Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 152 of 185
Found at i:46040375 original size:39 final size:39
Alignment explanation
Indices: 46040321--46040399 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
46040311 AAGTAGATTC
*
46040321 CATAACTATCCACCTATTACTCTACCATGTTCTGAAACA
1 CATAACTATCCACCTATTACTCTACCATGTTCAGAAACA
*
46040360 CATAACTATCCACCTATTACTCTTCCATGTTCAGAAACA
1 CATAACTATCCACCTATTACTCTACCATGTTCAGAAACA
46040399 C
1 C
46040400 TTAGCACTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.33, C:0.32, G:0.05, T:0.30
Consensus pattern (39 bp):
CATAACTATCCACCTATTACTCTACCATGTTCAGAAACA
Found at i:46041314 original size:200 final size:200
Alignment explanation
Indices: 46040971--46041370 Score: 773
Period size: 200 Copynumber: 2.0 Consensus size: 200
46040961 GCGACGAAGA
*
46040971 ACCATCACTGTCGTCCTTGAGTTGCTTGGGCTGGTGGTGGTTGTGCTGCTGGTCCTTCTTGGCCT
1 ACCATCACTGTCGTCCTTGAGTTGCTTGGGCTGGTGGTGGTTGTGCTGCTGATCCTTCTTGGCCT
46041036 GTTTCTGCCGCCGCTCGATGGCGGCTTGCTGTTGCTGGGCGTAGAGCCTCTGGGAAGCTCGGATT
66 GTTTCTGCCGCCGCTCGATGGCGGCTTGCTGTTGCTGGGCGTAGAGCCTCTGGGAAGCTCGGATT
*
46041101 GTACAAGCGCGGGAGGGACGATTGCTCCTGGTCAAGGGTGGGATCGGGGTTGCGTCGGGGGTTTG
131 GTACAAGCGCGGGAGGGACGATTGCTCCTGGTCAAGGGTGGGATCGGAGTTGCGTCGGGGGTTTG
46041166 GGTAG
196 GGTAG
*
46041171 ACCATCACTGTCGTCCTTGGGTTGCTTGGGCTGGTGGTGGTTGTGCTGCTGATCCTTCTTGGCCT
1 ACCATCACTGTCGTCCTTGAGTTGCTTGGGCTGGTGGTGGTTGTGCTGCTGATCCTTCTTGGCCT
46041236 GTTTCTGCCGCCGCTCGATGGCGGCTTGCTGTTGCTGGGCGTAGAGCCTCTGGGAAGCTCGGATT
66 GTTTCTGCCGCCGCTCGATGGCGGCTTGCTGTTGCTGGGCGTAGAGCCTCTGGGAAGCTCGGATT
46041301 GTACAAGCGCGGGAGGGACGATTGCTCCTGGTCAAGGGTGGGATCGGAGTTGCGTCGGGGGTTTG
131 GTACAAGCGCGGGAGGGACGATTGCTCCTGGTCAAGGGTGGGATCGGAGTTGCGTCGGGGGTTTG
46041366 GGTAG
196 GGTAG
46041371 GAGTGTCGTT
Statistics
Matches: 197, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 197 1.00
ACGTcount: A:0.10, C:0.22, G:0.39, T:0.28
Consensus pattern (200 bp):
ACCATCACTGTCGTCCTTGAGTTGCTTGGGCTGGTGGTGGTTGTGCTGCTGATCCTTCTTGGCCT
GTTTCTGCCGCCGCTCGATGGCGGCTTGCTGTTGCTGGGCGTAGAGCCTCTGGGAAGCTCGGATT
GTACAAGCGCGGGAGGGACGATTGCTCCTGGTCAAGGGTGGGATCGGAGTTGCGTCGGGGGTTTG
GGTAG
Found at i:46050169 original size:25 final size:24
Alignment explanation
Indices: 46050090--46050200 Score: 77
Period size: 25 Copynumber: 4.5 Consensus size: 24
46050080 AACACACCAT
* *
46050090 AGCTCGTATGACCTTACTGATTTT-
1 AGCTCGTATGAGCTTACCG-TTTTC
* *
46050114 AGCTCGTGA-GAGCTTACCAATTTAC
1 AGCTCGT-ATGAGCTTACC-GTTTTC
*
46050139 AACTCGTATGAGCTTACCGTTATTC
1 AGCTCGTATGAGCTTACCGTT-TTC
*
46050164 AGCTCGGA-GAAGCTTACCGTTTATC
1 AGCTCGTATG-AGCTTACCGTTT-TC
*
46050189 -GCTTGTATGAGC
1 AGCTCGTATGAGC
46050201 ATACATGTAC
Statistics
Matches: 68, Mismatches: 11, Indels: 16
0.72 0.12 0.17
Matches are distributed among these distances:
24 30 0.44
25 38 0.56
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (24 bp):
AGCTCGTATGAGCTTACCGTTTTC
Found at i:46053343 original size:3 final size:3
Alignment explanation
Indices: 46053330--46053369 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
46053320 GTGGAATCTA
*
46053330 AAG AA- AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG -AG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
46053370 GGTTGATTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:46055985 original size:39 final size:39
Alignment explanation
Indices: 46055941--46056075 Score: 191
Period size: 39 Copynumber: 3.5 Consensus size: 39
46055931 AGTGCTAATA
46055941 ATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGGTG
1 ATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGGTG
* * * *
46055980 ATTATTCAGGCTATGTGCCTAGCAGGATGTGTACCGGTA
1 ATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGGTG
* * *
46056019 ATTATTCGAGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
1 ATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGGTG
*
46056058 -TTATTCGGGCTCTGTGCC
1 ATTATTCGGGCTATGTGCC
46056076 GGTGTATTGA
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
38 16 0.19
39 67 0.81
ACGTcount: A:0.16, C:0.20, G:0.31, T:0.33
Consensus pattern (39 bp):
ATTATTCGGGCTATGTGCCTAGCAGGCTGTGTGCCGGTG
Found at i:46058538 original size:21 final size:23
Alignment explanation
Indices: 46058496--46058540 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
46058486 ATTTTTTCCA
*
46058496 AATATGTGTATTGGACTGAATTG
1 AATATGTGTATTGGACTAAATTG
*
46058519 AATATG-G-ATTGTACTAAATTG
1 AATATGTGTATTGGACTAAATTG
46058540 A
1 A
46058541 GCTAAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 1 0.05
23 6 0.30
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (23 bp):
AATATGTGTATTGGACTAAATTG
Found at i:46058756 original size:20 final size:19
Alignment explanation
Indices: 46058727--46058768 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
46058717 TGAAAAATAA
46058727 TTTCTAGAAAATGATTTACT
1 TTTCTAG-AAATGATTTACT
*
46058747 TTTCTGGAAATGATTTACT
1 TTTCTAGAAATGATTTACT
46058766 TTT
1 TTT
46058769 TTGGTGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.50
