Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 76 of 276
Found at i:23338004 original size:24 final size:24
Alignment explanation
Indices: 23337977--23338022 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
23337967 ATATACCTAT
*
23337977 ATTAAAAAATATATATAATGTAAC
1 ATTAAAAAACATATATAATGTAAC
* *
23338001 ATTAAAATACATGTATAATGTA
1 ATTAAAAAACATATATAATGTA
23338023 GTAAAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (24 bp):
ATTAAAAAACATATATAATGTAAC
Found at i:23338039 original size:22 final size:21
Alignment explanation
Indices: 23337956--23338039 Score: 53
Period size: 24 Copynumber: 3.9 Consensus size: 21
23337946 ATAATAAGAA
** *
23337956 TAATAAAAAATATATA-CCTA
1 TAATAAAAAATATATATAATG
*
23337976 TATTAAAAAATATATATAATG
1 TAATAAAAAATATATATAATG
* * *
23337997 TAACATTAAAATACATGTATAATG
1 T-A-A-TAAAAAATATATATAATG
*
23338021 TAGTAAAAAATATTATATA
1 TAATAAAAAATA-TATATA
23338040 TTCATAAGAT
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
20 15 0.32
21 9 0.19
22 6 0.13
23 1 0.02
24 16 0.34
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.35
Consensus pattern (21 bp):
TAATAAAAAATATATATAATG
Found at i:23338150 original size:25 final size:26
Alignment explanation
Indices: 23338106--23338163 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
23338096 GTATAAAGAT
23338106 ATAATAT-TAAAAAGATACATATA-C
1 ATAATATATAAAAAGATACATATACC
23338130 ATAATATATAAAAATGA-ACATATACC
1 ATAATATATAAAAA-GATACATATACC
23338156 AT-ATATAT
1 ATAATATAT
23338164 TAGAAATACT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
24 7 0.23
25 19 0.61
26 5 0.16
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (26 bp):
ATAATATATAAAAAGATACATATACC
Found at i:23338170 original size:26 final size:25
Alignment explanation
Indices: 23338104--23338170 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
23338094 ATGTATAAAG
*
23338104 ATATAATATTAAAAAGATACATATAC
1 ATAT-ATATTAAAATGATACATATAC
*
23338130 ATAATATATAAAAATGA-ACATATACC
1 AT-ATATATTAAAATGATACATATA-C
23338156 ATATATATTAGAAAT
1 ATATATATTA-AAAT
23338171 ACTAATAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
25 14 0.40
26 19 0.54
27 2 0.06
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.31
Consensus pattern (25 bp):
ATATATATTAAAATGATACATATAC
Found at i:23338386 original size:15 final size:16
Alignment explanation
Indices: 23338358--23338403 Score: 67
Period size: 15 Copynumber: 2.8 Consensus size: 16
23338348 AAATATGTAC
23338358 ATAATATATAAAAAAT
1 ATAATATATAAAAAAT
23338374 ATAATAT-TAAAAAAT
1 ATAATATATAAAAAAT
23338389 ATACATAATATAAAA
1 ATA-AT-ATATAAAA
23338404 GTATTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 11 0.41
16 9 0.33
17 2 0.07
18 5 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAATATATAAAAAAT
Found at i:23338838 original size:20 final size:20
Alignment explanation
Indices: 23338813--23338921 Score: 68
Period size: 20 Copynumber: 5.3 Consensus size: 20
23338803 CTAATAACAT
23338813 TAAAATACATACATAATATA
1 TAAAATACATACATAATATA
*
23338833 TAAAATACATATAATATATATA
1 TAAAATACATA-CATA-ATATA
*
23338855 TTAGAAAT-GATA-ATAATATA
1 -TA-AAATACATACATAATATA
**
23338875 -AAAACTATTCATAC-GCA-ATA
1 TAAAA-TA--CATACATAATATA
23338895 T-AAATACATACATATATATA
1 TAAAATACATACATA-ATATA
23338915 TAAAATA
1 TAAAATA
23338922 ATGATGTTAG
Statistics
Matches: 68, Mismatches: 7, Indels: 27
0.67 0.07 0.26
Matches are distributed among these distances:
17 8 0.12
18 2 0.03
19 3 0.04
20 26 0.38
21 15 0.22
22 5 0.07
23 5 0.07
24 4 0.06
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (20 bp):
TAAAATACATACATAATATA
Found at i:23338848 original size:18 final size:19
Alignment explanation
Indices: 23338804--23338852 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
23338794 TATATGTAAC
*
23338804 TAATAACAT-TAAAATACA
1 TAATAATATATAAAATACA
23338822 TACATAATATATAAAATACA
1 TA-ATAATATATAAAATACA
23338842 T-ATAATATATA
1 TAATAATATATA
23338853 TATTAGAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 12 0.43
19 6 0.21
20 10 0.36
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATAATATATAAAATACA
Found at i:23338945 original size:19 final size:19
Alignment explanation
Indices: 23338921--23338957 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23338911 TATATAAAAT
*
23338921 AATGATGTTAGAAATATAC
1 AATGATATTAGAAATATAC
23338940 AATGATATTAGAAATATA
1 AATGATATTAGAAATATA
23338958 TATAAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.14, T:0.32
Consensus pattern (19 bp):
AATGATATTAGAAATATAC
Found at i:23339055 original size:24 final size:26
Alignment explanation
Indices: 23339011--23339079 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 26
23339001 TATAAACAAT
*
23339011 AATATATATAACATACA-ATAT-TGAA
1 AATATATAT-ACATACATATATAGGAA
23339036 AATATATATACATA-ATATATAGGAA
1 AATATATATACATACATATATAGGAA
* *
23339061 AA-ATATATAGATATATATA
1 AATATATATACATACATATA
23339080 ATATAATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 1 0.03
24 19 0.49
25 19 0.49
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (26 bp):
AATATATATACATACATATATAGGAA
Found at i:23341079 original size:22 final size:23
Alignment explanation
Indices: 23341049--23341097 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 23
23341039 GGTAGCTCCG
23341049 TATTACATGCTATATCTTTCCTT
1 TATTACATGCTATATCTTTCCTT
23341072 TATT-CATGCTATATCTTTCCTT
1 TATTACATGCTATATCTTTCCTT
23341094 TATT
1 TATT
23341098 GTTGAATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.20, C:0.20, G:0.04, T:0.55
Consensus pattern (23 bp):
TATTACATGCTATATCTTTCCTT
Found at i:23348656 original size:84 final size:84
Alignment explanation
Indices: 23348515--23348683 Score: 293
Period size: 84 Copynumber: 2.0 Consensus size: 84
23348505 AGTCTTAGTA
* * * *
23348515 TTAGTAATCTAAAGCGCTCTTTCACTCGTTTGCATTCTCTCCCCATTCTTTACTTCCTAAGAAGC
1 TTAGTAATCCAAAGCGCTCTTTCACTCGTTTGCACTCGCTCCCCATTCCTTACTTCCTAAGAAGC
23348580 TCATTATTCAGTGTTGGCT
66 TCATTATTCAGTGTTGGCT
*
23348599 TTAGTAATCCAAAGCGCTCTTTCACTCGTTTGCACTCGCTCCCTATTCCTTACTTCCTAAGAAGC
1 TTAGTAATCCAAAGCGCTCTTTCACTCGTTTGCACTCGCTCCCCATTCCTTACTTCCTAAGAAGC
23348664 TCATTATTCAGTGTTGGCT
66 TCATTATTCAGTGTTGGCT
23348683 T
1 T
23348684 AAGCTAGATC
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.20, C:0.27, G:0.14, T:0.39
Consensus pattern (84 bp):
TTAGTAATCCAAAGCGCTCTTTCACTCGTTTGCACTCGCTCCCCATTCCTTACTTCCTAAGAAGC
TCATTATTCAGTGTTGGCT
Found at i:23351016 original size:33 final size:33
Alignment explanation
Indices: 23350974--23351040 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
23350964 AGAGTTGTTG
23350974 AATTGCACTCGGCAGTACTAACTGCAGATTATC
1 AATTGCACTCGGCAGTACTAACTGCAGATTATC
23351007 AATTGCACTCGGCAGTACTAACTGCAGATTATC
1 AATTGCACTCGGCAGTACTAACTGCAGATTATC
23351040 A
1 A
23351041 CTAAGGTGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (33 bp):
AATTGCACTCGGCAGTACTAACTGCAGATTATC
Found at i:23351778 original size:22 final size:22
Alignment explanation
Indices: 23351728--23351779 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
23351718 TCTAAATAAT
* * *
23351728 AACAACAAAATAATAGTAATAT
1 AACAGCAAAATAATAGTAAAAC
* *
23351750 AATAGCAAAATGATAGTAAAAC
1 AACAGCAAAATAATAGTAAAAC
23351772 AACAGCAA
1 AACAGCAA
23351780 GAAAAAAATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.17
Consensus pattern (22 bp):
AACAGCAAAATAATAGTAAAAC
Found at i:23352757 original size:19 final size:18
Alignment explanation
Indices: 23352733--23352780 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
23352723 ACGTAAAAAG
23352733 TAAAAAGTAAAAGATGAAA
1 TAAAAA-TAAAAGATGAAA
23352752 TAAAAATAAAAAGATGAAA
1 TAAAAAT-AAAAGATGAAA
23352771 TAAAAATAAA
1 TAAAAATAAA
23352781 TAACAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAGATGAAA
Found at i:23353699 original size:16 final size:16
Alignment explanation
Indices: 23353669--23353716 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
23353659 GAAAATTAAT
23353669 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
23353684 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
23353701 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
23353716 A
1 A
23353717 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:23353715 original size:11 final size:11
Alignment explanation
Indices: 23353660--23353730 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
23353650 ATAGCTTAAG
*
23353660 AAAATTAATAT
1 AAAATTAAAAT
23353671 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
23353683 AATAA-T-AATT
1 AA-AATTAAAAT
*
23353693 AAAAAT-AAAT
1 AAAATTAAAAT
23353703 AAAATTAAAAT
1 AAAATTAAAAT
*
23353714 AAACTTAAAAT
1 AAAATTAAAAT
*
23353725 AGAATT
1 AAAATT
23353731 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:23358380 original size:6 final size:6
Alignment explanation
Indices: 23358362--23358458 Score: 92
Period size: 6 Copynumber: 15.8 Consensus size: 6
23358352 AAGAAACATT
*
23358362 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
23358411 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
23358459 GTAACAGAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
5 4 0.05
6 63 0.83
7 7 0.09
8 2 0.03
