Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 110 of 136
Found at i:37202655 original size:11 final size:11
Alignment explanation
Indices: 37202639--37202672 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
37202629 ATGCAAGTTC
37202639 AAAAACAAAAA
1 AAAAACAAAAA
37202650 AAAAACAAAAA
1 AAAAACAAAAA
37202661 AATAAA-AAAAA
1 AA-AAACAAAAA
37202672 A
1 A
37202673 TTAATGAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 19 0.86
12 3 0.14
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:37203661 original size:18 final size:18
Alignment explanation
Indices: 37203635--37203751 Score: 85
Period size: 18 Copynumber: 6.3 Consensus size: 18
37203625 TAAAATTCAA
37203635 TAAAATTTATAAAAATAT
1 TAAAATTTATAAAAATAT
*
37203653 TAAATTTTAATAAAACAT-T
1 TAAAATTT-ATAAAA-ATAT
*
37203672 TAAAATTTATTAAAAATAGA
1 TAAAATTTA-TAAAAATA-T
* * **
37203692 AAAAAATTATAAAAATCG
1 TAAAATTTATAAAAATAT
**
37203710 TAAAAAATATAAAAAT-T
1 TAAAATTTATAAAAATAT
*
37203727 GTAAAATTTAGAAAAATCAT
1 -TAAAATTTATAAAAAT-AT
37203747 TAAAA
1 TAAAA
37203752 AATATAAAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
18 37 0.47
19 31 0.40
20 10 0.13
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
TAAAATTTATAAAAATAT
Found at i:37203665 original size:19 final size:19
Alignment explanation
Indices: 37203635--37203689 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
37203625 TAAAATTCAA
37203635 TAAAATTT-ATAAAAATAT
1 TAAAATTTAATAAAAATAT
*
37203653 TAAATTTTAATAAAACAT-T
1 TAAAATTTAATAAAA-ATAT
*
37203672 TAAAATTTATTAAAAATA
1 TAAAATTTAATAAAAATA
37203690 GAAAAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 9 0.29
19 20 0.65
20 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAATTTAATAAAAATAT
Found at i:37203704 original size:19 final size:18
Alignment explanation
Indices: 37203682--37203725 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
37203672 TAAAATTTAT
37203682 TAAAAATAGAAAAAAATTA
1 TAAAAATAGAAAAAAA-TA
* *
37203701 TAAAAATCGTAAAAAATA
1 TAAAAATAGAAAAAAATA
37203719 TAAAAAT
1 TAAAAAT
37203726 TGTAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (18 bp):
TAAAAATAGAAAAAAATA
Found at i:37213472 original size:1 final size:1
Alignment explanation
Indices: 37213466--37213490 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
37213456 TGTCCCACGC
37213466 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
37213491 TTTTTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:37213524 original size:1 final size:1
Alignment explanation
Indices: 37213491--37213516 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
37213481 AAAAAAAAAA
37213491 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
37213517 GGTTTTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:37214448 original size:28 final size:28
Alignment explanation
Indices: 37214408--37214472 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
37214398 TATTCACATG
*
37214408 TTTATTTATTTTAAATTAAT-TATATAAT
1 TTTATTTATTTT-AATTAATGTAAATAAT
37214436 TTTATTT-TATTTAATTAATGTAAATAAT
1 TTTATTTAT-TTTAATTAATGTAAATAAT
*
37214464 AATTATTTA
1 -TTTATTTA
37214473 AAATACATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 8 0.26
28 17 0.55
29 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
TTTATTTATTTTAATTAATGTAAATAAT
Found at i:37220366 original size:30 final size:30
Alignment explanation
Indices: 37220311--37220372 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
37220301 CACTAAGCAA
37220311 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
37220340 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
37220371 GT
1 GT
37220373 ATCTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:37220549 original size:25 final size:25
Alignment explanation
Indices: 37220521--37220585 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
37220511 TCCTATTCAT
* *
37220521 GTATGCTCATACGAGCTATGAATCG
1 GTATGCTCATACGAGCTATAAATCA
*
37220546 GTATACTC-TCACGAGCTATAAATCA
1 GTATGCTCAT-ACGAGCTATAAATCA
*
37220571 GTACGCTCATACGAG
1 GTATGCTCATACGAG
37220586 TTGAGAATCG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
24 1 0.03
25 31 0.94
26 1 0.03
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATAAATCA
Found at i:37220603 original size:25 final size:25
Alignment explanation
Indices: 37220575--37220643 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
37220565 AAATCAGTAC
*
37220575 GCTCATACGAGTTGAGAATCGATAA
1 GCTCATACGAGCTGAGAATCGATAA
* * *
37220600 GCTC-TCACGAGCTG-CAATTGGTAA
1 GCTCAT-ACGAGCTGAGAATCGATAA
*
37220624 GCTCATACAAGCTGAGAATC
1 GCTCATACGAGCTGAGAATC
37220644 AGTAATCCCT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
24 19 0.56
25 15 0.44
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGATAA
Found at i:37228966 original size:18 final size:16
Alignment explanation
Indices: 37228934--37228967 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
37228924 ATCATCTCCC
37228934 GAATAAAATAAAGAAA
1 GAATAAAATAAAGAAA
37228950 GAATAAGAATCAAAGAAA
1 GAATAA-AAT-AAAGAAA
37228968 AGGCAGCGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.71, C:0.03, G:0.15, T:0.12
Consensus pattern (16 bp):
GAATAAAATAAAGAAA
Found at i:37247021 original size:15 final size:15
Alignment explanation
Indices: 37247001--37247029 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
37246991 GTCACATCCC
37247001 AGAAATTGGGTTAGA
1 AGAAATTGGGTTAGA
37247016 AGAAATTGGGTTAG
1 AGAAATTGGGTTAG
37247030 TGAACTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.34, T:0.28
Consensus pattern (15 bp):
AGAAATTGGGTTAGA
Found at i:37251718 original size:19 final size:19
Alignment explanation
Indices: 37251686--37251724 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
37251676 CTTGTCGCCC
**
37251686 CATCTTTCCCTTTTTATCT
1 CATCTTTCAATTTTTATCT
*
37251705 CATCTTTCAATTTTTCTCT
1 CATCTTTCAATTTTTATCT
37251724 C
1 C
37251725 TATTTTCTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.31, G:0.00, T:0.56
Consensus pattern (19 bp):
CATCTTTCAATTTTTATCT
Found at i:37255062 original size:44 final size:43
Alignment explanation
Indices: 37254923--37255055 Score: 128
Period size: 42 Copynumber: 3.1 Consensus size: 43
37254913 GTCTTTAGTT
* * * *
37254923 TAGCGGCGCTTTTTCTACAAACGCCACTAATGAACATGGTCTA
1 TAGCAGCGCTTTTTCTACAAACGCCACTAAAGAACATGTTTTA
* ** *
37254966 TAGCAGCGCTTTTT-TACAAATGCTGCTAAGGAACAT-TATCTT-
1 TAGCAGCGCTTTTTCTACAAACGCCACTAAAGAACATGT-T-TTA
* *
37255008 TAGCAGCGTTTTTTTCTACAAACGCCACTAAAGATCATGTTTTA
1 TAGCAGCG-CTTTTTCTACAAACGCCACTAAAGAACATGTTTTA
37255052 TAGC
1 TAGC
37255056 GGCGTTTATA
Statistics
Matches: 71, Mismatches: 13, Indels: 11
0.75 0.14 0.12
Matches are distributed among these distances:
42 27 0.38
43 21 0.30
44 22 0.31
45 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (43 bp):
TAGCAGCGCTTTTTCTACAAACGCCACTAAAGAACATGTTTTA
Found at i:37262909 original size:25 final size:25
Alignment explanation
Indices: 37262875--37262940 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
37262865 AAAAACTTAC
* *
37262875 ACGGCGATGCAGTAGAGGACTATTG
1 ACGGCGATGCAGCAGAGGACTATCG
*
37262900 ACGGCGATGCAGCAGAGGACTGTCG
1 ACGGCGATGCAGCAGAGGACTATCG
*
37262925 ACGGCGATGTAGCAGA
1 ACGGCGATGCAGCAGA
37262941 CGTTGGGGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.27, C:0.20, G:0.38, T:0.15
Consensus pattern (25 bp):
ACGGCGATGCAGCAGAGGACTATCG
Found at i:37263041 original size:20 final size:21
Alignment explanation
Indices: 37262994--37263042 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
37262984 GGAAAAGATG
37262994 TTGGGGAAAAAAGTAAGGGAAT
1 TTGGGG-AAAAAGTAAGGGAAT
* * *
37263016 TGGGGGAAAAA-TTAGGGATT
1 TTGGGGAAAAAGTAAGGGAAT
37263036 TTGGGGA
1 TTGGGGA
37263043 GAGGAACTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 13 0.57
21 5 0.22
22 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.41, T:0.22
Consensus pattern (21 bp):
TTGGGGAAAAAGTAAGGGAAT
Found at i:37265694 original size:17 final size:18
Alignment explanation
Indices: 37265672--37265711 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
37265662 CTTAAAAATT
*
37265672 AAAAATT-AAAAAGTAAA
1 AAAAATTCAAAAACTAAA
37265689 AAAAATTCAAAAACTAAA
1 AAAAATTCAAAAACTAAA
37265707 AAAAA
1 AAAAA
37265712 AATTCAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAAATTCAAAAACTAAA
Found at i:37265713 original size:24 final size:24
Alignment explanation
Indices: 37265665--37265713 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
37265655 AGTGATTCTT
* *
37265665 AAAAATTAAAAATTAAAAAGTAAA
1 AAAAATTAAAAACTAAAAAGAAAA
37265689 AAAAATTCAAAAACTAAAAA-AAAA
1 AAAAATT-AAAAACTAAAAAGAAAA
37265713 A
1 A
37265714 TTCAAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (24 bp):
AAAAATTAAAAACTAAAAAGAAAA
Found at i:37266061 original size:81 final size:81
Alignment explanation
Indices: 37265976--37266152 Score: 196
Period size: 81 Copynumber: 2.2 Consensus size: 81
37265966 CGTTTATGAC
* * * *
37265976 AAAAACGCTGCAAAAGGTCAAGCATTAGCGGCG-TTTCTAAAACAAACGTCGCTATAGGTTGAGC
1 AAAAACGCTGCAAAAGATCAAGCATTAGCAGCGCTTT-TAAAA-AAACGCCGCTATAGATTGAGC
*
37266040 ATTAGCATCGCTTTTT-G
64 ATTAGCAGCGCTTTTTCG
* * * * * *
37266057 AAAAACGCCGCTATAGATCGAGCATTAGCAGCGCTTTTCAAAAAATGCCGCTATAGATTGAGCAT
1 AAAAACGCTGCAAAAGATCAAGCATTAGCAGCGCTTTTAAAAAAACGCCGCTATAGATTGAGCAT
*
37266122 TAGCGGCGCTTTTTCG
66 TAGCAGCGCTTTTTCG
* *
37266138 GAAAACACTGCAAAA
1 AAAAACGCTGCAAAA
37266153 AAGTTGAGCA
Statistics
Matches: 77, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
80 32 0.42
81 42 0.55
82 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (81 bp):
AAAAACGCTGCAAAAGATCAAGCATTAGCAGCGCTTTTAAAAAAACGCCGCTATAGATTGAGCAT
TAGCAGCGCTTTTTCG
Found at i:37266069 original size:40 final size:40
Alignment explanation
Indices: 37265996--37266135 Score: 165
Period size: 40 Copynumber: 3.5 Consensus size: 40
37265986 CAAAAGGTCA
* * * *