Consensus pattern (19 bp):
TTTCTAGAAATGATTTACT
Found at i:46061749 original size:25 final size:26
Alignment explanation
Indices: 46061721--46061770 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
46061711 AAAAGGTTTT
46061721 GGGGAATAAAAGGTT-GAGGGAAAAG
1 GGGGAATAAAAGGTTGGAGGGAAAAG
* **
46061746 GGGGAGTAAAATTTTGGAGGGAAAA
1 GGGGAATAAAAGGTTGGAGGGAAAA
46061771 TATTAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.42, C:0.00, G:0.42, T:0.16
Consensus pattern (26 bp):
GGGGAATAAAAGGTTGGAGGGAAAAG
Found at i:46061857 original size:30 final size:30
Alignment explanation
Indices: 46061823--46061880 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46061813 AGGTGGGATG
*
46061823 GGAAGAGAATAAAAGTTTTAGGGGAAAAGT
1 GGAAGAGAATAAAAATTTTAGGGGAAAAGT
* * *
46061853 GGAAGGGAGTAAAAATTTTGGGGGAAAA
1 GGAAGAGAATAAAAATTTTAGGGGAAAA
46061881 TAAAAGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.19
Consensus pattern (30 bp):
GGAAGAGAATAAAAATTTTAGGGGAAAAGT
Found at i:46062955 original size:24 final size:24
Alignment explanation
Indices: 46062867--46063007 Score: 101
Period size: 25 Copynumber: 5.8 Consensus size: 24
46062857 TTTCTGTTAT
*
46062867 TTGGCTCTCACGAGCTTC-CTGATAA
1 TTGGCTCTCATGAGCTTCTC-GAT-A
46062892 TTGGCTCTCATGAGCTTCTCGATTA
1 TTGGCTCTCATGAGCTTCTCGA-TA
*
46062917 ATGGCTCTC-TAGAGCTTCTCGATA
1 TTGGCTCTCAT-GAGCTTCTCGATA
** *
46062941 TTGGCTAGCATGAGCTTCCCGAT-
1 TTGGCTCTCATGAGCTTCTCGATA
* * *
46062964 TACGGCTCTTATGAGCTT-TCCGTTA
1 T-TGGCTCTCATGAGCTTCT-CGATA
* *
46062989 CATGGCTCACATGAGCTTC
1 -TTGGCTCTCATGAGCTTC
46063008 CCGTTACATG
Statistics
Matches: 91, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
23 1 0.01
24 35 0.38
25 53 0.58
26 2 0.02
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.34
Consensus pattern (24 bp):
TTGGCTCTCATGAGCTTCTCGATA
Found at i:46062956 original size:49 final size:50
Alignment explanation
Indices: 46062868--46063010 Score: 131
Period size: 49 Copynumber: 2.9 Consensus size: 50
46062858 TTCTGTTATT
** *
46062868 TGGCTCTC-ACGAGCTTCCTGATAATTGGCTCTCATGAGCTTCTCGATTAA
1 TGGCTCTCTACGAGCTTCCTGATAATTGGCTAGCATGAGCTTCCCGATT-A
46062918 TGGCTCTCTA-GAGCTT-CTCGAT-ATTGGCTAGCATGAGCTTCCCGATTA
1 TGGCTCTCTACGAGCTTCCT-GATAATTGGCTAGCATGAGCTTCCCGATTA
* * *
46062966 CGGCTCT-TATGAGCTTTCC-GTTACA-TGGCTCA-CATGAGCTTCCCG
1 TGGCTCTCTACGAGC-TTCCTGATA-ATTGGCT-AGCATGAGCTTCCCG
46063011 TTACATGGCT
Statistics
Matches: 80, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
47 2 0.03
48 13 0.16
49 44 0.55
50 20 0.25
51 1 0.01
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (50 bp):
TGGCTCTCTACGAGCTTCCTGATAATTGGCTAGCATGAGCTTCCCGATTA
Found at i:46062995 original size:25 final size:25
Alignment explanation
Indices: 46062893--46063022 Score: 101
Period size: 25 Copynumber: 5.3 Consensus size: 25
46062883 TCCTGATAAT
* *
46062893 TGGCTCTCATGAGCTTCTCGATTA-A
1 TGGCTCACATGAGCTTCCCG-TTACA
* * * *
46062918 TGGCTCTC-TAGAGCTTCTCGATA-T
1 TGGCTCACAT-GAGCTTCCCGTTACA
46062942 TGGCT-AGCATGAGCTTCCCGATTAC-
1 TGGCTCA-CATGAGCTTCCCG-TTACA
** *
46062967 -GGCTCTTATGAGCTTTCCGTTACA
1 TGGCTCACATGAGCTTCCCGTTACA
46062991 TGGCTCACATGAGCTTCCCGTTACA
1 TGGCTCACATGAGCTTCCCGTTACA
46063016 TGGCTCA
1 TGGCTCA
46063023 GAAAAGCTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
23 4 0.05
24 33 0.38
25 49 0.57
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCCCGTTACA
Found at i:46063030 original size:25 final size:25
Alignment explanation
Indices: 46062977--46063043 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
46062967 GGCTCTTATG
* **
46062977 AGCTTTCCGTTACATGGCTCACATG
1 AGCTTCCCGTTACATGGCTCACAAA
*
46063002 AGCTTCCCGTTACATGGCTCAGAAA
1 AGCTTCCCGTTACATGGCTCACAAA
*
46063027 AGCTTCCTGTTTACATG
1 AGCTTCCCG-TTACATG
46063044 CTCGTATGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
25 29 0.81
26 7 0.19
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.31
Consensus pattern (25 bp):
AGCTTCCCGTTACATGGCTCACAAA
Found at i:46067709 original size:125 final size:125
Alignment explanation
Indices: 46067483--46067902 Score: 556
Period size: 125 Copynumber: 3.4 Consensus size: 125
46067473 GGACGTGAAT
* * * * * * *
46067483 AATTTGTGAAATCGTGCCCTCCTGGATGCGTTTTTGCTACAGTTGGTCCTGGAAGAAATAATTTT
1 AATTTGTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTT
46067548 GAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGAGAAG
66 GAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGAGAAG
* * * * * * *
46067608 AATTTGTTAAATCACGCCCACGTGGACGTGCTTTTGCTACAGTAGGTCCT-GAAAAAATTATCTC
1 AATTTGTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTT
* * * * *
46067672 GAGTTGACGTTTCTGAGAAAATAGTACAAAAAACGCTTCAAGCAGGATGCTATT-TGAGAAG
66 GAGTTGACGTTTCTGAGCAAATAGTA-TAAAATCGCTTCTACCAGGATGCT-TTATGAGAAG
* * * * *
46067733 AATTTCTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTATAGTTGGTTCTGGAAGAAATAATTTT
1 AATTTGTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTT
* *
46067798 GAGTTGACGTTTCTGAGCAAATGGTATAAAATCGCTTCTACCAGGATGTTTTATGAGAAG