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:23358409 original size:31 final size:31
Alignment explanation
Indices: 23358346--23358468 Score: 169
Period size: 31 Copynumber: 4.0 Consensus size: 31
23358336 TAACCCATTA
* * *
23358346 CAGAATAAGAAACATTATCA-G-AACTAGAAT
1 CAGAATCAGAATCAGTATCAGGTAAC-AGAAT
* *
23358376 CAGAATCAGAATCAGAATCAGGTGACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
23358407 CAGAATCAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
*
23358438 CAAAATCAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
23358469 AAAAAATCAG
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
30 16 0.19
31 65 0.78
32 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAAT
Found at i:23358435 original size:25 final size:25
Alignment explanation
Indices: 23358374--23358452 Score: 85
Period size: 25 Copynumber: 3.2 Consensus size: 25
23358364 CAGAACTAGA
23358374 ATCA-GAATCAGAATCAGAATCAGGT
1 ATCAGGAATCAGAATCAGAATCA-GT
23358399 GA-CA-GAATCAGAATCAGAATCAGT
1 -ATCAGGAATCAGAATCAGAATCAGT
* *
23358423 ATCAGGTAA-CAGAATCAAAATCAGA
1 ATCAGG-AATCAGAATCAGAATCAGT
23358448 ATCAG
1 ATCAG
23358453 TATCAGGTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
23 1 0.02
24 4 0.08
25 40 0.83
26 3 0.06
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (25 bp):
ATCAGGAATCAGAATCAGAATCAGT
Found at i:23358660 original size:27 final size:26
Alignment explanation
Indices: 23358618--23358719 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
23358608 GCTCAGTTAT
* *
23358618 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
23358645 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
23358671 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
23358699 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
23358720 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
26 7 0.10
27 53 0.78
28 8 0.12
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:23358906 original size:22 final size:22
Alignment explanation
Indices: 23358878--23358942 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
23358868 GCAAATACGT
*
23358878 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
23358900 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
23358922 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
23358943 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:23359438 original size:27 final size:27
Alignment explanation
Indices: 23359387--23359859 Score: 635
Period size: 27 Copynumber: 17.6 Consensus size: 27
23359377 TGCCCCACAA
* * *
23359387 GGTATCTCGGTAATTCCACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* ** *
23359414 GATATTTTAGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
23359441 GGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
23359468 GGTATTCCGATAATTCTACCCTCCAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
23359495 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
23359522 GGTATTTCGGTAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
23359549 GGTATTGT-GATAATTCTACCCTACAGG
1 GGTATT-TCGGTAATTCTACCCTACAGG
* * *
23359576 GGTATTCCGATAATTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
23359603 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
23359630 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
23359657 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
23359684 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
23359711 GGTATTGCGATAATTCTACCCT-CAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
23359737 GGTATTTCGGTAATTTTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
23359764 GGTATTGCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
23359791 GGTATTCCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
23359818 GGTATTTCGGTATTTCTACCCCACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
23359845 GGTATTTCGGTAATT
1 GGTATTTCGGTAATT
23359860 TTGTAAATCG
Statistics
Matches: 391, Mismatches: 52, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
26 22 0.06
27 368 0.94
28 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:23359921 original size:27 final size:27
Alignment explanation
Indices: 23359894--23360237 Score: 329
Period size: 27 Copynumber: 12.8 Consensus size: 27
23359884 ATTCTGTAAG
* *
23359894 TCAAGGGTACTTTGGTAATTTTACAAG
1 TCAAGGGTATTTTGGTAATTTTACAAA
* *** *
23359921 TCGAGGGTATTTCAATAATTTTACAAG
1 TCAAGGGTATTTTGGTAATTTTACAAA
** *
23359948 TCGAA-GGTATTTCAGTAATTTCACAAA
1 TC-AAGGGTATTTTGGTAATTTTACAAA
* *
23359975 TCAATGGTATTTTGGTAATTTCACAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
23360002 TC-AGGGTATTTTGGTAATTTTACAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* *
23360028 -CTAGGGGTATTTTGATAATTTTACAAA
1 TC-AAGGGTATTTTGGTAATTTTACAAA
* *
23360055 -CCAGAGGTATTTTGATAATTTTACAAA
1 TCAAG-GGTATTTTGGTAATTTTACAAA
* * *
23360082 CCAGGGGTATTTTGATAATTTTACAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* * **
23360109 CCAGGGGTATTTTGGTAATTTTGTAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
*
23360136 CCAAGGGTATTTTGGTAATTTTACAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* * *
23360163 TCAGGGGTATTTTGGTGATTTTATAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* * * *
23360190 CCAATGGTATTTTAGTGATTTTACAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
*
23360217 -CCAGTGGTATTTTGGTAATTT
1 TCAAG-GGTATTTTGGTAATTT
23360238 GGTAAACTAA
Statistics
Matches: 272, Mismatches: 38, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
25 1 0.00
26 27 0.10
27 241 0.89
28 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
TCAAGGGTATTTTGGTAATTTTACAAA
Found at i:23360128 original size:81 final size:81
Alignment explanation
Indices: 23359895--23360237 Score: 374
Period size: 81 Copynumber: 4.2 Consensus size: 81
23359885 TTCTGTAAGT
* * *** ** *
23359895 CAAGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTCAATAATTTTACAAGTC-GAAGGTAT
1 CAAGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAACCAG-GGGTAT
* * *
23359958 TTCAGTAATTTCACAAAT
64 TTTAGTAATTTTACAAAC
* * *
23359976 CAATGGTATTTTGGTAATTTCACAAATCA-GGGTATTTTGGTAATTTTACAAACTAGGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
23360040 T-GATAATTTTACAAAC
66 TAG-TAATTTTACAAAC
* * *
23360056 C-AGAGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGATAATTTTACAAACCAGGGGTATT
1 CAAG-GGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATT
* **
23360120 TTGGTAATTTTGTAAAC
65 TTAGTAATTTTACAAAC
* * **
23360137 CAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTGATTTTATAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
*
23360202 TAGTGATTTTACAAAC
66 TAGTAATTTTACAAAC
23360218 C-AGTGGTATTTTGGTAATTT
1 CAAG-GGTATTTTGGTAATTT
23360238 GGTAAACTAA
Statistics
Matches: 221, Mismatches: 33, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
79 2 0.01
80 62 0.28
81 154 0.70
82 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (81 bp):
CAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
TAGTAATTTTACAAAC
Found at i:23360244 original size:27 final size:27
Alignment explanation
Indices: 23359953--23360237 Score: 347
Period size: 27 Copynumber: 10.6 Consensus size: 27
23359943 ACAAGTCGAA
** * * **
23359953 GGTATTTCAGTAATTTCACAAATCAAT
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
23359980 GGTATTTTGGTAATTTCACAAATCA-G
1 GGTATTTTGGTAATTTTACAAACCAGG
*
23360006 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* *
23360033 GGTATTTTGATAATTTTACAAACCAGA
1 GGTATTTTGGTAATTTTACAAACCAGG
*
23360060 GGTATTTTGATAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
23360087 GGTATTTTGATAATTTTACAAACCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
** *
23360114 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTTACAAACCAGG
*
23360141 GGTATTTTGGTAATTTTACAAATCAGG
1 GGTATTTTGGTAATTTTACAAACCAGG
* * **
23360168 GGTATTTTGGTGATTTTATAAACCAAT
1 GGTATTTTGGTAATTTTACAAACCAGG
* * *
23360195 GGTATTTTAGTGATTTTACAAACCAGT
1 GGTATTTTGGTAATTTTACAAACCAGG
23360222 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
23360238 GGTAAACTAA
Statistics
Matches: 229, Mismatches: 28, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 22 0.10
27 207 0.90
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACCAGG
Found at i:23366263 original size:16 final size:16
Alignment explanation
Indices: 23366233--23366280 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
23366223 GAAAATTAAT
23366233 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
23366248 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
23366265 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
23366280 A
1 A
23366281 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:23366279 original size:11 final size:11
Alignment explanation
Indices: 23366224--23366294 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
23366214 ACAGCTTAAG
*
23366224 AAAATTAATAT
1 AAAATTAAAAT
23366235 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
23366247 AATAA-T-AATT
1 AA-AATTAAAAT
*
23366257 AAAAAT-AAAT
1 AAAATTAAAAT
23366267 AAAATTAAAAT
1 AAAATTAAAAT
*
23366278 AAACTTAAAAT
1 AAAATTAAAAT
*
23366289 AGAATT
1 AAAATT
23366295 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:23380888 original size:35 final size:33
