Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 282 of 316
Found at i:93448410 original size:24 final size:24
Alignment explanation
Indices: 93448382--93448445 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
93448372 TATTTTTATA
*
93448382 CTAATAAATGTTAAATATATTATG
1 CTAATAAATGTTAAATATATTACG
* *
93448406 TTAATAAATGCTAAATATATTACG
1 CTAATAAATGTTAAATATATTACG
*
93448430 CTAATAAATATTAAAT
1 CTAATAAATGTTAAAT
93448446 TTTCTAGAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (24 bp):
CTAATAAATGTTAAATATATTACG
Found at i:93452229 original size:41 final size:41
Alignment explanation
Indices: 93452179--93452380 Score: 237
Period size: 41 Copynumber: 4.9 Consensus size: 41
93452169 TGTAAAATAT
* * *
93452179 AGAGCAATAGCGGCGTTTTTTGCTAAAACGCCGCTAAAAA-C
1 AGAGCATTAGCGGCG-CTTTTGGTAAAACGCCGCTAAAAACC
* **
93452220 AGAGCAATAGCGG-ATTTTTCGGTAAAACGCCGCTAAAAACC
1 AGAGCATTAGCGGCGCTTTT-GGTAAAACGCCGCTAAAAACC
** * *
93452261 AGAGCATTAGCTACGCTTTCGGTAAAGCGCCGCTAAAAACC
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* *
93452302 AGAGCATTAGCTGCGCTTTTGGTAAAGCGCCGCTAAAAACC
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* * *
93452343 AGAGTATTAGCGACGCTTTTGCTAAAACGCCGCTAAAA
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
93452381 GTCATATAAC
Statistics
Matches: 142, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
39 5 0.04
40 18 0.13
41 116 0.82
42 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.21
Consensus pattern (41 bp):
AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
Found at i:93452567 original size:14 final size:14
Alignment explanation
Indices: 93452545--93452596 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
93452535 TTAATTATCA
*
93452545 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
93452559 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* * *
93452573 ATATGATTTAGGGT
1 TTATGGTTTAAGGT
*
93452587 TTAAGGTTTA
1 TTATGGTTTA
93452597 GGAGTTAATT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:93452661 original size:7 final size:7
Alignment explanation
Indices: 93452649--93452748 Score: 78
Period size: 7 Copynumber: 14.0 Consensus size: 7
93452639 TAGATATTAT
93452649 GGTTTAG
1 GGTTTAG
93452656 GGTTTAG
1 GGTTTAG
93452663 GGTTTAG
1 GGTTTAG
93452670 GG-TTAG
1 GGTTTAG
*
93452676 AGTTTAAG
1 GGTTT-AG
* *
93452684 GGGTAAG
1 GGTTTAG
93452691 GGTTTAG
1 GGTTTAG
*
93452698 GGTTAAG
1 GGTTTAG
*
93452705 TGTTTAG
1 GGTTTAG
*
93452712 TGTTTATG
1 GGTTTA-G
*
93452720 GG-ATAG
1 GGTTTAG
*
93452726 GAGTTAAG
1 G-GTTTAG
93452734 AGGTTTAG
1 -GGTTTAG
93452742 GGTTTAG
1 GGTTTAG
93452749 ATTAATTAGT
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
6 7 0.10
7 52 0.71
8 13 0.18
9 1 0.01
ACGTcount: A:0.22, C:0.00, G:0.40, T:0.38
Consensus pattern (7 bp):
GGTTTAG
Found at i:93452696 original size:35 final size:34
Alignment explanation
Indices: 93452653--93452745 Score: 96
Period size: 36 Copynumber: 2.6 Consensus size: 34
93452643 TATTATGGTT
*
93452653 TAGGGTTTAGGGTTTAGGGTTAGAGTTTAAGGGG
1 TAGGGTTTAGGGTTTAGGGTTAGAGTTTAAGGGA
* * * *
93452687 TAAGGGTTTAGGGTTAAGTGTTTAGTGTTTATGGGA
1 T-AGGGTTTAGGGTTTAG-GGTTAGAGTTTAAGGGA
*
93452723 TAGGAGTTAAGAGGTTTAGGGTT
1 TAGG-GTTTAG-GGTTTAGGGTT
93452746 TAGATTAATT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
34 1 0.02
35 18 0.38
36 22 0.47
37 6 0.13
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.38
Consensus pattern (34 bp):
TAGGGTTTAGGGTTTAGGGTTAGAGTTTAAGGGA
Found at i:93456153 original size:29 final size:29
Alignment explanation
Indices: 93456114--93456204 Score: 173
Period size: 29 Copynumber: 3.1 Consensus size: 29
93456104 GAGTCTGGAT
93456114 TTCAGCAATTTTTTAATGTAGTCAATGTTA
1 TTCAG-AATTTTTTAATGTAGTCAATGTTA
93456144 TTCAGAATTTTTTAATGTAGTCAATGTTA
1 TTCAGAATTTTTTAATGTAGTCAATGTTA
93456173 TTCAGAATTTTTTAATGTAGTCAATGTTA
1 TTCAGAATTTTTTAATGTAGTCAATGTTA
93456202 TTC
1 TTC
93456205 CGGTATAAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 56 0.92
30 5 0.08
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (29 bp):
TTCAGAATTTTTTAATGTAGTCAATGTTA
Found at i:93457944 original size:43 final size:43
Alignment explanation
Indices: 93457877--93457961 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
93457867 TAAAAATTTT
*
93457877 ATGACCTTTAGCGACATTTTTGGGAGAAGCGCCGCTAAAGGTA
1 ATGACCTTTAGCGACATTTGTGGGAGAAGCGCCGCTAAAGGTA
* * *
93457920 ATGATCTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAGGT
1 ATGACCTTTAGCGACATTTGTGGGAGAAGCGCCGCTAAAGGT
93457962 CACTTTTAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.26
Consensus pattern (43 bp):
ATGACCTTTAGCGACATTTGTGGGAGAAGCGCCGCTAAAGGTA
Found at i:93466546 original size:12 final size:13
Alignment explanation
Indices: 93466524--93466560 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
93466514 GCGTGCAAAA
93466524 AAATTAT-TAAAT
1 AAATTATATAAAT
93466536 AAATT-TATAAA-
1 AAATTATATAAAT
93466547 AAATTATATAAAT
1 AAATTATATAAAT
93466560 A
1 A
93466561 TTAAATATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.27
12 15 0.68
13 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATTATATAAAT
Found at i:93466976 original size:22 final size:22
Alignment explanation
Indices: 93466951--93466993 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
93466941 TAATTTTAAA
93466951 TTTATATTTATAT-TAATTATTT
1 TTTAT-TTTATATCTAATTATTT
93466973 TTTATTTTATATCTAATTATT
1 TTTATTTTATATCTAATTATT
93466994 ACAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTATTTTATATCTAATTATTT
Found at i:93475075 original size:27 final size:27
Alignment explanation
Indices: 93475017--93475082 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
93475007 GAGTTCACAG
* *
93475017 AGACAGTAAACACAGGGTGGTCTGTCG
1 AGACAGTAAACACAGGGTGGTCTGCCC
*
93475044 GGACAGTAAACAC-GAGGTGGTCTGCCC
1 AGACAGTAAACACAG-GGTGGTCTGCCC
*
93475071 AGACACTAAACA
1 AGACAGTAAACA
93475083 TGGGGTAGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.33, C:0.23, G:0.29, T:0.15
Consensus pattern (27 bp):
AGACAGTAAACACAGGGTGGTCTGCCC
Found at i:93481056 original size:25 final size:24
Alignment explanation
Indices: 93481028--93481085 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
93481018 TTTTTGGAGT
93481028 TTCCTGTTAAAAGCTCTTTATGAGC
1 TTCCTGTTAAAAGCTC-TTATGAGC
* * *
93481053 TTCCTAATT-TAGGCTCTTATGAGC
1 TTCCT-GTTAAAAGCTCTTATGAGC
93481077 TTCCTGTTA
1 TTCCTGTTA
93481086 TAGCCCAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
23 2 0.07
24 13 0.48
25 10 0.37
26 2 0.07
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.43
Consensus pattern (24 bp):
TTCCTGTTAAAAGCTCTTATGAGC
Found at i:93485123 original size:30 final size:30
Alignment explanation
Indices: 93485089--93485145 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
93485079 ATTTAATACG
93485089 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
93485119 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTGGAAAAATTACACTTTTGCCC
93485146 TAGGCTCGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:93504959 original size:2 final size:2
Alignment explanation
Indices: 93504952--93504987 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
93504942 TTCATATAAT
93504952 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
93504988 TATATATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:93505710 original size:21 final size:21
Alignment explanation
Indices: 93505662--93505707 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
93505652 TGCTTTCTCC
*
93505662 TTCTTTCCTTCTCTTTTTCTT
1 TTCTTTCCTTCTCTGTTTCTT
93505683 TTCTTTCCTT-TCTGTTTC-T
1 TTCTTTCCTTCTCTGTTTCTT
93505702 TTCTTT
1 TTCTTT
93505708 TTCGTTTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.29
20 7 0.29
21 10 0.42
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (21 bp):
TTCTTTCCTTCTCTGTTTCTT
Found at i:93505714 original size:15 final size:15
Alignment explanation
Indices: 93505673--93505714 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
93505663 TCTTTCCTTC
*
93505673 TCTTTTTCTTTTCTT
1 TCTTTTTCGTTTCTT
*
93505688 TC-CTTTCTGTTTCTT
1 TCTTTTTC-GTTTCTT
93505703 TCTTTTTCGTTT
1 TCTTTTTCGTTT
93505715 GTTCTTTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 4 0.18
15 14 0.64
16 4 0.18
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (15 bp):
TCTTTTTCGTTTCTT
Found at i:93505746 original size:24 final size:24
Alignment explanation
Indices: 93505701--93505747 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
93505691 TTTCTGTTTC
*
93505701 TTTCTTTTTCGTTTGTTCTTTCTA
1 TTTCTTTTTCGTTTGTTATTTCTA
*
93505725 TTTCTTTTTC-TTTCTTTATTTCT
1 TTTCTTTTTCGTTT-GTTATTTCT
93505748 TATTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTCTTTTTCGTTTGTTATTTCTA
Found at i:93511656 original size:27 final size:27
Alignment explanation
Indices: 93511626--93511803 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
93511616 ATATTGAGCC
* * *
93511626 CGCACACTCAGTGATATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