66 GAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGAGAAG
* *
46067858 AATTTGTGAAATCGCGTCCACGTGGACGCGCTTTTGCTACAGTAG
1 AATTTGTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
46067903 CATGCTTGGG
Statistics
Matches: 248, Mismatches: 43, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
124 37 0.15
125 175 0.71
126 36 0.15
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (125 bp):
AATTTGTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTT
GAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGAGAAG
Found at i:46071031 original size:25 final size:24
Alignment explanation
Indices: 46071005--46071102 Score: 87
Period size: 25 Copynumber: 4.2 Consensus size: 24
46070995 AAAATAACTC
46071005 AAAAAAATTTCTATTTTATTACAT
1 AAAAAAATTTCTATTTTATTACAT
* *
46071029 CAAATAAACTTCTATTTTATTACAT
1 -AAAAAAATTTCTATTTTATTACAT
* * ** *
46071054 AAAATAATATC-A--AAATAAC-T
1 AAAAAAATTTCTATTTTATTACAT
46071074 GAAAAAAATTTCTATTTTATTACAT
1 -AAAAAAATTTCTATTTTATTACAT
46071099 AAAA
1 AAAA
46071103 TAATATCAAA
Statistics
Matches: 54, Mismatches: 14, Indels: 11
0.68 0.18 0.14
Matches are distributed among these distances:
20 1 0.02
21 13 0.24
22 1 0.02
23 1 0.02
24 15 0.28
25 23 0.43
ACGTcount: A:0.50, C:0.10, G:0.01, T:0.39
Consensus pattern (24 bp):
AAAAAAATTTCTATTTTATTACAT
Found at i:46071059 original size:70 final size:70
Alignment explanation
Indices: 46070975--46071105 Score: 235
Period size: 70 Copynumber: 1.9 Consensus size: 70
46070965 TAAGCTCATG
* *
46070975 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATCAAATAAACTT
1 TTATTACATAAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATAAAATAAACTT
46071040 CTATT
66 CTATT
*
46071045 TTATTACATAAAATAATATCAAAATAACTGAAAAAAATTTCTATTTTATTACATAAAATAA
1 TTATTACATAAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATAAAATAA
46071106 TATCAAAATA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 58 1.00
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.37
Consensus pattern (70 bp):
TTATTACATAAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATAAAATAAACTT
CTATT
Found at i:46071558 original size:18 final size:18
Alignment explanation
Indices: 46071535--46071574 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
46071525 GACTCGAAAA
*
46071535 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGCT
46071553 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
46071571 AGGA
1 AGGA
46071575 AACGCACCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:46072237 original size:7 final size:7
Alignment explanation
Indices: 46072227--46072257 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
46072217 ATATACATAA
46072227 TACTAAT
1 TACTAAT
46072234 TACTAAT
1 TACTAAT
46072241 TACTAAT
1 TACTAAT
46072248 TACTAAT
1 TACTAAT
46072255 TAC
1 TAC
46072258 CAATCGACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (7 bp):
TACTAAT
Found at i:46073716 original size:103 final size:104
Alignment explanation
Indices: 46073537--46073801 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
46073527 AACCGTTATT
* * * *
46073537 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
46073602 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
46073640 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
46073704 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
46073744 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
46073802 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:46074163 original size:30 final size:29
Alignment explanation
Indices: 46074129--46074193 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46074119 TAATCCACCA
46074129 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
46074159 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
46074189 CCCAA
1 CCCAA
46074194 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:46074167 original size:31 final size:30
Alignment explanation
Indices: 46074136--46074193 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46074126 CCACCCAACT
46074136 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
46074166 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
46074194 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:46081208 original size:103 final size:104
Alignment explanation
Indices: 46081029--46081293 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 104
46081019 AACCGTTATT
* * * *
46081029 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
46081094 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
46081132 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
46081197 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
46081236 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
46081294 TTATGTACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:46081655 original size:30 final size:29
Alignment explanation
Indices: 46081621--46081685 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
46081611 TAATCCACCA
