382 TTAAGAACTTGAAGATGAGGGAGGCTAAAATACT
66 TTAAGAACTTGAAGATGAGGGAGGCTAAAATACT
*
1551416 AAAAGAAGAGTTTCAAGGTTCAGACAACACCAGGTACCAATAACTTATTAATCTCAGAAGAGATT
1 AAAAGAAGAGTTTCAAGGTTCAGACAACACCAGGTACCAACAACTTATTAATCTCAGAAGAGATT
* *
1551481 TTGAGAACTTGAAGATGAGGGAGGCTGAAATA
66 TTAAGAACTTGAAGATGAGGGAGGCTAAAATA
1551513 GTGAAGCAAT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 91 1.00
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.22
Consensus pattern (99 bp):
AAAAGAAGAGTTTCAAGGTTCAGACAACACCAGGTACCAACAACTTATTAATCTCAGAAGAGATT
TTAAGAACTTGAAGATGAGGGAGGCTAAAATACT
Found at i:1552365 original size:5 final size:6
Alignment explanation
Indices: 1552339--1552363 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1552329 TAACTTATGA
1552339 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
1552364 ATGGTTTATT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:1564693 original size:131 final size:132
Alignment explanation
Indices: 1564448--1564710 Score: 510
Period size: 131 Copynumber: 2.0 Consensus size: 132
1564438 TATTTCATCA
1564448 TGCTATGGCTAAATTTATCAGGCCAAAGTGTCCAATCATCCAAGCAAGAATTGTTATGCCAACAT
1 TGCTATGGCTAAATTTATCAGGCCAAAGTGTCCAATCATCCAAGCAAGAATTGTTATGCCAACAT
1564513 CAATTTTTAAAAGTTCTAACATAAAAATAACAATAAATTCTCGTAAGCCAAATCAAAATGTTTAA
66 CAATTTTTAAAAGTTCTAACATAAAAATAACAATAAATTCTCGTAAGCCAAATCAAAATGTTTAA
1564578 AG
131 AG
1564580 TGCTATGGCT-AATTTATCAGGCCAAAGTGTCCAATCATCCAAGCAAGAATTGTTATGCCAACAT
1 TGCTATGGCTAAATTTATCAGGCCAAAGTGTCCAATCATCCAAGCAAGAATTGTTATGCCAACAT
*
1564644 CAATTTTTAAAAGTTCTAACATAAAAATTACAATAAATTCTCGTAAGCCAAATCAAAATGTTTAA
66 CAATTTTTAAAAGTTCTAACATAAAAATAACAATAAATTCTCGTAAGCCAAATCAAAATGTTTAA
1564709 AG
131 AG
1564711 ATCAATAACC
Statistics
Matches: 130, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
131 120 0.92
132 10 0.08
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.29
Consensus pattern (132 bp):
TGCTATGGCTAAATTTATCAGGCCAAAGTGTCCAATCATCCAAGCAAGAATTGTTATGCCAACAT
CAATTTTTAAAAGTTCTAACATAAAAATAACAATAAATTCTCGTAAGCCAAATCAAAATGTTTAA
AG
Found at i:1569049 original size:38 final size:38
Alignment explanation
Indices: 1568977--1569051 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
1568967 AGTATGGGGT
*
1568977 TATGTGTTTATGCGCCAAGATGCACTTTGTGTGCTAGA
1 TATGTGTTTATGCGCCAAGATGCACTTCGTGTGCTAGA
*
1569015 TATGTGTTT-TGTTCGCCAGGATGCACTTCG-GTGCTAG
1 TATGTGTTTATG--CGCCAAGATGCACTTCGTGTGCTAG
1569052 TTTGGTGTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 2 0.06
38 16 0.48
39 15 0.45
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.37
Consensus pattern (38 bp):
TATGTGTTTATGCGCCAAGATGCACTTCGTGTGCTAGA
Found at i:1573708 original size:12 final size:13
Alignment explanation
Indices: 1573682--1573719 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1573672 TTCAATTCAC
1573682 TTATATAATAATT
1 TTATATAATAATT
*
1573695 TTATA-AATATTT
1 TTATATAATAATT
*
1573707 TTATTTAATAATT
1 TTATATAATAATT
1573720 ACAGACTCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTATATAATAATT
Found at i:1576215 original size:3 final size:3
Alignment explanation
Indices: 1576207--1576253 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
1576197 TTAGTACTGG
* * * *
1576207 ATA ATA ATA ATA ATA CTA CTA CTA CTA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1576254 GAAAGTCAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1585964 original size:29 final size:29
