Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 39 of 100
Found at i:10230268 original size:2 final size:2
Alignment explanation
Indices: 10230263--10230294 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
10230253 ATTATCAGTG
10230263 TA TA TA TA TA TA -A TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10230295 CGATATGTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10230279 original size:13 final size:13
Alignment explanation
Indices: 10230263--10230294 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10230253 ATTATCAGTG
10230263 TATATATATATAA
1 TATATATATATAA
*
10230276 TATATATATATAT
1 TATATATATATAA
10230289 TATATA
1 TATATA
10230295 CGATATGTGA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TATATATATATAA
Found at i:10230281 original size:15 final size:15
Alignment explanation
Indices: 10230263--10230294 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10230253 ATTATCAGTG
10230263 TATATATATATAATA
1 TATATATATATAATA
*
10230278 TATATATATATTATA
1 TATATATATATAATA
10230293 TA
1 TA
10230295 CGATATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATATATATAATA
Found at i:10233158 original size:13 final size:13
Alignment explanation
Indices: 10233140--10233165 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10233130 AATTTAATAA
10233140 TTTACTATACAAT
1 TTTACTATACAAT
10233153 TTTACTATACAAT
1 TTTACTATACAAT
10233166 AAATAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTACTATACAAT
Found at i:10233394 original size:17 final size:17
Alignment explanation
Indices: 10233372--10233406 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10233362 TCACAAGAGT
10233372 TAAGATAACTTAGGTAA
1 TAAGATAACTTAGGTAA
* *
10233389 TAAGATCACTTTGGTAA
1 TAAGATAACTTAGGTAA
10233406 T
1 T
10233407 TACATTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (17 bp):
TAAGATAACTTAGGTAA
Found at i:10239180 original size:28 final size:26
Alignment explanation
Indices: 10239128--10239188 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 26
10239118 TTATTATTGA
10239128 TAAAAATGATCTTAATTTTAATTTT-
1 TAAAAATGATCTTAATTTTAATTTTG
**
10239153 TAAAAATGATTCTATTAATTTTTTTTTTG
1 TAAAAATGA-TC--TTAATTTTAATTTTG
10239182 TAAAAAT
1 TAAAAAT
10239189 CCTTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 9 0.30
26 2 0.07
28 12 0.40
29 7 0.23
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.52
Consensus pattern (26 bp):
TAAAAATGATCTTAATTTTAATTTTG
Found at i:10241623 original size:19 final size:19
Alignment explanation
Indices: 10241599--10241651 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
10241589 GATAACTTTT
10241599 AATTAA-CTAAAAATAATCA
1 AATTAACCT-AAAATAATCA
*
10241618 AATTAATCCTAAAGTAATCA
1 AATTAA-CCTAAAATAATCA
10241638 AATTAATCCTAAAA
1 AATTAA-CCTAAAA
10241652 ACAATGAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 6 0.20
20 22 0.73
21 2 0.07
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (19 bp):
AATTAACCTAAAATAATCA
Found at i:10241637 original size:20 final size:20
Alignment explanation
Indices: 10241612--10241650 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
10241602 TAACTAAAAA
10241612 TAATCAAATTAATCCTAAAG
1 TAATCAAATTAATCCTAAAG
10241632 TAATCAAATTAATCCTAAA
1 TAATCAAATTAATCCTAAA
10241651 AACAATGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (20 bp):
TAATCAAATTAATCCTAAAG
Found at i:10242186 original size:18 final size:18
Alignment explanation
Indices: 10242165--10242203 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
10242155 TTTTTTTTCA
10242165 TTTTTAAATTTTTTAGTT
1 TTTTTAAATTTTTTAGTT
* *
10242183 TTTTTCATTTTTTTAGTT
1 TTTTTAAATTTTTTAGTT
10242201 TTT
1 TTT
10242204 AGTTTTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTTTAAATTTTTTAGTT
Found at i:10242202 original size:25 final size:25
Alignment explanation
Indices: 10242156--10242210 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
10242146 TTTTTTTTTT
*
10242156 TTTTTTTCATTTTTAAATTTTTTAG
1 TTTTTTTCATTTTTAAAGTTTTTAG
**
10242181 TTTTTTTCATTTTTTTAGTTTTTAG
1 TTTTTTTCATTTTTAAAGTTTTTAG
10242206 TTTTT
1 TTTTT
10242211 CATTTTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.15, C:0.04, G:0.05, T:0.76
Consensus pattern (25 bp):
TTTTTTTCATTTTTAAAGTTTTTAG
Found at i:10242229 original size:25 final size:24
Alignment explanation
Indices: 10242146--10242216 Score: 78
Period size: 25 Copynumber: 3.1 Consensus size: 24
10242136 GTTTGTTAGC
10242146 TTTTT-TTTTTT--TTTTTTCATT
1 TTTTTATTTTTTAGTTTTTTCATT
**
10242167 TTTAAATTTTTTAGTTTTTTTCATT
1 TTTTTATTTTTTAG-TTTTTTCATT
*
10242192 TTTTTAGTTTTTAG-TTTTTCATT
1 TTTTTATTTTTTAGTTTTTTCATT
10242215 TT
1 TT
10242217 CATTTTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
21 3 0.07
22 6 0.15
23 11 0.27
25 21 0.51
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTTTATTTTTTAGTTTTTTCATT
Found at i:10248651 original size:38 final size:38
Alignment explanation
Indices: 10248472--10248751 Score: 253
Period size: 38 Copynumber: 7.3 Consensus size: 38
10248462 TATTGTTAAT
* * * *
10248472 ATGTGCATTAGATGGAATACATGTAAC-ATTTCATTATG
1 ATGTGCATGAAATGGAATGCATGT-ACTATCTCATTATG
* * * * * *
10248510 ATGTGCATAAAATGAAATACATTTATTATCT-ATTAAG
1 ATGTGCATGAAATGGAATGCATGTACTATCTCATTATG
** * *
10248547 ATGCACATGAGATGGAATGCATGTACTATCTTATTATG
1 ATGTGCATGAAATGGAATGCATGTACTATCTCATTATG
10248585 ATGTGCATGAAAATGGAATGCATGTACTATCTCATTATG
1 ATGTGCATG-AAATGGAATGCATGTACTATCTCATTATG
* * *
10248624 ATGTGCATGAGATAGAATGCATATACTATCTCATTATG
1 ATGTGCATGAAATGGAATGCATGTACTATCTCATTATG
* * *
10248662 ATGTTCATGAAATGGAATGCATGTATTATCT-ATTAAG
1 ATGTGCATGAAATGGAATGCATGTACTATCTCATTATG
* * * * *
10248699 ATGCGTGCAT-AATTTGATGTGCATGTACTATCTTATTAGG
1 AT--GTGCATGAAATGGA-ATGCATGTACTATCTCATTATG
*
10248739 ATGTACATGAAAT
1 ATGTGCATGAAAT
10248752 AAGATTGATG
Statistics
Matches: 197, Mismatches: 37, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
37 36 0.18
38 97 0.49
39 57 0.29
40 7 0.04
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (38 bp):
ATGTGCATGAAATGGAATGCATGTACTATCTCATTATG
Found at i:10248651 original size:77 final size:76
Alignment explanation
Indices: 10248467--10248750 Score: 292
Period size: 77 Copynumber: 3.7 Consensus size: 76
10248457 GACACTATTG
* * * * * *
10248467 TTAATATGTGCATTAGATGGAATACATGTAAC-AT-TTCATTATGATGTGCAT-AAAATGAAATA
1 TTAAGATGTGCATGAGATAGAATGCATGT-ACTATCTT-ATTATGATGTGCATGAAAATGGAATG
*
10248529 CATTTATTATCTA
64 CATGTATTATCTA
** *
10248542 TTAAGATGCACATGAGATGGAATGCATGTACTATCTTATTATGATGTGCATGAAAATGGAATGCA
1 TTAAGATGTGCATGAGATAGAATGCATGTACTATCTTATTATGATGTGCATGAAAATGGAATGCA
*
10248607 TGTACTATCTCA
66 TGTATTATCT-A
* * * *
10248619 TTATGATGTGCATGAGATAGAATGCATATACTATCTCATTATGATGTTCATG-AAATGGAATGCA
1 TTAAGATGTGCATGAGATAGAATGCATGTACTATCTTATTATGATGTGCATGAAAATGGAATGCA
10248683 TGTATTATCTA
66 TGTATTATCTA
* * * *
10248694 TTAAGATGCGTGCAT-A-ATTTGATGTGCATGTACTATCTTATTAGGATGTACATGAAA
1 TTAAGAT--GTGCATGAGA-TAGA-ATGCATGTACTATCTTATTATGATGTGCATGAAA
10248751 TAAGATTGAT
Statistics
Matches: 176, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
74 2 0.01
75 48 0.27
76 46 0.26
77 78 0.44
78 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (76 bp):
TTAAGATGTGCATGAGATAGAATGCATGTACTATCTTATTATGATGTGCATGAAAATGGAATGCA
TGTATTATCTA
Found at i:10248724 original size:115 final size:113
Alignment explanation
Indices: 10248467--10248751 Score: 281
Period size: 115 Copynumber: 2.5 Consensus size: 113
10248457 GACACTATTG
* * * * * *
10248467 TTAATATGTGCATTAGATGGAATACATGTAAC-ATTTCATTATGATGTGCATAAAATGAAATACA
1 TTAAGATGTGCATAAAATGGAATGCATGT-ACTATCTCATTATGATGTGCATGAAATGAAATACA
* * *
10248531 TTTATTATCTATTAAGATGCACATGAGATGGAATGCATGTACTATCTTA
65 TATACTATCTATTAAGATGCACATGAAATGGAATGCATGTACTATCTTA
* * *
10248580 TTATGATGTGCATGAAAATGGAATGCATGTACTATCTCATTATGATGTGCATGAGAT-AGAATGC
1 TTAAGATGTGCAT-AAAATGGAATGCATGTACTATCTCATTATGATGTGCATGAAATGA-AATAC
* ** *
10248644 ATATACTATCTCATTATGATGTTCATGAAATGGAATGCATGTATTATC-TA
64 ATATACTATCT-ATTAAGATGCACATGAAATGGAATGCATGTACTATCTTA
* * * * * *
10248694 TTAAGATGCGTGCAT-AATTTGATGTGCATGTACTATCTTATTAGGATGTACATGAAAT
1 TTAAGAT--GTGCATAAAATGGA-ATGCATGTACTATCTCATTATGATGTGCATGAAAT
10248752 AAGATTGATG
Statistics
Matches: 141, Mismatches: 24, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
113 14 0.10
114 60 0.43
115 61 0.43
116 6 0.04
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (113 bp):
TTAAGATGTGCATAAAATGGAATGCATGTACTATCTCATTATGATGTGCATGAAATGAAATACAT
ATACTATCTATTAAGATGCACATGAAATGGAATGCATGTACTATCTTA
Found at i:10248875 original size:11 final size:12
Alignment explanation
Indices: 10248852--10248880 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
10248842 ACATTCAAAC
10248852 TTAAAATTTTTT
1 TTAAAATTTTTT
10248864 TTAAAA-TTTTT
1 TTAAAATTTTTT
10248875 TTAAAA
1 TTAAAA
10248881 AGAGAAAAAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAAATTTTTT
Found at i:10252664 original size:20 final size:20
Alignment explanation
Indices: 10252636--10252680 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10252626 TTTTAATTAA
*
10252636 CTAAAGTAATCAAATTAATT
1 CTAAAGTAATCAAATTAATC
* *
10252656 CTAATGTAATTAAATTAATC
1 CTAAAGTAATCAAATTAATC
10252676 CTAAA
1 CTAAA
10252681 AACAATGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (20 bp):
CTAAAGTAATCAAATTAATC
Found at i:10254790 original size:29 final size:30
Alignment explanation
Indices: 10254744--10254833 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 30
10254734 TTTATTATTT
*
10254744 TATTTAGAT-AAATATTTATATTTTTA-CTA
1 TATTTAAATAAAAT-TTTATATTTTTATCTA
* * *
10254773 TATTTAAATAAAATTTTAAATTTTAATTTA
1 TATTTAAATAAAATTTTATATTTTTATCTA
* * *
10254803 TATTCAAATAAATTTTTAT-TTTTTATTTA
1 TATTTAAATAAAATTTTATATTTTTATCTA
10254832 TA
1 TA
10254834 CCTAAAGAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
29 29 0.57
30 22 0.43
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (30 bp):
TATTTAAATAAAATTTTATATTTTTATCTA
Found at i:10255555 original size:3 final size:3
Alignment explanation
Indices: 10255547--10255597 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
10255537 ATATCTTCTG
10255547 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10255595 TAA
1 TAA
10255598 AACTCAAGCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10258023 original size:20 final size:20