46081621 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
46081651 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
46081681 CCCAA
1 CCCAA
46081686 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:46081659 original size:31 final size:30
Alignment explanation
Indices: 46081628--46081685 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
46081618 CCACCCAACT
46081628 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
46081658 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
46081686 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:46083568 original size:10 final size:10
Alignment explanation
Indices: 46083555--46083579 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
46083545 TTGAAAAAAA
46083555 TAAAATTATT
1 TAAAATTATT
46083565 TAAAATTATT
1 TAAAATTATT
46083575 TAAAA
1 TAAAA
46083580 ATAGGGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TAAAATTATT
Found at i:46083633 original size:51 final size:51
Alignment explanation
Indices: 46083578--46083675 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
46083568 AATTATTTAA
46083578 AAATAGGGATTTAAGAGAAATTTAAGAA-GAACTTGAGAGCAAATTGAAATT
1 AAATAGGGATTTAAGAGAAATTT-AGAAGGAACTTGAGAGCAAATTGAAATT
* * * * * *
46083629 AAATATGGATTTGATATAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
46083676 GAGGAAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 3 0.08
51 37 0.93
ACGTcount: A:0.46, C:0.03, G:0.21, T:0.30
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAATT
Found at i:46083675 original size:11 final size:12
Alignment explanation
Indices: 46083658--46083690 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
46083648 ATTTTGAAGG
46083658 AATTTGAGAGCA
1 AATTTGAGAGCA
*
46083670 AA-TTGAGAGGA
1 AATTTGAGAGCA
46083681 AATTTGAGAG
1 AATTTGAGAG
46083691 AGGATTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.42, C:0.03, G:0.30, T:0.24
Consensus pattern (12 bp):
AATTTGAGAGCA
Found at i:46087100 original size:13 final size:13
Alignment explanation
Indices: 46087082--46087106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46087072 AACGAATATC
46087082 AAATAAAATAAAT
1 AAATAAAATAAAT
46087095 AAATAAAATAAA
1 AAATAAAATAAA
46087107 ATTAGTAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:46088017 original size:3 final size:3
Alignment explanation
Indices: 46088009--46088034 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
46087999 AATATTTTAA
46088009 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
46088035 CAAAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:46088484 original size:130 final size:130
Alignment explanation
Indices: 46088330--46088589 Score: 493
Period size: 130 Copynumber: 2.0 Consensus size: 130
46088320 AGCGTGCGGC
46088330 ACTGAAGGCTCCTGCTAGGGTTTTTTTGTTGTAAAATTTTTAAGTTCGTTGGGCCTTGGGCTAGT
1 ACTGAAGGCTCCTGCTAGGGTTTTTTTGTTGTAAAATTTTTAAGTTCGTTGGGCCTTGGGCTAGT
* *
46088395 ATTGTTAATTGGGCTTGGGTTGTTGTCTTTGGGCTTTGGGGCCATATTAGGCCCGGGCAAAATTT
66 ATTGTTAATTGGGCTTGGGTTGTTCTCTTTGGGCTTTGGGGCCATAATAGGCCCGGGCAAAATTT
*
46088460 ACTGAAGGCTCCTGCTAGGGTTTTTTTGTTGTAAAATTTTTTAGTTCGTTGGGCCTTGGGCTAGT
1 ACTGAAGGCTCCTGCTAGGGTTTTTTTGTTGTAAAATTTTTAAGTTCGTTGGGCCTTGGGCTAGT
46088525 ATTGTTAATTGGGCTTGGGTTGTTCTCTTTGGGCTTTGGGGCCATAATAGGCCCGGGCAAAATTT
66 ATTGTTAATTGGGCTTGGGTTGTTCTCTTTGGGCTTTGGGGCCATAATAGGCCCGGGCAAAATTT
46088590 GTTTTTAAGT
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 127 1.00
ACGTcount: A:0.16, C:0.14, G:0.30, T:0.40
Consensus pattern (130 bp):
ACTGAAGGCTCCTGCTAGGGTTTTTTTGTTGTAAAATTTTTAAGTTCGTTGGGCCTTGGGCTAGT
ATTGTTAATTGGGCTTGGGTTGTTCTCTTTGGGCTTTGGGGCCATAATAGGCCCGGGCAAAATTT
Found at i:46088607 original size:95 final size:95
Alignment explanation
Indices: 46088496--46088684 Score: 351
Period size: 95 Copynumber: 2.0 Consensus size: 95
46088486 TGTTGTAAAA
*
46088496 TTTTTTAGTTCGTTGGGCCTTGGGCTAGTATTGTTAATTGGGCTTGGGTTGTTCTCTTTGGGCTT
1 TTTTTAAGTTCGTTGGGCCTTGGGCTAGTATTGTTAATTGGGCTTGGGTTGTTCTCTTTGGGCTT
46088561 TGGGGCCATAATAGGCCCGGGCAAAATTTG
66 TGGGGCCATAATAGGCCCGGGCAAAATTTG
*
46088591 TTTTTAAGTTCGTTGGGCCTTGGGCTAGTATTGTTAATTGGGCTTGGGTTGTTGTCTTTGGGCTT
1 TTTTTAAGTTCGTTGGGCCTTGGGCTAGTATTGTTAATTGGGCTTGGGTTGTTCTCTTTGGGCTT
*
46088656 TGGGGCCATATTAGGCCCGGGCAAAATTT
66 TGGGGCCATAATAGGCCCGGGCAAAATTT
46088685 AGGCCTTACA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.14, C:0.14, G:0.32, T:0.40
Consensus pattern (95 bp):
TTTTTAAGTTCGTTGGGCCTTGGGCTAGTATTGTTAATTGGGCTTGGGTTGTTCTCTTTGGGCTT
TGGGGCCATAATAGGCCCGGGCAAAATTTG
Found at i:46090099 original size:72 final size:72
Alignment explanation
Indices: 46090013--46090158 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 72
46090003 TCTCTCCTTC
*
46090013 TCCGCGTAAACCTCACCTTCCCTTGTCTTTTCTATTTTGGAATCACGGGGTTGGAGAACTCCTCA
1 TCCGCGTAAACCTCACCTTCCCTTGTCTTTTCTATTTTGGAATCACGGGGTTAGAGAACTCCTCA
46090078 CATTGGG
66 CATTGGG
46090085 TCCGCGTAAACCTCACCTTCCCTTGTCTTTTCTATTTTGGAATCACGGGGTTAGAGAACTCCTCA
1 TCCGCGTAAACCTCACCTTCCCTTGTCTTTTCTATTTTGGAATCACGGGGTTAGAGAACTCCTCA
46090150 CATTGGG
