Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold8
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: 6381039
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 22487 characters in sequence are not A, C, G, or T
File 13 of 33
Found at i:1729094 original size:24 final size:24
Alignment explanation
Indices: 1729067--1729114 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1729057 TGAACAGCAA
1729067 TAATTATTAGATCCAGTGATAAAG
1 TAATTATTAGATCCAGTGATAAAG
1729091 TAATTATTAGATCCAGTGATAAAG
1 TAATTATTAGATCCAGTGATAAAG
1729115 AGTTAGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (24 bp):
TAATTATTAGATCCAGTGATAAAG
Found at i:1729347 original size:8 final size:8
Alignment explanation
Indices: 1729332--1729365 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
1729322 AACTTGCATT
1729332 AATTTAAA
1 AATTTAAA
*
1729340 ATTTTAAA
1 AATTTAAA
1729348 AATTTAAA
1 AATTTAAA
1729356 AA-TTAAA
1 AATTTAAA
1729363 AAT
1 AAT
1729366 CATACCTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AATTTAAA
Found at i:1729733 original size:47 final size:47
Alignment explanation
Indices: 1729675--1729769 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 47
1729665 GTGATGGATA
* * *
1729675 GCAAAACACATAATACATATTTAGGGTTAGTAAATTACATTTTTTTG
1 GCAAAACACATAATACATATTTAGGATTAGTAAATTAAAGTTTTTTG
* *
1729722 GCAAAACACATAATATATATTTAGGATTAGTGAATTAAAGTTTTTTG
1 GCAAAACACATAATACATATTTAGGATTAGTAAATTAAAGTTTTTTG
1729769 G
1 G
1729770 TTTAATTGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (47 bp):
GCAAAACACATAATACATATTTAGGATTAGTAAATTAAAGTTTTTTG
Found at i:1732186 original size:2 final size:2
Alignment explanation
Indices: 1732179--1732206 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1732169 GCTCAATTGG
1732179 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1732207 TAGTGCTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1732512 original size:2 final size:2
Alignment explanation
Indices: 1732505--1732542 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1732495 TGAAATTTTA
1732505 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1732543 TAGTGCTGTG
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1732519 original size:93 final size:93
Alignment explanation
Indices: 1732360--1732528 Score: 338
Period size: 93 Copynumber: 1.8 Consensus size: 93
1732350 ATGATTAATT
1732360 TTGCCGTGGGTTATAATCTCAACATTTGACTCTTGCATAATATGAAATTTTAATATATATATATA
1 TTGCCGTGGGTTATAATCTCAACATTTGACTCTTGCATAATATGAAATTTTAATATATATATATA
1732425 TATATATATATTAGTGCTGTGCACAGAC
66 TATATATATATTAGTGCTGTGCACAGAC
1732453 TTGCCGTGGGTTATAATCTCAACATTTGACTCTTGCATAATATGAAATTTTAATATATATATATA
1 TTGCCGTGGGTTATAATCTCAACATTTGACTCTTGCATAATATGAAATTTTAATATATATATATA
1732518 TATATATATAT
66 TATATATATAT
1732529 ATATATATAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (93 bp):
TTGCCGTGGGTTATAATCTCAACATTTGACTCTTGCATAATATGAAATTTTAATATATATATATA
TATATATATATTAGTGCTGTGCACAGAC
Found at i:1732978 original size:2 final size:2
Alignment explanation
Indices: 1732971--1733006 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1732961 AAATTTTAAG
1732971 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1733007 TAGTACTTTG
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1733218 original size:229 final size:229
Alignment explanation
Indices: 1732519--1734161 Score: 2558
Period size: 231 Copynumber: 7.1 Consensus size: 229
1732509 ATATATATAT
* *
1732519 ATATATATATATATATATATATATTAGTGCTGTGCACTTACACAATGACTTTCCCTTATATTGAC
1 ATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTGAC
*
1732584 TCTGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAACG
66 TCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAACG
1732649 CTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAATC
131 CTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAATC
*
1732714 TCAACATTTAACTCTTGTATTATATGAAA---T-
196 TCAACATTTGACTCTTGTATTATATGAAATTTTA
*
1732744 -T-T-TA-ATATATATATATATATTAGTACTTTGCACTTACACAATGAGTTTCCCTTATATTGAC
1 ATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTGAC
* * *
1732805 TCCGGAATAAAGAGAACCTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAACA
66 TCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAACG
*
1732870 CTTTCTTCACTACTTTTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAATC
131 CTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAATC
1732935 TCAACATTTGACTCTTGTATTATATGAAATTTTAAGATATATATATA
196 TCAACATTTGACTCTTGTATTATATG--------A-A-AT-T-T-TA
1732982 TATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTGA
1 -ATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTGA
* * *
1733047 CTCTGGAGTAAAGAGAACGTCGATAGACTTGCTTTTGAATTATGACGATCTTCTGGCGAATTAAC
65 CTCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAAC
*
1733112 GCTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGTCGTGGGTTATAAT
130 GCTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAAT
1733177 CTCAACATTTGACTCTTGTATTATATGAAATTTTAATATATATATA
195 CTCAACATTTGACTCTTGTATTATATG-------AA-AT-T-T-TA
1733223 TATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTGA
1 -ATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTGA
* *
1733288 CTCCGGAGTAAAGAGAACCTCGACAGACTTGCTTTTGAATTATGGCGATCTTTTGGCGAATTAAC
65 CTCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAAC
* *
1733353 GCTTTCTTCACTACTGCTATCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAAT
130 GCTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAAT
1733418 CTCAACATTTGACTCTTGTATTATATGAAATTTTAA
195 CTCAACATTTGACTCTTGTATTATATGAAATTTT-A
*
1733454 GATAGATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTGA
1 -ATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTGA
*
1733519 CTCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTAGCGAATTAAC
65 CTCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAAC
1733584 GCTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAAT
130 GCTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAAT
1733649 CTCAACATTTGACTCTTGTATTATATGAAATTTTA
195 CTCAACATTTGACTCTTGTATTATATGAAATTTTA
*
1733684 ATATATATATATATATATATATATTAGTGCTTTGCACTTACACAATGACTTTCCCTTATATTGAC
1 ATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTGAC
* * *
1733749 TCCGAAGTAAAAAGAACGTCGACAGACTTGCTTTTGAATTATGGCGAGCTTCTGGCGAATTAACG
66 TCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAACG
* * *
1733814 CTTTCTTCACTATTTCTGTACTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGATTATAATC
131 CTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAATC
1733879 TCAACATTTGACTCTTGTATTATATGAAA--TT-
196 TCAACATTTGACTCTTGTATTATATGAAATTTTA
* * * *
1733910 -T-TA-ACATATATATATATATATTAGTGCTTTGCACTTACACAATGACTTTGCCTTAGATTGAC
1 ATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTGAC
** * * * * *
1733972 TATGGGGTAAGGAGAACGTCGACAGACTTGCTTTTGAATTATGGTGATCTTCTGACGAATTAATG
66 TCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAACG
* * *
1734037 CTTTCTTCACTATTTTCTGTCGTGTCTAGTCGCTTTTGCATGATTAATTTTACCGTGGGTTATAA
131 CTTTCTTCACTA-CTTCTGTCCTGTCTAGTCGC-TTTGCATGATTAATTTTGCCGTGGGTTATAA
1734102 TCTCAACATTTGACTCTTGTATTATATGAAATTTTA
194 TCTCAACATTTGACTCTTGTATTATATGAAATTTTA
1734138 ATATATATATATATATATATATAT
1 ATATATATATATATATATATATAT
1734162 ATCAATTCTT
Statistics
Matches: 1325, Mismatches: 62, Indels: 56
0.92 0.04 0.04
Matches are distributed among these distances:
221 204 0.15
222 2 0.00
223 124 0.09
224 21 0.02
225 61 0.05
227 4 0.00
229 217 0.16
230 5 0.00
231 242 0.18
232 1 0.00
233 2 0.00
234 2 0.00
237 1 0.00
240 1 0.00
241 226 0.17
242 8 0.01
243 204 0.15
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (229 bp):
ATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTGAC
TCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAACG
CTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAATC
TCAACATTTGACTCTTGTATTATATGAAATTTTA
Found at i:1733218 original size:231 final size:231
Alignment explanation
Indices: 1732517--1734163 Score: 2569
Period size: 241 Copynumber: 7.1 Consensus size: 231
1732507 ATATATATAT
* *
1732517 ATATATATATATATATATATATATATTAGTGCTGTGCACTTACACAATGACTTTCCCTTATATTG
1 ATATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTG
*
1732582 ACTCTGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAA
66 ACTCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAA
1732647 CGCTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAA
131 CGCTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAA
*
1732712 TCTCAACATTTAACTCTTGTATTATATG--A----A
196 TCTCAACATTTGACTCTTGTATTATATGAAATTTTA
*
1732742 AT-T-T-TA-ATATATATATATATATTAGTACTTTGCACTTACACAATGAGTTTCCCTTATATTG
1 ATATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTG
* *
1732803 ACTCCGGAATAAAGAGAACCTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAA
66 ACTCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAA
* *
1732868 CACTTTCTTCACTACTTTTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAA
131 CGCTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAA
1732933 TCTCAACATTTGACTCTTGTATTATATGAAATTTTAAGATATATATA
196 TCTCAACATTTGACTCTTGTATTATATG-------AA-AT-T-T-TA
1732980 TATATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATT
1 -ATATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATT
* * *
1733045 GACTCTGGAGTAAAGAGAACGTCGATAGACTTGCTTTTGAATTATGACGATCTTCTGGCGAATTA
65 GACTCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTA
*
1733110 ACGCTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGTCGTGGGTTATA
130 ACGCTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATA
1733175 ATCTCAACATTTGACTCTTGTATTATATGAAATTTTAATATATATA
195 ATCTCAACATTTGACTCTTGTATTATATG--A----AAT-T-T-TA
1733221 TATATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATT
1 -ATATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATT
* *
1733286 GACTCCGGAGTAAAGAGAACCTCGACAGACTTGCTTTTGAATTATGGCGATCTTTTGGCGAATTA
65 GACTCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTA
* *
1733351 ACGCTTTCTTCACTACTGCTATCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATA
130 ACGCTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATA
1733416 ATCTCAACATTTGACTCTTGTATTATATGAAATTTTA
195 ATCTCAACATTTGACTCTTGTATTATATGAAATTTTA
* *
1733453 AGATAGATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTG
1 ATATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTG
*
1733518 ACTCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTAGCGAATTAA
66 ACTCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAA
1733583 CGCTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAA
131 CGCTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAA
1733648 TCTCAACATTTGACTCTTGTATTATATGAAATTTT-
196 TCTCAACATTTGACTCTTGTATTATATGAAATTTTA
*
1733683 A-ATATATATATATATATATATATATTAGTGCTTTGCACTTACACAATGACTTTCCCTTATATTG
1 ATATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTG
* * *
1733747 ACTCCGAAGTAAAAAGAACGTCGACAGACTTGCTTTTGAATTATGGCGAGCTTCTGGCGAATTAA
66 ACTCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAA
* * *
1733812 CGCTTTCTTCACTATTTCTGTACTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGATTATAA
131 CGCTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAA
1733877 TCTCAACATTTGACTCTTGTATTATATGAAA---T-
196 TCTCAACATTTGACTCTTGTATTATATGAAATTTTA
* * * *
1733909 -T-T-TA-ACATATATATATATATATTAGTGCTTTGCACTTACACAATGACTTTGCCTTAGATTG
1 ATATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTG
** * * * *
1733970 ACTATGGGGTAAGGAGAACGTCGACAGACTTGCTTTTGAATTATGGTGATCTTCTGACGAATTAA
66 ACTCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAA
* * * *
1734035 TGCTTTCTTCACTATTTTCTGTCGTGTCTAGTCGCTTTTGCATGATTAATTTTACCGTGGGTTAT
131 CGCTTTCTTCACTA-CTTCTGTCCTGTCTAGTCGC-TTTGCATGATTAATTTTGCCGTGGGTTAT
1734100 AATCTCAACATTTGACTCTTGTATTATATGAAATTTTA
194 AATCTCAACATTTGACTCTTGTATTATATGAAATTTTA
1734138 ATATATATATATATATATATATATAT
1 ATATATATATATATATATATATATAT
1734164 CAATTCTTAA
Statistics
Matches: 1323, Mismatches: 62, Indels: 66
0.91 0.04 0.05
Matches are distributed among these distances:
221 204 0.15
222 2 0.00
223 124 0.09
224 21 0.02
225 63 0.05
226 1 0.00
228 1 0.00
229 215 0.16
230 2 0.00
231 225 0.17
232 4 0.00
233 18 0.01
234 1 0.00
235 3 0.00
238 2 0.00
239 3 0.00
240 1 0.00
241 226 0.17
242 3 0.00
243 204 0.15
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (231 bp):
ATATATATATATATATATATATATATTAGTACTTTGCACTTACACAATGACTTTCCCTTATATTG
ACTCCGGAGTAAAGAGAACGTCGACAGACTTGCTTTTGAATTATGGCGATCTTCTGGCGAATTAA
CGCTTTCTTCACTACTTCTGTCCTGTCTAGTCGCTTTGCATGATTAATTTTGCCGTGGGTTATAA
TCTCAACATTTGACTCTTGTATTATATGAAATTTTA
Found at i:1733219 original size:2 final size:2
Alignment explanation
Indices: 1733212--1733247 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1733202 TGAAATTTTA
1733212 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1733248 TAGTACTTTG
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1734145 original size:2 final size:2
Alignment explanation
Indices: 1734138--1734163 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1734128 TGAAATTTTA
1734138 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1734164 CAATTCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1734507 original size:13 final size:13
Alignment explanation
Indices: 1734489--1734519 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1734479 ATTGGTTGTC
1734489 TCATAGCCATTCA
1 TCATAGCCATTCA
1734502 TCATAGCCATTCA
1 TCATAGCCATTCA
*
1734515 ACATA
1 TCATA
1734520 TAGAGCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29
Consensus pattern (13 bp):
TCATAGCCATTCA
Found at i:1734813 original size:20 final size:18
Alignment explanation
Indices: 1734779--1734817 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
1734769 TTAATTATTT
1734779 TAAAATATAAAATAAAAA
1 TAAAATATAAAATAAAAA
1734797 TAAAATATTACAAATAAAAA
1 TAAAATA-TA-AAATAAAAA
1734817 T
1 T
1734818 TTATTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
19 2 0.11
20 10 0.53
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAAATATAAAATAAAAA
Found at i:1739261 original size:19 final size:18
Alignment explanation
Indices: 1739217--1739261 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 18
1739207 TATATTTAAT
*
1739217 TTTTTTAAAATTTTTTTA
1 TTTTTAAAAATTTTTTTA
1739235 TATATTTAAAAATTTATTTTA
1 T-T-TTTAAAAATTT-TTTTA
1739256 TTTTTA
1 TTTTTA
1739262 TATTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 5 0.22
20 11 0.48
21 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTAAAAATTTTTTTA
Found at i:1739279 original size:27 final size:24
Alignment explanation
Indices: 1739226--1739272 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
1739216 TTTTTTTAAA
1739226 ATTTTTTTATATATTTAAAAATTT
1 ATTTTTTTATATATTTAAAAATTT
*
1739250 ATTTTATTTTTATATTTAAAAAT
1 ATTTT-TTTATATATTTAAAAAT
1739273 ATATATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTTTTTATATATTTAAAAATTT
Found at i:1742670 original size:22 final size:22
Alignment explanation
Indices: 1742629--1742672 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1742619 AATAGATTGG
* *
1742629 TCAATGAAAAATAACTTATTAA
1 TCAACGAAAAATAACATATTAA
*
1742651 TCAACGAAAAATAAGATATTAA
1 TCAACGAAAAATAACATATTAA
1742673 GGATCCTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.27
Consensus pattern (22 bp):
TCAACGAAAAATAACATATTAA
Found at i:1742831 original size:20 final size:20
Alignment explanation
Indices: 1742793--1742831 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1742783 AACTCAAGCC
*
1742793 AAATATTTTTATTTATAATA
1 AAATATTTATATTTATAATA
1742813 AAATATTTAATATTT-TAAT
1 AAATATTT-ATATTTATAAT
1742832 TTCAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATATTTATATTTATAATA
Found at i:1742893 original size:14 final size:14
Alignment explanation
Indices: 1742862--1742903 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
1742852 AAAATAAATC
*
1742862 ATTTTAATAATATA
1 ATTTTAATATTATA
1742876 ATTTTAATATTCAT-
1 ATTTTAATATT-ATA
1742890 ATTTTGAATATTAT
1 ATTTT-AATATTAT
1742904 TAAACATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (14 bp):
ATTTTAATATTATA
Found at i:1742998 original size:17 final size:18
Alignment explanation
Indices: 1742976--1743018 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
1742966 TAATGAAATT
1742976 TATTATTTTAAT-AAAAA
1 TATTATTTTAATAAAAAA
1742993 TATTA-TTTAATAAAAAA
1 TATTATTTTAATAAAAAA
*
1743010 TTTTATTTT
1 TATTATTTT
1743019 TTTAATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 6 0.26
17 14 0.61
18 3 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTATTTTAATAAAAAA
Found at i:1743023 original size:37 final size:32
Alignment explanation
Indices: 1742943--1743031 Score: 90
Period size: 37 Copynumber: 2.6 Consensus size: 32
1742933 CAATATAACA
*
1742943 TTATTTATTTTAATAAAAA-ATATTAATGAAAT
1 TTATTT-TTTTAATAAAAATATATTAATAAAAT
*
1742975 TTATTATTTTAATAAAAATATTATTTAATAAAAAATT
1 TTATTTTTTTAATAAAAATA-TA-TTAAT--AAAA-T
1743012 TTATTTTTTTAATAATAAAT
1 TTATTTTTTTAATAA-AAAT
1743032 TTAAACATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
31 12 0.26
32 6 0.13
33 2 0.04
34 5 0.11
36 3 0.06
37 15 0.32
38 4 0.09
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (32 bp):
TTATTTTTTTAATAAAAATATATTAATAAAAT
Found at i:1743277 original size:46 final size:46
Alignment explanation
Indices: 1743227--1743673 Score: 138
Period size: 46 Copynumber: 10.4 Consensus size: 46
1743217 TTATTTATTA
*
1743227 TATTTCAAAATATTTA-TA-TAATTAATGTTTTAATAATAAATAGTAT
1 TATTTC-AAATATTTACTATTAA-TAATATTTTAATAATAAATAGTAT
* * * * *
1743273 TATTTTAAGTATTTACTATTAATAATATTTTATTATTAAATATTAT
1 TATTTCAAATATTTACTATTAATAATATTTTAATAATAAATAGTAT
* *
1743319 TA-TTCAAATA-TTACTATT--TGAATA--TTAAAAATTAATAGT-T
1 TATTTCAAATATTTACTATTAAT-AATATTTTAATAATAAATAGTAT
* * * *
1743359 TAATGAT-AAATA-GT--T-TT--TAATATTTTAAT-AT--TTATTA-
1 T-AT-TTCAAATATTTACTATTAATAATATTTTAATAATAAATAGTAT
* * *
1743396 TATTTCAAAATATTTA-TA-TCATAAATGTTTTAATAATAAATCGTAT