Alignment explanation
Indices: 10257986--10258023 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10257976 TTTTAATATT
*
10257986 ATTTTTATTTAAATAATTAC
1 ATTTTTATATAAATAATTAC
10258006 ATTTTTATAATAAA-AATT
1 ATTTTTAT-ATAAATAATT
10258024 TATTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTTATATAAATAATTAC
Found at i:10261754 original size:2 final size:2
Alignment explanation
Indices: 10261749--10261785 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
10261739 TCTCTCTCTC
*
10261749 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10261786 TTTTGTTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10263918 original size:23 final size:23
Alignment explanation
Indices: 10263892--10263952 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
10263882 ACAAAACAAG
* *
10263892 AAAAAAAGAAAAAACCATTAA-A
1 AAAAAAACAAAAAACAATTAATA
*
10263914 CAAAAAATACAAAAAATAATTAATA
1 -AAAAAA-ACAAAAAACAATTAATA
10263939 AAAAAAACAAAAAA
1 AAAAAAACAAAAAA
10263953 AGTAAAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 14 0.42
24 18 0.55
25 1 0.03
ACGTcount: A:0.79, C:0.08, G:0.02, T:0.11
Consensus pattern (23 bp):
AAAAAAACAAAAAACAATTAATA
Found at i:10263919 original size:24 final size:23
Alignment explanation
Indices: 10263873--10263952 Score: 74
Period size: 23 Copynumber: 3.4 Consensus size: 23
10263863 ATTAAATATT
10263873 AAACAAAAAACAA--AACAAGAAAA
1 AAACAAAAAACAATTAAC-A-AAAA
* *
10263896 AAAGAAAAAACCATTAAACAAAAA
1 AAACAAAAAACAATT-AACAAAAA
* * *
10263920 ATACAAAAAATAATTAATAAAAA
1 AAACAAAAAACAATTAACAAAAA
10263943 AAACAAAAAA
1 AAACAAAAAA
10263953 AGTAAAAAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
23 27 0.59
24 15 0.33
25 1 0.02
26 3 0.07
ACGTcount: A:0.79, C:0.10, G:0.03, T:0.09
Consensus pattern (23 bp):
AAACAAAAAACAATTAACAAAAA
Found at i:10266505 original size:27 final size:27
Alignment explanation
Indices: 10266467--10266521 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
10266457 AAGCCTTTCT
10266467 TTAGCTTCTAATGCTAAAAATAATGGA
1 TTAGCTTCTAATGCTAAAAATAATGGA
10266494 TTAGCTTCTAATGCTAAAAATAATGGA
1 TTAGCTTCTAATGCTAAAAATAATGGA
10266521 T
1 T
10266522 CTTCGCCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (27 bp):
TTAGCTTCTAATGCTAAAAATAATGGA
Found at i:10270356 original size:20 final size:20
Alignment explanation
Indices: 10270297--10270357 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
10270287 TTACTTTAAT
10270297 TTTATTTTAAGATTTATTTATA
1 TTTA-TTTAAGATTT-TTTATA
* * * *
10270319 TTTGTTTGAG-TTCGTTTATG
1 TTTATTTAAGATT-TTTTATA
10270339 TTTATTTAAGATTTTTTAT
1 TTTATTTAAGATTTTTTAT
10270358 TTAAATTTGT
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 20 0.67
21 7 0.23
22 3 0.10
ACGTcount: A:0.23, C:0.02, G:0.11, T:0.64
Consensus pattern (20 bp):
TTTATTTAAGATTTTTTATA
Found at i:10270358 original size:14 final size:15
Alignment explanation
Indices: 10270339--10270387 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
10270329 TTCGTTTATG
10270339 TTTATTTAAGATTT-
1 TTTATTTAAGATTTA
*
10270353 TTTATTTAA-ATTTG
1 TTTATTTAAGATTTA
*
10270367 TTTGA-TTATGATTTA
1 TTT-ATTTAAGATTTA
10270382 TTTATT
1 TTTATT
10270388 ATTCATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 4 0.14
14 16 0.55
15 9 0.31
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (15 bp):
TTTATTTAAGATTTA
Found at i:10270517 original size:26 final size:26
Alignment explanation
Indices: 10270436--10270517 Score: 60
Period size: 26 Copynumber: 3.1 Consensus size: 26
10270426 TTTACAAATA
*
10270436 AATTTATTTATTTTAATTAAATAAACAT
1 AATTTA-TTA-TTTAAATAAATAAACAT
* * ** *
10270464 AAATTA-AATACAAATTAAATACGA-AT
1 AATTTATTATTTAAA-TAAATA-AACAT
10270490 AATTTATTATTTAAATAAATAAACAT
1 AATTTATTATTTAAATAAATAAACAT
10270516 AA
1 AA
10270518 ACGAATATAA
Statistics
Matches: 39, Mismatches: 11, Indels: 10
0.65 0.18 0.17
Matches are distributed among these distances:
25 4 0.10
26 24 0.62
27 6 0.15
28 5 0.13
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (26 bp):
AATTTATTATTTAAATAAATAAACAT
Found at i:10281710 original size:69 final size:67
Alignment explanation
Indices: 10281513--10281716 Score: 166
Period size: 69 Copynumber: 3.0 Consensus size: 67
10281503 TTGATTGTTT
10281513 TTTTTTAATTAATCTTAATTTATTTGTAAGGGTTAGCTTA-GGGACATTTGTCAATTTATGATTG
1 TTTTTTAATTAATCTTAATTTATTTG-AAGGGTTAGCTTATGGG-CATTTGTCAATTTATGATTG
10281577 ATAG
64 ATAG
* * ** * ** * * * *
10281581 TGTTTTTAATTAGTCCTCTTTTATTT--A--TTTATAATTAATTGACATTTGTTAATTTGTGATT
1 T-TTTTTAATTAATCTTAATTTATTTGAAGGGTTA-GCTT-ATGGGCATTTGTCAATTTATGATT
* *
10281642 GCTTG
63 GATAG
* *
10281647 ATTTTTTAATTAATCTTAATTTCTTTGAAAGGGTTAGCTTATGGGCATTTGTCAATTTTTGATTG
1 -TTTTTTAATTAATCTTAATTTATTTG-AAGGGTTAGCTTATGGGCATTTGTCAATTTATGATTG
*
10281712 GTAG
64 ATAG
10281716 T
1 T
10281717 CCTCATTTAT
Statistics
Matches: 99, Mismatches: 27, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
64 3 0.03
65 2 0.02
66 41 0.41
67 2 0.02
68 2 0.02
69 44 0.44
70 2 0.02
71 3 0.03
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.52
Consensus pattern (67 bp):
TTTTTTAATTAATCTTAATTTATTTGAAGGGTTAGCTTATGGGCATTTGTCAATTTATGATTGAT
AG
Found at i:10289746 original size:17 final size:18
Alignment explanation
Indices: 10289720--10289757 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
10289710 TATATATTTA
*
10289720 TTAGACAATTGAT-ATAT
1 TTAGAAAATTGATAATAT
*
10289737 TTAGAAAATTTATAATAT
1 TTAGAAAATTGATAATAT
10289755 TTA
1 TTA
10289758 ATTAATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (18 bp):
TTAGAAAATTGATAATAT
Found at i:10290533 original size:16 final size:15
Alignment explanation
Indices: 10290479--10290534 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 15
10290469 ACAACTCAGA
10290479 AACTAAAATAAACTTG
1 AACTAAAAT-AACTTG
* *
10290495 AA-TGAAATAATTTG
1 AACTAAAATAACTTG
10290509 AAACTAAAATAACTTG
1 -AACTAAAATAACTTG
10290525 AACTCAAAAT
1 AACT-AAAAT
10290535 TATCTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 5 0.15
15 11 0.33
16 17 0.52
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.27
Consensus pattern (15 bp):
AACTAAAATAACTTG
Found at i:10291593 original size:144 final size:145
Alignment explanation
Indices: 10291014--10291593 Score: 1047
Period size: 145 Copynumber: 4.0 Consensus size: 145
10291004 AATCACAAAA
* *
10291014 TCGTTCATGGGGCGTGAAGACAACAAATATGTTGCTT-GATGAGAATTTGGTGGCTAAGATGTCG
1 TCGTTCATGGGGCGTGAAGACAACAAATATGTTG-TTCGATGAGAATTTGGTGGCTAAGGTTTCG
*
10291078 GATTTTGGGTTGTCTAGAATAGGCGTCACGAACATGTCCAAGGCCCATGTTAGCACCTTAGTGAA
65 GATTTTGGGTTGTCTAGAATAGGCGTCACGAACATGTCCAAGGCCCATGTTAGCACCGTAGTGAA
10291143 AGGCAGCTTTGGGTAT
130 AGGCAGCTTTGGGTAT
* *
10291159 TCGTTCATGGGGCGTGAAGACAACAAATATGTTGTTCGGTGAGAGTTTGGTGGCTAAGGTTTCGG
1 TCGTTCATGGGGCGTGAAGACAACAAATATGTTGTTCGATGAGAATTTGGTGGCTAAGGTTTCGG
*
10291224 ATTTTGGGTTGTCTAGAATAGGCGTCACGAAGATGTCCAAGGCCCATGTTAGCACCGTAGTGAAA
66 ATTTTGGGTTGTCTAGAATAGGCGTCACGAACATGTCCAAGGCCCATGTTAGCACCGTAGTGAAA
10291289 GGCAGCTTTGGGTAT
131 GGCAGCTTTGGGTAT
*
10291304 TCGTTCTTGGGGCGTGAAGACAACAAATATGTTGTTCGATGAGAATTTGGTGGCTAAGGTTTCGG
1 TCGTTCATGGGGCGTGAAGACAACAAATATGTTGTTCGATGAGAATTTGGTGGCTAAGGTTTCGG
*
10291369 ATTTTGGGTTGTCTAGAATAGGCGTCACGAAGATGTCCAAGGCCCATGTTAGCACCGTAGTGAAA
66 ATTTTGGGTTGTCTAGAATAGGCGTCACGAACATGTCCAAGGCCCATGTTAGCACCGTAGTGAAA
10291434 GGCAGCTTTGGGTAT
131 GGCAGCTTTGGGTAT
*
10291449 TCGTTCATGGTGCGTGAAGACAACAAAT-TGTTGTTCGATGAGAATTTGGTGGCTAAGGTTTCGG
1 TCGTTCATGGGGCGTGAAGACAACAAATATGTTGTTCGATGAGAATTTGGTGGCTAAGGTTTCGG
*
10291513 CTTTTGGGTTGTCTAGAATAGGCGTCACGAACATGTCCAAGGCCCATGTTAGCACCGTAGTGAAA
66 ATTTTGGGTTGTCTAGAATAGGCGTCACGAACATGTCCAAGGCCCATGTTAGCACCGTAGTGAAA
10291578 GGCAGCTTTGGGTAT
131 GGCAGCTTTGGGTAT
10291593 T
1 T
10291594 AGGATCCAGA
Statistics
Matches: 421, Mismatches: 13, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
144 117 0.28
145 304 0.72
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (145 bp):
TCGTTCATGGGGCGTGAAGACAACAAATATGTTGTTCGATGAGAATTTGGTGGCTAAGGTTTCGG
ATTTTGGGTTGTCTAGAATAGGCGTCACGAACATGTCCAAGGCCCATGTTAGCACCGTAGTGAAA
GGCAGCTTTGGGTAT
Found at i:10293620 original size:32 final size:32
Alignment explanation
Indices: 10293584--10293681 Score: 93
Period size: 32 Copynumber: 3.2 Consensus size: 32
10293574 GCTTTTCCTT
10293584 AAAAATATTTTTTAACAATTTTATTTTCAAGG
1 AAAAATATTTTTTAACAATTTTATTTTCAAGG
* **
10293616 AAAAATTTATACTTTTAAC--TTTT-TCCTC----
1 AAAAA--TAT-TTTTTAACAATTTTATTTTCAAGG
10293644 AAAAATATTTTTTAACAATTTTATTTTCAAGG
1 AAAAATATTTTTTAACAATTTTATTTTCAAGG
10293676 AAAAAT
1 AAAAAT
10293682 TGATACTTTC
Statistics
Matches: 50, Mismatches: 6, Indels: 20
0.66 0.08 0.26
Matches are distributed among these distances:
25 7 0.14
26 3 0.06
27 4 0.08
28 8 0.16
32 14 0.28
33 4 0.08
34 3 0.06
35 7 0.14
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (32 bp):
AAAAATATTTTTTAACAATTTTATTTTCAAGG
Found at i:10293649 original size:60 final size:58
Alignment explanation
Indices: 10293437--10293845 Score: 395
Period size: 58 Copynumber: 6.9 Consensus size: 58
10293427 TTCGTTTTAA
* * *
10293437 GAAAAATT-AGTACTTTCAACTTTTCCTCAAAATGTTTTTTTTTTTGAAATTTTAATTTT-AA-
1 GAAAAATTGA-TACTTTCAACTTTTCCTCAAAA----ATATTTTTTAAAATTTT-ATTTTCAAG
* * * * *
10293498 GAAAAATTGATACTTTCAACATTTCCTTAAAAATATCTTTTAGAAATTTTAATTT-AAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTA-AAATTTTATTTTCAAG
* * * *
10293556 AAAAAATTGATATTTTCAGCTTTTCCTTAAAAATATTTTTTAACAATTTTATTTTCAAG
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAA-AATTTTATTTTCAAG
* *
10293615 GAAAAATTTATACTTTTAACTTTTTCCTCAAAAATATTTTTTAACAATTTTATTTTCAAG
1 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTAA-AATTTTATTTTCAAG
*
10293675 GAAAAATTGATACTTTCAATCTTTTCCTCAAAAA-ATTTTTTAGAAATCTTTATCTTCAA-
1 GAAAAATTGATACTTTCAA-CTTTTCCTCAAAAATATTTTTTA-AAAT-TTTATTTTCAAG
* * * *
10293734 -AAGAAATTGATATTTTCAACTTTCCCTCAAAAAATATTTTTTGAAATTTTTTTTTCAAG
1 GAA-AAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTAAAATTTTATTTTCAAG
* * ** *
10293793 G-AAAATTGATACTTTCAAC-TTTCCCCCAAAATGCTTTTGAAAATTTTTATTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAA-TTTTATTTT
10293846 AGAAATTTTA
Statistics
Matches: 296, Mismatches: 37, Indels: 34
0.81 0.10 0.09
Matches are distributed among these distances:
56 12 0.04
57 26 0.09
58 89 0.30
59 53 0.18
60 86 0.29
61 29 0.10
62 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAATTTTATTTTCAAG
Found at i:10293673 original size:28 final size:28
Alignment explanation
Indices: 10293584--10293673 Score: 69
Period size: 28 Copynumber: 3.1 Consensus size: 28
10293574 GCTTTTCCTT
10293584 AAAAATATTTTTTAACAATTTTATTTTC
1 AAAAATATTTTTTAACAATTTTATTTTC
* **
10293612 AAGGAAAAATTTATACTTTTAAC--TTTT-TCCTC
1 ----AAAAA--TAT-TTTTTAACAATTTTATTTTC
10293644 AAAAATATTTTTTAACAATTTTATTTTC
1 AAAAATATTTTTTAACAATTTTATTTTC
10293672 AA
1 AA
10293674 GGAAAAATTG
Statistics
Matches: 46, Mismatches: 6, Indels: 16
0.68 0.09 0.24
Matches are distributed among these distances:
25 7 0.15
26 3 0.07
27 4 0.09
28 10 0.22
32 8 0.17
33 4 0.09
34 3 0.07
35 7 0.15
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (28 bp):
AAAAATATTTTTTAACAATTTTATTTTC
Found at i:10294057 original size:18 final size:17
Alignment explanation
Indices: 10294034--10294068 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
10294024 AAAATCATTG
10294034 AAAAATAATAATAAAAAT
1 AAAAATAATAA-AAAAAT
10294052 AAAAATAATAAAAAAAT
1 AAAAATAATAAAAAAAT
10294069 CAAAGGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAATAATAAAAAAAT
Found at i:10294106 original size:3 final size:3
Alignment explanation
Indices: 10294098--10294123 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10294088 TTAATTTAGA
10294098 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
10294124 ATAAATAAAT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10295343 original size:44 final size:43
Alignment explanation
Indices: 10295184--10295548 Score: 333
Period size: 44 Copynumber: 8.4 Consensus size: 43
10295174 CTTTTTAGAG
* * * ** *
10295184 AATAAACAAAACTCTTCTAAACAGAGGCTCAATGACTTTTTAAAA
1 AATAAACAAAGCTCCTCTAATCAGAGGCTCAACAAC--TTTGAAA
* * **
10295229 AATAAACAAAGCTCCTCTAATCAGAGACTCAATGATTTTTTGAAA
1 AATAAACAAAGCTCCTCTAATCAGAGGCTCAA-CA-ACTTTGAAA
** * * *
10295274 AATAAACAAAGCTATTTTAACCAGAGGCTCAATAACTTTGAAAA
1 AATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACTTTG-AAA
* **
10295318 AATAAACAAAGCTCCTATAATCAGAGGCTCAATGACTTTTGAAA
1 AATAAACAAAGCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAA
* * * *
10295362 GATAAACAAAGCTCCTCTAATAAGAGACTCAACGACTTTTG---
1 AATAAACAAAGCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAA
* * * * *
10295403 GA-AAACAAAGCTTCTCTAAACAGAGGCTCAACGATTTTGGAAA
1 AATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACTTT-GAAA
* * *
10295446 AATAAACAAAGCTCTTCTAATAAGAGGCTCAACAACTTCGAAAA
1 AATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACTTTG-AAA
* *
10295490 AATAAACAAAGCTCCTCTAATCAGAGGTTCAACAACTTTGGAA
1 AATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAA
10295533 AATAAACAAAGCTCCT
1 AATAAACAAAGCTCCT
10295549 TGACAATCAT
Statistics
Matches: 265, Mismatches: 45, Indels: 22
0.80 0.14 0.07
Matches are distributed among these distances:
39 3 0.01
40 29 0.11
41 2 0.01
43 24 0.09
44 142 0.54
45 65 0.25
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (43 bp):
AATAAACAAAGCTCCTCTAATCAGAGGCTCAACAACTTTGAAA
Found at i:10295451 original size:84 final size:85
Alignment explanation
Indices: 10295228--10295548 Score: 317
Period size: 84 Copynumber: 3.7 Consensus size: 85
10295218 ACTTTTTAAA
* * * ** *
10295228 AAATAAACAAAGCTCCTCTAATCAGAGACTCAATGATTTTTTGAAAAATAAACAAAGCTATTTTA
1 AAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGA-TTTTGGAAAAATAAACAAAGCTCCTCTA
** * * *
10295293 ACCAGAGGCTCAATAACTTTG
65 ATAAGAGACTCAACAACTTCG
* * *
10295314 AAAAAATAAACAAAGCTCCTATAATCAGAGGCTCAATGACTTTT-GAAAGATAAACAAAGCTCCT
1 ---AAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGA-TTTTGGAAAAATAAACAAAGCTCCT
* *
10295378 CTAATAAGAGACTCAACGACTTTTG
62 CTAATAAGAGACTCAACAAC-TTCG
* * * *
10295403 -GA-AAACAAAGCTTCTCTAAACAGAGGCTCAACGATTTTGGAAAAATAAACAAAGCTCTTCTAA
1 AAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGATTTTGGAAAAATAAACAAAGCTCCTCTAA
*
10295466 TAAGAGGCTCAACAACTTCG
66 TAAGAGACTCAACAACTTCG
* * *
10295486 AAAAAATAAACAAAGCTCCTCTAATCAGAGGTTCAACAACTTTGG-AAAATAAACAAAGCTCCT
1 ---AAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGATTTTGGAAAAATAAACAAAGCTCCT
10295549 TGACAATCAT
Statistics
Matches: 196, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
83 7 0.04
84 64 0.33
85 1 0.01
87 18 0.09
88 64 0.33
89 42 0.21
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (85 bp):
AAATAAACAAAGCTCCTCTAATCAGAGGCTCAACGATTTTGGAAAAATAAACAAAGCTCCTCTAA
TAAGAGACTCAACAACTTCG
Found at i:10295456 original size:128 final size:128
Alignment explanation
Indices: 10295184--10295534 Score: 402
Period size: 128 Copynumber: 2.7 Consensus size: 128
10295174 CTTTTTAGAG
* * *
10295184 AATAAACAAAACTCTTCTAAACAGAGGCTCAATGACTTTTTAAAAAATAAACAAAGCTCCTCTAA
1 AATAAACAAAGCTCTTCTAATCAGAGGCTCAATGAC-TTTTGAAAAATAAACAAAGCTCCTCTAA
* * * * * *
10295249 TCAGAGACTCAATGATTTTTTGAAAAATAAACAAAGCTATTTTAACCAGAGGCTCAATAACTTTG
65 TCAGAGACTCAACGA-CTTTTG---GA-AAACAAAGCTATTCTAAACAGAGGCTCAACAACTTTG
10295314 AAAA
125 AAAA
* * *
10295318 AATAAACAAAGCTCCTATAATCAGAGGCTCAATGACTTTTGAAAGATAAACAAAGCTCCTCTAAT
1 AATAAACAAAGCTCTTCTAATCAGAGGCTCAATGACTTTTGAAAAATAAACAAAGCTCCTCTAAT
* * * *
10295383 AAGAGACTCAACGACTTTTGGAAAACAAAGCT-TCTCTAAACAGAGGCTCAACGATTTTGGAAA
66 CAGAGACTCAACGACTTTTGGAAAACAAAGCTAT-TCTAAACAGAGGCTCAACAACTTTGAAAA
* ** *
10295446 AATAAACAAAGCTCTTCTAATAAGAGGCTCAACAAC-TTCGAAAAAATAAACAAAGCTCCTCTAA
1 AATAAACAAAGCTCTTCTAATCAGAGGCTCAATGACTTTTG-AAAAATAAACAAAGCTCCTCTAA
** *
10295510 TCAGAGGTTCAACAAC-TTTGGAAAA
65 TCAGAGACTCAACGACTTTTGGAAAA
10295535 TAAACAAAGC
Statistics
Matches: 188, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
127 13 0.07
128 98 0.52
129 1 0.01
132 5 0.03
133 39 0.21
134 32 0.17
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (128 bp):
AATAAACAAAGCTCTTCTAATCAGAGGCTCAATGACTTTTGAAAAATAAACAAAGCTCCTCTAAT
CAGAGACTCAACGACTTTTGGAAAACAAAGCTATTCTAAACAGAGGCTCAACAACTTTGAAAA
Found at i:10295477 original size:172 final size:172
Alignment explanation
Indices: 10295232--10295548 Score: 474
Period size: 172 Copynumber: 1.8 Consensus size: 172
10295222 TTTAAAAAAT
* * * * *
10295232 AAACAAAGCTCCTCTAATCAGAGACTCAATGATTTTTTGAAAAATAAACAAAGCTATTTTAACCA
1 AAACAAAGCTCCTCTAAACAGAGACTCAACGATTTTTGGAAAAATAAACAAAGCTATTCTAACAA
* * ** *
10295297 GAGGCTCAATAACTTTGAAAAAATAAACAAAGCTCCTATAATCAGAGGCTCAATGACTTTTGAAA
66 GAGGCTCAACAACTTCGAAAAAATAAACAAAGCTCCTATAATCAGAGGCTCAACAACTTTGGAAA
10295362 GATAAACAAAGCTCCTCTAATAAGAGACTCAACGACTTTTGGA
131 -ATAAACAAAGCTCCTCTAATAAGAGACTCAACGACTTTTGGA
* * * *
10295405 AAACAAAGCTTCTCTAAACAGAGGCTCAACGA-TTTTGGAAAAATAAACAAAGCTCTTCTAATAA
1 AAACAAAGCTCCTCTAAACAGAGACTCAACGATTTTTGGAAAAATAAACAAAGCTATTCTAACAA
* *
10295469 GAGGCTCAACAACTTCGAAAAAATAAACAAAGCTCCTCTAATCAGAGGTTCAACAACTTTGGAAA
66 GAGGCTCAACAACTTCGAAAAAATAAACAAAGCTCCTATAATCAGAGGCTCAACAACTTTGGAAA
10295534 ATAAACAAAGCTCCT
131 ATAAACAAAGCTCCT
10295549 TGACAATCAT
Statistics
Matches: 128, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
171 15 0.12
172 85 0.66
173 28 0.22
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.24
Consensus pattern (172 bp):
AAACAAAGCTCCTCTAAACAGAGACTCAACGATTTTTGGAAAAATAAACAAAGCTATTCTAACAA
GAGGCTCAACAACTTCGAAAAAATAAACAAAGCTCCTATAATCAGAGGCTCAACAACTTTGGAAA
ATAAACAAAGCTCCTCTAATAAGAGACTCAACGACTTTTGGA
Found at i:10295820 original size:21 final size:21
Alignment explanation
Indices: 10295794--10295833 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10295784 ATACTTTCTT
*
10295794 AAATGCAATATATGCTATGTG
1 AAATGCAATACATGCTATGTG
*
10295815 AAATGCAATGCATGCTATG
1 AAATGCAATACATGCTATG
10295834 CAAATGCTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (21 bp):
AAATGCAATACATGCTATGTG
Found at i:10298138 original size:19 final size:19
Alignment explanation
Indices: 10298114--10298170 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
10298104 AATAAAAGTG
*
10298114 AAAATAAATAAAGATAAAA
1 AAAATAAAAAAAGATAAAA
10298133 AAAATAAAGAAAAG-TAAAA
1 AAAATAAA-AAAAGATAAAA
10298152 AAAATAAAAATAAGATAAA
1 AAAATAAAAA-AAGATAAA
10298171 GATAAAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.06
19 24 0.71
20 8 0.24
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (19 bp):
AAAATAAAAAAAGATAAAA
Found at i:10298145 original size:9 final size:9
Alignment explanation
Indices: 10298089--10298161 Score: 65
Period size: 10 Copynumber: 7.4 Consensus size: 9
10298079 TTTTTATTTT
10298089 AAAAAAATA
1 AAAAAAATA
*
10298098 GAACAAAATA
1 -AAAAAAATA
10298108 AAAGTGAAAATA
1 AAA---AAAATA
*
10298120 AATAAAGATA
1 AA-AAAAATA
10298130 AAAAAAATA
1 AAAAAAATA
*
10298139 AAGAAAAGTA
1 AA-AAAAATA
10298149 AAAAAAATA
1 AAAAAAATA
10298158 AAAA
1 AAAA
10298162 TAAGATAAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
9 20 0.38
10 23 0.44
12 8 0.15
13 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.08, T:0.12
Consensus pattern (9 bp):
AAAAAAATA
Found at i:10298189 original size:25 final size:23
Alignment explanation
Indices: 10298114--10298181 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
10298104 AATAAAAGTG
10298114 AAAATAA-ATAAAGATAAAAAA-
1 AAAATAAGATAAAGATAAAAAAT
* *
10298135 AATA-AAGA-AAAGTAAAAAAAAT
1 AAAATAAGATAAAG-ATAAAAAAT
10298157 AAAAATAAGATAAAGATAAAAAAT
1 -AAAATAAGATAAAGATAAAAAAT
10298181 A
1 A
10298182 CTAAATAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
20 6 0.16
21 11 0.30
23 4 0.11
24 12 0.32
25 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (23 bp):
AAAATAAGATAAAGATAAAAAAT
Found at i:10299200 original size:17 final size:17
Alignment explanation
Indices: 10299180--10299387 Score: 68
Period size: 17 Copynumber: 11.6 Consensus size: 17
10299170 ATATTACAAG
*
10299180 ATAAAAAAATAATGATA
1 ATAAAAAAATAATAATA
* *
10299197 ATAATAATATAATAATA
1 ATAAAAAAATAATAATA
* *
10299214 ATAAATATATAACTATATA
1 ATAAAAAAATAA-TA-ATA
*
10299233 ACTAAAATACATATAAATATTA
1 A-TAAAA-A-A-AT-AATAATA
*
10299255 A-CAAAAAATAAATAAATAA
1 ATAAAAAAAT-AAT-AAT-A
10299274 ATAAATAAAGAT-ATACATA
1 ATAAA-AAA-ATAATA-ATA
* * *
10299293 TATTAATACATAATAATA
1 -ATAAAAAAATAATAATA
*
10299311 ATAAATAAATAATAA-A
1 ATAAAAAAATAATAATA
* *
10299327 ATACATAAAAT-ACAA-A
1 ATA-AAAAAATAATAATA
* * *
10299343 AGAAAAAAATAAAAAAA