66 CATTGGG
46090157 TC
1 TC
46090159 AATCATTTCC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (72 bp):
TCCGCGTAAACCTCACCTTCCCTTGTCTTTTCTATTTTGGAATCACGGGGTTAGAGAACTCCTCA
CATTGGG
Found at i:46105617 original size:5 final size:5
Alignment explanation
Indices: 46105607--46105645 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
46105597 AATTATGTTT
46105607 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA
46105646 AAAGTGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 22 0.71
6 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:46105632 original size:19 final size:18
Alignment explanation
Indices: 46105608--46105643 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
46105598 ATTATGTTTT
46105608 TATATTATATTATTATTAA
1 TATATTATATTA-TATTAA
46105627 TATATTATATTATATTA
1 TATATTATATTATATTA
46105644 TAAAAGTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATTATATTATATTAA
Found at i:46105934 original size:29 final size:30
Alignment explanation
Indices: 46105875--46105932 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
46105865 TCCGAGCCTT
*
46105875 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
46105905 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
46105933 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:46106162 original size:13 final size:13
Alignment explanation
Indices: 46106144--46106175 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
46106134 TTTCCAGCAA
46106144 TTATGAATTTATT
1 TTATGAATTTATT
46106157 TTATGAATTTATT
1 TTATGAATTTATT
*
46106170 TGATGA
1 TTATGA
46106176 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:46106350 original size:50 final size:50
Alignment explanation
Indices: 46106270--46106404 Score: 261
Period size: 50 Copynumber: 2.7 Consensus size: 50
46106260 ATTTGGGTAA
*
46106270 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
46106320 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
46106370 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
46106405 TTTGGCATGT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 84 1.00
ACGTcount: A:0.27, C:0.24, G:0.33, T:0.17
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:46107903 original size:41 final size:41
Alignment explanation
Indices: 46107857--46107956 Score: 119
Period size: 41 Copynumber: 2.4 Consensus size: 41
46107847 GCCTTTAGCT
* * * *
46107857 TGCTAGACTTATAGTCTGAAATGCGTCACCGGCATTAAGCC
1 TGCTAGACGTAAAGTCTGAAATACGTCACCGGCATCAAGCC
* * ** *
46107898 TGCTAGACGTAAAGTCTGTATTATTTCACCGGTATCAAGCC
1 TGCTAGACGTAAAGTCTGAAATACGTCACCGGCATCAAGCC
46107939 TGCTAGACGTAAAGTCTG
1 TGCTAGACGTAAAGTCTG
46107957 TATTACATTC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (41 bp):
TGCTAGACGTAAAGTCTGAAATACGTCACCGGCATCAAGCC
Found at i:46107957 original size:41 final size:41
Alignment explanation
Indices: 46107882--46107961 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
46107872 CTGAAATGCG
*
46107882 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGTATTATT
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGTATTATT
*
46107923 TCACCGGTATCAAGCCTGCTAGACGTAAAGTCTGTATTA
1 TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGTATTA
46107962 CATTCGATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (41 bp):
TCACCGGCATCAAGCCTGCTAGACGTAAAGTCTGTATTATT
Found at i:46111243 original size:23 final size:22
Alignment explanation
Indices: 46111192--46111275 Score: 78
Period size: 23 Copynumber: 3.5 Consensus size: 22
46111182 CACAGCTCGT
* *
46111192 ATGAGCTTACAGTTTCAACTCTA
1 ATGAGCTTACCGTTTCAGCTC-A
**
46111215 CGGAGCTTACCGTTTCAGCTCA
1 ATGAGCTTACCGTTTCAGCTCA
46111237 ATAGAGCTTACCGTTTATCAGCTCGGA
1 AT-GAGCTTACCG-TT-TCAGCTC--A
46111264 ATGAGCTTACCG
1 ATGAGCTTACCG
46111276 ATCATGGCTC
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
22 1 0.02
23 27 0.54
24 2 0.04
25 7 0.14
26 10 0.20
27 3 0.06
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (22 bp):
ATGAGCTTACCGTTTCAGCTCA
Found at i:46119655 original size:29 final size:29
Alignment explanation
Indices: 46119602--46119657 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
46119592 TCATGATCAT
*
46119602 TATTAATATAATAAAATTTTATATTTACA
1 TATTAATATAATAAAAATTTATATTTACA
46119631 TATTAA-ATACATAAATAATTT-TATTTA
1 TATTAATATA-ATAAA-AATTTATATTTA
46119658 TCAAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 3 0.12
29 17 0.71
30 4 0.17
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (29 bp):
TATTAATATAATAAAAATTTATATTTACA
Found at i:46119903 original size:53 final size:53
Alignment explanation
Indices: 46119792--46119903 Score: 199
Period size: 52 Copynumber: 2.1 Consensus size: 53
46119782 AAAACTGATG
*
46119792 TAATTTATATTATCTTTTTTCATGACAGTCGAAGGGCCCATCACAACCTAACT
1 TAATTTATATTATCTTTTTTCATGACAGTCGAAGAGCCCATCACAACCTAACT
46119845 TAATTTATATTATCTTTTTTCAT-ACAGTCGAAGAGCCCATCACAACCTAACT
1 TAATTTATATTATCTTTTTTCATGACAGTCGAAGAGCCCATCACAACCTAACT
46119897 TCAATTT
1 T-AATTT
46119904 GAACCACTTG
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
