Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold94
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: 2274668
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Warning! 33727 characters in sequence are not A, C, G, or T
File 6 of 13
Found at i:914744 original size:2 final size:2
Alignment explanation
Indices: 914732--914762 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
914722 AAAACAATAC
914732 AT AT A- 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
914763 TACATGCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:915331 original size:15 final size:15
Alignment explanation
Indices: 915311--915341 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
915301 GTAATAAAAA
*
915311 TATGTAATGCTTATT
1 TATGTAACGCTTATT
915326 TATGTAACGCTTATT
1 TATGTAACGCTTATT
915341 T
1 T
915342 TTATTACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.10, G:0.13, T:0.52
Consensus pattern (15 bp):
TATGTAACGCTTATT
Found at i:915891 original size:15 final size:16
Alignment explanation
Indices: 915871--915916 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
915861 GTCAATTTTC
915871 ATGGGATTGGATT-GG
1 ATGGGATTGGATTGGG
*
915886 ATGGGA-TGGGTTGGG
1 ATGGGATTGGATTGGG
915901 ATGGGATTGGA-TGGG
1 ATGGGATTGGATTGGG
915916 A
1 A
915917 AGCACCGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 5 0.19
15 19 0.70
16 3 0.11
ACGTcount: A:0.20, C:0.00, G:0.52, T:0.28
Consensus pattern (16 bp):
ATGGGATTGGATTGGG
Found at i:915892 original size:10 final size:10
Alignment explanation
Indices: 915871--915916 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
915861 GTCAATTTTC
915871 ATGGGATTGG
1 ATGGGATTGG
* *
915881 ATTGGATGGG
1 ATGGGATTGG
915891 ATGGG-TTGGG
1 ATGGGATT-GG
915901 ATGGGATTGG
1 ATGGGATTGG
915911 ATGGGA
1 ATGGGA
915917 AGCACCGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 1 0.03
10 27 0.90
11 2 0.07
ACGTcount: A:0.20, C:0.00, G:0.52, T:0.28
Consensus pattern (10 bp):
ATGGGATTGG
Found at i:916264 original size:37 final size:38
Alignment explanation
Indices: 916214--916314 Score: 91
Period size: 35 Copynumber: 3.0 Consensus size: 38
916204 ATTTAATTCG
916214 ATATAAAT-T-ATTATTAAATAATAAAATAATATTTTA
1 ATATAAATATAATTATTAAATAATAAAATAATATTTTA
*
916250 AT-TAAATTTAATTA-TAAA-AAT---AT-ATA--TTA
1 ATATAAATATAATTATTAAATAATAAAATAATATTTTA
* *
916279 ATATAAATATAATTTTTTAATAATAAAATAA-ATTTT
1 ATATAAATATAATTATTAAATAATAAAATAATATTTT
916315 TAAATTTACT
Statistics
Matches: 51, Mismatches: 3, Indels: 21
0.68 0.04 0.28
Matches are distributed among these distances:
29 5 0.10
30 10 0.20
31 6 0.12
32 5 0.10
35 11 0.22
36 8 0.16
37 6 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (38 bp):
ATATAAATATAATTATTAAATAATAAAATAATATTTTA
Found at i:916270 original size:30 final size:30
Alignment explanation
Indices: 916236--916292 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
916226 ATTAAATAAT
* *
916236 AAAATAATATTTTAAT-TAAATTTAATTATA
1 AAAAT-ATATATTAATATAAATATAATTATA
916266 AAAATATATATTAATATAAATATAATT
1 AAAATATATATTAATATAAATATAATT
916293 TTTTAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
AAAATATATATTAATATAAATATAATTATA
Found at i:916298 original size:19 final size:19
Alignment explanation
Indices: 916276--916317 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
916266 AAAATATATA
*
916276 TTAAT-ATAAATATAATTTT
1 TTAATAATAAA-ATAAATTT
916295 TTAATAATAAAATAAATTT
1 TTAATAATAAAATAAATTT
916314 TTAA
1 TTAA
916318 ATTTACTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAATAATAAAATAAATTT
Found at i:916467 original size:2 final size:2
Alignment explanation
Indices: 916460--916496 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
916450 TTTATTAAGA
916460 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
916497 ATCAAGTATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:918639 original size:280 final size:280
Alignment explanation
Indices: 918138--918695 Score: 904
Period size: 280 Copynumber: 2.0 Consensus size: 280
918128 TGAAACTTTA
* * * * *
918138 ACCTATTTCTTGCTTCGGTATAAATACGGCTAAATGTGCTTTAATTTTATTTGTAGTTTGATGCA
1 ACCTATTTCTTGCTTCGATATAAATACGGCTAAATGAGCTTCAATTTCATTCGTAGTTTGATGCA
* * *
918203 GTAGTTGTTTGACTAAACACTATATCTACTAGTCTTTATAGTTCAAGAACAGACGTGCTATATAT
66 GAAGTTGTTTAACTAAACACTATATCTACTAGTCTTTATAGTTCAAGAACAGACGTGCCATATAT
* *
918268 TATCTACCACTCAACTGTAAAAAATTATATAAAATAAATTATGCTTGTACAATATAATTAAATAA
131 TATCCACCACTCAACTGTAAAAAATTATATAAAATAAATTATGCTTATACAATATAATTAAATAA
* *
918333 TATAAAATATATTAAATTATTTAATTGACAATTTACCCTGATTCATTTGCTTT-CATGTTTTTTG
196 TATAAAATATATTAAATTATTTAATTGACAATTTACCCTGATTCATTTG-TTTCCATGCTCTTTG
*
918397 TGCCTT-TAGAGAACTGAATGT
260 T-ACTTGTAGAGAACTGAATGT
918418 ACCTATTTCTTGCTTCGATATAAATACGGCTAAATGAGCTTCAATTTCATTCGTAGTTTGATGCA
1 ACCTATTTCTTGCTTCGATATAAATACGGCTAAATGAGCTTCAATTTCATTCGTAGTTTGATGCA
* * *
918483 GAAGTTGTTTAACTAAGCACTATATCTGCTAGTCTTTATAGTTCAAGAACAGATGTGCCATATAT
66 GAAGTTGTTTAACTAAACACTATATCTACTAGTCTTTATAGTTCAAGAACAGACGTGCCATATAT
* * *
918548 TATCCATCACTCAACTGTAAAAAATTATGTAAGATAAATTATGCTTATACAATATAATTAAATAA
131 TATCCACCACTCAACTGTAAAAAATTATATAAAATAAATTATGCTTATACAATATAATTAAATAA
*
918613 TATAAAATATATTAAATTATTTAATTGATAATTTACCCTGATTCATTTGTTTCCATGCTCTTTGT
196 TATAAAATATATTAAATTATTTAATTGACAATTTACCCTGATTCATTTGTTTCCATGCTCTTTGT
918678 ACTTGTAGAGAACTGAAT
261 ACTTGTAGAGAACTGAAT
918696 ATCTCATATT
Statistics
Matches: 256, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
279 6 0.02
280 250 0.98
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (280 bp):
ACCTATTTCTTGCTTCGATATAAATACGGCTAAATGAGCTTCAATTTCATTCGTAGTTTGATGCA
GAAGTTGTTTAACTAAACACTATATCTACTAGTCTTTATAGTTCAAGAACAGACGTGCCATATAT
TATCCACCACTCAACTGTAAAAAATTATATAAAATAAATTATGCTTATACAATATAATTAAATAA
TATAAAATATATTAAATTATTTAATTGACAATTTACCCTGATTCATTTGTTTCCATGCTCTTTGT
ACTTGTAGAGAACTGAATGT
Found at i:919463 original size:45 final size:45
Alignment explanation
Indices: 919409--919499 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
919399 TAAAATTAAA
919409 TTTTAAAACAATAATATTTAAAAAAGATGATAAATTTAAATAATT
1 TTTTAAAACAATAATATTTAAAAAAGATGATAAATTTAAATAATT
919454 TTTTAAAACAATAATATTTAAAAAAGATGATAAATTTAAATAATT
1 TTTTAAAACAATAATATTTAAAAAAGATGATAAATTTAAATAATT
919499 T
1 T
919500 CTAAGTACTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (45 bp):
TTTTAAAACAATAATATTTAAAAAAGATGATAAATTTAAATAATT
Found at i:921133 original size:22 final size:23
Alignment explanation
Indices: 921108--921156 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
921098 AAAATTCATT
*
921108 ATTACAAAC-ATTCAAAT-ATAAA
1 ATTACAAACTAAT-AAATAATAAA
*
921130 ATTATAAACTAATAAATAATAAA
1 ATTACAAACTAATAAATAATAAA
921153 ATTA
1 ATTA
921157 GTATATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (23 bp):
ATTACAAACTAATAAATAATAAA
Found at i:921301 original size:3 final size:3
Alignment explanation
Indices: 921295--921331 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
921285 GATATTATTT
921295 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
921332 AATCTAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:922050 original size:24 final size:25
Alignment explanation
Indices: 922005--922058 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
921995 AAAGTCACAA
*
922005 ATAATACAAAACATTAAGATAAAAT
1 ATAATACAAAAAATTAAGATAAAAT
922030 ATAA-ACAAAAAATATAA-AT-AAAT
1 ATAATACAAAAAAT-TAAGATAAAAT
922053 A-AATAC
1 ATAATAC
922059 TCTACTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 2 0.08
23 7 0.27
24 10 0.38
25 7 0.27
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (25 bp):
ATAATACAAAAAATTAAGATAAAAT
Found at i:922763 original size:2 final size:2
Alignment explanation
Indices: 922756--922782 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
922746 AAAACTCTTT
922756 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
922783 TTCTTGTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:923861 original size:2 final size:2
Alignment explanation
Indices: 923854--923891 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
923844 AGCAAGATCC
923854 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
923892 TCAAATTACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:924196 original size:17 final size:18
Alignment explanation
Indices: 924174--924207 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
924164 ACTAGGATGC
924174 CCTTCCTTT-CCCTTTCT
1 CCTTCCTTTCCCCTTTCT
924191 CCTTCCTTTCCCCTTTC
1 CCTTCCTTTCCCCTTTC
924208 ATTTATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (18 bp):
CCTTCCTTTCCCCTTTCT
Found at i:924743 original size:19 final size:21
Alignment explanation
Indices: 924707--924745 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
924697 ATTTTATGAT
*
924707 TTTAGTTTTTTTTCATCTATA
1 TTTAGTTTTTTATCATCTATA
924728 TTTA-TTTTTTAT-ATCTAT
1 TTTAGTTTTTTATCATCTAT
924746 TACAATTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (21 bp):
TTTAGTTTTTTATCATCTATA
Found at i:928832 original size:40 final size:40
Alignment explanation
Indices: 928776--928854 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
928766 TGTATTATAT
* * * * *
928776 ATATTTTTTAAAATTATTTTAATATTTTTATTTTTTTAAC
1 ATATATTTAAAAATTATATTAATATTTTTAATCTTTTAAC
928816 ATATATTTAAAAATTATATTAATATTTTTAATCTTTTAA
1 ATATATTTAAAAATTATATTAATATTTTTAATCTTTTAA
928855 TGTACTATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (40 bp):
ATATATTTAAAAATTATATTAATATTTTTAATCTTTTAAC
Found at i:928835 original size:28 final size:28
Alignment explanation
Indices: 928773--928835 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
928763 ATTTGTATTA
* *
928773 TATATATTTTTTAAAATTATTTTAATATT
1 TATAT-TTTTTTAAAATTATTTTAAAAAT
* *
928802 TTTATTTTTTTAACA-TATATTTAAAAAT
1 TATATTTTTTTAAAATTAT-TTTAAAAAT
928830 TATATT
1 TATATT
928836 AATATTTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.11
28 21 0.75
29 4 0.14
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
TATATTTTTTTAAAATTATTTTAAAAAT
Found at i:929004 original size:15 final size:16
Alignment explanation
Indices: 928984--929018 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
928974 TTTTTTGATT
928984 TTAAAATGATC-AAAA
1 TTAAAATGATCAAAAA
*
928999 TTAAAATGTTCAAAAA
1 TTAAAATGATCAAAAA
929015 TTAA
1 TTAA
929019 TTCAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (16 bp):
TTAAAATGATCAAAAA
Found at i:929040 original size:11 final size:11
Alignment explanation
Indices: 929011--929044 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
929001 AAAATGTTCA
*
929011 AAAATTAATTC
1 AAAATTAATTT
929022 AAAA-TAATTT
1 AAAATTAATTT
929032 AAAATTAATTT
1 AAAATTAATTT
929043 AA
1 AA
929045 TTTGACTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATTAATTT
Found at i:929891 original size:15 final size:13
Alignment explanation
Indices: 929866--929915 Score: 57