1 TATTTC-AAATATTTACTATTAAT-AATATTTTAATAATAAATAGTAT
* * * * * *
1743442 TATTTTAAGTATTTAATATTAA-AATATTTTATTATTAAATATTAT
1 TATTTCAAATATTTACTATTAATAATATTTTAATAATAAATAGTAT
* * *
1743487 TA-TTCAATTA-TTACTATT--TGAATA--TTAAAAATTAATAGT-T
1 TATTTCAAATATTTACTATTAAT-AATATTTTAATAATAAATAGTAT
* * * *
1743527 TAATGAT-AAATA-GT--T-TT--TAATATTTTAAT-AT--TTATTA-
1 T-AT-TTCAAATATTTACTATTAATAATATTTTAATAATAAATAGTAT
* *
1743564 TATTTCAAAATATTTA-TA-TCATAAATGTTTTAATAATAAATAGTAT
1 TATTTC-AAATATTTACTATTAAT-AATATTTTAATAATAAATAGTAT
* * * * * *
1743610 TATTTTAAGTATTTAATATTAATAATATTTTATTATTAAATATTAT
1 TATTTCAAATATTTACTATTAATAATATTTTAATAATAAATAGTAT
*
1743656 TA-TTCAATTA-TTACTATT
1 TATTTCAAATATTTACTATT
1743674 TGAATATTAA
Statistics
Matches: 295, Mismatches: 61, Indels: 92
0.66 0.14 0.21
Matches are distributed among these distances:
35 2 0.01
36 4 0.01
37 18 0.06
38 10 0.03
39 14 0.05
40 14 0.05
41 24 0.08
42 32 0.11
43 21 0.07
44 21 0.07
45 63 0.21
46 64 0.22
47 8 0.03
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (46 bp):
TATTTCAAATATTTACTATTAATAATATTTTAATAATAAATAGTAT
Found at i:1743320 original size:13 final size:14
Alignment explanation
Indices: 1743302--1743336 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1743292 TAATAATATT
1743302 TTATTATT-AAATA
1 TTATTATTCAAATA
1743315 TTATTATTCAAATA
1 TTATTATTCAAATA
*
1743329 TTACTATT
1 TTATTATT
1743337 TGAATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATTATTCAAATA
Found at i:1743489 original size:16 final size:16
Alignment explanation
Indices: 1743453--1743490 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1743443 ATTTTAAGTA
*
1743453 TTTAATATTAAAATAT
1 TTTATTATTAAAATAT
1743469 TTTATTATT-AAATAT
1 TTTATTATTAAAATAT
1743484 TATTATT
1 T-TTATT
1743491 CAATTATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTATTATTAAAATAT
Found at i:1743529 original size:168 final size:169
Alignment explanation
Indices: 1743218--1743719 Score: 952
Period size: 168 Copynumber: 3.0 Consensus size: 169
1743208 TTTTAAAAAT
* *
1743218 TATTTATTATATTTCAAAATATTTATATAATTAATGTTTTAATAATAAATAGTATTATTTTAAGT
1 TATTTATTATATTTCAAAATATTTATATCATAAATGTTTTAATAATAAATAGTATTATTTTAAGT
* *
1743283 ATTTACTATTAATAATATTTTATTATTAAATATTATTATTCAAATATTACTATTTGAATATTAAA
66 ATTTAATATTAATAATATTTTATTATTAAATATTATTATTCAATTATTACTATTTGAATATTAAA
1743348 AATTAATAGTTTAATGATAAATAGTTTTTAATATTTTAA
131 AATTAATAGTTTAATGATAAATAGTTTTTAATATTTTAA
*
1743387 TATTTATTATATTTCAAAATATTTATATCATAAATGTTTTAATAATAAATCGTATTATTTTAAGT
1 TATTTATTATATTTCAAAATATTTATATCATAAATGTTTTAATAATAAATAGTATTATTTTAAGT
1743452 ATTTAATATTAA-AATATTTTATTATTAAATATTATTATTCAATTATTACTATTTGAATATTAAA
66 ATTTAATATTAATAATATTTTATTATTAAATATTATTATTCAATTATTACTATTTGAATATTAAA
1743516 AATTAATAGTTTAATGATAAATAGTTTTTAATATTTTAA
131 AATTAATAGTTTAATGATAAATAGTTTTTAATATTTTAA
1743555 TATTTATTATATTTCAAAATATTTATATCATAAATGTTTTAATAATAAATAGTATTATTTTAAGT
1 TATTTATTATATTTCAAAATATTTATATCATAAATGTTTTAATAATAAATAGTATTATTTTAAGT
1743620 ATTTAATATTAATAATATTTTATTATTAAATATTATTATTCAATTATTACTATTTGAATATTAAA
66 ATTTAATATTAATAATATTTTATTATTAAATATTATTATTCAATTATTACTATTTGAATATTAAA
1743685 AATTAATAGTTTAATGATAAATAGTTTTTAATATT
131 AATTAATAGTTTAATGATAAATAGTTTTTAATATT
1743720 AAAAATTGTA
Statistics
Matches: 326, Mismatches: 6, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
168 166 0.51
169 160 0.49
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (169 bp):
TATTTATTATATTTCAAAATATTTATATCATAAATGTTTTAATAATAAATAGTATTATTTTAAGT
ATTTAATATTAATAATATTTTATTATTAAATATTATTATTCAATTATTACTATTTGAATATTAAA
AATTAATAGTTTAATGATAAATAGTTTTTAATATTTTAA
Found at i:1743659 original size:21 final size:21
Alignment explanation
Indices: 1743591--1743668 Score: 57
Period size: 21 Copynumber: 3.5 Consensus size: 21
1743581 ATCATAAATG
* * *
1743591 TTTTAATAATAAATAGTATTA
1 TTTTATTATTAAATATTATTA
* *
1743612 TTTTAAGTATTTAATATTAATAATA
1 TTTT-ATTATTAAATATT-AT--TA
1743637 TTTTATTATTAAATATTATTA
1 TTTTATTATTAAATATTATTA
**
1743658 TTCAATTATTA
1 TTTTATTATTA
1743669 CTATTTGAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
21 15 0.33
22 9 0.20
23 4 0.09
24 11 0.24
25 6 0.13
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (21 bp):
TTTTATTATTAAATATTATTA
Found at i:1743775 original size:17 final size:17
Alignment explanation
Indices: 1743730--1743777 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 17
1743720 AAAAATTGTA
1743730 AAATAATATTTTAATAG
1 AAATAATATTTTAATAG
* * *
1743747 CAAT--TATATTAATAT
1 AAATAATATTTTAATAG
1743762 AAATAATATTTTAATA
1 AAATAATATTTTAATA
1743778 ATTATTATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
15 12 0.50
17 12 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
AAATAATATTTTAATAG
Found at i:1743902 original size:15 final size:14
Alignment explanation
Indices: 1743871--1743921 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
1743861 TTTTATTATT
1743871 AAATATTATGATTA
1 AAATATTATGATTA
*
1743885 AAATATTATTGTTTA
1 AAATATTA-TGATTA
1743900 AAATATTAAT-ATTA
1 AAATATT-ATGATTA
*
1743914 AATTATTA
1 AAATATTA
1743922 GTATATTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 1 0.03
14 17 0.53
15 13 0.41
16 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (14 bp):
AAATATTATGATTA
Found at i:1744442 original size:11 final size:12
Alignment explanation
Indices: 1744419--1744447 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
1744409 ATACTCTTTT
1744419 TTTTAGTTTAGC
1 TTTTAGTTTAGC
1744431 TTTTAG-TTAGC
1 TTTTAGTTTAGC
1744442 TTTTAG
1 TTTTAG
1744448 AATTTATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.17, C:0.07, G:0.17, T:0.59
Consensus pattern (12 bp):
TTTTAGTTTAGC
Found at i:1745600 original size:38 final size:38
Alignment explanation
Indices: 1745558--1745749 Score: 285
Period size: 38 Copynumber: 5.1 Consensus size: 38
1745548 CACCAGCCAC
* * * *
1745558 CAGCCACCGGCCAATTCCAAATTGAATTCTCTAGTCAT
1 CAGCCGCCGGCCAATTTCAAATTGAATTCTCTAGCCGT
1745596 CAGCCGCCGGCCAATTTCAAATTGAATTCTCTAGCCGT
1 CAGCCGCCGGCCAATTTCAAATTGAATTCTCTAGCCGT
* * **
1745634 CAGCCACCAGCCAATTTCAAATTGAATTCTCTATTCGT
1 CAGCCGCCGGCCAATTTCAAATTGAATTCTCTAGCCGT
1745672 CAGCCGCCGGCCAATTTCAAATTGAATTCTCTAGCCGT
1 CAGCCGCCGGCCAATTTCAAATTGAATTCTCTAGCCGT
* * *
1745710 CAGCCGCCAGTCAATTTCAAATTGAATTCTCTAACCGT
1 CAGCCGCCGGCCAATTTCAAATTGAATTCTCTAGCCGT
1745748 CA
1 CA
1745750 ACTAATTCAA
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 139 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.28
Consensus pattern (38 bp):
CAGCCGCCGGCCAATTTCAAATTGAATTCTCTAGCCGT
Found at i:1745600 original size:45 final size:45
Alignment explanation
Indices: 1745536--1745646 Score: 137
Period size: 38 Copynumber: 2.6 Consensus size: 45
1745526 GTTCAATTTG
*
1745536 GAATTCTCTAGCCACCAGCCACCAGCCACCGGCCAATTCCAAATT
1 GAATTCTCTAGCCATCAGCCACCAGCCACCGGCCAATTCCAAATT
* *
1745581 GAATTCTCTAGTCATCAG---CC-G---CCGGCCAATTTCAAATT
1 GAATTCTCTAGCCATCAGCCACCAGCCACCGGCCAATTCCAAATT
*
1745619 GAATTCTCTAGCCGTCAGCCACCAGCCA
1 GAATTCTCTAGCCATCAGCCACCAGCCA
1745647 ATTTCAAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
38 32 0.59
41 3 0.06
42 3 0.06
45 16 0.30
ACGTcount: A:0.27, C:0.36, G:0.15, T:0.22
Consensus pattern (45 bp):
GAATTCTCTAGCCATCAGCCACCAGCCACCGGCCAATTCCAAATT
Found at i:1745684 original size:76 final size:76
Alignment explanation
Indices: 1745558--1745742 Score: 316
Period size: 76 Copynumber: 2.4 Consensus size: 76
1745548 CACCAGCCAC
* *
1745558 CAGCCACCGGCCAATTCCAAATTGAATTCTCTAGTCATCAGCCGCCGGCCAATTTCAAATTGAAT
1 CAGCCACCAGCCAATTTCAAATTGAATTCTCTAGTCATCAGCCGCCGGCCAATTTCAAATTGAAT
1745623 TCTCTAGCCGT
66 TCTCTAGCCGT
* *
1745634 CAGCCACCAGCCAATTTCAAATTGAATTCTCTATTCGTCAGCCGCCGGCCAATTTCAAATTGAAT
1 CAGCCACCAGCCAATTTCAAATTGAATTCTCTAGTCATCAGCCGCCGGCCAATTTCAAATTGAAT
1745699 TCTCTAGCCGT
66 TCTCTAGCCGT
* *
1745710 CAGCCGCCAGTCAATTTCAAATTGAATTCTCTA
1 CAGCCACCAGCCAATTTCAAATTGAATTCTCTA
1745743 ACCGTCAACT
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 103 1.00
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (76 bp):
CAGCCACCAGCCAATTTCAAATTGAATTCTCTAGTCATCAGCCGCCGGCCAATTTCAAATTGAAT
TCTCTAGCCGT
Found at i:1753024 original size:52 final size:52
Alignment explanation
Indices: 1752946--1753074 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
1752936 CGAAATATGA
*
1752946 AAATTTAT-CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTT-TCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
1752998 AAATTTTCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTTCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
*
1753050 AAATTTGCCTGCATGTATCGATACA
1 AAATTTTCCTGCATGTATCGATACA
1753075 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
51 1 0.01
52 72 0.99
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTTCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:1753087 original size:52 final size:51
Alignment explanation
Indices: 1752954--1753094 Score: 203
Period size: 52 Copynumber: 2.7 Consensus size: 51