Alignment explanation
Indices: 1585931--1585989 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1585921 ATATTTCAAG
1585931 AATAAGGATGTAATGCCTAATTTTTACCC
1 AATAAGGATGTAATGCCTAATTTTTACCC
1585960 AATAAGGATGTAATGCCTAATTTTTACCC
1 AATAAGGATGTAATGCCTAATTTTTACCC
1585989 A
1 A
1585990 GCCTACATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.34
Consensus pattern (29 bp):
AATAAGGATGTAATGCCTAATTTTTACCC
Found at i:1590192 original size:29 final size:29
Alignment explanation
Indices: 1590149--1590240 Score: 130
Period size: 29 Copynumber: 3.1 Consensus size: 29
1590139 ATCTGGTGAT
*
1590149 TTTTATCTCAATTATTCGTTATTTGGCAA
1 TTTTATCTCATTTATTCGTTATTTGGCAA
* **
1590178 TTTTATCTCATTTATTCGTTATTTTGTGA
1 TTTTATCTCATTTATTCGTTATTTGGCAA
*
1590207 TTTTATCGCATTTATTCGTTATTTGGCAGA
1 TTTTATCTCATTTATTCGTTATTTGGCA-A
1590237 TTTT
1 TTTT
1590241 CTGCAATTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
29 49 0.91
30 5 0.09
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.57
Consensus pattern (29 bp):
TTTTATCTCATTTATTCGTTATTTGGCAA
Found at i:1590250 original size:29 final size:29
Alignment explanation
Indices: 1590157--1590250 Score: 95
Period size: 29 Copynumber: 3.2 Consensus size: 29
1590147 ATTTTTATCT
1590157 CAATTATTCGTTATTTGGCA-ATTTTATCT-
1 CAATTATTCGTTATTTGGCAGA-TTT-TCTG
* * * *
1590186 CATTTATTCGTTATTTTG-TGATTTTATCG
1 CAATTATTCGTTATTTGGCAGATTTTCT-G
*
1590215 CATTTATTCGTTATTTGGCAGATTTTCTG
1 CAATTATTCGTTATTTGGCAGATTTTCTG
1590244 CAATTAT
1 CAATTAT
1590251 ACTCATTTGG
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
27 2 0.04
28 3 0.06
29 41 0.77
30 7 0.13
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (29 bp):
CAATTATTCGTTATTTGGCAGATTTTCTG
Found at i:1596659 original size:16 final size:17
Alignment explanation
Indices: 1596627--1596660 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1596617 GAGGATGACA
1596627 TTTGTTTGATATTTATT
1 TTTGTTTGATATTTATT
*
1596644 TTTGTTTG-TTTTTATT
1 TTTGTTTGATATTTATT
1596660 T
1 T
1596661 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (17 bp):
TTTGTTTGATATTTATT
Found at i:1621744 original size:40 final size:40
Alignment explanation
Indices: 1621689--1621769 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
1621679 TTTTCGGGAA
1621689 AGCTCAAATCCCGATGGAAAGGACCTTATACCATTCATAG
1 AGCTCAAATCCCGATGGAAAGGACCTTATACCATTCATAG
1621729 AGCTCAAATCCCGATGGAAAGGACCTTATACCATTCATAG
1 AGCTCAAATCCCGATGGAAAGGACCTTATACCATTCATAG
1621769 A
1 A
1621770 CATTATCCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (40 bp):
AGCTCAAATCCCGATGGAAAGGACCTTATACCATTCATAG
Found at i:1622819 original size:15 final size:15
Alignment explanation
Indices: 1622799--1622829 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1622789 CTATATGTAA
1622799 GAATCAACCCATGAT
1 GAATCAACCCATGAT
*
1622814 GAATCAACCCTTGAT
1 GAATCAACCCATGAT
1622829 G
1 G
1622830 TTGGAAAAAG
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:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (15 bp):
GAATCAACCCATGAT
Found at i:1632053 original size:25 final size:25
Alignment explanation
Indices: 1632025--1632119 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 25
1632015 ACGAGCTATG
* *
1632025 AATCGGTATGCTCTTATGAGCTGCA