Period size: 14 Copynumber: 3.7 Consensus size: 13
929856 CCTTCAATTA
*
929866 TTTTGTTTTCTCT
1 TTTTTTTTTCTCT
929879 TTATTCTTTTTCT-T
1 TT-TT-TTTTTCTCT
929893 TTTTTTTTCTCTCT
1 TTTTTTTT-TCTCT
929907 TTTTTTTTT
1 TTTTTTTTT
929916 TTTTCTTCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
12 4 0.12
13 8 0.25
14 14 0.44
15 6 0.19
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (13 bp):
TTTTTTTTTCTCT
Found at i:929902 original size:26 final size:23
Alignment explanation
Indices: 929866--929919 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
929856 CCTTCAATTA
* *
929866 TTTTGTTTTCTCTTTATTCTTTTTCT
1 TTTTTTTTTCTCTCT-TT-TTTTT-T
929892 TTTTTTTTTCTCTCTTTTTTTTT
1 TTTTTTTTTCTCTCTTTTTTTTT
929915 TTTTT
1 TTTTT
929920 CTTCTCCAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 6 0.23
24 5 0.19
25 2 0.08
26 13 0.50
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.83
Consensus pattern (23 bp):
TTTTTTTTTCTCTCTTTTTTTTT
Found at i:929909 original size:13 final size:13
Alignment explanation
Indices: 929866--929922 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
929856 CCTTCAATTA
*
929866 TTTTGTTTTCTCT
1 TTTTCTTTTCTCT
929879 TTATTCTTTT-TCT
1 TT-TTCTTTTCTCT
*
929892 TTTTTTTTTCTCT
1 TTTTCTTTTCTCT
929905 CTTTT-TTTT-T-T
1 -TTTTCTTTTCTCT
929916 TTTTCTT
1 TTTTCTT
929923 CTCCAACCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 4 0.11
11 3 0.08
12 7 0.18
13 14 0.37
14 10 0.26
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTCTCT
Found at i:929922 original size:15 final size:15
Alignment explanation
Indices: 929866--929922 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
929856 CCTTCAATTA
* *
929866 TTTTGTTTTCTCTTT
1 TTTTTTTTTCTTTTT
* *
929881 ATTCTTTTTCTTTTT
1 TTTTTTTTTCTTTTT
* *
929896 TTTTTCTCTCTTTTT
1 TTTTTTTTTCTTTTT
929911 TTTTTTTTTCTT
1 TTTTTTTTTCTT
929923 CTCCAACCTT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (15 bp):
TTTTTTTTTCTTTTT
Found at i:933769 original size:13 final size:13
Alignment explanation
Indices: 933753--933792 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
933743 TTTATTTAGC
*
933753 TTTTTTAATTTAA
1 TTTTTTATTTTAA
933766 TTTTTTAGTTTTAA
1 TTTTTTA-TTTTAA
*
933780 TTTATTATTTTAA
1 TTTTTTATTTTAA
933793 ATAATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (13 bp):
TTTTTTATTTTAA
Found at i:934120 original size:142 final size:134
Alignment explanation
Indices: 933917--934182 Score: 313
Period size: 142 Copynumber: 1.9 Consensus size: 134
933907 GTTTTTAGTT
* * *
933917 TTTTATTTTTAAATAATGTATTTAAAAAAATTAATTTGTATAGTAAGTCATGGATCAATTTAAAA
1 TTTTATTTTTAAATAATATATTTAAAAAAATTAATTTGTATAGTAACTCATCGATCAATTTAAAA
*
933982 TTCGTACTTGA-TCCACTTGAAAAA-ATAAAAAATTATTTCATTAATTATTTTTAGTTTTTTTAG
66 -TC-TA--T-ACTCCAC-T-AAAAATATAAAAAATTATTT--TTAATTAATTTTA-TTTTTTTAG
934045 ATTTAAAATTTTTA
121 ATTTAAAATTTTTA
* * * * **
934059 TTTTATTTTTAAATAATATATTTAAATAAGTTCATTTGTATGGTAACTCATACG-TGGATTTAAA
1 TTTTATTTTTAAATAATATATTTAAAAAAATTAATTTGTATAGTAACTCAT-CGATCAATTTAAA
*
934123 ATCTATACTCGACTAAAAATATAAAAAATTATTTTTAATTAATTTTATTTTTTTAGATTT
65 ATCTATACTCCACTAAAAATATAAAAAATTATTTTTAATTAATTTTATTTTTTTAGATTT
934183 GTTTTTTTCT
Statistics
Matches: 110, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
134 13 0.12
135 12 0.11
136 5 0.05
137 16 0.15
138 5 0.05
140 2 0.02
141 2 0.02
142 54 0.49
143 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.48
Consensus pattern (134 bp):
TTTTATTTTTAAATAATATATTTAAAAAAATTAATTTGTATAGTAACTCATCGATCAATTTAAAA
TCTATACTCCACTAAAAATATAAAAAATTATTTTTAATTAATTTTATTTTTTTAGATTTAAAATT
TTTA
Found at i:935452 original size:15 final size:17
Alignment explanation
Indices: 935432--935472 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
935422 TAAAAATAAA
*
935432 TAAAAAATAAT-AT-TT
1 TAAAAAATAATGATACT
935447 TAAAAAATAATGATACT
1 TAAAAAATAATGATACT
935464 TAAAAAATA
1 TAAAAAATA
935473 GAGTGAGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.48
16 2 0.09
17 10 0.43
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
TAAAAAATAATGATACT
Found at i:942151 original size:2 final size:2
Alignment explanation
Indices: 942139--942175 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
942129 TTAAATATGA
942139 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
942176 GAAACATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:943315 original size:120 final size:116
Alignment explanation
Indices: 943182--943413 Score: 304
Period size: 120 Copynumber: 2.0 Consensus size: 116
943172 AAAATCTGAA
* * * *
943182 GAAAAAGAAAATATTAACAGAA-AATAAATCAATTACATGATTTATCCATAATATTCTTTAAGAA
1 GAAAAAGAAAATATTAACA-AAGAATAAAACAATTACAGGATTTATCAATAATATTCCTTAA-AA
** * * * *
943246 ATATTGTTTTTTTTTTGTTTGTCAATTGATTTCTTTTTTAATGTAATAATTACGAG
64 A-ATTG--TTTGCTTAGATTGTCAATTGATTTCTTTTCTAATGCAATAATTACGAG
*
943302 GAAAAAGAAAATATTAAGAAAGAATAAAACAATTACAGGATTTATCAATAATATTCCTTAAAAAA
1 GAAAAAGAAAATATTAACAAAGAATAAAACAATTACAGGATTTATCAATAATATTCCTTAAAAAA
*
943367 TTGTTTGCTTAGATTGTTAATTGATTTCTTTTCTAATGCAATAATTA
66 TTGTTTGCTTAGATTGTCAATTGATTTCTTTTCTAATGCAATAATTA
943414 TGTCATATAT
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
116 37 0.37
118 4 0.04
119 5 0.05
120 53 0.54
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (116 bp):
GAAAAAGAAAATATTAACAAAGAATAAAACAATTACAGGATTTATCAATAATATTCCTTAAAAAA
TTGTTTGCTTAGATTGTCAATTGATTTCTTTTCTAATGCAATAATTACGAG
Found at i:943480 original size:19 final size:18
Alignment explanation
Indices: 943462--943505 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
943452 AATAATAATA
*
943462 ATTTTTTTATTT-TTAAAT
1 ATTTTTTT-TTTGATAAAT
943480 ATTTATTTTTTTGATAAAT
1 ATTT-TTTTTTTGATAAAT
943499 ATTTTTT
1 ATTTTTT
943506 GAATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (18 bp):
ATTTTTTTTTTGATAAAT
Found at i:944386 original size:73 final size:72
Alignment explanation
Indices: 944156--945217 Score: 1159
Period size: 73 Copynumber: 14.6 Consensus size: 72
944146 TTAGTATAAA
* ** * *
944156 TATACGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTCATAAAAGTTTAAATTTGTTTTTTG
1 TATATGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTG
* *
944221 ATTTGAT
66 GTATGAT
* * * *
944228 TATATGAGTTTAAATATTTAAGTTATTATTTATTTTTATATGTATAGAAGTTTAAATTTATTTTT
1 TATATGAGTTTAAATTTTTAAGGTATAATTTATTTTTAT-T-TGTAGAAGTTTAAATTTATTTTT
*
944293 TAAGTATGAT
64 T-GGTATGAT
* * * * * *
944303 TAAATAAGTTTAAATTATTAAGCTATACTTTATTTTTATTTGTAGAAATTTAAATTTATTTTTTG
1 TATATGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-
*
944368 GGTGTGAT
65 GGTATGAT
* * *
944376 TATATGAGTTTAAATTTTTAATGTATAATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTA
1 TATATGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-
** *
944441 AATATAAT
65 GGTATGAT
*
944449 TATACGAGTTTAAATTTTTTAAGGTATAATTTATTTTTATTTGTA-AAGTTTAAATTTATTTTTT
1 TATATGAGTTTAAA-TTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT
* * *
944513 GATTTAAT
65 GGTATGAT
* * * * *
944521 TGTATGAGTTTTTAAATATTTAAGTTATTATTTATTTTTATATGTATAGAAGTTTAAATTTATTT
1 TATATGAG--TTTAAATTTTTAAGGTATAATTTATTTTTAT-T-TGTAGAAGTTTAAATTTATTT
*
944586 TTTAAGTATGAT
62 TTT-GGTATGAT
* ** * * *
944598 TAAACAAGTTTAAATTATTAAGCTATAATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTTG
1 TATATGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-
*
944663 GGTGTGAT
65 GGTATGAT
* * *
944671 TATATGAGTTTAAATTTTTAATGTATAATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTA
1 TATATGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-
** *
944736 AATATAAT
65 GGTATGAT
*
944744 TATACGAGTTTAAATTTTTTAAGGTATAATTTATTTTTATTTGTA-AAGTTTAAATTTATTTTTT
1 TATATGAGTTTAAA-TTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT
* * *
944808 GATTTAAT
65 GGTATGAT
* * *
944816 TGTATGAGTTTAAATTATTAAGGTATTATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTG
1 TATATGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-
944881 GGTATGAT
65 GGTATGAT
* * * * *
944889 TACATGAGTTTAAATTTTTAAGCTATAAGTTATTTCTATTTGTAGATGTTTAAATTTATTTTTTA
1 TATATGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-
944954 GGTATGAT
65 GGTATGAT
* ** * *
944962 TATACGAGTTTAAATTTTTAATATATGATTTATTTTTATTTGTTA-AATTTTAAATTTATTTTTT
1 TATATGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTG-TAGAAGTTTAAATTTATTTTTT
*
945026 GGTTTGAT
65 GGTATGAT
* * * * *
945034 TATACGGGTTTAAATTTTTTAAGATAT-TTTTATTTTTATTTGTAGAAGTTTTAA-TT-TTTTTT
1 TATATGAGTTTAAA-TTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT
*
945096 GGTATAAT
65 GGTATGAT
* * * *
945104 TATACGAGTTTAAATTTTTTAGGATATGATTTATTTTTATTTGTAGAACTTTAAATTTATTTTTT
1 TATATGAGTTTAAATTTTTAAGG-TATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT
*
945169 AGT-TCGAT
65 GGTAT-GAT
* * *
945177 TATTTGAGTTTAAAATTTTTAAGTTAT-TTTTATTTTTATTT
1 TATATGAGTTT-AAATTTTTAAGGTATAATTTATTTTTATTT
945218 TTATTTTTAT
Statistics
Matches: 843, Mismatches: 125, Indels: 44
0.83 0.12 0.04
Matches are distributed among these distances:
69 7 0.01
70 28 0.03
71 56 0.07
72 141 0.17
73 417 0.49
74 100 0.12
75 67 0.08
76 19 0.02
77 8 0.01
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.56
Consensus pattern (72 bp):
TATATGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTG
GTATGAT
Found at i:944684 original size:295 final size:291
Alignment explanation
Indices: 944150--945217 Score: 1515
Period size: 295 Copynumber: 3.7 Consensus size: 291
944140 TTTATTTTAG
* ** *
944150 TATAAATATACGAGTTTAAA-TTTTTAAGGTATAATTTATTTTTATTCATAAAAGTTTAAATTTG
1 TATAATTATACGAGTTTAAATTTTTTAAGGTATAATTTATTTTTATTTGT-AAAGTTTAAATTTA
*
944214 TTTTTTGATTTGATTATATGAGTTTAAATATTTAAGTTATTATTTATTTTTATATGTATAGAAGT
65 TTTTTTGATTTAATTATATGAGTTTAAATATTTAAGTTATTATTTATTTTTAT-T-TATAGAAGT
*
944279 TTAAATTTATTTTTTAAGTATGATTAAATAAGTTTAAATTATTAAGCTATACTTTATTTTTATTT
128 TTAAATTTATTTTTTAAGTATGATTAAATAAGTTTAAATTATTAAGCTATAATTTATTTTTATTT
944344 GTAGAAATTTAAATTTATTTTTTGGGTGTGATTATATGAGTTTAAATTTTTAATGTATAATTTAT
193 GTAGAAATTTAAATTTATTTTTTGGGTGTGATTATATGAGTTTAAATTTTTAATGTATAATTTAT
944409 TTTTATTTGTAAAAATTTAAATTTATTTTTTAAA
258 TTTTATTTGTAAAAATTTAAATTTATTTTTTAAA
944443 TATAATTATACGAGTTTAAATTTTTTAAGGTATAATTTATTTTTATTTGTAAAGTTTAAATTTAT
1 TATAATTATACGAGTTTAAATTTTTTAAGGTATAATTTATTTTTATTTGTAAAGTTTAAATTTAT
*
944508 TTTTTGATTTAATTGTATGAGTTTTTAAATATTTAAGTTATTATTTATTTTTATATGTATAGAAG
66 TTTTTGATTTAATTATATGAG--TTTAAATATTTAAGTTATTATTTATTTTTAT-T-TATAGAAG
*
944573 TTTAAATTTATTTTTTAAGTATGATTAAACAAGTTTAAATTATTAAGCTATAATTTATTTTTATT
127 TTTAAATTTATTTTTTAAGTATGATTAAATAAGTTTAAATTATTAAGCTATAATTTATTTTTATT
944638 TGTAGAAATTTAAATTTATTTTTTGGGTGTGATTATATGAGTTTAAATTTTTAATGTATAATTTA
192 TGTAGAAATTTAAATTTATTTTTTGGGTGTGATTATATGAGTTTAAATTTTTAATGTATAATTTA
944703 TTTTTATTTGTAAAAATTTAAATTTATTTTTTAAA
257 TTTTTATTTGTAAAAATTTAAATTTATTTTTTAAA
944738 TATAATTATACGAGTTTAAATTTTTTAAGGTATAATTTATTTTTATTTGTAAAGTTTAAATTTAT