Alignment explanation
Indices: 23380849--23380942 Score: 98
Period size: 35 Copynumber: 2.8 Consensus size: 33
23380839 TTTAAACTAC
*
23380849 TTTTAAATAATATAATTTTAATTATTATAATTCAT
1 TTTTAAAT-ATATAATTTTAATAATTATAATT-AT
** *
23380884 TTTTATTTTTTATAATTTTAATAATTATAATTAT
1 TTTTA-AATATATAATTTTAATAATTATAATTAT
* * *
23380918 TCTTAAATATATAATTATCATAATT
1 TTTTAAATATATAATTTTAATAATT
23380943 TCTATTAAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
33 15 0.31
34 6 0.12
35 26 0.54
36 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (33 bp):
TTTTAAATATATAATTTTAATAATTATAATTAT
Found at i:23381055 original size:13 final size:12
Alignment explanation
Indices: 23381003--23381057 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 12
23380993 TATGTCAATC
23381003 TTTTT-AATTAA
1 TTTTTAAATTAA
23381014 TAATTTTAAATTAAA
1 T--TTTTAAATT-AA
*
23381029 TATTTAAATT-A
1 TTTTTAAATTAA
23381040 TTTTTAAATGTAA
1 TTTTTAAAT-TAA
23381053 TTTTT
1 TTTTT
23381058 GGAGTCGGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
11 10 0.28
12 1 0.03
13 18 0.50
14 4 0.11
15 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (12 bp):
TTTTTAAATTAA
Found at i:23382334 original size:11 final size:11
Alignment explanation
Indices: 23382318--23382342 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23382308 CACGTGTCTG
23382318 TTTTAATTTTT
1 TTTTAATTTTT
23382329 TTTTAATTTTT
1 TTTTAATTTTT
23382340 TTT
1 TTT
23382343 AATATATGAG
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTAATTTTT
Found at i:23386944 original size:21 final size:21
Alignment explanation
Indices: 23386906--23386945 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23386896 ATTACTCCAA
*
23386906 AGAAGCCGATTGATCCATCTC
1 AGAAGCCGATTCATCCATCTC
23386927 AGAAGCCGGATTCA-CCATC
1 AGAAGCC-GATTCATCCATC
23386946 AAGACTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (21 bp):
AGAAGCCGATTCATCCATCTC
Found at i:23388896 original size:24 final size:24
Alignment explanation
Indices: 23388869--23388948 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
23388859 ACAGAGGGTG
23388869 GAGATGAAGATAAATACGAGAGTC
1 GAGATGAAGATAAATACGAGAGTC
* * * * *
23388893 GAGATAAAGATTAATATGAGGGTG
1 GAGATGAAGATAAATACGAGAGTC
* *
23388917 GAGATGAAGATGAAGACGAGAGTC
1 GAGATGAAGATAAATACGAGAGTC
*
23388941 GATATGAA
1 GAGATGAA
23388949 AATTAATATA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.44, C:0.05, G:0.33, T:0.19
Consensus pattern (24 bp):
GAGATGAAGATAAATACGAGAGTC
Found at i:23388973 original size:48 final size:48
Alignment explanation
Indices: 23388862--23388980 Score: 152
Period size: 48 Copynumber: 2.5 Consensus size: 48
23388852 GACAAAGACA
* *
23388862 GAGGGTGGAGATGAAGATAAATACGAGAGTCGAGATAAAGATTAATAT
1 GAGGGTGGAGATGAAGATGAAGACGAGAGTCGAGATAAAGATTAATAT
*
23388910 GAGGGTGGAGATGAAGATGAAGACGAGAGTCGATATGAAA-ATTAATAT
1 GAGGGTGGAGATGAAGATGAAGACGAGAGTCGAGAT-AAAGATTAATAT
* * *
23388958 -AGGGGTTGAGGTGAAGAAGAAGA
1 GA-GGGTGGAGATGAAGATGAAGA
23388981 TGAAGACGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
47 1 0.02
48 59 0.94
49 3 0.05
ACGTcount: A:0.42, C:0.03, G:0.35, T:0.19
Consensus pattern (48 bp):
GAGGGTGGAGATGAAGATGAAGACGAGAGTCGAGATAAAGATTAATAT
Found at i:23392388 original size:21 final size:21
Alignment explanation
Indices: 23392364--23392434 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
23392354 TTTTTGAAAA
23392364 GAAATGTGTAAGACCATGGTT
1 GAAATGTGTAAGACCATGGTT
* *
23392385 GAAA-G-ATACCATGACAACATGATAT
1 GAAATGTGTA--A-GAC--CATGGT-T
23392410 GAAATGTGTAAGACCATGGTT
1 GAAATGTGTAAGACCATGGTT
23392431 GAAA
1 GAAA
23392435 GATACCATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 10 0.26
22 8 0.21
24 8 0.21
25 6 0.16
26 1 0.03
27 2 0.05
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (21 bp):
GAAATGTGTAAGACCATGGTT
Found at i:23392416 original size:46 final size:46
Alignment explanation
Indices: 23392364--23392681 Score: 447
Period size: 46 Copynumber: 6.9 Consensus size: 46
23392354 TTTTTGAAAA
* * *
23392364 GAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGATAT
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAT
* * *
23392410 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATAATAT
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAT
* *
23392456 GAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACATGACAT
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAT
** **
23392502 GAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAT
* *
23392548 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAT
* * *
23392594 GAAATGAATAATACCATGGTTGAAAGATACCATGGCAACATGACAA
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAT
* * * *
23392640 GAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
23392682 TCAAAGATAA
Statistics
Matches: 248, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 248 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAT
Found at i:23396125 original size:7 final size:7
Alignment explanation
Indices: 23396113--23396149 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
23396103 TGTTCTTTTT
23396113 AATTTAA
1 AATTTAA
23396120 AATTTAA
1 AATTTAA
23396127 AATTTAA
1 AATTTAA
23396134 AATTTAA
1 AATTTAA
*
23396141 AAATTAA
1 AATTTAA
23396148 AA
1 AA
23396150 ACTTAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATTTAA
Found at i:23396145 original size:15 final size:15
Alignment explanation
Indices: 23396113--23396160 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
23396103 TGTTCTTTTT
23396113 AATTTAAAATTT-AA
1 AATTTAAAATTTAAA
23396127 AATTTAAAATTTAAA
1 AATTTAAAATTTAAA
* * *
23396142 AATTAAAAACTTAAT
1 AATTTAAAATTTAAA
23396157 AATT
1 AATT
23396161 AATATTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTTAAAATTTAAA
Found at i:23400927 original size:7 final size:7
Alignment explanation
Indices: 23400915--23400951 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
23400905 TGTTCTTTTT
23400915 AATTTAA
1 AATTTAA
23400922 AATTTAA
1 AATTTAA
23400929 AATTTAA
1 AATTTAA
23400936 AATTTAA
1 AATTTAA
*
23400943 AAATTAA
1 AATTTAA
23400950 AA
1 AA
23400952 ACTTAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATTTAA
Found at i:23400947 original size:15 final size:15
Alignment explanation
Indices: 23400915--23400962 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
23400905 TGTTCTTTTT
23400915 AATTTAAAATTT-AA
1 AATTTAAAATTTAAA
23400929 AATTTAAAATTTAAA
1 AATTTAAAATTTAAA
* * *
23400944 AATTAAAAACTTAAT
1 AATTTAAAATTTAAA
23400959 AATT
1 AATT
23400963 AATATTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTTAAAATTTAAA
Found at i:23403764 original size:10 final size:11
Alignment explanation
Indices: 23403737--23403770 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
23403727 ATTTTATTTT
23403737 TATTTTTAATA
1 TATTTTTAATA
*
23403748 AATTTTTAATA
1 TATTTTTAATA
23403759 TA-TTTTAATA
1 TATTTTTAATA
23403769 TA
1 TA
23403771 ACTTTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTTTTAATA
Found at i:23419190 original size:66 final size:66
Alignment explanation
Indices: 23419084--23419213 Score: 233
Period size: 66 Copynumber: 2.0 Consensus size: 66
23419074 GACCACCCCA
*
23419084 GCTTTCTAAAATTATCCTAATTAAATGAATTTGAAGAAAAATTAGAAAACTTACTTTGTATTATC
1 GCTTTCCAAAATTATCCTAATTAAATGAATTTGAAGAAAAATTAGAAAACTTACTTTGTATTATC
23419149 T
66 T
**
23419150 GCTTTCCAAAATTATCCTAATTAAATGAATTTGAAGAAAAATTAGCTAACTTACTTTGTATTAT
1 GCTTTCCAAAATTATCCTAATTAAATGAATTTGAAGAAAAATTAGAAAACTTACTTTGTATTAT
23419214 ATTCGGATAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (66 bp):
GCTTTCCAAAATTATCCTAATTAAATGAATTTGAAGAAAAATTAGAAAACTTACTTTGTATTATC
T
Found at i:23429093 original size:30 final size:30
Alignment explanation
Indices: 23429048--23429114 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
23429038 AATAATCAGA
* *
23429048 TTTAACTTAATTGAGAA-AAGATAATAAATT
1 TTTATCTTAAATGAGAACAAGATAAT-AATT
23429078 TTTATCTTAAATGAGAACAAGATAATAATT
1 TTTATCTTAAATGAGAACAAGATAATAATT
*
23429108 TCTATCT
1 TTTATCT
23429115 GAACTTCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 25 0.76
31 8 0.24
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (30 bp):
TTTATCTTAAATGAGAACAAGATAATAATT
Found at i:23430068 original size:31 final size:31
Alignment explanation
Indices: 23430030--23430091 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
23430020 GTAATGGTTA
* *
23430030 ATTTCATTTTTTTAATATTATTTAAT-TTTTT
1 ATTTCATTTTTATAAT-TTAATTAATATTTTT
23430061 ATTTCATTTTTATAATTTAATTAATATTTTT
1 ATTTCATTTTTATAATTTAATTAATATTTTT
23430092 TATAATAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 8 0.29
31 20 0.71
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (31 bp):
ATTTCATTTTTATAATTTAATTAATATTTTT
Found at i:23431747 original size:33 final size:34
Alignment explanation
Indices: 23431705--23431815 Score: 106
Period size: 33 Copynumber: 3.4 Consensus size: 34
23431695 GTGAATACGT
*
23431705 ATAAGACCATAGCCGGGCTATGGC-ATATTGA-TG
1 ATAAGACCATAGCAGGGCTATGGCAATA-TGAGTG
* * *
23431738 ATAAGACCATAACTGGGTTATGGCAATATGAGTG
1 ATAAGACCATAGCAGGGCTATGGCAATATGAGTG
* * *
23431772 -TAAGACCATGGCAGGGCCATGGCAATGT-ACGT-