1752944 GAAAATTTAT
*
1752954 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTTC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1753006 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1753058 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1753095 ATGTATCGAT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 79 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1753101 original size:13 final size:13
Alignment explanation
Indices: 1753083--1753107 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1753073 CAAAGATCAG
1753083 TGTATCGATACAA
1 TGTATCGATACAA
1753096 TGTATCGATACA
1 TGTATCGATACA
1753108 TGTGAGTAAT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1753191 original size:13 final size:13
Alignment explanation
Indices: 1753173--1753197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1753163 AAAAAAAATA
1753173 TGTATCGATACAT
1 TGTATCGATACAT
1753186 TGTATCGATACA
1 TGTATCGATACA
1753198 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1753889 original size:38 final size:38
Alignment explanation
Indices: 1753847--1754050 Score: 300
Period size: 38 Copynumber: 5.4 Consensus size: 38
1753837 CAATTTGGAT
** *
1753847 TTCTCTAGCCACCAGCCACCGGCCAATTTCAAATTGAA
1 TTCTCTAGCCGTCAGCCGCCGGCCAATTTCAAATTGAA
*
1753885 TTCTCTAGTCGTCAGCCGCCGGCCAATTTCAAATTGAA
1 TTCTCTAGCCGTCAGCCGCCGGCCAATTTCAAATTGAA
*
1753923 TTCTCTAGCCGTCAGCCGCCAGCCAATTTCAAATTGAA
1 TTCTCTAGCCGTCAGCCGCCGGCCAATTTCAAATTGAA
* *
1753961 TTCTCTAGTCGTCAGCCACCGGCCAATTTCAAATTGAA
1 TTCTCTAGCCGTCAGCCGCCGGCCAATTTCAAATTGAA
* * * *
1753999 TTCTCTAGCCGTCAGTCGCCAGTCAATTTCAAATTTAA
1 TTCTCTAGCCGTCAGCCGCCGGCCAATTTCAAATTGAA
*
1754037 TTCTCTAACCGTCA
1 TTCTCTAGCCGTCA
1754051 ACTAATTCAA
Statistics
Matches: 150, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 150 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (38 bp):
TTCTCTAGCCGTCAGCCGCCGGCCAATTTCAAATTGAA
Found at i:1757512 original size:9 final size:9
Alignment explanation
Indices: 1757500--1757540 Score: 59
Period size: 8 Copynumber: 4.7 Consensus size: 9
1757490 AATTTTGTTT
1757500 ATTTTTAAA
1 ATTTTTAAA
1757509 A-TTTTAAA
1 ATTTTTAAA
1757517 A-TTTTAAA
1 ATTTTTAAA
1757525 ATTTTTGAAA
1 ATTTTT-AAA
1757535 ATTTTT
1 ATTTTT
1757541 TTTGATTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 16 0.53
9 5 0.17
10 9 0.30
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:1758764 original size:20 final size:20
Alignment explanation
Indices: 1758739--1758796 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
1758729 AACTATATTT
1758739 AATATTTATTTAATATTAAA
1 AATATTTATTTAATATTAAA
* *
1758759 ATTATTT-TTAAAATATTAAA
1 AATATTTATT-TAATATTAAA
*
1758779 AAAATTTATTT-ATATTAA
1 AATATTTATTTAATATTAA
1758797 TCTATTGAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 9 0.29
20 20 0.65
21 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATATTTATTTAATATTAAA
Found at i:1760451 original size:13 final size:13
Alignment explanation
Indices: 1760431--1760468 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
1760421 TTATTAGTAT
1760431 TTTA-TTAAATAA
1 TTTATTTAAATAA
1760443 TTTATTTAAATAAA
1 TTTATTTAAAT-AA
*
1760457 TTAATTTAAATA
1 TTTATTTAAATA
1760469 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 4 0.17
13 7 0.30
14 12 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTATTTAAATAA
Found at i:1760463 original size:14 final size:14
Alignment explanation
Indices: 1760435--1760468 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1760425 TAGTATTTTA
*
1760435 TTAAAT-AATTTAT
1 TTAAATAAATTAAT
1760448 TTAAATAAATTAAT
1 TTAAATAAATTAAT
1760462 TTAAATA
1 TTAAATA
1760469 TCAAATGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAAATAAATTAAT
Found at i:1763339 original size:2 final size:2
Alignment explanation
Indices: 1763332--1763359 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1763322 AAATCAATTG
1763332 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1763360 GCACACACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1764234 original size:2 final size:2
Alignment explanation
Indices: 1764227--1764251 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1764217 ATTTGGTTTC
1764227 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1764252 CACGAGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1769525 original size:12 final size:12
Alignment explanation
Indices: 1769494--1769518 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1769484 GAAAACAAAG
1769494 GCTGCCAACTGT
1 GCTGCCAACTGT
1769506 GCTGCCAACTGT
1 GCTGCCAACTGT
1769518 G
1 G
1769519 TCGCCAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.28, T:0.24
Consensus pattern (12 bp):
GCTGCCAACTGT
Found at i:1769542 original size:12 final size:12
Alignment explanation
Indices: 1769527--1769572 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
1769517 TGTCGCCAAT
1769527 TTTGAAATTCAA
1 TTTGAAATTCAA
*
1769539 TTTGAAATAATAAA
1 TTTGAAAT--TCAA
1769553 TGTTGAAATTCAA
1 T-TTGAAATTCAA
1769566 TTTGAAA
1 TTTGAAA
1769573 CAGTGAAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 14 0.48
13 4 0.14
14 4 0.14
15 7 0.24
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.39
Consensus pattern (12 bp):
TTTGAAATTCAA
Found at i:1769584 original size:27 final size:27
Alignment explanation
Indices: 1769528--1769584 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
1769518 GTCGCCAATT
* *
1769528 TTGAAATTCAATTTGAAATAATAAATG
1 TTGAAATTCAATTTGAAACAATAAAGG
* *
1769555 TTGAAATTCAATTTGAAACAGTGAAGG
1 TTGAAATTCAATTTGAAACAATAAAGG
1769582 TTG
1 TTG
1769585 CACAGTACCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (27 bp):
TTGAAATTCAATTTGAAACAATAAAGG
Found at i:1771657 original size:30 final size:30
Alignment explanation
Indices: 1771610--1771675 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 30
1771600 AAAAGATGAA
*
1771610 AATTTAATTAACT-AAAAATAA-ATTAATTTT
1 AATTAAATTAACTAAAAAATAACA-TAA-TTT
1771640 AATTAAATTAA-TAAAAAAATAACATAATTT
1 AATTAAATTAACT-AAAAAATAACATAATTT
1771670 AATTAA
1 AATTAA
1771676 TTCGATTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 1 0.03
30 19 0.59
31 11 0.34
32 1 0.03
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (30 bp):
AATTAAATTAACTAAAAAATAACATAATTT
Found at i:1773890 original size:14 final size:13
Alignment explanation
Indices: 1773848--1773890 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
1773838 TAAAACAAAT
*
1773848 TATTTTAATAGTA
1 TATTTTAATATTA
1773861 TAATTTTAATATTTA
1 T-ATTTTAATA-TTA
1773876 TATTTTAAATATTA
1 TATTTT-AATATTA
1773890 T
1 T
1773891 TAAACATACA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 1 0.04
14 18 0.69
15 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (13 bp):
TATTTTAATATTA
Found at i:1775644 original size:2 final size:2
Alignment explanation
Indices: 1775633--1775675 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
1775623 CTCAATTGGA
1775633 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1775673 AT A
1 AT A
1775676 AAAGCACGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1778623 original size:20 final size:20
Alignment explanation
Indices: 1778584--1778623 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1778574 CTCAATTTTC
* * *
1778584 CTTTCTTTTTTTTTTTTTTA
1 CTTTCTTTTATTATTGTTTA
1778604 CTTTCTTTTATTATTGTTTA
1 CTTTCTTTTATTATTGTTTA
1778624 ACCACACCTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.10, G:0.03, T:0.78
Consensus pattern (20 bp):
CTTTCTTTTATTATTGTTTA
Found at i:1779804 original size:2 final size:2
Alignment explanation
Indices: 1779797--1779828 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1779787 GCTCAATTGG
1779797 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1779829 CAGTGCTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1780038 original size:2 final size:2
Alignment explanation
Indices: 1780031--1780058 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1780021 TGAAATTTTA
1780031 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1780059 GGATTTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1780960 original size:2 final size:2
Alignment explanation
Indices: 1780955--1780979 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1780945 TTTTTGCTTT
1780955 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1780980 TTCAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1781799 original size:13 final size:14
Alignment explanation
Indices: 1781770--1781803 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
1781760 ACTTAATTTA
1781770 TTAATAATAAAAAT
1 TTAATAATAAAAAT
*
1781784 TTAATAAT-ATAAT
1 TTAATAATAAAAAT
1781797 TTAATAA
1 TTAATAA
1781804 AATTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAATAATAAAAAT
Found at i:1791203 original size:14 final size:14
Alignment explanation
Indices: 1791184--1791212 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1791174 AATAAAGAGA
1791184 ATGAAACTGGAGGT
1 ATGAAACTGGAGGT