1 TATAATTATACGAGTTTAAATTTTTTAAGGTATAATTTATTTTTATTTGTAAAGTTTAAATTTAT
* * *
944803 TTTTTGATTTAATTGTATGAGTTTAAAT-TATTAAGGTATTATTTATTTTTATTTGTAGAAGTTT
66 TTTTTGATTTAATTATATGAGTTTAAATAT-TTAAGTTATTATTTATTTTTATTTATAGAAGTTT
** * * * * *
944867 AAATTTATTTTTTGGGTATGATTACATGAGTTTAAATTTTTAAGCTATAAGTTATTTCTATTTGT
130 AAATTTATTTTTTAAGTATGATTAAATAAGTTTAAATTATTAAGCTATAATTTATTTTTATTTGT
** * * * * *
944932 AGATGTTTAAATTTATTTTTTAGGTATGATTATACGAGTTTAAATTTTTAATATATGATTTATTT
195 AGAAATTTAAATTTATTTTTTGGGTGTGATTATATGAGTTTAAATTTTTAATGTATAATTTATTT
* * **
944997 TTATTTGTTAAATTTTAAATTTATTTTTT-GG
260 TTATTTGTAAAAATTTAAATTTATTTTTTAAA
* * * * * *
945028 TTTGATTATACGGGTTTAAATTTTTTAAGATAT-TTTTATTTTTATTTGTAGAAGTTTTAA-TT-
1 TATAATTATACGAGTTTAAATTTTTTAAGGTATAATTTATTTTTATTTGTA-AAGTTTAAATTTA
* * * * * * * * *
945090 TTTTTTGGTATAATTATACGAGTTTAAATTTTTTAGGATATGATTTATTTTTATTTGTAGAACTT
65 TTTTTTGATTTAATTATATGAGTTTAAA-TATTTAAGTTATTATTTATTTTTATTTATAGAAGTT
** * * * *
945155 TAAATTTATTTTTT-AGT-TCGATTATTTGAGTTTAAAATTTTTAAGTTAT-TTTTATTTTTATT
129 TAAATTTATTTTTTAAGTAT-GATTAAATAAGTTT-AAATTATTAAGCTATAATTTATTTTTATT
945217 T
192 T
945218 TTATTTTTAT
Statistics
Matches: 716, Mismatches: 50, Indels: 23
0.91 0.06 0.03
Matches are distributed among these distances:
287 1 0.00
288 49 0.07
289 76 0.11
290 38 0.05
291 152 0.21
292 2 0.00
293 80 0.11
294 27 0.04
295 291 0.41
ACGTcount: A:0.32, C:0.01, G:0.11, T:0.56
Consensus pattern (291 bp):
TATAATTATACGAGTTTAAATTTTTTAAGGTATAATTTATTTTTATTTGTAAAGTTTAAATTTAT
TTTTTGATTTAATTATATGAGTTTAAATATTTAAGTTATTATTTATTTTTATTTATAGAAGTTTA
AATTTATTTTTTAAGTATGATTAAATAAGTTTAAATTATTAAGCTATAATTTATTTTTATTTGTA
GAAATTTAAATTTATTTTTTGGGTGTGATTATATGAGTTTAAATTTTTAATGTATAATTTATTTT
TATTTGTAAAAATTTAAATTTATTTTTTAAA
Found at i:944795 original size:40 final size:40
Alignment explanation
Indices: 944750--944875 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 40
944740 TAATTATACG
*
944750 AGTTTAAATTTTTTAAGGTATAATTTATTTTTATTTGTA-A
1 AGTTTAAATTTATTAAGGTAT-ATTTATTTTTATTTGTAGA
* *
944790 AGTTTAAATTTATT----T-T-TTGA--TTTAATTGTATG-
1 AGTTTAAATTTATTAAGGTATATTTATTTTTATTTGTA-GA
944822 AGTTTAAA-TTATTAAGGTATTATTTATTTTTATTTGTAGA
1 AGTTTAAATTTATTAAGGTA-TATTTATTTTTATTTGTAGA
944862 AGTTTAAATTTATT
1 AGTTTAAATTTATT
944876 TTTTGGGTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 25
0.69 0.05 0.26
Matches are distributed among these distances:
31 14 0.21
32 8 0.12
33 3 0.04
35 2 0.03
36 1 0.01
37 1 0.01
38 3 0.04
39 1 0.01
40 30 0.44
41 5 0.07
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (40 bp):
AGTTTAAATTTATTAAGGTATATTTATTTTTATTTGTAGA
Found at i:944883 original size:218 final size:217
Alignment explanation
Indices: 944156--945217 Score: 1185
Period size: 218 Copynumber: 4.9 Consensus size: 217
944146 TTAGTATAAA
** * *
944156 TATACGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTCATAAAAGTTTAAATTTGTTTTTTG
1 TATACGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTG
* * * * * *
944221 ATTTGATTATATGAGTTTAAATATTTAAGTTATTATTTATTTTTATATGTATAGAAGTTTAAATT
66 GTATGATTATATGAGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTA-A-AAGTTTAAATT
* * * * * *
944286 TATTTTTTAAGTATGATTAAATAAGTTTAAATTATTAAGCTATACTTTATTTTTATTTGTAGAAA
129 TATTTTTTAAGTATGATTATATGAGTTTAAATTTTTAAGTTATAATTTATTTTTATTTGTAGAAG
* *
944351 TTTAAATTTATTTTTTGGGTGTGAT
194 TTTAAATTTATTTTTT-GATTTGAT
* * * *
944376 TATATGAGTTTAAATTTTTAATGTATAATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTA
1 TATACGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-
** * * *
944441 AATATAATTATACGAGTTTAAATTTTTTAAGGTATAATTTATTTTTATTTGT-AAAGTTTAAATT
65 GGTATGATTATATGAGTTTAAA-TTTTTAAGATATAATTTATTTTTATTTGTAAAAGTTTAAATT
* * * * * * *
944505 TATTTTTTGA-TTTAATTGTATGAGTTTTTAAATATTTAAGTTATTATTTATTTTTATATGTATA
129 TATTTTTTAAGTATGATTATATGAG--TTTAAATTTTTAAGTTATAATTTATTTTTAT-T-TGTA
* *
944569 GAAGTTTAAATTTATTTTTTAAGTATGAT
190 GAAGTTTAAATTTATTTTTTGA-TTTGAT
* * * * *
944598 TAAACAAGTTTAAATTATTAAGCTATAATTTATTTTTATTTGTAGAAATTTAAATTTATTTTTTG
1 TATACGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-
* *
944663 GGTGTGATTATATGAGTTTAAATTTTTAATG-TATAATTTATTTTTATTTGTAAAAATTTAAATT
65 GGTATGATTATATGAGTTTAAATTTTTAA-GATATAATTTATTTTTATTTGTAAAAGTTTAAATT
* * * *
944727 TATTTTTTAAATATAATTATACGAGTTTAAATTTTTTAAGGTATAATTTATTTTTATTTGTA-AA
129 TATTTTTTAAGTATGATTATATGAGTTTAAA-TTTTTAAGTTATAATTTATTTTTATTTGTAGAA
*
944791 GTTTAAATTTATTTTTTGATTTAAT
193 GTTTAAATTTATTTTTTGATTTGAT
* * * *
944816 TGTATGAGTTTAAATTATTAAGGTATTATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTG
1 TATACGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT-
* * * * * *
944881 GGTATGATTACATGAGTTTAAATTTTTAAGCTATAAGTTATTTCTATTTGTAGATGTTTAAATTT
65 GGTATGATTATATGAGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAAAAGTTTAAATTT
* * *
944946 ATTTTTTAGGTATGATTATACGAGTTTAAATTTTTAA-TATATGATTTATTTTTATTTGTTA-AA
130 ATTTTTTAAGTATGATTATATGAGTTTAAATTTTTAAGT-TATAATTTATTTTTATTTG-TAGAA
* *
945009 TTTTAAATTTATTTTTTGGTTTGAT
193 GTTTAAATTTATTTTTTGATTTGAT
* * * *
945034 TATACGGGTTTAAATTTTTTAAGATAT-TTTTATTTTTATTTGTAGAAGTTTTAA-TT-TTTTTT
1 TATACGAGTTTAAA-TTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTT
* * * * * *
945096 GGTATAATTATACGAGTTTAAATTTTTTAGGATATGATTTATTTTTATTTGTAGAACTTTAAATT
65 GGTATGATTATATGAGTTTAAA-TTTTTAAGATATAATTTATTTTTATTTGTAAAAGTTTAAATT
* *
945161 TATTTTTT-AGT-TCGATTATTTGAGTTTAAAATTTTTAAGTTAT-TTTTATTTTTATTT
129 TATTTTTTAAGTAT-GATTATATGAGTTT-AAATTTTTAAGTTATAATTTATTTTTATTT
945218 TTATTTTTAT
Statistics
Matches: 725, Mismatches: 98, Indels: 43
0.84 0.11 0.05
Matches are distributed among these distances:
214 1 0.00
215 46 0.06
216 62 0.09
217 29 0.04
218 216 0.30
219 50 0.07
220 88 0.12
221 53 0.07
222 169 0.23
223 11 0.02
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.56
Consensus pattern (217 bp):
TATACGAGTTTAAATTTTTAAGGTATAATTTATTTTTATTTGTAGAAGTTTAAATTTATTTTTTG
GTATGATTATATGAGTTTAAATTTTTAAGATATAATTTATTTTTATTTGTAAAAGTTTAAATTTA
TTTTTTAAGTATGATTATATGAGTTTAAATTTTTAAGTTATAATTTATTTTTATTTGTAGAAGTT
TAAATTTATTTTTTGATTTGAT
Found at i:945218 original size:5 final size:6
Alignment explanation
Indices: 945200--945227 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
945190 AATTTTTAAG
945200 TTATTT TTATTT TTATTT TTATTT TTAT
1 TTATTT TTATTT TTATTT TTATTT TTAT
945228 AAGAGTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:948798 original size:6 final size:6
Alignment explanation
Indices: 948787--948819 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
948777 ATGTTTGCTG
948787 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
948820 AGAGATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:949573 original size:20 final size:20
Alignment explanation
Indices: 949550--949587 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
949540 AAAATACCCA
*
949550 AATGTATCGATACATTCTTC
1 AATGTATCGATAAATTCTTC
949570 AATGTATCGATAAATTCT
1 AATGTATCGATAAATTCT
949588 GTGTTTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATAAATTCTTC
Found at i:956603 original size:23 final size:23
Alignment explanation
Indices: 956565--956609 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
956555 TTCAAAATGA
* *
956565 CAAAAAAAAGTCAAAAGCAAAAG
1 CAAAAAAAAATCAAAAGAAAAAG
*
956588 CAAAAAAAAATGAAAAGAAAAA
1 CAAAAAAAAATCAAAAGAAAAA
956610 AGTGCAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.76, C:0.09, G:0.11, T:0.04
Consensus pattern (23 bp):
CAAAAAAAAATCAAAAGAAAAAG
Found at i:956659 original size:19 final size:20
Alignment explanation
Indices: 956621--956659 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
956611 GTGCAAAAGC
**
956621 AAAATAAAAAGGGAACGACA
1 AAAATAAAAAACGAACGACA
956641 AAAATAAAAAACGAA-GACA
1 AAAATAAAAAACGAACGACA
956660 TGAATGCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.69, C:0.10, G:0.15, T:0.05
Consensus pattern (20 bp):
AAAATAAAAAACGAACGACA
Found at i:958003 original size:27 final size:27
Alignment explanation
Indices: 957961--958459 Score: 434
Period size: 27 Copynumber: 18.1 Consensus size: 27
957951 TGGCATTTCT
957961 TTTTAAAGTCCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
*
957989 TTTTAAGTCCACAACTCCATGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
* *
958016 TTTTAAAGTCCACAACTTCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
*
958044 TTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
* * * *
958072 TTTAAAGTCCATAACTCCGTGGTACCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
* * *
958099 TTTTAAAGTTCACAATTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
* *
958127 TTTTAAGTCCACAACTCCGTCGCACCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
*
958154 TTTTAAGTCCACAACTCTGTGGCA-CTC
1 TTTTAAGTCCACAACTCCGTGGCATC-C
* *
958181 TTTTAAGTCCACAACCCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
** *
958208 TTTTAAGTCCACAACTTTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCATCC
* * *
958235 TTTTAAGTCTATAACTCTGTGGCAGT-C
1 TTTTAAGTCCACAACTCCGTGGCA-TCC
* *
958262 TTTTGAAATCCACAACTTCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCATCC
958290 TTTTAAGTCCACAACTCCGTGGCA--C
1 TTTTAAGTCCACAACTCCGTGGCATCC
* * *
958315 TTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTT--AAGTCCACAACTCCGTGGCATCC
* * * *
958344 TTCTCAAAGCCCACAAGTCAGTGGCAT-C
1 TT-T-TAAGTCCACAACTCCGTGGCATCC
* * *
958372 TTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTT--AAGTCCACAACTCCGTGGCATCC
* * * *
958401 TTTCAAAGCCCACAAGTCAGTGGCA-CC
1 TTT-TAAGTCCACAACTCCGTGGCATCC
* * * *
958428 ATTTCAAAGCCCACAAGTCAGTGGCATCC
1 -TTT-TAAGTCCACAACTCCGTGGCATCC
958457 TTT
1 TTT
958460 CAAAGCCCAC
Statistics
Matches: 412, Mismatches: 40, Indels: 38
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.01
26 1 0.00
27 205 0.50
28 170 0.41
29 30 0.07
30 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCATCC
Found at i:958029 original size:55 final size:56
Alignment explanation
Indices: 957961--958471 Score: 499
Period size: 55 Copynumber: 9.3 Consensus size: 56
957951 TGGCATTTCT
* *
957961 TTTTAAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCATGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCC
*
958016 TTTTAAAGTCCACAACTTCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCC
* * * * * *
958071 CTTTAAAGTCCATAACTCCGTGGTACCCTTTTAAAGTTCACAATTCCGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCC
* *
958127 TTTT-AAGTCCACAACTCCGTCGCACCCTTTT-AAGTCCACAACTCTGTGGCA-CTC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATC-C
* ** *
958181 TTTT-AAGTCCACAACCCCGTGGCACCCTTTT-AAGTCCACAACTTTGTGGCACCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCC
* * * ** *
958235 TTTT-AAGTCTATAACTCTGTGGCAGTCTTTTGAAA-TCCACAACTTCGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAAGTCCACAACTCCGTGGCATCC
* * *
958290 TTTT-AAGTCCACAACTCCGTGGCA--CTTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAAGTCCACAACTCCGTGGCATCC
* * * * * * * *
958344 TTCTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TT-TTAAAGTCCACAACTCCGTGGCACCCTTTT-AAAGTCCACAACTCCGTGGCATCC
* * * * * * * * *
958401 TTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCC
* *
958457 TTTCAAAGCCCACAA
1 TTTTAAAGTCCACAA
958472 GTTAGTGGCA
Statistics
Matches: 403, Mismatches: 42, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
53 9 0.02
54 110 0.27
55 144 0.36
56 105 0.26
57 35 0.09
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (56 bp):
TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCATCC
Found at i:958039 original size:28 final size:28
Alignment explanation
Indices: 957935--958498 Score: 393
Period size: 28 Copynumber: 20.4 Consensus size: 28
957925 TGACCTCTTC
* *
957935 AAAGTCCACGA-TTCAGTGGCATTTCTTTTT
1 AAAGTCCACAACTTC-GTGGCA--TCCTTTT
*
957965 AAAGTCCACAACTCCGTGGCATCCTTTT
1 AAAGTCCACAACTTCGTGGCATCCTTTT
* *
957993 -AAGTCCACAACTCCATGGCATCCTTTT
1 AAAGTCCACAACTTCGTGGCATCCTTTT
*
958020 AAAGTCCACAACTTCGTGGCACCCTTTT
1 AAAGTCCACAACTTCGTGGCATCCTTTT
* *
958048 AAAGTCCACAACTCCGTGGCA-CCCTTT
1 AAAGTCCACAACTTCGTGGCATCCTTTT
* * * *
958075 AAAGTCCATAACTCCGTGGTACCCTTTT
1 AAAGTCCACAACTTCGTGGCATCCTTTT
* *
958103 AAAGTTCACAA-TTCCGTGGCACCCTTTT
1 AAAGTCCACAACTT-CGTGGCATCCTTTT
* * *
958131 -AAGTCCACAACTCCGTCGCACCCTTTT
1 AAAGTCCACAACTTCGTGGCATCCTTTT
958158 -AAGTCCACAAC-TCTGTGGCA-CTCTTTT
1 AAAGTCCACAACTTC-GTGGCATC-CTTTT
** *
958185 -AAGTCCACAACCCCGTGGCACCCTTTT
1 AAAGTCCACAACTTCGTGGCATCCTTTT
* *
958212 -AAGTCCACAACTTTGTGGCACCCTTTT
1 AAAGTCCACAACTTCGTGGCATCCTTTT
* *
958239 -AAGTCTATAAC-TCTGTGGCAGT-CTTTT
1 AAAGTCCACAACTTC-GTGGCA-TCCTTTT
958266 GAAA-TCCACAACTTCGTGGCATCCTTTT
1 -AAAGTCCACAACTTCGTGGCATCCTTTT
*
958294 -AAGTCCACAACTCCGTGGCA--CTTTT
1 AAAGTCCACAACTTCGTGGCATCCTTTT
* * *
958319 CAAAGCCCACAA-GTCAGTGGCATCCTTCTC
1 -AAAGTCCACAACTTC-GTGGCATCCTT-TT
* *
958349 AAAGCCCACAA-GTCAGTGGCAT-CTTTT
1 AAAGTCCACAACTTC-GTGGCATCCTTTT
* * *
958376 CAAAGCCCACAA-GTCAGTGGCATCCTTTC
1 -AAAGTCCACAACTTC-GTGGCATCCTTTT
* * *
958405 AAAGCCCACAA-GTCAGTGGCA-CCATTTC
1 AAAGTCCACAACTTC-GTGGCATCC-TTTT
* * *
958433 AAAGCCCACAA-GTCAGTGGCATCCTTTC
1 AAAGTCCACAACTTC-GTGGCATCCTTTT
* * * * *
958461 AAAGCCCACAAGTTAGTGGCATCATTTC
1 AAAGTCCACAACTTCGTGGCATCCTTTT
*
958489 AAAGCCCACA
1 AAAGTCCACA
958499 CAAGTCGGTG
Statistics
Matches: 466, Mismatches: 41, Indels: 56
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.01
26 6 0.01
27 195 0.42
28 205 0.44
29 36 0.08
30 17 0.04
31 2 0.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.27
Consensus pattern (28 bp):
AAAGTCCACAACTTCGTGGCATCCTTTT
Found at i:958156 original size:82 final size:82
Alignment explanation
Indices: 957961--958314 Score: 471
Period size: 82 Copynumber: 4.3 Consensus size: 82
957951 TGGCATTTCT
* * *
957961 TTTTAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCCTTTTAAAGTC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
958026 CACAACTTCGTGGCACCC
65 CACAACTTCGTGGCACCC
* * * *
958044 TTTTAAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCATAACTCCGTGGTACCCTTTTAAAGTT
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTC
958109 CACAA-TTCCGTGGCACCC
65 CACAACTT-CGTGGCACCC
* * *
958127 TTTTAAGTCCACAACTCCGTCGCACCCTTTTAAGTCCACAACTCTGTGGCACTCTTTT-AAGTCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCC
**
958191 ACAACCCCGTGGCACCC
66 ACAACTTCGTGGCACCC
** * * * **
958208 TTTTAAGTCCACAACTTTGTGGCACCCTTTTAAGTCTATAACTCTGTGGCAGTCTTTTGAAA-TC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAAGTC
*
958272 CACAACTTCGTGGCATCC
65 CACAACTTCGTGGCACCC
958290 TTTTAAGTCCACAACTCCGTGGCAC
1 TTTTAAGTCCACAACTCCGTGGCAC
958315 TTTTCAAAGC
Statistics
Matches: 240, Mismatches: 27, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
81 71 0.30
82 90 0.38
83 79 0.33
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (82 bp):
TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCC
ACAACTTCGTGGCACCC
Found at i:958443 original size:84 final size:85
Alignment explanation
Indices: 958281--958933 Score: 572
Period size: 84 Copynumber: 7.5 Consensus size: 85
958271 CCACAACTTC
* * * * *
958281 GTGGCATCCTTTT--AAGTCCACAACTCCGTGGCA-CTTTTCAAAGCCCACAAGTCAGTGGCATC
1 GTGGCAT-CTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACC
958343 C-TTCTCAAAGCCCACAAGTCA
65 CATT-TCAAAGCCCACAAGTCA
958364 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CC
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCC
958428 ATTTCAAAGCCCACAAGTCA
66 ATTTCAAAGCCCACAAGTCA
* * * *
958448 GTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACACAAGTCGGTGGCAG
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGTGGCA-
* * *
958513 CCCATTTCAAAGGCCATAAGTCG
63 CCCATTTCAAAGCCCACAAGTCA
* * * **
958536 GTGGCATCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACAAAAGTTGGTG
1 GTGGCATCTTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAGCCCAC--AAGTCAGTG
**
958601 GCAACCCATTTCAAAGCCCACATAAGTTG
60 GC-ACCCATTTCAAAGCCCAC--AAGTCA
* * * * * **
958630 GTGGCAACCCATTTGAAAGTCCACACAA-TCGGTGGCAACTCATTTCAAAGCCCACACAAGTTGG
1 GTGGC-A-TCTTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCAAAG-CC-CACAAGTCAG
*
958694 TGGCAACCCATTTCAAAGCCCACACAAGTCG
58 TGGC-ACCCATTTCAAAG-CC-CACAAGTCA
* * * * * * *
958725 GTGACATTTTTTCAAAGCCCATAAGTCAGTGGTACCCTTTCAAAGCCCACAAGTCAGTGGTA-AC
1 GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* *
958789 TTTTCAAAGCCCACGAGTCA
66 ATTTCAAAGCCCACAAGTCA
* * * * *
958809 GTGACAAT-TTTTCAAAGCCCACGAGTCAGTGGCATCCTTCCAAAGCCCACGAGTCAGTGGCATC
1 GTGGC-ATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACC
*
958873 C-TTTCGAAGCCCACAAGTCA
65 CATTTCAAAGCCCACAAGTCA
* *
958893 GTGGCAT-TTCTTCAAAGCCTACAGAAGTTAGTGGCA-CCTTT
1 GTGGCATCTT-TTCAAAGCC--CACAAGTCAGTGGCATCCTTT
958934 TTTTTAAAAA
Statistics
Matches: 484, Mismatches: 57, Indels: 56
0.81 0.10 0.09
Matches are distributed among these distances:
82 5 0.01
83 11 0.02
84 167 0.35
85 39 0.08
86 35 0.07
87 1 0.00
88 46 0.10
89 4 0.01
90 24 0.05
91 8 0.02
92 43 0.09
93 8 0.02
94 11 0.02
95 56 0.12
96 20 0.04
97 6 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (85 bp):
GTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCC
ATTTCAAAGCCCACAAGTCA
Found at i:958487 original size:56 final size:56
Alignment explanation
Indices: 958281--958933 Score: 562
Period size: 56 Copynumber: 11.2 Consensus size: 56
958271 CCACAACTTC
* * * *
958281 GTGGCATCCTTT-TAAGTCCACAACTCCGTGGCA-CTTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCA
958335 GTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCA
1 GTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCA
* *
958392 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCA
* * *
958448 GTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACACAAGTCG
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAG-CC-CACAAGTCA
* * * * *
958506 GTGGCAGCCCATTTCAAAGGCCATAAGTCGGTGGCATCTTTTCAAAGCCCACACAAGTCG
1 GTGGCA-TCC-TTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAG-CC-CACAAGTCA
* * ** * * **
958566 GTGGCAACTCATTTGAAAGCCCACAAAAGTTGGTGGCAACCCATTTCAAAGCCCACATAAGTTG
1 GTGGC-A-TCCTTTCAAAGCCCAC--AAGTCAGTGGC-A-TCTTTTCAAAGCCCAC--AAGTCA
* * * * **
958630 GTGGCAACCCATTTGAAAGTCCACACAA-TCGGTGGCAACTCATTTCAAAGCCCACACAAGTTG
1 GTGGC-ATCC-TTTCAAAG-CC-CACAAGTCAGTGGC-A-TCTTTTCAAAG-CC-CACAAGTCA
* * * * *
958693 GTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGACATTTTTTCAAAGCCCATAAGTCA
1 GTGGC-ATCC-TTTCAAAG-CC-CACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCA
* * * * *
958753 GTGGTACCCTTTCAAAGCCCACAAGTCAGTGGTAACTTTTCAAAGCCCACGAGTCA
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCA
* * * * * *
958809 GTGACAAT-TTTTCAAAGCCCACGAGTCAGTGGCATCCTTCCAAAGCCCACGAGTCA
1 GTGGC-ATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCA
* * *
958865 GTGGCATCCTTTCGAAGCCCACAAGTCAGTGGCAT-TTCTTCAAAGCCTACAGAAGTTA
1 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTT-TTCAAAGCC--CACAAGTCA
958923 GTGGCA-CCTTT
1 GTGGCATCCTTT
958934 TTTTTAAAAA
Statistics
Matches: 511, Mismatches: 63, Indels: 47
0.82 0.10 0.08
Matches are distributed among these distances:
54 11 0.02
55 4 0.01
56 214 0.42
57 42 0.08
58 34 0.07
59 6 0.01
60 69 0.14
61 4 0.01
62 22 0.04
63 57 0.11
64 40 0.08
65 5 0.01
66 3 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (56 bp):
GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTCA
Found at i:958524 original size:32 final size:29
Alignment explanation
Indices: 958316--958898 Score: 429
Period size: 28 Copynumber: 19.9 Consensus size: 29
958306 CCGTGGCACT
* *
958316 TTTCAAAGCCCACAAGTCAGTGGCATCC-
1 TTTCAAAGCCCACAAGTCGGTGGCACCCA
* * *
958344 TTCTCAAAGCCCACAAGTCAGTGGCA-TCT
1 TT-TCAAAGCCCACAAGTCGGTGGCACCCA
* *
958373 TTTCAAAGCCCACAAGTCAGTGGCATCC-
1 TTTCAAAGCCCACAAGTCGGTGGCACCCA
*
958401 TTTCAAAGCCCACAAGTCAGTGGCA-CCA
1 TTTCAAAGCCCACAAGTCGGTGGCACCCA
* *
958429 TTTCAAAGCCCACAAGTCAGTGGCATCC-
1 TTTCAAAGCCCACAAGTCGGTGGCACCCA
** *
958457 TTTCAAAGCCCACAAGTTAGTGGCA-TCA
1 TTTCAAAGCCCACAAGTCGGTGGCACCCA
958485 TTTCAAAGCCCACACAAGTCGGTGGCAGCCCA
1 TTTCAAAG-CC-CACAAGTCGGTGGCA-CCCA
* * * *
958517 TTTCAAAGGCCATAAGTCGGTGGCA-TCT
1 TTTCAAAGCCCACAAGTCGGTGGCACCCA
*
958545 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAG-CC-CACAAGTCGGTGGC-ACCCA
* *
958577 TTTGAAAGCCCACAAAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCAC--AAGTCGGTGGC-ACCCA
*
958609 TTTCAAAGCCCACATAAGTTGGTGGCAACCCA
1 TTTCAAAGCCCAC--AAGTCGGTGGC-ACCCA
* *
958641 TTTGAAAGTCCACACAA-TCGGTGGCAACTCA
1 TTTCAAAG-CC-CACAAGTCGGTGGC-ACCCA
*
958672 TTTCAAAGCCCACACAAGTTGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCGGTGGC-ACCCA
* ***
958704 TTTCAAAGCCCACACAAGTCGGTGACA-TTT
1 TTTCAAAG-CC-CACAAGTCGGTGGCACCCA
* * *
958734 TTTCAAAGCCCATAAGTCAGTGGTACCC-
1 TTTCAAAGCCCACAAGTCGGTGGCACCCA
* * * *
958762 TTTCAAAGCCCACAAGTCAGTGGTA-ACT
1 TTTCAAAGCCCACAAGTCGGTGGCACCCA
* * * ***
958790 TTTCAAAGCCCACGAGTCAGTGACA-ATT
1 TTTCAAAGCCCACAAGTCGGTGGCACCCA
* * *
958818 TTTCAAAGCCCACGAGTCAGTGGCATCC-
1 TTTCAAAGCCCACAAGTCGGTGGCACCCA
* * * *
958846 TTCCAAAGCCCACGAGTCAGTGGCATCC-
1 TTTCAAAGCCCACAAGTCGGTGGCACCCA
* *
958874 TTTCGAAGCCCACAAGTCAGTGGCA
1 TTTCAAAGCCCACAAGTCGGTGGCA
958899 TTTCTTCAAA
Statistics
Matches: 483, Mismatches: 50, Indels: 44
0.84 0.09 0.08
Matches are distributed among these distances:
27 4 0.01
28 249 0.52
29 33 0.07
30 51 0.11
31 32 0.07
32 109 0.23
33 2 0.00
34 3 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCGGTGGCACCCA
Found at i:958682 original size:95 final size:94
Alignment explanation
Indices: 958347--958745 Score: 406
Period size: 95 Copynumber: 4.4 Consensus size: 94
958337 GGCATCCTTC
* * * * *
958347 TCAAAGCCCAC--AAGTCAGTGGCATCTTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCCTTTCA
1 TCAAAGCCCACATAAGTCGGTGGCACCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCA
**
958406 AAG-CC-CACAAGTCAGTGGC-A-CCATT
66 AAGCCCACACAAGTTGGTGGCAACCCATT
* **
958431 TCAAAGCCCAC--AAGTCAGTGGCATCC-TTTCAAAG-CC-CACAAGTTAGTGGC-A-TCATTTC
1 TCAAAGCCCACATAAGTCGGTGGCA-CCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTC
* *
958489 AAAGCCCACACAAGTCGGTGGCAGCCCATT
65 AAAGCCCACACAAGTTGGTGGCAACCCATT
* * * *
958519 TCAAAG-GC-CATAAGTCGGTGGCATCTTTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGA
1 TCAAAGCCCACATAAGTCGGTGGCACCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCA
*
958582 AAGCCCACAAAAGTTGGTGGCAACCCATT
66 AAGCCCACACAAGTTGGTGGCAACCCATT
* * *
958611 TCAAAGCCCACATAAGTTGGTGGCAACCCATTTGAAAGTCCACACAA-TCGGTGGCAACTCATTT
1 TCAAAGCCCACATAAGTCGGTGGC-A-CCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTT
958675 CAAAGCCCACACAAGTTGGTGGCAACCCATT
64 CAAAGCCCACACAAGTTGGTGGCAACCCATT
* * ***
958706 TCAAAGCCCACACAAGTCGGTGACATTTTTTCAAAGCCCA
1 TCAAAGCCCACATAAGTCGGTGGCACCATTTCAAAGCCCA
958746 TAAGTCAGTG
Statistics
Matches: 269, Mismatches: 30, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
84 57 0.21
85 3 0.01
86 14 0.05
87 2 0.01
88 30 0.11
89 2 0.01
90 12 0.04
91 1 0.00
92 39 0.14
93 11 0.04
94 14 0.05
95 68 0.25
96 16 0.06
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (94 bp):
TCAAAGCCCACATAAGTCGGTGGCACCATTTCAAAGCCCACACAAGTCGGTGGCAACTCATTTCA
AAGCCCACACAAGTTGGTGGCAACCCATT
Found at i:958751 original size:28 final size:28
Alignment explanation
Indices: 958704--958934 Score: 214
Period size: 28 Copynumber: 8.1 Consensus size: 28
958694 TGGCAACCCA
* * *
958704 TTTCAAAGCCCACACAAGTCGGTGACATTT
1 TTTCAAAG-CC-CACAAGTCAGTGGCATCT
* * * *
958734 TTTCAAAGCCCATAAGTCAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
958762 TTTCAAAGCCCACAAGTCAGTGGTAACT
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* *
958790 TTTCAAAGCCCACGAGTCAGTGACAAT-T
1 TTTCAAAGCCCACAAGTCAGTGGC-ATCT
* *
958818 TTTCAAAGCCCACGAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
958846 TTCCAAAGCCCACGAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
*
958874 TTTCGAAGCCCACAAGTCAGTGGCAT-T
1 TTTCAAAGCCCACAAGTCAGTGGCATCT
* * *
958901 TCTTCAAAGCCTACAGAAGTTAGTGGCACCT
1 T-TTCAAAGCC--CACAAGTCAGTGGCATCT
958932 TTT
1 TTT
958935 TTTTAAAAAG
Statistics
Matches: 170, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
27 3 0.02
28 139 0.82
29 3 0.02
30 23 0.14
31 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCT
Found at i:959097 original size:47 final size:47
Alignment explanation
Indices: 959040--959198 Score: 189
Period size: 47 Copynumber: 3.4 Consensus size: 47
959030 GGCACCTTTA
*
959040 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATAATCCATTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATAGTCCATTTTCCC
** * * * *
959087 TTAGCTCAATGTTACTAGCCTTGAATCAGCACATTGTCCACTTT--A
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATAGTCCATTTTCCC
* *
959132 TTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGTCCACTTTTCCC
1 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACA-TAGTCCA-TTTTCCC
959181 TTAG-TCCAATGTCGCTGG
1 TTAGCT-CAATGTCGCTGG
959199 TTTTGAATTG
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
45 29 0.32
46 6 0.07
47 41 0.45
49 16 0.17
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (47 bp):
TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATAGTCCATTTTCCC
Found at i:959153 original size:45 final size:45
Alignment explanation
Indices: 959010--959176 Score: 192
Period size: 45 Copynumber: 3.6 Consensus size: 45
959000 CCGATATCGG
* * *
959010 TGGCATTGAATCAGCATATTG-GCACCTTTATTAGCTCAATGTCGC
1 TGGCCTTGAATCAGCACATTGTCCA-CTTTATTAGCTCAATGTCGC
** * * **
959055 TGGCCTTGAATCAGCACATAATCCATTTTCCCTTAGCTCAATGTTAC
1 TGGCCTTGAATCAGCACATTGTCCACTTT--ATTAGCTCAATGTCGC
* *
959102 TAGCCTTGAATCAGCACATTGTCCACTTTATTAGCCCAATGTCGC
1 TGGCCTTGAATCAGCACATTGTCCACTTTATTAGCTCAATGTCGC
959147 TGGCCTTGAATCAGCACATTGGTCCACTTT
1 TGGCCTTGAATCAGCACATT-GTCCACTTT
959177 TCCCTTAGTC
Statistics
Matches: 100, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
45 51 0.51
46 11 0.11
47 38 0.38
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (45 bp):
TGGCCTTGAATCAGCACATTGTCCACTTTATTAGCTCAATGTCGC
Found at i:959609 original size:20 final size:20
Alignment explanation
Indices: 959586--959663 Score: 120
Period size: 20 Copynumber: 3.9 Consensus size: 20
959576 AAAATACCCA
959586 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
* * *
959606 AATGTATCGATACATGCATG
1 AATGTATCGATACATTCTTC
*
959626 AATGTATCGGTACATTCTTC
1 AATGTATCGATACATTCTTC
959646 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
959664 GTGTTCTTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:966429 original size:51 final size:50
Alignment explanation
Indices: 966316--966454 Score: 181
Period size: 51 Copynumber: 2.7 Consensus size: 50
966306 ATATGTTTGC
* * * * *
966316 ATGTATCGATATATTGAATAATATATCGATACATCTGGGTAAAAATACCTAG
1 ATGTATCGATACAATG-ATAATGTATCGATACAT-TTGGTAAAAAAACCTAG
966368 ATGTATCGATACAATGATCAATGTATCGATACATTTGGTAAAAAAATCC-AG
1 ATGTATCGATACAATGAT-AATGTATCGATACATTTGGTAAAAAAA-CCTAG
966419 ATGTATCGATACAATGATAAATGTATCGATACATTT
1 ATGTATCGATACAATGAT-AATGTATCGATACATTT
966455 ATTAATGTAT
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
51 49 0.62
52 30 0.38
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (50 bp):
ATGTATCGATACAATGATAATGTATCGATACATTTGGTAAAAAAACCTAG
Found at i:966472 original size:20 final size:20
Alignment explanation
Indices: 966419--966474 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
966409 AAAAATCCAG
* *
966419 ATGTATCGATACAATGATAA
1 ATGTATCGATACATTTATAA
*
966439 ATGTATCGATACATTTATTA
1 ATGTATCGATACATTTATAA
*
966459 ATGTATTGATACATTT
1 ATGTATCGATACATTT
966475 CCTTAGCAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTATAA
Found at i:968085 original size:39 final size:39
Alignment explanation
Indices: 967972--968077 Score: 113
Period size: 41 Copynumber: 2.7 Consensus size: 39
967962 TCTTTCGAAC
** * *
967972 TCTAATAAAAAATTTATGTATTAGTCACATTTTTCATAT
1 TCTAATAAAAAATCCATGCATTAGTCACATTTTTCAGAT
* * * * *
968011 TCCAATATATATAATCCATACATTACTAACATTTTTCAGAT
1 TCTAATA-A-AAAATCCATGCATTAGTCACATTTTTCAGAT
968052 TCTAATAAAAAATCCATGCATTAGTC
1 TCTAATAAAAAATCCATGCATTAGTC
968078 TTATTTTTTG
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
39 20 0.39
40 2 0.04
41 29 0.57
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.40
Consensus pattern (39 bp):
TCTAATAAAAAATCCATGCATTAGTCACATTTTTCAGAT
Found at i:971492 original size:15 final size:15
Alignment explanation
Indices: 971472--971526 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
971462 AAAAAAATGG
*
971472 TGAAATTAGTTTATT
1 TGAAATTAATTTATT
* *
971487 TGAAATTAATAGTAGT
1 TGAAATTAAT-TTATT
*
971503 TGAAATTAATTTATA
1 TGAAATTAATTTATT
971518 TGAAATTAA
1 TGAAATTAA
971527 CACTAAGCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 20 0.61
16 13 0.39
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (15 bp):
TGAAATTAATTTATT
Found at i:973299 original size:25 final size:25
Alignment explanation
Indices: 973265--973315 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
973255 AGCTCCTCTG
973265 TCATTTATGTAATGTATGATTTGTT
1 TCATTTATGTAATGTATGATTTGTT
973290 TCATTTATGTAATGTATGATTTGTT
1 TCATTTATGTAATGTATGATTTGTT
973315 T
1 T
973316 TAGCCATGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.57
Consensus pattern (25 bp):
TCATTTATGTAATGTATGATTTGTT
Found at i:973489 original size:21 final size:21
Alignment explanation
Indices: 973465--973536 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
973455 ATCATCACTT
*
973465 ATGAAAAGATGCATTTGTTAG
1 ATGAAAAGATGCAATTGTTAG
* *
973486 ATGAAAAAATGTAATTGTTAG
1 ATGAAAAGATGCAATTGTTAG
* * * *
973507 ATAAAAAGATACACTTGTTAA
1 ATGAAAAGATGCAATTGTTAG
973528 ATGAAAAGA
1 ATGAAAAGA
973537 CATCTTTAAT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGAAAAGATGCAATTGTTAG
Found at i:978979 original size:2 final size:2
Alignment explanation
Indices: 978968--979007 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
978958 TGTGTGTATC
*
978968 TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
979008 GAGAGAGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:979012 original size:2 final size:2
Alignment explanation
Indices: 979007--979037 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
978997 ATATATATAT
979007 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
979038 TTTGTTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:982372 original size:25 final size:23
Alignment explanation
Indices: 982330--982382 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 23
982320 TTGGGTATTA
982330 TATAATAAGATTAAATTTAATAG
1 TATAATAAGATTAAATTTAATAG
* *
982353 TATAATAAGTATTTAGATTTAATTG
1 TATAATAAG-A-TTAAATTTAATAG
982378 TATAA
1 TATAA
982383 GTGATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 9 0.35
24 1 0.04
25 16 0.62
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.43
Consensus pattern (23 bp):
TATAATAAGATTAAATTTAATAG
Found at i:982513 original size:38 final size:35
Alignment explanation
Indices: 982469--982541 Score: 103
Period size: 38 Copynumber: 2.0 Consensus size: 35
982459 TTATTAAAAT
982469 TATATTTATATTAATTAATAATT-AAAAATTAATATAAA
1 TATATTTATATTAA--AA-AATTAAAAAATTAA-ATAAA
982507 TATATTTATATTAAAAAATTAAAAAATTAAATAAA
1 TATATTTATATTAAAAAATTAAAAAATTAAATAAA
982542 AAAAAGGTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
35 9 0.26
36 11 0.32
38 14 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (35 bp):
TATATTTATATTAAAAAATTAAAAAATTAAATAAA
Found at i:983141 original size:18 final size:18
Alignment explanation
Indices: 983088--983143 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
983078 AAATTATAAA
*
983088 ATTAAATTGAATTATTTATT
1 ATTAAATT-AATT-TTTTTT
* * *
983108 -TTATATTTATTATTTTT
1 ATTAAATTAATTTTTTTT
983125 ATTAAATTAATTTTTTTT
1 ATTAAATTAATTTTTTTT
983143 A
1 A
983144 AATAAAATTA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
17 4 0.14
18 18 0.64
19 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
ATTAAATTAATTTTTTTT
Found at i:983836 original size:20 final size:20
Alignment explanation
Indices: 983801--983846 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
983791 TATTAATATA
983801 ATAT-AAATTATCAAAATTT
1 ATATAAAATTATCAAAATTT
983820 ATATAAAATATAT-AAAATTT
1 ATATAAAAT-TATCAAAATTT
983840 A-ATAAAA
1 ATATAAAA
983847 AATTAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.40
20 12 0.48
21 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATAAAATTATCAAAATTT
Found at i:983855 original size:21 final size:20
Alignment explanation
Indices: 983813--983866 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