1 ATAAGACCATAGCAGGGCTATGGCAATATGA-GTG
23431804 ATAAGACCATAG
1 ATAAGACCATAG
23431816 TTGGACCATG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
32 1 0.02
33 58 0.91
34 5 0.08
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (34 bp):
ATAAGACCATAGCAGGGCTATGGCAATATGAGTG
Found at i:23431792 original size:107 final size:107
Alignment explanation
Indices: 23431599--23431795 Score: 263
Period size: 107 Copynumber: 1.8 Consensus size: 107
23431589 TGTTTAAATG
** * * *
23431599 TAAGACCATAGTTGGGCTATGGCATTTTAGTGAAAAGACCATAACTGAGTTATGGCACTGTGAAC
1 TAAGACCATAGCCGGGCTATGGCATTTGAGTGAAAAGACCATAACTGAGTTATGGCAATATGAAC
*
23431664 GTAAGACCATGGTTAGACCATGGCAGTATATGTGAATACGTA
66 GTAAGACCATGGTCAGACCATGGCAGTATATGTGAATACGTA
* * *
23431706 TAAGACCATAGCCGGGCTATGGCATATTGA-TGATAAGACCATAACTGGGTTATGGCAATATGAG
1 TAAGACCATAGCCGGGCTATGGCAT-TTGAGTGAAAAGACCATAACTGAGTTATGGCAATATGAA
* *
23431770 TGTAAGACCATGG-CAGGGCCATGGCA
65 CGTAAGACCATGGTCA-GACCATGGCA
23431796 ATGTACGTAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
106 1 0.01
107 73 0.95
108 3 0.04
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (107 bp):
TAAGACCATAGCCGGGCTATGGCATTTGAGTGAAAAGACCATAACTGAGTTATGGCAATATGAAC
GTAAGACCATGGTCAGACCATGGCAGTATATGTGAATACGTA
Found at i:23438926 original size:80 final size:78
Alignment explanation
Indices: 23438825--23438978 Score: 254
Period size: 80 Copynumber: 1.9 Consensus size: 78
23438815 ATGCAAGACA
23438825 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTAGAAATGTATCCTGGGGCTAAAGT
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTAGAAATGTATCC--GGGCTAAAGT
*
23438890 CCTGCAGGCTTCATG
64 CCCGCAGGCTTCATG
* * *
23438905 CTGGAAATGTATCCGGGCTAAAGTCCTGTAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCC
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTAGAAATGTATCCGGGCTAAAGTCC
23438970 CGCAGGCTT
66 CGCAGGCTT
23438979 TGTGCTGGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 20 0.29
80 50 0.71
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (78 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTAGAAATGTATCCGGGCTAAAGTCC
CGCAGGCTTCATG
Found at i:23438938 original size:39 final size:39
Alignment explanation
Indices: 23438825--23438986 Score: 252
Period size: 39 Copynumber: 4.1 Consensus size: 39
23438815 ATGCAAGACA
23438825 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
23438864 CTAGAAATGTATCCTGGGGCTAAAGTCCTGCAGGCTTCATG
1 CTGGAAATGTATCC--GGGCTAAAGTCCCGCAGGCTTCGTG
* *
23438905 CTGGAAATGTATCCGGGCTAAAGTCCTGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
23438944 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
23438983 CTGG
1 CTGG
23438987 TAATATAATT
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 76 0.68
41 36 0.32
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:23453173 original size:12 final size:12
Alignment explanation
Indices: 23453151--23453179 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23453141 TAAATACCTC
23453151 TAAAA-TAATAA
1 TAAAATTAATAA
23453162 TAAAATTAATAA
1 TAAAATTAATAA
23453174 TAAAAT
1 TAAAAT
23453180 AAAAGTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:23456666 original size:121 final size:121
Alignment explanation
Indices: 23456452--23456696 Score: 445
Period size: 121 Copynumber: 2.0 Consensus size: 121
23456442 AAATGTTGTT
* * *
23456452 CATGGCACTGCAGGGTATGTAATATTCCACTACTTCATAGCTTATTTAGCATTATCCACTCTATA
1 CATGGCACTCCAGGGTATGAAATATTCCACTACTTCATAGCTTATTTACCATTATCCACTCTATA
23456517 ACGCTCCTCAAACTCTTTAGTTTCCCTAAAGTATCAATGTCCAACACATATTCCAA
66 ACGCTCCTCAAACTCTTTAGTTTCCCTAAAGTATCAATGTCCAACACATATTCCAA
*
23456573 CATGGCACTCCAGGGTATGAAATATTCCACTACTTCATAGCTTATTTACCATTATCTACTCTATA
1 CATGGCACTCCAGGGTATGAAATATTCCACTACTTCATAGCTTATTTACCATTATCCACTCTATA
*
23456638 ACGCTCCTCAAACTCTTTAGTTTCCCTAAAGTATCAATGTCCAACACATTTTCCAA
66 ACGCTCCTCAAACTCTTTAGTTTCCCTAAAGTATCAATGTCCAACACATATTCCAA
23456694 CAT
1 CAT
23456697 AGTTACGAGT
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 119 1.00
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (121 bp):
CATGGCACTCCAGGGTATGAAATATTCCACTACTTCATAGCTTATTTACCATTATCCACTCTATA
ACGCTCCTCAAACTCTTTAGTTTCCCTAAAGTATCAATGTCCAACACATATTCCAA
Found at i:23459171 original size:11 final size:10
Alignment explanation
Indices: 23459145--23459182 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
23459135 GCAATTGACC
23459145 ATTTTT-ATA
1 ATTTTTAATA
*
23459154 GTTTTTAATA
1 ATTTTTAATA
23459164 ACTTTTTAATA
1 A-TTTTTAATA
23459175 ATTTTTAA
1 ATTTTTAA
23459183 AAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 5 0.20
10 10 0.40
11 10 0.40
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:23459813 original size:32 final size:31
Alignment explanation
Indices: 23459752--23459817 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 31
23459742 TTAATAAAAC
*
23459752 TTTTTATATAATTTTTTTATTTTTAAAAATAT
1 TTTTTATATAATTTTTATATTTTTAAAAAT-T
23459784 TTTTTATATAATTTTTAATATTTTT-AAAATT
1 TTTTTATATAATTTTT-ATATTTTTAAAAATT
23459815 TTT
1 TTT
23459818 GAAAATTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 4 0.12
32 21 0.66
33 7 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (31 bp):
TTTTTATATAATTTTTATATTTTTAAAAATT
Found at i:23470953 original size:9 final size:9
Alignment explanation
Indices: 23470941--23470972 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
23470931 ACAAATATTA
23470941 AAAATAAAC
1 AAAATAAAC
23470950 AAAATAAAC
1 AAAATAAAC
23470959 AAAATAAAC
1 AAAATAAAC
23470968 AAAAT
1 AAAAT
23470973 GCACCAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAATAAAC
Found at i:23472148 original size:23 final size:23
Alignment explanation
Indices: 23472122--23472168 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
23472112 AGTTGTTCAT
23472122 AATAGTTTGAGAAAGGTTGAATA
1 AATAGTTTGAGAAAGGTTGAATA
23472145 AATAGTTTGAGAAAGGTTGAATA
1 AATAGTTTGAGAAAGGTTGAATA
23472168 A
1 A
23472169 CTTACTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.30
Consensus pattern (23 bp):
AATAGTTTGAGAAAGGTTGAATA
Found at i:23476066 original size:23 final size:23
Alignment explanation
Indices: 23476031--23476092 Score: 83
Period size: 23 Copynumber: 2.7 Consensus size: 23
23476021 GATTATTTTT
23476031 ATATAAAAATAAAT-T-TTAAAA
1 ATATAAAAATAAATATATTAAAA
23476052 ATATAATAAATTAAATATATTAAAA
1 ATATAA-AAA-TAAATATATTAAAA
*
23476077 ATATTAAAATAAATAT
1 ATATAAAAATAAATAT
23476093 TTTTCAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 6 0.17
22 3 0.08
23 12 0.33
24 4 0.11
25 11 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
ATATAAAAATAAATATATTAAAA
Found at i:23480884 original size:14 final size:15
Alignment explanation
Indices: 23480867--23480908 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
23480857 CACCAAAACC
23480867 AAAACCAAAAA-AAT
1 AAAACCAAAAATAAT
23480881 AAAA-CAAAAATAAT
1 AAAACCAAAAATAAT
23480895 AAAACC-AAAATAAT
1 AAAACCAAAAATAAT
23480909 TTAAAGGTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.23
14 19 0.73
15 1 0.04
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAACCAAAAATAAT
Found at i:23482187 original size:643 final size:643
Alignment explanation
Indices: 23480961--23482246 Score: 2563
Period size: 643 Copynumber: 2.0 Consensus size: 643
23480951 AAAACAAAAA
*
23480961 CAAAACATCAGTCTAGCTTACAAAACAATGACCCAAATTAAACCCAAAATCCCAAAACCAGACCT
1 CAAAACATCAATCTAGCTTACAAAACAATGACCCAAATTAAACCCAAAATCCCAAAACCAGACCT
23481026 AGCCCAGAAGAAATACAAAGCCTAAATGGCCCAGGACATTTGTGAGCAGAAACCCTAAGGGTTCA
66 AGCCCAGAAGAAATACAAAGCCTAAATGGCCCAGGACATTTGTGAGCAGAAACCCTAAGGGTTCA
23481091 TTTCCCTTTGCATCGCAGCTTGTTAGCTTGGAAAAGCCCTCCAAGCCCACGAACGGCCCCTCCTT
131 TTTCCCTTTGCATCGCAGCTTGTTAGCTTGGAAAAGCCCTCCAAGCCCACGAACGGCCCCTCCTT
23481156 TCGTATGACCATCACCACAATGGAACCTGCGAGAAGAAATAACAGAAACAATATCAAAAGCCAGC
196 TCGTATGACCATCACCACAATGGAACCTGCGAGAAGAAATAACAGAAACAATATCAAAAGCCAGC
23481221 AAATGACAGCAAGAAAATATAATTTTATTTTTCTTTTATTTATGTTATAAATCGGCTATAAAAAG
261 AAATGACAGCAAGAAAATATAATTTTATTTTTCTTTTATTTATGTTATAAATCGGCTATAAAAAG
23481286 CCATCATTTGTACTGTAAATGGATTACGGATGCTTGATATAAAGAAAAAGCAATCAAAAATAATT
326 CCATCATTTGTACTGTAAATGGATTACGGATGCTTGATATAAAGAAAAAGCAATCAAAAATAATT
23481351 GAAAAGGTGATTTTAAATTCCTTATAATTTTTTTCTTTTCAATTGGTTTTTCCTTTCGAGTGTTG
391 GAAAAGGTGATTTTAAATTCCTTATAATTTTTTTCTTTTCAATTGGTTTTTCCTTTCGAGTGTTG
23481416 CATGTGGGTTCTTAACAATAGAGTCCAAAAAAAGAGGGGATTTACCTTAACGATCGAAGTCCATC
456 CATGTGGGTTCTTAACAATAGAGTCCAAAAAAAGAGGGGATTTACCTTAACGATCGAAGTCCATC
23481481 TTCTTCATCGCAATCGAAGTAAAGATGGAATGTCGTCGCAATCAGGGCTCGGTCCTACAAGACAC
521 TTCTTCATCGCAATCGAAGTAAAGATGGAATGTCGTCGCAATCAGGGCTCGGTCCTACAAGACAC
23481546 CTCTGAGTGTCACCGACCATTGCTTACAGTGGTGTAAGAGCGTTCGGATTTTGGAGTG
586 CTCTGAGTGTCACCGACCATTGCTTACAGTGGTGTAAGAGCGTTCGGATTTTGGAGTG
23481604 CAAAACATCAATCTAGCTTACAAAACAATGACCCAAATTAAACCCAAAATCCCAAAACCAGACCT
1 CAAAACATCAATCTAGCTTACAAAACAATGACCCAAATTAAACCCAAAATCCCAAAACCAGACCT
23481669 AGCCCAGAAGAAATACAAAGCCTAAATGGCCCAGGACATTTGTGAGCAGAAACCCTAAGGGTTCA
66 AGCCCAGAAGAAATACAAAGCCTAAATGGCCCAGGACATTTGTGAGCAGAAACCCTAAGGGTTCA
23481734 TTTCCCTTTGCATCGCAGCTTGTTAGCTTGGAAAAGCCCTCCAAGCCCACGAACGGCCCCTCCTT
