Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 240 of 410
Found at i:74268193 original size:24 final size:25
Alignment explanation
Indices: 74268147--74268195 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
74268137 TTGCCCAGGC
*
74268147 CCCAACAAGCCCAAAACTAAACCTA
1 CCCAACAAGCCCAAAACCAAACCTA
*
74268172 CCCAACAA-CCCAAAACCCAACCTA
1 CCCAACAAGCCCAAAACCAAACCTA
74268196 TCCTAACCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.47, C:0.45, G:0.02, T:0.06
Consensus pattern (25 bp):
CCCAACAAGCCCAAAACCAAACCTA
Found at i:74270046 original size:79 final size:81
Alignment explanation
Indices: 74269906--74270089 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
74269896 TCGAATGATG
* * *
74269906 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
* *
74269970 CGTGTGAGTTAATA-AA
66 CG-GCGAGTCAATATAA
* **
74269986 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
74270048 TCGGCGAGTCACTATAA
65 TCGGCGAGTCAATATAA
**
74270065 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
74270090 AGCGAGTCGT
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 17 0.19
79 54 0.61
80 18 0.20
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGGCGAGTCAATATAA
Found at i:74270047 original size:40 final size:40
Alignment explanation
Indices: 74269906--74270089 Score: 171
Period size: 39 Copynumber: 4.7 Consensus size: 40
74269896 TCGAATGATG
* *
74269906 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAA
* * * ** *
74269946 TCCGGACTAGGAT-CCGAAGGCATTCGTGTGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
74269986 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
* * * * *
74270025 CCCGGGTTAAGTCCCGAAGGCATTCG-GCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
**
74270065 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
74270090 AGCGAGTCGT
Statistics
Matches: 116, Mismatches: 23, Indels: 11
0.77 0.15 0.07
Matches are distributed among these distances:
39 62 0.53
40 48 0.41
41 6 0.05
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:74271931 original size:3 final size:3
Alignment explanation
Indices: 74271921--74271974 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
74271911 ATAAAAGCAT
74271921 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
74271968 ATA ATA A
1 ATA ATA A
74271975 ACCCTTTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:74272578 original size:3 final size:3
Alignment explanation
Indices: 74272570--74273088 Score: 237
Period size: 3 Copynumber: 173.7 Consensus size: 3
74272560 ATCTAAGATG
* *
74272570 TTA TTA TTA CTC TTA TT- TTCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * ***
74272615 TTA TTA TTA TTA TTA GTA -TA TTA CTG TTT TTA TTA TCA TTA CCC TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
74272662 GTA ATA -TA TTA TTA TTA TTA TTA TTT TCTA TTA TTA TTA GTGA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA -TTA T-TA
* * * * * *
74272709 TTA CTA TTC TTA TTA GTGTA TTG TTA TTTC TTA TTT TTCA -TA TTA TTG
1 TTA TTA TTA TTA TTA -T-TA TTA TTA -TTA TTA TTA TT-A TTA TTA TTA
* *
74272757 TTG TTA TTA GTA TATA TTA TTA TTA TTA TT- TCCTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T--TA TTA TTA TTA TTA
* * * * * * * *
74272804 ATA CTA ATA TCA GTA TTA TCA TT- TT- TTA TTA CTA TTA TT- TT- TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
74272848 TTA CTA TCTA ATA -TA TTA CTA -TA CCTTT TTA TTA TTA TTA CTA TT-
1 TTA TTA T-TA TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA TTA TTA
* * * * *
74272893 GTA TTA TTA CTA TTA TTA TTA -TA TT- TTC TT- TTT TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
74272938 CTA -TA TTA TTT TTA TTT TTA TTT TCTA TTA TTA TTA TCA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * * * *
74272983 TTA ATA CTA ATA TTA ATA TTC TTA TT- TTA CTT- TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * * * * * *
74273027 TTA GTA TTA TTA TTT TTA CTA CTA CTA TTA TTA TTA TCA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
74273075 TTA TTA CTA TTA TT
1 TTA TTA TTA TTA TT
74273089 TTTGTTATCA
Statistics
Matches: 387, Mismatches: 97, Indels: 64
0.71 0.18 0.12
Matches are distributed among these distances:
2 33 0.09
3 328 0.85
4 22 0.06
5 4 0.01
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:74272711 original size:100 final size:99
Alignment explanation
Indices: 74272570--74272801 Score: 231
Period size: 100 Copynumber: 2.3 Consensus size: 99
74272560 ATCTAAGATG
* * * *
74272570 TTATTATTACTCTTATTTTCATTATTATTATTATTATTATTATTATTATTATTA-T-TATTAGTA
1 TTATTATTATTATTATTTTC--TATTATTATTATGATTATTACTATTATTATTAGTGTATT-GT-
*
74272633 TATTAC-TGTTTTT-ATTATCATTACCCTTAGTAATATA
62 TATTACTTATTTTTCA-TATCATTACCCTTAGTAATATA
*
74272670 TTATTATTATTATTATTTTCTATTATTATTAGTGATCTATTACTATTCTTATTAGTGTATTGTTA
1 TTATTATTATTATTATTTTCTATTATTATTA-TGAT-TATTACTATTATTATTAGTGTATTGTTA
* * **** * *
74272735 TTTCTTATTTTTCATATTATTGTTGTTATTAGTATA
64 TTACTTATTTTTCATATCATTACCCTTAGTAATATA
*
74272771 -TATTATTATTATTATTTCCTATTATTATTAT
1 TTATTATTATTATTATTTTCTATTATTATTAT
74272802 TAATACTAAT
Statistics
Matches: 111, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
98 11 0.10
99 4 0.04
100 67 0.60
101 24 0.22
102 5 0.05
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.61
Consensus pattern (99 bp):
TTATTATTATTATTATTTTCTATTATTATTATGATTATTACTATTATTATTAGTGTATTGTTATT
ACTTATTTTTCATATCATTACCCTTAGTAATATA
Found at i:74272845 original size:16 final size:16
Alignment explanation
Indices: 74272824--74272854 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
74272814 CAGTATTATC
74272824 ATTTTTTATTACTATT
1 ATTTTTTATTACTATT
*
74272840 ATTTTTTTTTACTAT
1 ATTTTTTATTACTAT
74272855 CTAATATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTTTATTACTATT
Found at i:74272901 original size:20 final size:20
Alignment explanation
Indices: 74272876--74273078 Score: 60
Period size: 20 Copynumber: 9.9 Consensus size: 20
74272866 CTATACCTTT
* *
74272876 TTATTATTATTACTATTGTA
1 TTATTACTATTACTATTATA
*
74272896 TTATTACTATTATTATTATA
1 TTATTACTATTACTATTATA
* **
74272916 TT-TT-CTTTTTTTATTACTA
1 TTATTACTATTACTATTA-TA
* * * *
74272935 TTACTA-TATTATTTTTATTT
1 TTATTACTATTACTATTA-TA
* *
74272955 TTATTTTCTATTATTATTATCA
1 TTA-TTACTATTACTATTAT-A
* *
74272977 TTATTATTAATACTAATATTAATA
1 TTATTACT-AT--TACTATT-ATA
* *
74273001 TTCTTA-TTTTACT-TT-TA
1 TTATTACTATTACTATTATA
*
74273018 TTATTA-TCATTAGTATTATTA
1 TTATTACT-ATTACTATTA-TA
* *
74273039 TTTTTACTACTACTATTATTA
1 TTATTACTATTACTATTA-TA
* * *
74273060 TTATCAATATTATTATTAT
1 TTATTACTATTACTATTAT
74273079 TACTATTATT
Statistics
Matches: 136, Mismatches: 32, Indels: 30
0.69 0.16 0.15
Matches are distributed among these distances:
17 8 0.06
18 14 0.10
19 10 0.07
20 36 0.26
21 36 0.26
22 17 0.12
23 1 0.01
24 12 0.09
25 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (20 bp):
TTATTACTATTACTATTATA
Found at i:74279111 original size:46 final size:46
Alignment explanation
Indices: 74279017--74279129 Score: 131
Period size: 46 Copynumber: 2.5 Consensus size: 46
74279007 TTCGACATTA
* * *
74279017 AGACGAGAGCTAGTGTAAGACATGCCTGGGACATGCATTGGCCTCG
1 AGACGATAGCCAGTGTAAGACATGCCTGGGACATGCATCGGCCTCG
* *
74279063 AGACG-TATGCCAGTGTAAGATATGTCTGGGACATGCATCGG-CTACG
1 AGACGATA-GCCAGTGTAAGACATGCCTGGGACATGCATCGGCCT-CG
* *
74279109 AGATGATAGTCAGTGTAAGAC
1 AGACGATAGCCAGTGTAAGAC
74279130 CATGTTTGGG
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
45 3 0.05
46 51 0.91
47 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (46 bp):
AGACGATAGCCAGTGTAAGACATGCCTGGGACATGCATCGGCCTCG
Found at i:74281471 original size:20 final size:20
Alignment explanation
Indices: 74281448--74281504 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
74281438 AAAATTTTCA
74281448 AAAAATTTATAAAATATTAC
1 AAAAATTTATAAAATATTAC
* **
74281468 AAAATTTTATAAAATTATTTT
1 AAAAATTTATAAAA-TATTAC
*
74281489 AAAAA-TTAAAAAATAT
1 AAAAATTTATAAAATAT
74281505 AAATTTATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.10
20 20 0.65
21 8 0.26
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATTTATAAAATATTAC
Found at i:74285371 original size:18 final size:20
Alignment explanation
Indices: 74285330--74285374 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
74285320 TTTAACATTT
74285330 AATTTTTACATAATCATATTA
1 AATTTTTACATAATCATA-TA
74285351 AATTTTTACATAAT-ATA-A
1 AATTTTTACATAATCATATA
74285369 AATTTT
1 AATTTT
74285375 CAAAAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.29
20 3 0.12
21 14 0.58
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTTTTACATAATCATATA
Found at i:74295087 original size:21 final size:22
Alignment explanation
Indices: 74295062--74295108 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
74295052 CAGCACATTG
*
74295062 AAAA-GTCTTACATGACAAGGA
1 AAAAGGTCTTACACGACAAGGA
*
74295083 AAAAGGTCTTACACGGCAAGGA
1 AAAAGGTCTTACACGACAAGGA
74295105 AAAA
1 AAAA
74295109 AGTCAGCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (22 bp):
AAAAGGTCTTACACGACAAGGA
Found at i:74295247 original size:2 final size:2
Alignment explanation
Indices: 74295240--74295290 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
74295230 AAAGAGAAAA
74295240 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
74295282 AG AG AG AG A
1 AG AG AG AG A
74295291 CAGTTTGTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:74298206 original size:34 final size:34
Alignment explanation
Indices: 74298161--74298230 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
74298151 TGGTGTAGAC
74298161 TATGATAAAGTAGTTGCCCAGTCGCCAGAATTGA
1 TATGATAAAGTAGTTGCCCAGTCGCCAGAATTGA
* *
74298195 TATGATGAAGTAGTTGCCCAGTTGCCAGAATTGA
1 TATGATAAAGTAGTTGCCCAGTCGCCAGAATTGA
74298229 TA
1 TA
74298231 CTGTAAGGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (34 bp):
TATGATAAAGTAGTTGCCCAGTCGCCAGAATTGA
Found at i:74299650 original size:22 final size:22
Alignment explanation
Indices: 74299624--74299665 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
74299614 CATTGAAAAG
*
74299624 TCTTACACGGCAAGGAAAAATA
1 TCTTACACGACAAGGAAAAATA
*
74299646 TCTTACATGACAAGGAAAAA
1 TCTTACACGACAAGGAAAAA
74299666 AGTCGGCTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (22 bp):
TCTTACACGACAAGGAAAAATA
Found at i:74302864 original size:22 final size:22
Alignment explanation
Indices: 74302839--74302881 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
74302829 ACTTGTATTT
74302839 TTAAATTCAAAAAATAAAAAGA
1 TTAAATTCAAAAAATAAAAAGA
* *
74302861 TTAAATTCCAAATATAAAAAG
1 TTAAATTCAAAAAATAAAAAG
74302882 TTTGAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.26
Consensus pattern (22 bp):
TTAAATTCAAAAAATAAAAAGA
Found at i:74319863 original size:139 final size:139
Alignment explanation
Indices: 74319613--74319874 Score: 479
Period size: 139 Copynumber: 1.9 Consensus size: 139
74319603 AATTATGTTA
74319613 TGAGTTAGTACAGGTATGTACGTAAAACTCTTGAGTAAAGATTTCAATATGTTAAGTACTTGTGG
1 TGAGTTAGTACAGGTATGTACGTAAAACTCTTGAGTAAAGATTTCAATATGTTAAGTACTTGTGG
* * *
74319678 TAAGAGTATGTATAAGGAGGTTAAGCTTATGAAACTTTGTTTTACTTTAACTATTGAGTCATGTT
66 TAAGAGTATGTATAAGAAGATTAAGCTTATGAAACTTTATTTTACTTTAACTATTGAGTCATGTT
74319743 GTTTATTAT