1 AATCGGTAAGCTCTTACGAGCTGCA
* *
1632050 AATCAGTAAGCTCATACGAGCTG-A
1 AATCGGTAAGCTCTTACGAGCTGCA
* * * *
1632074 GAATTGGTAAGCTCTCAGGAGCTACA
1 -AATCGGTAAGCTCTTACGAGCTGCA
* *
1632100 AATTGGTAAGCTCATACGAG
1 AATCGGTAAGCTCTTACGAG
1632120 TTTTGGTGTG
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
24 1 0.02
25 53 0.96
26 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (25 bp):
AATCGGTAAGCTCTTACGAGCTGCA
Found at i:1632088 original size:50 final size:50
Alignment explanation
Indices: 1632009--1632119 Score: 143
Period size: 50 Copynumber: 2.2 Consensus size: 50
1631999 GTACATGTAT
* * * *
1632009 GCTCATACGAGCTATGAATCGGTATGCTCTTATGAGCTGCAAATCAGTAA
1 GCTCATACGAGCTATGAATCGGTAAGCTCTCAGGAGCTACAAATCAGTAA
* **
1632059 GCTCATACGAGCTGA-GAATTGGTAAGCTCTCAGGAGCTACAAATTGGTAA
1 GCTCATACGAGCT-ATGAATCGGTAAGCTCTCAGGAGCTACAAATCAGTAA
1632109 GCTCATACGAG
1 GCTCATACGAG
1632120 TTTTGGTGTG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
50 52 0.98
51 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (50 bp):
GCTCATACGAGCTATGAATCGGTAAGCTCTCAGGAGCTACAAATCAGTAA
Found at i:1637528 original size:11 final size:11
Alignment explanation
Indices: 1637512--1637537 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1637502 TCTATCGATT
1637512 TTATACAATAA
1 TTATACAATAA
1637523 TTATACAATAA
1 TTATACAATAA
1637534 TTAT
1 TTAT
1637538 GGGGGTAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (11 bp):
TTATACAATAA
Found at i:1639788 original size:23 final size:24
Alignment explanation
Indices: 1639743--1639788 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
1639733 TTTAAATGCT
* *
1639743 TTTAGGTATTTAGGAATTTATTTC
1 TTTAGGTAATTAGGAATTAATTTC
*
1639767 TTTA-GTAATTAGGATTTAATTT
1 TTTAGGTAATTAGGAATTAATTT
1639789 ATGCAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.54
Consensus pattern (24 bp):
TTTAGGTAATTAGGAATTAATTTC
Found at i:1640819 original size:15 final size:16
Alignment explanation
Indices: 1640790--1640819 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1640780 GAAACCTACT
1640790 TTAACACATTATCAAA
1 TTAACACATTATCAAA
1640806 TTAACACA-TATCAA
1 TTAACACATTATCAA
1640820 TAAAGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:1649685 original size:21 final size:21
Alignment explanation
Indices: 1649659--1649701 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
1649649 TGATTTTTTT
1649659 ATAGATTATGAAT-CTTTGTTG
1 ATAGATTATGAATAC-TTGTTG
1649680 ATAGATTATGAATACTTGTTG
1 ATAGATTATGAATACTTGTTG
1649701 A
1 A
1649702 AAAATAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.44
Consensus pattern (21 bp):
ATAGATTATGAATACTTGTTG
Found at i:1658955 original size:19 final size:17
Alignment explanation
Indices: 1658931--1658966 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
1658921 ATGAACAAAA
1658931 GTGAAAATAGTGTAAATTG
1 GTGAAAATA-TG-AAATTG
1658950 GTGAAAATATGAAATTG
1 GTGAAAATATGAAATTG
1658967 AATTGGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (17 bp):
GTGAAAATATGAAATTG
Found at i:1666843 original size:345 final size:345
Alignment explanation
Indices: 1666212--1666891 Score: 1360
Period size: 345 Copynumber: 2.0 Consensus size: 345
1666202 CCTTTTTCGA
1666212 AACAATCCTTATTTTAAAATTAAAGATCTTTTCAACCTTATTTTCAAAAAATTATTTAATTTCCA
1 AACAATCCTTATTTTAAAATTAAAGATCTTTTCAACCTTATTTTCAAAAAATTATTTAATTTCCA