131 TTTCCCTTTGCATCGCAGCTTGTTAGCTTGGAAAAGCCCTCCAAGCCCACGAACGGCCCCTCCTT
23481799 TCGTATGACCATCACCACAATGGAACCTGCGAGAAGAAATAACAGAAACAATATCAAAAGCCAGC
196 TCGTATGACCATCACCACAATGGAACCTGCGAGAAGAAATAACAGAAACAATATCAAAAGCCAGC
23481864 AAATGACAGCAAGAAAATATAATTTTATTTTTCTTTTATTTATGTTATAAATCGGCTATAAAAAG
261 AAATGACAGCAAGAAAATATAATTTTATTTTTCTTTTATTTATGTTATAAATCGGCTATAAAAAG
23481929 CCATCATTTGTACTGTAAATGGATTACGGATGCTTGATATAAAGAAAAAGCAATCAAAAATAATT
326 CCATCATTTGTACTGTAAATGGATTACGGATGCTTGATATAAAGAAAAAGCAATCAAAAATAATT
23481994 GAAAAGGTGATTTTAAATTCCTTATAATTTTTTTCTTTTCAATTGGTTTTTCCTTTCGAGTGTTG
391 GAAAAGGTGATTTTAAATTCCTTATAATTTTTTTCTTTTCAATTGGTTTTTCCTTTCGAGTGTTG
23482059 CATGTGGGTTCTTAACAATAGAGTCCAAAAAAAGAGGGGATTTACCTTAACGATCGAAGTCCATC
456 CATGTGGGTTCTTAACAATAGAGTCCAAAAAAAGAGGGGATTTACCTTAACGATCGAAGTCCATC
23482124 TTCTTCATCGCAATCGAAGTAAAGATGGAATGTCGTCGCAATCAGGGCTCGGTCCTACAAGACAC
521 TTCTTCATCGCAATCGAAGTAAAGATGGAATGTCGTCGCAATCAGGGCTCGGTCCTACAAGACAC
23482189 CTCTGAGTGTCACCGACCATTGCTTACAGTGGTGTAAGAGCGTTCGGATTTTGGAGTG
586 CTCTGAGTGTCACCGACCATTGCTTACAGTGGTGTAAGAGCGTTCGGATTTTGGAGTG
23482247 TTAATCGGCC
Statistics
Matches: 642, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
643 642 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (643 bp):
CAAAACATCAATCTAGCTTACAAAACAATGACCCAAATTAAACCCAAAATCCCAAAACCAGACCT
AGCCCAGAAGAAATACAAAGCCTAAATGGCCCAGGACATTTGTGAGCAGAAACCCTAAGGGTTCA
TTTCCCTTTGCATCGCAGCTTGTTAGCTTGGAAAAGCCCTCCAAGCCCACGAACGGCCCCTCCTT
TCGTATGACCATCACCACAATGGAACCTGCGAGAAGAAATAACAGAAACAATATCAAAAGCCAGC
AAATGACAGCAAGAAAATATAATTTTATTTTTCTTTTATTTATGTTATAAATCGGCTATAAAAAG
CCATCATTTGTACTGTAAATGGATTACGGATGCTTGATATAAAGAAAAAGCAATCAAAAATAATT
GAAAAGGTGATTTTAAATTCCTTATAATTTTTTTCTTTTCAATTGGTTTTTCCTTTCGAGTGTTG
CATGTGGGTTCTTAACAATAGAGTCCAAAAAAAGAGGGGATTTACCTTAACGATCGAAGTCCATC
TTCTTCATCGCAATCGAAGTAAAGATGGAATGTCGTCGCAATCAGGGCTCGGTCCTACAAGACAC
CTCTGAGTGTCACCGACCATTGCTTACAGTGGTGTAAGAGCGTTCGGATTTTGGAGTG
Found at i:23482848 original size:13 final size:13
Alignment explanation
Indices: 23482832--23482856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23482822 TTATACATTT
23482832 TAAATTACTTTGA
1 TAAATTACTTTGA
23482845 TAAATTACTTTG
1 TAAATTACTTTG
23482857 TTTTTATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (13 bp):
TAAATTACTTTGA
Found at i:23484687 original size:23 final size:21
Alignment explanation
Indices: 23484634--23484688 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
23484624 AAGAATAGAA
23484634 AAAAAAG-AACAAAGGGGGAC
1 AAAAAAGAAACAAAGGGGGAC
*
23484654 AAAATAGAGAAAGAAAGGGGAGAC
1 AAAA-A-AGAAACAAAGGGG-GAC
23484678 AGAAAAAGAAA
1 A-AAAAAGAAA
23484689 AAGAAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 4 0.14
21 1 0.03
22 2 0.07
23 14 0.48
24 5 0.17
25 3 0.10
ACGTcount: A:0.64, C:0.05, G:0.29, T:0.02
Consensus pattern (21 bp):
AAAAAAGAAACAAAGGGGGAC
Found at i:23486318 original size:29 final size:30
Alignment explanation
Indices: 23486271--23486338 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
23486261 TGGCTCAAGA
* *
23486271 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
23486301 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
23486331 GCAAATAT
1 GTAAATAT
23486339 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:23488821 original size:46 final size:46
Alignment explanation
Indices: 23488769--23489088 Score: 543
Period size: 46 Copynumber: 7.0 Consensus size: 46
23488759 AGTGTGCTCT
23488769 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
23488815 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
23488861 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
23488907 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
23488953 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
23488999 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
23489045 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
23489089 TCATGTCAAA
Statistics
Matches: 264, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
45 1 0.00
46 263 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:23490070 original size:22 final size:22
Alignment explanation
Indices: 23490042--23490086 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
23490032 ATTTAGATTG
23490042 ATTTGGATATTATAAGTGAAGT
1 ATTTGGATATTATAAGTGAAGT
23490064 ATTTGGATATTATAAGTGAAGT
1 ATTTGGATATTATAAGTGAAGT
23490086 A
1 A
23490087 CATGAGGGTA
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:0.38, C:0.00, G:0.22, T:0.40
Consensus pattern (22 bp):
ATTTGGATATTATAAGTGAAGT
Found at i:23490840 original size:10 final size:10
Alignment explanation
Indices: 23490825--23490853 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
23490815 TACATGCCAT
23490825 AATTGAGTCA
1 AATTGAGTCA
23490835 AATTGAGTCA
1 AATTGAGTCA
23490845 AATTGAGTC
1 AATTGAGTC
23490854 GGGATTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (10 bp):
AATTGAGTCA
Found at i:23493660 original size:20 final size:21
Alignment explanation
Indices: 23493627--23493666 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
23493617 ACACGGCCAA
* *
23493627 GACACACGCTTGTGT-TCTGG
1 GACACACACCTGTGTCTCTGG
23493647 GACACACACCTGTGTCTCTG
1 GACACACACCTGTGTCTCTG
23493667 CCCGTGTGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.28
Consensus pattern (21 bp):
GACACACACCTGTGTCTCTGG
Found at i:23495026 original size:24 final size:24
Alignment explanation
Indices: 23494981--23495028 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
23494971 CGCTGAACCA
*
23494981 TATAACGGGAAGCTCGAGAGAGCT
1 TATAACGGGAAGCTCGAAAGAGCT
*
23495005 TATAACGGGATGCTC-ATAAGAGCT
1 TATAACGGGAAGCTCGA-AAGAGCT
23495029 ATGGTGTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (24 bp):
TATAACGGGAAGCTCGAAAGAGCT
Found at i:23502858 original size:256 final size:256
Alignment explanation
Indices: 23502390--23502858 Score: 697
Period size: 256 Copynumber: 1.8 Consensus size: 256
23502380 TGAAATGGAT
* * *
23502390 ATTAAGATTCTCTTGTTTCGAAGAAATAAAATATCACATCCAGCACATAGGACACAACATTTCAA
1 ATTAAGATTCTCTTATTTCAAAGAAATAAAATATCACATCCAACACATAGGACACAACATTTCAA
* * * * *
23502455 ACCTTCGATATCAAAATCATCTCATAGTTTCCAAATTTATGTATTGAAATTTTAAGAATGATACT
66 ACCTTCGATATCAAAATCAACTCATAATTTCCAAATTTACGCATTGAAATTTTAAGAAGGATACT
* * *
23502520 CGGTCATTCGGTCAAACGATAAATCGAAACCCAGCACGTAGAGCACAATTTCTCGAAAATTCCAA
131 CAGTCATTCGGTCAAACGATAAATCGAAACACAACACGTAGAGCACAATTTCTCGAAAATTCCAA
* **
23502585 ACAACGGAATGTTGCCTTGTTTTCTAAAAAGTCTTGAGTAAAAATGTAATAGTATGAAACG
196 ACAACGAAACATTGCCTTGTTTTCTAAAAAGTCTTGAGTAAAAATGTAATAGTATGAAACG
* * *
23502646 ATTAAGATTCTCTTATTTCAAAGAAATAAAATATCACATCCAACACGTAGGACACGATATTTCAA
1 ATTAAGATTCTCTTATTTCAAAGAAATAAAATATCACATCCAACACATAGGACACAACATTTCAA
*
23502711 ACCTTCGATATCAAAATCAACTCATAATTTCCAAATTTACGCATTGAAATTTTAAGAAGGATATT
66 ACCTTCGATATCAAAATCAACTCATAATTTCCAAATTTACGCATTGAAATTTTAAGAAGGATACT
** * * * **
23502776 CAGTTGTTTGGTCAAACGATAAATCGAAACACAACACGTAGGGCACAATTTTCTCGAAATTTTTA
131 CAGTCATTCGGTCAAACGATAAATCGAAACACAACACGTAGAGCACAA-TTTCTCGAAAATTCCA
23502841 AAC-ACGAAACATTGCCTT
195 AACAACGAAACATTGCCTT
23502859 TCTTTGAATA
Statistics
Matches: 187, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
256 171 0.91
257 16 0.09
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.30
Consensus pattern (256 bp):
ATTAAGATTCTCTTATTTCAAAGAAATAAAATATCACATCCAACACATAGGACACAACATTTCAA
ACCTTCGATATCAAAATCAACTCATAATTTCCAAATTTACGCATTGAAATTTTAAGAAGGATACT
CAGTCATTCGGTCAAACGATAAATCGAAACACAACACGTAGAGCACAATTTCTCGAAAATTCCAA
ACAACGAAACATTGCCTTGTTTTCTAAAAAGTCTTGAGTAAAAATGTAATAGTATGAAACG
Found at i:23504368 original size:16 final size:17
Alignment explanation
Indices: 23504343--23504384 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
23504333 TTTTTGTGTG
*
23504343 AAAAAA-GAAA-AGTAA
1 AAAAAATGAAACAGCAA
23504358 AAAAAATGAAACAGCAA
1 AAAAAATGAAACAGCAA
*
23504375 AAGAAATGAA
1 AAAAAATGAA
23504385 GAAAAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 4 0.17
17 13 0.57
ACGTcount: A:0.74, C:0.05, G:0.14, T:0.07
Consensus pattern (17 bp):
AAAAAATGAAACAGCAA
Found at i:23512166 original size:53 final size:53
Alignment explanation
Indices: 23512086--23512191 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
23512076 ACTTGCGTTA
23512086 GCAAATCTCGTGTTCATTCTTCTCCTTCTCTTTTTTGCTTGTTGCCCGTGTTC
1 GCAAATCTCGTGTTCATTCTTCTCCTTCTCTTTTTTGCTTGTTGCCCGTGTTC
23512139 GCAAATCTCGTGTTCATTCTTCTCCTTCTCTTTTTTGCTTGTTGCCCGTGTTC
1 GCAAATCTCGTGTTCATTCTTCTCCTTCTCTTTTTTGCTTGTTGCCCGTGTTC
23512192 CGATTAAACT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.08, C:0.28, G:0.15, T:0.49
Consensus pattern (53 bp):
GCAAATCTCGTGTTCATTCTTCTCCTTCTCTTTTTTGCTTGTTGCCCGTGTTC
Found at i:23516581 original size:11 final size:12
Alignment explanation
Indices: 23516562--23516586 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23516552 AACTTATAAT
23516562 AAAATTTTTAAA
1 AAAATTTTTAAA
23516574 AAAATTTTTAAA
1 AAAATTTTTAAA
23516586 A
1 A
23516587 TTTAAATCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATTTTTAAA
Found at i:23516692 original size:60 final size:59
Alignment explanation
Indices: 23516579--23516692 Score: 158
Period size: 59 Copynumber: 1.9 Consensus size: 59