1 ATAAAAAAATAATAATA
*
10299360 ATAAAATAATAA-AATA
1 ATAAAAAAATAATAATA
10299376 CATAATAAAAAT
1 -ATAA-AAAAAT
10299388 TGAATTGGGC
Statistics
Matches: 145, Mismatches: 26, Indels: 39
0.69 0.12 0.19
Matches are distributed among these distances:
15 6 0.04
16 16 0.11
17 63 0.43
18 15 0.10
19 13 0.09
20 17 0.12
21 4 0.03
22 5 0.03
23 4 0.03
24 2 0.01
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.26
Consensus pattern (17 bp):
ATAAAAAAATAATAATA
Found at i:10299269 original size:4 final size:4
Alignment explanation
Indices: 10299260--10299326 Score: 52
Period size: 4 Copynumber: 17.8 Consensus size: 4
10299250 TATTAACAAA
* * * * * *
10299260 AAAT AAAT AAAT AAAT AAAT AAAG ATAT ACAT ATAT TAAT ACAT -AAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
10299307 -AAT -AAT AAAT AAAT -AAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAA
10299327 ATACATAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
3 11 0.22
4 40 0.78
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:10299328 original size:8 final size:8
Alignment explanation
Indices: 10299302--10299380 Score: 67
Period size: 8 Copynumber: 9.9 Consensus size: 8
10299292 ATATTAATAC
10299302 ATAATAATA
1 ATAATAA-A
10299311 ATAA-ATAA
1 ATAATA-AA
10299319 ATAATAAA
1 ATAATAAA
10299327 ATACATAAA
1 ATA-ATAAA
*
10299336 AT-ACAAA
1 ATAATAAA
* *
10299343 AGAAAAAA
1 ATAATAAA
10299351 ATAA-AAA
1 ATAATAAA
10299358 A-AATAAA
1 ATAATAAA
10299365 ATAATAAA
1 ATAATAAA
10299373 ATACATAA
1 ATA-ATAA
10299381 TAAAAATTGA
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
6 2 0.03
7 13 0.22
8 27 0.46
9 17 0.29
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.20
Consensus pattern (8 bp):
ATAATAAA
Found at i:10299336 original size:9 final size:9
Alignment explanation
Indices: 10299317--10299380 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
10299307 AATAATAAAT
10299317 AAATA-ATA
1 AAATACATA
10299325 AAATACATA
1 AAATACATA
*
10299334 AAATACAAAA
1 AAATAC-ATA
* *
10299344 GAAAAAAATA
1 -AAATACATA
* *
10299354 AAAAAAATA
1 AAATACATA
10299363 AAATA-ATA
1 AAATACATA
10299371 AAATACATA
1 AAATACATA
10299380 A
1 A
10299381 TAAAAATTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
8 13 0.28
9 26 0.55
10 4 0.09
11 4 0.09
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.17
Consensus pattern (9 bp):
AAATACATA
Found at i:10299385 original size:29 final size:29
Alignment explanation
Indices: 10299302--10299386 Score: 86
Period size: 29 Copynumber: 2.9 Consensus size: 29
10299292 ATATTAATAC
* *
10299302 ATAATAATAAT-AAATAAATAATAAAATAC
1 ATAA-AATAATAAAATAAATAATAAAAAAA
*
10299331 ATAAAATACA-AAAGA-AAAAAATAAAAAAA
1 ATAAAATA-ATAAA-ATAAATAATAAAAAAA
*
10299360 ATAAAATAATAAAATACATAATAAAAA
1 ATAAAATAATAAAATAAATAATAAAAA
10299387 TTGAATTGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
28 6 0.13
29 39 0.85
30 1 0.02
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.20
Consensus pattern (29 bp):
ATAAAATAATAAAATAAATAATAAAAAAA
Found at i:10299575 original size:16 final size:17
Alignment explanation
Indices: 10299539--10299584 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
10299529 ACATTTTCAT
10299539 TTTTGTTTTTTTTGTGC
1 TTTTGTTTTTTTTGTGC
*
10299556 TTTTGTTTTTTTTTTG-
1 TTTTGTTTTTTTTGTGC
*
10299572 TTTTATTTTTTTT
1 TTTTGTTTTTTTT
10299585 ATTTTTTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.85
Consensus pattern (17 bp):
TTTTGTTTTTTTTGTGC
Found at i:10299655 original size:41 final size:42
Alignment explanation
Indices: 10299598--10299681 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 42
10299588 TTTTACCAAA
* * * *
10299598 GCTCCTCTAAACAGAGGCTCAACAAC-TTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
*
10299639 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
10299681 G
1 G
10299682 AGGCACCACG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 23 0.59
42 16 0.41
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
Found at i:10299688 original size:29 final size:29
Alignment explanation
Indices: 10299652--10299709 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
10299642 CCTCTAAACA
10299652 GAGGCACCACGACTTTTGAAAAATAAATT
1 GAGGCACCACGACTTTTGAAAAATAAATT
*
10299681 GAGGCACCACGACTTTTGAAAAGTAAATT
1 GAGGCACCACGACTTTTGAAAAATAAATT
10299710 ACTCCTCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (29 bp):
GAGGCACCACGACTTTTGAAAAATAAATT
Found at i:10299740 original size:42 final size:42
Alignment explanation
Indices: 10299681--10299965 Score: 502
Period size: 42 Copynumber: 6.8 Consensus size: 42
10299671 AAAATAAATT
*
10299681 GAGGCACCACGACTTTTGAAAAGTAAATTACTCCTCTAAACA
1 GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACA
*
10299723 GAGGCACCACGACTTTTG-AAAGTAAATTGCTCCTCTAACCA
1 GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACA
10299764 GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACA
1 GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACA
10299806 GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACA
1 GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACA
* * *
10299848 GAGGCACCACGACTTTGGGAATGTAAATTGCTCCTCTAAACA
1 GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACA
10299890 GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACA
1 GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACA
*
10299932 GAGGCACCACGAC-TTTGAAAAATAAATTGCTCCT
1 GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCT
10299966 TGACAATCAT
Statistics
Matches: 232, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
41 59 0.25
42 173 0.75
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (42 bp):
GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACA
Found at i:10299927 original size:126 final size:125
Alignment explanation
Indices: 10299681--10299965 Score: 509
Period size: 125 Copynumber: 2.3 Consensus size: 125
10299671 AAAATAAATT
* *
10299681 GAGGCACCACGACTTTTGAAAAGTAAATTACTCCTCTAAACAGAGGCACCACGACTTTTGAAAGT
1 GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGT
*
10299746 AAATTGCTCCTCTAACCAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACA
66 AAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACA
*
10299806 GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGGAATG
1 GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GGAAAG
10299871 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACA
65 TAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACA
*
10299932 GAGGCACCACGAC-TTTGAAAAATAAATTGCTCCT
1 GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCT
10299966 TGACAATCAT
Statistics
Matches: 154, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
125 77 0.50
126 77 0.50
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (125 bp):
GAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGT
AAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACA
Found at i:10300976 original size:8 final size:8
Alignment explanation
Indices: 10300965--10301022 Score: 80
Period size: 8 Copynumber: 6.8 Consensus size: 8
10300955 CTCTTTTTTT
10300965 TTTTTTCA
1 TTTTTTCA
10300973 TTTTTTCA
1 TTTTTTCA
10300981 TTTTTTTTCA
1 --TTTTTTCA
10300991 TTTTTTCA
1 TTTTTTCA
10300999 TTTTTTCA
1 TTTTTTCA
10301007 TCATTTTTCA
1 T--TTTTTCA
10301017 TTTTTT
1 TTTTTT
10301023 TTCTCTTTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
8 30 0.65
10 16 0.35
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTCA
Found at i:10300978 original size:10 final size:10
Alignment explanation
Indices: 10300963--10301055 Score: 85
Period size: 10 Copynumber: 10.0 Consensus size: 10
10300953 TCCTCTTTTT
10300963 TTTTTTTTCA
1 TTTTTTTTCA
10300973 --TTTTTTCA
1 TTTTTTTTCA
10300981 TTTTTTTTCA
1 TTTTTTTTCA
10300991 --TTTTTTCA
1 TTTTTTTTCA
10300999 --TTTTTTCA
1 TTTTTTTTCA
**
10301007 TCATTTTTCA
1 TTTTTTTTCA
10301017 TTTTTTTTC-
1 TTTTTTTTCA
*
10301026 TCTTTTTTT-G
1 T-TTTTTTTCA
*
10301036 GTTTTTTTCA
1 TTTTTTTTCA
10301046 TTTTTTTTCA
1 TTTTTTTTCA
10301056 AGCATAGTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
8 24 0.34
9 8 0.11
10 38 0.54
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:10300986 original size:18 final size:18
Alignment explanation
Indices: 10300963--10301051 Score: 108
Period size: 18 Copynumber: 4.9 Consensus size: 18
10300953 TCCTCTTTTT
10300963 TTTTTTTTCATTTTTTCA
1 TTTTTTTTCATTTTTTCA
10300981 TTTTTTTTCATTTTTTCA
1 TTTTTTTTCATTTTTTCA
*
10300999 TTTTTTCATCA-TTTTTCA
1 TTTTTT-TTCATTTTTTCA
* **
10301017 TTTTTTTTCTCTTTTTTTG
1 TTTTTTTTC-ATTTTTTCA
*
10301036 GTTTTTTTCATTTTTT
1 TTTTTTTTCATTTTTT
10301052 TTCAAGCATA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
17 2 0.03
18 43 0.70
19 16 0.26
ACGTcount: A:0.09, C:0.11, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTTTTTCATTTTTTCA
Found at i:10305942 original size:15 final size:16
Alignment explanation
Indices: 10305911--10305947 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
10305901 TATTCCATCT
*
10305911 TTCTCTTTCTTTAGCC
1 TTCTCTTTCTCTAGCC
10305927 TTCTCTTT-TCTAGCC
1 TTCTCTTTCTCTAGCC
10305942 TTCTCT
1 TTCTCT
10305948 AGCATTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.05, C:0.32, G:0.05, T:0.57
Consensus pattern (16 bp):
TTCTCTTTCTCTAGCC
Found at i:10310953 original size:59 final size:60
Alignment explanation
Indices: 10310881--10311281 Score: 516
Period size: 59 Copynumber: 6.7 Consensus size: 60
10310871 CTTTGTGTAG
*
10310881 GGAAAATTGATACTTTCAACTTTTTCCCAAAAGTATTTTTTTTGGAAA-TTT-ATTTTTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTTGGAAATTTTGATTTTTAA
*
10310940 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTTT-GAAAATTT-ATTTTTTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTTGGAAATTTTGA-TTTTTAA
* * * *
10310999 GAAAAATTAATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTTGGAAATTTTGATTTTTAA
* * *
10311058 GGAAAATTGATACTTTCAACTATTCTCTAAAAATA-TTTTTTTGGAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTTTGGAAATTTTGATTTTTAA
**
10311118 GGAAAATTGATACTTTCAACTTTTTCCTGAAAATATTTTTTTTGGAAATTTTGATTTTTCAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTTGGAAATTTTGATTTTT-AA
* **
10311180 GGAAAATTAATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTTGGAAA-TTT-ATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAA-TATTTTTTTTGGAAATTTTGATTTTTAA
