Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 141 of 185
Found at i:42899589 original size:24 final size:23
Alignment explanation
Indices: 42899546--42899590 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
42899536 TAAAAACCCT
*
42899546 AAACACTAACCTAATTTAATTAA
1 AAACACTAACCTAATCTAATTAA
*
42899569 AAACCCTAACCCTAATCTAATT
1 AAACACTAA-CCTAATCTAATT
42899591 TAATTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (23 bp):
AAACACTAACCTAATCTAATTAA
Found at i:42899618 original size:59 final size:59
Alignment explanation
Indices: 42899526--42899822 Score: 411
Period size: 59 Copynumber: 4.8 Consensus size: 59
42899516 AATTAAAATC
*
42899526 CTAATTTAATTAAAAACCCTAAACACTAACCTAATTTAATTAAAAACCCT-AACCCTAA
1 CTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
*
42899584 TCTAATTTAATTAAAACCCTAAATCCTAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAA
1 -CTAATTTAATT--AA----AAACCCT-A----AACCCTAACCTAATTTAATTAAAAACCCTAAA
42899649 CCCTAA
54 CCCTAA
42899655 CTTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
1 C-TAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
42899714 CTTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
1 C-TAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
*
42899773 CCTAATTTAATTAAAAACCATAAACCCTAACCTAATTTAATTAAAAACCC
1 -CTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCC
42899823 CCAAACTTGT
Statistics
Matches: 219, Mismatches: 4, Indels: 29
0.87 0.02 0.12
Matches are distributed among these distances:
59 126 0.58
60 29 0.13
61 2 0.01
65 12 0.05
66 1 0.00
69 2 0.01
70 29 0.13
71 18 0.08
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (59 bp):
CTAATTTAATTAAAAACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA
Found at i:42899630 original size:41 final size:42
Alignment explanation
Indices: 42899570--42899655 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 42
42899560 TTTAATTAAA
* *
42899570 AACCCTAACCCTAATCTAATTTAATT-AAAACCCTAAATCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
42899611 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
42899653 AAC
1 AAC
42899656 TTAATTTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
41 25 0.60
42 17 0.40
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (42 bp):
AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
Found at i:42899731 original size:89 final size:89
Alignment explanation
Indices: 42899611--42899822 Score: 374
Period size: 89 Copynumber: 2.4 Consensus size: 89
42899601 CCTAAATCCT
*
42899611 AACCCT-AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAACTTAATTTAATTAAAAACCC
1 AACCCTAAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCC
42899675 T-AACCCTAACCTAATTTAATTAAA
65 TAAACCCTAACCTAATTTAATTAAA
*
42899699 AACCCTAAACCCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
42899764 AAACCCTAACCTAATTTAATTAAA
66 AAACCCTAACCTAATTTAATTAAA
*
42899788 AACCATAAACCCTAACCTAATTTAATTAAAAACCC
1 AACCCTAAACCCTAACCTAATTTAATTAAAAACCC
42899823 CCAAACTTGT
Statistics
Matches: 118, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
88 34 0.29
89 84 0.71
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.27
Consensus pattern (89 bp):
AACCCTAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
AAACCCTAACCTAATTTAATTAAA
Found at i:42900825 original size:123 final size:124
Alignment explanation
Indices: 42900605--42900883 Score: 517
Period size: 123 Copynumber: 2.3 Consensus size: 124
42900595 CCACGAGGGT
42900605 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATGACCAATTGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATGACCAATTGTAGCG
*
42900670 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCTTGGTAGAA
66 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
42900729 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAA-TTATTTCTTACATGACCAATTGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATGACCAATTGTAGCG
42900793 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
66 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
*
42900852 GCGATTTTATACTATTTGAC-CAGAAATGTCAA
1 GCGATTTTATACTATTTG-CTCAGAAACGTCAA
42900884 CTCGAAATAA
Statistics
Matches: 152, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
123 114 0.75
124 38 0.25
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (124 bp):
GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTACATGACCAATTGTAGCG
AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:42906516 original size:13 final size:13
Alignment explanation
Indices: 42906498--42906524 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42906488 CCAGATGATA
42906498 ATAAGGAGTATAT
1 ATAAGGAGTATAT
42906511 ATAAGGAGTATAT
1 ATAAGGAGTATAT
42906524 A
1 A
42906525 GTTAATGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (13 bp):
ATAAGGAGTATAT
Found at i:42906907 original size:18 final size:18
Alignment explanation
Indices: 42906871--42906945 Score: 50
Period size: 18 Copynumber: 4.1 Consensus size: 18
42906861 AGATAAGTAC
*
42906871 AAAAGTATAAAAACT-TTA
1 AAAATTATAAAAA-TATTA
42906889 AAAATTATAAAAATATTA
1 AAAATTATAAAAATATTA
*
42906907 ATAATCATT-TAAAAATTTTA
1 A-AA--ATTATAAAAATATTA
*
42906927 AATA-TATTAAAAA-ATTA
1 AAAATTA-TAAAAATATTA
42906944 AA
1 AA
42906946 TTTTAGTAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
16 1 0.02
17 7 0.15
18 22 0.47
19 3 0.06
20 11 0.23
21 3 0.06
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (18 bp):
AAAATTATAAAAATATTA
Found at i:42908116 original size:22 final size:21
Alignment explanation
Indices: 42908087--42908128 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
42908077 TTATTTTATA
**
42908087 ATTTTTAATTTTTTTAAAAAT
1 ATTTTTAATCATTTTAAAAAT
42908108 ATTTATTAATCATTTTAAAAA
1 ATTT-TTAATCATTTTAAAAA
42908129 ATTAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTTAATCATTTTAAAAAT
Found at i:42912463 original size:21 final size:21
Alignment explanation
Indices: 42912438--42912493 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
42912428 AATAGCGGTG
*
42912438 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
42912459 TCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
42912480 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
42912494 AACAATGGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.09, G:0.36, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:42912698 original size:30 final size:30
Alignment explanation
Indices: 42912661--42912817 Score: 242
Period size: 30 Copynumber: 5.2 Consensus size: 30
42912651 ATTCATTTAA
*
42912661 TAAAATACACTACATATATTTTTTTATTTC
1 TAAAATACACTACATATATTTTTTTATTTT
*
42912691 TAGAATACACTACATATATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
*
42912721 GAAAATACACTACATATATTTTTTTTATTTT
1 TAAAATACACTACATATA-TTTTTTTATTTT
* *
42912752 TAAAATACACCACATGTATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
* *
42912782 TAAAATCCATTACATATATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
42912812 TAAAAT
1 TAAAAT
42912818 TTTAAATACA
Statistics
Matches: 115, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
30 88 0.77
31 27 0.23
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.52
Consensus pattern (30 bp):
TAAAATACACTACATATATTTTTTTATTTT
Found at i:42912773 original size:61 final size:60
Alignment explanation
Indices: 42912662--42912817 Score: 240
Period size: 61 Copynumber: 2.6 Consensus size: 60
42912652 TTCATTTAAT
* * *
42912662 AAAATACACTACATATATTTTTTTATTTCTAGAATACACTACATATATTTTTTTATTTTG
1 AAAATACACTACATATATTTTTTTATTTTTAAAATACACCACATATATTTTTTTATTTTG
* *
42912722 AAAATACACTACATATATTTTTTTTATTTTTAAAATACACCACATGTATTTTTTTATTTTT
1 AAAATACACTACATATA-TTTTTTTATTTTTAAAATACACCACATATATTTTTTTATTTTG
* *
42912783 AAAATCCATTACATATATTTTTTTATTTTTAAAAT
1 AAAATACACTACATATATTTTTTTATTTTTAAAAT
42912818 TTTAAATACA
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
60 35 0.40
61 53 0.60
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (60 bp):
AAAATACACTACATATATTTTTTTATTTTTAAAATACACCACATATATTTTTTTATTTTG
Found at i:42912862 original size:16 final size:17
Alignment explanation
Indices: 42912836--42912870 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
42912826 CAATGAAATC
42912836 CCATCTCCCCTCTTCCA
1 CCATCTCCCCTCTTCCA
42912853 CCAT-TCCCCTCTTCCA
1 CCATCTCCCCTCTTCCA
42912869 CC
1 CC
42912871 GTATCCTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.11, C:0.60, G:0.00, T:0.29
Consensus pattern (17 bp):
CCATCTCCCCTCTTCCA
Found at i:42920594 original size:12 final size:12
Alignment explanation
Indices: 42920579--42920608 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
42920569 TTTTTTTACC
42920579 TTTTTTTGT-CT
1 TTTTTTTGTCCT
42920590 TTTTTTTGTCCT
1 TTTTTTTGTCCT
42920602 TTTTTTT
1 TTTTTTT
42920609 TTGCCTCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (12 bp):
TTTTTTTGTCCT
Found at i:42922004 original size:62 final size:62
Alignment explanation
Indices: 42921900--42922016 Score: 189
Period size: 62 Copynumber: 1.9 Consensus size: 62
42921890 GACGTACTTC
* *
42921900 TGGATTTTAGGAAATTTACTGTATGCAATGAAACGTAGTGTTGATGCATGAATGCGTATTTT
1 TGGATTTTAGGAAATTTACTGCATGCAATGAAACGTAATGTTGATGCATGAATGCGTATTTT
* * *
42921962 TGGATTTTAGGAAATTTATTGCATGCGATGAAATGTAATGTTGATGCATGAATGC
1 TGGATTTTAGGAAATTTACTGCATGCAATGAAACGTAATGTTGATGCATGAATGC
42922017 AAAAAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 50 1.00
ACGTcount: A:0.30, C:0.08, G:0.25, T:0.38
Consensus pattern (62 bp):
TGGATTTTAGGAAATTTACTGCATGCAATGAAACGTAATGTTGATGCATGAATGCGTATTTT
Found at i:42925129 original size:6 final size:6
Alignment explanation
Indices: 42925118--42925155 Score: 67
Period size: 6 Copynumber: 6.2 Consensus size: 6
42925108 CGTTCCCTCC
42925118 TCCCAT TCCCAT TCCCAT TCCCAT TCCCATT TCCCAT T
1 TCCCAT TCCCAT TCCCAT TCCCAT TCCCA-T TCCCAT T
42925156 ATCAACAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.16, C:0.47, G:0.00, T:0.37
Consensus pattern (6 bp):
TCCCAT
Found at i:42926505 original size:23 final size:23
Alignment explanation
Indices: 42926479--42926527 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
42926469 ATTATAAAAA
42926479 TAAT-ATATATTAAAT-CATTAATC
1 TAATAATA-ATTAAATACATT-ATC
42926502 TAATAATAATTAAATACATTATC
1 TAATAATAATTAAATACATTATC
42926525 TAA
1 TAA
42926528 AACCTCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (23 bp):
TAATAATAATTAAATACATTATC