93511653 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
93511680 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
93511708 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
93511735 CGCACACTTAATGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
93511762 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
93511789 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
93511804 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:93519745 original size:21 final size:21
Alignment explanation
Indices: 93519721--93519788 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
93519711 TGAGTGTGTG
93519721 CACGCCAATGTGGAGGCCATA
1 CACGCCAATGTGGAGGCCATA
* * * *
93519742 CACGCTAGTGTGAAGG-AACTA
1 CACGCCAATGTGGAGGCCA-TA
*
93519763 CACGCCTATGTGGAGGCCATA
1 CACGCCAATGTGGAGGCCATA
93519784 CACGC
1 CACGC
93519789 TTGTGTGAAG
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (21 bp):
CACGCCAATGTGGAGGCCATA
Found at i:93519795 original size:21 final size:21
Alignment explanation
Indices: 93519729--93519807 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
93519719 TGCACGCCAA
* *
93519729 TGTGGAGGCCATACACGCTAG
1 TGTGAAGGCCATACACGCTTG
* * *
93519750 TGTGAAGG-AACTACACGCCTA
1 TGTGAAGGCCA-TACACGCTTG
*
93519771 TGTGGAGGCCATACACGCTTG
1 TGTGAAGGCCATACACGCTTG
*
93519792 TGTGAAGGCCCTACAC
1 TGTGAAGGCCATACAC
93519808 ACCCGTGTGG
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 1 0.02
21 43 0.96
22 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.20
Consensus pattern (21 bp):
TGTGAAGGCCATACACGCTTG
Found at i:93519817 original size:42 final size:42
Alignment explanation
Indices: 93519728--93519820 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
93519718 GTGCACGCCA
* *
93519728 ATGTGGAGGCCATACACGCTAGTGTGAAGGAACTACACGCCT
1 ATGTGGAGGCCATACACGCTAGTGTGAAGGAACTACACACCC
* **
93519770 ATGTGGAGGCCATACACGCTTGTGTGAAGGCCCTACACACCC
1 ATGTGGAGGCCATACACGCTAGTGTGAAGGAACTACACACCC
*
93519812 GTGTGGAGG
1 ATGTGGAGG
93519821 GGGCACATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.19
Consensus pattern (42 bp):
ATGTGGAGGCCATACACGCTAGTGTGAAGGAACTACACACCC
Found at i:93523589 original size:29 final size:29
Alignment explanation
Indices: 93523525--93523632 Score: 130
Period size: 29 Copynumber: 3.8 Consensus size: 29
93523515 TTCACATACT
* * **
93523525 TGTATCTGGCCCATTAAGCCC-AATCTTA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
93523553 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
93523582 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
93523611 TTTATATGGCCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
93523633 TTCACATTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.01
28 17 0.25
29 50 0.72
30 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:93523880 original size:16 final size:16
Alignment explanation
Indices: 93523856--93523890 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
93523846 GTAGCCAAAC
*
93523856 TTTCGGCATTTCGACT
1 TTTCAGCATTTCGACT
*
93523872 TTTCAGCATTTCGGCT
1 TTTCAGCATTTCGACT
93523888 TTT
1 TTT
93523891 GCCGATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.49
Consensus pattern (16 bp):
TTTCAGCATTTCGACT
Found at i:93525023 original size:16 final size:16
Alignment explanation
Indices: 93525002--93525033 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
93524992 AAGTTCGGGA
93525002 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
93525018 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
93525034 GCATTACAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.31, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:93536495 original size:24 final size:24
Alignment explanation
Indices: 93536463--93536510 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
93536453 ATAATAGCAT
93536463 TAGATACTTTCCCTTTACAACTGC
1 TAGATACTTTCCCTTTACAACTGC
93536487 TAGATACTTTCCCTTTACAACTGC
1 TAGATACTTTCCCTTTACAACTGC
93536511 AGCTTAAGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.29, G:0.08, T:0.38
Consensus pattern (24 bp):
TAGATACTTTCCCTTTACAACTGC
Found at i:93545568 original size:25 final size:25
Alignment explanation
Indices: 93545515--93545626 Score: 77
Period size: 25 Copynumber: 4.5 Consensus size: 25
93545505 TGAGCGTCCC
* * *
93545515 ATTATATGGCTCTTTGTGAGCTTCTTG
1 ATTA-ATGGCTCTCTG-GAACTTCCTG
*
93545542 ATTAATGGCTCTCTGGAGCTTCCTG
1 ATTAATGGCTCTCTGGAACTTCCTG
* ** *
93545567 A-T-ATGGCTCGCTTAAACTTCCCG
1 ATTAATGGCTCTCTGGAACTTCCTG
* **
93545590 A-TATATGGCTATCCAGAACTTCCTG
1 ATTA-ATGGCTCTCTGGAACTTCCTG
93545615 ATTAATGGCTCT
1 ATTAATGGCTCT
93545627 TCGGAGGTAT
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
23 18 0.26
24 1 0.01
25 33 0.49
26 12 0.18
27 4 0.06
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.38
Consensus pattern (25 bp):
ATTAATGGCTCTCTGGAACTTCCTG
Found at i:93552127 original size:14 final size:15
Alignment explanation
Indices: 93552108--93552148 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
93552098 ACTTATAATT
93552108 AAATTAATTAA-TCA
1 AAATTAATTAATTCA
*
93552122 AAATTAATTAATTTA
1 AAATTAATTAATTCA
93552137 AAATTTAATTAA
1 AAA-TTAATTAA
93552149 CTTACCTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 5 0.21
16 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATTAATTAATTCA
Found at i:93552203 original size:28 final size:28
Alignment explanation
Indices: 93552168--93552223 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
93552158 ATCAAGATTA
93552168 ATAAAATTGGTGAATTCCAATTGTCATT
1 ATAAAATTGGTGAATTCCAATTGTCATT
93552196 ATAAAATTGGTGAATTCCAATTGTCATT
1 ATAAAATTGGTGAATTCCAATTGTCATT
93552224 CACCACCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (28 bp):
ATAAAATTGGTGAATTCCAATTGTCATT
Found at i:93558752 original size:20 final size:21
Alignment explanation
Indices: 93558721--93558760 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
93558711 TATTTTTTTC
*
93558721 TAAAAATAATTTTGGTTTAAA
1 TAAAAATAATTTTGATTTAAA
93558742 TAAAAAT-ATTTTGATTTAA
1 TAAAAATAATTTTGATTTAA
93558761 TAGTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (21 bp):
TAAAAATAATTTTGATTTAAA
Found at i:93560593 original size:99 final size:100
Alignment explanation
Indices: 93560480--93560678 Score: 328
Period size: 100 Copynumber: 2.0 Consensus size: 100
93560470 GATTGAAATA
* * * *
93560480 TAACCTTTTGTTATTTGGGTGATAGAATATAATATTATCTAA-AAATATATTCTATTTGATTATT
1 TAACATTTTATTATTTGGGTGACAGAATATAATATTATCTAACAAATATATTCTACTTGATTATT
93560544 TTTATTATAAAATTTATTTTTAAATATTTATAAGT
66 TTTATTATAAAATTTATTTTTAAATATTTATAAGT
* *
93560579 TAACATTTTATTATTTGGGTGACAGAATGTAATATTATCTAACAAATATATTTTACTTGATTATT
1 TAACATTTTATTATTTGGGTGACAGAATATAATATTATCTAACAAATATATTCTACTTGATTATT
*
93560644 TTTATTATAAATTTTATTTTTAAATATTTATAAGT
66 TTTATTATAAAATTTATTTTTAAATATTTATAAGT
93560679 AAAGAAATTG
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
99 38 0.41
100 54 0.59
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (100 bp):
TAACATTTTATTATTTGGGTGACAGAATATAATATTATCTAACAAATATATTCTACTTGATTATT
TTTATTATAAAATTTATTTTTAAATATTTATAAGT
Found at i:93561498 original size:31 final size:31
Alignment explanation
Indices: 93561463--93561532 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
93561453 TTAACAGTCT
* * *
93561463 AGTGACTTAAATAAAAACTTTCAAATATTTC
1 AGTGACTAAAATAAAAACTTCCAAATAGTTC
*
93561494 AGTGACTAAAATGAAAACTTCCAAATAGTTC
1 AGTGACTAAAATAAAAACTTCCAAATAGTTC
93561525 AGTGACTA
1 AGTGACTA
93561533 TTTTGTAACT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (31 bp):
AGTGACTAAAATAAAAACTTCCAAATAGTTC
Found at i:93564319 original size:12 final size:13
Alignment explanation
Indices: 93564281--93564319 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
93564271 CTGAATGATT
93564281 TTTCTCTTAATAAGG
1 TTTC-CTTAA-AAGG
93564296 TTTCCTTAAAAGG
1 TTTCCTTAAAAGG
93564309 TTTCC-TAAAAG
1 TTTCCTTAAAAG
93564320 TACTCTCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.25
13 9 0.38
14 5 0.21
15 4 0.17
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (13 bp):
TTTCCTTAAAAGG
Found at i:93578895 original size:28 final size:28
Alignment explanation
Indices: 93578863--93578925 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
93578853 TCACATATTA
93578863 ATGGGGTATAAGAAAAGTCTCATAACTT
1 ATGGGGTATAAGAAAAGTCTCATAACTT
* ** * *
93578891 ATGGGGTATAATAAGGGTTTTATAACTT
1 ATGGGGTATAAGAAAAGTCTCATAACTT
93578919 ATGGGGT
1 ATGGGGT
93578926 TGACAATGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (28 bp):
ATGGGGTATAAGAAAAGTCTCATAACTT
Found at i:93580542 original size:14 final size:14
Alignment explanation
Indices: 93580525--93580555 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
93580515 ATCCAAACAA
93580525 TAACAACAAAATAG
1 TAACAACAAAATAG
*
93580539 TAACAACATAATAG
1 TAACAACAAAATAG
93580553 TAA
1 TAA
93580556 AAAACAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:93583264 original size:40 final size:40
Alignment explanation
Indices: 93583217--93583297 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