10311240 GGAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTT
10311282 GATTTTTATT
Statistics
Matches: 307, Mismatches: 22, Indels: 26
0.86 0.06 0.07
Matches are distributed among these distances:
57 4 0.01
58 24 0.08
59 114 0.37
60 85 0.28
61 39 0.13
62 28 0.09
63 13 0.04
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.46
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTGGAAATTTTGATTTTTAA
Found at i:10311310 original size:5 final size:5
Alignment explanation
Indices: 10311297--10311382 Score: 72
Period size: 5 Copynumber: 16.8 Consensus size: 5
10311287 TTATTTAAAG
*
10311297 AAAAT AAAAC AAAAT AAAAGT GAAAAT -AAAT AAAGAT AAAA- AAAAT
1 AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAA-AT AAAAT AAAAT
*
10311343 AAAA- AAAAGT AAAA- AAAAT AAAAAT AAGAT AAAGAT AAAA
1 AAAAT AAAA-T AAAAT AAAAT -AAAAT AAAAT AAA-AT AAAA
10311383 AATACTAAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
4 16 0.24
5 26 0.39
6 21 0.31
7 4 0.06
ACGTcount: A:0.78, C:0.01, G:0.07, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:10311332 original size:35 final size:34
Alignment explanation
Indices: 10311292--10311369 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
10311282 GATTTTTATT
* *
10311292 TAAAGA-AAATAAAACAAAATAAAAGTGAAAATAAA
1 TAAAGATAAAAAAAACAAAA-AAAAGT-AAAAAAAA
*
10311327 TAAAGATAAAAAAAATAAAAAAAAGTAAAAAAAA
1 TAAAGATAAAAAAAACAAAAAAAAGTAAAAAAAA
*
10311361 TAAAAATAA
1 TAAAGATAA
10311370 GATAAAGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 15 0.39
35 12 0.32
36 11 0.29
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.14
Consensus pattern (34 bp):
TAAAGATAAAAAAAACAAAAAAAAGTAAAAAAAA
Found at i:10311343 original size:19 final size:18
Alignment explanation
Indices: 10311319--10311366 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
10311309 AATAAAAGTG
10311319 AAAATAAATAAAGATAAAA
1 AAAATAAA-AAAGATAAAA
*
10311338 AAAATAAAAAAAAGTAAAA
1 AAAATAAAAAAGA-TAAAA
10311357 AAAATAAAAA
1 AAAATAAAAA
10311367 TAAGATAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.12
Consensus pattern (18 bp):
AAAATAAAAAAGATAAAA
Found at i:10311392 original size:25 final size:23
Alignment explanation
Indices: 10311320--10311396 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 23
10311310 ATAAAAGTGA
*
10311320 AAATAAATAAAGATAAAAAAAAT
1 AAATAAATAAAGATAAAAAATAT
* *
10311343 -AA-AAA-AAAGTAAAAAAAATAA
1 AAATAAATAAAG-ATAAAAAATAT
10311364 AAATAAGATAAAGATAAAAAATACT
1 AAATAA-ATAAAGATAAAAAATA-T
10311389 AAATAAAT
1 AAATAAAT
10311397 CTAATCTAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
20 4 0.09
21 11 0.26
22 4 0.09
23 2 0.05
24 12 0.28
25 10 0.23
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (23 bp):
AAATAAATAAAGATAAAAAATAT
Found at i:10311421 original size:12 final size:13
Alignment explanation
Indices: 10311389--10311438 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
10311379 AAAAAATACT
*
10311389 AAATAAATCTAATC
1 AAATAAAT-AAATC
*
10311403 TAATAAATAAATC
1 AAATAAATAAATC
*
10311416 -AATAAATAAAAC
1 AAATAAATAAATC
10311428 AAATAAATAAA
1 AAATAAATAAA
10311439 AAAATTTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 11 0.34
13 14 0.44
14 7 0.22
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAATAAATC
Found at i:10311443 original size:12 final size:12
Alignment explanation
Indices: 10311404--10311443 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
10311394 AATCTAATCT
**
10311404 AATAAATAAATC
1 AATAAATAAAAA
10311416 AATAAATAAAACA
1 AATAAATAAAA-A
10311429 AATAAATAAAAA
1 AATAAATAAAAA
10311441 AAT
1 AAT
10311444 TTTGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:10311844 original size:11 final size:11
Alignment explanation
Indices: 10311830--10311854 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10311820 TTTTCACCAA
10311830 AAGTTCATCGG
1 AAGTTCATCGG
10311841 AAGTTCATCGG
1 AAGTTCATCGG
10311852 AAG
1 AAG
10311855 ATCACCGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (11 bp):
AAGTTCATCGG
Found at i:10312420 original size:3 final size:3
Alignment explanation
Indices: 10312407--10312465 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
10312397 AAGATAAAAA
*
10312407 AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10312455 AAT AAT AAT AA
1 AAT AAT AAT AA
10312466 ATATATAACT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10312519 original size:4 final size:4
Alignment explanation
Indices: 10312510--10312584 Score: 68
Period size: 4 Copynumber: 19.8 Consensus size: 4
10312500 TTAACAGAAA
* * * * *
10312510 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAG ATAT ACAT ATAT TAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
10312558 ACAT -AAT -AAT -AAT AAAT AAAT -AAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
10312585 ATACATAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
3 11 0.19
4 48 0.81
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (4 bp):
AAAT
Found at i:10312596 original size:17 final size:17
Alignment explanation
Indices: 10312400--10312593 Score: 115
Period size: 15 Copynumber: 11.5 Consensus size: 17
10312390 ATATTACAAG
* *
10312400 ATAAAAAAATAATGATA
1 ATAAATAAATAATAATA
10312417 AT-AAT-AATAATAATA
1 ATAAATAAATAATAATA
10312432 AT-AAT-AATAATAATA
1 ATAAATAAATAATAATA
10312447 AT-AAT-AATAATAATA
1 ATAAATAAATAATAATA
*
10312462 ATAAATATATAACTATATA
1 ATAAATAAATAA-TA-ATA
*
10312481 ACTAAAATACAT-ATAAATA
1 A-T-AAATAAATAAT-AATA
* * *
10312500 TTAACAGAAAAAAT-A-A
1 ATAA-ATAAATAATAATA
10312516 ATAAATAAAT-A-AATAA
1 ATAAATAAATAATAAT-A
*
10312532 ATAAATAAAGATATACATA
1 ATAAATAAATA-ATA-ATA
* *
10312551 TATTAATACATAATAATA
1 -ATAAATAAATAATAATA
10312569 ATAAATAAATAATAA-A
1 ATAAATAAATAATAATA
*
10312585 ATACATAAA
1 ATAAATAAA
10312594 ATACAAAAGA
Statistics
Matches: 142, Mismatches: 18, Indels: 35
0.73 0.09 0.18
Matches are distributed among these distances:
14 2 0.01
15 45 0.32
16 28 0.20
17 22 0.15
18 10 0.07
19 15 0.11
20 13 0.09
21 7 0.05
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (17 bp):
ATAAATAAATAATAATA
Found at i:10320949 original size:60 final size:58
Alignment explanation
Indices: 10320823--10321210 Score: 429
Period size: 59 Copynumber: 6.5 Consensus size: 58
10320813 TTGTTTTAAA
* * * *
10320823 GAAAATTGATACCTTCAACTTTTCCTTAAAAATGTTTTTCTTGATAATTTTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTGA-AA-TTTTATTTTCAAG
*
10320884 GAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTTGAAATTTTAATTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAA-A-TTTTTTTTTGAAATTTTATTTTCAAG
* * * *
10320944 AAAAATTGATACTTTCAA-TCTTTCCTCAAAAATATCTTTTAGAAATTTTATTTTCAAG
1 GAAAATTGATACTTTCAACT-TTTCCTCAAAAATTTTTTTTTGAAATTTTATTTTCAAG
* * * *
10321002 GAAAATTGATACTTTCAACTTTTCCTTAAAAA-TATTTTTTAATAATTTTATTTTAAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGA-AATTTTATTTTCAAG
* * * * * *
10321060 GAAAAATTGATATTTTCAATTTTTTCCTCAAAAATATTTTTTAGAAATCTTTGTCTTCAAG
1 G-AAAATTGATACTTTCAA-CTTTTCCTCAAAAATTTTTTTTTGAAAT-TTTATTTTCAAG
* * * * *
10321121 GAAAATTAATATTTTCAACTTTTTCTCAAAAAATATTTTTTGAAATTTTTATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAA-TTTTATTTTCAAG
* *
10321180 GAAAATTGATACTTTCAACTTTCCCCCAAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAA
10321211 TGCTTTTGGA
Statistics
Matches: 275, Mismatches: 42, Indels: 22
0.81 0.12 0.06
Matches are distributed among these distances:
57 5 0.02
58 65 0.24
59 76 0.28
60 71 0.26
61 47 0.17
62 10 0.04
63 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAATTTTATTTTCAAG
Found at i:10321100 original size:59 final size:57
Alignment explanation
Indices: 10320755--10321197 Score: 401
Period size: 60 Copynumber: 7.5 Consensus size: 57
10320745 AAACTCATGG
* * * * * **
10320755 TTTTATATACAAGAAAAATTGATACTTTCAATTTTTCCT-TAAAGTA---TTTAGAGG
1 TTTTATTTTCAAGGAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTA-AAA
* * * * * * * *
10320809 TTTTTTGTTTTAAAGAAAATTGATACCTTCAACTTTTCCTTAAAAATGTTTTTCTTGATAAT
1 TTTTAT-TTTCAAGGAAAATTGATACTTTCAATTTTTCCTCAAAAAT-ATTTT-TT-A-AAA
* * * *
10320871 TTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTTGAAA
1 TTTTATTTTCAAGGAAAATTGATACTTTCAATTTTTCCTCAAAA-A--TATTTTTTAAAA
* * * *
10320931 TTTTAATTTCAAGAAAAATTGATACTTTCAATCTTTCCTCAAAAATATCTTTTAGAAA
1 TTTTATTTTCAAGGAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTA-AAA
* *
10320989 TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTAATAA
1 TTTTATTTTCAAGGAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTAA-AA
* *
10321047 TTTTATTTTAAAGGAAAAATTGATATTTTCAATTTTTTCCTCAAAAATATTTTTTAGAAA
1 TTTTATTTTCAAGG-AAAATTGATACTTTCAA-TTTTTCCTCAAAAATATTTTTTA-AAA
* * * * *
10321107 TCTTTGTCTTCAAGGAAAATTAATATTTTCAACTTTTT-CTCAAAAAATATTTTTTGAAAT
1 T-TTTATTTTCAAGGAAAATTGATACTTTCAA-TTTTTCCTC-AAAAATATTTTTT-AAAA
10321167 TTTTATTTTCAAGGAAAATTGATACTTTCAA
1 TTTTATTTTCAAGGAAAATTGATACTTTCAA
10321198 CTTTCCCCCA
Statistics
Matches: 322, Mismatches: 48, Indels: 33
0.80 0.12 0.08
Matches are distributed among these distances:
54 5 0.02
55 26 0.08
56 4 0.01
57 7 0.02
58 66 0.20
59 46 0.14
60 103 0.32
61 49 0.15
62 10 0.03
63 5 0.02
64 1 0.00
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (57 bp):
TTTTATTTTCAAGGAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTAAAA
Found at i:10321190 original size:178 final size:180
Alignment explanation
Indices: 10320764--10321201 Score: 517
Period size: 177 Copynumber: 2.5 Consensus size: 180
10320754 GTTTTATATA
* * * * ** * *
10320764 CAAGAAAAATTGATACTTTCAATTTTTCCT-TAAAGTA---TTTAGAGGTTTTT-TGTTTTAAAG
1 CAAGAAAAATTAATACTTTCAATCTTTCCTCAAAAATATCTTTTAGAAATTTTTAT-TTTCAAGG
* * * *
10320824 AAAATTGATACCTTCAACTTTTCCTTAAAAATGTTTTTCTTGATAATTTTTATTTTTAAGGAAAA
65 AAAATTGATACTTTCAACTTTTCCTTAAAAATGATTTTCTTAATAATTTTTATTTTAAAGGAAAA
* *
10320889 TTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTTGAAATTTTAATTT
130 TTGATACTTTCAACTTTTCCTCAAAATATTATTTTTTAGAAATTTTAATTT
*
10320940 CAAGAAAAATTGATACTTTCAATCTTTCCTCAAAAATATCTTTTAGAAA-TTTTATTTTCAAGGA
1 CAAGAAAAATTAATACTTTCAATCTTTCCTCAAAAATATCTTTTAGAAATTTTTATTTTCAAGGA
10321004 AAATTGATACTTTCAACTTTTCCTTAAAAAT-ATTTT-TTAATAA-TTTTATTTTAAAGGAAAAA
66 AAATTGATACTTTCAACTTTTCCTTAAAAATGATTTTCTTAATAATTTTTATTTTAAAGG-AAAA