1791198 ATGAAACTGGAGGT
1 ATGAAACTGGAGGT
1791212 A
1 A
1791213 CTTTTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.34, T:0.21
Consensus pattern (14 bp):
ATGAAACTGGAGGT
Found at i:1796353 original size:13 final size:13
Alignment explanation
Indices: 1796337--1796368 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1796327 AATTTTAAGG
1796337 TAAAATTAATCAA
1 TAAAATTAATCAA
*
1796350 TAAAATTAATTAA
1 TAAAATTAATCAA
1796363 TAAAAT
1 TAAAAT
1796369 ATATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAATTAATCAA
Found at i:1796377 original size:13 final size:13
Alignment explanation
Indices: 1796337--1796379 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
1796327 AATTTTAAGG
*
1796337 TAAAATTAATCAA
1 TAAAATTAATAAA
*
1796350 TAAAATTAATTAA
1 TAAAATTAATAAA
1796363 TAAAA-TATATAAA
1 TAAAATTA-ATAAA
1796376 TAAA
1 TAAA
1796380 CAAGATTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 2 0.07
13 25 0.93
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAATTAATAAA
Found at i:1797634 original size:22 final size:23
Alignment explanation
Indices: 1797608--1797663 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
1797598 AATAAATAAA
1797608 ATTAAAATTATAAAATAATTATT
1 ATTAAAATTATAAAATAATTATT
* **
1797631 -TTAATATTATATTATAATTATT
1 ATTAAAATTATAAAATAATTATT
*
1797653 ATTTAAATTAT
1 ATTAAAATTAT
1797664 TGATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTAAAATTATAAAATAATTATT
Found at i:1797850 original size:22 final size:22
Alignment explanation
Indices: 1797822--1797865 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1797812 AAAAATTATA
1797822 TTATTAATT-TAAATATATATTT
1 TTATTAATTATAAAT-TATATTT
1797844 TTATTAATTATAAATTATATTT
1 TTATTAATTATAAATTATATTT
1797866 AATATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATTAATTATAAATTATATTT
Found at i:1799410 original size:14 final size:13
Alignment explanation
Indices: 1799392--1799429 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
1799382 TTCTATTTTC
*
1799392 ATTTTTTAATTTG
1 ATTTTTTAATTAG
1799405 A-TTTTTAATTAG
1 ATTTTTTAATTAG
1799417 ATTTTCTTAATTA
1 ATTTT-TTAATTA
1799430 TGGCTAGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 11 0.50
13 4 0.18
14 7 0.32
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (13 bp):
ATTTTTTAATTAG
Found at i:1801516 original size:16 final size:17
Alignment explanation
Indices: 1801497--1801529 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1801487 TTTTTCAAGT
*
1801497 TTTGGTTTTT-ATTTTA
1 TTTGCTTTTTAATTTTA
1801513 TTTGCTTTTTAATTTTA
1 TTTGCTTTTTAATTTTA
1801530 GTGTAGTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.73
Consensus pattern (17 bp):
TTTGCTTTTTAATTTTA
Found at i:1807668 original size:10 final size:10
Alignment explanation
Indices: 1807653--1807687 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
1807643 TTCTCGGTAT
1807653 AGAGATAAAC
1 AGAGATAAAC
1807663 AGAGATAAAC
1 AGAGATAAAC
*
1807673 AGAGATAGAC
1 AGAGATAAAC
1807683 AGAGA
1 AGAGA
1807688 GGCAAGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.57, C:0.09, G:0.26, T:0.09
Consensus pattern (10 bp):
AGAGATAAAC
Found at i:1808651 original size:27 final size:27
Alignment explanation
Indices: 1808621--1808696 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
1808611 ACAAAAGTCA
* * *
1808621 TCCTTTGTGTTTGTTAAAAATGATGGT
1 TCCTTTATGTTTGTAAAAAATGATAGT
*
1808648 TCCTTTATGTTTGTAAAAAATGGTAGT
1 TCCTTTATGTTTGTAAAAAATGATAGT
* * * *
1808675 TCTTTTTTATTTGTCAAAAATG
1 TCCTTTATGTTTGTAAAAAATG
1808697 GTGACTTGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.26, C:0.08, G:0.17, T:0.49
Consensus pattern (27 bp):
TCCTTTATGTTTGTAAAAAATGATAGT
Found at i:1811407 original size:29 final size:29
Alignment explanation
Indices: 1811361--1811440 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
1811351 CCGGCATAAT
* *
1811361 ATAATTATACAATTTAAATATAATATAAAAA
1 ATAATTA-A-AATATAAAAATAATATAAAAA
* *
1811392 ATAATTAAAATATAAAAATAATATTATAA
1 ATAATTAAAATATAAAAATAATATAAAAA
1811421 AT-ATATAAATATATAAAAAT
1 ATAAT-TAAA-ATATAAAAAT
1811441 TTATATTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
28 2 0.05
29 23 0.53
30 11 0.26
31 7 0.16
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (29 bp):
ATAATTAAAATATAAAAATAATATAAAAA
Found at i:1811421 original size:14 final size:14
Alignment explanation
Indices: 1811402--1811452 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
1811392 ATAATTAAAA
1811402 TATAAAAATAATAT
1 TATAAAAATAATAT
1811416 TATAAATATATAA-AT
1 TATAAA-A-ATAATAT
*
1811431 ATATAAAAATTTATAT
1 -TATAAAAA-TAATAT
1811447 TATAAA
1 TATAAA
1811453 TTATTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
14 7 0.23
15 12 0.39
16 12 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TATAAAAATAATAT
Found at i:1811435 original size:16 final size:16
Alignment explanation
Indices: 1811411--1811516 Score: 63
Period size: 18 Copynumber: 6.2 Consensus size: 16
1811401 ATATAAAAAT
1811411 AATATTATAAATATATA
1 AATA-TATAAATATATA
* *
1811428 AATATATAAAAATTTA
1 AATATATAAATATATA
* *
1811444 TAT-TATAAAT-TATT
1 AATATATAAATATATA
*
1811458 AATATATTAAAATTTATA
1 AATATA-T-AAATATATA
*
1811476 TAATATTAAAAATATAATA
1 -AATA-TATAAATAT-ATA
*
1811495 TAATATAAAAATAATATA
1 -AATATATAAAT-ATATA
1811513 AATA
1 AATA
1811517 CATCCTTAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
14 4 0.06
15 8 0.11
16 13 0.18
17 12 0.17
18 18 0.25
19 14 0.20
20 2 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATATATAAATATATA
Found at i:1811437 original size:30 final size:29
Alignment explanation
Indices: 1811375--1811516 Score: 100
Period size: 30 Copynumber: 4.9 Consensus size: 29
1811365 TTATACAATT
* *
1811375 TAAATATAATATA-AAAAATAATTAAA-ATA
1 TAAAAATAATATATAAATAT-A-TAAATATA
1811404 TAAAAATAATATTATAAATATATAAATATA
1 TAAAAATAATA-TATAAATATATAAATATA
* *
1811434 TAAAAATTTATATTATAAAT-TATTAATATA
1 TAAAAA-TAATA-TATAAATATATAAATATA
* * *
1811464 TTAAAAT-TTATAT-AATAT-TAAAAATA
1 TAAAAATAATATATAAATATATAAATATA
* *
1811490 T-AATATAATATAAAAATAATATAAATA
1 TAAAAATAATATATAAAT-ATATAAATA
1811517 CATCCTTAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
25 4 0.04
26 14 0.15
27 7 0.08
28 4 0.04
29 20 0.22
30 26 0.28
31 17 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (29 bp):
TAAAAATAATATATAAATATATAAATATA
Found at i:1811490 original size:14 final size:14
Alignment explanation
Indices: 1811376--1811495 Score: 57
Period size: 14 Copynumber: 7.8 Consensus size: 14
1811366 TATACAATTT
*
1811376 AAATATAATATAAA
1 AAATATAATATTAA
*
1811390 AAATAATTAA-AATATA
1 AAAT-A-TAATATTA-A
1811406 AAA-ATAATATTATA
1 AAATATAATATTA-A
1811420 AATATATAAATATATAA
1 AA-ATAT-AATAT-TAA
*
1811437 AAAT-TTATATTATA
1 AAATATAATATTA-A
*
1811451 AATTATTAATATATTAA
1 AAATA-T-A-ATATTAA
1811468 AATTTATATAATATTAA
1 AA---ATATAATATTAA
1811485 AAATATAATAT
1 AAATATAATAT
1811496 AATATAAAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 32
0.68 0.06 0.26
Matches are distributed among these distances:
13 5 0.06
14 29 0.35
15 5 0.06
16 12 0.14
17 20 0.24
18 9 0.11
19 1 0.01
20 2 0.02
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATATAATATTAA
Found at i:1811915 original size:76 final size:76
Alignment explanation
Indices: 1811824--1811969 Score: 292
Period size: 76 Copynumber: 1.9 Consensus size: 76
1811814 ACAGAAATTA
1811824 TTCGACGTAAGATCCATTGGCCAGTGGCCTTAATATGTTCTGCTCACCTCTTTTATCTTCCCAAA
1 TTCGACGTAAGATCCATTGGCCAGTGGCCTTAATATGTTCTGCTCACCTCTTTTATCTTCCCAAA
1811889 ATAACTGTTAT
66 ATAACTGTTAT
1811900 TTCGACGTAAGATCCATTGGCCAGTGGCCTTAATATGTTCTGCTCACCTCTTTTATCTTCCCAAA
1 TTCGACGTAAGATCCATTGGCCAGTGGCCTTAATATGTTCTGCTCACCTCTTTTATCTTCCCAAA
1811965 ATAAC
66 ATAAC
1811970 ATAACAGTTA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (76 bp):
TTCGACGTAAGATCCATTGGCCAGTGGCCTTAATATGTTCTGCTCACCTCTTTTATCTTCCCAAA
ATAACTGTTAT
Found at i:1812725 original size:29 final size:29
Alignment explanation
Indices: 1812654--1812710 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
1812644 CAGCCGGAAG
*
1812654 AAGTCCTTAACTGAGAATTCCCAGGTCCC
1 AAGTCCTTCACTGAGAATTCCCAGGTCCC
1812683 AAGTCCTTCACTGAGAATTCCCAGGTCC
1 AAGTCCTTCACTGAGAATTCCCAGGTCC
1812711 TTTGTCCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.25
Consensus pattern (29 bp):
AAGTCCTTCACTGAGAATTCCCAGGTCCC
Found at i:1813459 original size:32 final size:33
Alignment explanation
Indices: 1813416--1813480 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
1813406 ATATAATATG
1813416 ATAAATTATTTTA-TA-TTTTAAATAAAATAAA
1 ATAAATTATTTTATTATTTTTAAATAAAATAAA
*
1813447 ATAAATATATTTTATTATTTTTAAATAATATAAA
1 ATAAAT-TATTTTATTATTTTTAAATAAAATAAA
1813481 TAGATTTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 6 0.20
32 7 0.23
33 2 0.07
34 15 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
ATAAATTATTTTATTATTTTTAAATAAAATAAA
Found at i:1813499 original size:29 final size:29
Alignment explanation
Indices: 1813440--1813500 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