52 29 0.51
53 28 0.49
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (53 bp):
TAATTTATATTATCTTTTTTCATGACAGTCGAAGAGCCCATCACAACCTAACT
Found at i:46122157 original size:16 final size:15
Alignment explanation
Indices: 46122117--46122159 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
46122107 TATATGAATG
* *
46122117 AATTTAACTCAATTT
1 AATTTAATTCAATTC
*
46122132 AATATAATTCATATTC
1 AATTTAATTCA-ATTC
46122148 AATTTAATTCAA
1 AATTTAATTCAA
46122160 CATGCATCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTTAATTCAATTC
Found at i:46129239 original size:3 final size:3
Alignment explanation
Indices: 46129231--46129256 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
46129221 GTGACAAAAG
46129231 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
46129257 ATATCAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:46134780 original size:40 final size:41
Alignment explanation
Indices: 46134703--46134819 Score: 132
Period size: 40 Copynumber: 2.9 Consensus size: 41
46134693 TTGACCTTTT
* *
46134703 GGGGCTTTAGCGGCATTTTTGAAAAAGCGCCTCTAATGCTC
1 GGGGCTTTAACAGCATTTTTGAAAAAGCGCCTCTAATGCTC
*
46134744 GGGGCTTTAACAGCGTTTTTG-AAAAGCGCCGT-TAATGCTC
1 GGGGCTTTAACAGCATTTTTGAAAAAGCGCC-TCTAATGCTC
* ** *
46134784 GGGGATTT-AGTGACATTTTTGAAAAAGCGCCGCTAA
1 GGGGCTTTAACAG-CATTTTTGAAAAAGCGCCTCTAA
46134820 AAACATTTTA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
39 2 0.03
40 31 0.48
41 31 0.48
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (41 bp):
GGGGCTTTAACAGCATTTTTGAAAAAGCGCCTCTAATGCTC
Found at i:46135429 original size:7 final size:7
Alignment explanation
Indices: 46135413--46135604 Score: 59
Period size: 7 Copynumber: 26.9 Consensus size: 7
46135403 TATAATTATA
*
46135413 GTTTAAG
1 GTTTAGG
46135420 GTTTAGG
1 GTTTAGG
46135427 GTTTAGG
1 GTTTAGG
* *
46135434 GTATATG
1 GTTTAGG
* *
46135441 GTGTAAG
1 GTTTAGG
*
46135448 GTTTAAG
1 GTTTAGG
*
46135455 GTTTAAGA
1 GTTT-AGG
46135463 GTTACTA--
1 GTT--TAGG
* *
46135470 TTTTAAG
1 GTTTAGG
*
46135477 GTTTATG
1 GTTTAGG
*
46135484 GATTATGG
1 GTTTA-GG
46135492 GTTTAGG
1 GTTTAGG
* *
46135499 GATTACG
1 GTTTAGG
*
46135506 GTTTATG
1 GTTTAGG
**
46135513 GTTTATT
1 GTTTAGG
46135520 GTTTAAGG
1 GTTT-AGG
*
46135528 G-TCAGG
1 GTTTAGG
* *
46135534 ATTTAAG
1 GTTTAGG
*
46135541 GTTCAGG
1 GTTTAGG
46135548 GATTTAGG
1 G-TTTAGG
46135556 GTTTAGG
1 GTTTAGG
*
46135563 AG-TTATG
1 -GTTTAGG
* *
46135570 TTTTATG
1 GTTTAGG
**
46135577 GTTTATA
1 GTTTAGG
46135584 GTTTAGGG
1 GTTTA-GG
46135592 GTTTAGG
1 GTTTAGG
46135599 GTTTAG
1 GTTTAG
46135605 ATTAATTAGT
Statistics
Matches: 138, Mismatches: 35, Indels: 24
0.70 0.18 0.12
Matches are distributed among these distances:
5 2 0.01
6 3 0.02
7 108 0.78
8 23 0.17
9 1 0.01
10 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.32, T:0.44
Consensus pattern (7 bp):
GTTTAGG
Found at i:46135494 original size:15 final size:15
Alignment explanation
Indices: 46135476--46135518 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
46135466 ACTATTTTAA
*
46135476 GGTTTATGGATTATG
1 GGTTTATGGATTATC
*
46135491 GGTTTAGGGATTA-C
1 GGTTTATGGATTATC
*
46135505 GGTTTATGGTTTAT
1 GGTTTATGGATTAT
46135519 TGTTTAAGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.47
Consensus pattern (15 bp):
GGTTTATGGATTATC
Found at i:46135562 original size:64 final size:64
Alignment explanation
Indices: 46135471--46135593 Score: 160
Period size: 64 Copynumber: 1.9 Consensus size: 64
46135461 GAGTTACTAT
* * *
46135471 TTTAAGGTTTATGGATTATGGGTTTAGG-GATTACGGTTTATGGTTTATTGTTTAAGGGTCAGGA
1 TTTAAGGTTCAGGGATTATGGGTTTAGGAG-TTACGGTTTATGGTTTATAGTTTAAGGGTCAGGA
* * *
46135535 TTTAAGGTTCAGGGATT-TAGGGTTTAGGAGTTATGTTTTATGGTTTATAGTTTAGGGGT
1 TTTAAGGTTCAGGGATTAT-GGGTTTAGGAGTTACGGTTTATGGTTTATAGTTTAAGGGT
46135594 TTAGGGTTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
63 1 0.02
64 49 0.96
65 1 0.02
ACGTcount: A:0.21, C:0.02, G:0.32, T:0.45
Consensus pattern (64 bp):
TTTAAGGTTCAGGGATTATGGGTTTAGGAGTTACGGTTTATGGTTTATAGTTTAAGGGTCAGGA
Found at i:46142618 original size:48 final size:48
Alignment explanation
Indices: 46142539--46142632 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
46142529 AGGGAATTCT
* *
46142539 GTTGAATCCTTTATTGTTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
1 GTTGAATCCTTTATCGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
46142587 GTTGAATCCTTTATCGGTG-GAAGTT-AGGCTGACTTAGGCGTTTTTA
1 GTTGAATCCTTTATCGGTGCG-AGTTGA-GCTGACTTAGGCGTTTTTA
46142633 AGCCAAGAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.18, C:0.14, G:0.28, T:0.40
Consensus pattern (48 bp):
GTTGAATCCTTTATCGGTGCGAGTTGAGCTGACTTAGGCGTTTTTACG
Found at i:46149081 original size:16 final size:16
Alignment explanation
Indices: 46149050--46149086 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
46149040 ATATGAAGAA
46149050 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
46149066 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
46149082 TATTA
1 TATTA