* * *
10321066 TTGATATTTTCAATTTTTTCCTCAAAA-A-TATTTTTTAGAAATCTTT-GTCTT
130 TTGATACTTTCAA-CTTTTCCTCAAAATATTATTTTTTAGAAAT-TTTAAT-TT
* * * *
10321117 CAAGGAAAATTAATATTTTCAA-CTTTTTCTCAAAAAATAT-TTTTTGAAATTTTTATTTTCAAG
1 CAAGAAAAATTAATACTTTCAATC-TTTCCTC-AAAAATATCTTTTAGAAATTTTTATTTTCAAG
10321180 GAAAATTGATACTTTCAACTTT
64 GAAAATTGATACTTTCAACTTT
10321202 CCCCCAAAAT
Statistics
Matches: 229, Mismatches: 21, Indels: 22
0.84 0.08 0.08
Matches are distributed among these distances:
176 56 0.24
177 66 0.29
178 59 0.26
179 41 0.18
180 7 0.03
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (180 bp):
CAAGAAAAATTAATACTTTCAATCTTTCCTCAAAAATATCTTTTAGAAATTTTTATTTTCAAGGA
AAATTGATACTTTCAACTTTTCCTTAAAAATGATTTTCTTAATAATTTTTATTTTAAAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAATATTATTTTTTAGAAATTTTAATTT
Found at i:10321198 original size:59 final size:58
Alignment explanation
Indices: 10320810--10321232 Score: 453
Period size: 60 Copynumber: 7.2 Consensus size: 58
10320800 ATTTAGAGGT
* * * * *
10320810 TTTTTGTTTT-AAAGAAAATTGATACCTTCAACTTTTCCTTAAAAATGTTTTTCTTGATAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTT-TTGA-AA
* *
10320870 TTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTTTGAAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAA-A--TATTTTTTGAAA
* * *
10320931 -TTTTAATTTCAAGAAAAATTGATACTTTCAA-TCTTTCCTCAAAAATATCTTTTAGAAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACT-TTTCCTCAAAAATAT-TTTTTGAAA
*
10320989 -TTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT-AATA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAA-A
* * * *
10321046 ATTTTATTTTAAAGGAAAAATTGATATTTTCAATTTTTTCCTCAAAAATATTTTTTAGAAA
1 TTTTTATTTTCAAGG-AAAATTGATACTTTCAA-CTTTTCCTCAAAAATATTTTTT-GAAA
* * * * * *
10321107 TCTTTGTCTTCAAGGAAAATTAATATTTTCAACTTTTTCTCAAAAAATATTTTTTGAAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTGAAA
* * ** *
10321166 TTTTTATTTTCAAGGAAAATTGATACTTTCAAC-TTTCCCCCAAAATGCTTTTGGAAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAA
10321223 TTTTTATTTT
1 TTTTTATTTT
10321233 AGAAATTTTA
Statistics
Matches: 313, Mismatches: 36, Indels: 31
0.82 0.09 0.08
Matches are distributed among these distances:
56 2 0.01
57 30 0.10
58 69 0.22
59 58 0.19
60 97 0.31
61 44 0.14
62 7 0.02
63 5 0.02
64 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (58 bp):
TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAA
Found at i:10321248 original size:15 final size:15
Alignment explanation
Indices: 10321214--10321246 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10321204 CCCAAAATGC
*
10321214 TTTTGGAAATTTTTA
1 TTTTAGAAATTTTTA
10321229 TTTTAGAAA-TTTTA
1 TTTTAGAAATTTTTA
10321243 TTTT
1 TTTT
10321247 TAAGGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (15 bp):
TTTTAGAAATTTTTA
Found at i:10321877 original size:20 final size:20
Alignment explanation
Indices: 10321849--10321886 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10321839 TTCACCGAAT
10321849 TCTGAAAAAAAATGCTGGGA
1 TCTGAAAAAAAATGCTGGGA
* *
10321869 TCTGGAAAAACATGCTGG
1 TCTGAAAAAAAATGCTGG
10321887 AAACTTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.21
Consensus pattern (20 bp):
TCTGAAAAAAAATGCTGGGA
Found at i:10328486 original size:13 final size:13
Alignment explanation
Indices: 10328445--10328488 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
10328435 AGCAATGTGC
*
10328445 TCAGACACACCAT
1 TCAGAAACACCAT
* *
10328458 TCAGCAA-ACCAC
1 TCAGAAACACCAT
10328470 TCAGAAACACCAT
1 TCAGAAACACCAT
10328483 TCAGAA
1 TCAGAA
10328489 TACGATTCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.43, C:0.34, G:0.09, T:0.14
Consensus pattern (13 bp):
TCAGAAACACCAT
Found at i:10329722 original size:354 final size:355
Alignment explanation
Indices: 10329255--10329971 Score: 983
Period size: 354 Copynumber: 2.0 Consensus size: 355
10329245 TATAACAAAT
* * * ** * * *
10329255 TATTGAAGGCGTTTTATAACAAAAGACGTCTTTAATAATCCCAAATTTTTTTTTAAAGAAATTGT
1 TATTGAAAGCGTTTTATAACAAAAGACATATTTAATAATCCCAAATAATTTTTAAAAAAAATTAT
* * *
10329320 TGAAGGTGTTGTTATTCGTAAGCGCCTTCACTAATTATCTATAAAATCTAATAGGAATTATTAAA
66 TAAAGGTGTTGTTATTCG-AAACGCCTTCACTAATTATCTACAAAATCTAATAGGAATTATTAAA
* * * *
10329385 GGTATTTTTCCTGAATATATGCCTTCAATAACTGTGTTAAAATTTGTGTGGCGGTATATTAAAAG
130 GGTATTTTTCCTGAATATACGACTTCAATAACTGTGTTAAAATTTGTGTGACGATATATTAAAAG
* * * ** *
10329450 CATTTTACAATAGAAGACGCCTTTAATAATTCTCAAAAATTTTT-GAGGGAAAATATTGAAGGCG
195 CATTTTACAATAGAAGACACCTTTAATAATGC-CAAAAATTTTTAAAGAAAAAATATTAAAGGCG
* * * *
10329514 TCTATTTTTAACAAATGCTTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGT-ATTTT
259 TCTATTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGATATATTGAAGGTGATTTT
* *
10329578 TTAAATAAATGCCTTCTATAACCATCGTGGTA
324 TTAAATAAACGCCTTCTATAACCATCATGGTA
* *
10329610 TATTGAAAGCGTTTTATAATAAAAGACATATTTAATAATCTCAAA-AATTTTTAAAAAAAATTAT
1 TATTGAAAGCGTTTTATAACAAAAGACATATTTAATAATCCCAAATAATTTTTAAAAAAAATTAT
10329674 TAAAGGTGTTGTTATCTAC-AAACGCCTTCACTAATTATCTACAAAATCTAATAGGAATTATTAA
66 TAAAGGTGTTGTTAT-T-CGAAACGCCTTCACTAATTATCTACAAAATCTAATAGGAATTATTAA
* * *
10329738 AGGTATTTTTCTTGAATATACGACTTTAATAACTGTGTTAAAATTTGTGTGACGATATATTAAAG
129 AGGTATTTTTCCTGAATATACGACTTCAATAACTGTGTTAAAATTTGTGTGACGATATATTAAAA
* * ** *
10329803 GTATTTTACAGTAGAAGTTACCTTTAATAATGCCCAAAATTTTTAAAGAAAAAATATTAAAGGCG
194 GCATTTTACAATAGAAGACACCTTTAATAATGCCAAAAATTTTTAAAGAAAAAATATTAAAGGCG
* *
10329868 TCTGTTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGATATATTGAAGGTGTTTTT
259 TCTATTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGATATATTGAAGGTGATTTT
* * * *
10329933 TTGAATAAACGTCTTCTATAATCATCATGGTG
324 TTAAATAAACGCCTTCTATAACCATCATGGTA
10329965 TATTGAA
1 TATTGAA
10329972 GGCATTTTTC
Statistics
Matches: 315, Mismatches: 43, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
353 10 0.03
354 226 0.72
355 78 0.25
356 1 0.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (355 bp):
TATTGAAAGCGTTTTATAACAAAAGACATATTTAATAATCCCAAATAATTTTTAAAAAAAATTAT
TAAAGGTGTTGTTATTCGAAACGCCTTCACTAATTATCTACAAAATCTAATAGGAATTATTAAAG
GTATTTTTCCTGAATATACGACTTCAATAACTGTGTTAAAATTTGTGTGACGATATATTAAAAGC
ATTTTACAATAGAAGACACCTTTAATAATGCCAAAAATTTTTAAAGAAAAAATATTAAAGGCGTC
TATTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGATATATTGAAGGTGATTTTTT
AAATAAACGCCTTCTATAACCATCATGGTA
Found at i:10332994 original size:4 final size:4
Alignment explanation
Indices: 10332978--10333008 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
10332968 TATATTTATA
*
10332978 TATG TAAG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
10333009 TTATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:10334378 original size:2 final size:2
Alignment explanation
Indices: 10334371--10334405 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10334361 TATTAAAATA
10334371 AT AT AT AT AT 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 AT AT AT AT AT A
10334406 GACACACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10335056 original size:11 final size:11
Alignment explanation
Indices: 10335042--10335066 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10335032 TAATTTATGC
10335042 ATAAATTATTT
1 ATAAATTATTT
10335053 ATAAATTATTT
1 ATAAATTATTT
10335064 ATA
1 ATA
10335067 TTTGTTAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATAAATTATTT
Found at i:10338522 original size:17 final size:16
Alignment explanation
Indices: 10338499--10338541 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
10338489 ATATAATCTG
*
10338499 AAATTAAAAGTAATTTA
1 AAATTAAAA-TAAATTA
*
10338516 AATTTAAAATAAATTA
1 AAATTAAAATAAATTA
10338532 AAATTAAAAT
1 AAATTAAAAT
10338542 GATTCAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
AAATTAAAATAAATTA
Found at i:10340697 original size:11 final size:11
Alignment explanation
Indices: 10340683--10340707 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10340673 TTATTTTTAT
10340683 TTTTAATAAAA
1 TTTTAATAAAA
10340694 TTTTAATAAAA
1 TTTTAATAAAA
10340705 TTT
1 TTT
10340708 GACTTAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTAATAAAA
Found at i:10347605 original size:12 final size:11
Alignment explanation
Indices: 10347579--10347603 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10347569 AGTTTAAGTC
10347579 AAATTTTATTA
1 AAATTTTATTA
10347590 AAATTTTATTA
1 AAATTTTATTA
10347601 AAA
1 AAA
10347604 ATAAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AAATTTTATTA
Found at i:10347639 original size:14 final size:14
Alignment explanation
Indices: 10347598--10347640 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
10347588 TAAAATTTTA
* *
10347598 TTAAAAATAAAAAA
1 TTAAAAATAAATAT
*
10347612 TAAAAAATATAATAT
1 TTAAAAATA-AATAT
10347627 TTAAAAATAAATAT
1 TTAAAAATAAATAT
10347641 AAACATTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TTAAAAATAAATAT
Found at i:10349767 original size:16 final size:16
Alignment explanation
Indices: 10349748--10349790 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
10349738 TTTTTGAATC
*
10349748 ATTTTAATTTTAATTT
1 ATTTTAATTTTAAATT
*
10349764 ATTTTAAATTTAAATT
1 ATTTTAATTTTAAATT
10349780 ACTTTTAATTT
1 A-TTTTAATTT
10349791 CAGATTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTAATTTTAAATT
Found at i:10353257 original size:11 final size:11
Alignment explanation
Indices: 10353227--10353251 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10353217 GATTAACAAA
10353227 TATAAATAATT
1 TATAAATAATT
10353238 TATAAATAATT
1 TATAAATAATT
10353249 TAT
1 TAT
10353252 GCATAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TATAAATAATT
Found at i:10353891 original size:2 final size:2
Alignment explanation
Indices: 10353886--10353926 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
10353876 TGTGTGTGTC
10353886 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA T
10353927 TATTTTAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10355298 original size:4 final size:4
Alignment explanation
Indices: 10355291--10355321 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
10355281 ATATATATAA
*
10355291 ATAC ATAC ATAC ATAC ATAC ATAC TTAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
10355322 TATAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (4 bp):
ATAC