37265996 AGCATTAGCGGCG-TTTCTAAAACAAACGTCGCTATAGGTTG
1 AGCATTAGCAGCGCTTT-TTAAA-AAACGCCGCTATAGATTG
* * *
37266037 AGCATTAGCATCGCTTTTTGAAAAACGCCGCTATAGATCG
1 AGCATTAGCAGCGCTTTTTAAAAAACGCCGCTATAGATTG
* *
37266077 AGCATTAGCAGCGCTTTTCAAAAAATGCCGCTATAGATTG
1 AGCATTAGCAGCGCTTTTTAAAAAACGCCGCTATAGATTG
*
37266117 AGCATTAGCGGCGCTTTTT
1 AGCATTAGCAGCGCTTTTT
37266136 CGGAAAACAC
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
40 67 0.80
41 14 0.17
42 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (40 bp):
AGCATTAGCAGCGCTTTTTAAAAAACGCCGCTATAGATTG
Found at i:37266655 original size:156 final size:155
Alignment explanation
Indices: 37266170--37266657 Score: 536
Period size: 156 Copynumber: 3.1 Consensus size: 155
37266160 GCAAAACAAG
* * * * *
37266170 TGAGCTTTAGTGGCATTAGCGGCACTTTTT-AAAAATCGCCGCAATAGATCGAGCATTAGCGGCG
1 TGAGCTTTAGTGGCATTAGCAGCGCTTTTTAAAAAAT-GCTGAAATAGATCGAGAATTAGCGGCG
* * * * * *
37266234 ATAT-TAGAAAAACGCCACTATAGATCGAGCATTAGCGGTACTTTTTGGAAAATACCGCAAAAAA
65 CT-TGTAGAAAAACGCCACTATAGATCGAGCATTAGCGGCATTTTTTGAAAAATGCCACAAAAAA
*
37266298 GTTGAGCAAAATGACATCGTTTGTTGT
129 GTTGAGCAAAACGACATCGTTTGTTGT
* * * *
37266325 TGAGCTTTAGTGGCATTGGCAGCGCTTTTTAAAAAATGCTGCAATAAATCGAGAATTAGCGGCAC
1 TGAGCTTTAGTGGCATTAGCAGCGCTTTTTAAAAAATGCTGAAATAGATCGAGAATTAGCGGCGC
* * *
37266390 TTTGTCGAAAAACGCCTCTATAGATCGAGCATTAGCGGCATTTTTCGAAAAAATGCCACAAAAAA
66 -TTGTAGAAAAACGCCACTATAGATCGAGCATTAGCGGCATTTTTTG-AAAAATGCCACAAAAAA
*
37266455 GTTGAGCAAAACGACGTCGTTTGTTGT
129 GTTGAGCAAAACGACATCGTTTGTTGT
* ** *
37266482 TGAGCTTTAGTGGCATTAGCTTTGCTTTTTTTTAAAAACAT-C-GAAATAGATTGAGAATTAGCG
1 TGAGCTTTAGTGGCATTAGC--AGC-GCTTTTTAAAAA-ATGCTGAAATAGATCGAGAATTAGCG
* * * * * * * * *
37266545 GCGCTTGTTGAAAAATGCCGCTATAGATCGAGCATTAGTGGCGTTTTTTGTAAAACGCAATAAAA
62 GCGCTTGTAGAAAAACGCCACTATAGATCGAGCATTAGCGGCATTTTTTGAAAAATGCCACAAAA
* * *
37266610 AAGTTAAG-AAAACGACCTCGTTTGTTCT
127 AAGTTGAGCAAAACGACATCGTTTGTTGT
*
37266638 CGAGCTTTAGTGGCATTAGC
1 TGAGCTTTAGTGGCATTAGC
37266658 GGCATTTTTA
Statistics
Matches: 285, Mismatches: 40, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
155 51 0.18
156 82 0.29
157 76 0.27
158 40 0.14
159 23 0.08
160 11 0.04
161 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (155 bp):
TGAGCTTTAGTGGCATTAGCAGCGCTTTTTAAAAAATGCTGAAATAGATCGAGAATTAGCGGCGC
TTGTAGAAAAACGCCACTATAGATCGAGCATTAGCGGCATTTTTTGAAAAATGCCACAAAAAAGT
TGAGCAAAACGACATCGTTTGTTGT
Found at i:37266776 original size:29 final size:29
Alignment explanation
Indices: 37266708--37266777 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
37266698 TAGGGTTTAG
*
37266708 GGTTTATTA-TTTAAGGTTTAATGTTTAT
1 GGTTTATTATTTTAAGGTTTAATGTTAAT
**
37266736 GGTTTAGGATTTTAAGGTTT-ATGATATAAT
1 GGTTTATTATTTTAAGGTTTAATG-T-TAAT
37266766 -GTTTATTATTTT
1 GGTTTATTATTTT
37266778 GGGATTAGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
28 10 0.29
29 21 0.62
30 3 0.09
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.56
Consensus pattern (29 bp):
GGTTTATTATTTTAAGGTTTAATGTTAAT
Found at i:37266799 original size:14 final size:14
Alignment explanation
Indices: 37266782--37266826 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
37266772 TATTTTGGGA
37266782 TTAGAGTTT-TGAGT
1 TTAGAGTTTATG-GT
*
37266796 TTAGGGTTTATGGT
1 TTAGAGTTTATGGT
37266810 TTAGAGTTTATGGT
1 TTAGAGTTTATGGT
37266824 TTA
1 TTA
37266827 TGGTTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 26 0.93
15 2 0.07
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (14 bp):
TTAGAGTTTATGGT
Found at i:37266804 original size:7 final size:7
Alignment explanation
Indices: 37266794--37266832 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
37266784 AGAGTTTTGA
*
37266794 GTTTAGG
1 GTTTATG
37266801 GTTTATG
1 GTTTATG
37266808 GTTTA-G
1 GTTTATG
37266814 AGTTTATG
1 -GTTTATG
37266822 GTTTATG
1 GTTTATG
37266829 GTTT
1 GTTT
37266833 TATAGTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 1 0.03
7 27 0.93
8 1 0.03
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (7 bp):
GTTTATG
Found at i:37267158 original size:7 final size:7
Alignment explanation
Indices: 37267023--37267207 Score: 106
Period size: 7 Copynumber: 26.4 Consensus size: 7
37267013 TATATTTTGA
*
37267023 GGTTTAA
1 GGTTTAG
37267030 GGTTTAG
1 GGTTTAG
*
37267037 GGTTTAT
1 GGTTTAG
*
37267044 GATTTAG
1 GGTTTAG
* *
37267051 TGTTAAG
1 GGTTTAG
*
37267058 AGTTTAG
1 GGTTTAG
* *
37267065 TGTTTAC
1 GGTTTAG
*
37267072 GATTTAG
1 GGTTTAG
*
37267079 GGTGTA-
1 GGTTTAG
*
37267085 GGTTTAT
1 GGTTTAG
37267092 GGTTTAG
1 GGTTTAG
*
37267099 TGTTTAG
1 GGTTTAG
* *
37267106 GATTTAT
1 GGTTTAG
37267113 GGTTTAG
1 GGTTTAG
*
37267120 TGG-TTAT
1 -GGTTTAG
37267127 GGTTTAG
1 GGTTTAG
*
37267134 GGGTTAGG
1 GGTTTA-G
*
37267142 GGCTTAG
1 GGTTTAG
37267149 GGTTTAG
1 GGTTTAG
*
37267156 GGTTTAA
1 GGTTTAG
* *
37267163 AGTTTAT
1 GGTTTAG
*
37267170 GATTTAGG
1 GGTTTA-G
*
37267178 GGCTTAG
1 GGTTTAG
37267185 GGTTTA-
1 GGTTTAG
*
37267191 TGTTTAG
1 GGTTTAG
*
37267198 TGTTTAG
1 GGTTTAG
37267205 GGT
1 GGT
37267208 CTGATTTTAA
Statistics
Matches: 132, Mismatches: 40, Indels: 12
0.72 0.22 0.07
Matches are distributed among these distances:
6 12 0.09
7 108 0.82
8 12 0.09
ACGTcount: A:0.19, C:0.02, G:0.34, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:37267177 original size:28 final size:27
Alignment explanation
Indices: 37267145--37267207 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
37267135 GGTTAGGGGC
37267145 TTAGGGTTTAGGGTTTAAAGTTTA-TGAT
1 TTAGGGTTTAGGGTTT-AAGTTTAGTG-T
* *
37267173 TTAGGGGCTTAGGGTTTATGTTTAGTGT
1 TTA-GGGTTTAGGGTTTAAGTTTAGTGT
37267201 TTAGGGT
1 TTAGGGT
37267208 CTGATTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 3 0.10
28 13 0.43
29 14 0.47
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.46
Consensus pattern (27 bp):
TTAGGGTTTAGGGTTTAAGTTTAGTGT
Found at i:37275881 original size:30 final size:31
Alignment explanation
Indices: 37275821--37275889 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
37275811 GTCCTTATAC
* *
37275821 TTTAATTTGATTAATTTTAATCTTTGTATTT
1 TTTAATTAGATTAATTTTAATCCTTGTATTT
*
37275852 TTTAATTAG-TTAATTTTAGTCCCTT-TATTT
1 TTTAATTAGATTAATTTTAAT-CCTTGTATTT
37275882 TTCTAATT
1 TT-TAATT
37275890 TTGAAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.25, C:0.07, G:0.06, T:0.62
Consensus pattern (31 bp):
TTTAATTAGATTAATTTTAATCCTTGTATTT
Found at i:37285387 original size:53 final size:53
Alignment explanation
Indices: 37285303--37285514 Score: 239
Period size: 53 Copynumber: 4.0 Consensus size: 53
37285293 CAATTGCATT
* * * * * *
37285303 GAAGACCATATCATGTAAGATCGTAATTGGTGGGTTATGACACCATAAGAAAA
1 GAAGACCATATCATGTAAGACCGTAACTGGTAGGTTATGACATCATATGGAAA
**
37285356 GAAGACCATATCATGTAAGATTGTAACTGGT-GGATTATGACATCATATGGAAA
1 GAAGACCATATCATGTAAGACCGTAACTGGTAGG-TTATGACATCATATGGAAA
** * *
37285409 GAAGACCATATTGTGTTAGACCATAACTGGTAGGTTATTG-CATCATATGGAAA
1 GAAGACCATATCATGTAAGACCGTAACTGGTAGGTTA-TGACATCATATGGAAA
* * * * *
37285462 GAATACCATATCGTGTAAGACCGTAACTGATAGGTTATGGCATTATATGGAAA
1 GAAGACCATATCATGTAAGACCGTAACTGGTAGGTTATGACATCATATGGAAA
37285515 ATTTAAGGAA
Statistics
Matches: 138, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
52 4 0.03
53 130 0.94
54 4 0.03
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (53 bp):
GAAGACCATATCATGTAAGACCGTAACTGGTAGGTTATGACATCATATGGAAA
Found at i:37288297 original size:15 final size:15
Alignment explanation
Indices: 37288279--37288308 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37288269 ATCTTGTGGC
37288279 AAAAAGAAGAAGAAA
1 AAAAAGAAGAAGAAA
37288294 AAAAAGAAGAAGAAA
1 AAAAAGAAGAAGAAA
37288309 GATATGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAAAGAAGAAGAAA
Found at i:37293839 original size:141 final size:142
Alignment explanation
Indices: 37293658--37293941 Score: 552
Period size: 141 Copynumber: 2.0 Consensus size: 142
37293648 TTTTTTTTAA
37293658 TTATAAAATATTTTTAATACATATTTTTGGACCGTCCATGGTTGGAAAATATTATTAGACTTGCT
1 TTATAAAATA-TTTTAATACATATTTTTGGACCGTCCATGGTTGGAAAATATTATTAGACTTGCT
37293723 CTTGATCACTTGATGCGAAATTTGCCCCAACGGTTCAAGCCTATCAAGGTGATTGCCGGTCTAAT
65 CTTGATCACTTGATGCGAAATTTGCCCCAACGGTTCAAGCCTATCAAGGTGATTGCCGGTCTAAT
37293788 TTTCATCATTTGT
130 TTTCATCATTTGT
37293801 TTATAAAATA-TTTAATACATATTTTTGGACCGTCCATGGTTGGAAAATATTATTAGACTTGCTC
1 TTATAAAATATTTTAATACATATTTTTGGACCGTCCATGGTTGGAAAATATTATTAGACTTGCTC
37293865 TTGATCACTTGATGCGAAATTTGCCCCAACGGTTCAAGCCTATCAAGGTGATTGCCGGTCTAATT
66 TTGATCACTTGATGCGAAATTTGCCCCAACGGTTCAAGCCTATCAAGGTGATTGCCGGTCTAATT
37293930 TTCATCATTTGT
131 TTCATCATTTGT
37293942 GCAAAATTAT
Statistics
Matches: 141, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
141 131 0.93
143 10 0.07
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (142 bp):
TTATAAAATATTTTAATACATATTTTTGGACCGTCCATGGTTGGAAAATATTATTAGACTTGCTC
TTGATCACTTGATGCGAAATTTGCCCCAACGGTTCAAGCCTATCAAGGTGATTGCCGGTCTAATT
TTCATCATTTGT
Found at i:37298693 original size:18 final size:18
Alignment explanation
Indices: 37298672--37298738 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
37298662 GTTTGTCAAT
*
37298672 TTAATACAGTTCGCCATA
1 TTAATACAATTCGCCATA
* * *
37298690 TTAATACAAATCACCAAA
1 TTAATACAATTCGCCATA
* * *
37298708 TTAACACAGTTTGCCATA
1 TTAATACAATTCGCCATA
*
37298726 ATAATACAATTCG
1 TTAATACAATTCG
37298739 TCAAGTTAAC
Statistics
Matches: 35, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (18 bp):
TTAATACAATTCGCCATA
Found at i:37298748 original size:36 final size:36
Alignment explanation
Indices: 37298666--37298755 Score: 99
Period size: 36 Copynumber: 2.5 Consensus size: 36
37298656 TAGATAGTTT
* * *
37298666 GTCAATTTAATACAGTTCGCCATATTAATACAAATC
1 GTCAAATTAACACAGTTCGCCATAATAATACAAATC
** * *
37298702 ACCAAATTAACACAGTTTGCCATAATAATACAATTC
1 GTCAAATTAACACAGTTCGCCATAATAATACAAATC
* *
37298738 GTCAAGTTAACATAGTTC
1 GTCAAATTAACACAGTTC
37298756 ACAATATAAC