23516569 TTAAAAAAAT
* ***
23516579 TTTTAAAATTTAAATCTTACTATTTATAAATATTTCTTATTTTTAATTTAATTTTTGAA
1 TTTTAAAATTTAAATCTTACTATTTATAAATATTTCTTATTTTAAAAGAAATTTTTGAA
*
23516638 TTTTAAATTTTAAATCTTACTATTTATAAAATATTTCTTA-TTTAAAGAGAAATTT
1 TTTTAAAATTTAAATCTTACTATTTAT-AAATATTTCTTATTTTAAA-AGAAATTT
23516693 CAAGATTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 31 0.65
60 17 0.35
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (59 bp):
TTTTAAAATTTAAATCTTACTATTTATAAATATTTCTTATTTTAAAAGAAATTTTTGAA
Found at i:23516811 original size:22 final size:22
Alignment explanation
Indices: 23516786--23516853 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
23516776 GTAAAGTAAA
23516786 AAATATTGAAAGACTTGAAAAT
1 AAATATTGAAAGACTTGAAAAT
* *
23516808 AAATATT-ATTA-ACTT-TAAA-
1 AAATATTGA-AAGACTTGAAAAT
* *
23516827 AAACATTGAAGGACTTGAAAAT
1 AAATATTGAAAGACTTGAAAAT
23516849 AAATA
1 AAATA
23516854 CTATTAACTT
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
19 6 0.18
20 8 0.24
21 8 0.24
22 12 0.35
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.29
Consensus pattern (22 bp):
AAATATTGAAAGACTTGAAAAT
Found at i:23516872 original size:41 final size:41
Alignment explanation
Indices: 23516782--23516865 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
23516772 CGGTGTAAAG
* *
23516782 TAAAAAATATTGAAAGACTTGAAAATAAATATTATTAACTT
1 TAAAAAACATTGAAAGACTTGAAAATAAATACTATTAACTT
*
23516823 TAAAAAACATTGAAGGACTTGAAAATAAATACTATTAACTT
1 TAAAAAACATTGAAAGACTTGAAAATAAATACTATTAACTT
23516864 TA
1 TA
23516866 TTAAACAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.32
Consensus pattern (41 bp):
TAAAAAACATTGAAAGACTTGAAAATAAATACTATTAACTT
Found at i:23518299 original size:16 final size:16
Alignment explanation
Indices: 23518274--23518304 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23518264 GGCTCACTTG
23518274 TATTAATTTTTTTATC
1 TATTAATTTTTTTATC
*
23518290 TATTATTTTTTTTAT
1 TATTAATTTTTTTAT
23518305 ATAAAATAAA
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:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTAATTTTTTTATC
Found at i:23518342 original size:18 final size:19
Alignment explanation
Indices: 23518321--23518362 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
23518311 TAAATTTTAA
*
23518321 AAATAT-AATATATTAAAT
1 AAATATAAAAATATTAAAT
23518339 AAAT-TAAAAATATTAAAT
1 AAATATAAAAATATTAAAT
23518357 AAATAT
1 AAATAT
23518363 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATATAAAAATATTAAAT
Found at i:23518357 original size:27 final size:26
Alignment explanation
Indices: 23518302--23518351 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
23518292 TTATTTTTTT
23518302 TATATAAAATAAATTTTAAAAATATAA
1 TATATAAAATAAA-TTTAAAAATATAA
*
23518329 TATATTAAATAAA-TTAAAAATAT
1 TATATAAAATAAATTTAAAAATAT
23518352 TAAATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
27 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (26 bp):
TATATAAAATAAATTTAAAAATATAA
Found at i:23519391 original size:15 final size:17
Alignment explanation
Indices: 23519358--23519392 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
23519348 TTTTGCATAT
23519358 ATAATCTGATTTCTTTA
1 ATAATCTGATTTCTTTA
23519375 ATAAT-TGATTT-TTTA
1 ATAATCTGATTTCTTTA
23519390 ATA
1 ATA
23519393 TTTTGAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 6 0.33
17 5 0.28
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (17 bp):
ATAATCTGATTTCTTTA
Found at i:23520021 original size:12 final size:12
Alignment explanation
Indices: 23520004--23520032 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23519994 CAATTGGTCT
23520004 TCTTAGCCTCTA
1 TCTTAGCCTCTA
23520016 TCTTAGCCTCTA
1 TCTTAGCCTCTA
23520028 T-TTAG
1 TCTTAG
23520033 GTGAATCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.17, C:0.28, G:0.10, T:0.45
Consensus pattern (12 bp):
TCTTAGCCTCTA
Found at i:23535944 original size:24 final size:22
Alignment explanation
Indices: 23535896--23535948 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 22
23535886 CCCTTCATAT
* *
23535896 ATATTT-ATTTTTTTTATTTTT
1 ATATTTAATTTTTTTTAATTTA
23535917 ATATTTAATTTTTTTCTTAATTTA
1 ATATTTAA-TTTTTT-TTAATTTA
23535941 ATATTTAA
1 ATATTTAA
23535949 AATATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 6 0.22
22 1 0.04
23 6 0.22
24 14 0.52
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
ATATTTAATTTTTTTTAATTTA
Found at i:23536126 original size:20 final size:20
Alignment explanation
Indices: 23536085--23536124 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23536075 AATTAGATTT
*
23536085 ATTTAAAATAAAAATATTAA
1 ATTTAAAATAAAAATATAAA
*
23536105 ATTTAAATTAAAAA-ATAAA
1 ATTTAAAATAAAAATATAAA
23536124 A
1 A
23536125 ATGTATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATTTAAAATAAAAATATAAA
Found at i:23536443 original size:20 final size:21
Alignment explanation
Indices: 23536418--23536467 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
23536408 AATTTTTTAA
*
23536418 TATTTAAATATTTAAT-TTTT
1 TATTTAAATATTTAATACTTT
23536438 TATTT-AA-ATTTAATACTTT
1 TATTTAAATATTTAATACTTT
23536457 TATTTTAAATA
1 TA-TTTAAATA
23536468 AACCTATTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.28
19 7 0.28
20 8 0.32
21 2 0.08
22 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTAAATATTTAATACTTT
Found at i:23552695 original size:25 final size:27
Alignment explanation
Indices: 23552667--23552735 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 27
23552657 AAATGTGGAC
*
23552667 AACCATAAAATTATAGAC-AAAA-TAA
1 AACCATAAAATTATAAACTAAAATTAA
23552692 AACCATGAAAA-TATAAACTAAAATTAA
1 AACCAT-AAAATTATAAACTAAAATTAA
23552719 AA--ATAAAA-TA-AAACTAA
1 AACCATAAAATTATAAACTAA
23552736 GAAAAAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
23 7 0.17
24 6 0.15
25 14 0.35
26 8 0.20
27 5 0.12
ACGTcount: A:0.67, C:0.10, G:0.03, T:0.20
Consensus pattern (27 bp):
AACCATAAAATTATAAACTAAAATTAA
Found at i:23552730 original size:17 final size:17
Alignment explanation
Indices: 23552685--23552748 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
23552675 AATTATAGAC
23552685 AAAATAAAACCATGAAAATAT
1 AAAATAAAA-C-T-AAAA-AT
* *
23552706 AAACTAAAATTAAAAAT
1 AAAATAAAACTAAAAAT
*
23552723 AAAATAAAACTAAGAAAA
1 AAAATAAAACTAA-AAAT
23552741 AAAATAAA
1 AAAATAAA
23552749 TGTTAGAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
17 13 0.35
18 15 0.41
19 1 0.03
21 8 0.22
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAATAAAACTAAAAAT
Found at i:23552734 original size:23 final size:24
Alignment explanation
Indices: 23552699--23552748 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
23552689 TAAAACCATG
*
23552699 AAAATATAAACTAA-AATTAAAAAT
1 AAAATATAAACTAAGAA-AAAAAAT
23552723 AAAATA-AAACTAAGAAAAAAAAT
1 AAAATATAAACTAAGAAAAAAAAT
23552746 AAA
1 AAA
23552749 TGTTAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (24 bp):
AAAATATAAACTAAGAAAAAAAAT
Found at i:23554797 original size:25 final size:27
Alignment explanation
Indices: 23554769--23554837 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 27
23554759 AAATGTGGAC
*
23554769 AACCATAAAATTATAGAC-AAAA-TAA
1 AACCATAAAATTATAAACTAAAATTAA
23554794 AACCATGAAAA-TATAAACTAAAATTAA
1 AACCAT-AAAATTATAAACTAAAATTAA
23554821 AA--ATAAAA-TA-AAACTAA
1 AACCATAAAATTATAAACTAA
23554838 GAAAAAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
23 7 0.17
24 6 0.15
25 14 0.35
26 8 0.20
27 5 0.12
ACGTcount: A:0.67, C:0.10, G:0.03, T:0.20
Consensus pattern (27 bp):
AACCATAAAATTATAAACTAAAATTAA
Found at i:23554832 original size:17 final size:17
Alignment explanation
Indices: 23554787--23554850 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
23554777 AATTATAGAC
23554787 AAAATAAAACCATGAAAATAT
1 AAAATAAAA-C-T-AAAA-AT
* *
23554808 AAACTAAAATTAAAAAT
1 AAAATAAAACTAAAAAT
*
23554825 AAAATAAAACTAAGAAAA
1 AAAATAAAACTAA-AAAT
23554843 AAAATAAA
1 AAAATAAA
23554851 TGTTAGAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
17 13 0.35
18 15 0.41
19 1 0.03
21 8 0.22
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAATAAAACTAAAAAT
Found at i:23554836 original size:23 final size:24
Alignment explanation
Indices: 23554801--23554850 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
23554791 TAAAACCATG
*
23554801 AAAATATAAACTAA-AATTAAAAAT
1 AAAATATAAACTAAGAA-AAAAAAT
23554825 AAAATA-AAACTAAGAAAAAAAAT
1 AAAATATAAACTAAGAAAAAAAAT
23554848 AAA
1 AAA
23554851 TGTTAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (24 bp):
AAAATATAAACTAAGAAAAAAAAT
Found at i:23557031 original size:22 final size:22
Alignment explanation
Indices: 23557003--23557046 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
23556993 TATGGCCAAA
23557003 AAAATTTATTATAAAAAATAAT
1 AAAATTTATTATAAAAAATAAT
23557025 AAAATTTATTATAAAAAATAAT
1 AAAATTTATTATAAAAAATAAT
23557047 TTACATGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATTTATTATAAAAAATAAT
Found at i:23567208 original size:39 final size:40
Alignment explanation
Indices: 23567165--23567243 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
23567155 GTGAACTACT
*
23567165 TAGTT-GTCACCCAATTTTTAAGGTGCTTTTATTTTAATC
1 TAGTTAGTCACCCAATTTTTAAGGTACTTTTATTTTAATC