Found at i:10355334 original size:12 final size:12
Alignment explanation
Indices: 10355283--10355334 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
10355273 AAGATCAAAT
10355283 ATATATAAATAC
1 ATATATAAATAC
* *
10355295 ATACATACATAC
1 ATATATAAATAC
* **
10355307 ATACATACTTAC
1 ATATATAAATAC
*
10355319 ATATATAAATAT
1 ATATATAAATAC
10355331 ATAT
1 ATAT
10355335 GAGGAGGGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (12 bp):
ATATATAAATAC
Found at i:10359015 original size:355 final size:354
Alignment explanation
Indices: 10358325--10359048 Score: 970
Period size: 355 Copynumber: 2.0 Consensus size: 354
10358315 ATATTCAAGA
* * *
10358325 AAAATGCCTTCAATACACCATGATGATTATAGAAGACGTTTATTCAAAAAAACACCTTCAATATA
1 AAAACGCCTTCAATACACCACGATGATTATAGAAGACATTTATTCAAAAAAACACCTTCAATATA
* * * * * **
10358390 TCTTTAAACTTAGTAATCCATTACTGAAGGCGTTTGTTAATAACAGACGCCTTTAATATTTTTTC
66 CCTTTAAACTTAGTAATCCATTACTGAAAGCATTTGTTAAAAACAGACGCCTTCAATATTTTCCC
** * * * * *
10358455 TTTAAAATTTTGGGCATTATTAAAGGTAACTTCTACTGTAAAATACCTTTAATATATCGTCACAC
131 TCAAAAATTTTGAGAATTATTAAAGGCAACTTCTACTGTAAAATACCTTTAATATACCGCCACAC
* *
10358520 AAATTTTAACACAGTTATTAAAGTCGTATATTCAAGAAAAATACCTTTAATAATTCCTATTAGAT
196 AAATTTTAACACAGTTATTAAAGGCATATATTCAAGAAAAATACCTTTAATAATTCCTATTAGAT
* * * * * * **
10358585 TTTGTAGATAATTAGTGAAGGCGTTTGTAGATAACAACACCTTTAATAATTTTTTTTAAAAATTT
261 TTTATAGATAATTAGTGAAGGCGTTCGTAGATAACAACACCTTCAACAATTTCTTTAAAAAAAAT
* *
10358650 TTGAGATTATTAAATATGTCTTTTATTAT
326 TTGAGATTATTAAAGACGTCTTTTATTAT
* * * * * *
10358679 AAAACGCTTTCAATATACCACGATGGTTATAGAAGGCATTTATT-TAAAAAATACCTTCAATATA
1 AAAACGCCTTCAATACACCACGATGATTATAGAAGACATTTATTCAAAAAAACACCTTCAATATA
*
10358743 CCTTTAAACTTAGTAATCCATTACTGAAAGCATTTGTTAAAAATAGACGCCTTCAATATTTTCCC
66 CCTTTAAACTTAGTAATCCATTACTGAAAGCATTTGTTAAAAACAGACGCCTTCAATATTTTCCC
** * * *
10358808 TCAAAAATTTTTGAGAATTATTAAAGGCGTCTTCTATTGTAAAATGCTTTTAATATACCGCCACA
131 TCAAAAA-TTTTGAGAATTATTAAAGGCAACTTCTACTGTAAAATACCTTTAATATACCGCCACA
* *
10358873 CCAAATTTTAACACAGTTATTGAAGGCATATATTCAGGAAAAATACCTTTAATAATTCCTATTAG
195 -CAAATTTTAACACAGTTATTAAAGGCATATATTCAAGAAAAATACCTTTAATAATTCCTATTAG
10358938 ATTTTATAGATAATTAGTGAAGGGCGCTTACG-A-AT-ACAACACCTTCAACAATTTCTTTAAAA
259 ATTTTATAGATAATTAGTGAA-GGCG-TT-CGTAGATAACAACACCTTCAACAATTTCTTTAAAA
* *
10359000 AAAATTTGGGATTATTAAAGACGTCTTTTGTTAT
321 AAAATTTGAGATTATTAAAGACGTCTTTTATTAT
10359034 AAAACGCCTTCAATA
1 AAAACGCCTTCAATA
10359049 ATTTGTTATA
Statistics
Matches: 319, Mismatches: 46, Indels: 9
0.85 0.12 0.02
Matches are distributed among these distances:
353 80 0.25
354 84 0.26
355 145 0.45
356 6 0.02
357 3 0.01
358 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (354 bp):
AAAACGCCTTCAATACACCACGATGATTATAGAAGACATTTATTCAAAAAAACACCTTCAATATA
CCTTTAAACTTAGTAATCCATTACTGAAAGCATTTGTTAAAAACAGACGCCTTCAATATTTTCCC
TCAAAAATTTTGAGAATTATTAAAGGCAACTTCTACTGTAAAATACCTTTAATATACCGCCACAC
AAATTTTAACACAGTTATTAAAGGCATATATTCAAGAAAAATACCTTTAATAATTCCTATTAGAT
TTTATAGATAATTAGTGAAGGCGTTCGTAGATAACAACACCTTCAACAATTTCTTTAAAAAAAAT
TTGAGATTATTAAAGACGTCTTTTATTAT
Found at i:10359807 original size:84 final size:84
Alignment explanation
Indices: 10359655--10359808 Score: 186
Period size: 84 Copynumber: 1.8 Consensus size: 84
10359645 TTAAATATTG
* * * * **
10359655 TGGTTTGCTGAATCTTGTTGTTTGATATTGTAATGCCGAATGGTATTGTATGATATTAGGGGTTT
1 TGGTTTGCTCAATCTTGTTGTTTGATAATGTAATACCGAATGGTATTGTATGAAATTAGGGGGCT
10359720 GAATCATATATATGCTGAA
66 GAATCATATATATGCTGAA
** * *
10359739 TGGTTTGCTCAA-CTTTGTTGTTTGATAATGTTTTACTGAATGAGT-TTGTATGAAATTGGGGGG
1 TGGTTTGCTCAATC-TTGTTGTTTGATAATGTAATACCGAATG-GTATTGTATGAAATTAGGGGG
10359802 CTGAATC
64 CTGAATC
10359809 GTATTCTGAA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
83 1 0.02
84 55 0.95
85 2 0.03
ACGTcount: A:0.23, C:0.08, G:0.26, T:0.43
Consensus pattern (84 bp):
TGGTTTGCTCAATCTTGTTGTTTGATAATGTAATACCGAATGGTATTGTATGAAATTAGGGGGCT
GAATCATATATATGCTGAA
Found at i:10359830 original size:13 final size:13
Alignment explanation
Indices: 10359812--10359855 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
10359802 CTGAATCGTA
10359812 TTCTGAATGGTGT
1 TTCTGAATGGTGT
*
10359825 TTCTGAGTGGT-T
1 TTCTGAATGGTGT
*
10359837 TGCTGAATGGTGT
1 TTCTGAATGGTGT
*
10359850 GTCTGA
1 TTCTGA
10359856 GCAATTGCTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.14, C:0.09, G:0.34, T:0.43
Consensus pattern (13 bp):
TTCTGAATGGTGT
Found at i:10366363 original size:15 final size:15
Alignment explanation
Indices: 10366340--10366369 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10366330 TTGTAAGATT
10366340 TTTTAGAAATTTTTG
1 TTTTAGAAATTTTTG
*
10366355 TTTTGGAAATTTTTG
1 TTTTAGAAATTTTTG
10366370 GAATTTTTAG
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:0.00, G:0.17, T:0.60
Consensus pattern (15 bp):
TTTTAGAAATTTTTG
Found at i:10366963 original size:59 final size:59
Alignment explanation
Indices: 10366878--10367439 Score: 391
Period size: 59 Copynumber: 9.3 Consensus size: 59
10366868 TTTTTCAATG
* * * *
10366878 ATTTTCC-T-AAAATAAAATTCTCAAAAAAAAATTTTTTTAAAGAAAAATTGAAAGTATTA
1 ATTTTCCTTGAAAATAAAATT-T-AAAAAAAAATATTTTTGAGGAAAAATTGAAAGTATCA
* * *
10366937 ATTTTCGTTGAAAATAAAATTTAAAAAAAAA-A---TTGAAGG-AAAGTTGAATGTATCA
1 ATTTTCCTTGAAAATAAAATTTAAAAAAAAATATTTTTG-AGGAAAAATTGAAAGTATCA
* * * * *
10366992 A-TTTCCTTTGAACACAAAA-AT-AGAAAAAATATTTTTGA-GAAAAAGTTAAAAGTATCA
1 ATTTTCC-TTGAAAATAAAATTTAAAAAAAAATATTTTTGAGGAAAAA-TTGAAAGTATCA
* * * * *
10367049 ATTTTCCTTAAAAATAAAATTTCTAAAATAAAAATTTCCAAAAGCATTTTGGGGGAAAGTTGAAA
1 ATTTTCCTTGAAAATAAAA-TT-TAAAA-AAAAA--T-----A--TTTTTGAGGAAAAATTGAAA
10367114 GTATCA
54 GTATCA
* * * *
10367120 ATTTTCCTTGAAAATAAAAATTTCAAAAAATAT-TTTTTGA-GAAAAAGTTGAAAATATTA
1 ATTTTCCTTGAAAAT-AAAATTTAAAAAAAAATATTTTTGAGGAAAAA-TTGAAAGTATCA
* * ** *
10367179 ATTTTCCTTGAAGACAAAGATTT-CTAAAAAATATTTTTGAGGAAAAAATTGAAAATATCA
1 ATTTTCCTTGAAAATAAA-ATTTAAAAAAAAATATTTTTGAGG-AAAAATTGAAAGTATCA
* ** * *
10367239 ATTTTTCCTTTAAAATAAAA-TTATTAAAAAATATTTTTAAGGAAAAGTTGAAAGTTATCCA
1 A-TTTTCCTTGAAAATAAAATTTAAAAAAAAATATTTTTGAGGAAAAATTGAAAG-TAT-CA
** * **
10367300 ATTTTCCTTGAAAATAAAATTTCTAAAAAGATATTTTTGAGGAAGGATTGAAAGTATCA
1 ATTTTCCTTGAAAATAAAATTTAAAAAAAAATATTTTTGAGGAAAAATTGAAAGTATCA
* * * *
10367359 ATTTTTCTTGAAATTAAAATTTCAGAAAAAAAA-ATATTTTGAGGAAAAGTTCGAAAGTACCA
1 ATTTTCCTTGAAAATAAAATTT-A-AAAAAAAATAT-TTTTGAGGAAAAATT-GAAAGTATCA
*
10367421 ATTTTCCTTAAAAATAAAA
1 ATTTTCCTTGAAAATAAAA
10367440 AATTATCCAC
Statistics
Matches: 395, Mismatches: 67, Indels: 79
0.73 0.12 0.15
Matches are distributed among these distances:
53 7 0.02
54 6 0.02
55 27 0.07
56 6 0.02
57 23 0.06
58 18 0.05
59 88 0.22
60 59 0.15
61 80 0.20
62 30 0.08
64 1 0.00
67 1 0.00
69 5 0.01
70 4 0.01
71 32 0.08
72 8 0.02
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (59 bp):
ATTTTCCTTGAAAATAAAATTTAAAAAAAAATATTTTTGAGGAAAAATTGAAAGTATCA
Found at i:10367078 original size:14 final size:15
Alignment explanation
Indices: 10367059--10367091 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10367049 ATTTTCCTTA
*
10367059 AAAAT-AAAATTTCT
1 AAAATAAAAATTTCC
10367073 AAAATAAAAATTTCC
1 AAAATAAAAATTTCC
10367088 AAAA
1 AAAA
10367092 GCATTTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAAAAATTTCC
Found at i:10367083 original size:71 final size:72
Alignment explanation
Indices: 10367007--10367148 Score: 162
Period size: 71 Copynumber: 2.0 Consensus size: 72
10366997 CTTTGAACAC
* *
10367007 AAAAA-TAGAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAAT-AAAATT
1 AAAAATTACAAAAAACA-TTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAAATT
*
10367070 TCTAAAAT
65 TCAAAAAT
* * * * ** * *
10367078 AAAAATTTCCAAAAGCATTTTGGGGGAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTT
1 AAAAATTACAAAAAACATTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAAATTT
10367143 CAAAAA
66 CAAAAA
10367149 ATATTTTTTG
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
71 40 0.69
72 18 0.31
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.31
Consensus pattern (72 bp):
AAAAATTACAAAAAACATTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAAAATTT
CAAAAAT
Found at i:10367242 original size:60 final size:58
Alignment explanation
Indices: 10367108--10367439 Score: 346
Period size: 60 Copynumber: 5.5 Consensus size: 58
10367098 TGGGGGAAAG
*
10367108 TTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTC-AAAAAATATTTTTTGA-GAAAAA
1 TTGAAAATATCAATTTTCCTTGAAAAT-AAAATTTCTAAAAAATA-TTTTTGAGGAAAAA
* * *
10367166 GTTGAAAATATTAATTTTCCTTGAAGACAAAGATTTCTAAAAAATATTTTTGAGGAAAAAA
1 -TTGAAAATATCAATTTTCCTTGAAAATAAA-ATTTCTAAAAAATATTTTTGAGG-AAAAA
* * *
10367227 TTGAAAATATCAATTTTTCCTTTAAAATAAAATTAT-TAAAAAATATTTTTAAGGAAAAG
1 TTGAAAATATCAA-TTTTCCTTGAAAATAAAATT-TCTAAAAAATATTTTTGAGGAAAAA
* **
10367286 TTGAAAGTTATCCAATTTTCCTTGAAAATAAAATTTCTAAAAAGATATTTTTGAGGAAGGA
1 TTGAAA-ATAT-CAATTTTCCTTGAAAATAAAATTTCTAAAAA-ATATTTTTGAGGAAAAA
* * * * * *
10367347 TTGAAAGTATCAATTTTTCTTGAAATTAAAATTTCAGAAAAAAAAATATTTTGAGGAAAAG
1 TTGAAAATATCAATTTTCCTTGAAAATAAAATTTC--TAAAAAATAT-TTTTGAGGAAAAA
* * *
10367408 TTCGAAAGTACCAATTTTCCTTAAAAATAAAA
1 TT-GAAAATATCAATTTTCCTTGAAAATAAAA
10367440 AATTATCCAC
Statistics
Matches: 231, Mismatches: 28, Indels: 25
0.81 0.10 0.09
Matches are distributed among these distances:
58 3 0.01
59 69 0.30
60 75 0.32
61 59 0.26
62 25 0.11
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (58 bp):
TTGAAAATATCAATTTTCCTTGAAAATAAAATTTCTAAAAAATATTTTTGAGGAAAAA
Found at i:10374987 original size:3 final size:3
Alignment explanation
Indices: 10374979--10375015 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10374969 AGGTTTTGAT
10374979 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10375016 CATCATCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10375020 original size:3 final size:3
Alignment explanation
Indices: 10375014--10375063 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
10375004 TATTATTATT
10375014 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
10375062 AT
1 AT
10375064 TTTATTAATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:10378653 original size:52 final size:53
Alignment explanation
Indices: 10378565--10378721 Score: 194
Period size: 52 Copynumber: 3.0 Consensus size: 53