131 GTTTATTAT
* *
74319752 TGAGTTAGTATAGGTATGTATGTAAAACTCTTGAGTAAAGATTTCAATATGTTAAGTACTTGTGG
1 TGAGTTAGTACAGGTATGTACGTAAAACTCTTGAGTAAAGATTTCAATATGTTAAGTACTTGTGG
74319817 TAAGAGTATGTATAAGAAGATTAAGCTTATGAAACTTTATTTTACTTTAACTATTGAG
66 TAAGAGTATGTATAAGAAGATTAAGCTTATGAAACTTTATTTTACTTTAACTATTGAG
74319875 CTTACTAAGC
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
139 118 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (139 bp):
TGAGTTAGTACAGGTATGTACGTAAAACTCTTGAGTAAAGATTTCAATATGTTAAGTACTTGTGG
TAAGAGTATGTATAAGAAGATTAAGCTTATGAAACTTTATTTTACTTTAACTATTGAGTCATGTT
GTTTATTAT
Found at i:74320881 original size:43 final size:43
Alignment explanation
Indices: 74320833--74320919 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
74320823 AATGAAGTTT
*
74320833 AGATATGTTCCGAAATAGTTTTAAATTTTACCAAGTCTTGATG
1 AGATATCTTCCGAAATAGTTTTAAATTTTACCAAGTCTTGATG
*
74320876 AGATATCTTCTGAAATAGTTTTAAATTTTACCAAGTCTTGATG
1 AGATATCTTCCGAAATAGTTTTAAATTTTACCAAGTCTTGATG
74320919 A
1 A
74320920 CTTGGAAACG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (43 bp):
AGATATCTTCCGAAATAGTTTTAAATTTTACCAAGTCTTGATG
Found at i:74322586 original size:21 final size:20
Alignment explanation
Indices: 74322540--74322595 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
74322530 ATATATTTAG
*
74322540 AATTTTAAAATTTTGAATAT
1 AATTTTAAAATTTTTAATAT
**
74322560 TCTTTTAAAATTTTTAATAT
1 AATTTTAAAATTTTTAATAT
*
74322580 AAATTTTAGAATTTTT
1 -AATTTTAAAATTTTT
74322596 TATCAACTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (20 bp):
AATTTTAAAATTTTTAATAT
Found at i:74323025 original size:18 final size:18
Alignment explanation
Indices: 74322989--74323025 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
74322979 TTAATTTTTG
* *
74322989 AATTCAAATAACTCTAAT
1 AATTCAAATAAATCGAAT
74323007 AATTCAAATAAATCGAAT
1 AATTCAAATAAATCGAAT
74323025 A
1 A
74323026 CCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.30
Consensus pattern (18 bp):
AATTCAAATAAATCGAAT
Found at i:74330622 original size:49 final size:49
Alignment explanation
Indices: 74330521--74330650 Score: 147
Period size: 49 Copynumber: 2.7 Consensus size: 49
74330511 CATCAAAGTT
* * *
74330521 GATGCCATGTCCCAAATAGGTCTTACACTGACTTTCATATGTCGAGGCC
1 GATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAGGCC
** * *
74330570 GATGCTGTGTCCCAAACAGGTCTTACACT-AGCTCTCATCTATCG-GTGTC
1 GATGCCATGTCCCAAACAGGTCTTACACTGA-CTCTCATATATCGAG-GCC
* *
74330619 GATGCCATGTCCTAGACAGGTCTTACACTGAC
1 GATGCCATGTCCCAAACAGGTCTTACACTGAC
74330651 ACACAACAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 2 0.03
49 64 0.96
50 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATATCGAGGCC
Found at i:74332075 original size:2 final size:2
Alignment explanation
Indices: 74332068--74332095 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
74332058 ACATTCGGAC
74332068 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
74332096 GTGTGTGTGT
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:74332602 original size:29 final size:29
Alignment explanation
Indices: 74332567--74332640 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
74332557 GTTGTGAGAT
* *
74332567 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
74332596 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
74332625 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
74332641 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:74335037 original size:12 final size:12
Alignment explanation
Indices: 74335020--74335058 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
74335010 CGGCCCGCCC
74335020 ATATTAATTTTT
1 ATATTAATTTTT
*
74335032 ATATTATTTTTT
1 ATATTAATTTTT
*
74335044 ATA-TAATTTTA
1 ATATTAATTTTT
74335055 ATAT
1 ATAT
74335059 ATATATAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:74335211 original size:30 final size:31
Alignment explanation
Indices: 74335175--74335241 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
74335165 CAATTTAACA
*
74335175 AGCAAATGCCTCTAAAATAATAA-CAAAATT
1 AGCAAATGCCTCTAAAATAATAATAAAAATT
* *
74335205 AGCAAATGTCTTTAAAATAATAATAAAAATT
1 AGCAAATGCCTCTAAAATAATAATAAAAATT
*
74335236 AACAAA
1 AGCAAA
74335242 AAATAAGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.57, C:0.12, G:0.06, T:0.25
Consensus pattern (31 bp):
AGCAAATGCCTCTAAAATAATAATAAAAATT
Found at i:74346170 original size:24 final size:24
Alignment explanation
Indices: 74346143--74346195 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
74346133 AAAGAAAAGA
* *
74346143 AAAAAAACAATTCAAAATCAACAG
1 AAAAAAACAATCCAAAAACAACAG
* * *
74346167 AAAAAAGCAGTCCAAAAACAATAG
1 AAAAAAACAATCCAAAAACAACAG
74346191 AAAAA
1 AAAAA
74346196 TATAAAATTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.68, C:0.15, G:0.08, T:0.09
Consensus pattern (24 bp):
AAAAAAACAATCCAAAAACAACAG
Found at i:74347268 original size:7 final size:7
Alignment explanation
Indices: 74347256--74347288 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
74347246 GAGGAAAGGA
74347256 CTTGGGG
1 CTTGGGG
74347263 CTTGGGG
1 CTTGGGG
74347270 CTTGGGG
1 CTTGGGG
74347277 CTTGGGG
1 CTTGGGG
74347284 CTTGG
1 CTTGG
74347289 AGGGATTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.00, C:0.15, G:0.55, T:0.30
Consensus pattern (7 bp):
CTTGGGG
Found at i:74351510 original size:30 final size:30
Alignment explanation
Indices: 74351474--74351530 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
74351464 TCAGGCACAC
74351474 ATTAGTATCCTAATCAGATCAGTCTAACAT
1 ATTAGTATCCTAATCAGATCAGTCTAACAT
74351504 ATTAGTATCCTAATCAGATCAGTCTAA
1 ATTAGTATCCTAATCAGATCAGTCTAA
74351531 TAGAATTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (30 bp):
ATTAGTATCCTAATCAGATCAGTCTAACAT
Found at i:74354713 original size:46 final size:46
Alignment explanation
Indices: 74354646--74354810 Score: 185
Period size: 46 Copynumber: 3.6 Consensus size: 46
74354636 CGCCCCTAAT
*
74354646 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAG
* * *
74354692 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCATAAG
* * * *
74354739 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAG
74354785 TGAACTCGGACTCAACTCAACGAGTT
1 TGAACTCGGACTCAACTCAACGAGTT
74354811 TGGATGCTCA
Statistics
Matches: 98, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 1 0.01
45 2 0.02
46 53 0.54
47 28 0.29
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAG
Found at i:74354754 original size:93 final size:93
Alignment explanation
Indices: 74354647--74354817 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
74354637 GCCCCTAATT
* *
74354647 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
74354712 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
74354740 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
74354805 CGAGTTTGGATGC
66 CGAGTTCGGATGC
74354818 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:74354833 original size:46 final size:46
Alignment explanation
Indices: 74354641--74354826 Score: 127
Period size: 46 Copynumber: 4.0 Consensus size: 46
74354631 TAACCCGCCC
* * ** * *
74354641 CTAATTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
74354685 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CAT
1 -C-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCAT
* * * * *
74354735 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGT-ATCCA-
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-TCAACCAT
*
74354781 -TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
74354826 C
1 C
74354827 CTAGTGACAT
Statistics
Matches: 110, Mismatches: 15, Indels: 31
0.71 0.10 0.20
Matches are distributed among these distances:
43 1 0.01
44 7 0.06
45 4 0.04
46 59 0.54
47 30 0.27
48 2 0.02
49 4 0.04
50 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (46 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
Found at i:74355271 original size:30 final size:30
Alignment explanation
Indices: 74355237--74355296 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
74355227 ATTTAATACG
74355237 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
74355267 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
74355297 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:74358570 original size:40 final size:40
Alignment explanation
Indices: 74358525--74358692 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
74358515 CGGAATATAA
74358525 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
74358565 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
74358605 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
74358645 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
74358685 CCGGATAT
1 CCGGATAT
74358693 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:74358675 original size:80 final size:80
Alignment explanation
Indices: 74358541--74358690 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
74358531 ATAACCACGT
* *
74358541 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
74358606 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
74358621 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
74358684 CCCGGAT
64 CCCGGAT
74358691 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:74366592 original size:40 final size:40
Alignment explanation
Indices: 74366547--74366714 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
74366537 CGGAATATAA
74366547 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
74366587 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
74366627 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
74366667 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
74366707 CCGGATAT
1 CCGGATAT
74366715 CATTCAATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 103 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:74366697 original size:80 final size:80
Alignment explanation
Indices: 74366563--74366712 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
74366553 ATAACCACGT
* *
74366563 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
74366628 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** * *
74366643 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
74366706 CCCGGAT
64 CCCGGAT
74366713 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:74373156 original size:27 final size:31
Alignment explanation
Indices: 74373094--74373160 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
74373084 TGTTTTAGAT
* *
74373094 TTTATTTTATTTATTATTTTTATTTGATGGC
1 TTTATTTTATTTATTATTTTTACTTGATAGC
74373125 TTTTATTTTA-TT-TTATTTTTACTT-ATAG-
1 -TTTATTTTATTTATTATTTTTACTTGATAGC
74373153 TTTATTTT
1 TTTATTTT
74373161 TAGGAAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
27 8 0.24
29 3 0.09
30 11 0.33
31 2 0.06
32 9 0.27
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (31 bp):
TTTATTTTATTTATTATTTTTACTTGATAGC
Found at i:74373669 original size:21 final size:21
Alignment explanation
Indices: 74373643--74373697 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
74373633 TGTTAGAATT
*
74373643 CACACGGCTGTGTCCCTTGAG
1 CACACGGCCGTGTCCCTTGAG
*
74373664 CACACGGCCGTGTCCCTTGGG
1 CACACGGCCGTGTCCCTTGAG
* *
74373685 CTCACGGGCGTGT
1 CACACGGCCGTGT