93583207 CCTCTTGTAG
93583217 GTTAATTTTGCATTTACCACACGACCATAGCCCGTTACAC
1 GTTAATTTTGCATTTACCACACGACCATAGCCCGTTACAC
*
93583257 GTTAATTTTGCATTTACCACACGACCATAGCCTGTTACAC
1 GTTAATTTTGCATTTACCACACGACCATAGCCCGTTACAC
93583297 G
1 G
93583298 GCCCAACCAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (40 bp):
GTTAATTTTGCATTTACCACACGACCATAGCCCGTTACAC
Found at i:93590419 original size:18 final size:18
Alignment explanation
Indices: 93590388--93590431 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
93590378 GCTTAAAAAT
*
93590388 TATTTTTATTATAAT-AA
1 TATTTTTATAATAATGAA
93590405 TATTTCTTATAATAATGAA
1 TATTT-TTATAATAATGAA
93590424 TATTTTTA
1 TATTTTTA
93590432 AAAAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 12 0.50
19 7 0.29
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTTTTATAATAATGAA
Found at i:93590943 original size:25 final size:25
Alignment explanation
Indices: 93590915--93590963 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
93590905 AAACAAAAAG
93590915 TATAAATTAT-TTCAAAATTATTAAT
1 TATAAATTATATTCAAAATT-TTAAT
*
93590940 TATAAATTATATTCCAAATTTTAA
1 TATAAATTATATTCAAAATTTTAA
93590964 ATACATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (25 bp):
TATAAATTATATTCAAAATTTTAAT
Found at i:93591365 original size:19 final size:18
Alignment explanation
Indices: 93591316--93591376 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
93591306 ATAAATTTGA
*
93591316 AAAAAAT-AAA-AAAATA
1 AAAAAATAAAATAAAATT
* *
93591332 AACATAAATATAATAATATTT
1 AA-A-AAATAAAATAA-AATT
93591353 AAAAAATAAAATAAAATT
1 AAAAAATAAAATAAAATT
93591371 AAAAAA
1 AAAAAA
93591377 AAGGTTTTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 2 0.06
17 1 0.03
18 13 0.37
19 12 0.34
20 3 0.09
21 4 0.11
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAAATAAAATAAAATT
Found at i:93598957 original size:18 final size:19
Alignment explanation
Indices: 93598910--93598959 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
93598900 TCTGTTTGTT
93598910 ATATAAATAAAAATGATTAA
1 ATATAAAT-AAAATGATTAA
* *
93598930 ATAT-ATTAAAAT-TTTAA
1 ATATAAATAAAATGATTAA
93598947 ATATAAATAAAAT
1 ATATAAATAAAAT
93598960 ACATACATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 8 0.31
18 12 0.46
19 2 0.08
20 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
ATATAAATAAAATGATTAA
Found at i:93601121 original size:129 final size:130
Alignment explanation
Indices: 93600978--93601239 Score: 418
Period size: 129 Copynumber: 2.0 Consensus size: 130
93600968 TATGATACAG
* * *
93600978 TTTTTTGTTTTTGCTCTGCTTTTAGCCAAAATATAGGATATGAAATGTGTGGGGGTATTTTAGAA
1 TTTTTTGTTTTTGCTCTGCTTTTAGCCAAAATATAGGACATGAAATGTGTGGAGGTAATTTAGAA
* * *
93601043 CTATTACTTACATGCTTTTTATTTAGAATAGGTAGAACACGAGTCTGATAGCATTTTGAATAGCA
66 CTACTACTTACATGCTTTTTATTTAGAACAGGTAGAACACGAATCTGATAGCATTTTGAATAGCA
* *
93601108 TTTTTT-TTTTTGCTCTGCTTTTAGCCAAAATATAGGGCATGAAATGTGTGGAGGTAATTTAGAG
1 TTTTTTGTTTTTGCTCTGCTTTTAGCCAAAATATAGGACATGAAATGTGTGGAGGTAATTTAGAA
* * *
93601172 CTACTACTTACATGTTTTTTATTTAGAACAGGTAGAACACGAATTTGATAGCATTTTGAATTGCA
66 CTACTACTTACATGCTTTTTATTTAGAACAGGTAGAACACGAATCTGATAGCATTTTGAATAGCA
93601237 TTT
1 TTT
93601240 CCTTGGAACA
Statistics
Matches: 121, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
129 115 0.95
130 6 0.05
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.41
Consensus pattern (130 bp):
TTTTTTGTTTTTGCTCTGCTTTTAGCCAAAATATAGGACATGAAATGTGTGGAGGTAATTTAGAA
CTACTACTTACATGCTTTTTATTTAGAACAGGTAGAACACGAATCTGATAGCATTTTGAATAGCA
Found at i:93601685 original size:15 final size:15
Alignment explanation
Indices: 93601661--93601691 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
93601651 CCTATATGAT
93601661 TACATATATGTTCAA
1 TACATATATGTTCAA
*
93601676 TACATGTATGTTCAA
1 TACATATATGTTCAA
93601691 T
1 T
93601692 TTTTTAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (15 bp):
TACATATATGTTCAA
Found at i:93604604 original size:15 final size:15
Alignment explanation
Indices: 93604584--93604616 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
93604574 GTCGCTTCTA
93604584 TTATAAATTGTCTCG
1 TTATAAATTGTCTCG
*
93604599 TTATAAATTGTCTTG
1 TTATAAATTGTCTCG
93604614 TTA
1 TTA
93604617 GATTATTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.52
Consensus pattern (15 bp):
TTATAAATTGTCTCG
Found at i:93612252 original size:24 final size:26
Alignment explanation
Indices: 93612201--93612263 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
93612191 ACATATAACC
**
93612201 TCAATTCAATCACAATTTCTCACATTT
1 TCAATTCAATCA-TTTTTCTCACATTT
93612228 TCAATTCAATCATTTTTC-CAC-TTT
1 TCAATTCAATCATTTTTCTCACATTT
93612252 TCAA-TCAA-CATT
1 TCAATTCAATCATT
93612264 CAATCCATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 4 0.12
23 4 0.12
24 7 0.21
25 3 0.09
26 4 0.12
27 12 0.35
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.43
Consensus pattern (26 bp):
TCAATTCAATCATTTTTCTCACATTT
Found at i:93612303 original size:18 final size:19
Alignment explanation
Indices: 93612280--93612318 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
93612270 ATATATTCAC
93612280 ACATTTTCA-CAATTCAAT
1 ACATTTTCATCAATTCAAT
93612298 ACATTTTCATTCAATTCAAT
1 ACATTTTCA-TCAATTCAAT
93612318 A
1 A
93612319 TCAATACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (19 bp):
ACATTTTCATCAATTCAAT
Found at i:93612654 original size:43 final size:43
Alignment explanation
Indices: 93612607--93612692 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
93612597 ATTTTTCCAT
93612607 CCCAATTCATACCTTATTTATATTCAATTTTCAACCAAACTTA
1 CCCAATTCATACCTTATTTATATTCAATTTTCAACCAAACTTA
93612650 CCCAATTCATACCTTATTTATATTCAATTTTCAACCAAACTTA
1 CCCAATTCATACCTTATTTATATTCAATTTTCAACCAAACTTA
93612693 AACTTAACTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.40
Consensus pattern (43 bp):
CCCAATTCATACCTTATTTATATTCAATTTTCAACCAAACTTA
Found at i:93613085 original size:5 final size:5
Alignment explanation
Indices: 93613069--93613137 Score: 61
Period size: 5 Copynumber: 13.6 Consensus size: 5
93613059 TTCTTTTGTT
* *
93613069 ATATA TATATA ATAT- A-ATA ATATA ATATA ATGTA AAATTA ATATA ATAATA
1 ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATA-TA ATATA AT-ATA
* *
93613120 AAATA ATATA TTATA ATA
1 ATATA ATATA ATATA ATA
93613138 AAAATCTTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 34 0.67
6 13 0.25
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:93613091 original size:13 final size:13
Alignment explanation
Indices: 93613075--93613138 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
93613065 TGTTATATAT
93613075 ATATAATATAATA
1 ATATAATATAATA
93613088 ATATAATATAAT-
1 ATATAATATAATA
* *
93613100 GTAAAAT-TAAT-
1 ATATAATATAATA
*
93613111 ATAATAATAAAATA
1 AT-ATAATATAATA
*
93613125 ATATATTATAATA
1 ATATAATATAATA
93613138 A
1 A
93613139 AAATCTTAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
11 5 0.12
12 9 0.22
13 25 0.61
14 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:93613112 original size:16 final size:16
Alignment explanation
Indices: 93613075--93613135 Score: 70
Period size: 16 Copynumber: 3.7 Consensus size: 16
93613065 TGTTATATAT
93613075 ATATAATATAATAATATA
1 ATATAATATAA-AAT-TA
*
93613093 ATATAATGTAAAATTA
1 ATATAATATAAAATTA
93613109 ATATAATAATAAAA-TA
1 ATATAAT-ATAAAATTA
*
93613125 ATATATTATAA
1 ATATAATATAA
93613136 TAAAAATCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
15 4 0.10
16 17 0.44
17 8 0.21
18 10 0.26
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
ATATAATATAAAATTA
Found at i:93617588 original size:43 final size:43
Alignment explanation
Indices: 93617515--93617671 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
93617505 GTTATCGAGT
* * * * *
93617515 TGTGATTACATGTAAGACCATGTTTGGGACATTGCCAT-TATA
1 TGTGATTACATGTAAGACCATATCTAGGACATTGACATCGATA
*
93617557 TTGTGATTACGTGTAAGACCATATCTAGGACATTGACATCGGATA
1 -TGTGATTACATGTAAGACCATATCTAGGACATTGACATC-GATA
* * * * *
93617602 T-TGATT-CGTGTAAGACCCTGTCT-GAGACAGTGGCATCGATA
1 TGTGATTACATGTAAGACCATATCTAG-GACATTGACATCGATA
*
93617643 TGTGATAACATGTAAGACCATATCTAGGA
1 TGTGATTACATGTAAGACCATATCTAGGA
93617672 TATGGCATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 6 0.06
42 29 0.31
43 54 0.57
44 2 0.02
45 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATATCTAGGACATTGACATCGATA
Found at i:93617678 original size:42 final size:43
Alignment explanation
Indices: 93617558--93617679 Score: 126
Period size: 42 Copynumber: 2.9 Consensus size: 43
93617548 GCCATTATAT
* *
93617558 TGTGATTACGTGTAAGACCATATCTAGGACATTGACATCGGATA
1 TGTGA-TACGTGTAAGACCATATCTAGGACAGTGGCATCGGATA
* * *
93617602 T-TGATTCGTGTAAGACCCTGTCT-GAGACAGTGGCATC-GATA
1 TGTGATACGTGTAAGACCATATCTAG-GACAGTGGCATCGGATA
* *
93617643 TGTGATAACATGTAAGACCATATCTAGGATA-TGGCAT
1 TGTGAT-ACGTGTAAGACCATATCTAGGACAGTGGCAT
93617680 TTTATGAGCT
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
41 6 0.09
42 36 0.56
43 20 0.31
44 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (43 bp):