1666277 AAATCCATAGTCGAAAATTATTTAATTTTCGAACCTCTTTCAAGTCAAAATTCTCATTTTACCCT
66 AAATCCATAGTCGAAAATTATTTAATTTTCGAACCTCTTTCAAGTCAAAATTCTCATTTTACCCT
1666342 CAAAATTTCTAAACCCAATTTTGGGATGTGACATATTCTCTTTCAACTGTTTGAAACTTTACTGG
131 CAAAATTTCTAAACCCAATTTTGGGATGTGACATATTCTCTTTCAACTGTTTGAAACTTTACTGG
1666407 AAAATATCTAACGTAATGAATAAAGCATTTTCTGCAACAATTTCTCTATACGTAAAGTTGCTATT
196 AAAATATCTAACGTAATGAATAAAGCATTTTCTGCAACAATTTCTCTATACGTAAAGTTGCTATT
1666472 AAAAAGGTTTTATAAAAAAATTTGCAATATTCAACAGATTCAGGAAAACCCCACTCTTCAATGTC
261 AAAAAGGTTTTATAAAAAAATTTGCAATATTCAACAGATTCAGGAAAACCCCACTCTTCAATGTC
1666537 ATTTTCCAGATGACCCTTTT
326 ATTTTCCAGATGACCCTTTT
1666557 AACAATCCTTATTTTAAAATTAAAGATCTTTTCAACCTTATTTTCAAAAAATTATTTAATTTCCA
1 AACAATCCTTATTTTAAAATTAAAGATCTTTTCAACCTTATTTTCAAAAAATTATTTAATTTCCA
1666622 AAATCCATAGTCGAAAATTATTTAATTTTCGAACCTCTTTCAAGTCAAAATTCTCATTTTACCCT
66 AAATCCATAGTCGAAAATTATTTAATTTTCGAACCTCTTTCAAGTCAAAATTCTCATTTTACCCT
1666687 CAAAATTTCTAAACCCAATTTTGGGATGTGACATATTCTCTTTCAACTGTTTGAAACTTTACTGG
131 CAAAATTTCTAAACCCAATTTTGGGATGTGACATATTCTCTTTCAACTGTTTGAAACTTTACTGG
1666752 AAAATATCTAACGTAATGAATAAAGCATTTTCTGCAACAATTTCTCTATACGTAAAGTTGCTATT
196 AAAATATCTAACGTAATGAATAAAGCATTTTCTGCAACAATTTCTCTATACGTAAAGTTGCTATT
1666817 AAAAAGGTTTTATAAAAAAATTTGCAATATTCAACAGATTCAGGAAAACCCCACTCTTCAATGTC
261 AAAAAGGTTTTATAAAAAAATTTGCAATATTCAACAGATTCAGGAAAACCCCACTCTTCAATGTC
1666882 ATTTTCCAGA
326 ATTTTCCAGA
1666892 GGTTTCTAAA
Statistics
Matches: 335, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
345 335 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.37
Consensus pattern (345 bp):
AACAATCCTTATTTTAAAATTAAAGATCTTTTCAACCTTATTTTCAAAAAATTATTTAATTTCCA
AAATCCATAGTCGAAAATTATTTAATTTTCGAACCTCTTTCAAGTCAAAATTCTCATTTTACCCT
CAAAATTTCTAAACCCAATTTTGGGATGTGACATATTCTCTTTCAACTGTTTGAAACTTTACTGG
AAAATATCTAACGTAATGAATAAAGCATTTTCTGCAACAATTTCTCTATACGTAAAGTTGCTATT
AAAAAGGTTTTATAAAAAAATTTGCAATATTCAACAGATTCAGGAAAACCCCACTCTTCAATGTC
ATTTTCCAGATGACCCTTTT
Found at i:1684177 original size:27 final size:25
Alignment explanation
Indices: 1684106--1684156 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
1684096 TTTCGTCAGT
**
1684106 TAGGGGTAAAATGGTAATTTTACCC
1 TAGGGGTATTATGGTAATTTTACCC
*
1684131 TAGGGGTATTATGGTTATTTTACCC
1 TAGGGGTATTATGGTAATTTTACCC
1684156 T
1 T
1684157 TCGAGGGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (25 bp):
TAGGGGTATTATGGTAATTTTACCC
Found at i:1686620 original size:13 final size:13
Alignment explanation
Indices: 1686602--1686626 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1686592 GAGATTTAAT
1686602 TTGATTATGTAAA
1 TTGATTATGTAAA
1686615 TTGATTATGTAA
1 TTGATTATGTAA
1686627 TCTTGTAAAC
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:1692172 original size:13 final size:13
Alignment explanation
Indices: 1692154--1692181 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1692144 GTTATTTGCC
1692154 AGTTAAAGGAACT
1 AGTTAAAGGAACT
1692167 AGTTAAAGGAACT
1 AGTTAAAGGAACT
1692180 AG
1 AG
1692182 GTTTTGTGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.25, T:0.21
Consensus pattern (13 bp):
AGTTAAAGGAACT
Found at i:1710945 original size:34 final size:34
Alignment explanation
Indices: 1710907--1710988 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
1710897 TTTTAAAAAA
*
1710907 TAAATTAGGGTTTA-AAGTTTTTAAAAAAATTAAT