74373698 AGGTTTGGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.11, C:0.35, G:0.33, T:0.22
Consensus pattern (21 bp):
CACACGGCCGTGTCCCTTGAG
Found at i:74375977 original size:19 final size:17
Alignment explanation
Indices: 74375955--74376003 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 17
74375945 TTTGTTTTTA
74375955 ATTTTATTTTTATTATTAC
1 ATTTTATTTTTATTA--AC
74375974 ATTTTTAGTTTTTATTAAC
1 A-TTTTA-TTTTTATTAAC
74375993 ATTATTATTTT
1 ATT-TTATTTT
74376004 GTAATTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 6 0.22
19 7 0.26
20 5 0.19
21 9 0.33
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTTTATTTTTATTAAC
Found at i:74377108 original size:33 final size:35
Alignment explanation
Indices: 74377071--74377142 Score: 87
Period size: 33 Copynumber: 2.1 Consensus size: 35
74377061 CAAATAAATA
74377071 AAAATTTTAATAGA-AAAGATTAA-TT-TATTTTTT
1 AAAA-TTTAATAGATAAAGATTAACTTATATTTTTT
**
74377104 AAAATTTAATTTATAAAGATTAACTTACTATTTTTT
1 AAAATTTAATAGATAAAGATTAACTTA-TATTTTTT
74377140 AAA
1 AAA
74377143 TAAAAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
32 7 0.21
33 13 0.39
34 2 0.06
36 11 0.33
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (35 bp):
AAAATTTAATAGATAAAGATTAACTTATATTTTTT
Found at i:74377612 original size:23 final size:24
Alignment explanation
Indices: 74377585--74377644 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 24
74377575 TTTAATTTTC
**
74377585 ACGAACATGTTCATTTAAC-TTAA
1 ACGAACATGTTCATCAAACATTAA
*
74377608 TCGAACATGTTCA-CAAACATTAA
1 ACGAACATGTTCATCAAACATTAA
74377631 ACGAACATGTTCAT
1 ACGAACATGTTCAT
74377645 GGACATATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 3 0.10
23 28 0.90
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (24 bp):
ACGAACATGTTCATCAAACATTAA
Found at i:74384073 original size:17 final size:17
Alignment explanation
Indices: 74384053--74384134 Score: 123
Period size: 17 Copynumber: 4.9 Consensus size: 17
74384043 TTTATTATAA
74384053 AAATTAATTCTTAATAG
1 AAATTAATTCTTAATAG
74384070 AAATTAATTCTTAATA-
1 AAATTAATTCTTAATAG
*
74384086 AAATTAATTCTTAATTG
1 AAATTAATTCTTAATAG
74384103 AAATTAATTCTTAATAG
1 AAATTAATTCTTAATAG
*
74384120 -AGTTAATTTCTTAAT
1 AAATTAA-TTCTTAAT
74384135 TTTTATAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
16 20 0.33
17 40 0.67
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (17 bp):
AAATTAATTCTTAATAG
Found at i:74384089 original size:33 final size:33
Alignment explanation
Indices: 74384052--74384134 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
74384042 ATTTATTATA
74384052 AAAATTAATTCTTAATAGAAATTAATTCTTAAT
1 AAAATTAATTCTTAATAGAAATTAATTCTTAAT
*
74384085 AAAATTAATTCTTAATTGAAATTAATTCTTAAT
1 AAAATTAATTCTTAATAGAAATTAATTCTTAAT
* *
74384118 AGAGTTAATTTCTTAAT
1 AAAATTAA-TTCTTAAT
74384135 TTTTATAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 38 0.83
34 8 0.17
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.45
Consensus pattern (33 bp):
AAAATTAATTCTTAATAGAAATTAATTCTTAAT
Found at i:74385103 original size:22 final size:23
Alignment explanation
Indices: 74385073--74385121 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
74385063 AATTTAACCA
*
74385073 AATTTATTTATTTTATA-TTTTT-
1 AATTAATTT-TTTTATAGTTTTTC
*
74385095 AATTAATTTTTTTTTAGTTTTTC
1 AATTAATTTTTTTATAGTTTTTC
74385118 AATT
1 AATT
74385122 TTTTGTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.26
22 13 0.57
23 4 0.17
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (23 bp):
AATTAATTTTTTTATAGTTTTTC
Found at i:74388148 original size:48 final size:46
Alignment explanation
Indices: 74388031--74388249 Score: 167
Period size: 48 Copynumber: 4.6 Consensus size: 46
74388021 ATGCTGACGC
* * * **
74388031 CATGTCCCAGACATGGTTTTACACTAGCTCTCATCTGTC-AATGTTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCT-TGATCT-CCGAA-GCCGATG
* * *
74388080 CCATGTCCCAGCCAGGTCTTACACTAGCTTGTATCTCGCGAGGCCGATG
1 -CATGTCCCAGACATGTCTTACACTAGCTTG-ATCTC-CGAAGCCGATG
*
74388129 CATGTCCCAGGCATGTCTTACACTAGCTCTCGA-CT-C-AATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-T-GATCTCCGAA-GCCGATG
* * * * *
74388175 CATGTCTCAGACATGTCTTACACTGGCTTAAATATCTCGAAGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-GATCTC-CGAAGCCGATG
*
74388223 CATGTCCCAGACCTGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
74388250 ATACAAATGA
Statistics
Matches: 138, Mismatches: 21, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
45 3 0.02
46 34 0.25
48 60 0.43
49 27 0.20
50 14 0.10
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGATCTCCGAAGCCGATG
Found at i:74388196 original size:94 final size:96
Alignment explanation
Indices: 74388031--74388249 Score: 255
Period size: 94 Copynumber: 2.3 Consensus size: 96
74388021 ATGCTGACGC
* ** *
74388031 CATGTCCCAGACATGGTTTTACACTAGCTCTCATCTGTCAATGTTGATGCCATGTCCCAGCCAGG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATC-GTCAATGCCGATGCCATGTCCCAGACAGG
** * *
74388096 TCTTACACTAGCTTGTATCTCGCGAGGCCGATG
64 TCTTACACTAGCTTAAATATCGCGAAGCCGATG
* * *
74388129 CATGTCCCAGGCATGTCTTACACTAGCTCTCGA-C-TCAATGCCGATG-CATGTCTCAGACATGT
1 CATGTCCCAGACATGTCTTACACTAGCTCTC-ATCGTCAATGCCGATGCCATGTCCCAGACAGGT
* * *
74388191 CTTACACTGGCTTAAATATCTCGAAGTCGATG
65 CTTACACTAGCTTAAATATCGCGAAGCCGATG
*
74388223 CATGTCCCAGACCTGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
74388250 ATACAAATGA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
94 63 0.61
95 10 0.10
97 17 0.16
98 14 0.13
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (96 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCGTCAATGCCGATGCCATGTCCCAGACAGGTC
TTACACTAGCTTAAATATCGCGAAGCCGATG
Found at i:74395854 original size:46 final size:46
Alignment explanation
Indices: 74395651--74395959 Score: 204
Period size: 46 Copynumber: 6.6 Consensus size: 46
74395641 ATGCTTACAC
* *
74395651 CATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCAATGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTCTCATC--TCAATGCCGATG
* * * * * *
74395700 CCATGTCCCAGACAGGTCTTACACT-G-ACACA-CAACAA-GCTGACG
1 -CATGTCCCAGACATGTCTTACACTAGCTCTCATC-TCAATGCCGATG
* * * *
74395744 CCATGTCCCAAACAGGTCTTACACTAGCT-TGCATCTCGCGAGGCCGATG
1 -CATGTCCCAGACATGTCTTACACTAGCTCT-CATCT--CAATGCCGATG
* *
74395793 CATGTCCTAGGCATGTCTTACACTAGCTCTCGA-CTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTC-ATCTCAATGCCGATG
* * **** *
74395839 CATGTCCCAGACATGTCTTACACTGGCT-TAAATATCTGGGGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT---CATCTCAATGCCGATG
* * *
74395887 CATGTCCCAGACATGTCTTACACTGGCTCTCATACT--GTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTCAAT-GCCGATG
74395933 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
74395960 ATACAAATGA
Statistics
Matches: 211, Mismatches: 32, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
44 28 0.13
45 7 0.03
46 72 0.34
47 7 0.03
48 66 0.31
49 18 0.09
50 13 0.06
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCCGATG
Found at i:74395861 original size:94 final size:94
Alignment explanation
Indices: 74395695--74395959 Score: 256
Period size: 94 Copynumber: 2.8 Consensus size: 94
74395685 CTATCAATGT
* * * * * *
74395695 CGATGCCATGTCCCAGACAGGTCTTACACT-GACACACA-ACAA--GCTGACGCCATGTCCCAAA
1 CGATG-CATGTCCCAGACATGTCTTACACTAG-CTCTCATACAATGGCCGATG-CATGTCCCAGA
* ** *
74395756 CAGGTCTTACACTAGCTTGCATCTC-GCGAGGC
63 CATGTCTTACACTAGCTTAAATATCTG-GAGGC
* *
74395788 CGATGCATGTCCTAGGCATGTCTTACACTAGCTCTCGACT-CAAT-GCCGATGCATGTCCCAGAC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTC-A-TACAATGGCCGATGCATGTCCCAGAC
* *
74395851 ATGTCTTACACTGGCTTAAATATCTGGGGGC
64 ATGTCTTACACTAGCTTAAATATCTGGAGGC
* * ** *
74395882 TGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGTGGCTGATGCATGTCCCAGACAT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATACAATGGCCGATGCATGTCCCAGACAT
74395947 GTCTTACACTAGC
66 GTCTTACACTAGC
74395960 ATACAAATGA
Statistics
Matches: 142, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
92 25 0.18
93 10 0.07
94 101 0.71
95 6 0.04
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (94 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATACAATGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTTAAATATCTGGAGGC
Found at i:74400142 original size:18 final size:18
Alignment explanation
Indices: 74400108--74400167 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
74400098 AATCGGTTAA
* *
74400108 TCAGTAATATTCATTTAT
1 TCAGTAACAGTCATTTAT
* *
74400126 TCAGTATCAGTCGTTTAT
1 TCAGTAACAGTCATTTAT
*
74400144 TCTA-TAACAGTCAATTAT
1 TC-AGTAACAGTCATTTAT
74400162 TCAGTA
1 TCAGTA
74400168 GCAGACAGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (18 bp):
TCAGTAACAGTCATTTAT
Found at i:74400308 original size:6 final size:6
Alignment explanation
Indices: 74400299--74400331 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
74400289 CACCGTAAGG
*
74400299 GTAACA GTAACA GTAACA ATAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
74400332 GCGGTACACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:74400709 original size:37 final size:37
Alignment explanation
Indices: 74400660--74400731 Score: 85
Period size: 37 Copynumber: 1.9 Consensus size: 37
74400650 TTCAATTTTC
*
74400660 CACTCAATATTCACATA-TTCTATTCAATATCAATAAT
1 CACTCAATATTCACAAATTTCTATTCAAT-TCAATAAT
* *
74400697 CACT-AATAATTCATAAATTTTTATTCAATTCAATA
1 CACTCAAT-ATTCACAAATTTCTATTCAATTCAATA
74400732 CCACCATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 3 0.10
37 17 0.57
38 10 0.33
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (37 bp):
CACTCAATATTCACAAATTTCTATTCAATTCAATAAT
Found at i:74400743 original size:3 final size:3
Alignment explanation
Indices: 74400737--74400778 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
74400727 CAATACCACC
74400737 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
74400779 CTTATCATTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:74408264 original size:17 final size:18
Alignment explanation
Indices: 74408233--74408266 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
74408223 AAAAAAACAC
74408233 TTAACAACACAAGTTTAT
1 TTAACAACACAAGTTTAT
74408251 TTAACAAC-CAAGTTTA
1 TTAACAACACAAGTTTA
74408267 ATAATCTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (18 bp):
TTAACAACACAAGTTTAT
Found at i:74415558 original size:30 final size:31
Alignment explanation
Indices: 74415522--74415579 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
74415512 CTATATCATC
74415522 CACATTTGC-TCATCATACCCTGTAATTGGT
1 CACATTTGCATCATCATACCCTGTAATTGGT
* **
74415552 CACATTTTCATTTTCATACCCTGTAATT
1 CACATTTGCATCATCATACCCTGTAATT
74415580 ATTCATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.41
Consensus pattern (31 bp):
CACATTTGCATCATCATACCCTGTAATTGGT
Found at i:74415590 original size:31 final size:31
Alignment explanation
Indices: 74415534--74415592 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
74415524 CATTTGCTCA
*
74415534 TCATACCCTGTAATTGGTCACATTTTCATTT
1 TCATACCCTGTAATTAGTCACATTTTCATTT
* *
74415565 TCATACCCTGTAATTATTCATATTTTCA
1 TCATACCCTGTAATTAGTCACATTTTCA
74415593 CATTTCATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.46
Consensus pattern (31 bp):