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (36 bp):
GTCAAATTAACACAGTTCGCCATAATAATACAAATC
Found at i:37303456 original size:25 final size:25
Alignment explanation
Indices: 37303423--37303470 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
37303413 CGAATCAATG
37303423 AAAAGGTTGAAAAGGATGTTATCTA
1 AAAAGGTTGAAAAGGATGTTATCTA
37303448 AAAAGGTTGAAAAGGATGTTATC
1 AAAAGGTTGAAAAGGATGTTATC
37303471 CAGAAGGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.25, T:0.27
Consensus pattern (25 bp):
AAAAGGTTGAAAAGGATGTTATCTA
Found at i:37305346 original size:85 final size:85
Alignment explanation
Indices: 37305203--37305396 Score: 307
Period size: 85 Copynumber: 2.3 Consensus size: 85
37305193 CTAAAAACAT
* * *
37305203 TGTGGTTTATTCATGAACCAAGTGGCAGTTTGTTTAATCTGCAAATATGTTGTGCACCCACAACA
1 TGTGGTTTAATCATGAACCAAGTGGCAGTTTGTGTAATCTGCAAATATGTTGTGCACCCAAAACA
*
37305268 AGTGGCAGTAACTGCAAGTA
66 AGTGGCAGTAACTGCAAATA
* *
37305288 TGTGGTTTAATCATGAACCAAGTGGGAGTTTGTGTAATCTGCAAATATGTTGTGCACCCAAAATA
1 TGTGGTTTAATCATGAACCAAGTGGCAGTTTGTGTAATCTGCAAATATGTTGTGCACCCAAAACA
*
37305353 AGTTGCAGTAACTGCAAATA
66 AGTGGCAGTAACTGCAAATA
* *
37305373 TGTGGTTCAATCACGAACCAAGTG
1 TGTGGTTTAATCATGAACCAAGTG
37305397 ACTGCTTTTT
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 100 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (85 bp):
TGTGGTTTAATCATGAACCAAGTGGCAGTTTGTGTAATCTGCAAATATGTTGTGCACCCAAAACA
AGTGGCAGTAACTGCAAATA
Found at i:37308385 original size:9 final size:9
Alignment explanation
Indices: 37308354--37308386 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
37308344 TTTTTTCTTC
*
37308354 TATTTTTCT
1 TATTTCTCT
37308363 TATTT-TCT
1 TATTTCTCT
37308371 TATTTCTCT
1 TATTTCTCT
37308380 TATTTCT
1 TATTTCT
37308387 GCCGATTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (9 bp):
TATTTCTCT
Found at i:37316976 original size:607 final size:608
Alignment explanation
Indices: 37315823--37317036 Score: 2196
Period size: 607 Copynumber: 2.0 Consensus size: 608
37315813 GGATCCATTG
* *
37315823 ACCAAGTCCGCTCAATTTATTCTTGTTCAGATGGACTACTCTCTGCAAAAGTTAGTAAAGCTCTA
1 ACCAAGTCCGCTCAATTTATTCCTGTTCAGATGGACTACTCTATGCAAAAGTTAGTAAAGCTCTA
* *
37315888 CATTTCTGAGATTGTAAGACTGTATGGGGTTCTAATTTCAATAATCTCTGATATGGATCCTCTCT
66 CATTTCTGAGATTGTAAGACTGCATGGGGTTCCAATTTCAATAATCTCTGATATGGATCCTCTCT
* * * *
37315953 TCACTTCACGGTTCTAGAAGAAACTTTACAAGGCTCTGGGTTCGAGATTGGACTTCAGTATTGCG
131 TCACTTCACGGTTCTAGAAGAAACTTCACAAGGCTCTGGGTTCAAGATTAGACTTCAGTACTGCG
* * *
37316018 TTCCATCCTTAGACCGATGGTCAATTTGAGAGGGTGATTCATATACTAGAGGATATGATTTGGAG
196 TTCCATACTCAGACAGATGGTCAATTTGAGAGGGTGATTCATATACTAGAGGATATGATTTGGAG
37316083 CTATGTGATTTATTTCTGCGGTAGTTGGGAGGATTTTTTACCGTTAGTTGAGTTCACCTACAATA
261 CTATGTGATTTATTTCTGCGGTAGTTGGGAGGATTTTTTACCGTTAGTTGAGTTCACCTACAATA
* *
37316148 ACAGTTTCCAATCTAGCATCTAGATGGCACCTTACGAGGCTCTATATGGTCGTAAGTGGCATACT
326 ACAGTTTCCAATCTAGCATCTAGATGGCACCTTACGAGACTCTATATGGTCATAAGTGGCATACT
* * *
37316213 CTGTTATATTAGACTGAGTTGGGTGAGCGACGGGTTTTAGGTCCTGAGTTGGTTTTCGAGACTGA
391 CTGTTATATTAGACTGAGTTGGGTGAGCGACGAGTTTTAGGTCCTAAGTTGGTTTCCGAGACTGA
37316278 AGATAATGTTAGACTAATTTGGGATCGTCTGAAGGCATCTTCTGATAGATAGAAGTCTTATGCAA
456 AGATAATGTTAGACTAATTTGGGATCGTCTGAAGGCATCTTCTGATAGATAGAAGTCTTATGCAA
*
37316343 ATCTGAAAATCAGATATATCAAGTACTCTATGGGGGACTTTGTATTTCTTAAGGTATCTCCGTGG
521 ATCTGAAAATCAGAGATATCAAGTACTCTATGGGGGACTTTGTATTTCTTAAGGTATCTCCGTGG
37316408 AAAAAGGTTCTACGGTTCGGTTA
586 AAAAAGGTTCTACGGTTCGGTTA
*
37316431 ACCAAGTCCGCTCATTTTATTCCTGTTCAGATGGACTACTCTATGCAAAAGTTAGTAAAGCTCTA
1 ACCAAGTCCGCTCAATTTATTCCTGTTCAGATGGACTACTCTATGCAAAAGTTAGTAAAGCTCTA
37316496 CATTTCTGAGATTGTAAGACTGCATGGGGTTCCAATTTCAATAATCTCTGATATGGATCCTCTCT
66 CATTTCTGAGATTGTAAGACTGCATGGGGTTCCAATTTCAATAATCTCTGATATGGATCCTCTCT
*
37316561 TCACTTCACGGTTCTAGAAGAAACTTCACAAGGCTCTGGTTTCAAGATTAGACTTCAG-ACTGCG
131 TCACTTCACGGTTCTAGAAGAAACTTCACAAGGCTCTGGGTTCAAGATTAGACTTCAGTACTGCG
*
37316625 TTCCATACTCAGACAGATGGTCAATTTGAGAGGGTGGTTCATATACTAGAGGATATGATTTGGAG
196 TTCCATACTCAGACAGATGGTCAATTTGAGAGGGTGATTCATATACTAGAGGATATGATTTGGAG
*
37316690 CTATGTGATTTATTTCTGCGGTAGTTGGGAGGATTTTTTACCGTTAGTTGAGTTCGCCTACAATA
261 CTATGTGATTTATTTCTGCGGTAGTTGGGAGGATTTTTTACCGTTAGTTGAGTTCACCTACAATA
* *
37316755 ACAGTTTCCAATCTAGCATCTAGATGGCACCTTACGAGACTCTATTTGGTCATAAGTGTCATACT
326 ACAGTTTCCAATCTAGCATCTAGATGGCACCTTACGAGACTCTATATGGTCATAAGTGGCATACT
*
37316820 CTGTTATATTAGACTGAGTTGGGTGAGCGACGAGTTTTGGGTCCTAAGTTGGTTTCCGAGACTGA
391 CTGTTATATTAGACTGAGTTGGGTGAGCGACGAGTTTTAGGTCCTAAGTTGGTTTCCGAGACTGA
*
37316885 AGATAATGTTAGACTAATTTGGGATCGTCTGAAGGCGTCTTCTGATAGATAGAAGTCTTATGCAA
456 AGATAATGTTAGACTAATTTGGGATCGTCTGAAGGCATCTTCTGATAGATAGAAGTCTTATGCAA
37316950 ATCTGAAAATCAGAGATATCAAGTACTCTATGGGGGACTTTGTATTTCTTAAGGTATCTCCGTGG
521 ATCTGAAAATCAGAGATATCAAGTACTCTATGGGGGACTTTGTATTTCTTAAGGTATCTCCGTGG
37317015 AAAAAGGTTCTACGGTTCGGTT
586 AAAAAGGTTCTACGGTTCGGTT
37317037 GTAAGGACAA
Statistics
Matches: 581, Mismatches: 25, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
607 402 0.69
608 179 0.31
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (608 bp):
ACCAAGTCCGCTCAATTTATTCCTGTTCAGATGGACTACTCTATGCAAAAGTTAGTAAAGCTCTA
CATTTCTGAGATTGTAAGACTGCATGGGGTTCCAATTTCAATAATCTCTGATATGGATCCTCTCT
TCACTTCACGGTTCTAGAAGAAACTTCACAAGGCTCTGGGTTCAAGATTAGACTTCAGTACTGCG
TTCCATACTCAGACAGATGGTCAATTTGAGAGGGTGATTCATATACTAGAGGATATGATTTGGAG
CTATGTGATTTATTTCTGCGGTAGTTGGGAGGATTTTTTACCGTTAGTTGAGTTCACCTACAATA
ACAGTTTCCAATCTAGCATCTAGATGGCACCTTACGAGACTCTATATGGTCATAAGTGGCATACT
CTGTTATATTAGACTGAGTTGGGTGAGCGACGAGTTTTAGGTCCTAAGTTGGTTTCCGAGACTGA
AGATAATGTTAGACTAATTTGGGATCGTCTGAAGGCATCTTCTGATAGATAGAAGTCTTATGCAA
ATCTGAAAATCAGAGATATCAAGTACTCTATGGGGGACTTTGTATTTCTTAAGGTATCTCCGTGG
AAAAAGGTTCTACGGTTCGGTTA
Found at i:37318048 original size:32 final size:33
Alignment explanation
Indices: 37318007--37318083 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 33
37317997 CAGGTTGGGC
*
37318007 GTGTTGGCCACAC-AGGCAAAGCCGTTCTAGG-A
1 GTGTGGGCCACACAAGG-AAAGCCGTTCTAGGCA
* *
37318039 GTGTGGGCCACACAAGGAAGGCCGTTCTGGGCA
1 GTGTGGGCCACACAAGGAAAGCCGTTCTAGGCA
37318072 -TGTGGGCTCACA
1 GTGTGGGC-CACA
37318084 TGAACATGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
32 31 0.79
33 8 0.21
ACGTcount: A:0.22, C:0.25, G:0.35, T:0.18
Consensus pattern (33 bp):
GTGTGGGCCACACAAGGAAAGCCGTTCTAGGCA
Found at i:37322731 original size:27 final size:27
Alignment explanation
Indices: 37322700--37322758 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
37322690 TCATTGACTG
*
37322700 TCTTTGTAATTTGTTCATTTAATCTCA
1 TCTTTGTAATTTCTTCATTTAATCTCA
* **
37322727 TCTTTTTTGTTTCTTCATTTAATCTCA
1 TCTTTGTAATTTCTTCATTTAATCTCA
37322754 TCTTT
1 TCTTT
37322759 TTTTATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.17, C:0.17, G:0.05, T:0.61
Consensus pattern (27 bp):
TCTTTGTAATTTCTTCATTTAATCTCA
Found at i:37323894 original size:85 final size:85
Alignment explanation
Indices: 37323777--37323932 Score: 258
Period size: 85 Copynumber: 1.8 Consensus size: 85
37323767 TGGCAGTTTG
* * * *
37323777 TTTAATTTGCAAATATGTTGTGCACCTACAACAAGTGGCAATAACTGCAAGTATGTGGTTCGATC
1 TTTAATCTGCAAATATGTTGTACACCCACAACAAGTGGCAATAACTGCAAATATGTGGTTCGATC
37323842 ACGAACTAAATGGTAGTGTA
66 ACGAACTAAATGGTAGTGTA
* *
37323862 TTTAATCTGTAAATATGTTGTACACCCACAACAAGTGGCAATAACTGCAAATATGTGGTTCGATT
1 TTTAATCTGCAAATATGTTGTACACCCACAACAAGTGGCAATAACTGCAAATATGTGGTTCGATC
37323927 ACGAAC
66 ACGAAC
37323933 CAAGAGGCAG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 65 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (85 bp):
TTTAATCTGCAAATATGTTGTACACCCACAACAAGTGGCAATAACTGCAAATATGTGGTTCGATC
ACGAACTAAATGGTAGTGTA
Found at i:37326129 original size:44 final size:42
Alignment explanation
Indices: 37326079--37326194 Score: 110
Period size: 43 Copynumber: 2.7 Consensus size: 42
37326069 ATGAGTATTT
*
37326079 GTGTAAGAACACATCTGGGACATTGGCATCGA-TTTGAGGTTTAC
1 GTGTAAGAACACGTCTGGGACATTGGCATCGAGTTTGA---TTAC
* * *
37326123 GTGTAAGATC-CTGTCTGGGACAGTGACATCGATGTTTGATTAC
1 GTGTAAGAACAC-GTCTGGGACATTGGCATCGA-GTTTGATTAC
* * *
37326166 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTAAGAACACGTCTGGGACATTGGCAT
37326195 TGTACGAGCC
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
43 27 0.46
44 27 0.46
46 5 0.08
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (42 bp):
GTGTAAGAACACGTCTGGGACATTGGCATCGAGTTTGATTAC
Found at i:37326898 original size:23 final size:23
Alignment explanation
Indices: 37326855--37326900 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
37326845 GTTAATTATA
* *
37326855 GACTTATAGATTGACGTATAATT
1 GACTTATAAATAGACGTATAATT
37326878 GACTTATAAATAGA-GTGATAATT
1 GACTTATAAATAGACGT-ATAATT
37326901 AGTAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (23 bp):
GACTTATAAATAGACGTATAATT
Found at i:37340269 original size:20 final size:20
Alignment explanation
Indices: 37340225--37340302 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
37340215 TCAATACCAA
* * *
37340225 GATAAAGGTTTCAATACTAT
1 GATAAAAGTATCAATACTTT
* * *
37340245 AATAAAAATATCGATACTTT
1 GATAAAAGTATCAATACTTT
* *
37340265 GATAAATGTGTCAATACTTT
1 GATAAAAGTATCAATACTTT
*
37340285 GAGAAAAGTATCAATACT
1 GATAAAAGTATCAATACT
37340303 ATAAGCAATG
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (20 bp):
GATAAAAGTATCAATACTTT
Found at i:37340302 original size:40 final size:40
Alignment explanation
Indices: 37340225--37340302 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
37340215 TCAATACCAA
* * *
37340225 GATAAAGGTTTCAATACTATAATAAAAATATCGATACTTT
1 GATAAAGGTGTCAATACTATAAGAAAAATATCAATACTTT
* * * *
37340265 GATAAATGTGTCAATACTTTGAGAAAAGTATCAATACT
1 GATAAAGGTGTCAATACTATAAGAAAAATATCAATACT
37340303 ATAAGCAATG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (40 bp):
GATAAAGGTGTCAATACTATAAGAAAAATATCAATACTTT
Found at i:37340315 original size:20 final size:20
Alignment explanation