46149087 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:46149125 original size:16 final size:16
Alignment explanation
Indices: 46149106--46149140 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
46149096 TGAAATATTA
*
46149106 AATAATTTATTAAAAT
1 AATAAATTATTAAAAT
*
46149122 AATAAATTATTAATAT
1 AATAAATTATTAAAAT
46149138 AAT
1 AAT
46149141 TTATTATATG
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATAAATTATTAAAAT
Found at i:46149146 original size:16 final size:15
Alignment explanation
Indices: 46149101--46149147 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 15
46149091 AAAATTGAAA
46149101 TATTAAATAATTTAT
1 TATTAAATAATTTAT
**
46149116 TA--AAATAATAAAT
1 TATTAAATAATTTAT
46149129 TATTAATATAATTTAT
1 TATTAA-ATAATTTAT
46149145 TAT
1 TAT
46149148 ATGATTAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
13 11 0.44
15 4 0.16
16 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TATTAAATAATTTAT
Found at i:46152809 original size:12 final size:12
Alignment explanation
Indices: 46152794--46152832 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
46152784 GATAGAGATG
*
46152794 ATGATAGTAATA
1 ATGATAATAATA
46152806 ATGATAATATATA
1 ATGATAATA-ATA
46152819 AT-ATAATAATA
1 ATGATAATAATA
46152830 ATG
1 ATG
46152833 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 5 0.21
12 14 0.58
13 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (12 bp):
ATGATAATAATA
Found at i:46154407 original size:45 final size:44
Alignment explanation
Indices: 46154352--46154441 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
46154342 AAGACTTGTA
* * **
46154352 TCTTTGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCA-CACCAATACAGGAAGACAAGATCTGCTT
* *
46154397 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTT
46154441 T
1 T
46154442 TTCAATCGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 24 0.62
45 15 0.38
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (44 bp):
TCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTT
Found at i:46154738 original size:45 final size:45
Alignment explanation
Indices: 46154683--46154932 Score: 256
Period size: 45 Copynumber: 5.6 Consensus size: 45
46154673 CAGTACATGA
* ** *
46154683 AGACACGATCTGTTTTCTTCAACCTACTCCACCACCAGTATGGGG
1 AGACAAGATCTGTTTTCTTTGATCTACTCCACCACCAGTATGGGG
* * *** *
46154728 AGACAAGATCTG-TTTCTTTGATCTACTTCA-CGCCAGTACATGA
1 AGACAAGATCTGTTTTCTTTGATCTACTCCACCACCAGTATGGGG
*
46154771 AGACAAGATCTGCTTTCTTTGATCTACTCCACCACCAGTATGGGG
1 AGACAAGATCTGTTTTCTTTGATCTACTCCACCACCAGTATGGGG
** * * * *** *
46154816 AGACAAGATCTGTTGACTTTAATCTACTTCA-CGCC-GATACATGA
1 AGACAAGATCTGTTTTCTTTGATCTACTCCACCACCAG-TATGGGG
*
46154860 AGACAAGATCTGCTTTCTTTGATCTACTCCACCACCAGTATGGGG
1 AGACAAGATCTGTTTTCTTTGATCTACTCCACCACCAGTATGGGG
**
46154905 AGACAAGATCTGTTGACTTTGATCTACT
1 AGACAAGATCTGTTTTCTTTGATCTACT
46154933 TCACGCTGAT
Statistics
Matches: 161, Mismatches: 39, Indels: 10
0.77 0.19 0.05
Matches are distributed among these distances:
43 21 0.13
44 63 0.39
45 76 0.47
46 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (45 bp):
AGACAAGATCTGTTTTCTTTGATCTACTCCACCACCAGTATGGGG
Found at i:46154877 original size:89 final size:91
Alignment explanation
Indices: 46154655--46155465 Score: 946
Period size: 89 Copynumber: 9.2 Consensus size: 91
46154645 GACCTACTAT
* * * * * * * *
46154655 CTTTGATCTCCTTCACGCC-AGTACATGAAGACACGATCTGT-TTTCTTCAACCTACTCCACCAC
1 CTTTGATCTACTTCACGCCTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCAC
* * * * *
46154718 CAGTATGGGGAGACAAGATCTGT-TT
66 CAGTATGAGAAGGCGAGATCTGTATA
* * * *
46154743 CTTTGATCTACTTCACGCC-AGTACATGAAGACAAGATCTGCT-TT-CTTTGATCTACTCCACCA
1 CTTTGATCTACTTCACGCCTAGTACATGAAGACAAGATCTG-TATTCCTTCGATCTGCTTCGCCA
* * * *
46154805 CCAGTATGGGGAGACAAGATCTGT-TGA
65 CCAGTATGAGAAGGCGAGATCTGTAT-A
* * * * * *
46154832 CTTTAATCTACTTCACGCCGA-TACATGAAGACAAGATCTGCT-TT-CTTTGATCTACTCCACCA
1 CTTTGATCTACTTCACGCCTAGTACATGAAGACAAGATCTG-TATTCCTTCGATCTGCTTCGCCA
* * * *
46154894 CCAGTATGGGGAGACAAGATCTGT-TGA
65 CCAGTATGAGAAGGCGAGATCTGTAT-A
* * *
46154921 CTTTGATCTACTTCACG-CT-GATACATGAAGACAATATCTACT-TTCTTTCGATCTGCTTCGCC
1 CTTTGATCTACTTCACGCCTAG-TACATGAAGACAAGATCT-GTATTCCTTCGATCTGCTTCGCC
46154983 ACCAGTATGAGAAGGCGAGATCTGTATA
64 ACCAGTATGAGAAGGCGAGATCTGTATA
46155011 -TTTGATCTACTTCACG-CTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCAC
1 CTTTGATCTACTTCACGCCTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCAC
46155074 CAGTATGAGAAGGCGAGATCTGTATA
66 CAGTATGAGAAGGCGAGATCTGTATA
46155100 -TTTGATCTACTTCACG-CTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCAC
1 CTTTGATCTACTTCACGCCTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCAC
46155163 CAGTATGAGAAGGCGAGATCTGTATA
66 CAGTATGAGAAGGCGAGATCTGTATA
46155189 -TTTGATCTACTTCACG-CTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCAC
1 CTTTGATCTACTTCACGCCTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCAC
46155252 CAGTATGAGAAGGCGAGATCTGTATA
66 CAGTATGAGAAGGCGAGATCTGTATA