TCATACCCTGTAATTAGTCACATTTTCATTT
Found at i:74431814 original size:43 final size:43
Alignment explanation
Indices: 74431730--74431817 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
74431720 ACATAATCGT
* * **
74431730 TCAATGCCAACGTCCTAGACATGGTCTTACATGTAGCCACATA
1 TCAATGCCAACGTCCCAGACAGGGTCTTACATGTAAACACATA
74431773 TCAATGCC-ACTGTCCCAGACAGGGTCTTAC-TCGTAAACACATA
1 TCAATGCCAAC-GTCCCAGACAGGGTCTTACAT-GTAAACACATA
74431816 TC
1 TC
74431818 GGAACCACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 3 0.08
43 36 0.92
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (43 bp):
TCAATGCCAACGTCCCAGACAGGGTCTTACATGTAAACACATA
Found at i:74432026 original size:2 final size:2
Alignment explanation
Indices: 74432019--74432050 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
74432009 TCAATTCAGC
74432019 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
74432051 TACATTTAAT
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:74442365 original size:39 final size:39
Alignment explanation
Indices: 74442322--74442399 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
74442312 TGTCTTTGAC
* * *
74442322 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATAT
**
74442361 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATAT
74442400 TTCTAATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (39 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATAT
Found at i:74442981 original size:22 final size:22
Alignment explanation
Indices: 74442953--74442997 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
74442943 AATTTCATAC
74442953 TAAAAACTTCTAGAATGCAAGT
1 TAAAAACTTCTAGAATGCAAGT
74442975 TAAAAACTTCTAGAATGCAAGT
1 TAAAAACTTCTAGAATGCAAGT
74442997 T
1 T
74442998 TTGCAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (22 bp):
TAAAAACTTCTAGAATGCAAGT
Found at i:74449899 original size:16 final size:17
Alignment explanation
Indices: 74449878--74449916 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
74449868 TTTGTAACGC
74449878 CCCAAAAATCCCGAAA-
1 CCCAAAAATCCCGAAAT
74449894 CCCAAAAATCCCGAAAT
1 CCCAAAAATCCCGAAAT
74449911 CCCAAA
1 CCCAAA
74449917 CTTTTTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.49, C:0.38, G:0.05, T:0.08
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:74451624 original size:2 final size:2
Alignment explanation
Indices: 74451617--74451645 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
74451607 GAGACTAGTC
74451617 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 A
74451646 CACACACATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:74452372 original size:139 final size:139
Alignment explanation
Indices: 74452197--74452478 Score: 546
Period size: 139 Copynumber: 2.0 Consensus size: 139
74452187 GATTTTCCAA
74452197 AGTCAGAACAGGGGATCACGTAATCATTCTGAACCAGTCTCACAAAAACATAAATATCTCAAAAT
1 AGTCAGAACAGGGGATCACGTAATCATTCTGAACCAGTCTCACAAAAACATAAATATCTCAAAAT
*
74452262 ATAGAACTCCTTTTCTTGATCTGTTTCTTTTATATAAAAATAGACTCATTAAGCTTTAATTTCAT
66 ATAGAACTCCTTTTCTTGATCTGTTTCTTTTATATAAAAATAGACTCATTAAGCTTTAATTTCAA
74452327 ATCTCATTT
131 ATCTCATTT
*
74452336 AGTCAGAACAGGGGATCACGTAATCATTCTGAACCAGTCTCATAAAAACATAAATATCTCAAAAT
1 AGTCAGAACAGGGGATCACGTAATCATTCTGAACCAGTCTCACAAAAACATAAATATCTCAAAAT
74452401 ATAGAACTCCTTTTCTTGATCTGTTTCTTTTATATAAAAATAGACTCATTAAGCTTTAATTTCAA
66 ATAGAACTCCTTTTCTTGATCTGTTTCTTTTATATAAAAATAGACTCATTAAGCTTTAATTTCAA
74452466 ATCTCATTT
131 ATCTCATTT
74452475 AGTC
1 AGTC
74452479 TCTGATTCAA
Statistics
Matches: 141, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 141 1.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.35
Consensus pattern (139 bp):
AGTCAGAACAGGGGATCACGTAATCATTCTGAACCAGTCTCACAAAAACATAAATATCTCAAAAT
ATAGAACTCCTTTTCTTGATCTGTTTCTTTTATATAAAAATAGACTCATTAAGCTTTAATTTCAA
ATCTCATTT
Found at i:74455142 original size:28 final size:28
Alignment explanation
Indices: 74455106--74455195 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 28
74455096 GTGAGCATGA
*
74455106 ATATGAATGTGACTAT-GCCTAACGGGCC
1 ATATAAATGTGA-TATGGCCTAACGGGCC
* *
74455134 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATAT-GGCCTAACGGGCC
* * * * *
74455163 ATATACAGGTGATTTGGGCCTAATGGGTC
1 ATATAAATGTGATAT-GGCCTAACGGGCC
74455192 ATAT
1 ATAT
74455196 GAATATGAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
27 2 0.04
28 11 0.20
29 41 0.76
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (28 bp):
ATATAAATGTGATATGGCCTAACGGGCC
Found at i:74455162 original size:29 final size:29
Alignment explanation
Indices: 74455122--74455218 Score: 115
Period size: 29 Copynumber: 3.4 Consensus size: 29
74455112 ATGTGACTAT
*
74455122 GCCTAACGGGCCATATAAATGTGATTTGG
1 GCCTAATGGGCCATATAAATGTGATTTGG
* *
74455151 GCCTAATGGGCCATATACAGGTGATTTGG
1 GCCTAATGGGCCATATAAATGTGATTTGG
* * * *
74455180 GCCTAATGGGTCATATGAATATGA-ATGG
1 GCCTAATGGGCCATATAAATGTGATTTGG
*
74455208 GCTTAATGGGC
1 GCCTAATGGGC
74455219 TAGATACAGG
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
28 12 0.21
29 45 0.79
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (29 bp):
GCCTAATGGGCCATATAAATGTGATTTGG
Found at i:74456008 original size:18 final size:18
Alignment explanation
Indices: 74455982--74456023 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
74455972 CTAGGTGGCC
*
74455982 GACTAGCAAGATAATTCG
1 GACTTGCAAGATAATTCG
74456000 GACTTGCAAGATAATTCG
1 GACTTGCAAGATAATTCG
74456018 GACTTG
1 GACTTG
74456024 GTTTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (18 bp):
GACTTGCAAGATAATTCG
Found at i:74459307 original size:13 final size:13
Alignment explanation
Indices: 74459291--74459319 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
74459281 TAATGACCAA
74459291 AATATTATATTTC
1 AATATTATATTTC
74459304 AATATTATATTTC
1 AATATTATATTTC
74459317 AAT
1 AAT
74459320 GACATCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (13 bp):
AATATTATATTTC
Found at i:74460468 original size:20 final size:20
Alignment explanation
Indices: 74460443--74460481 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
74460433 TATAATATTT
74460443 GTAATAATTT-GTGTAATTAG
1 GTAAT-ATTTGGTGTAATTAG
74460463 GTAATATTTGGTGTAATTA
1 GTAATATTTGGTGTAATTA
74460482 AAGCCGATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
GTAATATTTGGTGTAATTAG
Found at i:74463398 original size:113 final size:110
Alignment explanation
Indices: 74463281--74463486 Score: 290
Period size: 113 Copynumber: 1.9 Consensus size: 110
74463271 AGTATTTTTT
*
74463281 AAAAAAATTT-GGTTCTAGCCTTTTAATGGCCAGCACCAGGGACTTTTTTAGTGTCCCAACGCAA
1 AAAAAAATTTGGGTTCTAGCCTTCTAATGGCCAGCACCAGGGACTTTTTTAGTGTCCCAACGC-A
*
74463345 ATTTTTTTTT-TTACCTTTCTACATTGATGGCCAGCTCCAGACCGGTAA
65 ATTTTTTTTTATT---TTTCTACACTGATGGCCAGCTCCAGACCGGTAA
* * * * * *
74463393 AAAAAATTTTGGGTTCTGGCCTTCTAATGGCCGGCACCATGGACTTTTTTCGTGTCCCAATGCAA
1 AAAAAAATTTGGGTTCTAGCCTTCTAATGGCCAGCACCAGGGACTTTTTTAGTGTCCCAACGCAA
74463458 TTTTTTTTTATTTTTCTACACTGATGGCC
66 TTTTTTTTTATTTTTCTACACTGATGGCC
74463487 GACACCAAAC
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
110 16 0.19
112 20 0.24
113 48 0.57
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.37
Consensus pattern (110 bp):
AAAAAAATTTGGGTTCTAGCCTTCTAATGGCCAGCACCAGGGACTTTTTTAGTGTCCCAACGCAA
TTTTTTTTTATTTTTCTACACTGATGGCCAGCTCCAGACCGGTAA
Found at i:74463544 original size:116 final size:114
Alignment explanation
Indices: 74463406--74463947 Score: 520
Period size: 116 Copynumber: 4.7 Consensus size: 114
74463396 AAATTTTGGG
* *
74463406 TTCTGGCCTTCTAATGGCCGGCACCATGGACTTTTTTCGTGTCCCAATGCAATTTTTTTTTATTT
1 TTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTCGTGTCCCAATGCAA-TTTTTTTTACTT
74463471 TTCTACACTGATGGCCGACACCAAACCAGTAATTGTTTTAAAATTTTTTTA
65 TTCTACACTGATGGCCGACACCAAACCAGTAATT-TTTTAAAATTTTTTTA
* * * * *
74463522 TCCTGGCCTTCTAATGGCCGGCACCAAAGACTTTTTTCGTATCACAATACAATTTTTTTTACTTT
1 TTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTCGTGTCCCAATGCAATTTTTTTTACTTT
* * * * * **
74463587 TTTACACT-ATGGCTGGCACCAGACTAGTAA--TTTTAATTTTTTTTTTA
66 TCTACACTGATGGCCGACACCAAACCAGTAATTTTTTAA-AATTTTTTTA
* * *** *
74463634 TTCTGGCCTTCTAATGGCTGGCACCAAGGACTTTTTTCGTATTTTAATGTAATTTTTTTTTTACT
1 TTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTCGTGTCCCAATGCAA--TTTTTTTTACT
* * * * * *** **
74463699 TTTCTACACTAATGGTCGGCACCAGACCAATAATTTTTTAAAAAAAATTTGG
64 TTTCTACACTGATGGCCGACACCAAACCAGTAATTTTTT-AAAATTTTTTTA
* * ** * * *
74463751 TTTTGGCCTTCTAATGACTAGCACTAGGGACTTTTTTCGTGTCTCAATGCAATTTTTTTTACTTT
1 TTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTCGTGTCCCAATGCAATTTTTTTTACTTT
* ** *
74463816 TCTACACTGATGGTC-AGCACCAAACCAGTAATTTTTT--TTTTTTAAATTTGG
66 TCTACACTGATGGCCGA-CACCAAACCAGTAATTTTTTAAAATTTT---TTT-A
* * * *
74463867 TTCTAGCCTTCTAATGGCCGGAACCAAGGATTTTTTTCGTGTCCCAATGTAAATTTTTTTTACTT
1 TTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTCGTGTCCCAATG-CAATTTTTTTTACTT
*
74463932 TTCTACATTGATGGCC
65 TTCTACACTGATGGCC
74463948 AGCACCAGAG
Statistics
Matches: 347, Mismatches: 66, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
111 6 0.02
112 53 0.15
114 38 0.11
115 84 0.24
116 86 0.25
117 78 0.22
118 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.43
Consensus pattern (114 bp):
TTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTCGTGTCCCAATGCAATTTTTTTTACTTT
TCTACACTGATGGCCGACACCAAACCAGTAATTTTTTAAAATTTTTTTA
Found at i:74464060 original size:11 final size:11
Alignment explanation
Indices: 74464044--74464068 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
74464034 TACATTTGAG
74464044 TTTTTGTTTGC
1 TTTTTGTTTGC
74464055 TTTTTGTTTGC
1 TTTTTGTTTGC
74464066 TTT
1 TTT
74464069 ATTAGTTGAA
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:0.00, C:0.08, G:0.16, T:0.76
Consensus pattern (11 bp):
TTTTTGTTTGC
Found at i:74466941 original size:20 final size:18
Alignment explanation
Indices: 74466918--74466970 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
74466908 ATAGATAATT
74466918 TAAATGAAATGAGAAAAAAA
1 TAAAT-AAATGA-AAAAAAA
*
74466938 TAAATTAAAATGAACAAAAA
1 TAAA-T-AAATGAAAAAAAA
74466958 TAATATAAATGAA
1 TAA-ATAAATGAA
74466971 TTGAGGAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 7 0.24
20 14 0.48
21 8 0.28
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.21
Consensus pattern (18 bp):
TAAATAAATGAAAAAAAA
Found at i:74467039 original size:49 final size:48
Alignment explanation
Indices: 74466878--74467194 Score: 211
Period size: 49 Copynumber: 6.5 Consensus size: 48
74466868 AATAAATGGT
* ** * * *
74466878 ATGAGAAAAAAATGAAAATTACATGGAAAGATAGATAATTTAAATGAA
1 ATGAGGAAAAAATTTAAATTAAAAGGAAAGAAAGATAATTTAAATGAA
* * *
74466926 ATGA-GAAAAAA-ATAAATTAAAATGAACA-AAA-ATAATATAAATGAA
1 ATGAGGAAAAAATTTAAATTAAAAGGAA-AGAAAGATAATTTAAATGAA
* * *
74466971 TTGAGG-AAAATTTTAAATTTACAAGGAAAGAAAGATAAATTTAAATGAA
1 ATGAGGAAAAAATTTAAA-TTAAAAGGAAAGAAAGAT-AATTTAAATGAA
* * * *
74467020 ATGAGGAAAAAATTTAATTTAAAA-GAAATGAGAA-AAAATTAAAATTAAA
1 ATGAGGAAAAAATTTAAATTAAAAGGAAA-GA-AAGATAATTTAAA-TGAA
* * **
74467069 ATTGAAAGAAAAATAAATTTAAATGAAATGAGGAAA-AAATTTAATTTAAATGAA
1 A-TG--AG-GAAA-AAATTTAAATTAAA--AGGAAAGAAAGATAATTTAAATGAA
* * *
74467123 ATTA-GAAAAAAATTAAATTAAAATTGAAAGAAAGATTAATTTAAATGAA