1813430 ATTTTAAATA
* * * **
1813440 AAATAAAATAAATATATTTTATTATTTTT
1 AAATAAAATAAATAGATTTGATCATACTT
*
1813469 AAATAATATAAATAGATTTGATCATACTT
1 AAATAAAATAAATAGATTTGATCATACTT
1813498 AAA
1 AAA
1813501 ACTTAATTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (29 bp):
AAATAAAATAAATAGATTTGATCATACTT
Found at i:1813782 original size:16 final size:16
Alignment explanation
Indices: 1813751--1813798 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
1813741 TGAACTCAAG
* *
1813751 ATAATTGAAATCTAAA
1 ATAATTTAAATTTAAA
*
1813767 ATGATTTAAATTTAAA
1 ATAATTTAAATTTAAA
1813783 ATAATTTAAATTTAAA
1 ATAATTTAAATTTAAA
1813799 GTTATTAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (16 bp):
ATAATTTAAATTTAAA
Found at i:1816171 original size:22 final size:22
Alignment explanation
Indices: 1816111--1816173 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
1816101 AAAATATTAT
* *
1816111 TTTTATATTAAT-ATTTATATA
1 TTTTATAATAATAATTTAAATA
*
1816132 TTTTATAATTA-AATTTAAATA
1 TTTTATAATAATAATTTAAATA
1816153 TTATTA-AATAATAATTTAAAT
1 TT-TTATAATAATAATTTAAAT
1816174 CAAATTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 23 0.66
22 12 0.34
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTTATAATAATAATTTAAATA
Found at i:1816330 original size:13 final size:12
Alignment explanation
Indices: 1816312--1816375 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 12
1816302 CTTTGAATAC
1816312 ATAAATATATTAT
1 ATAAAT-TATTAT
* *
1816325 ATAAATTTTTTAA
1 ATAAA-TTATTAT
1816338 ATTAAATTATTAT
1 A-TAAATTATTAT
1816351 AATAAATTA-TAT
1 -ATAAATTATTAT
1816363 A-AAATATATTAT
1 ATAAAT-TATTAT
1816375 A
1 A
1816376 AATTAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 4 0.10
11 3 0.07
12 7 0.17
13 22 0.52
14 6 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATAAATTATTAT
Found at i:1816365 original size:27 final size:26
Alignment explanation
Indices: 1816312--1816374 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
1816302 CTTTGAATAC
* *
1816312 ATAAATATATTATATAAATTTTTTAAA
1 ATAAAT-TATTATATAAATTATATAAA
*
1816339 TTAAATTATTATAATAAATTATATAAA
1 ATAAATTATTAT-ATAAATTATATAAA
*
1816366 ATATATTAT
1 ATAAATTAT
1816375 AAATTAAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 6 0.20
27 24 0.80
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
ATAAATTATTATATAAATTATATAAA
Found at i:1816524 original size:18 final size:17
Alignment explanation
Indices: 1816501--1816554 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 17
1816491 AAAATACATT
1816501 ATAAAAAATAATATAAAC
1 ATAAAAAAT-ATATAAAC
1816519 ATAAAACGAATATATAAAC
1 ATAAAA--AATATATAAAC
*
1816538 ATATCAAAATATATAAA
1 ATA-AAAAATATATAAA
1816555 AAATAATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 16 0.50
19 11 0.34
20 5 0.16
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (17 bp):
ATAAAAAATATATAAAC
Found at i:1816578 original size:31 final size:31
Alignment explanation
Indices: 1816527--1816596 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
1816517 ACATAAAACG
*
1816527 AATATATAAACATATCAAAATATATAAAAAAT
1 AATA-ATAAACATATAAAAATATATAAAAAAT
* * *
1816559 AATTAATAAA-ATATAAAAATTTATATAAATT
1 AA-TAATAAACATATAAAAATATATAAAAAAT
1816590 AATAATA
1 AATAATA
1816597 TTTTAAATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 5 0.15
31 19 0.58
32 7 0.21
33 2 0.06
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (31 bp):
AATAATAAACATATAAAAATATATAAAAAAT
Found at i:1819751 original size:2 final size:2
Alignment explanation
Indices: 1819744--1819776 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1819734 ATGGAACAAT
1819744 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1819777 ATTATATGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1821256 original size:22 final size:21
Alignment explanation
Indices: 1821231--1821289 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
1821221 GAATATGATC
*
1821231 TATTTATATTCATATTTAAAAT
1 TATTTAAATTCA-ATTTAAAAT
*
1821253 TATTTAAATTTAATTT-AAAT
1 TATTTAAATTCAATTTAAAAT
*
1821273 TAATTTTAACTTCAATT
1 T-A-TTTAAATTCAATT
1821290 AATCTGTAGC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 5 0.16
21 5 0.16
22 21 0.68
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTTAAATTCAATTTAAAAT
Found at i:1821437 original size:26 final size:28
Alignment explanation
Indices: 1821383--1821441 Score: 86
Period size: 26 Copynumber: 2.2 Consensus size: 28
1821373 TTAAATAGTA
1821383 AAATATTAAAAAAATTATTTTTATGATT
1 AAATATTAAAAAAATTATTTTTATGATT
* *
1821411 AAAT-TTAAATAAATT-TTTTTATTATT
1 AAATATTAAAAAAATTATTTTTATGATT
1821437 AAATA
1 AAATA
1821442 ATAATTAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 14 0.50
27 10 0.36
28 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
AAATATTAAAAAAATTATTTTTATGATT
Found at i:1824030 original size:11 final size:11
Alignment explanation
Indices: 1824014--1824069 Score: 53
Period size: 11 Copynumber: 5.2 Consensus size: 11
1824004 TTTTTTTAAG
1824014 TTAAATTAAAT
1 TTAAATTAAAT
1824025 TTAAATTAAAT
1 TTAAATTAAAT
* * *
1824036 AT-CATATAAAA
1 TTAAAT-TAAAT
1824047 TTAAATT-AAT
1 TTAAATTAAAT
*
1824057 TTGAATTAAAT
1 TTAAATTAAAT
1824068 TT
1 TT
1824070 TATCGATTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
10 10 0.29
11 23 0.66
12 2 0.06
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:1825985 original size:21 final size:22
Alignment explanation
Indices: 1825950--1825992 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
1825940 CTGAACCCAA
1825950 TTTAAAACTAAAATAATTTAAAT
1 TTTAAAAC-AAAATAATTTAAAT
1825973 TTTAAAA-AAAATAATTTAAA
1 TTTAAAACAAAATAATTTAAA
1825993 ATAATCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.65
23 7 0.35
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAACAAAATAATTTAAAT
Found at i:1831062 original size:2 final size:2
Alignment explanation
Indices: 1831055--1831079 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1831045 TTCCAATAAC
1831055 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1831080 TGCAAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1837295 original size:24 final size:24
Alignment explanation
Indices: 1837244--1837320 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 24
1837234 TTTATAAAGG
**
1837244 ATTTATATATTAATAA-ATTGTT-T
1 ATTTATAT-TTAATAATATAATTAT
1837267 A-TTATATTTAATAATATAATTAT
1 ATTTATATTTAATAATATAATTAT
*
1837290 ATTTAT-TTTGAAT-ATAAAATTAT
1 ATTTATATTT-AATAATATAATTAT
1837313 AATTTATA
1 -ATTTATA
1837321 AAGATAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
21 7 0.16
22 10 0.22
23 15 0.33
24 13 0.29
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (24 bp):
ATTTATATTTAATAATATAATTAT
Found at i:1837565 original size:2 final size:2
Alignment explanation
Indices: 1837558--1837591 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1837548 TGAGAGGGTT
1837558 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1837592 ATAATTAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1843862 original size:14 final size:14
Alignment explanation
Indices: 1843843--1843874 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
1843833 CAAAGGAAAG
1843843 CAAATACAGATTGA
1 CAAATACAGATTGA
1843857 CAAATACAGATTGA
1 CAAATACAGATTGA
1843871 CAAA
1 CAAA
1843875 GTTACACATA
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:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (14 bp):
CAAATACAGATTGA
Found at i:1847422 original size:16 final size:17
Alignment explanation
Indices: 1847389--1847424 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
1847379 ACACAAAATT
1847389 AAATAAAAAATAGTCATA
1 AAATAAAAAATAG-CATA
1847407 AAATAAAAAATA-CATA
1 AAATAAAAAATAGCATA
1847423 AA
1 AA
1847425 TTTGCGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
18 12 0.67
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (17 bp):
AAATAAAAAATAGCATA
Found at i:1848365 original size:2 final size:2
Alignment explanation
Indices: 1848358--1848404 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
1848348 CCTTTATATT
1848358 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1848400 TC TC T
1 TC TC T
1848405 ATGTATGTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1848427 original size:2 final size:2
Alignment explanation
Indices: 1848422--1848451 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1848412 TATTTATATA
*
1848422 TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1848452 CATATATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:1854499 original size:2 final size:2
Alignment explanation
Indices: 1854488--1854517 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1854478 TGATTATTGG
1854488 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1854518 TTTTTGGGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1859551 original size:19 final size:19
Alignment explanation
Indices: 1859508--1859559 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