Indices: 37340235--37340315 Score: 54
Period size: 20 Copynumber: 4.0 Consensus size: 20
37340225 GATAAAGGTT
* **
37340235 TCAATACTATAATAAAAATA
1 TCAATACTATAAGAAATGTA
* * * * *
37340255 TCGATACTTTGATAAATGTG
1 TCAATACTATAAGAAATGTA
* * *
37340275 TCAATACTTTGAGAAAAGTA
1 TCAATACTATAAGAAATGTA
*
37340295 TCAATACTATAAGCAATGTA
1 TCAATACTATAAGAAATGTA
37340315 T
1 T
37340316 GATCGAAATA
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (20 bp):
TCAATACTATAAGAAATGTA
Found at i:37340352 original size:27 final size:27
Alignment explanation
Indices: 37340321--37340505 Score: 234
Period size: 27 Copynumber: 7.0 Consensus size: 27
37340311 TGTATGATCG
37340321 AAATACCCTCATAGGGTAAAATGACCA
1 AAATACCCTCATAGGGTAAAATGACCA
* * * *
37340348 AAATACCCTTATAAGGTAAAATCACCG
1 AAATACCCTCATAGGGTAAAATGACCA
* *
37340375 AAATACCCCCATAGGGAAAAATGACCA
1 AAATACCCTCATAGGGTAAAATGACCA
* *
37340402 AAATACCC-CTATAGGGTAAAATGATCG
1 AAATACCCTC-ATAGGGTAAAATGACCA
*
37340429 AAATACCCTCATAGGGTAAAATGATCA
1 AAATACCCTCATAGGGTAAAATGACCA
*
37340456 AAATACCCTCATAGGGT--AA-GACCG
1 AAATACCCTCATAGGGTAAAATGACCA
*
37340480 AAATACCCCCATAGGGTAAAATGACC
1 AAATACCCTCATAGGGTAAAATGACC
37340506 GTTATACCCC
Statistics
Matches: 136, Mismatches: 17, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
24 19 0.14
25 2 0.01
26 3 0.02
27 111 0.82
28 1 0.01
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (27 bp):
AAATACCCTCATAGGGTAAAATGACCA
Found at i:37340378 original size:54 final size:54
Alignment explanation
Indices: 37340314--37340505 Score: 273
Period size: 54 Copynumber: 3.6 Consensus size: 54
37340304 TAAGCAATGT
* * *
37340314 ATGATCGAAATACCCTCATAGGGTAAAATGACCAAAATACCCTTATAAGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTTATAGGGTAAA
* * *
37340368 ATCACCGAAATACCCCCATAGGGAAAAATGACCAAAATACCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTTATAGGGTAAA
* * * *
37340422 ATGATCGAAATACCCTCATAGGGTAAAATGATCAAAATACCCTCATAGGGT--A
1 ATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTTATAGGGTAAA
37340474 A-GACCGAAATACCCCCATAGGGTAAAATGACC
1 ATGACCGAAATACCCCCATAGGGTAAAATGACC
37340506 GTTATACCCC
Statistics
Matches: 122, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
51 28 0.23
52 2 0.02
54 92 0.75
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (54 bp):
ATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTTATAGGGTAAA
Found at i:37345060 original size:31 final size:31
Alignment explanation
Indices: 37344964--37345061 Score: 99
Period size: 31 Copynumber: 3.2 Consensus size: 31
37344954 CTATCCCAGC
* * *
37344964 GGACTCTCTATTTTA-TATTTACTCTCTCGAT
1 GGACTATCTA-TTTAGTGTTTACTATCTCGAT
* * * *
37344995 GGAATATCTATTTCGTGTTCACTATCTTGAT
1 GGACTATCTATTTAGTGTTTACTATCTCGAT
* *
37345026 GGACTATCTATTTAGTGTTTACTGTCTCGGT
1 GGACTATCTATTTAGTGTTTACTATCTCGAT
37345057 GGACT
1 GGACT
37345062 TCATTGCTAT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
30 3 0.06
31 50 0.94
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.45
Consensus pattern (31 bp):
GGACTATCTATTTAGTGTTTACTATCTCGAT
Found at i:37363198 original size:16 final size:17
Alignment explanation
Indices: 37363167--37363200 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
37363157 AAAATTGGGG
37363167 TGAGAAAATAATTTAAT
1 TGAGAAAATAATTTAAT
*
37363184 TGAGAAATTAA-TTAAT
1 TGAGAAAATAATTTAAT
37363200 T
1 T
37363201 AATATTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
TGAGAAAATAATTTAAT
Found at i:37364356 original size:19 final size:20
Alignment explanation
Indices: 37364313--37364379 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
37364303 TACAAAATAA
37364313 TCAAAATAATTTTCAAAAAT
1 TCAAAATAATTTTCAAAAAT
**
37364333 TCAAAATAATTTT-AAATTT
1 TCAAAATAATTTTCAAAAAT
*
37364352 TCAAAAT-ATTTATAAAAAAT
1 TCAAAATAATTT-TCAAAAAT
*
37364372 TTAAAATA
1 TCAAAATA
37364380 TTGTGTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.10
19 12 0.31
20 23 0.59
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (20 bp):
TCAAAATAATTTTCAAAAAT
Found at i:37372942 original size:3 final size:3
Alignment explanation
Indices: 37372936--37372973 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
37372926 AGCAGGACTT
37372936 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
37372974 ACAACAACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:37374906 original size:44 final size:45
Alignment explanation
Indices: 37374828--37374920 Score: 179
Period size: 44 Copynumber: 2.1 Consensus size: 45
37374818 ATGTTATAAT
37374828 ATAATGTAAATGTTAAAAAAAACATTGCTTATATTTAATTTTTTA
1 ATAATGTAAATGTTAAAAAAAACATTGCTTATATTTAATTTTTTA
37374873 ATAATGTAAATGTT-AAAAAAACATTGCTTATATTTAATTTTTTA
1 ATAATGTAAATGTTAAAAAAAACATTGCTTATATTTAATTTTTTA
37374917 ATAA
1 ATAA
37374921 AAAGAAATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 34 0.71
45 14 0.29
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.44
Consensus pattern (45 bp):
ATAATGTAAATGTTAAAAAAAACATTGCTTATATTTAATTTTTTA
Found at i:37389189 original size:98 final size:98
Alignment explanation
Indices: 37389020--37389214 Score: 345
Period size: 98 Copynumber: 2.0 Consensus size: 98
37389010 ATACAATAAA
* *
37389020 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACGCCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
37389085 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
* *
37389118 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
37389183 CCTTTAGAATCTCAAACTCGGAATATTTCCTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTT
37389215 CATGATTTTT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:37390761 original size:19 final size:19
Alignment explanation
Indices: 37390734--37390844 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
37390724 AATCATATCT
37390734 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* ** *
37390753 TCAAAGATTATACATCATA
1 TCTAAGATTGCATATCATA
37390772 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
37390791 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
37390810 TCTACGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
37390829 TATAAGATTGCATATC
1 TCTAAGATTGCATATC
37390845 CTCAAAAATT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 81 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:37391557 original size:22 final size:20
Alignment explanation
Indices: 37391523--37391562 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
37391513 TAAATTTTAA
37391523 TTTTAATTATTTCAAAATTG
1 TTTTAATTATTTCAAAATTG
*
37391543 TTTTACATATATTTCTAAAT
1 TTTTA-AT-TATTTCAAAAT
37391563 ATAATAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 2 0.12
22 10 0.59
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTTAATTATTTCAAAATTG
Found at i:37391738 original size:45 final size:45
Alignment explanation
Indices: 37391676--37391853 Score: 356
Period size: 45 Copynumber: 4.0 Consensus size: 45
37391666 GAGAAAATCA
37391676 AGTAGTAGGAAAAGGGAACGAAGCGATAGCTTTTTTTATTTACGT
1 AGTAGTAGGAAAAGGGAACGAAGCGATAGCTTTTTTTATTTACGT
37391721 AGTAGTAGGAAAAGGGAACGAAGCGATAGCTTTTTTTATTTACGT
1 AGTAGTAGGAAAAGGGAACGAAGCGATAGCTTTTTTTATTTACGT
37391766 AGTAGTAGGAAAAGGGAACGAAGCGATAGCTTTTTTTATTTACGT
1 AGTAGTAGGAAAAGGGAACGAAGCGATAGCTTTTTTTATTTACGT
37391811 AGTAGTAGGAAAAGGGAACGAAGCGATAGCTTTTTTTATTTAC
1 AGTAGTAGGAAAAGGGAACGAAGCGATAGCTTTTTTTATTTAC
37391854 ATTTATTAAT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 133 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (45 bp):
AGTAGTAGGAAAAGGGAACGAAGCGATAGCTTTTTTTATTTACGT
Found at i:37392854 original size:18 final size:18
Alignment explanation
Indices: 37392831--37392865 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
37392821 AACATGATTT
37392831 AAATAA-ATAATCAAATAG
1 AAATAAGAT-ATCAAATAG
37392849 AAATAAGATATCAAATA
1 AAATAAGATATCAAATA
37392866 CAATCAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (18 bp):
AAATAAGATATCAAATAG
Found at i:37400151 original size:12 final size:12
Alignment explanation
Indices: 37400136--37400179 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
37400126 AAACCGAGCC
37400136 ATAAATATTTTT
1 ATAAATATTTTT
37400148 ATAAATA--TTT
1 ATAAATATTTTT
37400158 ATAAATATTTTT
1 ATAAATATTTTT
37400170 ATAAATATTT
1 ATAAATATTT
37400180 ACGGAGTGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.33
12 20 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATAAATATTTTT
Found at i:37400160 original size:10 final size:10
Alignment explanation
Indices: 37400145--37400180 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
37400135 CATAAATATT
37400145 TTTATAAATA
1 TTTATAAATA
37400155 TTTATAAATA
1 TTTATAAATA
37400165 TTTTTATAAATA
1 --TTTATAAATA
37400177 TTTA
1 TTTA
37400181 CGGAGTGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 14 0.58
12 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTATAAATA
Found at i:37400163 original size:22 final size:22
Alignment explanation
Indices: 37400136--37400180 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
37400126 AAACCGAGCC
37400136 ATAAATATTTTTATAAATATTT
1 ATAAATATTTTTATAAATATTT
37400158 ATAAATATTTTTATAAATATTT
1 ATAAATATTTTTATAAATATTT
37400180 A
1 A
37400181 CGGAGTGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATAAATATTTTTATAAATATTT
Found at i:37401577 original size:24 final size:24
Alignment explanation
Indices: 37401550--37401615 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
37401540 CTTGCTTGAA
* *
37401550 CTTCCCGATATTGGCTCATATGAG
1 CTTCCCGTTATTGGCTCATAGGAG
* * *
37401574 CTTCCCGTTAATGGCTTATCGGAG
1 CTTCCCGTTATTGGCTCATAGGAG
37401598 CTTCCCGTTATATGGCTC
1 CTTCCCGTTAT-TGGCTC
37401616 GAAAAAGCTT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 29 0.85
25 5 0.15
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (24 bp):
CTTCCCGTTATTGGCTCATAGGAG
Found at i:37413751 original size:8 final size:8
Alignment explanation