Found at i:42936717 original size:19 final size:20
Alignment explanation
Indices: 42936695--42936739 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
42936685 ATTTATATAC
*
42936695 ATATCAAACACA-ATTTCGA
1 ATATCAAACACATATTTCAA
* *
42936714 ATATTAATCACATATTTCAA
1 ATATCAAACACATATTTCAA
42936734 ATATCA
1 ATATCA
42936740 CCAATCAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATCAAACACATATTTCAA
Found at i:42945808 original size:21 final size:21
Alignment explanation
Indices: 42945782--42945822 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
42945772 TGGGTGGATT
42945782 AGCTCTTACGAGCTTCTGTTC
1 AGCTCTTACGAGCTTCTGTTC
* *
42945803 AGCTCTTATGAGCTTTTGTT
1 AGCTCTTACGAGCTTCTGTT
42945823 GGCGTATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.44
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTC
Found at i:42949966 original size:52 final size:48
Alignment explanation
Indices: 42949947--42950149 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
42949937 TGACAAGTGG
* *
42949947 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
42949993 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
42950045 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
42950091 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
42950137 AAAGTGATAAGTG
1 AAAGTGATAAGTG
42950150 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:42950001 original size:98 final size:98
Alignment explanation
Indices: 42949881--42950149 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
42949871 TTTGAGTACT
*
42949881 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
42949946 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
42949979 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
42950044 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
42950077 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
42950142 GATAAGTG
65 GAAAAGTG
42950150 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:42950157 original size:37 final size:37
Alignment explanation
Indices: 42950113--42950258 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
42950103 GATAGCTTTA
*
42950113 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
42950150 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
42950187 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
42950224 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
42950259 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:42951589 original size:58 final size:58
Alignment explanation
Indices: 42951512--42951679 Score: 237
Period size: 58 Copynumber: 3.0 Consensus size: 58
42951502 CATGTGAACA
42951512 TGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
1 TGTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
42951571 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATA--
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
* * *
42951627 TGTG--A--T--TT-CGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTG
1 TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
42951678 TG
1 TG
42951680 ATTACGTGTA
Statistics
Matches: 104, Mismatches: 3, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
49 38 0.37
50 2 0.02
51 2 0.02
52 1 0.01
54 1 0.01
56 4 0.04
58 51 0.49
59 5 0.05
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.33
Consensus pattern (58 bp):
TGTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATG
Found at i:42951621 original size:28 final size:28
Alignment explanation
Indices: 42951531--42951621 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
42951521 GTGATTCCGT
42951531 GTAAGACCATAGCTGGGCTATGGCATCG
1 GTAAGACCATAGCTGGGCTATGGCATCG
** * *
42951559 GTAAG-TGATATG-TGTGATATGTG-ATTCCG
1 GTAAGACCATA-GCTGGGCTATG-GCA-T-CG
42951588 TGTAAGACCATAGCTGGGCTATGGCATCG
1 -GTAAGACCATAGCTGGGCTATGGCATCG
42951617 GTAAG
1 GTAAG
42951622 TGATATGTGA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 11 0.23
28 13 0.28
29 4 0.09
30 8 0.17
31 11 0.23
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GTAAGACCATAGCTGGGCTATGGCATCG
Found at i:42951644 original size:49 final size:49
Alignment explanation
Indices: 42951572--42951714 Score: 232
Period size: 49 Copynumber: 2.9 Consensus size: 49
42951562 AGTGATATGT
* *
42951572 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
42951621 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
* *
42951670 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCG
42951715 AGAAAACGAA
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGGTAA
Found at i:42954925 original size:52 final size:48
Alignment explanation
Indices: 42954906--42955108 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
42954896 TGACAAGTGG
* *
42954906 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
42954952 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
42955004 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
42955050 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
42955096 AAAGTGATAAGTG
1 AAAGTGATAAGTG
42955109 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:42954960 original size:98 final size:98
Alignment explanation
Indices: 42954840--42955108 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
42954830 TTTGAGTACT
*
42954840 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
42954905 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
42954938 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
42955003 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
42955036 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
42955101 GATAAGTG
65 GAAAAGTG
42955109 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:42955116 original size:37 final size:37
Alignment explanation
Indices: 42955072--42955217 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
42955062 GATAGCTTTA
*
42955072 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
42955109 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
42955146 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
42955183 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
42955218 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:42964825 original size:4 final size:4
Alignment explanation
Indices: 42964816--42964849 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
42964806 CAGTACAAAC
42964816 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
42964850 TTGCAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:42969405 original size:19 final size:21
Alignment explanation
Indices: 42969362--42969406 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
42969352 TTACTTAAAT
*
42969362 TTATTTTAATTAAATAAATAA
1 TTATTTTAATGAAATAAATAA
42969383 -TATTTTAA-GAAATAAA-AA
1 TTATTTTAATGAAATAAATAA
42969401 TTATTT
1 TTATTT
42969407 GTTCAGTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 2 0.09
19 12 0.55
20 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TTATTTTAATGAAATAAATAA
Found at i:42970301 original size:88 final size:86
Alignment explanation
Indices: 42970113--42970312 Score: 235
Period size: 86 Copynumber: 2.3 Consensus size: 86
42970103 AATTTTTTTC
* * * * *
42970113 AAAAAAAAGTAATTAAG--TCTTTTTTTTTTGCACTCAGTTGGGTACTTGAACTTTCAAAATGCA
1 AAAAAAAAGTAATTAAGCCCCTTCTTTTTTTACACTCAATTGGGTACTTAAACTTTCAAAATGCA
* *
42970176 TAAAAGGCCCTCAAACCTTTT
66 TAAAAGACCCTCAAACCTTTA
* ** * * *
42970197 CACCAAAAGCAATTAAGCCCCTACTTTTTTTACACTCAATTGGGTATTTAAACTTTCAAAATGCA
1 AAAAAAAAGTAATTAAGCCCCTTCTTTTTTTACACTCAATTGGGTACTTAAACTTTCAAAATGCA
42970262 TCAAAAAGACCCTCAAA-CTTTAA
66 T--AAAAGACCCTCAAACCTTT-A
42970285 AAAAAAAAGTAATTAAGCCCCTTCTTTT
1 AAAAAAAAGTAATTAAGCCCCTTCTTTT
42970313 ATTAAAAATT
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
84 13 0.14
86 40 0.43
87 4 0.04
88 36 0.39
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (86 bp):
AAAAAAAAGTAATTAAGCCCCTTCTTTTTTTACACTCAATTGGGTACTTAAACTTTCAAAATGCA
TAAAAGACCCTCAAACCTTTA
Found at i:42970343 original size:11 final size:10
Alignment explanation
Indices: 42970315--42970366 Score: 56
Period size: 9 Copynumber: 5.5 Consensus size: 10
42970305 CTTCTTTTAT
42970315 TAAAAAT-TA
1 TAAAAATATA
*
42970324 AAAAAATATA
1 TAAAAATATA
42970334 T-AAAATATA
1 TAAAAATATA
*
42970343 TAGAAATATA
1 TAAAAATATA
*
42970353 AAAAAAT-TA
1 TAAAAATATA
42970362 TAAAA
1 TAAAA
42970367 TTTTATAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 21 0.60
10 14 0.40
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (10 bp):
TAAAAATATA
Found at i:42970662 original size:29 final size:30
Alignment explanation
Indices: 42970572--42970663 Score: 104
Period size: 29 Copynumber: 3.2 Consensus size: 30
42970562 GGGGTTGTTA
*
42970572 AATTTTTTATGATTTTT-TATAAAATTTAC
1 AATTTTTTATGATTTTTATATAAAATTTAT
* * *
42970601 AATTTTTTATGA-TTTTATAAAAAAATTCT
1 AATTTTTTATGATTTTTATATAAAATTTAT
42970630 -ATTTTTTAT-ATTTTTAT-TAAAATTTAAT
1 AATTTTTTATGATTTTTATATAAAATTT-AT
42970658 AATTTT
1 AATTTT
42970664 CTAAAATTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
27 7 0.13
28 20 0.38
29 25 0.48
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (30 bp):
AATTTTTTATGATTTTTATATAAAATTTAT
Found at i:42970688 original size:17 final size:17
Alignment explanation
Indices: 42970638--42970688 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
42970628 CTATTTTTTA
42970638 TATT-TTTATTAAAATT
1 TATTATTTATTAAAATT
*
42970654 TAATAATTT-TCTAAAATT
1 T-ATTATTTAT-TAAAATT
*
42970672 TATTATTTATTATAATT
1 TATTATTTATTAAAATT
42970689 CTTTTCTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 1 0.04
17 15 0.54
18 12 0.43
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATTTATTAAAATT
Found at i:42970817 original size:87 final size:89
Alignment explanation
Indices: 42970709--42970930 Score: 263
Period size: 88 Copynumber: 2.5 Consensus size: 89
42970699 TTTTAATAAG
* * *
42970709 AGTAGGGGCTTAATTACTTTTTTGAAAAATTTTGAGGGTCTTTTTGATGCATTTTGAGAGTTCAA
1 AGTAAGGGCTTAATTACTTTTTTGAAAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAA
42970774 GTACCCAATTGAGTG-AAAAAA-A
66 GTACCCAATTGAGTGCAAAAAAGA
* * * * **
42970796 AGTAAGGGCTTAATTGCTTTTTCTGAAGAAGTTTGAGGGCCTTTTTGATGTTTTTTGAAAGTTCA
1 AGTAAGGGCTTAATTACTTTTT-TGAAAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCA
* * *
42970861 CGTGCTCAATTGAGTGCAAAAAAGA
65 AGTACCCAATTGAGTGCAAAAAAGA
* *
42970886 AG-GAGGGACTTAATTATTTTTCTTGAAAAAATTTGAGGGT-TTTTT
1 AGTAAGGG-CTTAATTACTTTT-TTGAAAAAATTTGAGGGTCTTTTT