1859498 TAACTATTTT
*
1859508 ATTAATTTAATAAAAAATTA
1 ATTAA-TTAATAAAAAAATA
1859528 A-TAATTAA-AAATAAAATA
1 ATTAATTAATAAA-AAAATA
1859546 ATTAATTTAATAAA
1 ATTAA-TTAATAAA
1859560 CTACTAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
17 3 0.11
18 10 0.37
19 6 0.22
20 5 0.19
21 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTAATTAATAAAAAAATA
Found at i:1859731 original size:33 final size:33
Alignment explanation
Indices: 1859674--1859751 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
1859664 GTCATTTAAT
* *
1859674 ATATTTATATTTTAATACATAAATAAT-AGATATAA
1 ATATTT-T-TTTTAATACACAAAT-ATCAAATATAA
*
1859709 ATATTTTTTTTAATATACAAATATCAAATATAA
1 ATATTTTTTTTAATACACAAATATCAAATATAA
*
1859742 ATATCTTTTT
1 ATATTTTTTT
1859752 AAAATCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 2 0.05
33 29 0.76
34 1 0.03
35 6 0.16
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.47
Consensus pattern (33 bp):
ATATTTTTTTTAATACACAAATATCAAATATAA
Found at i:1860848 original size:20 final size:21
Alignment explanation
Indices: 1860823--1860865 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1860813 TTATATTTTA
*
1860823 TTAAATA-TATTTTAAATATT
1 TTAAATATTAATTTAAATATT
*
1860843 TTAAATATTAATTTAATTATT
1 TTAAATATTAATTTAAATATT
1860864 TT
1 TT
1860866 GATTTATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAAATATTAATTTAAATATT
Found at i:1863802 original size:17 final size:17
Alignment explanation
Indices: 1863780--1863812 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1863770 AAATTATTTA
1863780 AATTC-AGCTTGTTCAAT
1 AATTCAAGC-TGTTCAAT
1863797 AATTCAAGCTGTTCAA
1 AATTCAAGCTGTTCAA
1863813 GCTTAAGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (17 bp):
AATTCAAGCTGTTCAAT
Found at i:1869907 original size:17 final size:17
Alignment explanation
Indices: 1869888--1869920 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1869878 ACAAAACACA
1869888 AAAAAAT-AATATAAAT
1 AAAAAATAAATATAAAT
*
1869904 AAAATATAAATATAAAT
1 AAAAAATAAATATAAAT
1869921 TTATAATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAAATAAATATAAAT
Found at i:1870313 original size:21 final size:22
Alignment explanation
Indices: 1870289--1870374 Score: 74
Period size: 21 Copynumber: 4.1 Consensus size: 22
1870279 AAAAGTTACA
*
1870289 AAAATTATTA-CAAAATTAAAT
1 AAAATAATTATCAAAATTAAAT
*
1870310 AAAA-AATTATCAAAATTATAT
1 AAAATAATTATCAAAATTAAAT
* *
1870331 AAAATAA-TATCAAGATTATAT
1 AAAATAATTATCAAAATTAAAT
* * *
1870352 CAAA-AATTA-AAAAATTATAT
1 AAAATAATTATCAAAATTAAAT
1870372 AAA
1 AAA
1870375 TGGTTACAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
20 17 0.31
21 36 0.65
22 2 0.04
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (22 bp):
AAAATAATTATCAAAATTAAAT
Found at i:1870353 original size:11 final size:11
Alignment explanation
Indices: 1870289--1870356 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 11
1870279 AAAAGTTACA
1870289 AAAATTAT-TAC
1 AAAATTATAT-C
* *
1870300 AAAATTAAATA
1 AAAATTATATC
*
1870311 AAAAAT-TATC
1 AAAATTATATC
1870321 AAAATTATAT-
1 AAAATTATATC
*
1870331 AAAATAATATC
1 AAAATTATATC
*
1870342 AAGATTATATC
1 AAAATTATATC
1870353 AAAA
1 AAAA
1870357 ATTAAAAAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
10 16 0.36
11 27 0.61
12 1 0.02
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (11 bp):
AAAATTATATC
Found at i:1870375 original size:9 final size:10
Alignment explanation
Indices: 1870244--1870374 Score: 54
Period size: 10 Copynumber: 12.6 Consensus size: 10
1870234 TTTATTTTGG
1870244 TATAAAATTA
1 TATAAAATTA
* *
1870254 TATTAAATAA
1 TATAAAATTA
* * *
1870264 GATTTAAATTT
1 TA-TAAAATTA
1870275 TACTAAAAGTTA
1 TA-TAAAA-TTA
*
1870287 CA-AAAATTA
1 TATAAAATTA
*
1870296 TTACAAAATTAAA
1 -TATAAAATT--A
*
1870309 TAAAAAATTA
1 TATAAAATTA
*
1870319 T-CAAAATTA
1 TATAAAATTA
*
1870328 TATAAAATAA
1 TATAAAATTA
*
1870338 TATCAAGATTA
1 TAT-AAAATTA
1870349 TATCAAAAATTA
1 TAT--AAAATTA
1870361 -A-AAAATTA
1 TATAAAATTA
1870369 TATAAA
1 TATAAA
1870375 TGGTTACAAG
Statistics
Matches: 91, Mismatches: 19, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
8 7 0.08
9 12 0.13
10 28 0.31
11 26 0.29
12 17 0.19
13 1 0.01
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (10 bp):
TATAAAATTA
Found at i:1872362 original size:16 final size:17
Alignment explanation
Indices: 1872337--1872373 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
1872327 GATTATGTAG
*
1872337 TTTATGAAATAA-TAAT
1 TTTATAAAATAATTAAT
1872353 TTTATAAAATAATTAAT
1 TTTATAAAATAATTAAT
1872370 TTTA
1 TTTA
1872374 ATTTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTATAAAATAATTAAT
Found at i:1872475 original size:20 final size:21
Alignment explanation
Indices: 1872452--1872492 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1872442 TAATATAAAA
1872452 TTATTT-TAAAAATTTAATTT
1 TTATTTATAAAAATTTAATTT
*
1872472 TTATTTATTAAAATTTAATTT
1 TTATTTATAAAAATTTAATTT
1872493 AATAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATTTATAAAAATTTAATTT
Found at i:1872501 original size:21 final size:21
Alignment explanation
Indices: 1872460--1872502 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1872450 AATTATTTTA
* *
1872460 AAAATTTAATTTTTATTTATT
1 AAAATTTAATTTATATATATT
1872481 AAAATTTAATTTA-ATAATATT
1 AAAATTTAATTTATAT-ATATT
1872502 A
1 A
1872503 TATTATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AAAATTTAATTTATATATATT
Found at i:1872546 original size:25 final size:25
Alignment explanation
Indices: 1872484--1872555 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 25
1872474 ATTTATTAAA
* * *
1872484 ATTTAATTTAATAATATTATATTAT
1 ATTTATTTTAATTATATTATACTAT
**
1872509 ATTTATTCAAATTATATTATAACTAT
1 ATTTATTTTAATTATATTAT-ACTAT
1872535 -TTTATTTTAATTTTATATTAT
1 ATTTATTTTAA--TTATATTAT
1872556 TTATATAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 24 0.65
26 4 0.11
27 9 0.24
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (25 bp):
ATTTATTTTAATTATATTATACTAT
Found at i:1872575 original size:38 final size:38
Alignment explanation
Indices: 1872521--1872596 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
1872511 TTATTCAAAT
* *
1872521 TATATTATAACTATTTTATTTTAATTTTATATTATTTA
1 TATAATATAACTATTTTATTATAATTTTATATTATTTA
* *
1872559 TATAATATAATTATTTTATTATAATTTTATTTTATTTA
1 TATAATATAACTATTTTATTATAATTTTATATTATTTA
1872597 AGTGATAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (38 bp):
TATAATATAACTATTTTATTATAATTTTATATTATTTA
Found at i:1872841 original size:4 final size:4
Alignment explanation
Indices: 1872832--1872858 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1872822 TTTTTTCTTG
1872832 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1872859 GAGATGGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:1872963 original size:17 final size:16
Alignment explanation
Indices: 1872941--1873039 Score: 71
Period size: 16 Copynumber: 6.2 Consensus size: 16
1872931 AATGTATATT
1872941 TAAAATATTATATTATA
1 TAAAAT-TTATATTATA
*
1872958 TAAAATTTA-ATAATA
1 TAAAATTTATATTATA
1872973 TTAATAATTTAT-TTATA
1 -TAA-AATTTATATTATA
*
1872990 T-AAATTTA-ATATATT
1 TAAAATTTATAT-TATA
* *
1873005 TTAAATTTTTATTATA
1 TAAAATTTATATTATA
***
1873021 TTTTATTTATATTATA
1 TAAAATTTATATTATA
1873037 TAA
1 TAA
1873040 TTATATTTAA
Statistics
Matches: 65, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
14 7 0.11
15 10 0.15
16 30 0.46
17 18 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAAAATTTATATTATA
Found at i:1872998 original size:31 final size:32
Alignment explanation
Indices: 1872935--1873021 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 32
1872925 ATTTTTAATG
1872935 TATATTTAAAATATTATATTATATAAAATTTAA
1 TATA-TTAAAATATTATATTATATAAAATTTAA
1872968 TAATATTAATAAT-TTAT-TTATAT-AAATTTAA
1 T-ATATTAA-AATATTATATTATATAAAATTTAA
* *
1872999 TATATTTTAAAT-TTTTATTATAT
1 TATA-TTAAAATATTATATTATAT
1873022 TTTATTTATA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
30 9 0.19
31 18 0.38
32 6 0.12
33 9 0.19
34 6 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
TATATTAAAATATTATATTATATAAAATTTAA
Found at i:1873045 original size:42 final size:43
Alignment explanation
Indices: 1872971--1873053 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 43
1872961 AATTTAATAA
* *
1872971 TATTAATAATTTATTTATATAAATTTAATATATTTTAAATTTT
1 TATTAATAATTTATTTATATAAATATAATATATTTAAAATTTT
* *
1873014 TATT-ATATTTTATTTATAT-TATATAATTATATTTAAAATT
1 TATTAATAATTTATTTATATAAATATAA-TATATTTAAAATT
1873054 ATTAAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 5 0.14
42 26 0.74
43 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (43 bp):
TATTAATAATTTATTTATATAAATATAATATATTTAAAATTTT
Found at i:1873073 original size:19 final size:19
Alignment explanation
Indices: 1873013--1873080 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 19
1873003 TTTTAAATTT
* * *
1873013 TTATTATATTTTATTTATA
1 TTATTAAATTTAATTAATA
* *
1873032 TTA-TATAATTATATTTAAAA
1 TTATTA-AATT-TAATTAATA