Indices: 37413738--37413769 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
37413728 AAAAGCTCTA
37413738 TCATCATC
1 TCATCATC
37413746 TCATCATC
1 TCATCATC
37413754 TCATCATC
1 TCATCATC
37413762 TCATCATC
1 TCATCATC
37413770 ACAAATTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.25, C:0.38, G:0.00, T:0.38
Consensus pattern (8 bp):
TCATCATC
Found at i:37414780 original size:12 final size:12
Alignment explanation
Indices: 37414763--37414816 Score: 71
Period size: 11 Copynumber: 4.8 Consensus size: 12
37414753 AACTAATCCT
37414763 CTCTCAAATTTC
1 CTCTCAAATTTC
37414775 CTCTC-AATTTC
1 CTCTCAAATTTC
37414786 CTCTCAAA-TTC
1 CTCTCAAATTTC
37414797 CT-TCAAAATTT-
1 CTCTC-AAATTTC
37414808 CTCTCAAAT
1 CTCTCAAAT
37414817 CATATTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.05
11 25 0.66
12 11 0.29
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:37418294 original size:124 final size:124
Alignment explanation
Indices: 37418130--37418355 Score: 380
Period size: 124 Copynumber: 1.8 Consensus size: 124
37418120 CCCAAACATG
* * **
37418130 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCTTGC
1 CTACTATAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
* *
37418195 TAGAAGCGATTTTATACTATTTGCTTAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
* *
37418254 CTACTATAGCAAAAGCGTGTCCACGAAGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
1 CTACTATAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
37418319 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAA
37418356 CTCGAAATTA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
124 94 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (124 bp):
CTACTATAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGC
TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
Found at i:37419057 original size:33 final size:30
Alignment explanation
Indices: 37419007--37419070 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 30
37418997 GCTTGACACA
*
37419007 TTGGCAGCACCAGTAAATTTATAATAAAGAAGT
1 TTGGCAACACCAGTAAATTT-TAA-AAA-AAGT
37419040 TTGGCAACACC-GATAAATTTTAAAAAAAGT
1 TTGGCAACACCAG-TAAATTTTAAAAAAAGT
37419070 T
1 T
37419071 CATTGATACC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 5 0.17
31 3 0.10
32 4 0.14
33 17 0.59
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (30 bp):
TTGGCAACACCAGTAAATTTTAAAAAAAGT
Found at i:37419385 original size:5 final size:5
Alignment explanation
Indices: 37419375--37419400 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
37419365 GTGAAAGTGA
37419375 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
37419401 GCTTCCGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:37420144 original size:25 final size:25
Alignment explanation
Indices: 37420110--37420161 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
37420100 ATATGTAGTG
37420110 ATTACTCCTTACAAGCTGAGAATGC
1 ATTACTCCTTACAAGCTGAGAATGC
37420135 ATTACTCCTTACAAGCTGAGAATGC
1 ATTACTCCTTACAAGCTGAGAATGC
37420160 AT
1 AT
37420162 AATATAACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (25 bp):
ATTACTCCTTACAAGCTGAGAATGC
Found at i:37423612 original size:6 final size:6
Alignment explanation
Indices: 37423597--37423637 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
37423587 AACGCATATA
* *
37423597 AGAAGC AGAAGG AGAAGG AGAAGA AGAAGG AGAAGG AGAAG
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAG
37423638 CCATTTGTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.54, C:0.02, G:0.44, T:0.00
Consensus pattern (6 bp):
AGAAGG
Found at i:37423624 original size:18 final size:18
Alignment explanation
Indices: 37423597--37423637 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
37423587 AACGCATATA
*
37423597 AGAAGCAGAAGGAGAAGG
1 AGAAGAAGAAGGAGAAGG
37423615 AGAAGAAGAAGGAGAAGG
1 AGAAGAAGAAGGAGAAGG
37423633 AGAAG
1 AGAAG
37423638 CCATTTGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.54, C:0.02, G:0.44, T:0.00
Consensus pattern (18 bp):
AGAAGAAGAAGGAGAAGG
Found at i:37430370 original size:17 final size:17
Alignment explanation
Indices: 37430323--37430382 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
37430313 TAAACATTTT
* *
37430323 TTTCTTTTTCCTCTTCC
1 TTTCCTTTTCCTTTTCC
*
37430340 CTTCTCTTTT-CTTTTCC
1 TTTC-CTTTTCCTTTTCC
*
37430357 TTTCCTTTTCCTTTTCT
1 TTTCCTTTTCCTTTTCC
*
37430374 TTTGCTTTT
1 TTTCCTTTT
37430383 GTTTTTTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 5 0.14
17 26 0.74
18 4 0.11
ACGTcount: A:0.00, C:0.30, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTCCTTTTCCTTTTCC
Found at i:37430382 original size:11 final size:11
Alignment explanation
Indices: 37430322--37430387 Score: 60
Period size: 11 Copynumber: 5.8 Consensus size: 11
37430312 TTAAACATTT
37430322 TTTTCTTTTTCC
1 TTTTC-TTTTCC
* **
37430334 TCTTCCCTTCTC
1 TTTTCTTTTC-C
37430346 TTTTCTTTTCC
1 TTTTCTTTTCC
*
37430357 TTTCCTTTTCC
1 TTTTCTTTTCC
*
37430368 TTTTCTTTTGC
1 TTTTCTTTTCC
*
37430379 TTTTGTTTT
1 TTTTCTTTT
37430388 TTTATATATC
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
11 31 0.72
12 12 0.28
ACGTcount: A:0.00, C:0.27, G:0.03, T:0.70
Consensus pattern (11 bp):
TTTTCTTTTCC
Found at i:37434260 original size:20 final size:20
Alignment explanation
Indices: 37434223--37434260 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37434213 TGTTATTTAT
*
37434223 TTAATAAAAAAAATAAAAGG
1 TTAATAAAAAAAAGAAAAGG
*
37434243 TTAATAAAATAAAGAAAA
1 TTAATAAAAAAAAGAAAA
37434261 CAAAATGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
TTAATAAAAAAAAGAAAAGG
Found at i:37436122 original size:21 final size:21
Alignment explanation
Indices: 37436106--37436151 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
37436096 ATTGTTTCTT
37436106 TTGTTCTCGTTCTTGTTGTTC
1 TTGTTCTCGTTCTTGTTGTTC
* *
37436127 TTGTTCTTGTTCTTGTTGTTG
1 TTGTTCTCGTTCTTGTTGTTC
37436148 TTGT
1 TTGT
37436152 GTCTGTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.00, C:0.13, G:0.22, T:0.65
Consensus pattern (21 bp):
TTGTTCTCGTTCTTGTTGTTC
Found at i:37436145 original size:15 final size:15
Alignment explanation
Indices: 37436101--37436151 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
37436091 TTTTGATTGT
*
37436101 TTCTT-TTGTTCTCG
1 TTCTTGTTGTTCTTG
37436115 TTCTTGTTGTTCTTG
1 TTCTTGTTGTTCTTG
* *
37436130 TTCTTGTTCTTGTTG
1 TTCTTGTTGTTCTTG
*
37436145 TTGTTGT
1 TTCTTGT
37436152 GTCTGTTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 5 0.16
15 27 0.84
ACGTcount: A:0.00, C:0.14, G:0.20, T:0.67
Consensus pattern (15 bp):
TTCTTGTTGTTCTTG
Found at i:37436158 original size:21 final size:20
Alignment explanation
Indices: 37436106--37436158 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
37436096 ATTGTTTCTT
37436106 TTGTTCTCGTTCTTGTTGTTC
1 TTGTTCT-GTTCTTGTTGTTC
*
37436127 TTGTTCTTGTTCTTGTTGTTG
1 TTGTTC-TGTTCTTGTTGTTC
37436148 TTGTGTCTGTT
1 TTGT-TCTGTT
37436159 TGTTTGTGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.00, C:0.13, G:0.23, T:0.64
Consensus pattern (20 bp):
TTGTTCTGTTCTTGTTGTTC
Found at i:37436477 original size:61 final size:62
Alignment explanation
Indices: 37436381--37436503 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 62
37436371 CTAGAAGAAG
37436381 AACCTCTAGAAACACCGATCAACGAGAAAGAAATTTGAATAATTGTAACTCCGAAATACCCT
1 AACCTCTAGAAACACCGATCAACGAGAAAGAAATTTGAATAATTGTAACTCCGAAATACCCT
37436443 AACCTCTAG-AACACCGATCAACGAGAAAGAAATTTGAATAATTGTAACTCCGAAATACCCT
1 AACCTCTAGAAACACCGATCAACGAGAAAGAAATTTGAATAATTGTAACTCCGAAATACCCT
37436504 CGAAAGTAAC
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
61 52 0.85
62 9 0.15
ACGTcount: A:0.43, C:0.23, G:0.13, T:0.21
Consensus pattern (62 bp):
AACCTCTAGAAACACCGATCAACGAGAAAGAAATTTGAATAATTGTAACTCCGAAATACCCT
Found at i:37436713 original size:31 final size:32
Alignment explanation
Indices: 37436654--37436718 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
37436644 GGCAAATTAC
37436654 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
37436686 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
37436717 AA
1 AA
37436719 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:37444777 original size:6 final size:5
Alignment explanation
Indices: 37444744--37444776 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
37444734 CAAAAAACAC
37444744 TTTCTT TTTCT TTTCT TTTCT TTT-T TTTCT TTT
1 TTTC-T TTTCT TTTCT TTTCT TTTCT TTTCT TTT
37444777 TTGGGTGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTCT
Found at i:37444879 original size:21 final size:21
Alignment explanation
Indices: 37444839--37444879 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37444829 ATAAAGTAGA
*
37444839 TTATATATTATTTTTATAGTG
1 TTATATATTATATTTATAGTG
37444860 TTATATATTATGATTT-TAGT
1 TTATATATTAT-ATTTATAGT
37444880 ATATTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (21 bp):
TTATATATTATATTTATAGTG
Found at i:37445202 original size:44 final size:45
Alignment explanation
Indices: 37445132--37445224 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 45
37445122 ATTACATCAT
37445132 CATTCCATTCAACCAAACACAAGAAT-ACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATAACTATTACAGTTCTATTC
*
37445176 CATTCCATTCAACCAAACA-ATTGAATAACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACA-AGAATAACTATTACAGTTCTATTC
37445221 CATT
1 CATT
37445225 ACAGCTCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.50
45 22 0.48
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (45 bp):
CATTCCATTCAACCAAACACAAGAATAACTATTACAGTTCTATTC
Found at i:37445227 original size:16 final size:16
Alignment explanation
Indices: 37445206--37445260 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
37445196 TTGAATAACT
*
37445206 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
37445222 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
37445238 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
37445254 ATTACAG
1 ATTACAG