42970931 ACTCCTTGAA
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
87 20 0.18
88 49 0.43
89 15 0.13
90 28 0.25
91 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (89 bp):
AGTAAGGGCTTAATTACTTTTTTGAAAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAA
GTACCCAATTGAGTGCAAAAAAGA
Found at i:42973877 original size:2 final size:2
Alignment explanation
Indices: 42973870--42973897 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
42973860 GTGATACCCT
42973870 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
42973898 GTTAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:42975589 original size:60 final size:60
Alignment explanation
Indices: 42975407--42975589 Score: 185
Period size: 60 Copynumber: 3.1 Consensus size: 60
42975397 CTTTAGGATT
* * * * *
42975407 TTCAAGGACC-AAATTGGACCAAAAAAAAATTCAAGTCCCAATGTGGGAACATTTGCCAAA
1 TTCAAGG-CCTAACTTGGACCCAAAAAAAATTCAAGCCCCAATGTGGGAACAATTACCAAA
* * * ** *
42975467 TTCAAGGTCTAACTT-GA-CCAAAAAAAGTTC-AGACCCCTATGTGGGAACAATTATTAAG
1 TTCAAGGCCTAACTTGGACCCAAAAAAAATTCAAG-CCCCAATGTGGGAACAATTACCAAA
** * *
42975525 TTCAAGGCCTAACTTGGACCCAAAAAATTTTCAAGCCCCAATGTGAGAAAAATTACCAAA
1 TTCAAGGCCTAACTTGGACCCAAAAAAAATTCAAGCCCCAATGTGGGAACAATTACCAAA
42975585 TTCAA
1 TTCAA
42975590 ACCTCAAAAT
Statistics
Matches: 98, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
57 2 0.02
58 43 0.44
59 5 0.05
60 46 0.47
61 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (60 bp):
TTCAAGGCCTAACTTGGACCCAAAAAAAATTCAAGCCCCAATGTGGGAACAATTACCAAA
Found at i:42977820 original size:17 final size:17
Alignment explanation
Indices: 42977798--42977839 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
42977788 ATTAATGAGG
42977798 CACACGGTCATATGTGA
1 CACACGGTCATATGTGA
42977815 CACACGGTCATATGTGA
1 CACACGGTCATATGTGA
42977832 CACACGGT
1 CACACGGT
42977840 TGTGTGACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (17 bp):
CACACGGTCATATGTGA
Found at i:42977845 original size:15 final size:16
Alignment explanation
Indices: 42977798--42977848 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 16
42977788 ATTAATGAGG
42977798 CACACGGTCATATGTGA
1 CACACGGT-ATATGTGA
42977815 CACACGGTCATATGTGA
1 CACACGGT-ATATGTGA
*
42977832 CACACGGT-TGTGTGA
1 CACACGGTATATGTGA
42977847 CA
1 CA
42977849 GCCCGTGCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
15 8 0.24
17 25 0.76
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (16 bp):
CACACGGTATATGTGA
Found at i:42984690 original size:18 final size:19
Alignment explanation
Indices: 42984644--42984696 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
42984634 AGTCTCAACC
*
42984644 AAAAT-TTTTTAAAATAATT
1 AAAATATTTTTAAAAT-ATA
42984663 AAAATAATTTTTAAAAT-TA
1 AAAAT-ATTTTTAAAATATA
*
42984682 AAAATATTTATAAAA
1 AAAATATTTTTAAAA
42984697 ATTCCAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 9 0.30
19 11 0.37
21 10 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATATTTTTAAAATATA
Found at i:42992176 original size:14 final size:15
Alignment explanation
Indices: 42992150--42992179 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
42992140 TCAAAATATT
42992150 AAATAATTATGTTTA
1 AAATAATTATGTTTA
42992165 AAATAATT-TGTTTA
1 AAATAATTATGTTTA
42992179 A
1 A
42992180 TTTTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
AAATAATTATGTTTA
Found at i:42993549 original size:14 final size:14
Alignment explanation
Indices: 42993530--42993561 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
42993520 TCCAATCACC
42993530 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
42993544 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
42993558 GGGC
1 GGGC
42993562 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:42998675 original size:14 final size:14
Alignment explanation
Indices: 42998656--42998687 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
42998646 TCCAATCACC
42998656 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
42998670 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
42998684 GGGC
1 GGGC
42998688 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:42999711 original size:92 final size:91
Alignment explanation
Indices: 42999610--42999871 Score: 272
Period size: 93 Copynumber: 2.8 Consensus size: 91
42999600 TCTTGACATT
* *
42999610 AGACTCAAGCCCATGTGCCCCAAAAATGGAATCAAATAACTAGTAATTTGTATAACTATTATGGA
1 AGACTCAAGCCCAAGTGCCCCAAAAATGAAATCAAATAACTAGTAATTT-TATAACTATTATGGA
*
42999675 AAATTAAAAATATATTATTGCAATACC
65 AAATTAAAAATATATTATTGCAACACC
* * * * * * *
42999702 AGACTCAAGCCCAAGTGCTCCGAAAATAAAATAAAATAACTAGTAATTTTTTATAATTATTTTGA
1 AGACTCAAGCCCAAGTGCCCCAAAAATGAAATCAAATAACTAGTAA--TTTTATAACTATTATGG
* * * * * **
42999767 AAAATTAAAAAGACATTGTTGTAGCATT
64 AAAATTAAAAATATATTATTGCAACACC
* * * * * * * *
42999795 AGACTGAATCCCAAGTGCCTCAAAAATGAAATCAAATAACTAATAATCTTATAACTAGTCTAGAA
1 AGACTCAAGCCCAAGTGCCCCAAAAATGAAATCAAATAACTAGTAATTTTATAACTATTATGGAA
42999860 AATTAAAAATAT
66 AATTAAAAATAT
42999872 TTTTTAGCAC
Statistics
Matches: 135, Mismatches: 33, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
91 23 0.17
92 40 0.30
93 69 0.51
94 3 0.02
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (91 bp):
AGACTCAAGCCCAAGTGCCCCAAAAATGAAATCAAATAACTAGTAATTTTATAACTATTATGGAA
AATTAAAAATATATTATTGCAACACC
Found at i:43002461 original size:21 final size:21
Alignment explanation
Indices: 43002437--43002476 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
43002427 AACATTTTAC
43002437 TACAAAATA-AAATAAAATTAA
1 TACAAAATAGAAA-AAAATTAA
*
43002458 TACAAAGTAGAAAAAAATT
1 TACAAAATAGAAAAAAATT
43002477 GGATAAGCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
TACAAAATAGAAAAAAATTAA
Found at i:43002644 original size:6 final size:6
Alignment explanation
Indices: 43002633--43002659 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
43002623 CTACATTTAT
43002633 ATCCCC ATCCCC ATCCCC ATCCCC ATC
1 ATCCCC ATCCCC ATCCCC ATCCCC ATC
43002660 TCATATCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.63, G:0.00, T:0.19
Consensus pattern (6 bp):
ATCCCC
Found at i:43010264 original size:6 final size:6
Alignment explanation
Indices: 43010253--43010314 Score: 54
Period size: 6 Copynumber: 9.7 Consensus size: 6
43010243 TTTAGCATTT
**
43010253 TTTTAA TTTTAA TTTTAA TTTTAATA TTTTTGT TTTTAA -TTTAA TTGTTACA
1 TTTTAA TTTTAA TTTTAA TTTT-A-A -TTTTAA TTTTAA TTTTAA TT-TTA-A
43010305 TTTTAA TTTT
1 TTTTAA TTTT
43010315 TCTTTTGTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
5 5 0.11
6 26 0.57
7 7 0.15
8 4 0.09
9 4 0.09
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:43010281 original size:20 final size:20
Alignment explanation
Indices: 43010258--43010314 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
43010248 CATTTTTTTA
43010258 ATTTTAATTTTAATTTTAAT
1 ATTTTAATTTTAATTTTAAT
**
43010278 ATTTTTGTTTTTAA-TTTAAT
1 A-TTTTAATTTTAATTTTAAT
*
43010298 -TGTTACATTTTAATTTT
1 ATTTTA-ATTTTAATTTT
43010315 TCTTTTGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 3 0.10
19 6 0.21
20 10 0.34
21 10 0.34
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (20 bp):
ATTTTAATTTTAATTTTAAT
Found at i:43010282 original size:26 final size:26
Alignment explanation
Indices: 43010252--43010314 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
43010242 ATTTAGCATT
*
43010252 TTTTTAATTTTAATTTTAATT-TTAATA
1 TTTTTAATTTTAA-TTTAATTGTT-ACA
**
43010279 TTTTTGTTTTTAATTTAATTGTTACA
1 TTTTTAATTTTAATTTAATTGTTACA
43010305 -TTTTAATTTT
1 TTTTTAATTTT
43010315 TCTTTTGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
25 8 0.27
26 9 0.30
27 13 0.43
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTTTAATTTTAATTTAATTGTTACA
Found at i:43010315 original size:26 final size:27
Alignment explanation
Indices: 43010253--43010315 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
43010243 TTTAGCATTT
*
43010253 TTTTAA-TTTTAATTTTAATTTTAATA
1 TTTTAATTTTTAATTTTAATTTTAACA
**
43010279 TTTTTGTTTTTAA-TTTAATTGTT-ACA
1 TTTTAATTTTTAATTTTAATT-TTAACA
43010305 TTTTAATTTTT
1 TTTTAATTTTT
43010316 CTTTTGTTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (27 bp):
TTTTAATTTTTAATTTTAATTTTAACA
Found at i:43013161 original size:14 final size:13
Alignment explanation
Indices: 43013138--43013170 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
43013128 TTTATTTCTT
43013138 AAAAAAATAAATA
1 AAAAAAATAAATA
43013151 AAAATAAATAAATA
1 AAAA-AAATAAATA
43013165 AAAAAA
1 AAAAAA
43013171 TGGTCAACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAAATAAATA
Found at i:43013163 original size:18 final size:17
Alignment explanation
Indices: 43013137--43013170 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
43013127 TTTTATTTCT
43013137 TAAAAAAATAAATAAAAA
1 TAAAAAAATAAA-AAAAA
*
43013155 TAAATAAATAAAAAAA
1 TAAAAAAATAAAAAAA
43013171 TGGTCAACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAAAAATAAAAAAAA
Found at i:43017773 original size:15 final size:15
Alignment explanation
Indices: 43017753--43017809 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
43017743 TTAGTTTATT
*
43017753 TAATATATAACAATA
1 TAATATATAATAATA
43017768 TAATATA-ATATAATA
1 TAATATATA-ATAATA
* *
43017783 TATTATATAATAAAA
1 TAATATATAATAATA
43017798 TAATATACTAAT
1 TAATATA-TAAT
43017810 GTTTAAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 1 0.03
15 29 0.83
16 5 0.14
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATATATAATAATA
Found at i:43017774 original size:5 final size:5
Alignment explanation
Indices: 43017764--43017804 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
43017754 AATATATAAC
43017764 AATAT AATAT AATAT AATAT ATTATAT AATA- AA-AT AATAT A
1 AATAT AATAT AATAT AATAT A--ATAT AATAT AATAT AATAT A
43017805 CTAATGTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
3 1 0.03
4 4 0.12
5 22 0.69
7 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:43017789 original size:20 final size:20
Alignment explanation
Indices: 43017765--43017804 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
43017755 ATATATAACA
43017765 ATATAATATAATATAATATATT
1 ATATAATA-AA-ATAATATATT
43017787 ATATAATAAAATAATATA
1 ATATAATAAAATAATATA
43017805 CTAATGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATAATAAAATAATATATT
Found at i:43017790 original size:17 final size:17
Alignment explanation
Indices: 43017753--43017804 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