TGTGATACGTGTAAGACCATATCTAGGACAGTGGCATCGGATA
Found at i:93620999 original size:18 final size:19
Alignment explanation
Indices: 93620976--93621014 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
93620966 ATATATTCAC
93620976 ACATTTTCA-CAATTCAAT
1 ACATTTTCATCAATTCAAT
93620994 ACATTTTCATTCAATTCAAT
1 ACATTTTCA-TCAATTCAAT
93621014 A
1 A
93621015 TCAATACTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (19 bp):
ACATTTTCATCAATTCAAT
Found at i:93621745 original size:5 final size:5
Alignment explanation
Indices: 93621729--93621811 Score: 71
Period size: 5 Copynumber: 16.2 Consensus size: 5
93621719 CTTTTGTTAT
* *
93621729 ATATA TATATA ATATA ACATA ATAT- -TATA ATAATA ATATA ATATA ATGTA
1 ATATA -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA
* * *
93621779 ACATTA ATATA ATAATA AAATA ATATA TTATA A
1 ATA-TA ATATA AT-ATA ATATA ATATA ATATA A
93621812 AAAATCTTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
3 3 0.05
5 41 0.66
6 18 0.29
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:93621764 original size:24 final size:26
Alignment explanation
Indices: 93621728--93621775 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
93621718 TCTTTTGTTA
93621728 TATATATATATAATATAACATAATAT
1 TATATATATATAATATAACATAATAT
*
93621754 TATA-ATA-ATAATATAATATAAT
1 TATATATATATAATATAACATAAT
93621776 GTAACATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.67
25 3 0.14
26 4 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (26 bp):
TATATATATATAATATAACATAATAT
Found at i:93621768 original size:29 final size:29
Alignment explanation
Indices: 93621726--93621800 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 29
93621716 TTTCTTTTGT
*
93621726 TATATATATATATAATATAACATAATATT-A
1 TATA-ATA-ATATAATATAACATAACATTAA
**
93621756 TAATAATAATATAATATAATGTAACATTAA
1 T-ATAATAATATAATATAACATAACATTAA
*
93621786 TATAATAATAAAATA
1 TATAATAATATAATA
93621801 ATATATTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 30 0.77
30 6 0.15
31 3 0.08
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (29 bp):
TATAATAATATAATATAACATAACATTAA
Found at i:93621773 original size:16 final size:16
Alignment explanation
Indices: 93621735--93621805 Score: 69
Period size: 16 Copynumber: 4.6 Consensus size: 16
93621725 TTATATATAT
*
93621735 ATATAATATAA-CATA
1 ATATAATATAATAATA
93621750 ATAT--TATAATAATA
1 ATATAATATAATAATA
*
93621764 ATATAATATAAT-GTA
1 ATATAATATAATAATA
*
93621779 ACATTAATATAATAATA
1 ATA-TAATATAATAATA
*
93621796 AAATAATATA
1 ATATAATATA
93621806 TTATAAAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
13 5 0.11
14 7 0.15
15 8 0.17
16 22 0.48
17 4 0.09
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (16 bp):
ATATAATATAATAATA
Found at i:93621814 original size:16 final size:16
Alignment explanation
Indices: 93621735--93621814 Score: 56
Period size: 16 Copynumber: 4.9 Consensus size: 16
93621725 TTATATATAT
93621735 ATATAATATAACATAATA
1 ATATAATATAA-A-AATA
* *
93621753 TTATAATA-ATAATATA
1 ATATAATATA-AAAATA
* * *
93621769 ATATAATGTAACATTA
1 ATATAATATAAAAATA
93621785 ATATAATA-ATAAAATA
1 ATATAATATA-AAAATA
*
93621801 ATATATTATAAAAA
1 ATATAATATAAAAA
93621815 ATCTTAACTA
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
15 1 0.02
16 34 0.72
17 4 0.09
18 8 0.17
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (16 bp):
ATATAATATAAAAATA
Found at i:93629145 original size:22 final size:22
Alignment explanation
Indices: 93629120--93629176 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
93629110 TTCTAAGCGG
93629120 TATCGATACCATTTATGAGAAT
1 TATCGATACCATTTATGAGAAT
* **
93629142 TATCAATACCAACTATGAGAAT
1 TATCGATACCATTTATGAGAAT
*
93629164 TATCGATATCATT
1 TATCGATACCATT
93629177 GAATGAGTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (22 bp):
TATCGATACCATTTATGAGAAT
Found at i:93633112 original size:26 final size:26
Alignment explanation
Indices: 93633083--93633137 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
93633073 TCGTCAGAAG
93633083 ATAGACTATATTTTAAAAATAATTCT
1 ATAGACTATATTTTAAAAATAATTCT
93633109 ATAGACTATATTTTAAAAATAATTCT
1 ATAGACTATATTTTAAAAATAATTCT
93633135 ATA
1 ATA
93633138 ACAAATACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (26 bp):
ATAGACTATATTTTAAAAATAATTCT
Found at i:93634391 original size:12 final size:13
Alignment explanation
Indices: 93634373--93634409 Score: 67
Period size: 12 Copynumber: 2.9 Consensus size: 13
93634363 CTGTGAAAAA
93634373 AAGTGCTTTTGAG
1 AAGTGCTTTTGAG
93634386 -AGTGCTTTTGAG
1 AAGTGCTTTTGAG
93634398 AAGTGCTTTTGA
1 AAGTGCTTTTGA
93634410 AAAATTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.22, C:0.08, G:0.30, T:0.41
Consensus pattern (13 bp):
AAGTGCTTTTGAG
Found at i:93634408 original size:13 final size:13
Alignment explanation
Indices: 93634337--93634409 Score: 69
Period size: 13 Copynumber: 5.5 Consensus size: 13
93634327 TTTGACAATA
*
93634337 CTTTTGAAAAGTG
1 CTTTTGAGAAGTG
*
93634350 CTTTTAAGAAGTG
1 CTTTTGAGAAGTG
* *
93634363 C-TGTGAAAAAAAGTG
1 CTTTTG---AGAAGTG
93634378 CTTTTGAG-AGTG
1 CTTTTGAGAAGTG
93634390 CTTTTGAGAAGTG
1 CTTTTGAGAAGTG
93634403 CTTTTGA
1 CTTTTGA
93634410 AAAATTTAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
12 14 0.29
13 24 0.50
15 7 0.15
16 3 0.06
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (13 bp):
CTTTTGAGAAGTG
Found at i:93636549 original size:72 final size:72
Alignment explanation
Indices: 93636427--93636665 Score: 365
Period size: 72 Copynumber: 3.3 Consensus size: 72
93636417 AAAATCATAT
**
93636427 ATAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAGTAGAACATAAATTCAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
*
93636490 GACCAAAC
65 AACCAAAC
* * *
93636498 ATAAACAACTATTAATAAAAGTAGATTACACATAAATAAGTAGTACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
93636563 ACCAAAC
66 ACCAAAC
* * *
93636570 AAAAACAGCCATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
93636635 ACCAAAC
66 ACCAAAC
*
93636642 ATAAATAACTATTGATAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
93636666 TTTAGCATTT
Statistics
Matches: 150, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
71 24 0.16
72 126 0.84
ACGTcount: A:0.55, C:0.15, G:0.07, T:0.23
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:93645173 original size:5 final size:5
Alignment explanation
Indices: 93645163--93645199 Score: 58
Period size: 5 Copynumber: 7.4 Consensus size: 5
93645153 ACTTGTGAAA
93645163 AAAAT AAAAT AAAAT AAAAT AAAGA- AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT AA
93645200 CACACAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.03
5 28 0.93
6 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:93645653 original size:22 final size:22
Alignment explanation
Indices: 93645628--93645676 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
93645618 TAAAAATCAC
*
93645628 AATTTCATATAATGACAACTTA
1 AATTTCAAATAATGACAACTTA
*
93645650 AA-TTCAAATATTGACAACTTA
1 AATTTCAAATAATGACAACTTA
93645671 AATTTC
1 AATTTC
93645677 TTAAAAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.45, C:0.14, G:0.04, T:0.37
Consensus pattern (22 bp):
AATTTCAAATAATGACAACTTA
Found at i:93646533 original size:35 final size:35
Alignment explanation
Indices: 93646475--93646569 Score: 95
Period size: 35 Copynumber: 2.7 Consensus size: 35
93646465 ATAAATTTAG
* **
93646475 TATAAATACAATTTAATTTATATTTT-ATTATTTGAT
1 TATAAATATAATTTAA-AAATATTTTGA-TATTTGAT
* *
93646511 T-TAAATATAATTTGTAAAATATTTTGATATTTTAT
1 TATAAATATAATTT-AAAAATATTTTGATATTTGAT
*
93646546 TATGAATATAATTTAAAAATATTT
1 TATAAATATAATTTAAAAATATTT
93646570 AAATTTTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
35 35 0.71
36 14 0.29
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (35 bp):
TATAAATATAATTTAAAAATATTTTGATATTTGAT
Found at i:93646816 original size:21 final size:21
Alignment explanation
Indices: 93646764--93646818 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
93646754 ATCATTGTTT
* *
93646764 CTAATCTCACCGCTATAGTAT
1 CTAATCTCACTGCTATAGTAA
*
93646785 CCAATCTCACTGCTATAGTAA
1 CTAATCTCACTGCTATAGTAA
93646806 CTAATCTCACTGC
1 CTAATCTCACTGC
93646819 CACCGCTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (21 bp):
CTAATCTCACTGCTATAGTAA
Found at i:93647395 original size:89 final size:89
Alignment explanation
Indices: 93647292--93647472 Score: 353
Period size: 89 Copynumber: 2.0 Consensus size: 89
93647282 ATATTAAAAG
93647292 ATACATTTTAATATTTTATTAAATGAATTTATAAATTCACATATTTTAATAATTTTATATAAGTA
1 ATACATTTTAATATTTTATTAAATGAATTTATAAATTCACATATTTTAATAATTTTATATAAGTA
93647357 AAATAATTTAAAAACTTCTATTAT
66 AAATAATTTAAAAACTTCTATTAT
*
93647381 ATACCTTTTAATATTTTATTAAATGAATTTATAAATTCACATATTTTAATAATTTTATATAAGTA
1 ATACATTTTAATATTTTATTAAATGAATTTATAAATTCACATATTTTAATAATTTTATATAAGTA
93647446 AAATAATTTAAAAACTTCTATTAT
66 AAATAATTTAAAAACTTCTATTAT
93647470 ATA
1 ATA
93647473 TCAATTCTAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 91 1.00