23567204 TAGTTAGTCACCCAATTTTTAAGGTACTTTTATTTTAATC
1 TAGTTAGTCACCCAATTTTTAAGGTACTTTTATTTTAATC
23567244 ATTAAGCATT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 5 0.13
40 33 0.87
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.48
Consensus pattern (40 bp):
TAGTTAGTCACCCAATTTTTAAGGTACTTTTATTTTAATC
Found at i:23574508 original size:19 final size:19
Alignment explanation
Indices: 23574466--23574508 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
23574456 AATTAACACT
23574466 AATA-TAATTAATTTTAAA
1 AATATTAATTAATTTTAAA
**
23574484 TTTATTAATTAATTTTAAA
1 AATATTAATTAATTTTAAA
23574503 AATATT
1 AATATT
23574509 TTGTGATTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATATTAATTAATTTTAAA
Found at i:23579541 original size:25 final size:26
Alignment explanation
Indices: 23579489--23579541 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
23579479 TTTTCGTTGA
* * *
23579489 AAAAAAATGAATTATTAAATATGTTT
1 AAAAAAATAAATTATTAAAAATGATT
*
23579515 AAAAAATTAAATTATTAAAAAT-ATT
1 AAAAAAATAAATTATTAAAAATGATT
23579540 AA
1 AA
23579542 TTTTAATTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (26 bp):
AAAAAAATAAATTATTAAAAATGATT
Found at i:23579730 original size:24 final size:26
Alignment explanation
Indices: 23579696--23579752 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
23579686 CATAAATTTA
*
23579696 AAATATTTAA-TTTTAATT-AAAGTC
1 AAATATATAATTTTTAATTAAAAGTC
*
23579720 AAATATATAATTTTTATTTAAAAAGTC
1 AAATATATAATTTTTAATT-AAAAGTC
23579747 AAATAT
1 AAATAT
23579753 TTTTTAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 9 0.32
25 7 0.25
27 12 0.43
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (26 bp):
AAATATATAATTTTTAATTAAAAGTC
Found at i:23580853 original size:6 final size:6
Alignment explanation
Indices: 23580832--23580878 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
23580822 AAAAAAAAAA
* * *
23580832 TCCCTC CCCTCTC TCCCTC TCCTTC TCCTTC TCCCTC TCCCTC TCCC
1 TCCCTC TCC-CTC TCCCTC TCCCTC TCCCTC TCCCTC TCCCTC TCCC
23580879 CTTACCCTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
6 31 0.86
7 5 0.14
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
TCCCTC
Found at i:23580866 original size:18 final size:18
Alignment explanation
Indices: 23580832--23580877 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
23580822 AAAAAAAAAA
*
23580832 TCCCTCCCCTCTCTCCCTC
1 TCCCTCTCCT-TCTCCCTC
*
23580851 TCCTTCTCCTTCTCCCTC
1 TCCCTCTCCTTCTCCCTC
23580869 TCCCTCTCC
1 TCCCTCTCC
23580878 CCTTACCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (18 bp):
TCCCTCTCCTTCTCCCTC
Found at i:23598478 original size:80 final size:80
Alignment explanation
Indices: 23598345--23598505 Score: 295
Period size: 80 Copynumber: 2.0 Consensus size: 80
23598335 TAGGTACCAT
*
23598345 TAATTGAAGGGATGGGTGAATGCATGGTTTAGAAAACAAAAAATAGTGAAGAAATGTTTGTTATC
1 TAATTGAAGGGATGGGTGAATGCATGATTTAGAAAACAAAAAATAGTGAAGAAATGTTTGTTATC
*
23598410 CTCTATGGAGTTTCC
66 CTCTACGGAGTTTCC
*
23598425 TAATTGAAGGGATGGGTGAATGCATGATTTAGAAAACAAAAAATAGTGAAGAAATGTTTGTTCTC
1 TAATTGAAGGGATGGGTGAATGCATGATTTAGAAAACAAAAAATAGTGAAGAAATGTTTGTTATC
23598490 CTCTACGGAGTTTCC
66 CTCTACGGAGTTTCC
23598505 T
1 T
23598506 TCTGTTCTCA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (80 bp):
TAATTGAAGGGATGGGTGAATGCATGATTTAGAAAACAAAAAATAGTGAAGAAATGTTTGTTATC
CTCTACGGAGTTTCC
Found at i:23609670 original size:30 final size:30
Alignment explanation
Indices: 23609636--23609695 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
23609626 GTGCTTTTAG
23609636 TTGGGGCCTGTGGTTCTCTTTACTTACTTT
1 TTGGGGCCTGTGGTTCTCTTTACTTACTTT
23609666 TTGGGGCCTGTGGTTCTCTTTACTTACTTT
1 TTGGGGCCTGTGGTTCTCTTTACTTACTTT
23609696 CACATTCTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.07, C:0.20, G:0.23, T:0.50
Consensus pattern (30 bp):
TTGGGGCCTGTGGTTCTCTTTACTTACTTT
Found at i:23621704 original size:55 final size:58
Alignment explanation
Indices: 23621591--23621706 Score: 150
Period size: 55 Copynumber: 2.0 Consensus size: 58
23621581 TAATTTAGAC
* *
23621591 TATTTTATAACTTTTTAAAGTTAAGTGATTAAAATGTAGACTTTTAAATAATTTAATAAT
1 TATTTTATAACTTTTTAAAGTT-A-TGATTAAAATGTAAACTTTTAAATAATTCAATAAT
*
23621651 TATTTTATAACTTTTTAAAG-T-T-ATTAAAGTGTAAACTTATT-AATAATTCAATAAT
1 TATTTTATAACTTTTTAAAGTTATGATTAAAATGTAAACTT-TTAAATAATTCAATAAT
23621706 T
1 T
23621707 TTAAGTATAA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
55 28 0.54
56 3 0.06
59 1 0.02
60 20 0.38
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.47
Consensus pattern (58 bp):
TATTTTATAACTTTTTAAAGTTATGATTAAAATGTAAACTTTTAAATAATTCAATAAT
Found at i:23624016 original size:46 final size:46
Alignment explanation
Indices: 23623963--23624183 Score: 324
Period size: 46 Copynumber: 4.8 Consensus size: 46
23623953 ATTTGGGCAT
23623963 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
23624009 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
*
23624055 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
* * *
23624101 CCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATGC
*
23624146 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23624184 GCGGGTTACA
Statistics
Matches: 159, Mismatches: 7, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
42 1 0.01
43 7 0.04
44 1 0.01
45 2 0.01
46 118 0.74
47 26 0.16
49 1 0.01
50 2 0.01
51 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
Found at i:23627127 original size:15 final size:15
Alignment explanation
Indices: 23627107--23627175 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
23627097 GTATCTTGGG
23627107 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
23627122 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
23627137 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
23627152 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
23627167 TTTCTTTAT
1 TTTCTTTAT
23627176 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:23627176 original size:30 final size:30
Alignment explanation
Indices: 23627098--23627185 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
23627088 CATAGTATCG
* * * *
23627098 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
23627128 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
23627158 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
23627186 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:23629631 original size:46 final size:46
Alignment explanation
Indices: 23629581--23629752 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
23629571 TGAGCATCCA
23629581 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
23629627 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* *
23629674 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
*
23629720 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
23629753 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:23629733 original size:93 final size:93
Alignment explanation
Indices: 23629574--23629744 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
23629564 GGATGGTTGA
* *
23629574 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23629639 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
23629667 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
23629732 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
23629745 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:23631087 original size:31 final size:29
Alignment explanation
Indices: 23631049--23631126 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
23631039 GGCGTTACAT
*
23631049 AGTGACTAAAATATTACAACACAATAATATA
1 AGTGACTAAAATATAACAACAC-A-AATATA
* ***
23631080 AGTGACTAAAAGATAACATTTCAAATATA
1 AGTGACTAAAATATAACAACACAAATATA
*
23631109 AGTGACTAAAATGTAACA
1 AGTGACTAAAATATAACA
23631127 TGAGGAAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 22 0.55
30 1 0.03
31 17 0.43
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATATAACAACACAAATATA
Found at i:23632154 original size:20 final size:20
Alignment explanation
Indices: 23632103--23632154 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
23632093 TTATGCCACA
23632103 TCAATATTCTTATCCTGAATT
1 TCAATATT-TTATCCTGAATT
* *
23632124 TCAAGAGTTTATCCTGAATT
1 TCAATATTTTATCCTGAATT
23632144 TCAATATTTTA
1 TCAATATTTTA
23632155 ATTTGAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (20 bp):
TCAATATTTTATCCTGAATT
Found at i:23647814 original size:23 final size:24
Alignment explanation
Indices: 23647788--23647834 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
23647778 CACGAATAGC
23647788 AGGGAAAGAAAAA-AAAAGGAAAA
1 AGGGAAAGAAAAAGAAAAGGAAAA
*
23647811 AGGGAAAGAAAAAGGAAAGGAAAA
1 AGGGAAAGAAAAAGAAAAGGAAAA
23647835 TTTAGGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (24 bp):
AGGGAAAGAAAAAGAAAAGGAAAA
Found at i:23647822 original size:11 final size:12
Alignment explanation
Indices: 23647790--23647834 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
23647780 CGAATAGCAG
23647790 GGAAA-GAAAAA
1 GGAAAGGAAAAA
*
23647801 -AAAAGGAAAAA
1 GGAAAGGAAAAA
23647812 GGGAAA-GAAAAA
1 -GGAAAGGAAAAA
23647824 GGAAAGGAAAA
1 GGAAAGGAAAA
23647835 TTTAGGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