43017743 TTAGTTTATT
*
43017753 TAATAT-ATAACA-ATA
1 TAATATAATAAAATATA
*
43017768 TAATATAATATAATATA
1 TAATATAATAAAATATA
*
43017785 TTATATAATAAAATAATA
1 TAATATAATAAAAT-ATA
43017803 TA
1 TA
43017805 CTAATGTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 6 0.21
16 4 0.14
17 15 0.52
18 4 0.14
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATATAATAAAATATA
Found at i:43028780 original size:29 final size:29
Alignment explanation
Indices: 43028731--43028806 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
43028721 ACGATAATGC
* * *
43028731 AAGTGACTAAAACGTAGTATTTCGAACGT
1 AAGTGACTAAAACGTAATATTTCAAACAT
* * *
43028760 AAGTAACTAAAACTTAATATTTTAAACAT
1 AAGTGACTAAAACGTAATATTTCAAACAT
*
43028789 AAGTGACTAAAATGTAAT
1 AAGTGACTAAAACGTAAT
43028807 CTGATGCAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (29 bp):
AAGTGACTAAAACGTAATATTTCAAACAT
Found at i:43029739 original size:6 final size:7
Alignment explanation
Indices: 43029724--43029748 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43029714 ATCGAAATTT
43029724 AAAATAA
1 AAAATAA
43029731 AAAATAA
1 AAAATAA
43029738 AAAATAA
1 AAAATAA
43029745 AAAA
1 AAAA
43029749 GGAAATTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:43043275 original size:27 final size:27
Alignment explanation
Indices: 43043237--43043289 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
43043227 AAAAAATGAC
43043237 TAAAAAAGAGTTGTACTAATTTTATTT
1 TAAAAAAGAGTTGTACTAATTTTATTT
*
43043264 TAAAACAA-AGTTGTGCTAATTTTATT
1 TAAAA-AAGAGTTGTACTAATTTTATT
43043290 AAGGTAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.43
Consensus pattern (27 bp):
TAAAAAAGAGTTGTACTAATTTTATTT
Found at i:43045359 original size:31 final size:31
Alignment explanation
Indices: 43045324--43045394 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
43045314 TGTCATCCCG
* *
43045324 GATTGCCCGACAACAATGACTAACCACCCTA
1 GATTGCCCGAAAACAATGACTAACCACCCCA
* ** * *
43045355 GATTGCTCGAAAATGATGGCTTACCACCCCA
1 GATTGCCCGAAAACAATGACTAACCACCCCA
43045386 GATTGCCCG
1 GATTGCCCG
43045395 GTAATGATGG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (31 bp):
GATTGCCCGAAAACAATGACTAACCACCCCA
Found at i:43045401 original size:31 final size:31
Alignment explanation
Indices: 43045346--43045404 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
43045336 ACAATGACTA
* *
43045346 ACCACCCTAGATTGCTCGAAAATGATGGCTT
1 ACCACCCCAGATTGCCCGAAAATGATGGCTT
**
43045377 ACCACCCCAGATTGCCCGGTAATGATGG
1 ACCACCCCAGATTGCCCGAAAATGATGG
43045405 TTTATCGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (31 bp):
ACCACCCCAGATTGCCCGAAAATGATGGCTT
Found at i:43045509 original size:76 final size:76
Alignment explanation
Indices: 43045386--43045543 Score: 174
Period size: 76 Copynumber: 2.1 Consensus size: 76
43045376 TACCACCCCA
** * * * ** *
43045386 GATTGCCCGGTAATGATGGTTTATCGATTTAGATCTGTCCTCCCGGGTTG-CTCGGTGACGATGA
1 GATTGCCCGACAATGAGGGTTTATCGATTCAAATCTGTCAGCCCGGGTTGTC-CGATGACGATGA
*
43045450 CCTGTCATCCCG
65 CCTGCCATCCCG
* * *
43045462 GATTGCCCGACAATGAGGGTTTATTGATTCAAATCTGTCAGCTCGGGTTGTCCGATGATGATGAC
1 GATTGCCCGACAATGAGGGTTTATCGATTCAAATCTGTCAGCCCGGGTTGTCCGATGACGATGAC
**
43045527 CTGCCATCTTG
66 CTGCCATCCCG
43045538 GATTGC
1 GATTGC
43045544 TCAATAACGA
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
76 66 0.99
77 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (76 bp):
GATTGCCCGACAATGAGGGTTTATCGATTCAAATCTGTCAGCCCGGGTTGTCCGATGACGATGAC
CTGCCATCCCG
Found at i:43046481 original size:22 final size:22
Alignment explanation
Indices: 43046436--43046557 Score: 131
Period size: 22 Copynumber: 5.5 Consensus size: 22
43046426 ATGTCATAGC
*
43046436 TCACATAGGTCAT-AGTTTGCATA
1 TCACAT-GG-CATAAGTTCGCATA
43046459 TCACATGGCATATA-TTCGCATA
1 TCACATGGCATA-AGTTCGCATA
* * *
43046481 TCACTTTAGCATAAGTTCGTATA
1 TCAC-ATGGCATAAGTTCGCATA
* * *
43046504 TCACATGACATAGGTTCACATA
1 TCACATGGCATAAGTTCGCATA
43046526 TCACATGGCATAAGTTCGCATA
1 TCACATGGCATAAGTTCGCATA
43046548 TCACATGGCA
1 TCACATGGCA
43046558 ATCACACAAT
Statistics
Matches: 82, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.04
22 55 0.67
23 24 0.29
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (22 bp):
TCACATGGCATAAGTTCGCATA
Found at i:43046506 original size:45 final size:44
Alignment explanation
Indices: 43046436--43046557 Score: 138
Period size: 45 Copynumber: 2.7 Consensus size: 44
43046426 ATGTCATAGC
* * *
43046436 TCACATAGGTCAT-AGTTTGCATATCACATGGCATATATTCGCATA
1 TCACATA-G-CATAAGTTCGCATATCACATGGCATAGATTCACATA
* * * *
43046481 TCACTTTAGCATAAGTTCGTATATCACATGACATAGGTTCACATA
1 TCAC-ATAGCATAAGTTCGCATATCACATGGCATAGATTCACATA
*
43046526 TCACATGGCATAAGTTCGCATATCACATGGCA
1 TCACATAGCATAAGTTCGCATATCACATGGCA
43046558 ATCACACAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
44 27 0.42
45 35 0.55
46 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (44 bp):
TCACATAGCATAAGTTCGCATATCACATGGCATAGATTCACATA
Found at i:43046852 original size:23 final size:25
Alignment explanation
Indices: 43046822--43046923 Score: 101
Period size: 24 Copynumber: 4.3 Consensus size: 25
43046812 TCACATATAA
43046822 GGTGATA-GGG-TT-CACATGTCACT
1 GGTGATAGGGGTTTACACATGT-ACT
43046845 GGTGATAGGGGTTTACACATG-ACT
1 GGTGATAGGGGTTTACACATGTACT
* * *
43046869 GGTGATAAGGGTTTGCACATGTTC-
1 GGTGATAGGGGTTTACACATGTACT
*
43046893 GGTGATAGGGG-TT-CACATGTATCA
1 GGTGATAGGGGTTTACACATGTA-CT
43046917 GGTGATA
1 GGTGATA
43046924 AGTGGTTATA
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
22 7 0.10
23 10 0.15
24 42 0.62
25 3 0.04
26 6 0.09
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.30
Consensus pattern (25 bp):
GGTGATAGGGGTTTACACATGTACT
Found at i:43046920 original size:24 final size:24
Alignment explanation
Indices: 43046808--43046923 Score: 95
Period size: 24 Copynumber: 5.0 Consensus size: 24
43046798 TATAGTGGAT
*
43046808 GGGTTCACA--TATAAGGTGATA-
1 GGGTTCACATGTATCAGGTGATAG
*
43046829 GGGTTCACATGTCA-CTGGTGATAG
1 GGGTTCACATGT-ATCAGGTGATAG
*
43046853 GGGTTTACACATG-A-CTGGTGATAAG
1 GGG-TT-CACATGTATCAGGTGAT-AG
*
43046878 GGTTTGCACATGT-TC-GGTGATAG
1 GGGTT-CACATGTATCAGGTGATAG
43046901 GGGTTCACATGTATCAGGTGATA
1 GGGTTCACATGTATCAGGTGATA
43046924 AGTGGTTATA
Statistics
Matches: 79, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
21 9 0.11
22 7 0.09
23 16 0.20
24 34 0.43
25 7 0.09
26 6 0.08
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.30
Consensus pattern (24 bp):
GGGTTCACATGTATCAGGTGATAG
Found at i:43046956 original size:22 final size:23
Alignment explanation
Indices: 43046927--43047051 Score: 80
Period size: 22 Copynumber: 5.6 Consensus size: 23
43046917 GGTGATAAGT
*
43046927 GGTT-ATATACTAACAAGGCA-C
1 GGTTCATATATTAACAAGGCAGC
* * *
43046948 GGTTCATATATTAGCAAGGTAGG
1 GGTTCATATATTAACAAGGCAGC
* * * *
43046971 GGTTCACATATTAATTAA-GTAGG
1 GGTTCATATATTAA-CAAGGCAGC
*
43046994 GGTT-ATATACTAACAAGGCA-C
1 GGTTCATATATTAACAAGGCAGC
* * *
43047015 GGTTCATATATTAGCAAGGTAGG
1 GGTTCATATATTAACAAGGCAGC
**
43047038 GGTTCGCATATTAA
1 GGTTCATATATTAA
43047052 TTAAGTAGGG
Statistics
Matches: 79, Mismatches: 19, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
21 10 0.13
22 35 0.44
23 32 0.41
24 2 0.03
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.30
Consensus pattern (23 bp):
GGTTCATATATTAACAAGGCAGC
Found at i:43046981 original size:23 final size:23
Alignment explanation
Indices: 43046948--43047067 Score: 86
Period size: 23 Copynumber: 5.3 Consensus size: 23
43046938 AACAAGGCAC
*
43046948 GGTTCATATATTAGCAAGGTAGG
1 GGTTCACATATTAGCAAGGTAGG
**
43046971 GGTTCACATATTAATTAA-GTAGG
1 GGTTCACATATT-AGCAAGGTAGG
* * * * *
43046994 GGTT-ATATACTAACAAGGCA-C
1 GGTTCACATATTAGCAAGGTAGG
*
43047015 GGTTCATATATTAGCAAGGTAGG
1 GGTTCACATATTAGCAAGGTAGG
* **
43047038 GGTTCGCATATTAATTAA-GTAGG
1 GGTTCACATATT-AGCAAGGTAGG
43047061 GGTTCAC
1 GGTTCAC
43047068 CTGTATTACC
Statistics
Matches: 74, Mismatches: 18, Indels: 10
0.73 0.18 0.10
Matches are distributed among these distances:
21 7 0.09
22 20 0.27
23 41 0.55
24 6 0.08
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.31
Consensus pattern (23 bp):
GGTTCACATATTAGCAAGGTAGG
Found at i:43047008 original size:67 final size:67
Alignment explanation
Indices: 43046927--43047064 Score: 267
Period size: 67 Copynumber: 2.1 Consensus size: 67
43046917 GGTGATAAGT
43046927 GGTTATATACTAACAAGGCACGGTTCATATATTAGCAAGGTAGGGGTTCACATATTAATTAAGTA
1 GGTTATATACTAACAAGGCACGGTTCATATATTAGCAAGGTAGGGGTTCACATATTAATTAAGTA
43046992 GG
66 GG
*
43046994 GGTTATATACTAACAAGGCACGGTTCATATATTAGCAAGGTAGGGGTTCGCATATTAATTAAGTA
1 GGTTATATACTAACAAGGCACGGTTCATATATTAGCAAGGTAGGGGTTCACATATTAATTAAGTA
43047059 GG
66 GG
43047061 GGTT
1 GGTT
43047065 CACCTGTATT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (67 bp):
GGTTATATACTAACAAGGCACGGTTCATATATTAGCAAGGTAGGGGTTCACATATTAATTAAGTA
GG
Found at i:43050083 original size:44 final size:44
Alignment explanation
Indices: 43050032--43050132 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 44
43050022 ATTTTACTGC
* * **
43050032 CAATGGCTGTGGACACAAAACAAAATGTCGCAGATGGAATCTG-
1 CAATGGCTGTGGACACAAAACAAAATATCACAGATAAAATCTGT
** * *
43050075 CATATGGCTGTGGGTACATAACAAAATATTACAGATAAAATCTGT
1 CA-ATGGCTGTGGACACAAAACAAAATATCACAGATAAAATCTGT
43050120 CAATGGCTGTGGA
1 CAATGGCTGTGGA
43050133 AGCACTACAT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 2 0.04
44 43 0.91
45 2 0.04
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (44 bp):
CAATGGCTGTGGACACAAAACAAAATATCACAGATAAAATCTGT
Found at i:43053013 original size:23 final size:23
Alignment explanation
Indices: 43052987--43053037 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
43052977 AAAAATATCT
43052987 TTAAAATAAT-ATTTATTATTTTG
1 TTAAAATAATGATTT-TTATTTTG
*
43053010 TTAAAATAATGATTTTTGTTTTG
1 TTAAAATAATGATTTTTATTTTG
43053033 TTAAA
1 TTAAA
43053038 GAATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (23 bp):
TTAAAATAATGATTTTTATTTTG
Found at i:43058389 original size:12 final size:13
Alignment explanation
Indices: 43058370--43058407 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
43058360 AAGATTGTTT
43058370 CAAAAAAAGTAAA
1 CAAAAAAAGTAAA
43058383 CAAAAAAAG-AAA
1 CAAAAAAAGTAAA
* *
43058395 CATAAAAACTAAA
1 CAAAAAAAGTAAA
43058408 ATTAAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.76, C:0.11, G:0.05, T:0.08
Consensus pattern (13 bp):
CAAAAAAAGTAAA