983803 ATAAATTATC
*
983813 AAAATTTATATAAAA-TATAT
1 AAAATTTATAAAAAATTA-AT
983833 AAAATTTAATAAAAAATTAAT
1 AAAATTT-ATAAAAAATTAAT
*
983854 AAAA-ATATAAAAA
1 AAAATTTATAAAAA
983867 TCGTCAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 7 0.23
20 8 0.27
21 13 0.43
22 2 0.07
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTTATAAAAAATTAAT
Found at i:985932 original size:1 final size:1
Alignment explanation
Indices: 985926--985955 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
985916 TAGCTACCCC
*
985926 TTTTTTTTTTTTTTTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
985956 CACAAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:988727 original size:2 final size:2
Alignment explanation
Indices: 988720--988752 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
988710 AAAAAGCAAG
988720 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
988753 AAGATTTTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:992840 original size:20 final size:20
Alignment explanation
Indices: 992815--992881 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
992805 ATAATGTATA
992815 GATACATTGAAAAATATATC
1 GATACATTGAAAAATATATC
* * * *
992835 GATACATTCATACATGTATC
1 GATACATTGAAAAATATATC
*
992855 GATATATTGAAAAATATATC
1 GATACATTGAAAAATATATC
992875 GATACAT
1 GATACAT
992882 CTGGGTAAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
GATACATTGAAAAATATATC
Found at i:992864 original size:40 final size:39
Alignment explanation
Indices: 992804--992881 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 39
992794 GGTAAAAAGA
992804 CATAATGTATAGATACATTGAAAAATATATCGATACATT
1 CATAATGTATAGATACATTGAAAAATATATCGATACATT
* *
992843 CATACATGTATCGATATATTGAAAAATATATCGATACAT
1 CATA-ATGTATAGATACATTGAAAAATATATCGATACAT
992882 CTGGGTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 4 0.11
40 32 0.89
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (39 bp):
CATAATGTATAGATACATTGAAAAATATATCGATACATT
Found at i:993493 original size:28 final size:29
Alignment explanation
Indices: 993381--994416 Score: 1222
Period size: 29 Copynumber: 35.3 Consensus size: 29
993371 TTTTTTTAAA
* *
993381 AAAAGGGTGCCACTAACTTATGTGGGCCTTG
1 AAAAGGGTGCCACTGAC-T-TGTGGGCTTTG
* *
993412 AAAAGAGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAG-GGTGCCACTGAC-T-TGTGGGCTTTG
* *
993444 AAAAGAGTTACCACT-AGCTTGTGGGCTTT-
1 AAAAG-GGTGCCACTGA-CTTGTGGGCTTTG
993473 AAAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
993502 -GAAGGGTGCCACTGATTTGTGTGGGCTTTG
1 AAAAGGGTGCCACTGA-CT-TGTGGGCTTTG
* * *
993532 AAAAGAGTTGCTACCGACTTGTGTGGGCTTTG
1 AAAAG-GGTGCCACTGAC-T-TGTGGGCTTTG
* * *
993564 AAAAGAGTTGCTACCGACTTGTGTGGGCTTTG
1 AAAAG-GGTGCCACTGAC-T-TGTGGGCTTTG
*
993596 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
993625 ACAAGAGTGCCACTGACTTGTGGGTTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
993654 AAAA-GGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
993682 AAAGGGGTGTCACTGACTTGTGGGTTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
993711 AAAGGGGTGCCACT-ATCTTGTGAGCTTTG
1 AAAAGGGTGCCACTGA-CTTGTGGGCTTTG
* *
993740 AAAAGAGTGCCACTAACTTGTGGGCTTT-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
993768 AAAAAGGTGCCACTGACTTGCGTGGACTTTG
1 AAAAGGGTGCCACTGACTT--GTGGGCTTTG
*
993799 AAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
993828 AAAGGGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
993857 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
993885 AAAAGAGTTACCACCGACTCGTGTGGGCTTTG
1 AAAAG-GGTGCCACTGACT--TGTGGGCTTTG
*
993917 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
993946 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
993974 -AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * *
994002 AAAGGGGTGCTATTGTCTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
994031 AAAAGAGTGCCACTGACTTGTGGGCTTT-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
994059 AAAAGGGTGCCACTGACTTGCGTGGGCTTTG
1 AAAAGGGTGCCACTGACTT--GTGGGCTTTG
*
994090 AAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* *
994119 -AAAGGGTACCACTAACTTATGTGGGCTTTG
1 AAAAGGGTGCCACTGAC-T-TGTGGGCTTTG
*
994149 AAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
994178 AAAAGAGTTGCCACCGACTCGTGTGGGCTTTT
1 AAAAG-GGTGCCACTGACT--TGTGGGCTTTG
* *
994210 AAAAGAGTGCCACTGATTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
994239 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
994268 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
994296 -AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
994324 -AAAGAGGTGCCACTGACTTGTGAGCTTTG
1 AAAAG-GGTGCCACTGACTTGTGGGCTTTG
*
994353 AAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
*
994382 -AAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTG
994410 -AAAGGGT
1 AAAAGGGT
994417 TTGAACGTTC
Statistics
Matches: 886, Mismatches: 88, Indels: 65
0.85 0.08 0.06
Matches are distributed among these distances:
28 277 0.31
29 325 0.37
30 76 0.09
31 84 0.09
32 124 0.14
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
AAAAGGGTGCCACTGACTTGTGGGCTTTG
Found at i:993676 original size:57 final size:56
Alignment explanation
Indices: 993382--994412 Score: 1152
Period size: 57 Copynumber: 17.6 Consensus size: 56
993372 TTTTTTAAAA
* * * *
993382 AAAGGGTGCCACTAACTTATGTGGGCCTTGAAAAGAGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAGAGTGCCACTGAC-T-TGTGGGCTTTGAAAAG-G-TGCCACTGAC-T-TGTGGGCTTTG
*
993444 AAAAGAGTTACCACT-AGCTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGCTTTG
1 -AAAGAG-TGCCACTGA-CTTGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGCTTTG
* * * * *
993502 GAAGGGTGCCACTGATTTGTGTGGGCTTTGAAAAGAGTTGCTACCGACTTGTGTGGGCTTTG
1 AAAGAGTGCCACTGA-CT-TGTGGGCTTTGAAAAG-G-TGCCACTGAC-T-TGTGGGCTTTG
* *
993564 AAAAGAGTTGCTACCGACTTGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
1 -AAAGAG-TGCCACTGAC-T-TGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTG
*
993625 ACAAGAGTGCCACTGACTTGTGGGTTTTGAAAAGGTGCCACTGACTTGTGGGCTTTG
1 A-AAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTG
* * * * *
993682 AAAGGGGTGTCACTGACTTGTGGGTTTTGAAAGGGGTGCCACT-ATCTTGTGAGCTTTG
1 AAA-GAGTGCCACTGACTTGTGGGCTTTGAAA-AGGTGCCACTGA-CTTGTGGGCTTTG
* * *
993740 AAAAGAGTGCCACTAACTTGTGGGCTTTAAAAAGGTGCCACTGACTTGCGTGGACTTTG
1 -AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTT--GTGGGCTTTG
* * *
993799 AAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGGTGCCACTAACTTGTGGGCTTTG
1 AAA-GAGTGCCACTGACTTGTGGGCTTTGAAA-AGGTGCCACTGACTTGTGGGCTTTG
* * *
993857 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCTTTG
1 AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-G-TGCCACTGACT--TGTGGGCTTTG
*
993917 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
1 -AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTG
* * * * * *
993974 AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGGTGCTATTGTCTTGTGGGCTTTG
1 AAAGAGTGCCACTGACTTGTGGGCTTTGAAA-AGGTGCCACTGACTTGTGGGCTTTG
994031 AAAAGAGTGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACTGACTTGCGTGGGCTTTG
1 -AAAGAGTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTT--GTGGGCTTTG
* * * *
994090 AAAGGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTACCACTAACTTATGTGGGCTTTG
1 AAA-GAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGAC-T-TGTGGGCTTTG
* * *
994149 AAAGGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTTA
1 AAA-GAGTGCCACTGACTTGTGGGCTTTGAAAAG-G-TGCCACTGACT--TGTGGGC-TTTG
*
994211 AAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTG
* *
994268 AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTG
* *
994324 AAAGAGGTGCCACTGACTTGTGAGCTTTGAAAGGGGTGCCACTGACTTGTGGGCTTTG
1 AAAGA-GTGCCACTGACTTGTGGGCTTTGAAA-AGGTGCCACTGACTTGTGGGCTTTG
994382 AAAGAGTGCCACTGACTTGTGGGCTTTGAAA
1 AAAGAGTGCCACTGACTTGTGGGCTTTGAAA
994413 GGGTTTGAAC
Statistics
Matches: 847, Mismatches: 78, Indels: 92
0.83 0.08 0.09
Matches are distributed among these distances:
56 65 0.08
57 228 0.27
58 170 0.20
59 138 0.16
60 67 0.08
61 98 0.12
62 28 0.03
63 19 0.02
64 34 0.04
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.29
Consensus pattern (56 bp):
AAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTG
Found at i:995635 original size:1 final size:1
Alignment explanation
Indices: 995629--995693 Score: 58
Period size: 1 Copynumber: 65.0 Consensus size: 1
995619 GACCCTTCTA
* * * * * * * *
995629 TTTTTTTTCTATTTTTTCTTGTTTTTTTTTGTTTTTTTGTTTTGTTTTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
995694 GGTGTAAAGG
Statistics
Matches: 48, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.02, C:0.03, G:0.08, T:0.88
Consensus pattern (1 bp):
T
Found at i:995692 original size:10 final size:10
Alignment explanation
Indices: 995629--995692 Score: 65
Period size: 10 Copynumber: 5.9 Consensus size: 10
995619 GACCCTTCTA
*
995629 TTTTTTTTCTA
1 TTTTTTTT-TG
*
995640 TTTTTTCTTG
1 TTTTTTTTTG
995650 TTTTTTTTTG
1 TTTTTTTTTG
995660 TTTTTTTGTTTTG
1 --TTTTT-TTTTG
995673 TTTTTTTTTTG
1 -TTTTTTTTTG
995684 TTTTTTTTT
1 TTTTTTTTT
995693 TGGTGTAAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
10 19 0.40
11 12 0.26
12 11 0.23
13 5 0.11
ACGTcount: A:0.02, C:0.03, G:0.08, T:0.88
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:995694 original size:11 final size:11
Alignment explanation
Indices: 995629--995694 Score: 80
Period size: 12 Copynumber: 5.8 Consensus size: 11
995619 GACCCTTCTA
*
995629 TTTTTTTTCTAT
1 TTTTTTTTGT-T
*
995641 TTTTTCTTG-T
1 TTTTTTTTGTT
995651 TTTTTTTTGTTT
1 TTTTTTTTG-TT
995663 TTTTGTTTTGTT
1 TTTT-TTTTGTT
995675 TTTTTTTTGTT
1 TTTTTTTTGTT
995686 TTTTTTTTG
1 TTTTTTTTG
995695 GTGTAAAGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
10 9 0.19
11 16 0.33
12 18 0.38
13 5 0.10
ACGTcount: A:0.02, C:0.03, G:0.09, T:0.86
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:1005397 original size:21 final size:21
Alignment explanation
Indices: 1005373--1005419 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1005363 AAATAATGGG
* *
1005373 AATGAATAGCAAGAAAAAAAA
1 AATGAACAGAAAGAAAAAAAA
* *
1005394 AATGAACATAAATAAAAAAAA
1 AATGAACAGAAAGAAAAAAAA
1005415 AATGA
1 AATGA
1005420 CCCTTCCTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.72, C:0.04, G:0.11, T:0.13
Consensus pattern (21 bp):
AATGAACAGAAAGAAAAAAAA
Found at i:1009677 original size:20 final size:19
Alignment explanation
Indices: 1009648--1009722 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
1009638 AAAAAGACAT
1009648 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
1009667 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
1009688 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
1009708 AATGTATCGATACAT
1 AATGTATCGATACAT
1009723 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:1009705 original size:40 final size:39