1 ATGAGGAAAAAATTTAAATTAAAA-GGAAAGAAAGA-TAATTTAAATGAA
* *
74467172 ATGAGGAAAAAAATTAATTTAAA
1 ATGAGGAAAAAATTTAAATTAAA
74467195 TGAAATGAGA
Statistics
Matches: 208, Mismatches: 37, Indels: 46
0.71 0.13 0.16
Matches are distributed among these distances:
45 20 0.10
46 19 0.09
47 22 0.11
48 32 0.15
49 47 0.23
50 30 0.14
51 1 0.00
52 2 0.01
53 4 0.02
54 18 0.09
55 8 0.04
56 1 0.00
57 4 0.02
ACGTcount: A:0.61, C:0.01, G:0.13, T:0.26
Consensus pattern (48 bp):
ATGAGGAAAAAATTTAAATTAAAAGGAAAGAAAGATAATTTAAATGAA
Found at i:74467041 original size:27 final size:27
Alignment explanation
Indices: 74467006--74467271 Score: 221
Period size: 27 Copynumber: 10.4 Consensus size: 27
74466996 GAAAGAAAGA
74467006 TAAATTTAAATGAAATGAGGAAAAAAT
1 TAAATTTAAATGAAATGAGGAAAAAAT
* *
74467033 TTAATTTAAAAGAAATGA-GAAAAAAT
1 TAAATTTAAATGAAATGAGGAAAAAAT
*
74467059 TAAAATTAAAATTG-AA--A-G-AAAAA-
1 T-AAATTTAAA-TGAAATGAGGAAAAAAT
74467082 TAAATTTAAATGAAATGAGGAAAAAAT
1 TAAATTTAAATGAAATGAGGAAAAAAT
* * *
74467109 TTAATTTAAATGAAATTAGAAAAAAAT
1 TAAATTTAAATGAAATGAGGAAAAAAT
* *
74467136 TAAATTAAAATTG-AA--A-G-AAAGAT
1 TAAATTTAAA-TGAAATGAGGAAAAAAT
74467159 T-AATTTAAATGAAATGAGGAAAAAAAT
1 TAAATTTAAATGAAATGAGG-AAAAAAT
*
74467186 T-AATTTAAATGAAATGAGAAAAAAAT
1 TAAATTTAAATGAAATGAGGAAAAAAT
* *
74467212 TAAATTAAAATTG-AA--A-G-AAAGA-
1 TAAATTTAAA-TGAAATGAGGAAAAAAT
* *
74467234 TAAATTTAAATCAAATAAGGAAAAAAT
1 TAAATTTAAATGAAATGAGGAAAAAAT
*
74467261 TTAATTTAAAT
1 TAAATTTAAAT
74467272 AAAAAATAAT
Statistics
Matches: 193, Mismatches: 23, Indels: 46
0.74 0.09 0.18
Matches are distributed among these distances:
21 5 0.03
22 30 0.16
23 11 0.06
24 8 0.04
25 7 0.04
26 26 0.13
27 101 0.52
28 5 0.03
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.27
Consensus pattern (27 bp):
TAAATTTAAATGAAATGAGGAAAAAAT
Found at i:74467077 original size:76 final size:76
Alignment explanation
Indices: 74466996--74467271 Score: 473
Period size: 76 Copynumber: 3.6 Consensus size: 76
74466986 AATTTACAAG
*
74466996 GAAAGAAAGATAAATTTAAATGAAATGAGGAAAAAATTTAATTTAAAAGAAATGAG-AAAAAATT
1 GAAAGAAAGATAAATTTAAATGAAATGAGGAAAAAATTTAATTTAAATGAAATGAGAAAAAAATT
74467060 AAAATTAAAATT
66 -AAATTAAAATT
* *
74467072 GAAAGAAAAATAAATTTAAATGAAATGAGGAAAAAATTTAATTTAAATGAAATTAGAAAAAAATT
1 GAAAGAAAGATAAATTTAAATGAAATGAGGAAAAAATTTAATTTAAATGAAATGAGAAAAAAATT
74467137 AAATTAAAATT
66 AAATTAAAATT
* *
74467148 GAAAGAAAGATTAATTTAAATGAAATGAGGAAAAAAATTAATTTAAATGAAATGAGAAAAAAATT
1 GAAAGAAAGATAAATTTAAATGAAATGAGGAAAAAATTTAATTTAAATGAAATGAGAAAAAAATT
74467213 AAATTAAAATT
66 AAATTAAAATT
* *
74467224 GAAAGAAAGATAAATTTAAATCAAATAAGGAAAAAATTTAATTTAAAT
1 GAAAGAAAGATAAATTTAAATGAAATGAGGAAAAAATTTAATTTAAAT
74467272 AAAAAATAAT
Statistics
Matches: 188, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
76 180 0.96
77 8 0.04
ACGTcount: A:0.61, C:0.00, G:0.12, T:0.26
Consensus pattern (76 bp):
GAAAGAAAGATAAATTTAAATGAAATGAGGAAAAAATTTAATTTAAATGAAATGAGAAAAAAATT
AAATTAAAATT
Found at i:74467259 original size:49 final size:49
Alignment explanation
Indices: 74467035--74467314 Score: 186
Period size: 49 Copynumber: 5.7 Consensus size: 49
74467025 GAAAAAATTT
* *
74467035 AATTTAAAAGAAATGA-GAAAAAATTAAAATTAAAATTGAAAGAAAAATA
1 AATTTAAATGAAATAAGGAAAAAATT-AAATTAAAATTGAAAGAAAAATA
* * *
74467084 AATTTAAATGAAATGAGGAAAAAATTTAATTTAAATGAAATTAGAAA-AAAATTA
1 AATTTAAATGAAATAAGGAAAAAA-TTAAATT--A--AAATT-GAAAGAAAAATA
* * * ** * * *
74467138 AATTAAAATTGAAAGAAAGATTAATTTAAA-TGAAA-TGAGGAA-AAAAATT
1 AATTTAAA-TGAAATAAGGAAAAAATTAAATTAAAATTGA--AAGAAAAATA
* * *
74467187 AATTTAAATGAAATGAGAAAAAAATTAAATTAAAATTGAAAGAAAGATA
1 AATTTAAATGAAATAAGGAAAAAATTAAATTAAAATTGAAAGAAAAATA
* * *
74467236 AATTTAAATCAAATAAGGAAAAAATTTAATTTAAA-T---A-AAAAAT-
1 AATTTAAATGAAATAAGGAAAAAATTAAATTAAAATTGAAAGAAAAATA
* * *
74467279 AATATAAATGAAATGAGAAAAAAATTAAATTGAAAA
1 AATTTAAATGAAATAAGGAAAAAATTAAATT-AAAA
74467315 AATATAATTT
Statistics
Matches: 180, Mismatches: 37, Indels: 33
0.72 0.15 0.13
Matches are distributed among these distances:
43 26 0.14
44 8 0.04
45 1 0.01
47 2 0.01
48 18 0.10
49 71 0.39
50 14 0.08
51 2 0.01
52 1 0.01
53 1 0.01
54 22 0.12
55 14 0.08
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (49 bp):
AATTTAAATGAAATAAGGAAAAAATTAAATTAAAATTGAAAGAAAAATA
Found at i:74467300 original size:41 final size:41
Alignment explanation
Indices: 74467178--74467335 Score: 136
Period size: 41 Copynumber: 3.6 Consensus size: 41
74467168 TGAAATGAGG
* *
74467178 AAAAAAATTAATTTAAATGAAATGAGAAAAAAATTAAATTAAA
1 AAAAAAAATAATATAAATGAAATGAGAAAAAAATTAAATT--A
* * * * *
74467221 ATTGAAAGAAAGATAAATTTAAATCAAATAAGGAAAAAATTTAATTTA
1 A---AAA-AAA-AT-AATATAAATGAAATGA-GAAAAAAATTAAATTA
*
74467269 AATAAAAAATAATATAAATGAAATGAGAAAAAAATTAAATTG
1 AA-AAAAAATAATATAAATGAAATGAGAAAAAAATTAAATTA
* *
74467311 AAAAAATATAATTTAAATGAAATGA
1 AAAAAAAATAATATAAATGAAATGA
74467336 AAATGAGAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 18
0.75 0.10 0.14
Matches are distributed among these distances:
41 21 0.22
42 15 0.16
43 14 0.15
44 2 0.02
45 4 0.04
46 5 0.05
47 3 0.03
48 3 0.03
49 14 0.15
50 13 0.14
ACGTcount: A:0.64, C:0.01, G:0.09, T:0.27
Consensus pattern (41 bp):
AAAAAAAATAATATAAATGAAATGAGAAAAAAATTAAATTA
Found at i:74467355 original size:17 final size:18
Alignment explanation
Indices: 74467329--74467362 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
74467319 TAATTTAAAT
74467329 GAAATGAAAATGAGAATG
1 GAAATGAAAATGAGAATG
74467347 GAAAT-AAAATGAGAAT
1 GAAATGAAAATGAGAAT
74467363 AAGAATCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.18
Consensus pattern (18 bp):
GAAATGAAAATGAGAATG
Found at i:74467810 original size:28 final size:28
Alignment explanation
Indices: 74467777--74467838 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
74467767 AAATTTAATC
* * *
74467777 AAATGAAAT-TTGTAATGAATATGAAATT
1 AAATGAAATGTT-AAATGAATATAAAATG
74467805 AAATGAAATGTTAAATGAATATAAAATG
1 AAATGAAATGTTAAATGAATATAAAATG
74467833 AAATGA
1 AAATGA
74467839 TGATTATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.31
Consensus pattern (28 bp):
AAATGAAATGTTAAATGAATATAAAATG
Found at i:74467811 original size:16 final size:16
Alignment explanation
Indices: 74467790--74467838 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
74467780 TGAAATTTGT
74467790 AATGAATATGAAATTA
1 AATGAATATGAAATTA
74467806 AATGAA-ATG---TTA
1 AATGAATATGAAATTA
* *
74467818 AATGAATATAAAATGA
1 AATGAATATGAAATTA
74467834 AATGA
1 AATGA
74467839 TGATTATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
15 3 0.11
16 13 0.48
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (16 bp):
AATGAATATGAAATTA
Found at i:74471431 original size:20 final size:21
Alignment explanation
Indices: 74471408--74471449 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
74471398 CGAATGGTTC
* *
74471408 TGTTTTTTTTATGTTTT-TTT
1 TGTTTGTTTTATCTTTTATTT
74471428 TGTTTGTTTTATCTTTTATTT
1 TGTTTGTTTTATCTTTTATTT
74471449 T
1 T
74471450 TACTTTAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.07, C:0.02, G:0.10, T:0.81
Consensus pattern (21 bp):
TGTTTGTTTTATCTTTTATTT
Found at i:74471790 original size:30 final size:31
Alignment explanation
Indices: 74471756--74471826 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 31
74471746 TATTTATCAT
74471756 ATAAAATA-TTTTACTAATTA-ATAATAAATA
1 ATAAAATATTTTTACTAATTATAT-ATAAATA
74471786 ATAAAATATATTTTTACTAATTATATATAAATA
1 AT-AAA-ATATTTTTACTAATTATATATAAATA
74471819 ATACAAAT
1 ATA-AAAT
74471827 GTACTCATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
30 2 0.06
31 3 0.08
32 6 0.17
33 23 0.64
34 2 0.06
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (31 bp):
ATAAAATATTTTTACTAATTATATATAAATA
Found at i:74472093 original size:14 final size:14
Alignment explanation
Indices: 74472076--74472106 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
74472066 AGTAAAATAT
74472076 TTTCCGGAAAATGA
1 TTTCCGGAAAATGA
*
74472090 TTTCTGGAAAATGA
1 TTTCCGGAAAATGA
74472104 TTT
1 TTT
74472107 ACTGTTCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (14 bp):
TTTCCGGAAAATGA
Found at i:74472125 original size:19 final size:20
Alignment explanation
Indices: 74472091--74472128 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
74472081 GGAAAATGAT
74472091 TTCTGGAAAATGATTTACTG
1 TTCTGGAAAATGATTTACTG
*
74472111 TTCTGG-AAATTATTTACT
1 TTCTGGAAAATGATTTACT
74472129 TTTTTGGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (20 bp):
TTCTGGAAAATGATTTACTG
Found at i:74478680 original size:22 final size:22
Alignment explanation
Indices: 74478652--74478698 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
74478642 TTCTCCTTGT
74478652 AGCAAAGAAATGACACACAATA
1 AGCAAAGAAATGACACACAATA
*
74478674 AGCAAAGAAATGACATACAATA
1 AGCAAAGAAATGACACACAATA
74478696 AGC
1 AGC
74478699 TTTCTTGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.57, C:0.17, G:0.15, T:0.11
Consensus pattern (22 bp):
AGCAAAGAAATGACACACAATA
Found at i:74479965 original size:18 final size:18
Alignment explanation
Indices: 74479942--74479999 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
74479932 TTTGATTATT
74479942 GTTATTCAATAACAATCA
1 GTTATTCAATAACAATCA
* * * *
74479960 GTTATTTAGTATCAAAC-
1 GTTATTCAATAACAATCA
74479977 G--A-TCAATAACAATCA
1 GTTATTCAATAACAATCA
74479992 GTTATTCA
1 GTTATTCA
74480000 GTCCAGTAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
14 8 0.29
15 2 0.07
17 2 0.07
18 16 0.57
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (18 bp):
GTTATTCAATAACAATCA
Found at i:74482083 original size:90 final size:87
Alignment explanation
Indices: 74481858--74482098 Score: 256
Period size: 90 Copynumber: 2.7 Consensus size: 87
74481848 AGAAATTGAC
* *
74481858 AAATTAAATTTACAGACA-CAATAAAATACAAACACTCTAA-AAATTAATACAAAAAATATAAAA
1 AAATTAAATTTACAGACATCAAAAAAATACAAACA-TCTAAGAAATTAATACAGAAAATATAAAA
74481921 TTCAAACAAAAATAATACGCACT
65 TTCAAACAAAAATAATACGCACT
* * * ** * *
74481944 AAAGTAAATTTA-A-ACACTCAACAAAATACAAACATATGGGTAAATTAATACACGAAAATTTTA
1 AAATTAAATTTACAGACA-TCAAAAAAATACAAACATCTAAG-AAATTAATACA-GAAAATATAA
*** *
74482007 AATTCAAACTACGTATAATACGGACT
63 AATTCAAAC-AAAAATAATACGCACT
* *
74482033 AAATTAAATTTACAGATATAAAAAAAATACAAACATTCTAAGAAATTAATACAAGAAAATATAAA
1 AAATTAAATTTACAGACATCAAAAAAATACAAACA-TCTAAGAAATTAATAC-AGAAAATATAAA
74482098 A
64 A
74482099 AATGAATCCT
Statistics
Matches: 124, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
84 3 0.02
85 3 0.02
86 26 0.21
87 11 0.09
88 16 0.13
89 23 0.19
90 36 0.29
91 6 0.05
ACGTcount: A:0.58, C:0.13, G:0.05, T:0.24
Consensus pattern (87 bp):
AAATTAAATTTACAGACATCAAAAAAATACAAACATCTAAGAAATTAATACAGAAAATATAAAAT
TCAAACAAAAATAATACGCACT
Found at i:74482644 original size:27 final size:27
Alignment explanation
Indices: 74482606--74482671 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
74482596 TTCAGTTATA
* *
74482606 CACTACGAAAAACTCCCATCTACAATC
1 CACTACAAAAAACTCCCATATACAATC
*
74482633 CACTACAAAAAACTTCCATATACAATC
1 CACTACAAAAAACTCCCATATACAATC
74482660 CACTACAAAAAA
1 CACTACAAAAAA
74482672 AATCATTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (27 bp):
CACTACAAAAAACTCCCATATACAATC