1873052 TTATTAAATTTAATTAATA
1 TTATTAAATTTAATTAATA
1873071 TTATTTAAAT
1 TTA-TTAAAT
1873081 AATTTTTAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
18 2 0.05
19 16 0.42
20 18 0.47
21 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATTAAATTTAATTAATA
Found at i:1877216 original size:21 final size:22
Alignment explanation
Indices: 1877177--1877359 Score: 113
Period size: 21 Copynumber: 8.7 Consensus size: 22
1877167 TGAAAGTTAC
*
1877177 TAAAATTATTA-CAAAAATTATA
1 TAAAATAATTATC-AAAATTATA
*
1877199 TAAAATAA-TACCAAAATTATA
1 TAAAATAATTATCAAAATTATA
* * * *
1877220 -ACAAGAATTA-AAAAAATATA
1 TAAAATAATTATCAAAATTATA
* ** *
1877240 TATTAAGGATTATCAAAATTTTA
1 TA-AAATAATTATCAAAATTATA
*
1877263 TAAAATGA-TA-CTAAAATTATA
1 TAAAATAATTATC-AAAATTATA
*
1877284 T-CAATAATTATCAAAATTATA
1 TAAAATAATTATCAAAATTATA
1877305 TAAAA-AATTATCAAAATTATA
1 TAAAATAATTATCAAAATTATA
*
1877326 GT-CAAT-ATTAT-AAAATTATA
1 -TAAAATAATTATCAAAATTATA
1877346 TTAAAAT--TTATCAA
1 -TAAAATAATTATCAA
1877360 TTATGAAAAC
Statistics
Matches: 129, Mismatches: 19, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
20 32 0.25
21 65 0.50
22 23 0.18
23 9 0.07
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (22 bp):
TAAAATAATTATCAAAATTATA
Found at i:1877258 original size:64 final size:63
Alignment explanation
Indices: 1877190--1877325 Score: 173
Period size: 64 Copynumber: 2.1 Consensus size: 63
1877180 AATTATTACA
* **
1877190 AAAATTATATAAAATAATACCAAAATTATAACAAGAATTAAAAAAATATATATTAAGGATTATC
1 AAAATTATATAAAATAATACCAAAATTATAACAAGAATTAAAAAAAT-TATATAAAAAATTATC
* * * * * **
1877254 AAAATTTTATAAAATGATACTAAAATTATATCAATAATTATCAAAATTATATAAAAAATTATC
1 AAAATTATATAAAATAATACCAAAATTATAACAAGAATTAAAAAAATTATATAAAAAATTATC
1877317 AAAATTATA
1 AAAATTATA
1877326 GTCAATATTA
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
63 21 0.34
64 40 0.66
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (63 bp):
AAAATTATATAAAATAATACCAAAATTATAACAAGAATTAAAAAAATTATATAAAAAATTATC
Found at i:1877294 original size:12 final size:11
Alignment explanation
Indices: 1877190--1877359 Score: 80
Period size: 10 Copynumber: 16.2 Consensus size: 11
1877180 AATTATTACA
1877190 AAAATTATAT-
1 AAAATTATATC
* *
1877200 AAAATAATACC
1 AAAATTATATC
*
1877211 AAAATTATAAC
1 AAAATTATATC
*
1877222 AAGAATTA-A-A
1 AA-AATTATATC
*
1877232 AAAATATATATT
1 AAAAT-TATATC
*
1877244 AAGGA-T-TATC
1 AA-AATTATATC
*
1877254 AAAATTTTAT-
1 AAAATTATATC
*
1877264 AAAATGATA-C
1 AAAATTATATC
1877274 TAAAATTATATC
1 -AAAATTATATC
1877286 AATAA-T-TATC
1 AA-AATTATATC
*
1877296 AAAATTATATA
1 AAAATTATATC
*
1877307 AAAAAT-TATC
1 AAAATTATATC
1877317 AAAATTATAGTC
1 AAAATTATA-TC
*
1877329 AATA-T-TAT-
1 AAAATTATATC
*
1877337 AAAATTATATT
1 AAAATTATATC
1877348 AAAATT-TATC
1 AAAATTATATC
1877358 AA
1 AA
1877360 TTATGAAAAC
Statistics
Matches: 122, Mismatches: 19, Indels: 38
0.68 0.11 0.21
Matches are distributed among these distances:
8 3 0.02
9 8 0.07
10 50 0.41
11 45 0.37
12 15 0.12
13 1 0.01
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.35
Consensus pattern (11 bp):
AAAATTATATC
Found at i:1877296 original size:42 final size:43
Alignment explanation
Indices: 1877248--1877359 Score: 130
Period size: 42 Copynumber: 2.7 Consensus size: 43
1877238 TATATTAAGG
* *
1877248 ATTATCAAAATTTTATAAAATGA-TA-CTAAAATTATA-TCAAT
1 ATTATCAAAATTATATAAAATAATTATC-AAAATTATAGTCAAT
1877289 AATTATCAAAATTATATAAAA-AATTATCAAAATTATAGTCAAT
1 -ATTATCAAAATTATATAAAATAATTATCAAAATTATAGTCAAT
1877332 ATTAT-AAAATTATATTAAAAT--TTATCAA
1 ATTATCAAAATTATA-TAAAATAATTATCAA
1877360 TTATGAAAAC
Statistics
Matches: 63, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
41 17 0.27
42 40 0.63
43 6 0.10
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (43 bp):
ATTATCAAAATTATATAAAATAATTATCAAAATTATAGTCAAT
Found at i:1880331 original size:16 final size:17
Alignment explanation
Indices: 1880310--1880345 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1880300 AATCATTTAA
1880310 TTTATAAAATAAT-AAT
1 TTTATAAAATAATAAAT
*
1880326 TTTATAAAATTATAAAT
1 TTTATAAAATAATAAAT
1880343 TTT
1 TTT
1880346 GATCATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTATAAAATAATAAAT
Found at i:1880456 original size:18 final size:18
Alignment explanation
Indices: 1880433--1880487 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
1880423 TAAAATAATT
1880433 TTAAAAATTTTAATTTTA
1 TTAAAAATTTTAATTTTA
* *
1880451 TTAAAAATTTAAATATTA
1 TTAAAAATTTTAATTTTA
*
1880469 -T-AATATTTT-ATTTTA
1 TTAAAAATTTTAATTTTA
1880484 TTAA
1 TTAA
1880488 TCTAAATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
15 5 0.17
16 7 0.23
17 2 0.07
18 16 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTAAAAATTTTAATTTTA
Found at i:1880902 original size:13 final size:13
Alignment explanation
Indices: 1880867--1880922 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 13
1880857 ATAAAAATAT
1880867 ATATATATTTATA
1 ATATATATTTATA
*
1880880 ATAT-TAATTTTTA
1 ATATAT-ATTTATA
1880893 ATATATATTTAAAGTA
1 ATATATATTT--A-TA
*
1880909 TTATATATTTATA
1 ATATATATTTATA
1880922 A
1 A
1880923 ATTTTAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
12 1 0.03
13 20 0.59
14 2 0.06
16 11 0.32
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (13 bp):
ATATATATTTATA
Found at i:1880903 original size:26 final size:26
Alignment explanation
Indices: 1880866--1880955 Score: 89
Period size: 26 Copynumber: 3.4 Consensus size: 26
1880856 GATAAAAATA
1880866 TATATATATTTATAATATTA-ATTTT
1 TATATATATTTATAATATTATATTTT
*
1880891 TAATATATATTTA-AAGTATTATATATT
1 T-ATATATATTTATAA-TATTATATTTT
*
1880918 TATAAAT-TTTAATAATATTATATATTT
1 TATATATATTT-ATAATATTATAT-TTT
1880945 T-TATTATATTT
1 TATA-TATATTT
1880956 TATTTTTATT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
25 6 0.11
26 32 0.60
27 12 0.23
28 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (26 bp):
TATATATATTTATAATATTATATTTT
Found at i:1880904 original size:18 final size:18
Alignment explanation
Indices: 1880883--1880970 Score: 60
Period size: 18 Copynumber: 4.9 Consensus size: 18
1880873 ATTTATAATA
1880883 TTAATTTTTAATATATAT
1 TTAATTTTTAATATATAT
* *
1880901 TTAAAGTATT-ATATAT-T
1 TT-AATTTTTAATATATAT
*
1880918 TATAAATTTTAATA-ATAT
1 T-TAATTTTTAATATATAT
1880936 TATATATTTTT-AT-TATAT
1 T-TA-ATTTTTAATATATAT
* *
1880954 TTTATTTTTATTATATA
1 TTAATTTTTAATATATA
1880971 ATTATATTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
16 6 0.11
17 11 0.20
18 28 0.51
19 10 0.18
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (18 bp):
TTAATTTTTAATATATAT
Found at i:1880951 original size:13 final size:13
Alignment explanation
Indices: 1880933--1880982 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
1880923 ATTTTAATAA
1880933 TATTATATATTTT
1 TATTATATATTTT
1880946 TATTATATTTTATTTT
1 TATTATA---TATTTT
* *
1880962 TATTATATAATTA
1 TATTATATATTTT
1880975 TATTATAT
1 TATTATAT
1880983 TTAAAATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 19 0.59
16 13 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATTATATATTTT
Found at i:1882049 original size:6 final size:6
Alignment explanation
Indices: 1882038--1882215 Score: 53
Period size: 6 Copynumber: 31.0 Consensus size: 6
1882028 GAGTGAATAC
* * * *
1882038 AATATA AATATA TATATA TATATA TATAT- GATATTA AA-A-A AATA-A
1 AATATA AATATA AATATA AATATA AATATA AATA-TA AATATA AATATA
**
1882083 AATAT- AATAT- AATATAA AATATA AATAT- TTTA-A AATATA TAATATA
1 AATATA AATATA AATAT-A AATATA AATATA AATATA AATATA -AATATA
* * * * *
1882129 AATTATT AAT-T- TATTTA AAT-T- TATATA AATATA TAATATTTT AATATA
1 AA-TATA AATATA AATATA AATATA AATATA AATATA -AATA--TA AATATA
* * * *
1882177 ATTAT- AATATA AAAAT- AATATT AATAT- AATATT AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA
1882216 TTAATTATAA
Statistics
Matches: 133, Mismatches: 19, Indels: 40
0.69 0.10 0.21
Matches are distributed among these distances:
4 7 0.05
5 40 0.30
6 60 0.45
7 21 0.16
8 4 0.03
9 1 0.01
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.43
Consensus pattern (6 bp):
AATATA
Found at i:1882101 original size:17 final size:17
Alignment explanation
Indices: 1882079--1882215 Score: 63
Period size: 17 Copynumber: 7.9 Consensus size: 17
1882069 TATTAAAAAA
1882079 ATAAAATATAATATAAT
1 ATAAAATATAATATAAT
1882096 ATAAAATATAA-AT-AT
1 ATAAAATATAATATAAT
* *
1882111 TTTAAA-AT-ATATAAT
1 ATAAAATATAATATAAT
* *
1882126 ATAAATTATTAAT-TTAT
1 ATAAAATA-TAATATAAT
*
1882143 TTAAATTTATATAAATATATAAT
1 ATAAA---ATAT--A-ATATAAT
**
1882166 ATTTTAATATAATTATAAT
1 A-TAAAATATAA-TATAAT
1882185 ATAAAA-ATAATATTAAT
1 ATAAAATATAATA-TAAT
*
1882202 ATAATAT-TAATATA
1 ATAAAATATAATATA
1882216 TTAATTATAA
Statistics
Matches: 89, Mismatches: 15, Indels: 33
0.65 0.11 0.24
Matches are distributed among these distances:
13 1 0.01
14 4 0.04
15 11 0.12
16 7 0.08
17 37 0.42
18 6 0.07
19 9 0.10
20 2 0.02
21 5 0.06
22 2 0.02
23 3 0.03
24 2 0.02
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATATAATATAAT
Done.