37445261 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:37446357 original size:35 final size:35
Alignment explanation
Indices: 37446317--37446386 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
37446307 GGTGTATGCT
37446317 TTTAAATGACCAAAATTGGTAT-G-TGTTAATGTATC
1 TTTAAATGACCAAAA-TGGTATGGTTGTT-ATGTATC
*
37446352 TTTAAATGGCCAAAATGGTATGGTTGTTATGTATC
1 TTTAAATGACCAAAATGGTATGGTTGTTATGTATC
37446387 AATTATGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 6 0.19
35 22 0.69
36 4 0.12
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (35 bp):
TTTAAATGACCAAAATGGTATGGTTGTTATGTATC
Found at i:37447489 original size:20 final size:21
Alignment explanation
Indices: 37447447--37447492 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
37447437 TAGGGCGACT
* * *
37447447 AAGGCTGAATAATAATGACTA
1 AAGGTTGAATAATAATAAATA
37447468 AAGGTTGAA-AATAATAAATA
1 AAGGTTGAATAATAATAAATA
37447488 AAGGT
1 AAGGT
37447493 GATATTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.52, C:0.04, G:0.20, T:0.24
Consensus pattern (21 bp):
AAGGTTGAATAATAATAAATA
Found at i:37448502 original size:84 final size:84
Alignment explanation
Indices: 37448361--37448528 Score: 327
Period size: 84 Copynumber: 2.0 Consensus size: 84
37448351 TAGCTAAGTT
37448361 CTTAACTTGGGATGAACCGAAACTCTCAAAAACAAAATCTTATTCCACAATTATTGTTGTTGTGG
1 CTTAACTTGGGATGAACCGAAACTCTCAAAAACAAAATCTTATTCCACAATTATTGTTGTTGTGG
37448426 ATGCATGCAAGCATAATGA
66 ATGCATGCAAGCATAATGA
*
37448445 CTTAACTTGGGATGAACCGAAACTCTCAAAAACAAAATCTTATTCCACAATTGTTGTTGTTGTGG
1 CTTAACTTGGGATGAACCGAAACTCTCAAAAACAAAATCTTATTCCACAATTATTGTTGTTGTGG
37448510 ATGCATGCAAGCATAATGA
66 ATGCATGCAAGCATAATGA
37448529 TTTTGTATGC
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (84 bp):
CTTAACTTGGGATGAACCGAAACTCTCAAAAACAAAATCTTATTCCACAATTATTGTTGTTGTGG
ATGCATGCAAGCATAATGA
Found at i:37452070 original size:40 final size:40
Alignment explanation
Indices: 37452026--37452242 Score: 235
Period size: 40 Copynumber: 5.5 Consensus size: 40
37452016 TATAAACAGG
37452026 GGCACGTAAGTGCATTCAGGGGTACCGAAGTACAAATAGA
1 GGCACGTAAGTGCATTCAGGGGTACCGAAGTACAAATAGA
* *
37452066 GGCACGTATGTGCAATT-A-GGGTACCGAAGTACAAACAGA
1 GGCACGTAAGTGC-ATTCAGGGGTACCGAAGTACAAATAGA
* ** * * *
37452105 GGAACGTGTGTGCAATCAGGGGTACCAAAGTACAAATAGG
1 GGCACGTAAGTGCATTCAGGGGTACCGAAGTACAAATAGA
* *
37452145 GGCACGTAAGTGCATTCAGGGGTACCAAAGTACGAATAGA
1 GGCACGTAAGTGCATTCAGGGGTACCGAAGTACAAATAGA
* * * *
37452185 GGCACATAAGTGCAATT-AAGGGTACTGAAGTACAAACAG-
1 GGCACGTAAGTGC-ATTCAGGGGTACCGAAGTACAAATAGA
* *
37452224 GGACACATAAATGCATTCA
1 GG-CACGTAAGTGCATTCA
37452243 TCAATAGTTA
Statistics
Matches: 150, Mismatches: 21, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.01
39 37 0.25
40 105 0.70
41 6 0.04
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (40 bp):
GGCACGTAAGTGCATTCAGGGGTACCGAAGTACAAATAGA
Found at i:37452138 original size:79 final size:80
Alignment explanation
Indices: 37452007--37452186 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 80
37451997 TTGATTCAGT
* * * * ** * *
37452007 GTACCAGAGTATAAACAGGGGCACGTAAGTGCATTCAGGGGTACCGAAGTACAAATAGAGGCACG
1 GTACCAAAGTACAAACAGAGGAACGTGTGTGCAATCAGGGGTACCAAAGTACAAATAGAGGCACG
*
37452072 TATGTGCAATT-A-GG
66 TAAGTGC-ATTCAGGG
* *
37452086 GTACCGAAGTACAAACAGAGGAACGTGTGTGCAATCAGGGGTACCAAAGTACAAATAGGGGCACG
1 GTACCAAAGTACAAACAGAGGAACGTGTGTGCAATCAGGGGTACCAAAGTACAAATAGAGGCACG
37452151 TAAGTGCATTCAGGG
66 TAAGTGCATTCAGGG
* *
37452166 GTACCAAAGTACGAATAGAGG
1 GTACCAAAGTACAAACAGAGG
37452187 CACATAAGTG
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
78 3 0.04
79 62 0.73
80 20 0.24
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.17
Consensus pattern (80 bp):
GTACCAAAGTACAAACAGAGGAACGTGTGTGCAATCAGGGGTACCAAAGTACAAATAGAGGCACG
TAAGTGCATTCAGGG
Found at i:37452175 original size:20 final size:20
Alignment explanation
Indices: 37452114--37452175 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
37452104 AGGAACGTGT
37452114 GTGCAATCAGGGGTACCAAA
1 GTGCAATCAGGGGTACCAAA
* * **
37452134 GTACAAAT-AGGGGCACGTAA
1 GTGC-AATCAGGGGTACCAAA
*
37452154 GTGCATTCAGGGGTACCAAA
1 GTGCAATCAGGGGTACCAAA
37452174 GT
1 GT
37452176 ACGAATAGAG
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
19 2 0.06
20 26 0.84
21 3 0.10
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.18
Consensus pattern (20 bp):
GTGCAATCAGGGGTACCAAA
Found at i:37453084 original size:14 final size:11
Alignment explanation
Indices: 37453048--37453075 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
37453038 CATTTTAACC
37453048 TTAAAAATTCA
1 TTAAAAATTCA
37453059 TTAAAAATTCA
1 TTAAAAATTCA
37453070 TTAAAA
1 TTAAAA
37453076 CCTATTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (11 bp):
TTAAAAATTCA
Found at i:37463930 original size:39 final size:39
Alignment explanation
Indices: 37463890--37464029 Score: 181
Period size: 39 Copynumber: 3.5 Consensus size: 39
37463880 ATTCACTTTT
* * *
37463890 AAGCATATATCACATTACACATATAATCACATAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * * **
37463929 AATCATATACCACAATACTCATATAATTACATAATGTTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
37463968 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
37464007 AAGCTTATATATCGCAATACTCA
1 AAGC--ATATATCACAATACTCA
37464030 AAAACATGTT
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 69 0.81
41 16 0.19
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.31
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:37463931 original size:15 final size:17
Alignment explanation
Indices: 37463893--37463933 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
37463883 CACTTTTAAG
37463893 CATAT-ATCACATTACA
1 CATATAATCACATTACA
37463909 CATATAATCACA-TA-A
1 CATATAATCACATTACA
*
37463924 CATTTAATCA
1 CATATAATCA
37463934 TATACCACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 10 0.43
16 7 0.30
17 6 0.26
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (17 bp):
CATATAATCACATTACA
Found at i:37464093 original size:14 final size:15
Alignment explanation
Indices: 37464062--37464094 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
37464052 ACATAATGGT
*
37464062 CACATGTCATATAAA
1 CACATATCATATAAA
37464077 CACATATCATA-AAA
1 CACATATCATATAAA
37464091 CACA
1 CACA
37464095 CATATATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.52, C:0.24, G:0.03, T:0.21
Consensus pattern (15 bp):
CACATATCATATAAA
Found at i:37466539 original size:19 final size:19
Alignment explanation
Indices: 37466488--37466539 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
37466478 CTGGCACGTA
* *
37466488 AAGTGCATACTGGAACACG
1 AAGTGCATATTGGCACACG
* *
37466507 GAGTGCATCTTGGCACACG
1 AAGTGCATATTGGCACACG
37466526 AAGTGCATATTGGC
1 AAGTGCATATTGGC
37466540 GCATATGCAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (19 bp):
AAGTGCATATTGGCACACG
Found at i:37476037 original size:31 final size:31
Alignment explanation
Indices: 37475999--37476062 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
37475989 TGATCATCTG
*
37475999 AGGGTGGTCTTACAGATACTTCGTGAAAAGT
1 AGGGTGGTCCTACAGATACTTCGTGAAAAGT
37476030 AGGGTGGTCCTACAGATACTTCGTGAAAAGT
1 AGGGTGGTCCTACAGATACTTCGTGAAAAGT
37476061 AG
1 AG
37476063 TTTTTCGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (31 bp):
AGGGTGGTCCTACAGATACTTCGTGAAAAGT
Found at i:37480072 original size:55 final size:56
Alignment explanation
Indices: 37479987--37480102 Score: 225
Period size: 55 Copynumber: 2.1 Consensus size: 56
37479977 GATGATTTTG
37479987 ATTTTTTATTTGGGGGTAAAGGGTGAGAAGTAAAAAGCTTAGGGAGAAAATAAAAA
1 ATTTTTTATTTGGGGGTAAAGGGTGAGAAGTAAAAAGCTTAGGGAGAAAATAAAAA
37480043 ATTTTTTA-TTGGGGGTAAAGGGTGAGAAGTAAAAAGCTTAGGGAGAAAATAAAAA
1 ATTTTTTATTTGGGGGTAAAGGGTGAGAAGTAAAAAGCTTAGGGAGAAAATAAAAA
37480098 ATTTT
1 ATTTT
37480103 GGGGGTTTTC
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 52 0.87
56 8 0.13
ACGTcount: A:0.42, C:0.02, G:0.28, T:0.28
Consensus pattern (56 bp):
ATTTTTTATTTGGGGGTAAAGGGTGAGAAGTAAAAAGCTTAGGGAGAAAATAAAAA
Found at i:37480435 original size:30 final size:30
Alignment explanation
Indices: 37480379--37480438 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
37480369 TGGGAAGATG
* *
37480379 TAAAAGTTTTGGGGGAAAAGTAAAAATATT
1 TAAAAGTTTAGGGGAAAAAGTAAAAATATT
*
37480409 TAAAAGTTTAGGGTAAAAATGT-AAAATATT
1 TAAAAGTTTAGGGGAAAAA-GTAAAAATATT
37480439 ATAGTTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (30 bp):
TAAAAGTTTAGGGGAAAAAGTAAAAATATT
Found at i:37489362 original size:16 final size:16
Alignment explanation
Indices: 37489341--37489373 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
37489331 CTCGATGGAG
37489341 TTATTTTGACTATATC
1 TTATTTTGACTATATC
37489357 TTATTTTGACTATATC
1 TTATTTTGACTATATC
37489373 T
1 T
37489374 CAATTAGCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.58
Consensus pattern (16 bp):
TTATTTTGACTATATC
Found at i:37497481 original size:25 final size:25
Alignment explanation
Indices: 37497438--37497486 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
37497428 GCAAATATGA
*
37497438 CAAGACCATATACGTATATATATAC
1 CAAGACCATATACGCATATATATAC
* *
37497463 CAAGACCATATATGCATATTTATA
1 CAAGACCATATACGCATATATATA
37497487 TTATATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (25 bp):
CAAGACCATATACGCATATATATAC
Found at i:37497519 original size:37 final size:35
Alignment explanation
Indices: 37497452--37497534 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 35
37497442 ACCATATACG
* * *
37497452 TATATATATACCAAGACCATATATGCATATTTATA
1 TATATATATAACAAGACCATACACGCATATTTATA
* *
37497487 TTATATATATAACATGACCCATACACGTATATTTATA
1 -TATATATATAACAAGA-CCATACACGCATATTTATA
37497524 TATTATATATA
1 TA-TATATATA
37497535 GATACAGACC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
36 16 0.40
37 24 0.60
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.40