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (89 bp):
ATACATTTTAATATTTTATTAAATGAATTTATAAATTCACATATTTTAATAATTTTATATAAGTA
AAATAATTTAAAAACTTCTATTAT
Found at i:93647455 original size:44 final size:45
Alignment explanation
Indices: 93647312--93647455 Score: 149
Period size: 44 Copynumber: 3.2 Consensus size: 45
93647302 ATATTTTATT
93647312 AAATGAATTTATAAATTCACATATTTTAATAATTTTATATAAGTA
1 AAATGAATTTATAAATTCACATATTTTAATAATTTTATATAAGTA
* * * * *
93647357 AAAT-AATTTAAAAACTT--C-TATTAT-ATACCTTTTAATATTTTA-TT
1 AAATGAATTTATAAA-TTCACATATTTTAATA-ATTTT-ATA--TAAGTA
93647401 AAATGAATTTATAAATTCACATATTTTAATAATTTTATATAAGTA
1 AAATGAATTTATAAATTCACATATTTTAATAATTTTATATAAGTA
93647446 AAAT-AATTTA
1 AAATGAATTTA
93647456 AAAACTTCTA
Statistics
Matches: 78, Mismatches: 10, Indels: 23
0.70 0.09 0.21
Matches are distributed among these distances:
41 3 0.04
42 9 0.12
43 4 0.05
44 24 0.31
45 22 0.28
46 4 0.05
47 9 0.12
48 3 0.04
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (45 bp):
AAATGAATTTATAAATTCACATATTTTAATAATTTTATATAAGTA
Found at i:93647593 original size:21 final size:21
Alignment explanation
Indices: 93647569--93647621 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
93647559 CGCTGTTTCT
*
93647569 AATCTCACCGCTACAGT-ATCC
1 AATCTCACCGCTACAATGA-CC
*
93647590 AATCTCACCGCTACAATGACT
1 AATCTCACCGCTACAATGACC
93647611 AATCTCACCGC
1 AATCTCACCGC
93647622 CACCGCTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAATGACC
Found at i:93647688 original size:44 final size:44
Alignment explanation
Indices: 93647633--93647721 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
93647623 ACCGCTGTTT
*
93647633 TTAACCTCACCGGAGGTAAACACACCGTC-CATCCAAACTAAGCC
1 TTAACCTCACCGGAGGTAAACACACC-ACGCATCCAAACTAAGCC
* * * *
93647677 TTAATCTCACCGGATGTAAACATACCACGCATCCAAGCTAAGCC
1 TTAACCTCACCGGAGGTAAACACACCACGCATCCAAACTAAGCC
93647721 T
1 T
93647722 AAGGCCAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 1 0.03
44 38 0.97
ACGTcount: A:0.34, C:0.34, G:0.13, T:0.19
Consensus pattern (44 bp):
TTAACCTCACCGGAGGTAAACACACCACGCATCCAAACTAAGCC
Found at i:93647944 original size:17 final size:18
Alignment explanation
Indices: 93647924--93647997 Score: 62
Period size: 18 Copynumber: 4.1 Consensus size: 18
93647914 TTTTAATAAC
93647924 ATTTAAATTTAT-AATTT
1 ATTTAAATTTATAAATTT
* *
93647941 ATTTTATTTTATAAATTT
1 ATTTAAATTTATAAATTT
* *
93647959 GTTTAAATATTTTAAA-TT
1 ATTTAAAT-TTATAAATTT
*
93647977 ATTAACTAATTTATAAATTT
1 ATTTA--AATTTATAAATTT
93647997 A
1 A
93647998 GCTATTCATT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
17 10 0.23
18 15 0.35
19 12 0.28
20 6 0.14
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (18 bp):
ATTTAAATTTATAAATTT
Found at i:93648756 original size:20 final size:21
Alignment explanation
Indices: 93648731--93648781 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
93648721 ATTAATTATT
93648731 TATAAAATT-TAATTTAAATA
1 TATAAAATTATAATTTAAATA
*
93648751 TAT-AAATTATATTTTAAATA
1 TATAAAATTATAATTTAAATA
93648771 T-TAAAA-TATAA
1 TATAAAATTATAA
93648782 CCGTTACTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TATAAAATTATAATTTAAATA
Found at i:93657802 original size:52 final size:48
Alignment explanation
Indices: 93657783--93657986 Score: 267
Period size: 46 Copynumber: 4.3 Consensus size: 48
93657773 TGACAAGTGG
* *
93657783 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
93657829 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
93657881 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
93657927 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
93657973 AAAGTGATAAGTGA
1 AAAGTGATAAGTGA
93657987 CTACACTTAT
Statistics
Matches: 145, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 101 0.70
52 44 0.30
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:93657837 original size:98 final size:98
Alignment explanation
Indices: 93657717--93657986 Score: 459
Period size: 98 Copynumber: 2.7 Consensus size: 98
93657707 TTTGAGTACT
*
93657717 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
93657782 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
93657815 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
93657880 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
93657913 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
93657978 GATAAGTGA
65 GAAAAGTGA
93657987 CTACACTTAT
Statistics
Matches: 161, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 12 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:93657994 original size:37 final size:37
Alignment explanation
Indices: 93657949--93658131 Score: 298
Period size: 37 Copynumber: 5.0 Consensus size: 37
93657939 GATAGCTTTA
93657949 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* * *
93657986 ACTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
93658023 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
93658060 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
93658097 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
93658132 ATCATACGTA
Statistics
Matches: 135, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 120 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:93658058 original size:74 final size:74
Alignment explanation
Indices: 93657949--93658132 Score: 336
Period size: 74 Copynumber: 2.5 Consensus size: 74
93657939 GATAGCTTTA
93657949 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGACTACACTTATCTGATCAAGAAACAAAG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGACTACACTTATCTGATCAAGAAACAAAG
93658014 TGATAGGTG
66 TGATAGGTG
*
93658023 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGACTACACTTATCTGATCAAGAAACAAAG
93658088 TGATAGGTG
66 TGATAGGTG
*
93658097 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTGA
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGA
93658133 TCATACGTAA
Statistics
Matches: 107, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
72 12 0.11
73 5 0.05
74 90 0.84
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (74 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGACTACACTTATCTGATCAAGAAACAAAG
TGATAGGTG
Found at i:93660158 original size:42 final size:43
Alignment explanation
Indices: 93660107--93660212 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 43
93660097 CCTTATCAGT
*
93660107 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGTCTG-
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
** * * * * *
93660149 ATACGACACACGAGGTGCTTGATACGACACATGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-A
*
93660193 ATACAACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
93660213 GATCGATAAA
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 34 0.69
44 15 0.31
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.18
Consensus pattern (43 bp):
ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:93660201 original size:23 final size:22
Alignment explanation
Indices: 93660107--93660214 Score: 96
Period size: 21 Copynumber: 5.0 Consensus size: 22
93660097 CCTTATCAGT
* *
93660107 ATACGACACATAAAGTGCCT-A
1 ATACGACACATGAGGTGCCTGA
* * *
93660128 AAACGACACACGAGGTGTCTG-
1 ATACGACACATGAGGTGCCTGA
* *
93660149 ATACGACACACGAGGTGCTTG-
1 ATACGACACATGAGGTGCCTGA
93660170 ATACGACACATGAGGTGCCTGAA
1 ATACGACACATGAGGTGCCTG-A
* * *
93660193 ATACAACACATAAAGTGCCTGA
1 ATACGACACATGAGGTGCCTGA
93660215 TCGATAAAGC
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
21 52 0.73
22 1 0.01
23 18 0.25
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (22 bp):
ATACGACACATGAGGTGCCTGA
Found at i:93660607 original size:15 final size:15
Alignment explanation
Indices: 93660582--93660639 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
93660572 TCATGTATAT
93660582 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
93660598 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
93660613 AATAATTTCAATCAA
1 TATAAATTCAATCAA
93660628 TATAAATTCAAT
1 TATAAATTCAAT
93660640 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:93662850 original size:15 final size:16
Alignment explanation
Indices: 93662832--93662864 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
93662822 ATTAAATTGG
93662832 ATTAAATTAA-AATTA
1 ATTAAATTAAGAATTA
*
93662847 ATTATATTAAGAATTA
1 ATTAAATTAAGAATTA
93662863 AT
1 AT
93662865 ACACATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
ATTAAATTAAGAATTA
Found at i:93664388 original size:18 final size:18
Alignment explanation
Indices: 93664365--93664444 Score: 56
Period size: 18 Copynumber: 4.3 Consensus size: 18
93664355 AAATTATGAT
93664365 AATTATACATTTAAA-AAC
1 AATTATA-ATTTAAAGAAC
93664383 AATTATAATTTAATAGAAC
1 AATTATAATTTAA-AGAAC
* **
93664402 TTATTACCCATTTAAA-AAC
1 -AATTA-TAATTTAAAGAAC
* **
93664421 AATTAGAATTTAAATTAC
1 AATTATAATTTAAAGAAC
93664439 AATTAT
1 AATTAT
93664445 TAGTTAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
17 13 0.27
18 19 0.39
19 6 0.12
20 5 0.10
21 6 0.12
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTATAATTTAAAGAAC
Found at i:93664749 original size:22 final size:22
Alignment explanation
Indices: 93664724--93664766 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
93664714 GTTAAAAATG
*
93664724 TTTTA-ATTATTATTATTTGAAA
1 TTTTATATTA-TAATATTTGAAA
93664746 TTTTATATTATAATATTTGAA
1 TTTTATATTATAATATTTGAA
93664767 TTGTTAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (22 bp):
TTTTATATTATAATATTTGAAA
Found at i:93669325 original size:51 final size:51
Alignment explanation
Indices: 93669249--93669360 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 51
93669239 TACTTCATAC
* *
93669249 TTCATCCGGAATTATTATCTTGTTGCTCTAACTTCAATAAGAGCTTAATAT
1 TTCATCCGGAATAATTATCTTGTTGCTCTAACTTCAACAAGAGCTTAATAT
* * *
93669300 TTCATCCGGAATAATTA-CTTTGTTGCTCTAGCTTTAACAAGAGCTTCATAT
1 TTCATCCGGAATAATTATC-TTGTTGCTCTAACTTCAACAAGAGCTTAATAT
*
93669351 TTTATCCGGA
1 TTCATCCGGA
93669361 TAACTTAGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 1 0.02
51 53 0.98
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (51 bp):
TTCATCCGGAATAATTATCTTGTTGCTCTAACTTCAACAAGAGCTTAATAT
Found at i:93671042 original size:29 final size:29
Alignment explanation
Indices: 93671000--93671059 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
93670990 GCTTGGCCCA
93671000 TAATTATTATTTATTAAAATTTCTAAACT
1 TAATTATTATTTATTAAAATTTCTAAACT
93671029 TAATTATTATTTATTAAAATTTCTAAACT
1 TAATTATTATTTATTAAAATTTCTAAACT
93671058 TA
1 TA
93671060 CTCATTGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.52
Consensus pattern (29 bp):
TAATTATTATTTATTAAAATTTCTAAACT
Found at i:93673543 original size:20 final size:24
Alignment explanation
Indices: 93673502--93673562 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 24
93673492 AAAAGTTTTA
*
93673502 TTTATAATGT-AACAAATGTT-AAC
1 TTTATAA-GTAAAAAAATGTTAAAC
*
93673525 TTT-T-TGTAAAAAAAT-TTAAAC
1 TTTATAAGTAAAAAAATGTTAAAC
93673546 TTTATAAGTAAAAAAAT
1 TTTATAAGTAAAAAAAT
93673563 ATAAAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 4 0.13
21 12 0.39
22 2 0.06
23 13 0.42
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (24 bp):
TTTATAAGTAAAAAAATGTTAAAC
Found at i:93677582 original size:44 final size:44
Alignment explanation
Indices: 93677534--93677671 Score: 120
Period size: 44 Copynumber: 3.1 Consensus size: 44
93677524 TCCCTACTAC
93677534 TTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGT
1 TTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGT
* * * * ** * * * * *
93677578 TTAGGGAGATAAGATCTGTA-ATTTTTAG-CCTGTTACC-CTACTGC
1 TTAGGGGGTTAAG-GCT-CACCGTCTTCGATCTGCT-CCACTACTGT
*
93677622 TTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTAT
1 TTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGT
93677666 TTAGGG
1 TTAGGG
93677672 AGATAAGTTT
Statistics
Matches: 65, Mismatches: 23, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
42 1 0.02
43 8 0.12
44 47 0.72
45 8 0.12
46 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (44 bp):
TTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTACTGT
Found at i:93677608 original size:88 final size:88
Alignment explanation
Indices: 93677510--93677898 Score: 484
Period size: 88 Copynumber: 4.5 Consensus size: 88
93677500 GTGGCCTGTC
* *
93677510 ATTTTTAGCCTGTTTCCCTACTACTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTAC
1 ATTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTAC
* *
93677575 TGTTTAGGGAGATAAGATCTGTA
66 TATTTAGGGAGATAAGATCTATA
93677598 ATTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTAC
1 ATTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTAC
* *
93677663 TATTTAGGGAGATAAGTTTTATA
66 TATTTAGGGAGATAAGATCTATA
* * * *
93677686 ATTTTCT-GCTTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGCTGTCTTTGATCTGCTCCACTA
1 ATTTT-TAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTA
** *
93677750 CTATTTAAAGAGATAAGATCTATT
65 CTATTTAGGGAGATAAGATCTATA
** * ** **
93677774 ATTTCCATCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTATCTTCGATCTGCTCCACTAC
1 ATTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTAC
* *
93677839 TGTTTAGGG-G---AGATCT-TT
66 TATTTAGGGAGATAAGATCTATA
* * * *
93677857 ATTTTCCAACCTATTACCCTACCGCTTAGGGGGTTAAGGCTC
1 ATTTT-TAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTC
93677899 CACTACTGTA
Statistics
Matches: 268, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
83 6 0.02
84 38 0.14
87 1 0.00
88 222 0.83
89 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (88 bp):
ATTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCTGCTCCACTAC
TATTTAGGGAGATAAGATCTATA
Found at i:93677751 original size:44 final size:43
Alignment explanation
Indices: 93677703--93677848 Score: 98
Period size: 44 Copynumber: 3.3 Consensus size: 43
93677693 GCTTGTTACC
93677703 CTACTGCTTAGGGGGTTAAGGCTCGCTGTCTTTGATCTGCTCCA
1 CTACTGCTTAGGGGGTTAAGGCTCGCT-TCTTTGATCTGCTCCA
** ** * * * ** * * *
93677747 CTACTATTTAAAGAGATAA-GATCTATTATTTCCATCCTGTTACC-
1 CTACTGCTTAGGGGGTTAAGGCTCGCTTCTTT-GAT-CTGCT-CCA
* *
93677791 CTACTGCTTAGGGGGTTAAGGCTTGCTATCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGGTTAAGGCTCGCT-TCTTTGATCTGCTCCA
*
93677835 CTACTGTTTAGGGG
1 CTACTGCTTAGGGG
93677849 AGATCTTTAT
Statistics
Matches: 69, Mismatches: 27, Indels: 12
0.64 0.25 0.11
Matches are distributed among these distances:
42 4 0.06
43 8 0.12
44 47 0.68
45 7 0.10
46 3 0.04
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (43 bp):
CTACTGCTTAGGGGGTTAAGGCTCGCTTCTTTGATCTGCTCCA
Found at i:93684309 original size:24 final size:25
Alignment explanation
Indices: 93684282--93684330 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
93684272 GGCTTTAGGG
*
93684282 TTATTTAGGGC-TTGGATTTGAGTT
1 TTATTTAGGGCTTTAGATTTGAGTT
*
93684306 TTATTTTGGGCTTTAGATTTGAGTT
1 TTATTTAGGGCTTTAGATTTGAGTT
93684331 AAAAATAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.16, C:0.04, G:0.27, T:0.53
Consensus pattern (25 bp):
TTATTTAGGGCTTTAGATTTGAGTT
Found at i:93684471 original size:13 final size:13
Alignment explanation
Indices: 93684453--93684490 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
93684443 CATTATAATC
93684453 TATAAAA-AATTAT
1 TATAAAATAA-TAT
93684466 TATAAAATAATAT
1 TATAAAATAATAT
*
93684479 TATAAACTAATA
1 TATAAAATAATA
93684491 AAATATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 21 0.91
14 2 0.09
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (13 bp):
TATAAAATAATAT
Found at i:93684664 original size:22 final size:22
Alignment explanation
Indices: 93684637--93684679 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
93684627 TTAAGGATTA
93684637 TTTTGGT-ACTATAATTTAAATT
1 TTTTGGTAACTA-AATTTAAATT
*
93684659 TTTTGGTAACTAATTTTAAAT
1 TTTTGGTAACTAAATTTAAAT
93684680 AGTATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (22 bp):
TTTTGGTAACTAAATTTAAATT
Found at i:93685505 original size:7 final size:7
Alignment explanation
Indices: 93685493--93685522 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
93685483 AATTATAATT
93685493 AATTTAA
1 AATTTAA
93685500 AATTTAA
1 AATTTAA
93685507 AATTTAA
1 AATTTAA
93685514 AATATTAA
1 AAT-TTAA
93685522 A
1 A
93685523 GATAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AATTTAA
Found at i:93685513 original size:19 final size:19
Alignment explanation
Indices: 93685433--93685513 Score: 60
Period size: 19 Copynumber: 4.2 Consensus size: 19
93685423 TGTTAGTAAA
*
93685433 TAATTTAAAATTAAAAAATT
1 TAATTTAAAATT-TAAAATT
*
93685453 ATAA--TAATAATTTAAAAAAT
1 -TAATTTAA-AATTT-AAAATT
* *
93685473 TAATTCTAAAAATTATAA-T
1 TAATT-TAAAATTTAAAATT
93685492 TAATTTAAAATTTAAAATT
1 TAATTTAAAATTTAAAATT
93685511 TAA
1 TAA
93685514 AATATTAAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
18 10 0.21
19 16 0.33
20 12 0.25
21 7 0.15
22 3 0.06
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATTTAAAATTTAAAATT
Found at i:93687595 original size:17 final size:18
Alignment explanation
Indices: 93687551--93687597 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
93687541 TTTGAAATAA
93687551 AATAAAAATTATACATTT
1 AATAAAAATTATACATTT
93687569 AA-AAATAATTATA-ATTT
1 AATAAA-AATTATACATTT
*
93687586 AATAGAAATTAT
1 AATAAAAATTAT
93687598 GATAGTTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
AATAAAAATTATACATTT
Found at i:93687947 original size:23 final size:25
Alignment explanation
Indices: 93687893--93687951 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 25
93687883 TTGTATATTG
93687893 AATATGTTAAAAATGTTTTAATTAAT
1 AATAT-TTAAAAATGTTTTAATTAAT
* * *
93687919 ATTATTTGAAAAT-TTTTTATT-AT
1 AATATTTAAAAATGTTTTAATTAAT
93687942 AATATTTAAA
1 AATATTTAAA
93687952 TTGTTAAGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 10 0.36
24 7 0.25
25 7 0.25
26 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (25 bp):
AATATTTAAAAATGTTTTAATTAAT
Found at i:93690454 original size:11 final size:11
Alignment explanation
Indices: 93690427--93690469 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
93690417 TGACCTTTCC
93690427 AAGGTATGGG-