Found at i:43058432 original size:19 final size:19
Alignment explanation
Indices: 43058386--43058432 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
43058376 AAGTAAACAA
*
43058386 AAAAAGAAACATAAAAACT
1 AAAAATAAACATAAAAACT
* *
43058405 AAAATTAAACTTAAAAA-T
1 AAAAATAAACATAAAAACT
43058423 AATAAATAAA
1 AA-AAATAAA
43058433 AAGAAAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.72, C:0.06, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAAATAAACATAAAAACT
Found at i:43063135 original size:16 final size:17
Alignment explanation
Indices: 43063111--43063142 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
43063101 TTAAATTAAC
43063111 TAAATTAATTTCTCAAT
1 TAAATTAATTTCTCAAT
43063128 TAAA-TAATTTCTCAA
1 TAAATTAATTTCTCAA
43063143 CTGAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTAATTTCTCAAT
Found at i:43063136 original size:20 final size:20
Alignment explanation
Indices: 43063093--43063134 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
43063083 TTATTTAACC
*
43063093 AATTAATTTTAAATTAACTA
1 AATTAATTTTAAATTAAATA
*
43063113 AATTAATTTCTCAATTAAATA
1 AATTAATTT-TAAATTAAATA
43063134 A
1 A
43063135 TTTCTCAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (20 bp):
AATTAATTTTAAATTAAATA
Found at i:43066750 original size:16 final size:17
Alignment explanation
Indices: 43066726--43066757 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
43066716 TTAAATTAAC
43066726 TAAATTAATTTCTCAAT
1 TAAATTAATTTCTCAAT
43066743 TAAA-TAATTTCTCAA
1 TAAATTAATTTCTCAA
43066758 CTGAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTAATTTCTCAAT
Found at i:43066751 original size:20 final size:20
Alignment explanation
Indices: 43066708--43066749 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
43066698 TTATTTAACC
*
43066708 AATTAATTTTAAATTAACTA
1 AATTAATTTTAAATTAAATA
*
43066728 AATTAATTTCTCAATTAAATA
1 AATTAATTT-TAAATTAAATA
43066749 A
1 A
43066750 TTTCTCAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (20 bp):
AATTAATTTTAAATTAAATA
Found at i:43073916 original size:12 final size:12
Alignment explanation
Indices: 43073899--43073924 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43073889 TTTCATCACA
43073899 TCCTGTAAAATT
1 TCCTGTAAAATT
43073911 TCCTGTAAAATT
1 TCCTGTAAAATT
43073923 TC
1 TC
43073925 GTTAGACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (12 bp):
TCCTGTAAAATT
Found at i:43074784 original size:27 final size:26
Alignment explanation
Indices: 43074745--43074813 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
43074735 GAGGAAGGTA
*
43074745 TCCCATGGACGGCACCAAAGGTGCCTT
1 TCCCATGG-CGGCACCAAAGGTGCCAT
* * *
43074772 TCCCATAGGCGGCCCCGATGGTGCCAT
1 TCCCAT-GGCGGCACCAAAGGTGCCAT
43074799 TCCCATGGGCGGCAC
1 TCCCAT-GGCGGCAC
43074814 TGCCCATATA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.17, C:0.36, G:0.29, T:0.17
Consensus pattern (26 bp):
TCCCATGGCGGCACCAAAGGTGCCAT
Found at i:43074881 original size:10 final size:9
Alignment explanation
Indices: 43074866--43075012 Score: 72
Period size: 10 Copynumber: 15.3 Consensus size: 9
43074856 GAAGGAGAGG
43074866 GAAAGAAGAA
1 GAAAGAA-AA
43074876 GAAAG-AAA
1 GAAAGAAAA
43074884 GAAAGAAAA
1 GAAAGAAAA
* *
43074893 GGAAAAGAGAG
1 -G-AAAGAAAA
43074904 GAAAG-AAA
1 GAAAGAAAA
43074912 GAAA-AAGAA
1 GAAAGAA-AA
43074921 GGAAAGAAAA
1 -GAAAGAAAA
*
43074931 GGAAAGGAGAA
1 -GAAA-GAAAA
*
43074942 GAAGAAAAAA
1 GAA-AGAAAA
43074952 GAAAGAAAA
1 GAAAGAAAA
*
43074961 -AGAAGGAAA
1 GA-AAGAAAA
43074970 GAAAAGGAAATGA
1 G-AAA-GAAA--A
43074983 GAAGAGAAAA
1 GAA-AGAAAA
43074993 -AAA-AAAA
1 GAAAGAAAA
43075000 GAAAGAACAA
1 GAAAGAA-AA
43075010 GAA
1 GAA
43075013 GAGGGGAGGA
Statistics
Matches: 108, Mismatches: 10, Indels: 38
0.69 0.06 0.24
Matches are distributed among these distances:
7 4 0.04
8 18 0.17
9 25 0.23
10 35 0.32
11 17 0.16
12 6 0.06
13 3 0.03
ACGTcount: A:0.71, C:0.01, G:0.28, T:0.01
Consensus pattern (9 bp):
GAAAGAAAA
Found at i:43074908 original size:38 final size:37
Alignment explanation
Indices: 43074860--43075006 Score: 134
Period size: 38 Copynumber: 3.7 Consensus size: 37
43074850 GGAAGAGAAG
43074860 GAGAGGGAAAGAAGAAGAAAGAAAGAAAGAAAAGGAAAA
1 GAGA-GGAAAGAAGAA-AAAGAAAGAAAGAAAAGGAAAA
*
43074899 GAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGA
1 GAGAGGAAAG-AAGAAAAAGAAAGAAAGAAAAGGAAA--A
* * *
43074939 GAAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAT
1 G-AG-AG--GAAAG-AAGAAAAAGAAAGAAAGAAAAGGAAAA
*
43074981 GAGAAGAGAAA-AAAAAAAAGAAAGAA
1 GAG-AG-GAAAGAAGAAAAAGAAAGAA
43075007 CAAGAAGAGG
Statistics
Matches: 95, Mismatches: 6, Indels: 15
0.82 0.05 0.13
Matches are distributed among these distances:
38 39 0.41
39 9 0.09
40 6 0.06
41 7 0.07
42 3 0.03
44 31 0.33
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (37 bp):
GAGAGGAAAGAAGAAAAAGAAAGAAAGAAAAGGAAAA
Found at i:43074968 original size:44 final size:43
Alignment explanation
Indices: 43074866--43075006 Score: 180
Period size: 44 Copynumber: 3.3 Consensus size: 43
43074856 GAAGGAGAGG
* * * * **
43074866 GAAAGAAGAAGAAAGAAAG-AAAGAAAAGGAAAAGAGAGGAAA
1 GAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAA
43074908 GAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAGAAAAAA
1 GAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAG-AGAAAAAA
*
43074952 GAAAGAAAAAGAAGGAAAGAAAAGGAAATGAGAAGAGAAAAAA
1 GAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAA
43074995 -AAA-AAGAAAGAA
1 GAAAGAA-AAAGAA
43075007 CAAGAAGAGG
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
41 2 0.02
42 26 0.29
43 21 0.24
44 40 0.45
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (43 bp):
GAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAAAAAA
Found at i:43074973 original size:14 final size:14
Alignment explanation
Indices: 43074865--43074974 Score: 91
Period size: 14 Copynumber: 7.7 Consensus size: 14
43074855 AGAAGGAGAG
*
43074865 GGAAAGAAGAAGAA
1 GGAAAGAAAAAGAA
*
43074879 AGAAAGAAAGAA-AA
1 GGAAAGAAA-AAGAA
* *
43074893 GGAAA-AGAGAGGAA
1 GGAAAGA-AAAAGAA
*
43074907 AGAAAGAAAAAGAA
1 GGAAAGAAAAAGAA
*
43074921 GGAAAGAAAAGGAAA
1 GGAAAGAAAAAG-AA
43074936 GGAGAAGAAGAAA-AA
1 GGA-AAGAA-AAAGAA
*
43074951 AGAAAGAAAAAGAA
1 GGAAAGAAAAAGAA
43074965 GGAAAGAAAA
1 GGAAAGAAAA
43074975 GGAAATGAGA
Statistics
Matches: 75, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
13 5 0.07
14 51 0.68
15 12 0.16
16 5 0.07
17 2 0.03
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (14 bp):
GGAAAGAAAAAGAA
Found at i:43075435 original size:21 final size:21
Alignment explanation
Indices: 43075411--43075454 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
43075401 ATAAAGTAAA
43075411 ATTATAAAATTAGAAATTATG
1 ATTATAAAATTAGAAATTATG
43075432 ATTATAAAATTAGAAATTATG
1 ATTATAAAATTAGAAATTATG
43075453 AT
1 AT
43075455 ATTTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (21 bp):
ATTATAAAATTAGAAATTATG
Found at i:43076082 original size:159 final size:157
Alignment explanation
Indices: 43075564--43076132 Score: 497
Period size: 159 Copynumber: 3.6 Consensus size: 157
43075554 ATACAAATAA
* *
43075564 TTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAA
1 TTCAAACAAAATGCACTAAAATAATATAAAATAATAAAATACGAAAATAATAT-TTTTTATTG-A
* * *
43075629 AGTAATAAAATTCGGGAGAATAATACGAGCAAAGAGCAGGAATAA-GG-TTTTTTTACATTAAAT
64 AGTAATAAAATTCGGGAAAATAATACAAGCAAA-AGCAGGAATAAGGGTTTTTTTTACACTAAAT
*
43075692 TAATGTAAAAAATACACTAAATTAATAAAT
128 TAATTTAAAAAATACACTAAATTAATAAAT
* * * *
43075722 TTAAAACATAATGCACTAAAATAA-AGTAAAATTATAAAATTA-GAAATTATGATATTTTTTA--
1 TTCAAACAAAATGCACTAAAATAATA-TAAAATAATAAAA-TACGAAA--ATAATATTTTTTATT
* * * * * *
43075783 -AAATAATAAAATGCGAAGAAAAAAATACGAA-CAAATGGC-CGAAGTAAGAGTGTTTTACTTTT
62 GAAGTAATAAAATTCG-GGAAAATAATAC-AAGCAAA-AGCAGGAA-TAAG-G-GTTTT--TTTT
* * * * **
43075845 --ACTAACTT-TTTTAAAAATTAAAAAATAATTAATACAAATAT
119 ACACTAAATTAATTTAAAAAATACACTA-AATTAAT---AA-AT
* *
43075886 TTCAAACAAAATGTAATAAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGAGA
1 TTCAAACAAAATGCACTAAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGA-A
* *
43075951 GTAATAAAATTTGGGAAAATAATACAAGCAAAACACAGGAATAAGGGTTTTTTTTACACTAAATT
65 GTAATAAAATTCGGGAAAATAATACAAGCAAAA-GCAGGAATAAGGGTTTTTTTTACACTAAATT
43076016 AATTTAAAAAATACACTAAATTAATAAAT
129 AATTTAAAAAATACACTAAATTAATAAAT
* * * * *
43076045 TTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTA-GAAATTATGATATTTTTTA---
1 TTCAAACAAAATGCACTAAAATAATATAAAATAATAAAA-TACGAAA--ATAATATTTTTTATTG
*
43076106 AAGTAATAAAATACGGAGAAAA-AATAC
63 AAGTAATAAAATTCGG-GAAAATAATAC
43076133 GAACAAATGA
Statistics
Matches: 325, Mismatches: 52, Indels: 69
0.73 0.12 0.15
Matches are distributed among these distances:
155 16 0.05
156 18 0.06
157 20 0.06
158 43 0.13
159 59 0.18
160 26 0.08
161 16 0.05
162 16 0.05
163 23 0.07
164 53 0.16
165 21 0.06
166 14 0.04
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (157 bp):
TTCAAACAAAATGCACTAAAATAATATAAAATAATAAAATACGAAAATAATATTTTTTATTGAAG
TAATAAAATTCGGGAAAATAATACAAGCAAAAGCAGGAATAAGGGTTTTTTTTACACTAAATTAA
TTTAAAAAATACACTAAATTAATAAAT
Found at i:43076130 original size:322 final size:322
Alignment explanation
Indices: 43075432--43076161 Score: 1209
Period size: 322 Copynumber: 2.3 Consensus size: 322
43075422 AGAAATTATG
43075432 ATTATAAAATTAGAAATTATGATATTTTTTAAAATAATAAAATACGGAGAAAAAAATACGAACAA
1 ATTATAAAATTAGAAATTATGATATTTTTTAAAATAATAAAATACGGAGAAAAAAATACGAACAA
* *
43075497 ATGACCGAAGTAAGA--GTTTTACTTTTACTAACTTTTTTAAAAATTCAAAAGTAATTAATACAA
66 ATGACCGAAGTAAGAGTGTTTTACTTTTACTAACTTTTTTAAAAATTAAAAAATAATTAATACAA
* *
43075560 ATAATTCAAACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTAT
131 ATAATTCAAACAAAATGTAATAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTAT
* * * *
43075625 TGAAAGTAATAAAATTCGGGAGAATAATACGAGCAAAGAGCAGGAATAAGGTTTTTTTACATTAA
196 TGAAAGTAATAAAATTCGGGAAAATAATACAAGCAAAGAACAGGAATAAGGTTTTTTTACACTAA
43075690 ATTAATGTAAAAAATACACTAAATTAATAAATTTAAAACATAATGCACTAAAATAAAGTAAA
261 ATTAATGTAAAAAATACACTAAATTAATAAATTTAAAACATAATGCACTAAAATAAAGTAAA
* *
43075752 ATTATAAAATTAGAAATTATGATATTTTTTAAAATAATAAAATGCGAAGAAAAAAATACGAACAA
1 ATTATAAAATTAGAAATTATGATATTTTTTAAAATAATAAAATACGGAGAAAAAAATACGAACAA
*
43075817 ATGGCCGAAGTAAGAGTGTTTTACTTTTACTAACTTTTTTAAAAATTAAAAAATAATTAATACAA
66 ATGACCGAAGTAAGAGTGTTTTACTTTTACTAACTTTTTTAAAAATTAAAAAATAATTAATACAA
*
43075882 ATATTTCAAACAAAATGTAATAAAATAATATAAAATAATAAAATACGAAAATAATAT-TTTTTAT
131 ATAATTCAAACAAAATGTAATAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTAT
* *
43075946 TGAGAGTAATAAAATTTGGGAAAATAATACAAGCAAA-ACACAGGAATAAGGGTTTTTTTTACAC
196 TGAAAGTAATAAAATTCGGGAAAATAATACAAGCAAAGA-ACAGGAATAA-GG-TTTTTTTACAC
* * * *
43076010 TAAATTAATTTAAAAAATACACTAAATTAATAAATTTCAAACATAATGCACTGAAATAATGTAAA
258 TAAATTAATGTAAAAAATACACTAAATTAATAAATTTAAAACATAATGCACTAAAATAAAGTAAA
*
43076075 ATTATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATACGGAG-AAAAAATACGAACAA
1 ATTATAAAATTAGAAATTATGATATTTTTTAAAATAATAAAATACGGAGAAAAAAATACGAACAA
* *
43076139 ATGACTGAAGTAAGAGTTTTTTA
66 ATGACCGAAGTAAGAGTGTTTTA
43076162 TTAACTTTTT
Statistics
Matches: 381, Mismatches: 24, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
320 78 0.20
321 49 0.13
322 137 0.36
323 117 0.31
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (322 bp):
ATTATAAAATTAGAAATTATGATATTTTTTAAAATAATAAAATACGGAGAAAAAAATACGAACAA
ATGACCGAAGTAAGAGTGTTTTACTTTTACTAACTTTTTTAAAAATTAAAAAATAATTAATACAA
ATAATTCAAACAAAATGTAATAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTAT
TGAAAGTAATAAAATTCGGGAAAATAATACAAGCAAAGAACAGGAATAAGGTTTTTTTACACTAA
ATTAATGTAAAAAATACACTAAATTAATAAATTTAAAACATAATGCACTAAAATAAAGTAAA
Found at i:43090128 original size:27 final size:27
Alignment explanation
Indices: 43090098--43090245 Score: 174
Period size: 27 Copynumber: 5.5 Consensus size: 27
43090088 TGACACAAGT
*
43090098 GGTGCCGCCTATGGGAAAGGTACCTTC
1 GGTGCCGCCTATGGGAAAGGCACCTTC
*
43090125 GGTGCCGCCTATGGGAAAGGTACCTTC
1 GGTGCCGCCTATGGGAAAGGCACCTTC
** *
43090152 GGTGCCGCCTATGGGAAATACACCTTT
1 GGTGCCGCCTATGGGAAAGGCACCTTC
* *
43090179 GGTGCCGCCCAT-GGAAATGGCACCTTT
1 GGTGCCGCCTATGGGAAA-GGCACCTTC
* *
43090206 GGTGCCGCCCAT-GGAAATGGCACCATC
1 GGTGCCGCCTATGGGAAA-GGCACCTTC
*
43090233 GGTGTCGCCTATG
1 GGTGCCGCCTATG
43090246 AGATACCCTC
Statistics
Matches: 108, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
26 5 0.05
27 103 0.95
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.22
Consensus pattern (27 bp):
GGTGCCGCCTATGGGAAAGGCACCTTC
Found at i:43090235 original size:81 final size:81
Alignment explanation
Indices: 43090097--43090245 Score: 203
Period size: 81 Copynumber: 1.8 Consensus size: 81
43090087 ATGACACAAG
* * * * *
43090097 TGGTGCCGCCTATGGGAAAGGTACCTTCGGTGCCGCCTATGGGAAAGGTACCTTCGGTGCCGCCT
1 TGGTGCCGCCCATGGGAAAGGCACCTTCGGTGCCGCCCATGGGAAAGGCACCATCGGTGCCGCCT
43090162 ATGGGAAATACACCTT
66 ATGGGAAATACACCTT
* *
43090178 TGGTGCCGCCCAT-GGAAATGGCACCTTTGGTGCCGCCCAT-GGAAATGGCACCATCGGTGTCGC
1 TGGTGCCGCCCATGGGAAA-GGCACCTTCGGTGCCGCCCATGGGAAA-GGCACCATCGGTGCCGC
43090241 CTATG
64 CTATG
43090246 AGATACCCTC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
80 10 0.17
81 49 0.83
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.23
Consensus pattern (81 bp):
TGGTGCCGCCCATGGGAAAGGCACCTTCGGTGCCGCCCATGGGAAAGGCACCATCGGTGCCGCCT
ATGGGAAATACACCTT
Found at i:43095367 original size:23 final size:23
Alignment explanation
Indices: 43095341--43095484 Score: 182
Period size: 23 Copynumber: 6.3 Consensus size: 23
43095331 ATAAGTGTCA
43095341 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
** *
43095364 CACTGATACATAGCCG-TGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
43095386 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
43095409 CACTGATATGTAGTCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* **
43095432 CACTGAAATGTAGTTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
43095455 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
43095478 CACTGAT
1 CACTGAT
43095485 CAATAAAACT
Statistics
Matches: 101, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
22 17 0.17
23 84 0.83
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:43095452 original size:46 final size:46
Alignment explanation
Indices: 43095341--43095483 Score: 216
Period size: 46 Copynumber: 3.1 Consensus size: 46
43095331 ATAAGTGTCA
* **
43095341 CACTGATATGTAGCCGAAGCTACCACTGATACATAGCCGT-GCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
* *
43095386 CACTGAAATGTAGCCAAAGCTACCACTGATATGTAGTCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
**
43095432 CACTGAAATGTAGTTGAAGCTACCACTGATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
43095478 CACTGA
1 CACTGA
43095484 TCAATAAAAC
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
45 35 0.40
46 53 0.60
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTAC
Found at i:43101991 original size:18 final size:17
Alignment explanation
Indices: 43101970--43102029 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
43101960 GGGTCAAGTG
43101970 TGAATTTAGAAGAATTTT
1 TGAATTTAG-AGAATTTT
*
43101988 TGAA-TTAGTGAATTTT
1 TGAATTTAGAGAATTTT
*
43102004 GTG-ATTTAGTGAATTTT
1 -TGAATTTAGAGAATTTT
43102021 TGCAATTTA
1 TG-AATTTA
43102030 AAAAGAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
16 10 0.27
17 18 0.49
18 9 0.24
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (17 bp):
TGAATTTAGAGAATTTT
Found at i:43102012 original size:17 final size:16
Alignment explanation
Indices: 43101981--43102027 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 16
43101971 GAATTTAGAA
43101981 GAATTTTTGAATTAGT
1 GAATTTTTGAATTAGT
*
43101997 GAATTTTGTGATTTAGT
1 GAATTTT-TGAATTAGT
43102014 GAATTTTTGCAATT
1 GAATTTTTG-AATT
43102028 TAAAAAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 9 0.33
17 18 0.67
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (16 bp):
GAATTTTTGAATTAGT
Found at i:43103321 original size:46 final size:46
Alignment explanation
Indices: 43103254--43103438 Score: 316
Period size: 46 Copynumber: 4.0 Consensus size: 46
43103244 CATGGCAAAG
43103254 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
43103300 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
* *
43103346 TATGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
** * *
43103392 TGTGAAAAGTAGGTATGGTAATTCCGTGAAGAAAGCCATACTGAGT
1 TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
43103438 T
1 T
43103439 ATAGCAATGT
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 132 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTGTTTCGGTGAAGAAAACCATACTGAGT
Found at i:43104045 original size:206 final size:205
Alignment explanation
Indices: 43103691--43104101 Score: 786
Period size: 206 Copynumber: 2.0 Consensus size: 205
43103681 TTATGAGCCT
43103691 ATGAACTTACTAAACTTTCTGTAAGCTTACTGGTGTGTGTTTACTGTTTCTTGTAGATTGACGTG
1 ATGAACTTACTAAACTTTCTGTAAGCTTACTGGTGTGTGTTTACTGTTTCTTGTAGATTGACGTG
* *
43103756 TATATATATTTCGGAGGATCGGATCTACAACAACGATCACACTATCCAGATTTACTCCTGTAGAT
66 TATATATATTTCGGAGGATCGGATCTACAACAACAATCACACTATCCAGATTTACTCCGGTAGAT
43103821 TTTGTTAAACAACTTTTTGAATTTATATGGCATGTATAGGGAATTGAAGTAAAAAGTATTAGTAT
131 TTTGTTAAACAACTTTTTGAATTTATATGGCATGTATAGGGAATTGAAGTAAAAAGTATTAGTAT
43103886 GAATGACTAA
196 GAATGACTAA
43103896 NATGAACTTACTAAACTTTCTGTAAGCTTACTGGTGTGTGTTTACTGTTTCTTGTAGATTGACGT
1 -ATGAACTTACTAAACTTTCTGTAAGCTTACTGGTGTGTGTTTACTGTTTCTTGTAGATTGACGT
43103961 GTATATATATTTCGGAGGATCGGATCTACAACAACAATCACACTATCCAGATTTACTCCGGTAGA
65 GTATATATATTTCGGAGGATCGGATCTACAACAACAATCACACTATCCAGATTTACTCCGGTAGA
*
43104026 TTTTGTTAAACAACTTTTTGGATTTATATGGCATGTATAGGGAATTGAAGTAAAAAGTATTAGTA
130 TTTTGTTAAACAACTTTTTGAATTTATATGGCATGTATAGGGAATTGAAGTAAAAAGTATTAGTA
43104091 TGAATGACTAA
195 TGAATGACTAA
43104102 GTATGCAAAA
Statistics
Matches: 202, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
206 202 1.00
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (205 bp):
ATGAACTTACTAAACTTTCTGTAAGCTTACTGGTGTGTGTTTACTGTTTCTTGTAGATTGACGTG
TATATATATTTCGGAGGATCGGATCTACAACAACAATCACACTATCCAGATTTACTCCGGTAGAT
TTTGTTAAACAACTTTTTGAATTTATATGGCATGTATAGGGAATTGAAGTAAAAAGTATTAGTAT
GAATGACTAA
Found at i:43106946 original size:40 final size:40
Alignment explanation
Indices: 43106901--43106981 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
43106891 ATAATTCTTT
43106901 TTCTTTTACCCTTTAAACTAAAACAATTTTTAATTTTTAA
1 TTCTTTTACCCTTTAAACTAAAACAATTTTTAATTTTTAA
* *
43106941 TTCTTTTACCCTTTGAACTAAAATAATTTTTAATTTTTAA
1 TTCTTTTACCCTTTAAACTAAAACAATTTTTAATTTTTAA
43106981 T
1 T
43106982 GAAACTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.14, G:0.01, T:0.52
Consensus pattern (40 bp):
TTCTTTTACCCTTTAAACTAAAACAATTTTTAATTTTTAA
Found at i:43112341 original size:36 final size:35
Alignment explanation
Indices: 43112294--43112361 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
43112284 TATTAACAAC
*
43112294 TTTTCTTCTCATATATATATAT-ATATATTTGTTCAA
1 TTTTCCTCTCAT-T-TATATATGATATATTTGTTCAA
*
43112330 TTTTCCTCTCATTTATATATGATATCTTTGTT
1 TTTTCCTCTCATTTATATATGATATATTTGTT
43112362 GCAGACGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 7 0.24
35 11 0.38
36 11 0.38
ACGTcount: A:0.25, C:0.13, G:0.04, T:0.57
Consensus pattern (35 bp):
TTTTCCTCTCATTTATATATGATATATTTGTTCAA
Found at i:43123198 original size:19 final size:20
Alignment explanation
Indices: 43123176--43123216 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
43123166 ATATTTGTAT
*
43123176 TTTATAATGA-TTAATTTTA
1 TTTATAATGATTTAAATTTA
*
43123195 TTTATAATTATTTAAATTTA
1 TTTATAATGATTTAAATTTA
43123215 TT
1 TT
43123217 GTTTTTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTATAATGATTTAAATTTA
Found at i:43126067 original size:114 final size:114
Alignment explanation
Indices: 43125819--43126579 Score: 805
Period size: 114 Copynumber: 6.7 Consensus size: 114
43125809 TATTTGTAAG
* * * * * ** * * * *
43125819 CGCCGCAAAAAATGTTAGCCAAAACGCATTGTTTGTTCCCGAGGTATATTAGACTTGGTGGCGTT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
* * * * * * * *
43125884 TA-TGATAAACGCCGC-AATAGTATATTATTAGCGGCG-TTTTTTAGTAAA
66 TACGGAAAAACGCCGCTAA-AGCAGAGTATTAGAGGCGCTTTGTAAG-AAA
*
43125932 CGCCGCAAAATATCTTAACCAAAATGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
* *
43125997 TACGGAAAAACACCGCTAAAGGAGAGTATTAGAGGCGCTTTGTAAGAAA
66 TACGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGCGCTTTGTAAGAAA
* * * * * * * *
43126046 TGCCGCAAATTATCTTAACCAAAATGCAGCGTTTGGTCTTAATGTATATTAGAATTAGTGGCGAT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
** * * * * *
43126111 TGTGGGAAAACGCCGCTATAGCACAGTATTAGCA-GCGTTTTATACA-AAA
66 TACGGAAAAACGCCGCTAAAGCAGAGTATTAG-AGGCGCTTTGTA-AGAAA
* *
43126160 CGCCACAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATAAGAATTAGTGGCGGT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