1 TAAATTAGGTTTTAGAAG-TTTTAAAAAAATTAAT
* * *
1710941 TAAATTAGATTTTAGGAGTTTTAAATAAATTAAT
1 TAAATTAGGTTTTAGAAGTTTTAAAAAAATTAAT
1710975 TAAATTAGGTTTTA
1 TAAATTAGGTTTTA
1710989 TTAAATGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 40 0.95
35 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (34 bp):
TAAATTAGGTTTTAGAAGTTTTAAAAAAATTAAT
Found at i:1711414 original size:18 final size:18
Alignment explanation
Indices: 1711393--1711428 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1711383 AAAAGGAAAT
*
1711393 ATATAAGGGTTAGGATAC
1 ATATAAGGGCTAGGATAC
1711411 ATATAAGGGCTAGGATAC
1 ATATAAGGGCTAGGATAC
1711429 GCACCTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAC
Found at i:1712999 original size:30 final size:30
Alignment explanation
Indices: 1712934--1713000 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
1712924 TAAAAAAATT
* *
1712934 ATGAAATAAAAATTAATTAAAATTACATAA
1 ATGAAATAAAAATTAAATAAAATTACAAAA
*
1712964 ATGAAA-AAAATATTAAATAAGATT-CAAAA
1 ATGAAATAAAA-ATTAAATAAAATTACAAAA
1712993 ATTGAAAT
1 A-TGAAAT
1713001 TAACCCTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (30 bp):
ATGAAATAAAAATTAAATAAAATTACAAAA
Found at i:1716571 original size:3 final size:3
Alignment explanation
Indices: 1716563--1716588 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1716553 AAGTTAAAAA
1716563 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
1716589 ACTCGGTTCT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1724655 original size:2 final size:2
Alignment explanation
Indices: 1724650--1724685 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1724640 ATATATATAT
1724650 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1724686 TACGGATTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1725981 original size:37 final size:38
Alignment explanation
Indices: 1725940--1726013 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 38
1725930 TCAATGTCCC
* * *
1725940 AACAATATATCAATGCGGTATTTT-GGGTAAAAAGAAT
1 AACAACATATCAATGAGCTATTTTGGGGTAAAAAGAAT
* *
1725977 AACAACATATCCATGAGCTTTTTTGGGGTAAAAAGAA
1 AACAACATATCAATGAGCTATTTTGGGGTAAAAAGAA
1726014 CACAAAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
37 19 0.61
38 12 0.39
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (38 bp):
AACAACATATCAATGAGCTATTTTGGGGTAAAAAGAAT
Found at i:1726520 original size:15 final size:15
Alignment explanation
Indices: 1726496--1726526 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1726486 GTTATGTAAG
*
1726496 TGAAATGTCAAGAGT
1 TGAAAGGTCAAGAGT
1726511 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
1726526 T
1 T
1726527 ATGTTGTTTT
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:0.39, C:0.06, G:0.29, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:1727480 original size:15 final size:15
Alignment explanation
Indices: 1727456--1727485 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1727446 TGGAGATCGA
*
1727456 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
1727471 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
1727486 CAAGAAGGGA
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:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:1730850 original size:15 final size:15
Alignment explanation
Indices: 1730830--1730860 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1730820 GTTATGTAAG