1 AAGGTATGGGA
*
93690437 TAGGTATGGGA
1 AAGGTATGGGA
*
93690448 AAGGTATGGGC
1 AAGGTATGGGA
93690459 AAGGTATGGGA
1 AAGGTATGGGA
93690470 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:93690466 original size:22 final size:21
Alignment explanation
Indices: 93690427--93690469 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
93690417 TGACCTTTCC
*
93690427 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
93690448 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
93690470 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:93694537 original size:18 final size:18
Alignment explanation
Indices: 93694514--93694588 Score: 107
Period size: 18 Copynumber: 4.2 Consensus size: 18
93694504 CCCAACTACT
*
93694514 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
93694532 GTATACGTGAATAGTTCC
1 GTATACGTGAATAGTACC
*
93694550 GTATACGTAAATAGTGA-C
1 GTATACGTGAATAGT-ACC
93694568 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
93694586 GTA
1 GTA
93694589 AACGGTCGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
17 1 0.02
18 49 0.98
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:93695148 original size:11 final size:11
Alignment explanation
Indices: 93695121--93695163 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
93695111 TGACCTTTCC
93695121 AAGGTATGGG-
1 AAGGTATGGGA
*
93695131 TAGGTATGGGA
1 AAGGTATGGGA
*
93695142 AAGGTATGGGC
1 AAGGTATGGGA
93695153 AAGGTATGGGA
1 AAGGTATGGGA
93695164 TATATTCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:93695160 original size:22 final size:21
Alignment explanation
Indices: 93695121--93695163 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
93695111 TGACCTTTCC
*
93695121 AAGGTATGGGTAGGTATGGGA
1 AAGGTATGGGAAGGTATGGGA
93695142 AAGGTATGGGCAAGGTATGGGA
1 AAGGTATGGG-AAGGTATGGGA
93695164 TATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.02, G:0.47, T:0.21
Consensus pattern (21 bp):
AAGGTATGGGAAGGTATGGGA
Found at i:93695808 original size:42 final size:42
Alignment explanation
Indices: 93695778--93695883 Score: 203
Period size: 42 Copynumber: 2.5 Consensus size: 42
93695768 GAATATCAAA
*
93695778 ATGGGTTGTTGAAATAATTATGTACCAAAATGGTACATTTAG
1 ATGGGTGGTTGAAATAATTATGTACCAAAATGGTACATTTAG
93695820 ATGGGTGGTTGAAATAATTATGTACCAAAATGGTACATTTAG
1 ATGGGTGGTTGAAATAATTATGTACCAAAATGGTACATTTAG
93695862 ATGGGTGGTTGAAATAATTATG
1 ATGGGTGGTTGAAATAATTATG
93695884 GCCTATTTAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.35
Consensus pattern (42 bp):
ATGGGTGGTTGAAATAATTATGTACCAAAATGGTACATTTAG
Found at i:93698816 original size:62 final size:62
Alignment explanation
Indices: 93698739--93698877 Score: 251
Period size: 62 Copynumber: 2.2 Consensus size: 62
93698729 TAAAACTTGT
* * *
93698739 AACTTTGTAATATAAATTTTGTTATATACATTAAATACATTACAACATTAAAAATTGGAATA
1 AACTTTGTAATATAAATTTTGTTATATAAATTAAAAACATTACAACATTAAAAATTGGAACA
93698801 AACTTTGTAATATAAATTTTGTTATATAAATTAAAAACATTACAACATTAAAAATTGGAACA
1 AACTTTGTAATATAAATTTTGTTATATAAATTAAAAACATTACAACATTAAAAATTGGAACA
93698863 AACTTTGTAATATAA
1 AACTTTGTAATATAA
93698878 TTTAGGTACA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 74 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.37
Consensus pattern (62 bp):
AACTTTGTAATATAAATTTTGTTATATAAATTAAAAACATTACAACATTAAAAATTGGAACA
Found at i:93698821 original size:14 final size:14
Alignment explanation
Indices: 93698798--93698832 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
93698788 AAAAATTGGA
*
93698798 ATAAACTTTGTAAT
1 ATAAATTTTGTAAT
*
93698812 ATAAATTTTGTTAT
1 ATAAATTTTGTAAT
93698826 ATAAATT
1 ATAAATT
93698833 AAAAACATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (14 bp):
ATAAATTTTGTAAT
Found at i:93700997 original size:18 final size:18
Alignment explanation
Indices: 93700971--93701008 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
93700961 ACTGAAGATG
93700971 CATTAATGT-TTCCATCGT
1 CATTAATGTCTT-CATCGT
*
93700989 CATTCATGTCTTCATCGT
1 CATTAATGTCTTCATCGT
93701007 CA
1 CA
93701009 ATATCATCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (18 bp):
CATTAATGTCTTCATCGT
Found at i:93706308 original size:62 final size:62
Alignment explanation
Indices: 93706229--93706381 Score: 218
Period size: 62 Copynumber: 2.5 Consensus size: 62
93706219 CCCGTGTAGC
* * *
93706229 TCACACGGCCTGGGCACATGCCTATGTCCATGCTCTTGTGGTCCTAAATCATAAACTA-TGAG
1 TCACACGGCCTGGGCACATGCCCATGTCCATGCTCGTGTAGTCCTAAATCATAAAC-AGTGAG
* *
93706291 TTACACGGCCTAGGCACATGCCCATGTCCATGCTCGTGTAGTCCTAAATCATAAACAGTGAG
1 TCACACGGCCTGGGCACATGCCCATGTCCATGCTCGTGTAGTCCTAAATCATAAACAGTGAG
* * *
93706353 TCACGCGGCCTGGGGACACGCCCATGTCC
1 TCACACGGCCTGGGCACATGCCCATGTCC
93706382 TTACCCGTGT
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
61 1 0.01
62 79 0.99
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.24
Consensus pattern (62 bp):
TCACACGGCCTGGGCACATGCCCATGTCCATGCTCGTGTAGTCCTAAATCATAAACAGTGAG
Found at i:93707574 original size:10 final size:10
Alignment explanation
Indices: 93707561--93707730 Score: 59
Period size: 10 Copynumber: 17.9 Consensus size: 10
93707551 ATTGATATAA
93707561 ATATATAAAT
1 ATATATAAAT
*
93707571 ATATTTTAAAT
1 ATA-TATAAAT
*
93707582 AT-TATAAAA
1 ATATATAAAT
*
93707591 ATATA-AAAA
1 ATATATAAAT
93707600 ACTA-ATAAAT
1 A-TATATAAAT
*
93707610 -TATATAAAA
1 ATATATAAAT
93707619 ATATA-AAAT
1 ATATATAAAT
93707628 -TA-ATAAA-
1 ATATATAAAT
*
93707635 ACATATTAAA-
1 ATATA-TAAAT
93707645 ATATATAACAT
1 ATATATAA-AT
* *
93707656 -TAGATAAAA
1 ATATATAAAT
*
93707665 ATTTATTAAA-
1 ATATA-TAAAT
*
93707675 ATTATATAAAA
1 A-TATATAAAT
93707686 ATATA-AAAT
1 ATATATAAAT
93707695 -TA-ATAAA-
1 ATATATAAAT
*
93707702 ACATATTAAA-
1 ATATA-TAAAT
93707712 ATATATAACAT
1 ATATATAA-AT
93707723 -TATATAAA
1 ATATATAAA
93707731 AATTTATTAA
Statistics
Matches: 122, Mismatches: 16, Indels: 45
0.67 0.09 0.25
Matches are distributed among these distances:
7 2 0.02
8 14 0.11
9 34 0.28
10 56 0.46
11 16 0.13
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.35
Consensus pattern (10 bp):
ATATATAAAT
Found at i:93707650 original size:28 final size:27
Alignment explanation
Indices: 93707588--93707798 Score: 83
Period size: 28 Copynumber: 7.5 Consensus size: 27
93707578 AAATATTATA
* * * *
93707588 AAAATATAAAAAACTAATAAATTATATA
1 AAAATATATAAAATTAATAAA-AATATT
*
93707616 AAAATATA-AAATT-AATAAAACATATT
1 AAAATATATAAAATTAATAAAA-ATATT
*
93707642 AAAATATATAACATTAGATAAAAATTTATT
1 AAAATATATAAAATTA-ATAAAAA--TATT
* * *
93707672 AAAATTATATAAAAAT-ATAAAATTAAT
1 AAAA-TATATAAAATTAATAAAAATATT
* * *
93707699 AAAACATATTAAAA-TATATAACATTATATA
1 AAAATATA-TAAAATTA-ATAA-A-AATATT
* *
93707729 AAAATTTATTAAAATTATATAAAAATCATA
1 AAAATATA-TAAAATTA-ATAAAAAT-ATT
* ** *
93707759 AAAAT-TATTAAATTGATATAAACTTATA
1 AAAATATATAAAATT-A-ATAAAAATATT
93707787 AAAAT-TATAAAA
1 AAAATATATAAAA
93707799 AAATCATAAA
Statistics
Matches: 146, Mismatches: 22, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
26 22 0.15
27 18 0.12
28 34 0.23
29 25 0.17
30 31 0.21
31 16 0.11
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (27 bp):
AAAATATATAAAATTAATAAAAATATT
Found at i:93707689 original size:67 final size:67
Alignment explanation
Indices: 93707606--93707770 Score: 294
Period size: 67 Copynumber: 2.4 Consensus size: 67
93707596 AAAAACTAAT
93707606 AAATTATATAAAAATATAAAATTAATAAAACATATTAAAATATATAACATTAGATAAAAATTTAT
1 AAATTATATAAAAATATAAAATTAATAAAACATATTAAAATATATAACATTAGATAAAAATTTAT
93707671 TA
66 TA
*
93707673 AAATTATATAAAAATATAAAATTAATAAAACATATTAAAATATATAACATTATATAAAAATTTAT
1 AAATTATATAAAAATATAAAATTAATAAAACATATTAAAATATATAACATTAGATAAAAATTTAT
93707738 TA
66 TA
*
93707740 AAATTATATAAAAATCATAAAAATTATTAAA
1 AAATTATATAAAAAT-AT-AAAATTAATAAA
93707771 TTGATATAAA
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
67 81 0.86
68 2 0.02
69 11 0.12
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.35
Consensus pattern (67 bp):
AAATTATATAAAAATATAAAATTAATAAAACATATTAAAATATATAACATTAGATAAAAATTTAT
TA
Found at i:93707770 original size:10 final size:10
Alignment explanation
Indices: 93707660--93707770 Score: 62
Period size: 10 Copynumber: 11.4 Consensus size: 10
93707650 TAACATTAGA
93707660 TAAAAATTTAT
1 TAAAAA-TTAT
93707671 T-AAAATTAT
1 TAAAAATTAT
93707680 ATAAAAA-TA-
1 -TAAAAATTAT
*
93707689 T-AAAATTAA
1 TAAAAATTAT
93707698 TAAAACA-TAT
1 TAAAA-ATTAT
93707708 T-AAAA-TA-
1 TAAAAATTAT
*
93707715 TATAACATTAT
1 TA-AAAATTAT
93707726 ATAAAAATTTAT
1 -TAAAAA-TTAT
93707738 T-AAAATTAT
1 TAAAAATTAT
*
93707747 ATAAAAATCA-
1 -TAAAAATTAT
93707757 TAAAAATTAT
1 TAAAAATTAT
93707767 TAAA
1 TAAA
93707771 TTGATATAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 31
0.69 0.04 0.27
Matches are distributed among these distances:
7 5 0.06
8 6 0.08
9 23 0.29
10 24 0.30
11 16 0.20
12 6 0.08
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:93707796 original size:67 final size:64
Alignment explanation
Indices: 93707582--93707799 Score: 235
Period size: 67 Copynumber: 3.3 Consensus size: 64