Found at i:74482888 original size:47 final size:48
Alignment explanation
Indices: 74482832--74483073 Score: 211
Period size: 46 Copynumber: 5.2 Consensus size: 48
74482822 TTCTTTTTCT
* * * *
74482832 CTCTAGTGCCAGCCATTACATGGCCAGCA-ACAATTTTTTTTTTTTTA
1 CTCTGGTGCCAGCCAATACATGCCCAGCACCCAATTTTTTTTTTTTTA
* * *
74482879 CTCTGGTGCC-GACCAATA-ACTGCCCAACACCCCATTTTTTTTTTATT-
1 CTCTGGTGCCAG-CCAATACA-TGCCCAGCACCCAATTTTTTTTTTTTTA
*
74482926 -TCTGGTGCCAGCCAATACATGCCCAGCACCCAA--ATTTTTTTTTTA
1 CTCTGGTGCCAGCCAATACATGCCCAGCACCCAATTTTTTTTTTTTTA
* ** *
74482971 CTCTGGTGCC-GACCAATA-ACTGCCCAACACCCCAAAATTTTTTTTATT-
1 CTCTGGTGCCAG-CCAATACA-TGCCCAGCA-CCCAATTTTTTTTTTTTTA
* ***
74483019 -TCTGATGCCAGCCAATACATGCCCAGCACCCAA-AAATTTTTTTTTA
1 CTCTGGTGCCAGCCAATACATGCCCAGCACCCAATTTTTTTTTTTTTA
74483065 CTCTGGTGC
1 CTCTGGTGC
74483074 TGATCATTAC
Statistics
Matches: 159, Mismatches: 20, Indels: 32
0.75 0.09 0.15
Matches are distributed among these distances:
44 9 0.06
45 11 0.07
46 57 0.36
47 57 0.36
48 16 0.10
49 9 0.06
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.34
Consensus pattern (48 bp):
CTCTGGTGCCAGCCAATACATGCCCAGCACCCAATTTTTTTTTTTTTA
Found at i:74482917 original size:46 final size:46
Alignment explanation
Indices: 74482868--74483073 Score: 228
Period size: 46 Copynumber: 4.4 Consensus size: 46
74482858 GCAACAATTT
*
74482868 TTTTTTTTTTACTCTGGTGCC-GACCAATA-ACTGCCCAACACCC-CA
1 TTTTTTTTTTACTCTGGTGCCAG-CCAATACA-TGCCCAACACCCAAA
* *
74482913 TTTTTTTTTTATTTCTGGTGCCAGCCAATACATGCCCAGCACCCAAA
1 TTTTTTTTTTA-CTCTGGTGCCAGCCAATACATGCCCAACACCCAAA
74482960 TTTTTTTTTTACTCTGGTGCC-GACCAATA-ACTGCCCAACACCCCAAAA
1 TTTTTTTTTTACTCTGGTGCCAG-CCAATACA-TGCCCAACA-CCC-AAA
* *
74483008 TTTTTTTTATT--TCTGATGCCAGCCAATACATGCCCAGCACCCAAAA
1 TTTTTTTT-TTACTCTGGTGCCAGCCAATACATGCCCAACACCC-AAA
*
74483054 ATTTTTTTTTACTCTGGTGC
1 TTTTTTTTTTACTCTGGTGC
74483074 TGATCATTAC
Statistics
Matches: 139, Mismatches: 9, Indels: 24
0.81 0.05 0.14
Matches are distributed among these distances:
45 15 0.11
46 63 0.45
47 46 0.33
48 13 0.09
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.36
Consensus pattern (46 bp):
TTTTTTTTTTACTCTGGTGCCAGCCAATACATGCCCAACACCCAAA
Found at i:74482964 original size:93 final size:93
Alignment explanation
Indices: 74482785--74483073 Score: 368
Period size: 93 Copynumber: 3.1 Consensus size: 93
74482775 ATATAAGGTT
* * * * * * *
74482785 TGGTGCCGACCAAT-ACATACCCAACACCCAAAAAAAATTCTTTTTCTCTCTAGTGCCAGCCATT
1 TGGTGCCGACCAATAAC-TGCCCAACACCC---CAAAATTTTTTTTATTTCTGGTGCCAGCCAAT
* * *
74482849 ACATGGCCAGCA-ACAATTTTTTTTTTTTTACTC
62 ACATGCCCAGCACCCAA--ATTTTTTTTTTACTC
**
74482882 TGGTGCCGACCAATAACTGCCCAACACCCC-ATTTTTTTTTTATTTCTGGTGCCAGCCAATACAT
1 TGGTGCCGACCAATAACTGCCCAACACCCCAAAATTTTTTTTATTTCTGGTGCCAGCCAATACAT
74482946 GCCCAGCACCCAAATTTTTTTTTTACTC
66 GCCCAGCACCCAAATTTTTTTTTTACTC
*
74482974 TGGTGCCGACCAATAACTGCCCAACACCCCAAAATTTTTTTTATTTCTGATGCCAGCCAATACAT
1 TGGTGCCGACCAATAACTGCCCAACACCCCAAAATTTTTTTTATTTCTGGTGCCAGCCAATACAT
*
74483039 GCCCAGCACCCAAAAATTTTTTTTTACTC
66 GCCCAGCACCC-AAATTTTTTTTTTACTC
74483068 TGGTGC
1 TGGTGC
74483074 TGATCATTAC
Statistics
Matches: 172, Mismatches: 16, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
92 44 0.26
93 76 0.44
94 25 0.15
97 25 0.15
98 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (93 bp):
TGGTGCCGACCAATAACTGCCCAACACCCCAAAATTTTTTTTATTTCTGGTGCCAGCCAATACAT
GCCCAGCACCCAAATTTTTTTTTTACTC
Found at i:74483307 original size:112 final size:114
Alignment explanation
Indices: 74483090--74483320 Score: 376
Period size: 112 Copynumber: 2.0 Consensus size: 114
74483080 TTACATGGCT
*
74483090 AGAACCAATTTTTTTTAAAAATTACTGGTCTGGTGCCGACCATCAATGTAGAAAAGTAAAAAAAA
1 AGAACCAATTTTTTTTAAAAATTACTGGTCTGGTGCCGACCATCAATGTACAAAAGTAAAAAAAA
*
74483155 TTTGCATTGGGACACGAAAAAAGTCCCTGGTGCCGACCATTAAAAGGCC
66 TTTGCATTGGGACACGAAAAAAGTCCCTAGTGCCGACCATTAAAAGGCC
* * *
74483204 AGAACCAATTTTTTTT-TAAATTACTGGTCTGGTGCCGGCCATCAGTGTACAAAAGTAAAAAAAA
1 AGAACCAATTTTTTTTAAAAATTACTGGTCTGGTGCCGACCATCAATGTACAAAAGTAAAAAAAA
* * *
74483268 -TTGCGTTGGGACACGAAAAAAGTCCCTAGTGCCGGCCATTAGAAGGCC
66 TTTGCATTGGGACACGAAAAAAGTCCCTAGTGCCGACCATTAAAAGGCC
74483316 AGAAC
1 AGAAC
74483321 AAAAAAAAAA
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
112 49 0.45
113 44 0.40
114 16 0.15
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (114 bp):
AGAACCAATTTTTTTTAAAAATTACTGGTCTGGTGCCGACCATCAATGTACAAAAGTAAAAAAAA
TTTGCATTGGGACACGAAAAAAGTCCCTAGTGCCGACCATTAAAAGGCC
Found at i:74485349 original size:20 final size:20
Alignment explanation
Indices: 74485302--74485343 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
74485292 AATACGTAAG
*
74485302 AAAAAGAAAATAATAATTTA
1 AAAAAGACAATAATAATTTA
74485322 AAAAAGACAATAATAATTTA
1 AAAAAGACAATAATAATTTA
74485342 AA
1 AA
74485344 GGAGACTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAAAGACAATAATAATTTA
Found at i:74490897 original size:15 final size:15
Alignment explanation
Indices: 74490870--74490910 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
74490860 TCACGAAAAT
*
74490870 TTCACA-AATATAAA
1 TTCACAGAAAATAAA
74490884 TTCACAGAAAATAAA
1 TTCACAGAAAATAAA
74490899 --CACAGAAAATAA
1 TTCACAGAAAATAA
74490911 TTTTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 12 0.48
14 6 0.24
15 7 0.28
ACGTcount: A:0.61, C:0.15, G:0.05, T:0.20
Consensus pattern (15 bp):
TTCACAGAAAATAAA
Found at i:74493642 original size:11 final size:11
Alignment explanation
Indices: 74493616--74493679 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
74493606 TGAAAACTGG
*
74493616 AAATAGAAATAA
1 AAATA-AAAGAA
74493628 AAATAAAAGAA
1 AAATAAAAGAA
74493639 AAATAAAA-ACA
1 AAATAAAAGA-A
* *
74493650 AAAGGAAAAGCA
1 AAA-TAAAAGAA
74493662 AAAT-AAAGTAA
1 AAATAAAAG-AA
74493673 AAATAAA
1 AAATAAA
74493680 TGGACTCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
10 5 0.12
11 22 0.52
12 15 0.36
ACGTcount: A:0.77, C:0.03, G:0.09, T:0.11
Consensus pattern (11 bp):
AAATAAAAGAA
Found at i:74493643 original size:23 final size:22
Alignment explanation
Indices: 74493616--74493679 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
74493606 TGAAAACTGG
74493616 AAATAGAAATAAAAATAAAAGAA
1 AAATA-AAATAAAAATAAAAGAA
* *
74493639 AAATAAAA-ACAAAAGGAAAAGCA
1 AAATAAAATA-AAAA-TAAAAGAA
*
74493662 AAATAAAGTAAAAATAAA
1 AAATAAAATAAAAATAAA
74493680 TGGACTCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
21 1 0.03
22 10 0.29
23 22 0.65
24 1 0.03
ACGTcount: A:0.77, C:0.03, G:0.09, T:0.11
Consensus pattern (22 bp):
AAATAAAATAAAAATAAAAGAA
Found at i:74493644 original size:17 final size:17
Alignment explanation
Indices: 74493622--74493679 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
74493612 CTGGAAATAG
74493622 AAATAAAAATAAAAGAA
1 AAATAAAAATAAAAGAA
* *
74493639 AAATAAAAACAAAAGGA
1 AAATAAAAATAAAAGAA
**
74493656 AAAGCAAAAT-AAAGTAA
1 AAATAAAAATAAAAG-AA
74493673 AAATAAA
1 AAATAAA
74493680 TGGACTCAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 4 0.12
17 28 0.88
ACGTcount: A:0.78, C:0.03, G:0.09, T:0.10
Consensus pattern (17 bp):
AAATAAAAATAAAAGAA
Found at i:74501911 original size:23 final size:23
Alignment explanation
Indices: 74501884--74501927 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
74501874 AGAAAAGAAA
74501884 AAATT-AAACTAAAAATAAAAAGT
1 AAATTGAAA-TAAAAATAAAAAGT
*
74501907 AAATTGAAATAAAAGTAAAAA
1 AAATTGAAATAAAAATAAAAA
74501928 TGGTTAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (23 bp):
AAATTGAAATAAAAATAAAAAGT
Found at i:74511933 original size:5 final size:5
Alignment explanation
Indices: 74511923--74511948 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
74511913 TAATAAATAA
74511923 TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT T
74511949 GTAAAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:74515637 original size:63 final size:62
Alignment explanation
Indices: 74515529--74515772 Score: 292
Period size: 63 Copynumber: 3.9 Consensus size: 62
74515519 TACCTATTGA
* * ** * *
74515529 GAAGGTGTTGATGCATGAAATGATTGTGGGTGTTATGGT-TCTTGTGTAAAATAAATTGGTGCT
1 GAAGGTGTTGATG-AGGGAATGATTGTGCATGTTGTGGTGT-TTGTGTAAAATAAATTGGAGCT
* * * *
74515592 GAATGTATTGATGTAGGGAATGATTGTACATGTTGTGGGGTTTGTGTAAAATAAATTGGAGCT
1 GAAGGTGTTGATG-AGGGAATGATTGTGCATGTTGTGGTGTTTGTGTAAAATAAATTGGAGCT
* * * * *
74515655 GAAGGTGTTGATGAGGGGAATGATTGTGCGTGCTGTGGTGTTTGTGTAAAATAAACTAGAGTT
1 GAAGGTGTTGATGA-GGGAATGATTGTGCATGTTGTGGTGTTTGTGTAAAATAAATTGGAGCT
*
74515718 GAAGGTGTTGATGCAGGGAATGATTGTGCATGTTGTGGTGCTTGTGTAAAATAAA
1 GAAGGTGTTGATG-AGGGAATGATTGTGCATGTTGTGGTGTTTGTGTAAAATAAA
74515773 CTAGGTTAGC
Statistics
Matches: 155, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
62 1 0.01
63 152 0.98
64 2 0.01
ACGTcount: A:0.27, C:0.05, G:0.34, T:0.35
Consensus pattern (62 bp):
GAAGGTGTTGATGAGGGAATGATTGTGCATGTTGTGGTGTTTGTGTAAAATAAATTGGAGCT
Found at i:74517498 original size:7 final size:7
Alignment explanation
Indices: 74517486--74517576 Score: 74
Period size: 7 Copynumber: 13.0 Consensus size: 7
74517476 TAAAAATAAT
74517486 AATTGAG
1 AATTGAG
74517493 AATTGAG
1 AATTGAG
*
74517500 GATTGAG
1 AATTGAG
*
74517507 AATTTAG
1 AATTGAG
*
74517514 AATTGAA
1 AATTGAG
*
74517521 AATTGAA
1 AATTGAG
*
74517528 AATTAAG
1 AATTGAG
*
74517535 GATTGAG
1 AATTGAG
*
74517542 AATTTAG
1 AATTGAG
* *
74517549 GACTGAG
1 AATTGAG
*
74517556 GATTGAG
1 AATTGAG
*
74517563 GATTGAG
1 AATTGAG
*
74517570 TATTGAG
1 AATTGAG
74517577 TTGAAAAGAA
Statistics
Matches: 68, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 68 1.00
ACGTcount: A:0.40, C:0.01, G:0.29, T:0.31
Consensus pattern (7 bp):
AATTGAG
Found at i:74519692 original size:21 final size:21
Alignment explanation
Indices: 74519666--74519705 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
74519656 CTTAATCAAA
*
74519666 TTTTTTTTTTCATATTTTTCC
1 TTTTTTCTTTCATATTTTTCC
*
74519687 TTTTTTCTTTCATTTTTTT
1 TTTTTTCTTTCATATTTTT
74519706 AAGAACAAAG
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:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTTCTTTCATATTTTTCC
Found at i:74520589 original size:22 final size:21
Alignment explanation
Indices: 74520564--74520607 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
74520554 ATTAGAAGAT
74520564 AGATA-AAAATAAATAAGAAAAA
1 AGATATAAAA-AAAT-AGAAAAA
*
74520586 AGATATAAAAAAGTAGAAAAA
1 AGATATAAAAAAATAGAAAAA
74520607 A
1 A
74520608 CAACAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 8 0.40
23 4 0.20
ACGTcount: A:0.75, C:0.00, G:0.11, T:0.14
Consensus pattern (21 bp):
AGATATAAAAAAATAGAAAAA
Found at i:74520714 original size:24 final size:22
Alignment explanation
Indices: 74520669--74520717 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 22
74520659 TCCCAAAAAG
74520669 AAAATAAAAACAACTAACAATA
1 AAAATAAAAACAACTAACAATA
74520691 AAAATAAAAGTACAACTGAA-AATA
1 AAAATAAAA--ACAACT-AACAATA
74520715 AAA
1 AAA
74520718 GTCAAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.38
24 13 0.54
25 2 0.08
ACGTcount: A:0.71, C:0.10, G:0.04, T:0.14
Consensus pattern (22 bp):
AAAATAAAAACAACTAACAATA
Found at i:74523044 original size:21 final size:21
Alignment explanation
Indices: 74523018--74523061 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