1730830 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
1730845 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
1730860 T
1 T
1730861 ATNNNNNNNN
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:1733335 original size:15 final size:16
Alignment explanation
Indices: 1733311--1733340 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1733301 TTAAATATGA
1733311 TAAAAGTAAAAATAAT
1 TAAAAGTAAAAATAAT
1733327 TAAAA-TAAAAATAA
1 TAAAAGTAAAAATAA
1733341 CTATAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
TAAAAGTAAAAATAAT
Found at i:1740521 original size:69 final size:69
Alignment explanation
Indices: 1740410--1740643 Score: 337
Period size: 69 Copynumber: 3.4 Consensus size: 69
1740400 CAACATTTAC
* * * *
1740410 GTCATATTAAGGCTCGCACG-TGAAGAGCTGTAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCC
1 GTCATACTAAGGCTCGCAGGATTAA-AACTGTAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCC
1740474 CAACT
65 CAACT
* * *
1740479 GTCATATTAAGGCTCGCAGGATTAAAACCGTAGCCTCCAACACAGTTAGTAAGAGCAAAGCTCCC
1 GTCATACTAAGGCTCGCAGGATTAAAACTGTAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCCC
1740544 AACT
66 AACT
* * * *
1740548 GTCATACTAAGGCTCGCAGGATAAAAACTGCAACCTCCAACATAGTTAGTGAGAGCAAAGCTCCC
1 GTCATACTAAGGCTCGCAGGATTAAAACTGTAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCCC
1740613 AACT
66 AACT
*
1740617 GTCATACTAAGGCTCGTAGGA-TAAAAC
1 GTCATACTAAGGCTCGCAGGATTAAAAC
1740644 AACTTGCGGT
Statistics
Matches: 150, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
68 5 0.03
69 142 0.95
70 3 0.02
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (69 bp):
GTCATACTAAGGCTCGCAGGATTAAAACTGTAGCCTCCAACACAGTTAGTGAGAGCAAAGCTCCC
AACT
Found at i:1740821 original size:57 final size:57
Alignment explanation
Indices: 1740657--1740809 Score: 243
Period size: 57 Copynumber: 2.7 Consensus size: 57
1740647 TTGCGGTTTC
* * *
1740657 ACATCCCCAGTTGTTTATCTTTTAAATTTTCTTAAGTATGAAACAGCTTGCGGATCT
1 ACATCCCCAGTTGGTTATCTTTCAAATTTTCTTAAGTATGAAACAGCTCGCGGATCT
* *
1740714 ATATCCCCAGTTGGTTATCTTTCAAATTTTTTTAAGTATGAAACAGCTCGCGGATCT
1 ACATCCCCAGTTGGTTATCTTTCAAATTTTCTTAAGTATGAAACAGCTCGCGGATCT
* *
1740771 ACATCCCAAGTTGGTTATCTTTCAAATTTTCTCAAGTAT
1 ACATCCCCAGTTGGTTATCTTTCAAATTTTCTTAAGTAT
1740810 AAAGTTGCTC
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 87 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.40
Consensus pattern (57 bp):
ACATCCCCAGTTGGTTATCTTTCAAATTTTCTTAAGTATGAAACAGCTCGCGGATCT
Found at i:1744433 original size:25 final size:24
Alignment explanation
Indices: 1744379--1744495 Score: 108
Period size: 25 Copynumber: 4.8 Consensus size: 24
1744369 ACCCCCTTAT
* * *
1744379 ATGGCTCTCACGAGTTTCCTGATA
1 ATGGCTCTCATGAGCTTCCCGATA
*
1744403 TGTGGCTCTCATGAGCTTCCCGATTA
1 -ATGGCTCTCATGAGCTTCCCGA-TA
* * * *
1744429 ATGGCTCTCTTGAGCTTTCCGTTT
1 ATGGCTCTCATGAGCTTCCCGATA
*
1744453 ATGGCTCTCATGAGCTTCTCGATA
1 ATGGCTCTCATGAGCTTCCCGATA
* *
1744477 ATTGGCTCACAAGAGCTTC
1 A-TGGCTCTCATGAGCTTC
1744496 TCGTTTACAT
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
24 21 0.28
25 51 0.69
26 2 0.03
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (24 bp):
ATGGCTCTCATGAGCTTCCCGATA
Found at i:1744493 original size:49 final size:49
Alignment explanation
Indices: 1744405--1744502 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 49