Consensus pattern (35 bp):
TATATATATAACAAGACCATACACGCATATTTATA
Found at i:37499029 original size:113 final size:113
Alignment explanation
Indices: 37498831--37499047 Score: 389
Period size: 113 Copynumber: 1.9 Consensus size: 113
37498821 TCTATTTACA
* *
37498831 AAATTTTAAGAGTCTCATGATCTTTAAAACCATTTCTCCAATAGCCTTTTAACTTCTGTACCACG
1 AAATTTTAAGAGTCTCATGATCTTTAAAACCATTTCTCCAATAGCCTTTTAACTTCTATACCACA
*
37498896 TTGTCAGACAACAAAACTTACTCAATAAAGTTTTGAGTTCTGTTTATG
66 CTGTCAGACAACAAAACTTACTCAATAAAGTTTTGAGTTCTGTTTATG
37498944 AAATTTTAAGAGTCTCATGATCTTTAAAACCATTTCTCCAATAGCCTTTTAACTTCTATACCACA
1 AAATTTTAAGAGTCTCATGATCTTTAAAACCATTTCTCCAATAGCCTTTTAACTTCTATACCACA
* *
37499009 CTGTGAGACAACAAAACTTACTCAGTAAAGTTTTGAGTT
66 CTGTCAGACAACAAAACTTACTCAATAAAGTTTTGAGTT
37499048 AAAACTTATG
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 99 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (113 bp):
AAATTTTAAGAGTCTCATGATCTTTAAAACCATTTCTCCAATAGCCTTTTAACTTCTATACCACA
CTGTCAGACAACAAAACTTACTCAATAAAGTTTTGAGTTCTGTTTATG
Found at i:37500560 original size:113 final size:112
Alignment explanation
Indices: 37500178--37500582 Score: 611
Period size: 115 Copynumber: 3.6 Consensus size: 112
37500168 ACGAAAAAGA
* * *
37500178 AAAAAAAGAAAAAAAAAATTTTGGGTGCTGTCCTGTCAATGGCAATGGCGGCACCCAGTACACAA
1 AAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGC-----CGGCACCCAGTACACAG
37500243 TACACGAAAAAAAAAATTTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATAC
61 TACACG-AAAAAAAAA-TTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATAC
*
37500297 -GAAAAAT--AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAC
1 AAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAC
*
37500359 G-AAAAAAATTTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATAC
66 GAAAAAAAAATTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATAC
* *
37500405 GAAAAAAATAAAAAAAAATTTTTTTGGGTGCTGGCCTTTCAATGGCCGGCACCCAGTACACAGTA
1 -AAAAAAATAAAAAAAAA--ATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
37500470 CACGAAAAAAAAATTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATAC
63 CACGAAAAAAAAATTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATAC
*
37500520 TAAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGCCCGGCACCCAGTACACAGTA
1 -AAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
37500583 GAAAGAAATT
Statistics
Matches: 266, Mismatches: 13, Indels: 20
0.89 0.04 0.07
Matches are distributed among these distances:
108 37 0.14
109 7 0.03
110 6 0.02
111 22 0.08
112 7 0.03
113 42 0.16
114 47 0.18
115 61 0.23
116 32 0.12
118 5 0.02
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (112 bp):
AAAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAC
GAAAAAAAAATTTATTTTTTTCGTGTCAGAATCAGATAAAAAAATAC
Found at i:37500821 original size:115 final size:113
Alignment explanation
Indices: 37500693--37501451 Score: 925
Period size: 115 Copynumber: 6.8 Consensus size: 113
37500683 TTGACAGGCC
*
37500693 TCTGACACGAAAAAAATTAAATTTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGATAG
1 TCTGACACGAAAAAAATTAAA-TTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAG
* **
37500758 GCCAGCACCCAAAAATTTTTTTTTATTTTTTTCGTATTTTTAAATCTGAT
65 GCCAGCACCC-AAATTTTTTTTTTATTTTTTTCGTATTTTTTTATCTGAT
* *
37500808 TCTGACACTAAAAAAAATTTTAATTTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGAC
1 TCTGACAC-GAAAAAAA--TTAAATTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGAC
* *
37500873 AGGCCAGCACCCGAATTTTTTTTTTAATTTTTT-GTATTTTTTTATCTGAT
63 AGGCCAGCACCCAAATTTTTTTTTTATTTTTTTCGTATTTTTTTATCTGAT
* * ** *
37500923 TTTGACACGAAAAATAAAATTAAATTTTTTTTCTTTCTACTGTGTACTGGGTGCTTGACATTGAC
1 TCTGACACG--AAA-AAAATTAAATTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGAC
* *
37500988 AGGCCAGCACCCGAATTTTTTTTTTAATTTTTT-GTATTTTTTTATCTGAT
63 AGGCCAGCACCCAAATTTTTTTTTTATTTTTTTCGTATTTTTTTATCTGAT
* *
37501038 TTTGACACGAAAAATAAAATTAAATTTTTTTTCTTTCTACTGTGTACTGGGTGCCGGCCATTGAC
1 TCTGACACG--AAA-AAAATTAAATTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGAC
* *
37501103 AGGCCAGCACCCAAATTTTTTTTTTATTTTTCTGGTA----TTT-T-T--T
63 AGGCCAGCACCCAAATTTTTTTTTTATTTTTTTCGTATTTTTTTATCTGAT
* **** *
37501146 TCTGACACGAAAAAAAATAAAAAAAATTTTC-GTGTACTGTGTACTGGGTGCCGGCCATTGACAG
1 TCTGACACG-AAAAAAATTAAATTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAG
37501210 GCCAGCACCCAAATTTTTTTTTTTTATTTTTTTCGTATTTTTTTATCTGAT
65 GCCAGCACCCAAA--TTTTTTTTTTATTTTTTTCGTATTTTTTTATCTGAT
* * *
37501261 TCTGAAACGAAAAAAA--AAA---ATTTTC-GTGTACTGTGTACTGGGTGCCGGCCATTGACAGG
1 TCTGACACGAAAAAAATTAAATTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGG
37501320 CCAGCACCCAAATTTTTTTTTTTTATTTTTTTCGTATTTTTTTATCTGAT
66 CCAGCACCCAAA--TTTTTTTTTTATTTTTTTCGTATTTTTTTATCTGAT
* * *
37501370 TCTGAAACGAAAAAAA--AAA---ATTTTC-GTGTACTGTGTACTGGGTGCCGGCCATTGACAGG
1 TCTGACACGAAAAAAATTAAATTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGG
37501429 CCAGCACCCAAAATTTTTTTTTT
66 CCAGCACCC-AAATTTTTTTTTT
37501452 TTTCGTATAT
Statistics
Matches: 594, Mismatches: 32, Indels: 43
0.89 0.05 0.06
Matches are distributed among these distances:
105 44 0.07
106 13 0.02
107 24 0.04
108 19 0.03
109 158 0.27
110 4 0.01
111 4 0.01
112 7 0.01
113 1 0.00
114 7 0.01
115 222 0.37
116 31 0.05
117 56 0.09
118 4 0.01
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (113 bp):
TCTGACACGAAAAAAATTAAATTTTTTTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACAGG
CCAGCACCCAAATTTTTTTTTTATTTTTTTCGTATTTTTTTATCTGAT
Found at i:37505981 original size:16 final size:17
Alignment explanation
Indices: 37505955--37505998 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
37505945 TATATATATC
*
37505955 TATTATAAAAA-ATGTG
1 TATTTTAAAAACATGTG
37505971 TATTTTGAAAAACATGTG
1 TATTTT-AAAAACATGTG
37505989 TATTTTAAAA
1 TATTTTAAAA
37505999 CGTGCATGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 5 0.20
17 9 0.36
18 11 0.44
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.41
Consensus pattern (17 bp):
TATTTTAAAAACATGTG
Found at i:37506268 original size:33 final size:33
Alignment explanation
Indices: 37506226--37506291 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
37506216 AAAACTATGC
37506226 GCATAAATATATATGTATAGGAAGTAATGAAAA
1 GCATAAATATATATGTATAGGAAGTAATGAAAA
37506259 GCATAAATATATATGTATAGGAAGTAATGAAAA
1 GCATAAATATATATGTATAGGAAGTAATGAAAA
37506292 TAAAATAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.52, C:0.03, G:0.18, T:0.27
Consensus pattern (33 bp):
GCATAAATATATATGTATAGGAAGTAATGAAAA
Found at i:37507658 original size:125 final size:126
Alignment explanation
Indices: 37507476--37507702 Score: 330
Period size: 125 Copynumber: 1.8 Consensus size: 126
37507466 GGCTTGTTCA
* * *
37507476 GACGTTTTTGAGCAAACAGTATAAAAAAACGCTTCAAGCAGGACGATTTATCAGAAGAATTTCTA
1 GACGTTTCTGAGAAAACAGTATAAAAAAACGCTTCAAGCAAGACGATTTATCAGAAGAATTTCTA
* *
37507541 AAATCGCGCCCTCGTGGACATGTTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGAGTT
66 AAATCGCGCCCTCGTGGACAGGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGAGTT
* * * * *
37507602 GACGTTTCTGAGAAAATAGTAT-AAAAAACGCTTCAAGCAAGATGCTTTATTAGAAGAATTTCTG
1 GACGTTTCTGAGAAAACAGTATAAAAAAACGCTTCAAGCAAGACGATTTATCAGAAGAATTTCTA
* **
37507666 AAATCTCGCCCTCGTGGATGGGCTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACAGGCTTTTGCTACAGTAG
37507703 CATGTTTGGG
Statistics
Matches: 88, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
125 69 0.78
126 19 0.22
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (126 bp):
GACGTTTCTGAGAAAACAGTATAAAAAAACGCTTCAAGCAAGACGATTTATCAGAAGAATTTCTA
AAATCGCGCCCTCGTGGACAGGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTTGAGTT
Found at i:37510916 original size:112 final size:112
Alignment explanation
Indices: 37510719--37510932 Score: 383
Period size: 112 Copynumber: 1.9 Consensus size: 112
37510709 ATATTTTTTT
* *
37510719 GTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTAGTCAAATTATTAATTGTTAATTGTA
1 GTACCAATCAAAACATTTTATAAAATCTAACATTTTGTTAGTCAAATTAATAATTGTTAATTGTA
37510784 TTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTA
66 TTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTA
37510831 GTACCAATCAAAACATTTTATAAAATCTAACATTTTGTTAGTCAAATTAATAATTGTTAATTGTA
1 GTACCAATCAAAACATTTTATAAAATCTAACATTTTGTTAGTCAAATTAATAATTGTTAATTGTA
* * *
37510896 TTAATTTTTAGTAAATTTATCAAATTATATCATATTA
66 TTAATTGTTAGTAAAATTATCAAATTATATCAAATTA
37510933 GGGTTAGGGT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 97 1.00
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (112 bp):
GTACCAATCAAAACATTTTATAAAATCTAACATTTTGTTAGTCAAATTAATAATTGTTAATTGTA
TTAATTGTTAGTAAAATTATCAAATTATATCAAATTATTAATTGTTA
Found at i:37511006 original size:21 final size:21
Alignment explanation
Indices: 37510938--37511032 Score: 115
Period size: 21 Copynumber: 4.6 Consensus size: 21
37510928 TATTAGGGTT
*
37510938 AGGGTTAGGGTTTTT--GTTA
1 AGGGTTAGAGTTTTTAAGTTA
* *
37510957 A-GATTAGAGTTTTTAAGCTA
1 AGGGTTAGAGTTTTTAAGTTA
*
37510977 AGGGTTTAGGGTTTTTAAGTTA
1 AGGG-TTAGAGTTTTTAAGTTA
*
37510999 ATGGTTAGAGTTTTTAAGTTA
1 AGGGTTAGAGTTTTTAAGTTA
37511020 AGGGTTAGAGTTT
1 AGGGTTAGAGTTT
37511033 AGGGTTAGGG
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
18 11 0.17
19 1 0.02
20 4 0.06
21 29 0.46
22 18 0.29
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.44
Consensus pattern (21 bp):
AGGGTTAGAGTTTTTAAGTTA
Found at i:37511013 original size:43 final size:40
Alignment explanation
Indices: 37510938--37511025 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 40
37510928 TATTAGGGTT
37510938 AGGG-TTAGGGTTTTTGTTAAGATTAGAGTTTTTAAGCTA
1 AGGGTTTAGGGTTTTTGTTAAGATTAGAGTTTTTAAGCTA
* *
37510977 AGGGTTTAGGGTTTTTAAGTTAATGGTTAGAGTTTTTAAGTTA
1 AGGGTTTAGGGTTTTT--GTTAA-GATTAGAGTTTTTAAGCTA
37511020 AGGGTT
1 AGGGTT
37511026 AGAGTTTAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
39 4 0.09
40 11 0.26