74523008 ACTTGCTCAT
74523018 GCTTCATGTTAGATTTGAAGG
1 GCTTCATGTTAGATTTGAAGG
74523039 GCTTCATGTTAGATTTGAAGG
1 GCTTCATGTTAGATTTGAAGG
74523060 GC
1 GC
74523062 AAACATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.11, G:0.30, T:0.36
Consensus pattern (21 bp):
GCTTCATGTTAGATTTGAAGG
Found at i:74524916 original size:51 final size:50
Alignment explanation
Indices: 74524853--74524983 Score: 140
Period size: 50 Copynumber: 2.6 Consensus size: 50
74524843 ATGAACAAAT
*
74524853 GAGTTACTTAATGTATGACTTAATTTAATGATGCAAACTTTAACTAACATGA
1 GAGTTACATAATGT-TGACTTAATTTAATGATGCAAAC-TTAACTAACATGA
* * * * *
74524905 GAG-TACATAATGCGTGTCATAATTT-ATGATGCCAACTTAATTAACATGA
1 GAGTTACATAATG-TTGACTTAATTTAATGATGCAAACTTAACTAACATGA
* *
74524954 GAGTTACATAATGCTTGACTTTATTAAATG
1 GAGTTACATAATG-TTGACTTAATTTAATG
74524984 CAGAACACAT
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
49 15 0.23
50 27 0.42
51 20 0.31
52 3 0.05
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (50 bp):
GAGTTACATAATGTTGACTTAATTTAATGATGCAAACTTAACTAACATGA
Found at i:74526437 original size:40 final size:39
Alignment explanation
Indices: 74526354--74526461 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 39
74526344 CCTTTAGTGG
* * *
74526354 CTTTAGCGACGCTTTTTAAAAACGCCGCTATATGTACAC
1 CTTTAGCGGCGGTTTTTAAAAACGCCACTATATGTACAC
** *
74526393 CTTTAGCGGCGGTTTTTAGAAAACGCCACTA-ATGTTTGAT
1 CTTTAGCGGCGGTTTTTA-AAAACGCCACTATATG-TACAC
74526433 CTTTAGCGGC-GTTTTTCAAAAAACGCCAC
1 CTTTAGCGGCGGTTTTT--AAAAACGCCAC
74526462 AAAAAATGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
39 25 0.42
40 33 0.56
41 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (39 bp):
CTTTAGCGGCGGTTTTTAAAAACGCCACTATATGTACAC
Found at i:74526695 original size:22 final size:22
Alignment explanation
Indices: 74526645--74526714 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
74526635 ATATTGTTAA
*
74526645 GGGTTTAATGTTTAT-GAGTTACT
1 GGGTTTAAGGTTTATGGA-TTA-T
*
74526668 -GTTTTAAGGTTTATGGATTAT
1 GGGTTTAAGGTTTATGGATTAT
* * * *
74526689 GGGTTTAGGGATTATGGTTTAA
1 GGGTTTAAGGTTTATGGATTAT
74526711 GGGT
1 GGGT
74526715 GGTTTTAAGG
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
21 1 0.03
22 35 0.92
23 2 0.05
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.46
Consensus pattern (22 bp):
GGGTTTAAGGTTTATGGATTAT
Found at i:74526713 original size:15 final size:15
Alignment explanation
Indices: 74526675--74526709 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
74526665 ACTGTTTTAA
*
74526675 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
74526690 GGTTTAGGGATTAT-
1 GGTTTAGGGATTATG
74526704 GGTTTA
1 GGTTTA
74526710 AGGGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:74526771 original size:14 final size:14
Alignment explanation
Indices: 74526752--74526815 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
74526742 AAGGGTCAGG
*
74526752 GGTTTAGGGTTTAT
1 GGTTTAAGGTTTAT
* * *
74526766 GTTTTATGATTTAT
1 GGTTTAAGGTTTAT
*
74526780 GGTTTAAGGTTTAG
1 GGTTTAAGGTTTAT
* *
74526794 GGATTAAGAGTTTAG
1 GGTTTAAG-GTTTAT
74526809 GGTTTAA
1 GGTTTAA
74526816 ATTAATTAGT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
14 28 0.70
15 12 0.30
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (14 bp):
GGTTTAAGGTTTAT
Found at i:74526931 original size:14 final size:14
Alignment explanation
Indices: 74526909--74526953 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
74526899 TTAATTATCA
74526909 TTATAATTTAGGGT
1 TTATAATTTAGGGT
*
74526923 TTATGATTTAGGGT
1 TTATAATTTAGGGT
* *
74526937 ATATAATTTAAGGT
1 TTATAATTTAGGGT
74526951 TTA
1 TTA
74526954 AAGTGTATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (14 bp):
TTATAATTTAGGGT
Found at i:74527169 original size:15 final size:15
Alignment explanation
Indices: 74527149--74527180 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
74527139 AGATTTTTTT
*
74527149 ATAATATAAATCTAA
1 ATAATATAAATATAA
74527164 ATAATATAAATATAA
1 ATAATATAAATATAA
74527179 AT
1 AT
74527181 TATTATTTTA
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:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATATAAATATAA
Found at i:74528013 original size:41 final size:41
Alignment explanation
Indices: 74527938--74528028 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
74527928 AACGCTACAA
74527938 AAAAAATTAAACCACAATGACATTTTTAATAAAAA-CGCCAT
1 AAAAAATTAAACCACAATGACATTTTTAATAAAAATCG-CAT
*** * *
74527979 AAAAAATTAAACTTTAATGACGTTTTT-ATAAAAAATTGCAT
1 AAAAAATTAAACCACAATGACATTTTTAAT-AAAAATCGCAT
74528020 AAAAAATTA
1 AAAAAATTA
74528029 TTTTACTTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
40 2 0.05
41 40 0.93
42 1 0.02
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (41 bp):
AAAAAATTAAACCACAATGACATTTTTAATAAAAATCGCAT
Found at i:74531677 original size:23 final size:23
Alignment explanation
Indices: 74531628--74532811 Score: 726
Period size: 23 Copynumber: 51.7 Consensus size: 23
74531618 TAAATGTTGC
* * *
74531628 AAATTGAAGTGTTTA-AGTACCGC
1 AAATTGAAGTGTTTAGA-TGCTGT
* *
74531651 AAATTGAAGTGTTTAGTTGCTGG
1 AAATTGAAGTGTTTAGATGCTGT
*
74531674 AAATTG-AGATGTTT-TATCGCTGT
1 AAATTGAAG-TGTTTAGAT-GCTGT
* * * *
74531697 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAGATGCTGT
* * * *
74531719 TAATTGAAATG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAGA-TGCTGT
*
74531742 AAATTGAAGTGTTTTA-ATGCTCT
1 AAATTGAAGTG-TTTAGATGCTGT
* *
74531765 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAGA-TGCTGT
*
74531788 AAATTGAAGTGTTT-GAATGCTAT
1 AAATTGAAGTGTTTAG-ATGCTGT
* * *
74531811 AAATTAAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAGATGCTGT
* * * *
74531834 TAATTGAAATG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAGA-TGCTGT
74531857 AAATTGAAGTGTTTTA-ATGCTGT
1 AAATTGAAGTG-TTTAGATGCTGT
* *
74531880 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAGA-TGCTGT
74531903 AAATTGAAGTGTTT-GAATGCTGT
1 AAATTGAAGTGTTTAG-ATGCTGT
* *
74531926 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAGATGCTGT
* * * *
74531949 TAATTGAAATG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAGA-TGCTGT
*
74531972 AAATTGAAGTGTTTTA-ATGTTGT
1 AAATTGAAGTG-TTTAGATGCTGT
* *
74531995 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAGA-TGCTGT
*
74532018 AAATTGAAGTGTTT-GAATACTGT
1 AAATTGAAGTGTTTAG-ATGCTGT
*
74532041 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAGATGCTGT
* *
74532064 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAGA-TGCTGT
74532087 AAATTGAAGTGTTT-GAATGCTGT
1 AAATTGAAGTGTTTAG-ATGCTGT
*
74532110 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAGATGCTGT
* * * *
74532133 AAATTGAAGTGCTTAAATGTTGC
1 AAATTGAAGTGTTTAGATGCTGT
* * * *
74532156 AAACTAAAGTGTTTA-AGTACTGC
1 AAATTGAAGTGTTTAGA-TGCTGT
* *
74532179 AAATTGAAGTGTTTAGTTGCTGG
1 AAATTGAAGTGTTTAGATGCTGT
* *
74532202 AAATTG-AGATGTTT-TATCGTTGT
1 AAATTGAAG-TGTTTAGAT-GCTGT
* * * *
74532225 -AA-TGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAGATGCTGT
* * * *
74532246 TAATTGAAATG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAGA-TGCTGT
*
74532269 AAATTGAAGTGTTTTA-ATGCTCT
1 AAATTGAAGTG-TTTAGATGCTGT
* *
74532292 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAGA-TGCTGT
74532315 AAATTGAAGTGTTTTA-ATGCTGT
1 AAATTGAAGTG-TTTAGATGCTGT
* * *
74532338 AAATTTAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAGA-TGCTGT
74532361 AAATTGAAGTGTTT-GAATGCTGT
1 AAATTGAAGTGTTTAG-ATGCTGT
* *
74532384 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAGATGCTGT
* * * *
74532407 TAATTGAAATG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAGA-TGCTGT
74532430 AAATTGAAGTGTTTTA-ATGCTGT
1 AAATTGAAGTG-TTTAGATGCTGT
* *
74532453 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAGA-TGCTGT
74532476 AAATTGAAGTGTTT-GAATGCTGT
1 AAATTGAAGTGTTTAG-ATGCTGT
* *
74532499 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAGATGCTGT
** * *
74532522 AAATTGAAG-AATTAAAGTGCTGC
1 AAATTGAAGTGTTTAGA-TGCTGT
*
74532545 AAATTGAAGTGTTT-GAATGTTGT
1 AAATTGAAGTGTTTAG-ATGCTGT
* *
74532568 AAATTGAAGTATTTAAATGCTGT
1 AAATTGAAGTGTTTAGATGCTGT
* * * *
74532591 AAATTGAAGTGCTTAAATGTTGC
1 AAATTGAAGTGTTTAGATGCTGT
* * *
74532614 AAATTGAAGTGTTTAAATACTGC
1 AAATTGAAGTGTTTAGATGCTGT
* *
74532637 AAATTGAAGTGTTTAGTTGCTGG
1 AAATTGAAGTGTTTAGATGCTGT
* *
74532660 ACATTG-AGATGTTT-TATCGCTGT
1 AAATTGAAG-TGTTTAGAT-GCTGT
* * * * * *
74532683 -AATTGAGGTATATAAATGTTAT
1 AAATTGAAGTGTTTAGATGCTGT
* * * *
74532705 TAATTG-AGATG-TTAAAGTGTTGC
1 AAATTGAAG-TGTTTAGA-TGCTGT
* * *
74532728 AAATTGAAGTG-TTAAAGTGTTGC
1 AAATTGAAGTGTTTAGA-TGCTGT
*
74532751 AAATTGAAGTGTTT-GAATGCTGC
1 AAATTGAAGTGTTTAG-ATGCTGT
*
74532774 AAATTGAAGTGTTT-GAATGCTGC
1 AAATTGAAGTGTTTAG-ATGCTGT
74532797 AAATTGAAGTGTTTA
1 AAATTGAAGTGTTTA
74532812 AGTACTTATT
Statistics
Matches: 930, Mismatches: 154, Indels: 153
0.75 0.12 0.12
Matches are distributed among these distances:
21 29 0.03
22 84 0.09
23 767 0.82
24 32 0.03
25 18 0.02
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (23 bp):
AAATTGAAGTGTTTAGATGCTGT
Found at i:74531770 original size:46 final size:46
Alignment explanation
Indices: 74531628--74532812 Score: 880
Period size: 46 Copynumber: 25.8 Consensus size: 46
74531618 TAAATGTTGC
* * * ** **
74531628 AAATTGAAGTGTTTAAGTACCGCAAATTGAAGTGTTTAGTTGCTGG
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTCT
* * * * * *
74531674 AAATTG-AGATGTTT-TATCGCTG-TAATTGAGGTGTATAAATGTTGT
1 AAATTGAAG-TGTTTAAAT-GCTGCAAATTGAAGTGTTTAAATGCTCT
* * *
74531719 TAATTGAAATG-TTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTCT
1 AAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTCT
* *
74531765 AAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTAT
1 AAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTCT
* * ** *
74531811 AAATTAAAGTGTTTAAATGTTGTTAATTGAAATG-TTAAAGTGCTGC-
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAA-TGCT-CT
* *
74531857 AAATTGAAGTGTTTTAATGCTGTAAATTGAAGTG-TTAAAGTGCTGC-
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAA-TGCT-CT
* * * *
74531903 AAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTCT
* * * * *
74531949 TAATTGAAATG-TTAAAGTGCTGCAAATTGAAGTGTTTTAATGTTGT
1 AAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTCT
* * *
74531995 AAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATACTGT
1 AAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTCT
*
74532041 AAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAAGTGCTGC-
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAA-TGCT-CT
* * *
74532087 AAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTCT
* * * * * *
74532133 AAATTGAAGTGCTTAAATGTTGCAAACTAAAGTGTTTAAGTACTGC-
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCT-CT
** * * * *
74532179 AAATTGAAGTGTTTAGTTGCTGGAAATTG-AGATGTTT-TATCGTTGT
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAG-TGTTTAAAT-GCTCT
* * * ** *
74532225 -AA-TGAGGTGTATAAATGTTGTTAATTGAAATG-TTAAAGTGCTGC-
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAA-TGCT-CT
*
74532269 AAATTGAAGTGTTTTAATGCT-CTAAATTGAAGTG-TTAAAGTGCTGC-
1 AAATTGAAGTGTTTAAATGCTGC-AAATTGAAGTGTTTAAA-TGCT-CT
* * *