* * * *
43126225 TACGGAAAAATGCCGCTAAGGGAGAGTATTAAAGGCGCTTTGTAAGAAA
66 TACGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGCGCTTTGTAAGAAA
* * * * * *
43126274 CGCCGCAAATTATCTTAACCAAAACGCAACGTTTGGTCTTAATGTATATTAGAATTAGTGGCGAT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
** * * * * * *
43126339 TGTGGGAAAACGCCGCTATAGCACAGTATTAGCGGCGTTTTATACA-AAA
66 TACGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGCGCTTTGTA-AGAAA
*
43126388 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTTGTCTTGAGGTATATAAGAATTAGTGGCGGT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
* ** *
43126453 TACGGAAAAAGGCCGCTAAAGCAGAGTATTAGAGATGCTTTGTAAGAAT
66 TACGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGCGCTTTGTAAGAAA
* * * * * *
43126502 TGCCGCAAAATATCTTAACCAAAAAGCAGCGTTTGGTCTTGATGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
* *
43126567 TATGTAAAAACGC
66 TACGGAAAAACGC
43126580 ATGTAGGTTT
Statistics
Matches: 532, Mismatches: 107, Indels: 17
0.81 0.16 0.03
Matches are distributed among these distances:
113 58 0.11
114 463 0.87
115 11 0.02
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (114 bp):
CGCCGCAAAATATCTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGT
TACGGAAAAACGCCGCTAAAGCAGAGTATTAGAGGCGCTTTGTAAGAAA
Found at i:43126287 original size:228 final size:228
Alignment explanation
Indices: 43125890--43126564 Score: 1116
Period size: 228 Copynumber: 3.0 Consensus size: 228
43125880 CGTTTATGAT
* * * * * **
43125890 AAACGCCGCAATAGTATATTATTAGCGGCGTTTTTTAGTAAACGCCGCAAAATATCTTAACCAAA
1 AAACGCCGCTATAGCACAGTATTAGCGGCGTTTTATACAAAACGCCGCAAAATATCTTAACCAAA
* * *
43125955 ATGCATCGTTTGGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACACCGCTAAAGGA
66 ACGCATCGTTTTGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACGCCGCTAAAGGA
*
43126020 GAGTATTAGAGGCGCTTTGTAAGAAATGCCGCAAATTATCTTAACCAAAATGCAGCGTTTGGTCT
131 GAGTATTAGAGGCGCTTTGTAAGAAATGCCGCAAATTATCTTAACCAAAAAGCAGCGTTTGGTCT
43126085 TAATGTATATTAGAATTAGTGGCGATTGTGGGA
196 TAATGTATATTAGAATTAGTGGCGATTGTGGGA
* *
43126118 AAACGCCGCTATAGCACAGTATTAGCAGCGTTTTATACAAAACGCCACAAAATATCTTAACCAAA
1 AAACGCCGCTATAGCACAGTATTAGCGGCGTTTTATACAAAACGCCGCAAAATATCTTAACCAAA
* *
43126183 ACGCATCGTTTTGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAATGCCGCTAAGGGA
66 ACGCATCGTTTTGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACGCCGCTAAAGGA
* * * *
43126248 GAGTATTAAAGGCGCTTTGTAAGAAACGCCGCAAATTATCTTAACCAAAACGCAACGTTTGGTCT
131 GAGTATTAGAGGCGCTTTGTAAGAAATGCCGCAAATTATCTTAACCAAAAAGCAGCGTTTGGTCT
43126313 TAATGTATATTAGAATTAGTGGCGATTGTGGGA
196 TAATGTATATTAGAATTAGTGGCGATTGTGGGA
43126346 AAACGCCGCTATAGCACAGTATTAGCGGCGTTTTATACAAAACGCCGCAAAATATCTTAACCAAA
1 AAACGCCGCTATAGCACAGTATTAGCGGCGTTTTATACAAAACGCCGCAAAATATCTTAACCAAA
* *
43126411 ACGCATCGTTTTGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAAGGCCGCTAAAGCA
66 ACGCATCGTTTTGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACGCCGCTAAAGGA
** * *
43126476 GAGTATTAGAGATGCTTTGTAAGAATTGCCGCAAAATATCTTAACCAAAAAGCAGCGTTTGGTCT
131 GAGTATTAGAGGCGCTTTGTAAGAAATGCCGCAAATTATCTTAACCAAAAAGCAGCGTTTGGTCT
*
43126541 TGATGTATATTAGAATTAGTGGCG
196 TAATGTATATTAGAATTAGTGGCG
43126565 CTTATGTAAA
Statistics
Matches: 415, Mismatches: 32, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
228 415 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.28
Consensus pattern (228 bp):
AAACGCCGCTATAGCACAGTATTAGCGGCGTTTTATACAAAACGCCGCAAAATATCTTAACCAAA
ACGCATCGTTTTGTCTTGAGGTATATAAGAATTAGTGGCGGTTACGGAAAAACGCCGCTAAAGGA
GAGTATTAGAGGCGCTTTGTAAGAAATGCCGCAAATTATCTTAACCAAAAAGCAGCGTTTGGTCT
TAATGTATATTAGAATTAGTGGCGATTGTGGGA
Found at i:43127455 original size:12 final size:12
Alignment explanation
Indices: 43127438--43127464 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
43127428 AATTTTATTA
43127438 AATAATATTAAT
1 AATAATATTAAT
43127450 AATAATATTAAT
1 AATAATATTAAT
43127462 AAT
1 AAT
43127465 GTCATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AATAATATTAAT
Found at i:43130294 original size:41 final size:41
Alignment explanation
Indices: 43130273--43130492 Score: 143
Period size: 43 Copynumber: 5.2 Consensus size: 41
43130263 ATTTTCATAG
*
43130273 TACATAACTTAAACGATATTGAACTTACATAATTTTCATAA
1 TACATAACTTAAACAATATTGAACTTACATAATTTTCATAA
* *** * * *
43130314 CCTACATAACTTATACAATACACAGCTTACTTAAATTTCATAA
1 --TACATAACTTAAACAATATTGAACTTACATAATTTTCATAA
* ** * * *
43130357 GACATAGGTTACATAAGATTGGAACTTACATAATTTTCATAA
1 TACATAACTTAAACAATATT-GAACTTACATAATTTTCATAA
* *** * * *
43130399 CCTACATAACTTATACAATACACAGCTTACTTAAATTTCATAA
1 --TACATAACTTAAACAATATTGAACTTACATAATTTTCATAA
* ** * * *
43130442 GACATAGGTTACATAAGATTGGAACTTACATAATTTTCATAA
1 TACATAACTTAAACAATATT-GAACTTACATAATTTTCATAA
43130484 TACATAACT
1 TACATAACT
43130493 AACATAATTC
Statistics
Matches: 126, Mismatches: 47, Indels: 9
0.69 0.26 0.05
Matches are distributed among these distances:
41 24 0.19
42 40 0.32
43 50 0.40
44 12 0.10
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.34
Consensus pattern (41 bp):
TACATAACTTAAACAATATTGAACTTACATAATTTTCATAA
Found at i:43130325 original size:126 final size:128
Alignment explanation
Indices: 43130172--43130411 Score: 351
Period size: 126 Copynumber: 1.9 Consensus size: 128
43130162 GTACATAACG
* * * *
43130172 TACATAATTTTCATAACCTACATAACTTATTCAATACACAACTTACATAATTGTTTATAATACAC
1 TACATAATTTTCATAACCTACATAACTTATACAATACACAACTTACATAAAT-TTCATAAGACAC
* *
43130237 AACTTACATAATATT-GAACTTACATAATTTTCAT-A-GTACATAACTTAAACGATATTGAACT
65 AACTTACATAAGATTGGAACTTACATAATTTTCATAACCTACATAACTTAAACGATATTGAACT
* * *
43130298 TACATAATTTTCATAACCTACATAACTTATACAATACACAGCTTACTTAAATTTCATAAGACATA
1 TACATAATTTTCATAACCTACATAACTTATACAATACACAACTTACATAAATTTCATAAGACACA
**
43130363 GGTTACATAAGATTGGAACTTACATAATTTTCATAACCTACATAACTTA
66 ACTTACATAAGATTGGAACTTACATAATTTTCATAACCTACATAACTTA
43130412 TACAATACAC
Statistics
Matches: 100, Mismatches: 11, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
125 21 0.21
126 67 0.67
127 1 0.01
128 11 0.11
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.35
Consensus pattern (128 bp):
TACATAATTTTCATAACCTACATAACTTATACAATACACAACTTACATAAATTTCATAAGACACA
ACTTACATAAGATTGGAACTTACATAATTTTCATAACCTACATAACTTAAACGATATTGAACT
Found at i:43130395 original size:42 final size:42
Alignment explanation
Indices: 43130339--43130489 Score: 142
Period size: 42 Copynumber: 3.6 Consensus size: 42
43130329 CAATACACAG
*
43130339 CTTACTTAAATTTCATAAGACATAGGTTACATAAGATTGGAA
1 CTTACATAAATTTCATAAGACATAGGTTACATAAGATTGGAA
* * ** * * * *** *
43130381 CTTACATAATTTTCATAACCTACATAACTTATACAATA-CACAG
1 CTTACATAAATTTCATAA--GACATAGGTTACATAAGATTGGAA
*
43130424 CTTACTTAAATTTCATAAGACATAGGTTACATAAGATTGGAA
1 CTTACATAAATTTCATAAGACATAGGTTACATAAGATTGGAA
* *
43130466 CTTACATAATTTTCATAATACATA
1 CTTACATAAATTTCATAAGACATA
43130490 ACTAACATAA
Statistics
Matches: 79, Mismatches: 27, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
41 12 0.15
42 38 0.48
43 17 0.22
44 12 0.15
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (42 bp):
CTTACATAAATTTCATAAGACATAGGTTACATAAGATTGGAA
Found at i:43130395 original size:85 final size:85
Alignment explanation
Indices: 43130293--43130492 Score: 386
Period size: 85 Copynumber: 2.4 Consensus size: 85
43130283 AAACGATATT
43130293 GAACTTACATAATTTTCATAACCTACATAACTTATACAATACACAGCTTACTTAAATTTCATAAG
1 GAACTTACATAATTTTCATAACCTACATAACTTATACAATACACAGCTTACTTAAATTTCATAAG
43130358 ACATAGGTTACATAAGATTG
66 ACATAGGTTACATAAGATTG
43130378 GAACTTACATAATTTTCATAACCTACATAACTTATACAATACACAGCTTACTTAAATTTCATAAG
1 GAACTTACATAATTTTCATAACCTACATAACTTATACAATACACAGCTTACTTAAATTTCATAAG
43130443 ACATAGGTTACATAAGATTG
66 ACATAGGTTACATAAGATTG
43130463 GAACTTACATAATTTTCATAA--TACATAACT
1 GAACTTACATAATTTTCATAACCTACATAACT
43130493 AACATAATTC
Statistics
Matches: 115, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
83 9 0.08
85 106 0.92
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.34
Consensus pattern (85 bp):
GAACTTACATAATTTTCATAACCTACATAACTTATACAATACACAGCTTACTTAAATTTCATAAG
ACATAGGTTACATAAGATTG
Found at i:43130506 original size:26 final size:25
Alignment explanation
Indices: 43130464--43130530 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 25
43130454 ATAAGATTGG
43130464 AACTTACATAATT-TTCATAATACA
1 AACTTACATAATTCTTCATAATACA
*
43130488 TAACTAACATAATTCTTCATAATACA
1 -AACTTACATAATTCTTCATAATACA
*
43130514 ACAGTTACATAATTCTT
1 A-ACTTACATAATTCTT
43130531 AAAGAATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 13 0.35
26 24 0.65
ACGTcount: A:0.43, C:0.18, G:0.01, T:0.37
Consensus pattern (25 bp):
AACTTACATAATTCTTCATAATACA
Found at i:43130571 original size:9 final size:9
Alignment explanation
Indices: 43130554--43130652 Score: 135
Period size: 9 Copynumber: 11.0 Consensus size: 9
43130544 ATGGACCGGT
43130554 CTTACATAA
1 CTTACATAA
*
43130563 CTTAAATAA
1 CTTACATAA
43130572 CTTACATAA
1 CTTACATAA
43130581 CTTACATAA
1 CTTACATAA
*
43130590 CCTACATAA
1 CTTACATAA
* *
43130599 ATTAAATAA
1 CTTACATAA
43130608 CTTACATAA
1 CTTACATAA
43130617 CTTACATAA
1 CTTACATAA
*
43130626 CCTACATAA
1 CTTACATAA
* *
43130635 ATTAAATAA
1 CTTACATAA
43130644 CTTACATAA
1 CTTACATAA
43130653 TACATAAAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 76 1.00
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.31
Consensus pattern (9 bp):
CTTACATAA
Found at i:43130604 original size:36 final size:36
Alignment explanation
Indices: 43130556--43130659 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
43130546 GGACCGGTCT
*
43130556 TACATAACTTAAATAACTTACATAACTTACATAACC
1 TACATAAATTAAATAACTTACATAACTTACATAACC
43130592 TACATAAATTAAATAACTTACATAACTTACATAACC
1 TACATAAATTAAATAACTTACATAACTTACATAACC
43130628 TACATAAATTAAATAACTTACATAA--TACATAA
1 TACATAAATTAAATAACTTACATAACTTACATAA
43130660 AAATATATCA
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
34 7 0.10
36 60 0.90
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (36 bp):
TACATAAATTAAATAACTTACATAACTTACATAACC
Found at i:43135825 original size:21 final size:21
Alignment explanation
Indices: 43135799--43135867 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
43135789 CAACAACTTA
* *
43135799 AAGCAGATGCGGCAGCAAGGG
1 AAGCAGATGCGACAGCAAGAG
* *
43135820 AAGCAGATGCTACAGCGAGAG
1 AAGCAGATGCGACAGCAAGAG
* * *
43135841 AAGCAGAGGCCACAGCGAGAG
1 AAGCAGATGCGACAGCAAGAG
43135862 AAGCAG