42 5 0.12
43 23 0.53
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.44
Consensus pattern (40 bp):
AGGGTTTAGGGTTTTTGTTAAGATTAGAGTTTTTAAGCTA
Found at i:37511149 original size:22 final size:21
Alignment explanation
Indices: 37511116--37511283 Score: 212
Period size: 21 Copynumber: 7.7 Consensus size: 21
37511106 TAATAAATTA
37511116 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
37511137 GGTTAGAGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
37511158 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
*
37511179 GGCTTAGGGTTTTTAATTTTAAG
1 GG-TTAGGGTTTTTAA-GTTAAG
*
37511202 GGTTTA-GGTTTTATAATTTAAG
1 GG-TTAGGGTTTT-TAAGTTAAG
37511224 GGTTAGGGTTTTTAAGTTAATG
1 GGTTAGGGTTTTTAAGTTAA-G
* *
37511246 GTTTAGGGTTTTTAATTTTAAG
1 GGTTAGGGTTTTTAA-GTTAAG
*
37511268 GGTTTATGGTTTTTAA
1 GG-TTAGGGTTTTTAA
37511284 TGGTTAGGGT
Statistics
Matches: 131, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
21 52 0.40
22 50 0.38
23 29 0.22
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.48
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAG
Found at i:37511236 original size:66 final size:65
Alignment explanation
Indices: 37511118--37511284 Score: 257
Period size: 66 Copynumber: 2.6 Consensus size: 65
37511108 ATAAATTAGG
* *
37511118 TTAGGGTTTTTAA-GTTAAGGG-TTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAATTTTAAGGGTTTAG-GTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGG
37511181 C
65 C
*
37511182 TTAGGGTTTTTAATTTTAAGGGTTTAGGTTTTATAATTTAAGGGTTAGGGTTTTTAAGTTAATGG
1 TTAGGGTTTTTAATTTTAAGGGTTTAGGTTTT-TAATTTAAGGGTTAGGGTTTTTAAGTTAAGGG
*
37511247 T
65 C
37511248 TTAGGGTTTTTAATTTTAAGGGTTTATGGTTTTTAAT
1 TTAGGGTTTTTAATTTTAAGGGTTTA-GGTTTTTAAT
37511285 GGTTAGGGTT
Statistics
Matches: 95, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
64 13 0.14
65 12 0.13
66 64 0.67
67 6 0.06
ACGTcount: A:0.24, C:0.01, G:0.27, T:0.49
Consensus pattern (65 bp):
TTAGGGTTTTTAATTTTAAGGGTTTAGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGC
Found at i:37511294 original size:16 final size:17
Alignment explanation
Indices: 37511261--37511299 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
37511251 GGGTTTTTAA
*
37511261 TTTTAAGGGTTTATGGT
1 TTTTAAGGGTTTAGGGT
*
37511278 TTTTAATGG-TTAGGGT
1 TTTTAAGGGTTTAGGGT
37511294 TTTTAA
1 TTTTAA
37511300 ATTAACGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.54
Consensus pattern (17 bp):
TTTTAAGGGTTTAGGGT
Found at i:37511502 original size:18 final size:18
Alignment explanation
Indices: 37511476--37511518 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
37511466 GACTTGGAAA
* * *
37511476 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
37511494 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
37511512 AGGATAC
1 AGGATAC
37511519 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:37513333 original size:28 final size:28
Alignment explanation
Indices: 37513279--37513333 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
37513269 ATTTTTACGA
**
37513279 TTTAAAAAAAATTAAAAAAATTAATTTT
1 TTTAAAAAAAATTAAAAAAAGGAATTTT
* * *
37513307 TTTAAAAATAATTAAAAATAGGGATTT
1 TTTAAAAAAAATTAAAAAAAGGAATTT
37513334 AAGAGAAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (28 bp):
TTTAAAAAAAATTAAAAAAAGGAATTTT
Found at i:37513390 original size:51 final size:51
Alignment explanation
Indices: 37513322--37513419 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
37513312 AAATAATTAA
37513322 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAAATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAAATT
* * *
37513373 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGA
37513420 GAGGAAATTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.26, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAAATT
Found at i:37513408 original size:22 final size:22
Alignment explanation
Indices: 37513383--37513445 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 22
37513373 AAATATGGAT
37513383 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
37513405 TTGAGAGCAAA-TTGAGAGGAAA
1 TTGAGAG-AAATTTGAGAGGAAA
37513427 TTGAGA-AAATAATTGAGAG
1 TTGAGAGAAAT--TTGAGAG
37513446 AGGATTAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
20 3 0.08
22 22 0.61
23 11 0.31
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.22
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:37519996 original size:23 final size:20
Alignment explanation
Indices: 37519949--37519996 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 20
37519939 TTATTCCATT
*
37519949 ATATAATAGTATATCACATA
1 ATATAATAGTATATTACATA
*
37519969 CTATAATAGTAGAGTATTACATA
1 ATATAATAGT--A-TATTACATA
37519992 ATATA
1 ATATA
37519997 TTAATTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 9 0.41
22 1 0.05
23 12 0.55
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.35
Consensus pattern (20 bp):
ATATAATAGTATATTACATA
Found at i:37520430 original size:231 final size:223
Alignment explanation
Indices: 37520009--37520435 Score: 548
Period size: 231 Copynumber: 1.9 Consensus size: 223
37519999 AATTATTATA
* *
37520009 ATATATTATTGTTTATTATACTGGTTGAAATATGCTCTGAGCCCCTATACATTTCGTACATCTGA
1 ATATATTATTGTTTATTATACTGGTTGAAATATGCTCTAAGCCCCTATACATTTCGTACATCTAA
* * * * *
37520074 AAGTTAGCCCTCCTACTATATTATATAAAGTTATGTCATATCATATATTAATAGTTTATATATAT
66 AAGTTAACCCTCCTACCATATTATATAAAGTTATATCATATAATATATTAATAGTTCATATATAT
* * * *
37520139 GCATCGATGATTAAACATTATAATATCATATAATACTATATCTTTTATTATAATCTATATTGTAA
131 GCATCGATGATCAAACATTATAATATCATATAATACTATATCTCTTATTAAAATCTATATTATAA
37520204 TTATAGTTATATATAATATTAGTACGTT
196 TTATAGTTATATATAATATTAGTACGTT
* * * ** * *
37520232 ATATATTATTGTTTACTATTATGCTTGTTGAAATATTCTCTAAGTTCCTATACTTTTCGTACATT
1 ATATATTATTG-TT--TATTATACTGGTTGAAATATGCTCTAAGCCCCTATACATTTCGTACATC
* * * * *
37520297 TAAAAGTTAACCCTCTTTCCATTTTATATAATGCTATAACATATCATATAATATCTTAATAGTTC
63 TAAAAGTTAACCCTCCTACCATATTATATAAAG-T-T---ATATCATATAATATATTAATAGTTC
* * *
37520362 ATATATATGCATTGATGATCAAACATTATAATATCGTGTAATACTATATCTCTTATTAAAATCTA
123 ATATATATGCATCGATGATCAAACATTATAATATCATATAATACTATATCTCTTATTAAAATCTA
37520427 TATTATAAT
188 TATTATAAT
37520436 AGTTATATAT
Statistics
Matches: 170, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
223 11 0.06
224 2 0.01
226 67 0.39
227 1 0.01
228 1 0.01
231 88 0.52
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (223 bp):
ATATATTATTGTTTATTATACTGGTTGAAATATGCTCTAAGCCCCTATACATTTCGTACATCTAA
AAGTTAACCCTCCTACCATATTATATAAAGTTATATCATATAATATATTAATAGTTCATATATAT
GCATCGATGATCAAACATTATAATATCATATAATACTATATCTCTTATTAAAATCTATATTATAA
TTATAGTTATATATAATATTAGTACGTT
Found at i:37521615 original size:24 final size:24
Alignment explanation
Indices: 37521583--37521630 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
37521573 CCCGCAAACC
*
37521583 AAAAATAAA-CCCAATTTTATAAAT
1 AAAAATAAAGCCAAATTTTA-AAAT
37521607 AAAAATAAAGCCAAATTTTAAAAT
1 AAAAATAAAGCCAAATTTTAAAAT
37521631 GTCCACAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.27
Consensus pattern (24 bp):
AAAAATAAAGCCAAATTTTAAAAT
Found at i:37524491 original size:180 final size:180
Alignment explanation
Indices: 37524189--37524545 Score: 696
Period size: 180 Copynumber: 2.0 Consensus size: 180
37524179 AAACCCTTTT
37524189 GAGAATAAACCACGGCAAGAGGAGAAAAAAATTCACTATGTCAAATTCGAATTATATAAGAGTAG
1 GAGAATAAACCACGGCAAGAGGAGAAAAAAATTCACTATGTCAAATTCGAATTATATAAGAGTAG
37524254 AGACGATTACGTCTATTTATAGGTTTAAAAACCTTATTCTAATCAAAGTCAAATAAAAGTAATGC
66 AGACGATTACGTCTATTTATAGGTTTAAAAACCTTATTCTAATCAAAGTCAAATAAAAGTAATGC
37524319 AGTAAGATTAAAACACCTTATTTTAATTAACATCAAATAGAGGAAGTTTA
131 AGTAAGATTAAAACACCTTATTTTAATTAACATCAAATAGAGGAAGTTTA
*
37524369 GAGAATAAACCACGGCAAGAGGAGAAAAAAATTCACTATGTCGAATTCGAATTATATAAGAGTAG
1 GAGAATAAACCACGGCAAGAGGAGAAAAAAATTCACTATGTCAAATTCGAATTATATAAGAGTAG
37524434 AGACGATTACGTCTATTTATAGGTTTAAAAACCTTATTCTAATCAAAGTCAAATAAAAGTAATGC
66 AGACGATTACGTCTATTTATAGGTTTAAAAACCTTATTCTAATCAAAGTCAAATAAAAGTAATGC
*
37524499 AGTAAGATTAAAACACTTTATTTTAATTAACATCAAATAGAGGAAGT
131 AGTAAGATTAAAACACCTTATTTTAATTAACATCAAATAGAGGAAGT
37524546 AAACTTCTAT
Statistics
Matches: 175, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
180 175 1.00
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (180 bp):
GAGAATAAACCACGGCAAGAGGAGAAAAAAATTCACTATGTCAAATTCGAATTATATAAGAGTAG
AGACGATTACGTCTATTTATAGGTTTAAAAACCTTATTCTAATCAAAGTCAAATAAAAGTAATGC
AGTAAGATTAAAACACCTTATTTTAATTAACATCAAATAGAGGAAGTTTA
Found at i:37536329 original size:12 final size:12
Alignment explanation
Indices: 37536312--37536341 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37536302 CTCCACATGC
37536312 CCATGTGCTAGG
1 CCATGTGCTAGG
*
37536324 CCATGTGTTAGG
1 CCATGTGCTAGG
37536336 CCATGT
1 CCATGT
37536342 AACTCACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.30
Consensus pattern (12 bp):
CCATGTGCTAGG
Found at i:37555656 original size:13 final size:13
Alignment explanation
Indices: 37555638--37555664 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37555628 TTAATTTATA
37555638 TGTGTGAAAATTT
1 TGTGTGAAAATTT
37555651 TGTGTGAAAATTT
1 TGTGTGAAAATTT
37555664 T
1 T
37555665 ATCGTTTGTA
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:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:37558747 original size:31 final size:32
Alignment explanation
Indices: 37558702--37558786 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 32
37558692 ATAAACAGAA
37558702 TGGCTACAAA-CCATAAGTA-CAGTAATATGAT
1 TGGC-ACAAAGCCATAAGTAGCAGTAATATGAT
* * *
37558733 TGGCACAAAGCCATAAGGAGCAGTGATATGGT
1 TGGCACAAAGCCATAAGTAGCAGTAATATGAT
* * *
37558765 CGGCACACAGCCATCAGTAGCA
1 TGGCACAAAGCCATAAGTAGCA
37558787 TCGCAACAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
30 5 0.11
31 12 0.27
32 28 0.62
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (32 bp):
TGGCACAAAGCCATAAGTAGCAGTAATATGAT
Done.