10 3 0.11
11 11 0.39
12 11 0.39
13 3 0.11
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (12 bp):
GGAAAGGAAAAA
Found at i:23651036 original size:15 final size:15
Alignment explanation
Indices: 23651016--23651061 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
23651006 ACAAAACGAT
23651016 AACGTAAATAACTAA
1 AACGTAAATAACTAA
*
23651031 AACGTAACAT--CTTA
1 AACGTAA-ATAACTAA
*
23651045 AACATAAATAACTAA
1 AACGTAAATAACTAA
23651060 AA
1 AA
23651062 TATAATCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
13 2 0.08
14 9 0.36
15 12 0.48
16 2 0.08
ACGTcount: A:0.59, C:0.15, G:0.04, T:0.22
Consensus pattern (15 bp):
AACGTAAATAACTAA
Found at i:23651151 original size:24 final size:24
Alignment explanation
Indices: 23651109--23651155 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
23651099 TTTACCTTAT
23651109 TTTTTATTTTTATGGTAAAAAATTA
1 TTTTTATTTTTAT-GTAAAAAATTA
23651134 TTTTTATTTTTAAT-TAAAAAAT
1 TTTTTATTTTT-ATGTAAAAAAT
23651156 ATAAGAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.38
25 11 0.52
26 2 0.10
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTTTATTTTTATGTAAAAAATTA
Found at i:23656111 original size:15 final size:15
Alignment explanation
Indices: 23656093--23656139 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
23656083 AATATGTCAA
23656093 TTTAATTTTTTTAAT
1 TTTAATTTTTTTAAT
** *
23656108 TTT-ATTTTTAGAAA
1 TTTAATTTTTTTAAT
*
23656122 TTTAATCTTTTTAAT
1 TTTAATTTTTTTAAT
23656137 TTT
1 TTT
23656140 TTAAATTTCA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (15 bp):
TTTAATTTTTTTAAT
Found at i:23656114 original size:14 final size:14
Alignment explanation
Indices: 23656091--23656138 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
23656081 AAAATATGTC
23656091 AATTTAATTTTTTT
1 AATTTAATTTTTTT
* **
23656105 AATTTTATTTTTAGA
1 AATTTAATTTTT-TT
*
23656120 AATTTAATCTTTTT
1 AATTTAATTTTTTT
23656134 AATTT
1 AATTT
23656139 TTTAAATTTC
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (14 bp):
AATTTAATTTTTTT
Found at i:23661743 original size:33 final size:33
Alignment explanation
Indices: 23661696--23661809 Score: 106
Period size: 33 Copynumber: 3.5 Consensus size: 33
23661686 GGACTTTTCT
* * *
23661696 TTTTCTAGTTGTACACTCGAGGTGCACATTCCC
1 TTTTCAAGTTGTACACTCGAAGTGCACATACCC
* * * *
23661729 TTTTCAAGTGGTACACACGAAGTGTAGATACCC
1 TTTTCAAGTTGTACACTCGAAGTGCACATACCC
* * * *
23661762 TTTTCAATTTGTACATTC-AATGTGCACATAACA
1 TTTTCAAGTTGTACACTCGAA-GTGCACATACCC
23661795 TTTTCAAG-TGTACAC
1 TTTTCAAGTTGTACAC
23661810 ATATAGTGTA
Statistics
Matches: 63, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
32 8 0.13
33 55 0.87
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (33 bp):
TTTTCAAGTTGTACACTCGAAGTGCACATACCC
Found at i:23661863 original size:33 final size:33
Alignment explanation
Indices: 23661795--23661933 Score: 122
Period size: 33 Copynumber: 4.3 Consensus size: 33
23661785 GCACATAACA
* * * *
23661795 TTTTCAAGT-GTACACATATAGTGTACCTTTCC
1 TTTTCAAGTGGTATACACAAAGTATACCTTTCC
* *
23661827 TTTTCAAGTGGTATACACCAAGTATACCTTTTC
1 TTTTCAAGTGGTATACACAAAGTATACCTTTCC
*
23661860 TTTTCATA-TGGTATACACAAAGTATACCGTTCC
1 TTTTCA-AGTGGTATACACAAAGTATACCTTTCC
* * * * * **
23661893 TTTCCAAGT-GTACACATAAAGTGTACATAACC
1 TTTTCAAGTGGTATACACAAAGTATACCTTTCC
23661925 TTTTCAAGT
1 TTTTCAAGT
23661934 TGTACCATTT
Statistics
Matches: 86, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
32 34 0.40
33 51 0.59
34 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.37
Consensus pattern (33 bp):
TTTTCAAGTGGTATACACAAAGTATACCTTTCC
Found at i:23665298 original size:16 final size:17
Alignment explanation
Indices: 23665261--23665299 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
23665251 ATATTTTTAG
*
23665261 ATTAATTTTTATTTAAA
1 ATTAATTTTTATTAAAA
*
23665278 TTTAATTTTT-TTAAAA
1 ATTAATTTTTATTAAAA
23665294 ATTAAT
1 ATTAAT
23665300 ACACTAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTAATTTTTATTAAAA
Found at i:23665414 original size:39 final size:39
Alignment explanation
Indices: 23665356--23665443 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 39
23665346 TAAAAAGTAT
*
23665356 TTATATTTAAAAAATACAAATAAATATAATAAATATTTTA
1 TTATA-TTAAAAAACACAAATAAATATAATAAATATTTTA
* *
23665396 TTATATTAAAGAACACAAATAAATATAGTAAATATTTTA
1 TTATATTAAAAAACACAAATAAATATAATAAATATTTTA
*
23665435 TTTTATTAA
1 TTATATTAA
23665444 TATAAATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 39 0.89
40 5 0.11
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.41
Consensus pattern (39 bp):
TTATATTAAAAAACACAAATAAATATAATAAATATTTTA
Found at i:23665618 original size:29 final size:30
Alignment explanation
Indices: 23665553--23665619 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 30
23665543 TTAATATAAA
*
23665553 TATAA-ATATAAATATATGTAATAATTATT
1 TATAATATATAAATATATATAATAATTATT
*
23665582 TA-ACATATATAATTA-ATATAAT-ATTATTT
1 TATA-ATATATAAATATATATAATAATTA-TT
23665611 TATAATATA
1 TATAATATA
23665620 ATGTTGGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
28 5 0.16
29 18 0.56
30 9 0.28
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (30 bp):
TATAATATATAAATATATATAATAATTATT
Found at i:23669254 original size:29 final size:29
Alignment explanation
Indices: 23669186--23669254 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
23669176 AGAAATATTT
* *
23669186 TTATAAAATG-TCTAATGTGGTATTTGTA
1 TTATAAAATGTTCTAATGTGGTACTTGAA
*
23669214 TTTTGAAAATGTTC-AATGTGGTACTTGAA
1 TTAT-AAAATGTTCTAATGTGGTACTTGAA
23669243 TTATAAATATGT
1 TTATAAA-ATGT
23669255 ATTTTTGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 6 0.18
29 26 0.76
30 2 0.06
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.45
Consensus pattern (29 bp):
TTATAAAATGTTCTAATGTGGTACTTGAA
Found at i:23669967 original size:29 final size:29
Alignment explanation
Indices: 23669912--23669968 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
23669902 ATATATATTA
* * * * *
23669912 AAAATTCAAATATTACATTAGATATTTTC
1 AAAATGCAAATATGACACTAAACATTTTC
23669941 AAAATGCAAATATGACACTAAACATTTT
1 AAAATGCAAATATGACACTAAACATTTT
23669969 ATAAAAGTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAATGCAAATATGACACTAAACATTTTC
Found at i:23670695 original size:30 final size:30
Alignment explanation
Indices: 23670659--23670863 Score: 385
Period size: 30 Copynumber: 6.8 Consensus size: 30
23670649 TAGGTACAAG
*
23670659 TGGTGGTGGAGAA-GATGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGA-GTGGCTAGTGGAGT
23670689 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
23670719 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
23670749 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
23670779 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
23670809 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
23670839 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
23670864 TGAGAAAAGT
Statistics
Matches: 173, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
30 171 0.99
31 2 0.01
ACGTcount: A:0.23, C:0.03, G:0.50, T:0.24
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:23673700 original size:30 final size:29
Alignment explanation
Indices: 23673632--23673727 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 29
23673622 GGTACAAGTG
* *
23673632 GTGGTGGAGCAAGTGTGGTTAGTGGAGTA
1 GTGGTGGAGCAAGTGTGGCTAGTGGATTA
**
23673661 GGTAATGGAGCAAGTGTGGCTAGTGGATTTA
1 -GTGGTGGAGCAAGTGTGGCTAGTGGA-TTA
* *
23673692 GTGGTGGAG-AAGGTGTGGCTAATGGAGTTG
1 GTGGTGGAGCAA-GTGTGGCTAGTGGA-TTA
23673722 GTGGTG
1 GTGGTG
23673728 AAAAATGAGT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
29 2 0.04
30 51 0.93
31 2 0.04
ACGTcount: A:0.21, C:0.04, G:0.47, T:0.28
Consensus pattern (29 bp):
GTGGTGGAGCAAGTGTGGCTAGTGGATTA
Found at i:23674918 original size:27 final size:29
Alignment explanation
Indices: 23674887--23674941 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 29
23674877 TACAATAAAA
23674887 ATATTAAAAATTAAAA-AAAT-TAAAATC
1 ATATTAAAAATTAAAATAAATATAAAATC
* * *
23674914 ATATTTATATTTAAAATAAATATAAAAT
1 ATATTAAAAATTAAAATAAATATAAAAT
23674942 AAAACAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 13 0.57
28 4 0.17
29 6 0.26
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (29 bp):
ATATTAAAAATTAAAATAAATATAAAATC
Found at i:23676281 original size:22 final size:22
Alignment explanation
Indices: 23676253--23676298 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
23676243 ATTATAGAGT
*
23676253 AAAAATATTAAAAGGACTAAAG
1 AAAAATAATAAAAGGACTAAAG
23676275 AAAAATAATAAAAGGACTAAAG
1 AAAAATAATAAAAGGACTAAAG
23676297 AA
1 AA
23676299 GCAATTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.67, C:0.04, G:0.13, T:0.15
Consensus pattern (22 bp):
AAAAATAATAAAAGGACTAAAG
Found at i:23676371 original size:17 final size:17
Alignment explanation
Indices: 23676346--23676390 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
23676336 TAATTACACG
* *
23676346 TGTAAATATTACAGATA
1 TGTATATATTACACATA
23676363 TGTATATATTACACATA
1 TGTATATATTACACATA
23676380 TGTATATATTA
1 TGTATATATTA
23676391 ATAAAATAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (17 bp):
TGTATATATTACACATA
Done.