1744395 TCCTGATATG
* **
1744405 TGGCTCTCATGAGCTTCCCGATTAATGGCTCTCTTGAGCTT-TCCGTTTA
1 TGGCTCTCATGAGCTTCCCGATTAATGGCTCACAAGAGCTTCT-CGTTTA
*
1744454 TGGCTCTCATGAGCTTCTCGA-TAATTGGCTCACAAGAGCTTCTCGTTTA
1 TGGCTCTCATGAGCTTCCCGATTAA-TGGCTCACAAGAGCTTCTCGTTTA
1744503 CATGCTCTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
48 3 0.07
49 39 0.91
50 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.37
Consensus pattern (49 bp):
TGGCTCTCATGAGCTTCCCGATTAATGGCTCACAAGAGCTTCTCGTTTA
Found at i:1758082 original size:70 final size:70
Alignment explanation
Indices: 1757969--1758365 Score: 431
Period size: 70 Copynumber: 5.7 Consensus size: 70
1757959 TTGAGCTCGT
* * * *
1757969 GCTAACTATTTCGAGGCTGTGATATCAAACCTACGAGCCTTAGAATGACAACTAGGAGCTTTTAA
1 GCTAACTATTTGGAGGCTGCGGTATTAAACCTACGAGCCTTAGAATGACAACTAGGAGCTTTTAA
1758034 CTCTC
66 CTCTC
* * * * * * *
1758039 GCTAACTGTTTGAAGGCTGTGGTATTAAACCTGCGAGCCTTAGAATGATAGCTGGGAGCTTTTAA
1 GCTAACTATTTGGAGGCTGCGGTATTAAACCTACGAGCCTTAGAATGACAACTAGGAGCTTTTAA
1758104 CTCTC
66 CTCTC
* * * *
1758109 GCTAACTATTTGGAGGCTGAGGTATTAAACCTGCGAGCCTTAGAGTGA-TACTTAGGAGCTTTTA
1 GCTAACTATTTGGAGGCTGCGGTATTAAACCTACGAGCCTTAGAATGACAAC-TAGGAGCTTTTA
1758173 ACTCTC
65 ACTCTC
* * * ** * * ** *
1758179 ACTAATTGTTTAAAGGTTGCGGTATTAAACCTGA-GAGCCTTAGATTGACAGTTGGGAGCTTTTA
1 GCTAACTATTTGGAGGCTGCGGTATTAAACCT-ACGAGCCTTAGAATGACAACTAGGAGCTTTTA
1758243 ACTCTC
65 ACTCTC
* * * * *
1758249 GCTAACTATTTGGGGGCTGCGATATTAAACCTACGAGCCTTAGAGTGAC-AGTTGGAGCTTTTAA
1 GCTAACTATTTGGAGGCTGCGGTATTAAACCTACGAGCCTTAGAATGACAACTAGGAGCTTTTAA
*
1758313 CACTC
66 CTCTC
* * * * *
1758318 ACTAATTGTTTGGAGGCTGCGGTATTAAACCTACAAGCTTTAGAATGA
1 GCTAACTATTTGGAGGCTGCGGTATTAAACCTACGAGCCTTAGAATGA
1758366 TAAATACAAA
Statistics
Matches: 273, Mismatches: 50, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
69 58 0.21
70 215 0.79
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (70 bp):
GCTAACTATTTGGAGGCTGCGGTATTAAACCTACGAGCCTTAGAATGACAACTAGGAGCTTTTAA
CTCTC
Found at i:1758165 original size:140 final size:140
Alignment explanation
Indices: 1757969--1758367 Score: 550
Period size: 140 Copynumber: 2.9 Consensus size: 140
1757959 TTGAGCTCGT
* * * *
1757969 GCTAACTATTTCGAGGCTGTGATATCAAACCTACGAGCCTTAGAATGACAAC-TAGGAGCTTTTA
1 GCTAACTATTTGGAGGCTGAGATATTAAACCTACGAGCCTTAGAGTGA-AACTTAGGAGCTTTTA
* * *
1758033 ACTCTCGCTAACTGTTTGAAGGCTGTGGTATTAAACCTGCGAGCCTTAGAATGATAGCTGGGAGC
65 ACTCTCACTAATTGTTTGAAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGATAGCTGGGAGC
1758098 TTTTAACTCTC
130 TTTTAACTCTC
* * *
1758109 GCTAACTATTTGGAGGCTGAGGTATTAAACCTGCGAGCCTTAGAGTGATACTTAGGAGCTTTTAA
1 GCTAACTATTTGGAGGCTGAGATATTAAACCTACGAGCCTTAGAGTGAAACTTAGGAGCTTTTAA
* * * * * *
1758174 CTCTCACTAATTGTTTAAAGGTTGCGGTATTAAACCTGAGAGCCTTAGATTGACAGTTGGGAGCT
66 CTCTCACTAATTGTTTGAAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGATAGCTGGGAGCT
1758239 TTTAACTCTC
131 TTTAACTCTC
* * * *
1758249 GCTAACTATTTGGGGGCTGCGATATTAAACCTACGAGCCTTAGAGTGACAGTT-GGAGCTTTTAA
1 GCTAACTATTTGGAGGCTGAGATATTAAACCTACGAGCCTTAGAGTGAAACTTAGGAGCTTTTAA
* * * * *
1758313 CACTCACTAATTGTTTGGAGGCTGCGGTATTAAACCTACAAGCTTTAGAATGATA
66 CTCTCACTAATTGTTTGAAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGATA
1758368 AATACAAATA
Statistics