1 AAGCAG
43135868 CAAGAGAAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.38, C:0.20, G:0.38, T:0.04
Consensus pattern (21 bp):
AAGCAGATGCGACAGCAAGAG
Found at i:43135873 original size:12 final size:12
Alignment explanation
Indices: 43135853--43135900 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
43135843 GCAGAGGCCA
43135853 CAGCGAGAGAAG
1 CAGCGAGAGAAG
*
43135865 CAGCAAGAGAAG
1 CAGCGAGAGAAG
*
43135877 CAGCGAGAGAAA
1 CAGCGAGAGAAG
*
43135889 CAGCGATAGAAG
1 CAGCGAGAGAAG
43135901 TAGAGGTTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.46, C:0.17, G:0.35, T:0.02
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:43136379 original size:43 final size:43
Alignment explanation
Indices: 43136318--43136407 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 43
43136308 ATCAAATAGT
*
43136318 GGCGTTTGTGAAATAAGCGCCGCTAAATA-AACACTACTATTAGC
1 GGCGTTTGTGAAACAAGCGCCGCT--ATAGAACACTACTATTAGC
* * *
43136362 GGCGTTTTTG-AACAAGCGCCGCTATAGAACATTACTTTTAGC
1 GGCGTTTGTGAAACAAGCGCCGCTATAGAACACTACTATTAGC
43136404 GGCG
1 GGCG
43136408 CTATCATCCA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 3 0.07
42 17 0.41
43 12 0.29
44 9 0.22
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
GGCGTTTGTGAAACAAGCGCCGCTATAGAACACTACTATTAGC
Found at i:43136478 original size:42 final size:42
Alignment explanation
Indices: 43136330--43136667 Score: 382
Period size: 42 Copynumber: 8.0 Consensus size: 42
43136320 CGTTTGTGAA
* **
43136330 ATAAGCGCCGCTAAATAAACACT-A-CTATTAGCGGCGTTTTTGA
1 ATAAGCGCCGCTAAA-GAACA-TGATCT-TTAGCGGCGTTTTTTC
* * * ** *
43136373 ACAAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGCTATCATCC
1 ATAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCG-T-TTTTTC
* *
43136417 A-AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTATC
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
* *
43136458 CTAAGCGCCGCTAAAAAACATGATCTTTAGCGGCGTTTTTCTC
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TC
* * *
43136501 -TTAGCACCGCTAAAGAACGTGATCTTTAGCGGCGTTTTTTC
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
* * *
43136542 ATAAGCGCCGCTAAAGATCATGTTCTTTAGCGGTGTTTTTTC
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
43136584 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGATTATTTTC
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TT-TTTTC
43136628 AT-AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
43136668 TCTGTAAGTG
Statistics
Matches: 254, Mismatches: 31, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
41 9 0.04
42 155 0.61
43 79 0.31
44 11 0.04
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (42 bp):
ATAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
Found at i:43139108 original size:9 final size:9
Alignment explanation
Indices: 43139091--43139121 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
43139081 TCGAGTTGAT
43139091 TCGAATAAC
1 TCGAATAAC
*
43139100 TCGATTAAC
1 TCGAATAAC
43139109 TCGAATAAC
1 TCGAATAAC
43139118 TCGA
1 TCGA
43139122 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:43141808 original size:17 final size:17
Alignment explanation
Indices: 43141786--43141829 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
43141776 CCATATTGCC
43141786 CAAAAAAAAAGATGGCG
1 CAAAAAAAAAGATGGCG
43141803 CAAAAAAAAAGATGGCG
1 CAAAAAAAAAGATGGCG
43141820 CAAAAAAAAA
1 CAAAAAAAAA
43141830 CTTTACCGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.66, C:0.11, G:0.18, T:0.05
Consensus pattern (17 bp):
CAAAAAAAAAGATGGCG
Found at i:43144229 original size:88 final size:88
Alignment explanation
Indices: 43143446--43144188 Score: 1171
Period size: 88 Copynumber: 8.4 Consensus size: 88
43143436 GTGAAGATAA
* * *
43143446 CAGATCTTGCCTTCCTGCACCGACAGCGAAGGAGATCGAAGACACCAACCTTGCCTTCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
43143511 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * * * *
43143534 GAGATCTTGCCTTCCTGCACTGACAACAAAGCAAATCGAAGACACTAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
43143599 GCAGCGGAGCAGGATAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
43143622 CAGATCTTGCTTTCTTGCACCGACAGCGAAGCAGATCGAAGGCACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
43143687 GTAGCAGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
*
43143710 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCGTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
43143775 GCAGCGGAGCAGATTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
*
43143798 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCGTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
43143863 GCAGCGGAGCAGATTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
43143886 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACATCAGCCTTGCCTCACTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
43143951 GCAGCAGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
43143974 CAGACCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGCTTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
43144039 GCAGCGCAGTAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
43144062 CAGATCTTGCCTTTCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
43144127 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* *
43144150 CAGATCTTGCCTTACTGCACCGACAGGGAAGCAGATCGA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
43144189 TGACCCCAAC
Statistics
Matches: 598, Mismatches: 57, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 598 1.00
ACGTcount: A:0.28, C:0.28, G:0.25, T:0.19
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:43144695 original size:44 final size:44
Alignment explanation
Indices: 43144640--43144885 Score: 150
Period size: 44 Copynumber: 5.7 Consensus size: 44
43144630 GAAGATGACG
*
43144640 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* * *
43144683 TAATCCTATCTCCCTGAAATTGCAGTGGAGCGGATTAAAACCACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
* * * * * * *
43144728 GATTTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T--CA-CATCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-CA
** * * *
43144769 GGTCTTATCTCCCTGAAGTTGCGGTGGAGTAGACTCAAGAA--AGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AACCA-CA
* * * * * *
43144814 AGTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTAAATA-AACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACCACA
* * *
43144858 AATCCTGTCTCCCT-AAGTTGTAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
43144886 TGGATTAGAG
Statistics
Matches: 155, Mismatches: 38, Indels: 19
0.73 0.18 0.09
Matches are distributed among these distances:
40 2 0.01
41 30 0.19
43 13 0.08
44 78 0.50
45 31 0.20
46 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACA
Found at i:43144876 original size:129 final size:129
Alignment explanation
Indices: 43144642--43144886 Score: 271
Period size: 129 Copynumber: 1.9 Consensus size: 129
43144632 AGATGACGAA
* * * *
43144642 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAATTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCAAACAATCCTATCCCCCTGAAATTGCA
* * * * ** *
43144707 GTGGAGCGGATTAAAACCACAGATTTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACATCGGG
66 GTGGAGCAGACTAAAACAACAAATCCTATCTCCCTGAAGTTGCAGTAGAGTAGATCACATCGGG
* * * *
43144771 TCTTATCTCCCTGAAGTTGCGGTGGAGTAGACTCAAG-AAAGCAAGTCTTATCCCCCTGAAATTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCAAA-CAA-TCCTATCCCCCTGAAATTG
* * * *
43144835 CAGTGGGGCAGACTAAATA-AACAAATCCTGTCTCCCT-AAGTTGTAGTGGAGT
64 CAGTGGAGCAGACTAAA-ACAACAAATCCTATCTCCCTGAAGTTGCAGTAGAGT
43144887 GGATTAGAGT
Statistics
Matches: 94, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
128 2 0.02
129 48 0.51
130 43 0.46
131 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCAAACAATCCTATCCCCCTGAAATTGCA
GTGGAGCAGACTAAAACAACAAATCCTATCTCCCTGAAGTTGCAGTAGAGTAGATCACATCGGG
Found at i:43145590 original size:3 final size:3
Alignment explanation
Indices: 43145582--43145629 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
43145572 TATTAAGTTG
* * * * *
43145582 TTA TTA TTA TTA TTG TTG TTG TTA TTA TTA TCA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
43145630 CTATATATAC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:43145601 original size:18 final size:18
Alignment explanation
Indices: 43145578--43145612 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43145568 TTGTTATTAA
43145578 GTTGTTATTATTATTATT
1 GTTGTTATTATTATTATT
*
43145596 GTTGTTGTTATTATTAT
1 GTTGTTATTATTATTAT
43145613 CATCATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (18 bp):
GTTGTTATTATTATTATT
Found at i:43145781 original size:17 final size:17
Alignment explanation
Indices: 43145759--43145793 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
43145749 TTTATATACA
*
43145759 TATATACATTTACATTT
1 TATATACATATACATTT
43145776 TATATACATATACATTT
1 TATATACATATACATTT
43145793 T
1 T
43145794 TTATTTCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (17 bp):
TATATACATATACATTT
Found at i:43145897 original size:24 final size:24
Alignment explanation
Indices: 43145870--43145919 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
43145860 TATACGTATG
43145870 TTTTCTTATAT-TATTCTTCATAAA
1 TTTTCTTATATATATTCTTC-TAAA
* *
43145894 TTTTTTTATATATATTTTTCTAAA
1 TTTTCTTATATATATTCTTCTAAA
43145918 TT
1 TT
43145920 AATTAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTTCTTATATATATTCTTCTAAA
Found at i:43148054 original size:99 final size:100
Alignment explanation
Indices: 43147882--43148079 Score: 274
Period size: 99 Copynumber: 2.0 Consensus size: 100
43147872 AATATAACTT
* * * * *
43147882 ATTTAAAATATGTAAAGTTAATTTAGTAATTTTCTTGACTGAGTTGGTGCCAAGTTGACTTGTGA
1 ATTTAAAATATGTAAAGTTAATTTAGTAATTTCCTTGACCGAGTTGGTGCCAAGTTAAATTATGA
43147947 CACCAACTC-ATCACACACTTAAAAAATAATATAA
66 CACCAACTCAATCACACACTTAAAAAATAATATAA
* * *
43147981 ATTTAAAATATGTAATGTTATTTTAGTAATTTCCTTGACCGAGTTGGTGTCC-CGTTAAATTATG
1 ATTTAAAATATGTAAAGTTAATTTAGTAATTTCCTTGACCGAGTTGGTG-CCAAGTTAAATTATG
* * *
43148045 ATACTAACTCAATCACACACTTAAATAATAATATA
65 ACACCAACTCAATCACACACTTAAAAAATAATATA
43148080 GATTATGTGA
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
99 61 0.71
100 25 0.29
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (100 bp):
ATTTAAAATATGTAAAGTTAATTTAGTAATTTCCTTGACCGAGTTGGTGCCAAGTTAAATTATGA
CACCAACTCAATCACACACTTAAAAAATAATATAA
Done.