74532315 AAATTGAAGTGTTTTAATGCTGTAAATTTAAGTG-TTAAAGTGCTGC-
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAA-TGCT-CT
* * * *
74532361 AAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTCT
* * * *
74532407 TAATTGAAATG-TTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGT
1 AAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTCT
* *
74532453 AAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGT
1 AAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTCT
* * **
74532499 AAATTGAAGTGTTTAAATGTTGTAAATTGAAG-AATTAAAGTGCTGC-
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAA-TGCT-CT
* * * * *
74532545 AAATTGAAGTGTTTGAATGTTGTAAATTGAAGTATTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTCT
* * *
74532591 AAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAATACTGC-
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCT-CT
** * * * *
74532637 AAATTGAAGTGTTTAGTTGCTGGACATTG-AGATGTTT-TATCGCTGT
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAG-TGTTTAAAT-GCTCT
* * * * *** *
74532683 -AATTGAGGTATATAAATGTTATTAATTG-AGATG-TTAAAGTGTTGC-
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAG-TGTTTAAA-TGCT-CT
* *
74532728 AAATTGAAGTG-TTAAAGTGTTGCAAATTGAAGTGTTTGAATGCTGC-
1 AAATTGAAGTGTTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCT-CT
*
74532774 AAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAA
1 AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAA
74532813 GTACTTATTT
Statistics
Matches: 933, Mismatches: 157, Indels: 98
0.79 0.13 0.08
Matches are distributed among these distances:
43 2 0.00
44 27 0.03
45 94 0.10
46 764 0.82
47 46 0.05
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (46 bp):
AAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTTTAAATGCTCT
Found at i:74531815 original size:69 final size:68
Alignment explanation
Indices: 74531618--74532809 Score: 1038
Period size: 69 Copynumber: 17.3 Consensus size: 68
74531608 ATATTAGTAG
* * * * * ** *
74531618 TAAATGTTGCAAATTGAAGTGTTTAAGTACCGCAAATTGAAGTGTTTAGTTGCTGGAAATTG-AG
1 TAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAG
74531682 ATGTT
65 -TGTT
* * * ** *
74531687 T-TATCGCTGT-AATTGAGGTGTATAAATGTTGTTAATTGAAATG-TTAAAGTGCTGCAAATTGA
1 TAAAT-GCTGTAAATTGAAGTGT-TAAATGCTGCAAATTGAAGTGTTTAAA-TGCTGCAAATTGA
74531749 AGTGTT
63 AGTGTT
* * * ** *
74531755 TTAATGCTCTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATTAAAG
1 TAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAG
74531820 TGTT
65 TGTT
* * * * *
74531824 TAAATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAG
1 TAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAG
74531889 TG-T
65 TGTT
* * * * **
74531892 TAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGTTGTTAATTGAA
1 TAAA-TGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAA
*
74531957 ATG-T
64 GTGTT
* * * *
74531961 TAAAGTGCTGCAAATTGAAGTGTTTTAATGTTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGA
1 TAAA-TGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAA-TGCTGCAAATTGA
74532025 AGTGTT
63 AGTGTT
* * *
74532031 TGAATACTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAA
1 TAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAA-TGCTGCAAATTGAA
74532095 GTGTT
64 GTGTT
* * * * * *
74532100 TGAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAACTAAAG
1 TAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAG
74532165 TGTT
65 TGTT
* * * ** * * * *
74532169 TAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTG-AGATGTTT-TATCGTTG-TAA-TGA
1 TAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAG-TGTTTAAAT-GCTGCAAATTGA
* *
74532230 GGTGTA
63 AGTGTT
* * * *
74532236 TAAATGTTGTTAATTGAAATGTTAAAGTGCTGCAAATTGAAGTGTTTTAATGCT-CTAAATTGAA
1 TAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTGC-AAATTGAA
74532300 GTG-T
64 GTGTT
* * * *
74532304 TAAAGTGCTGCAAATTGAAGTGTTTTAATGCTGTAAATTTAAGTG-TTAAAGTGCTGCAAATTGA
1 TAAA-TGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAA-TGCTGCAAATTGA
74532368 AGTGTT
63 AGTGTT
* * ** *
74532374 TGAATGCTGTAAATTGAAGTGTTTAAATGTTGTTAATTGAAATG-TTAAAGTGCTGCAAATTGAA
1 TAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAA-TGCTGCAAATTGAA
74532438 GTGTT
64 GTGTT
* * *
74532443 TTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAG
1 TAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAG
74532508 TGTT
65 TGTT
* ** * * *
74532512 TAAATGTTGTAAATTGAAGAATTAAAGTGCTGCAAATTGAAGTGTTTGAATGTTGTAAATTGAAG
1 TAAATGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAG
*
74532577 TATT
65 TGTT
* *
74532581 TAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAATACTGCAAATTGAAG
1 TAAATGCTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAG
74532646 TGTT
65 TGTT
** * * ** * * * * * ***
74532650 TAGTTGCTGGACATTG-AGATGTTTTATCGCTG-TAATTGAGGTATATAAATGTTATTAATTG-A
1 TAAATGCTGTAAATTGAAG-TGTTAAAT-GCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAA
74532712 GATG-T
64 G-TGTT
* * * *
74532717 TAAAGTGTTGCAAATTGAAGTGTTAAAGTGTTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAA
1 TAAA-TGCTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAA
74532782 GTGTT
64 GTGTT
* *
74532787 TGAATGCTGCAAATTGAAGTGTT
1 TAAATGCTGTAAATTGAAGTGTT
74532810 TAAGTACTTA
Statistics
Matches: 928, Mismatches: 157, Indels: 76
0.80 0.14 0.07
Matches are distributed among these distances:
66 3 0.00
67 48 0.05
68 129 0.14
69 707 0.76
70 41 0.04
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (68 bp):
TAAATGCTGTAAATTGAAGTGTTAAATGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGT
GTT
Found at i:74531864 original size:115 final size:115
Alignment explanation
Indices: 74531625--74532814 Score: 1330
Period size: 115 Copynumber: 10.4 Consensus size: 115
74531615 TAGTAAATGT
* * * * *
74531625 TGCAAATTGAAGTG-TTTAAGTACCGCAAATTGAAGTGTT-TAGTTGCTGGAAATTG-AGATGTT
1 TGCAAATTGAAGTGTTTTAA-TGCTGTAAATTGAAGTGTTAAAG-TGCTGCAAATTGAAG-TGTT
* * * *
74531687 T-TATCGCTGT-AATTGAGGTGTATAAATGTTGTTAATTGAAATGTTAAAGTGC
63 TGAAT-GCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTAAAGTGC
*
74531739 TGCAAATTGAAGTGTTTTAATGCTCTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
* * *
74531804 ATGCTATAAATTAAAGTGTTTAAATGTTGTTAATTGAAATGTTAAAGTGC
66 ATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTAAAGTGC
74531854 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
*
74531919 ATGCTGTAAATTGAAGTGTTTAAATGTTGTTAATTGAAATGTTAAAGTGC
66 ATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTAAAGTGC
*
74531969 TGCAAATTGAAGTGTTTTAATGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
* * *
74532034 ATACTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGC
66 ATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTAAAGTGC
* * * *
74532084 TGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGCTTA
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTG
* * * * * ** * * *
74532148 AATGTTGCAAACTAAAGTGTTTAAGTACTGCAAATTGAAGTGTT-TAGTTGC
65 AATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTAAAG-TGC
* * * * ** *
74532199 TGGAAATTG-AGATGTTTT-ATCGTTGT-AA-TGAGGTGTATAAA-TGTTGTTAATTGAAATG-T
1 TGCAAATTGAAG-TGTTTTAAT-GCTGTAAATTGAAGTGT-TAAAGTGCTGCAAATTGAAGTGTT
* * * * * *
74532258 TAAAGTGCTGCAAATTGAAGTGTTTTAATGCTCTAAATTGAAGTGTTAAAGTGC
63 TGAA-TGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTAAAGTGC
*
74532312 TGCAAATTGAAGTGTTTTAATGCTGTAAATTTAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
*
74532377 ATGCTGTAAATTGAAGTGTTTAAATGTTGTTAATTGAAATGTTAAAGTGC
66 ATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTAAAGTGC
74532427 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
*
74532492 ATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGA-ATTAAAGTGC
66 ATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAA-ATGTTAAAGTGC
* * * * * *
74532542 TGCAAATTGAAGTGTTTGAATGTTGTAAATTGAAGTATTTAAA-TGCTGTAAATTGAAGTGCTTA
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGT-GTTAAAGTGCTGCAAATTGAAGTGTTTG
* * ** * * *
74532606 AATGTTGCAAATTGAAGTGTTTAAATACTGCAAATTGAAGTGTT-TAGTTGC
65 AATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTAAAG-TGC
* * * * * ***
74532657 TGGACATTG-AGATGTTTT-ATCGCTGT-AATTGAGGTATATAAA-TGTTATTAATTG-AGATG-
1 TGCAAATTGAAG-TGTTTTAAT-GCTGTAAATTGAAGTGT-TAAAGTGCTGCAAATTGAAG-TGT
* * * * * *
74532716 TTAAAGTGTTGCAAATTGAAGTG-TTAAAGTGTTGCAAATTGAAGTGTTTGAA-TGC
62 TTGAA-TGCTGTAAATTGAAGTGTTTAAA-TGTTGTAAATTGAAATG-TTAAAGTGC
* * *
74532771 TGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAGT
1 TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGT
74532815 ACTTATTTTG
Statistics
Matches: 942, Mismatches: 100, Indels: 67
0.85 0.09 0.06
Matches are distributed among these distances:
112 6 0.01
113 92 0.10
114 152 0.16
115 676 0.72
116 16 0.02
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (115 bp):
TGCAAATTGAAGTGTTTTAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGA
ATGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAATGTTAAAGTGC
Found at i:74534496 original size:43 final size:42
Alignment explanation
Indices: 74534436--74534517 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 42
74534426 TCAATAATTT
74534436 AGAAATATCAAACCAAGAATTATGCATACATAATTGAGAACA
1 AGAAATATCAAACCAAGAATTATGCATACATAATTGAGAACA
74534478 AGAAACTATCAAACCAAGAATTATGCATACATAATTGAGA
1 AGAAA-TATCAAACCAAGAATTATGCATACATAATTGAGA
74534518 CAGAATCCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
42 5 0.13
43 34 0.87
ACGTcount: A:0.51, C:0.15, G:0.12, T:0.22
Consensus pattern (42 bp):
AGAAATATCAAACCAAGAATTATGCATACATAATTGAGAACA
Found at i:74535165 original size:38 final size:38
Alignment explanation
Indices: 74535123--74535199 Score: 129
Period size: 38 Copynumber: 2.0 Consensus size: 38
74535113 TGTATGAGGA
74535123 TTAAATTTTAACAAATTAA-AGTAAATGGATTATTTTCT
1 TTAAATTTTAACAAATTAATA-TAAATGGATTATTTTCT
*
74535161 TTAAATTTTAACAAATTAATATAAGTGGATTATTTTCT
1 TTAAATTTTAACAAATTAATATAAATGGATTATTTTCT
74535199 T
1 T
74535200 AGTTTTTTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
38 36 0.97
39 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (38 bp):
TTAAATTTTAACAAATTAATATAAATGGATTATTTTCT
Found at i:74536047 original size:28 final size:29
Alignment explanation
Indices: 74536005--74536074 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 29
74535995 AAAAATGCCG
74536005 ATTTTTAAGAAAAATTATCA-GATTAAGCC
1 ATTTTTAAGAAAAATTA-CAGGATTAAGCC
*
74536034 ATTTTTTA-AAAAATTACAGGATTAAGCC
1 ATTTTTAAGAAAAATTACAGGATTAAGCC
* *
74536062 AATTTTACGAAAA
1 ATTTTTAAGAAAA
74536075 TGTTTCCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.06
28 22 0.63
29 11 0.31
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (29 bp):
ATTTTTAAGAAAAATTACAGGATTAAGCC
Found at i:74536795 original size:23 final size:22
Alignment explanation
Indices: 74536761--74536810 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
74536751 GATTTTTAAA
* *
74536761 ATTTAAATTATTTAATGATAGT
1 ATTTAAACTATTTAATGATAAT
*
74536783 ATTTAAGACTATTTAGTGATAAT
1 ATTTAA-ACTATTTAATGATAAT
74536806 ATTTA
1 ATTTA
74536811 GGAAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (22 bp):
ATTTAAACTATTTAATGATAAT
Done.