93707572 TATTTTAAAT
** *
93707582 ATTATAAAAA-TATAAAAAACTAAT-AAATTATATAAAAATATAAAATTAATAAAACATATTAA
1 ATTATAAAAATTATAAAAATTTATTAAAATTATATAAAAATATAAAATTAATAAAACATATTAA
* *
93707644 AATATATAACATTAGATAAAAATTTATTAAAATTATATAAAAATATAAAATTAATAAAACATATT
1 ATTATA-AAAATT--ATAAAAATTTATTAAAATTATATAAAAATATAAAATTAATAAAACATATT
93707709 AAA
63 -AA
* * * **
93707712 ATATATAACATTATATAAAAATTTATTAAAATTATATAAAAATCATAAAAATTATTAAATTGATA
1 AT-TATAAAAAT-TATAAAAATTTATTAAAATTATATAAAAAT-AT-AAAATTAATAAA-ACATA
93707777 -TAA
61 TTAA
93707780 ACTTATAAAAATTATAAAAA
1 A-TTATAAAAATTATAAAAA
93707800 AATCATAAAA
Statistics
Matches: 130, Mismatches: 14, Indels: 19
0.80 0.09 0.12
Matches are distributed among these distances:
62 5 0.04
63 3 0.02
64 1 0.01
66 10 0.08
67 73 0.56
68 17 0.13
69 18 0.14
70 3 0.02
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (64 bp):
ATTATAAAAATTATAAAAATTTATTAAAATTATATAAAAATATAAAATTAATAAAACATATTAA
Found at i:93707802 original size:48 final size:46
Alignment explanation
Indices: 93707659--93707810 Score: 148
Period size: 48 Copynumber: 3.2 Consensus size: 46
93707649 ATAACATTAG
* *
93707659 ATAAAAATTTATTAAAATTATATAAAAATATAAAATTA-ATAAAACAT-
1 ATAAAAA-TTATT-AAATTATATAAAATTATAAAATTATA-AAAAAATC
* *
93707706 ATTAAAA-TATATAACATTATATAAAAATTTATTAAAATTATATAAAAATC
1 ATAAAAATTAT-TAA-ATTATAT-AAAA-TTA-TAAAATTATAAAAAAATC
*
93707756 ATAAAAATTATTAAATTGATATAAACTTATAAAAATTATAAAAAAATC
1 ATAAAAATTATTAAATT-ATATAAAATTAT-AAAATTATAAAAAAATC
93707804 ATAAAAA
1 ATAAAAA
93707811 CTTGAATTGA
Statistics
Matches: 88, Mismatches: 7, Indels: 19
0.77 0.06 0.17
Matches are distributed among these distances:
45 5 0.06
46 8 0.09
47 11 0.12
48 28 0.32
49 19 0.22
50 14 0.16
51 3 0.03
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (46 bp):
ATAAAAATTATTAAATTATATAAAATTATAAAATTATAAAAAAATC
Found at i:93707810 original size:9 final size:9
Alignment explanation
Indices: 93707486--93707799 Score: 114
Period size: 9 Copynumber: 33.6 Consensus size: 9
93707476 GAAATAATTG
*
93707486 AAAAATCAT
1 AAAAATTAT
93707495 AAAAATTAT
1 AAAAATTAT
* *
93707504 TAAAA-TAG
1 AAAAATTAT
93707512 AAGAAATTAT
1 AA-AAATTAT
*
93707522 CAAAAAATAT
1 -AAAAATTAT
* *
93707532 TAATATT-T
1 AAAAATTAT
93707540 AAAAA--AT
1 AAAAATTAT
*
93707547 GAAAATTGAT
1 AAAAATT-AT
*
93707557 ATAAATATAT
1 AAAAAT-TAT
*
93707567 AAATATATTTT
1 AAA-A-ATTAT
*
93707578 AAATATTAT
1 AAAAATTAT
93707587 AAAAA-TAT
1 AAAAATTAT
93707595 AAAAA--ACT
1 AAAAATTA-T
93707603 AATAAATTAT
1 AA-AAATTAT
*
93707613 ATAAAAATAT
1 A-AAAATTAT
93707623 -AAAATTAAT
1 AAAAATT-AT
93707632 AAAACA-TAT
1 AAAA-ATTAT
*
93707641 TAAAA-TAT
1 AAAAATTAT
*
93707649 ATAACATTAGAT
1 A-AAAATT--AT
93707661 AAAAATTTAT
1 AAAAA-TTAT
*
93707671 TAAAATTAT
1 AAAAATTAT
*
93707680 ATAAAAATAT
1 A-AAAATTAT
93707690 -AAAATTAAT
1 AAAAATT-AT
93707699 AAAACA-TAT
1 AAAA-ATTAT
*
93707708 TAAAATATAT
1 AAAAAT-TAT
* *
93707718 AACATTATAT
1 AAAAAT-TAT
93707728 AAAAATTTATT
1 AAAAA-TTA-T
*
93707739 AAAATTATAT
1 AAAAAT-TAT
*
93707749 AAAAATCAT
1 AAAAATTAT
93707758 AAAAATTAT
1 AAAAATTAT
*
93707767 -TAAATTGAT
1 AAAAATT-AT
*
93707776 ATAAACTTAT
1 A-AAAATTAT
93707786 AAAAATTAT
1 AAAAATTAT
93707795 AAAAA
1 AAAAA
93707800 AATCATAAAA
Statistics
Matches: 227, Mismatches: 43, Indels: 70
0.67 0.13 0.21
Matches are distributed among these distances:
7 6 0.03
8 38 0.17
9 75 0.33
10 73 0.32
11 28 0.12
12 7 0.03
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:93708362 original size:28 final size:27
Alignment explanation
Indices: 93708292--93708367 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
93708282 AATACGTTTT
**
93708292 TTAATTTAAATATTTTAAATAAGCTTTA
1 TTAATTTTTATATTTT-AATAAGCTTTA
* *
93708320 CTAA-ATTTATAATTTTAATAAGCTTATA
1 TTAATTTTTAT-ATTTTAATAAGCTT-TA
93708348 TTAATTTTTATA-TTTAATAA
1 TTAATTTTTATATTTTAATAA
93708368 TTTTATTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
27 20 0.51
28 14 0.36
29 5 0.13
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (27 bp):
TTAATTTTTATATTTTAATAAGCTTTA
Found at i:93708403 original size:18 final size:19
Alignment explanation
Indices: 93708368--93708416 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
93708358 TATTTAATAA
*
93708368 TTTTATTTTTCT-ACTTTT
1 TTTTATTTTTATGACTTTT
93708386 TTTTATTTTTATGA-TTTT
1 TTTTATTTTTATGACTTTT
* *
93708404 TTATAATTTTATG
1 TTTTATTTTTATG
93708417 GGGAAAACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTTATTTTTATGACTTTT
Found at i:93708549 original size:30 final size:31
Alignment explanation
Indices: 93708513--93708572 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
93708503 GATAAAAATC
93708513 GTTAAC-AAATGAGCTTAATTGATTGTTTTA
1 GTTAACAAAATGAGCTTAATTGATTGTTTTA
*
93708543 GTTAACAAAATGAGCTTAATTGATTTTTTT
1 GTTAACAAAATGAGCTTAATTGATTGTTTT
93708573 TTTTGCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 6 0.21
31 22 0.79
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (31 bp):
GTTAACAAAATGAGCTTAATTGATTGTTTTA
Found at i:93709912 original size:23 final size:23
Alignment explanation
Indices: 93709869--93709915 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
93709859 AAAATAATCT
*
93709869 TATTTTTAATTAAATTTAATTAA
1 TATTTTTAATTAAATTAAATTAA
*
93709892 TATTTTTAA-TATATTCAAATTAA
1 TATTTTTAATTAAATT-AAATTAA
93709915 T
1 T
93709916 GATGTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTTTTAATTAAATTAAATTAA
Found at i:93717678 original size:20 final size:20
Alignment explanation
Indices: 93717637--93717678 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
93717627 ACCCATGTAG
* * *
93717637 TCCAAATATTTTCAACTTTT
1 TCCAAAAATTTTCAAATGTT
93717657 TCCAAAAATTTTCAAATGTT
1 TCCAAAAATTTTCAAATGTT
93717677 TC
1 TC
93717679 ATATTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.45
Consensus pattern (20 bp):
TCCAAAAATTTTCAAATGTT
Found at i:93718774 original size:13 final size:13
Alignment explanation
Indices: 93718758--93718786 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
93718748 ATCAATATAC
93718758 TTTTTA-AATAAT
1 TTTTTATAATAAT
93718770 TTTTTATAATAAT
1 TTTTTATAATAAT
93718783 TTTT
1 TTTT
93718787 AAATTATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTTATAATAAT
Found at i:93718948 original size:12 final size:12
Alignment explanation
Indices: 93718931--93718956 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
93718921 TACGTTTGGC
93718931 AAAAAAAAGAAA
1 AAAAAAAAGAAA
93718943 AAAAAAAAGAAA
1 AAAAAAAAGAAA
93718955 AA
1 AA
93718957 GAGAAGAGGC
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAA
Found at i:93726759 original size:97 final size:98
Alignment explanation
Indices: 93726629--93726824 Score: 367
Period size: 97 Copynumber: 2.0 Consensus size: 98
93726619 TCTAATTACC
93726629 TAAGTAGATTAAAAATAAGTATCTAATCACCTATCATATCAGCTTCCAGATCTGGTGGAATTTTC
1 TAAGTAGATTAAAAATAAGTATCTAATCACCTATCATATCAGCTTCCAGATCTGGTGGAATTTTC
93726694 TGTAATATTTAGATTTTCCCTGATTTTTGGTTT
66 TGTAATATTTAGATTTTCCCTGATTTTTGGTTT
*
93726727 TAAGTA-ATTAAAAATTAGTATCTAATCACCTATCATATCAGCTTCCAGATCTGGTGGAATTTTC
1 TAAGTAGATTAAAAATAAGTATCTAATCACCTATCATATCAGCTTCCAGATCTGGTGGAATTTTC
*
93726791 TGTAATATTTGGATTTTCCCTGATTTTTGGTTT
66 TGTAATATTTAGATTTTCCCTGATTTTTGGTTT
93726824 T
1 T
93726825 TATAAAATAT
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
97 90 0.94
98 6 0.06
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (98 bp):
TAAGTAGATTAAAAATAAGTATCTAATCACCTATCATATCAGCTTCCAGATCTGGTGGAATTTTC
TGTAATATTTAGATTTTCCCTGATTTTTGGTTT
Found at i:93733099 original size:73 final size:73
Alignment explanation
Indices: 93732980--93733128 Score: 298
Period size: 73 Copynumber: 2.0 Consensus size: 73
93732970 AAATCAAAGA
93732980 ATGTAGATGAAAACATCTTTGGCAATTGTCACTGGTGGATGAAAGCTCACTGCGAATGTTCACGA
1 ATGTAGATGAAAACATCTTTGGCAATTGTCACTGGTGGATGAAAGCTCACTGCGAATGTTCACGA
93733045 AATATTTT
66 AATATTTT
93733053 ATGTAGATGAAAACATCTTTGGCAATTGTCACTGGTGGATGAAAGCTCACTGCGAATGTTCACGA
1 ATGTAGATGAAAACATCTTTGGCAATTGTCACTGGTGGATGAAAGCTCACTGCGAATGTTCACGA
93733118 AATATTTT
66 AATATTTT
93733126 ATG
1 ATG
93733129 GATGTCAACT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 76 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (73 bp):
ATGTAGATGAAAACATCTTTGGCAATTGTCACTGGTGGATGAAAGCTCACTGCGAATGTTCACGA
AATATTTT
Found at i:93742363 original size:24 final size:25
Alignment explanation
Indices: 93742338--93742420 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 25
93742328 AATAAAAATA
93742338 TAATTTTATTATTTTAATAGTTTA-
1 TAATTTTATTATTTTAATAGTTTAT
*
93742362 T-ATCTTTA-TATTTTTAATAGATTAAAT
1 TAAT-TTTATTA-TTTTAATAG-TT-TAT
*
93742389 TATTTTTTATTATTTTAATA--TTAT
1 TA-ATTTTATTATTTTAATAGTTTAT
93742413 TAATTTTA
1 TAATTTTA
93742421 AATTTCATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 17
0.69 0.06 0.25
Matches are distributed among these distances:
23 9 0.19
24 18 0.38
25 3 0.06
26 1 0.02
27 1 0.02
28 12 0.26
29 3 0.06
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (25 bp):
TAATTTTATTATTTTAATAGTTTAT
Done.