Matches: 226, Mismatches: 32, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
139 58 0.26
140 168 0.74
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (140 bp):
GCTAACTATTTGGAGGCTGAGATATTAAACCTACGAGCCTTAGAGTGAAACTTAGGAGCTTTTAA
CTCTCACTAATTGTTTGAAGGCTGCGGTATTAAACCTGCGAGCCTTAGAATGATAGCTGGGAGCT
TTTAACTCTC
Found at i:1758766 original size:23 final size:23
Alignment explanation
Indices: 1758730--1758780 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
1758720 AGCCTGAAAA
* *
1758730 TGTAATATCTCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
1758753 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
1758776 AGTAA
1 TGTAA
1758781 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:1769598 original size:21 final size:21
Alignment explanation
Indices: 1769551--1769604 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
1769541 AAGTGTAGAT
*
1769551 GATTTAGATAA-TTTAAAATTA
1 GATTTAGA-AATTTTAAAAATA
1769572 GATTTAGAAATTTTAAAAATA
1 GATTTAGAAATTTTAAAAATA
1769593 -ATTTTA-AAATTT
1 GA-TTTAGAAATTT
1769605 AATTATTTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 9 0.30
21 21 0.70
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (21 bp):
GATTTAGAAATTTTAAAAATA
Found at i:1771786 original size:14 final size:14
Alignment explanation
Indices: 1771767--1771793 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1771757 ACAATTCTGT
1771767 AAAAAAATCCGGTA
1 AAAAAAATCCGGTA
1771781 AAAAAAATCCGGT
1 AAAAAAATCCGGT
1771794 GTTTACTTCA
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:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (14 bp):
AAAAAAATCCGGTA
Found at i:1777576 original size:22 final size:22
Alignment explanation
Indices: 1777546--1777590 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
1777536 ATGCTAAGAA
1777546 TATTCAAAATTATGGCCTTTAT
1 TATTCAAAATTATGGCCTTTAT
*
1777568 TATTTAAAATTATGGCCTTTAT
1 TATTCAAAATTATGGCCTTTAT
1777590 T
1 T
1777591 CATTACCAGA
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:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (22 bp):
TATTCAAAATTATGGCCTTTAT
Found at i:1782141 original size:3 final size:3
Alignment explanation
Indices: 1782133--1782157 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1782123 AGCGCTTGGG
1782133 GGA GGA GGA GGA GGA GGA GGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA G
1782158 AGGGATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:1782687 original size:20 final size:20
Alignment explanation
Indices: 1782660--1782703 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
1782650 TCCTTGCCAT
1782660 ATTCTTTTTTTCTT-TTTCC
1 ATTCTTTTTTTCTTCTTTCC
1782679 ATTCTTTTTTTCTTCTTTCC
1 ATTCTTTTTTTCTTCTTTCC
1782699 ATTCT
1 ATTCT
1782704 CTTTCTCTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTCTTTTTTTCTTCTTTCC
Found at i:1782694 original size:22 final size:22
Alignment explanation
Indices: 1782662--1782719 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 22
1782652 CTTGCCATAT
1782662 TCTTTTT-TTCTTTTTCCATTC
1 TCTTTTTCTTCTTTTTCCATTC
*
1782683 TTTTTTTCTTC--TTTCCATTC
1 TCTTTTTCTTCTTTTTCCATTC
* *
1782703 TCTTTCTCTACTTTTTC
1 TCTTTTTCTTCTTTTTC
1782720 TCATCTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 17 0.57
21 6 0.20
22 7 0.23
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (22 bp):
TCTTTTTCTTCTTTTTCCATTC
Done.