Alignment explanation
Indices: 1009645--1009722 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
1009635 GGTAAAAAGA
*
1009645 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1009684 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1009723 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1010642 original size:16 final size:17
Alignment explanation
Indices: 1010612--1010647 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1010602 TTGTTGTATT
1010612 TTTTATAAGTATTTTGA
1 TTTTATAAGTATTTTGA
*
1010629 TTTTATAA-TATTTTTA
1 TTTTATAAGTATTTTGA
1010645 TTT
1 TTT
1010648 AATTTATTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTTATAAGTATTTTGA
Found at i:1011390 original size:26 final size:28
Alignment explanation
Indices: 1011349--1011400 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
1011339 ATGTATTATT
1011349 TTTTATTATTTATTATAGATG-CATAAC
1 TTTTATTATTTATTATAGATGTCATAAC
* *
1011376 TTTT-TTATTTTTTATATATGTCATA
1 TTTTATTATTTATTATAGATGTCATA
1011401 CGTACCTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (28 bp):
TTTTATTATTTATTATAGATGTCATAAC
Found at i:1012250 original size:26 final size:26
Alignment explanation
Indices: 1012192--1012242 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
1012182 TTTATAGAGA
** *
1012192 TAGGATTGATAAAGTTTAACTTTATC
1 TAGGATTTCTAAAGTTGAACTTTATC
1012218 TAGGATTTCTAAAGTTGAACTTTAT
1 TAGGATTTCTAAAGTTGAACTTTAT
1012243 TTGGGATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (26 bp):
TAGGATTTCTAAAGTTGAACTTTATC
Found at i:1016772 original size:26 final size:25
Alignment explanation
Indices: 1016697--1016773 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 25
1016687 TATAAAGATA
* **
1016697 GGATTAATAAAGTTTAACTTTATAAG
1 GGATT-ATAAAGTTCAACTTTATCTG
*
1016723 GGATTGATGAAGTTCAACTTTATCTG
1 GGATT-ATAAAGTTCAACTTTATCTG
*
1016749 GGATTACTAAAGTTGAACTTTATCT
1 GGATTA-TAAAGTTCAACTTTATCT
1016774 TAGATTCTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 1 0.02
26 42 0.98
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (25 bp):
GGATTATAAAGTTCAACTTTATCTG
Found at i:1020082 original size:17 final size:17
Alignment explanation
Indices: 1020060--1020105 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
1020050 TTTTAAAATT
1020060 TTTAGGTCATTTTTCGG
1 TTTAGGTCATTTTTCGG
* *
1020077 TTTAGGT-AATTTTGGG
1 TTTAGGTCATTTTTCGG
*
1020093 TTCAGGTCATTTT
1 TTTAGGTCATTTT
1020106 GGATTCGGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.15, C:0.09, G:0.24, T:0.52
Consensus pattern (17 bp):
TTTAGGTCATTTTTCGG
Found at i:1020118 original size:16 final size:16
Alignment explanation
Indices: 1020085--1020131 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
1020075 GGTTTAGGTA
1020085 ATTTTGGGTTCAGG-TC
1 ATTTTGGGTTC-GGATC
*
1020101 ATTTTGGATTCGGATC
1 ATTTTGGGTTCGGATC
1020117 ATTTTGGGTTCGGAT
1 ATTTTGGGTTCGGAT
1020132 TGCTTTAGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 2 0.07
16 26 0.93
ACGTcount: A:0.15, C:0.11, G:0.30, T:0.45
Consensus pattern (16 bp):
ATTTTGGGTTCGGATC
Found at i:1020233 original size:22 final size:22
Alignment explanation
Indices: 1020173--1020245 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
1020163 CTCGGGTTAA
* * *
1020173 TTAGGTTCAGGTCATTCTGGAT
1 TTAGGTTCAAGTCATTTTAGAT
* *
1020195 TCAAGTTCAAGTCATTTTAGAT
1 TTAGGTTCAAGTCATTTTAGAT
*
1020217 TTAGGTTCAAGTCATTTTAGGT
1 TTAGGTTCAAGTCATTTTAGAT
1020239 TTAGGTT
1 TTAGGTT
1020246 TGAGTCAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.23, C:0.11, G:0.22, T:0.44
Consensus pattern (22 bp):
TTAGGTTCAAGTCATTTTAGAT
Found at i:1020251 original size:22 final size:22
Alignment explanation
Indices: 1020173--1020262 Score: 85
Period size: 22 Copynumber: 4.1 Consensus size: 22
1020163 CTCGGGTTAA
* *
1020173 TTAGGTTCAGGTCATTCT-GGAT
1 TTAGGTTCAAGTCATTTTAGG-T
* * *
1020195 TCAAGTTCAAGTCATTTTAGAT
1 TTAGGTTCAAGTCATTTTAGGT
1020217 TTAGGTTCAAGTCATTTTAGGT
1 TTAGGTTCAAGTCATTTTAGGT
** *
1020239 TTAGGTTTGAGTCA-ATTAGGT
1 TTAGGTTCAAGTCATTTTAGGT
1020260 TTA
1 TTA
1020263 ACAATTGAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
21 9 0.16
22 46 0.82
23 1 0.02
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.43
Consensus pattern (22 bp):
TTAGGTTCAAGTCATTTTAGGT
Found at i:1021049 original size:32 final size:33
Alignment explanation
Indices: 1020981--1021076 Score: 97
Period size: 32 Copynumber: 2.9 Consensus size: 33
1020971 TTGTTTGCGT
* * * * *
1020981 CATTTCGAGTTCAGATCATTTT-GGATTCGAGT
1 CATTTCGAGTTCGGGTCATTTTGGGTTTAGAGC
1021013 CATTTCGAGTTCGGGTCATTTTGGGTTTAG-GC
1 CATTTCGAGTTCGGGTCATTTTGGGTTTAGAGC
* * *
1021045 CATTTCGAGTTTGGGTTATTTTCGAGTTTAGA
1 CATTTCGAGTTCGGGTCATTTT-GGGTTTAGA
1021077 TCAGTCGATT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
32 41 0.77
33 12 0.23
ACGTcount: A:0.18, C:0.14, G:0.26, T:0.43
Consensus pattern (33 bp):
CATTTCGAGTTCGGGTCATTTTGGGTTTAGAGC
Found at i:1021056 original size:16 final size:16
Alignment explanation
Indices: 1020979--1021075 Score: 61
Period size: 16 Copynumber: 6.0 Consensus size: 16
1020969 AATTGTTTGC
*
1020979 GTCATTTCGAGTTCAG
1 GTCATTTCGAGTTTAG
* * * *
1020995 ATCATTTTG-GATTCG
1 GTCATTTCGAGTTTAG
**
1021010 AGTCATTTCGAGTTCGG
1 -GTCATTTCGAGTTTAG
* *
1021027 GTCATTTTGGGTTTAG
1 GTCATTTCGAGTTTAG
* *
1021043 GCCATTTCGAGTTTGG
1 GTCATTTCGAGTTTAG
*
1021059 GTTATTTTCGAGTTTAG
1 GTCA-TTTCGAGTTTAG
1021076 ATCAGTCGAT
Statistics
Matches: 57, Mismatches: 21, Indels: 5
0.69 0.25 0.06
Matches are distributed among these distances:
15 3 0.05
16 40 0.70
17 14 0.25
ACGTcount: A:0.16, C:0.13, G:0.27, T:0.43
Consensus pattern (16 bp):
GTCATTTCGAGTTTAG
Found at i:1022672 original size:20 final size:20
Alignment explanation
Indices: 1022647--1022700 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
1022637 GTTACAAGTA
*
1022647 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
*
1022667 ATGTATCGATATAATGTACC
1 ATGTATCGATACAATGTACC
*
1022687 ATATATCGATACAA
1 ATGTATCGATACAA
1022701 ATAGTGGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1024619 original size:18 final size:19
Alignment explanation
Indices: 1024591--1024628 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
1024581 AAAAATAATT
*
1024591 AAAATACAACATAATACAA
1 AAAATACAACACAATACAA
1024610 AAAATA-AACACAATACAA
1 AAAATACAACACAATACAA
1024628 A
1 A
1024629 TACACAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.71, C:0.16, G:0.00, T:0.13
Consensus pattern (19 bp):
AAAATACAACACAATACAA
Found at i:1024765 original size:20 final size:19
Alignment explanation
Indices: 1024713--1024768 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
1024703 TTAAAAATTA
*
1024713 ATTTTATATAACAAAT-TA-
1 ATTTTATA-AATAAATATAG
*
1024731 ATTTTATATATAAATATAG
1 ATTTTATAAATAAATATAG
1024750 ATTTTAATAAATAAATATA
1 ATTTT-ATAAATAAATATA
1024769 TTAAAAGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 5 0.16
18 10 0.31
19 5 0.16
20 12 0.38
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
ATTTTATAAATAAATATAG
Found at i:1024974 original size:17 final size:16
Alignment explanation
Indices: 1024954--1024989 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1024944 GCCCGAACTC
*
1024954 AAAAAACTTAAACCTG
1 AAAAAACTCAAACCTG
*
1024970 AAAAAACTCGAACCTG
1 AAAAAACTCAAACCTG
1024986 AAAA
1 AAAA
1024990 GCTCGAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.58, C:0.19, G:0.08, T:0.14
Consensus pattern (16 bp):
AAAAAACTCAAACCTG
Found at i:1025011 original size:16 final size:15
Alignment explanation
Indices: 1024964--1025012 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
1024954 AAAAAACTTA
*
1024964 AACCTGAAAAAACTCG
1 AACCTG-AAAAGCTCG
1024980 AACCTGAAAAGCTCG
1 AACCTGAAAAGCTCG
*
1024995 AACTTGAAAAGGCTCG
1 AACCTGAAAA-GCTCG
1025011 AA
1 AA
1025013 GCCAAATAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 17 0.57
16 13 0.43
ACGTcount: A:0.45, C:0.22, G:0.18, T:0.14
Consensus pattern (15 bp):
AACCTGAAAAGCTCG
Found at i:1027964 original size:18 final size:17
Alignment explanation
Indices: 1027923--1027976 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
1027913 TATATTTAAA
*
1027923 TTTAATTATAATAATAT
1 TTTAAATATAATAATAT
1027940 TTTAAATATACATAA-AT
1 TTTAAATATA-ATAATAT
* *
1027957 TTTAAAATTTAAAAATAT
1 TTT-AAATATAATAATAT
1027975 TT
1 TT
1027977 ATATTAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 17 0.55
18 14 0.45
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTAAATATAATAATAT
Found at i:1029526 original size:20 final size:21
Alignment explanation
Indices: 1029503--1029548 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
1029493 AAAATGCATT
* *
1029503 TGTATCT-ATACAATTGCAAA
1 TGTATCTAAAACAATCGCAAA
1029523 TGTAT-TAAAACAATCGCAAA
1 TGTATCTAAAACAATCGCAAA
1029543 TGTATC
1 TGTATC
1029549 GATATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (21 bp):
TGTATCTAAAACAATCGCAAA
Found at i:1032530 original size:13 final size:13
Alignment explanation
Indices: 1032512--1032537 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1032502 ACATTTTGGG
1032512 ATGTATCGATACA
1 ATGTATCGATACA
1032525 ATGTATCGATACA
1 ATGTATCGATACA
1032538 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1032532 original size:33 final size:32
Alignment explanation
Indices: 1032490--1032557 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
1032480 CGTTACAAGC
*
1032490 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGG-TGTATCGATA
* *
1032523 CAATGTATCGATACATATTGTGTGTATTGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
1032555 CAA
1 CAA
1032558 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:1032645 original size:20 final size:21
Alignment explanation
Indices: 1032598--1032650 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1032588 GCCAATCACC
*
1032598 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
1032619 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
1032639 TGTATCGATACA
1 TGTATCGATACA
1032651 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:1033281 original size:16 final size:16
Alignment explanation
Indices: 1033257--1033288 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1033247 CTTTAATAAA
*
1033257 GCAATTTAACAATTTC
1 GCAAATTAACAATTTC
1033273 GCAAATTAACAATTTC
1 GCAAATTAACAATTTC
1033289 TTTTAATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (16 bp):
GCAAATTAACAATTTC
Found at i:1034695 original size:21 final size:21
Alignment explanation
Indices: 1034666--1034706 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1034656 TATGAGTGTG
*
1034666 GGGGCTGCCCGGTTGCGACCTA
1 GGGGCTG-CCGGTCGCGACCTA
1034688 GGGG-TGCCGGTCGCGACCT
1 GGGGCTGCCGGTCGCGACCT
1034707 GGTGAGTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 2 0.11
22 4 0.22
ACGTcount: A:0.07, C:0.32, G:0.44, T:0.17