10378555 TGGACAAGAA
* *
10378565 GACTTGCAAAAGAAGAATTCTAAAA-GAAAGGGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAAAGGAAAGGAGATTCTTAATAGGCAAGTTT
10378617 GACTTGCAAAAGAAGAATTCTAAAAGGAAA-GAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAAAGGAAAGGAGATTCTTAATAGGCAAGTTT
* * * * * * * * *
10378669 AACTTACAAGAGAATAATTCTAAGAGGAGATG-GATTTTTAATGGGCAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAAAGGAAAGGAGATTCTTAATAGGCAAGTTT
10378721 G
1 G
10378722 TATGATTATA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 87 0.95
53 5 0.05
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.27
Consensus pattern (53 bp):
GACTTGCAAAAGAAGAATTCTAAAAGGAAAGGAGATTCTTAATAGGCAAGTTT
Found at i:10379535 original size:11 final size:11
Alignment explanation
Indices: 10379519--10379554 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
10379509 TACGGTGATT
10379519 TAATATAAAAA
1 TAATATAAAAA
10379530 TAATAT--AAA
1 TAATATAAAAA
10379539 -AATATAAAAA
1 TAATATAAAAA
10379549 TAATAT
1 TAATAT
10379555 TATTACAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 5 0.23
9 3 0.14
10 3 0.14
11 11 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
TAATATAAAAA
Found at i:10379605 original size:19 final size:21
Alignment explanation
Indices: 10379548--10379608 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
10379538 AAATATAAAA
* * *
10379548 ATAATATTAT-TACAAATTTT
1 ATAAAATTATATAAAAATTTG
10379568 AGTAAAATTATATAAAAATTTG
1 A-TAAAATTATATAAAAATTTG
10379590 ATAAAATTA-A-AAAAATTTG
1 ATAAAATTATATAAAAATTTG
10379609 TTTTATATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 9 0.25
20 2 0.06
21 16 0.44
22 9 0.25
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
ATAAAATTATATAAAAATTTG
Found at i:10386302 original size:24 final size:25
Alignment explanation
Indices: 10386275--10386331 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
10386265 GAAAACTTTT
*
10386275 AAATAAAAAATTAA-AAA-TAAAACA
1 AAATAAAAAATGAATAAAGTAAAA-A
* *
10386299 AAATTAAAAATGAATAAAGTTAAAA
1 AAATAAAAAATGAATAAAGTAAAAA
10386324 AAATAAAA
1 AAATAAAA
10386332 TAAAACAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 12 0.44
25 11 0.41
26 4 0.15
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (25 bp):
AAATAAAAAATGAATAAAGTAAAAA
Found at i:10387218 original size:81 final size:81
Alignment explanation
Indices: 10387104--10387266 Score: 247
Period size: 81 Copynumber: 2.0 Consensus size: 81
10387094 AGTATAACAA
* * * *
10387104 CATCAAGAGAAAAAATATATATATGCATTAAGTGAAAAGCAAAATACG-AAATAATAAATTAATG
1 CATCAAGAGAAAAAAGAAAAATATGCATAAAGTGAAAAGCAAAATACGAAAATAATAAATTAATG
10387168 AATTGCAACAATACTT
66 AATTGCAACAATACTT
* *
10387184 CATCAAGAGAAAAAAAGAAAAATATGCATAAAGTGAAAAGCAAAATACGAAAATAGTAGATTAAT
1 CATCAAGAG-AAAAAAGAAAAATATGCATAAAGTGAAAAGCAAAATACGAAAATAATAAATTAAT
*
10387249 GACTTGCAACAATACTT
65 GAATTGCAACAATACTT
10387266 C
1 C
10387267 TACAACAATA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
80 9 0.12
81 35 0.47
82 30 0.41
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.22
Consensus pattern (81 bp):
CATCAAGAGAAAAAAGAAAAATATGCATAAAGTGAAAAGCAAAATACGAAAATAATAAATTAATG
AATTGCAACAATACTT
Found at i:10390026 original size:25 final size:26
Alignment explanation
Indices: 10389998--10390054 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
10389988 AATTTGTTTT
*
10389998 TAAAATTATTTAATAA-AAT-TGTTGA
1 TAAAATTATTTAA-AATAATATATTGA
*
10390023 TAAAA-AATTTAAAATAATATATTGA
1 TAAAATTATTTAAAATAATATATTGA
10390048 TAAAATT
1 TAAAATT
10390055 TAGTGAGAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 2 0.08
24 9 0.35
25 15 0.58
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.40
Consensus pattern (26 bp):
TAAAATTATTTAAAATAATATATTGA
Found at i:10390154 original size:19 final size:21
Alignment explanation
Indices: 10390130--10390172 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
10390120 GTTTTGTCCA
*
10390130 AATTTTTTTT-AA-TATTTAT
1 AATTTTTTTTGAATTAATTAT
10390149 AATTTTTTTTGAATTAATTAT
1 AATTTTTTTTGAATTAATTAT
10390170 AAT
1 AAT
10390173 ATAAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 2 0.10
21 9 0.43
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
AATTTTTTTTGAATTAATTAT
Found at i:10394567 original size:2 final size:2
Alignment explanation
Indices: 10394560--10394591 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
10394550 ACGGAGCCAA
*
10394560 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10394592 CAAAGGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10396177 original size:24 final size:24
Alignment explanation
Indices: 10396145--10396191 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
10396135 CGATTCATCA
10396145 AGATGGTGAGGATGATGAAAATGT
1 AGATGGTGAGGATGATGAAAATGT
*
10396169 AGATGGTGAGGATGGTGAAAATG
1 AGATGGTGAGGATGATGAAAATG
10396192 ACAAAGAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.23
Consensus pattern (24 bp):
AGATGGTGAGGATGATGAAAATGT
Found at i:10396646 original size:9 final size:9
Alignment explanation
Indices: 10396632--10396656 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
10396622 TTTTAATGTC
10396632 AAAAATATA
1 AAAAATATA
10396641 AAAAATATA
1 AAAAATATA
10396650 AAAAATA
1 AAAAATA
10396657 ATTTTAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAATATA
Found at i:10402675 original size:8 final size:8
Alignment explanation
Indices: 10402635--10402678 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
10402625 TCCTCGTTCC
*
10402635 CTCTGTCT
1 CTCTCTCT
*
10402643 CTGTCTCT
1 CTCTCTCT
*
10402651 GTCTCTCT
1 CTCTCTCT
*
10402659 GTCTCTCT
1 CTCTCTCT
10402667 CTCTCTCT
1 CTCTCTCT
10402675 CTCT
1 CTCT
10402679 ATTTAACTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.00, C:0.41, G:0.09, T:0.50
Consensus pattern (8 bp):
CTCTCTCT
Found at i:10402677 original size:6 final size:6
Alignment explanation
Indices: 10402635--10402678 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
10402625 TCCTCGTTCC
* * * *
10402635 CTCTGT CTCTGT CTCTGT CTCTCT GTCTCT CTCTCT CTCTCT CT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CT
10402679 ATTTAACTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.41, G:0.09, T:0.50
Consensus pattern (6 bp):
CTCTCT
Found at i:10402724 original size:16 final size:16
Alignment explanation
Indices: 10402703--10402734 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
10402693 TCCTTGTCTG
10402703 TCACAGATTTTTGAGC
1 TCACAGATTTTTGAGC
10402719 TCACAGATTTTTGAGC
1 TCACAGATTTTTGAGC
10402735 CAAAGTCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (16 bp):
TCACAGATTTTTGAGC
Found at i:10405450 original size:19 final size:19
Alignment explanation
Indices: 10405426--10405465 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
10405416 ACAGCAATAA
10405426 GTAAGTTAAATCAATCTTG
1 GTAAGTTAAATCAATCTTG
10405445 GTAAGTTAAATCAATCTTG
1 GTAAGTTAAATCAATCTTG
10405464 GT
1 GT
10405466 CACTTTTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (19 bp):
GTAAGTTAAATCAATCTTG
Found at i:10408422 original size:24 final size:24
Alignment explanation
Indices: 10408377--10408422 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
10408367 TAATAGTAGA
*
10408377 AATTTTATGCATAAATATTATACT
1 AATTTTATGCATAAATAATATACT
*
10408401 AATTTTAT-CACTAACTAATATA
1 AATTTTATGCA-TAAATAATATA
10408423 GGGTTAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.43
Consensus pattern (24 bp):
AATTTTATGCATAAATAATATACT
Found at i:10415228 original size:1 final size:1
Alignment explanation
Indices: 10415224--10415263 Score: 53
Period size: 1 Copynumber: 40.0 Consensus size: 1
10415214 TAAAAATCTT
* * *
10415224 AAAAAAAAAAAAAAAAAAACAAAAAAACAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10415264 TGGTTTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10415242 original size:15 final size:15
Alignment explanation
Indices: 10415224--10415263 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
10415214 TAAAAATCTT
10415224 AAAAA-AAAAAAAAA
1 AAAAACAAAAAAAAA
*
10415238 AAAAACAAAAAAACA
1 AAAAACAAAAAAAAA
10415253 AAAAACAAAAA
1 AAAAACAAAAA
10415264 TGGTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAACAAAAAAAAA
Found at i:10416763 original size:2 final size:2
Alignment explanation
Indices: 10416756--10416789 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10416746 AAACAAGTAA
10416756 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
10416790 TGGTTTTCTC
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):
AT
Found at i:10419347 original size:1 final size:1
Alignment explanation
Indices: 10419341--10419367 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
10419331 CTAAACTTAC
10419341 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
10419368 CTTAATGTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10427339 original size:12 final size:12
Alignment explanation
Indices: 10427275--10427342 Score: 57
Period size: 12 Copynumber: 5.6 Consensus size: 12
10427265 AAACAAAAAA
10427275 CACTGTAACAGT
1 CACTGTAACAGT
*
10427287 CAACTGTAACTGT
1 C-ACTGTAACAGT
* *
10427300 CACTGTAGCAGA
1 CACTGTAACAGT
** *
10427312 CA-AATAAAACGT
1 CACTGTAACA-GT
10427324 CACTGTAACAGT
1 CACTGTAACAGT
10427336 CACTGTA
1 CACTGTA
10427343 GCAAAAAAAG
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
11 3 0.07
12 23 0.56
13 15 0.37
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (12 bp):
CACTGTAACAGT
Found at i:10429063 original size:26 final size:23
Alignment explanation
Indices: 10429013--10429063 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 23
10429003 TTTATTTTTT
10429013 AAAAAATATAATTTAAAAATAAA
1 AAAAAATATAATTTAAAAATAAA
*
10429036 AAAAAATTATAGATATTAAAAATTAA
1 AAAAAA-TATA-AT-TTAAAAATAAA
10429062 AA
1 AA
10429064 TTCTAAACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
24 4 0.17
25 2 0.08
26 12 0.50
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAAAATATAATTTAAAAATAAA
Found at i:10429382 original size:2 final size:2
Alignment explanation
Indices: 10429377--10429409 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10429367 TGCGATGCAA
10429377 AT AT AT AT 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 AT AT AT AT A
10429410 ATGATATGTC
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.