Consensus pattern (21 bp):
GGGGCTGCCGGTCGCGACCTA
Found at i:1041429 original size:20 final size:21
Alignment explanation
Indices: 1041382--1041434 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1041372 GCCAATCACC
*
1041382 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
1041403 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
1041423 TGTATCGATACA
1 TGTATCGATACA
1041435 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:1041440 original size:13 final size:13
Alignment explanation
Indices: 1041422--1041446 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1041412 ACATTTGGTC
1041422 ATGTATCGATACA
1 ATGTATCGATACA
1041435 ATGTATCGATAC
1 ATGTATCGATAC
1041447 TGTACATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1041506 original size:20 final size:20
Alignment explanation
Indices: 1041435--1041490 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
1041425 TATCGATACA
1041435 ATGTATCGATACTGTACATT
1 ATGTATCGATACTGTACATT
*
1041455 TTGTATCGATACTGTACATT
1 ATGTATCGATACTGTACATT
1041475 ATGTATCGATACTGTA
1 ATGTATCGATACTGTA
1041491 GAAGGTGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACTGTACATT
Found at i:1042751 original size:58 final size:59
Alignment explanation
Indices: 1042604--1042908 Score: 207
Period size: 58 Copynumber: 5.3 Consensus size: 59
1042594 TTCATACATA
** * * ** *
1042604 TTAGGGATCATTATCCAAATTCATGCATTTTAGG-GTCATATTAGTTATTTTTCCTAAT
1 TTAGGGATCATTATGTAAATTTATGCATTTTAGGAGTCATATTAGTCATTTTTTATGAT
* * *** * * *
1042662 TTAGAGGCT-ATTATGTAATTTTATATGTTTTAGGACT-ATTTTAATCATTTTTTATGAT
1 TTAG-GGATCATTATGTAAATTTATGCATTTTAGGAGTCATATTAGTCATTTTTTATGAT
* * *
1042720 TTAGGGATCATTATGTAAATTTATGCATTTTA-AAGTCATATTAGTCGTTTTTCATGAT
1 TTAGGGATCATTATGTAAATTTATGCATTTTAGGAGTCATATTAGTCATTTTTTATGAT
* * * * * * *
1042778 TTATGTA-CTGTTATGT-AATTTCATGCATTTTATGA-TTATTTTAGTAATTTTTTATGAT
1 TTAGGGATC-ATTATGTAAATTT-ATGCATTTTAGGAGTCATATTAGTCATTTTTTATGAT
** * * * * *
1042836 TTAAAGACCACTATAT-AATTTCATGTATTTTAGG-GTCATATTAGT-AGTTTTTTGTGAT
1 TTAGGGATCATTATGTAAATTT-ATGCATTTTAGGAGTCATATTAGTCA-TTTTTTATGAT
1042894 TTAGGGATCATTATG
1 TTAGGGATCATTATG
1042909 CCAATTTAAG
Statistics
Matches: 186, Mismatches: 51, Indels: 20
0.72 0.20 0.08
Matches are distributed among these distances:
57 12 0.06
58 168 0.90
59 6 0.03
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (59 bp):
TTAGGGATCATTATGTAAATTTATGCATTTTAGGAGTCATATTAGTCATTTTTTATGAT
Found at i:1042809 original size:116 final size:115
Alignment explanation
Indices: 1042604--1042897 Score: 297
Period size: 116 Copynumber: 2.5 Consensus size: 115
1042594 TTCATACATA
** * * *
1042604 TTAGGGATCATTATCCAAATTCATGCATTTTAGGGTCATATTAGTTA-TTTTTCCTAATTTAGAG
1 TTAGGGATCATTATATAAATTTATGCATTTTAGGGTCATATTAG-TAGTTTTTCATGATTTAGA-
* ** *
1042668 GCTATTATGTAATTTTATATGTTTTAGGACTATTTTAATCATTTTTTATGAT
64 GCTATTATGTAATTTCATACATTTTAGGACTATTTTAATAATTTTTTATGAT
* ** *
1042720 TTAGGGATCATTATGTAAATTTATGCATTTTAAAGTCATATTAGTCGTTTTTCATGATTTATGTA
1 TTAGGGATCATTATATAAATTTATGCATTTTAGGGTCATATTAGTAGTTTTTCATGATTTA-G-A
* * * * *
1042785 -CTGTTATGTAATTTCATGCATTTTATGATTATTTTAGTAATTTTTTATGAT
64 GCTATTATGTAATTTCATACATTTTAGGACTATTTTAATAATTTTTTATGAT
** * * * **
1042836 TTAAAGACCACTATAT-AATTTCATGTATTTTAGGGTCATATTAGTAGTTTTTTGTGATTTAG
1 TTAGGGATCATTATATAAATTT-ATGCATTTTAGGGTCATATTAGTAGTTTTTCATGATTTAG
1042898 GGATCATTAT
Statistics
Matches: 146, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
115 7 0.05
116 137 0.94
117 1 0.01
118 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.14, T:0.50
Consensus pattern (115 bp):
TTAGGGATCATTATATAAATTTATGCATTTTAGGGTCATATTAGTAGTTTTTCATGATTTAGAGC
TATTATGTAATTTCATACATTTTAGGACTATTTTAATAATTTTTTATGAT
Found at i:1044417 original size:3 final size:3
Alignment explanation
Indices: 1044409--1044441 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
1044399 AGGATGGAAA
1044409 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
1044442 ACACAATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:1044553 original size:15 final size:16
Alignment explanation
Indices: 1044535--1044564 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1044525 ATAAAGAGAA
1044535 TATTAAAAAG-AAAGG
1 TATTAAAAAGCAAAGG
1044550 TATTAAAAAGCAAAG
1 TATTAAAAAGCAAAG
1044565 AAAGAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (16 bp):
TATTAAAAAGCAAAGG
Found at i:1044582 original size:18 final size:18
Alignment explanation
Indices: 1044554--1044597 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
1044544 GAAAGGTATT
1044554 AAAAAGCAAA-GAAAGAAGA
1 AAAAAG-AAAGGAAAGAA-A
*
1044573 AAAAAGAAAGGAAAGGAA
1 AAAAAGAAAGGAAAGAAA
1044591 AAAAAGA
1 AAAAAGA
1044598 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAGGAAAGAAA
Found at i:1044607 original size:13 final size:12
Alignment explanation
Indices: 1044589--1044613 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1044579 AAAGGAAAGG
1044589 AAAAAAAGATTT
1 AAAAAAAGATTT
1044601 AAAAAAAGATTT
1 AAAAAAAGATTT
1044613 A
1 A
1044614 TGTATTAATG
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAAAAAGATTT
Found at i:1045623 original size:3 final size:3
Alignment explanation
Indices: 1045615--1045651 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
1045605 ATTCTATCAT
1045615 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1045652 ATGATTAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1045718 original size:6 final size:6
Alignment explanation
Indices: 1045708--1045748 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
1045698 TAGGCCGCCA
* *
1045708 TTCTAA TTCTAA TTCTAG TTCTAG TTCTAG TTCTAG TTCTA
1 TTCTAG TTCTAG TTCTAG TTCTAG TTCTAG TTCTAG TTCTA
1045749 CTTATATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.22, C:0.17, G:0.10, T:0.51
Consensus pattern (6 bp):
TTCTAG
Found at i:1046664 original size:23 final size:19
Alignment explanation
Indices: 1046624--1046660 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1046614 GTAGATTTGT
1046624 TAGTTACTGCATTATTTTA
1 TAGTTACTGCATTATTTTA
1046643 TAGTTACTGCATTATTTT
1 TAGTTACTGCATTATTTT
1046661 TTTTGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.54
Consensus pattern (19 bp):
TAGTTACTGCATTATTTTA
Found at i:1051049 original size:19 final size:19
Alignment explanation
Indices: 1051017--1051079 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 19
1051007 GTTGTAAAGT
1051017 TATTTTTTAGTTTTTAAAAAA
1 TATTTTTT--TTTTTAAAAAA
1051038 TATTTTTTTTTTTAAGTAAAA
1 TATTTTTTTTTTTAA--AAAA
*
1051059 TATATTTTTTTAATTAAAAAA
1 TAT-TTTTTTT-TTTAAAAAA
1051080 AATTCAAACC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
19 7 0.19
21 19 0.51
22 7 0.19
23 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (19 bp):
TATTTTTTTTTTTAAAAAA
Found at i:1051075 original size:23 final size:23
Alignment explanation
Indices: 1051031--1051082 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1051021 TTTTAGTTTT
**
1051031 TAAAAAATATTTTTTTTTTTAAG
1 TAAAAAATATTTTTTTAATTAAG
*
1051054 TAAAATATATTTTTTTAATTAA-
1 TAAAAAATATTTTTTTAATTAAG
1051076 -AAAAAAT
1 TAAAAAAT
1051083 TCAAACCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 6 0.24
23 19 0.76
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TAAAAAATATTTTTTTAATTAAG
Found at i:1051146 original size:19 final size:17
Alignment explanation
Indices: 1051117--1051161 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
1051107 TATAAAGCTC
*
1051117 AATTTAATTAGATTAAATT
1 AATTCAATTAGA-TAAA-T
*
1051136 TATTCAATTAGATAAAT
1 AATTCAATTAGATAAAT
1051153 AATTCAATT
1 AATTCAATT
1051162 CTTATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 4 0.17
19 10 0.43
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (17 bp):
AATTCAATTAGATAAAT
Found at i:1051412 original size:19 final size:20
Alignment explanation
Indices: 1051390--1051433 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
1051380 ATATTATGTG
1051390 ATAATATAAATATTA-AAAA
1 ATAATATAAATATTATAAAA
*
1051409 ATAATTTAAATATTATAAAA
1 ATAATATAAATATTATAAAA
1051429 A-AATA
1 ATAATA
1051434 AATTACACTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATATAAATATTATAAAA
Found at i:1051608 original size:23 final size:24
Alignment explanation
Indices: 1051582--1051633 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 24
1051572 CATCACCATC
* *
1051582 TTTTAAATTGTTTA-AATAAATTA
1 TTTTAAATTATTTATAATAAAATA
1051605 TTTT--ATTATTTATAATAAAATA
1 TTTTAAATTATTTATAATAAAATA
1051627 TTTTAAA
1 TTTTAAA
1051634 ATAATACTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 7 0.29
22 12 0.50
23 4 0.17
24 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTTAAATTATTTATAATAAAATA
Found at i:1054383 original size:27 final size:30
Alignment explanation
Indices: 1054353--1054426 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
1054343 AATAATTATG
1054353 TTTAAAATATT-TTA-TAT-TTAAATAAAT
1 TTTAAAATATTATTATTATATTAAATAAAT
*
1054380 TTTAAAATATTAATTATTTATATTATATAAAT
1 TTTAAAATATT-ATTA-TTATATTAAATAAAT
1054412 TTTAAAATATATATT
1 TTTAAAATAT-TATT
1054427 TATGTTATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 11 0.28
29 3 0.08
31 3 0.08
32 22 0.55
33 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTAAAATATTATTATTATATTAAATAAAT
Found at i:1054412 original size:18 final size:17
Alignment explanation
Indices: 1054390--1054441 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
1054380 TTTAAAATAT
1054390 TAATTATTTATATTATA
1 TAATTATTTATATTATA
* * *
1054407 TAAAT-TTTAAAATATA
1 TAATTATTTATATTATA
*
1054423 TATTTATGTTATATTATA
1 TAATTAT-TTATATTATA
1054441 T
1 T
1054442 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
16 12 0.46
17 5 0.19
18 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TAATTATTTATATTATA
Found at i:1054413 original size:32 final size:33
Alignment explanation
Indices: 1054363--1054441 Score: 115
Period size: 32 Copynumber: 2.4 Consensus size: 33
1054353 TTTAAAATAT
*
1054363 TTTATATTTAAATAAATTTTAAAATAT-TAATTA
1 TTTATA-TTATATAAATTTTAAAATATATAATTA
*
1054396 TTTATATTATATAAATTTTAAAATATATATTTA
1 TTTATATTATATAAATTTTAAAATATATAATTA
1054429 TGTTATATTATAT
1 T-TTATATTATAT
1054442 TTTAATTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
32 19 0.45
33 12 0.29
34 11 0.26
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (33 bp):
TTTATATTATATAAATTTTAAAATATATAATTA
Found at i:1054422 original size:16 final size:16
Alignment explanation
Indices: 1054374--1054424 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
1054364 TTATATTTAA
1054374 ATAAATTTTAAAATAT
1 ATAAATTTTAAAATAT
* * *
1054390 -TAATTATTTATATTAT
1 ATAAAT-TTTAAAATAT
1054406 ATAAATTTTAAAATAT
1 ATAAATTTTAAAATAT
1054422 ATA
1 ATA
1054425 TTTATGTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 4 0.15
16 19 0.70
17 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATAAATTTTAAAATAT
Done.