46155278 -TTTGATCTACTTCACG-CTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCAC
1 CTTTGATCTACTTCACGCCTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCAC
* *
46155341 CAGTATGGGAAGGTGAGATCTGT-TA
66 CAGTATGAGAAGGCGAGATCTGTATA
* * *
46155366 TCTTTGATCTACTTCACG-C-----CA-GAAGACAAGATCTACTTTTTCCTTCGATCTGTTTCGC
1 -CTTTGATCTACTTCACGCCTAGTACATGAAGACAAGATCT--GTATTCCTTCGATCTGCTTCGC
*
46155424 CACCAGTATGGGAAGGCGAGATCTGTATA
63 CACCAGTATGAGAAGGCGAGATCTGTATA
* *
46155453 -TTCGATCCACTTC
1 CTTTGATCTACTTC
46155466 GCTACCAATA
Statistics
Matches: 677, Mismatches: 31, Indels: 33
0.91 0.04 0.04
Matches are distributed among these distances:
84 13 0.02
85 13 0.02
86 44 0.06
87 2 0.00
88 82 0.12
89 469 0.69
90 53 0.08
91 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (91 bp):
CTTTGATCTACTTCACGCCTAGTACATGAAGACAAGATCTGTATTCCTTCGATCTGCTTCGCCAC
CAGTATGAGAAGGCGAGATCTGTATA
Found at i:46154974 original size:45 final size:43
Alignment explanation
Indices: 46154728--46155048 Score: 195
Period size: 45 Copynumber: 7.3 Consensus size: 43
46154718 CAGTATGGGG
*
46154728 AGACAAGATCTGTTTCTTTGATCTACTTCACGCC-AGTACATGA
1 AGACAAGATCTCTTTCTTTGATCTACTTCACGCCGA-TACATGA
* * *** *
46154771 AGACAAGATCTGCTTTCTTTGATCTACTCCAC-CACCAGTATGGGG
1 AGACAAGATCT-CTTTCTTTGATCTACTTCACGC-CGA-TACATGA
* * *
46154816 AGACAAGATCTGTTGACTTTAATCTACTTCACGCCGATACATGA
1 AGACAAGATCTCTT-TCTTTGATCTACTTCACGCCGATACATGA
* * *** *
46154860 AGACAAGATCTGCTTTCTTTGATCTACTCCAC-CACCAGTATGGGG
1 AGACAAGATCT-CTTTCTTTGATCTACTTCACGC-CGA-TACATGA
* * *
46154905 AGACAAGATCTGTTGACTTTGATCTACTTCACGCTGATACATGA
1 AGACAAGATCTCTT-TCTTTGATCTACTTCACGCCGATACATGA
* * * * *
46154949 AGACAATATCTACTTTCTTTCGATCTGCTTCGC-CACCAGTATGA-GA
1 AGACAAGATCT-CTTTCTTT-GATCTACTTCACGC-CGA-TA-CATGA
* * * * * *
46154995 AGGCGAGATCTGTATATTTGATCTACTTCACG-CTAGTACATGA
1 AGACAAGATCTCTTTCTTTGATCTACTTCACGCCGA-TACATGA
46155038 AGACAAGATCT
1 AGACAAGATCT
46155049 GTATTCCTTC
Statistics
Matches: 208, Mismatches: 53, Indels: 34
0.71 0.18 0.12
Matches are distributed among these distances:
42 1 0.00
43 29 0.14
44 81 0.39
45 82 0.39
46 14 0.07
47 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (43 bp):
AGACAAGATCTCTTTCTTTGATCTACTTCACGCCGATACATGA
Found at i:46156891 original size:53 final size:51
Alignment explanation
Indices: 46156785--46156893 Score: 121
Period size: 53 Copynumber: 2.1 Consensus size: 51
46156775 AGCCTCTCCA
* * * * * *
46156785 TTTTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACTTGGTCTTTCTCTTT
1 TTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACTTAGTC-TCCACTTT
*
46156837 TTTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTAGTC-CCACGTT
1 TTTTTTTTT-ACTCAAAGCGCCCTTTGTAGGCTTTCA-CTTAGTCTCCACTTT
46156889 TTTTT
1 TTTTT
46156894 AAGCAGAGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
52 18 0.38
53 24 0.50
54 6 0.12
ACGTcount: A:0.12, C:0.23, G:0.15, T:0.50
Consensus pattern (51 bp):
TTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACTTAGTCTCCACTTT
Found at i:46159405 original size:20 final size:20
Alignment explanation
Indices: 46159376--46159415 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46159366 TAAAGGTCTT
* *
46159376 TAATGCATATGATGTGATGC
1 TAATGAATATGATGCGATGC
46159396 TAATGAATATGATGCGATGC
1 TAATGAATATGATGCGATGC
46159416 ATGAGGTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.33
Consensus pattern (20 bp):
TAATGAATATGATGCGATGC
Found at i:46163494 original size:12 final size:12
Alignment explanation
Indices: 46163479--46163517 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
46163469 GATAGAGATG
*
46163479 ATGATAGTAATA
1 ATGATAATAATA
46163491 ATGATAATATATA
1 ATGATAATA-ATA
46163504 AT-ATAATAATA
1 ATGATAATAATA
46163515 ATG
1 ATG
46163518 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 5 0.21
12 14 0.58
13 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (12 bp):
ATGATAATAATA
Found at i:46167055 original size:98 final size:98
Alignment explanation
Indices: 46166883--46167077 Score: 309
Period size: 98 Copynumber: 2.0 Consensus size: 98
46166873 ACAATAAAAT
*
46166883 TTTAAAAGAACATCCACTTATCAAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATTCC
1 TTTAAAAGAACATCCACTTATCAAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
46166948 TCTAGAATCCCAAACTCAGAATATTTCATTTAC
66 TCTAAAATCCCAAACTCAGAATATTTCATTTAC
* * *
46166981 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACATCCAATACGTTAGGGCACAATTCT
1 TTTAAAAGAACATCCACTTATCAAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* * * *
46167046 TTTAAAATCCCAAATTCGGAATATTTCCTTTA
66 TCTAAAATCCCAAACTCAGAATATTTCATTTA
46167078 TTGTTTTTAG
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTTATCAAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TCTAAAATCCCAAACTCAGAATATTTCATTTAC
Found at i:46167828 original size:25 final size:27
Alignment explanation
Indices: 46167821--46167886 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 27
46167811 TATATAAATA
46167821 AAATAAAATAAAAATAATTACCTCATATT
1 AAATAAAATAAAAATAATTA-CTCATA-T
*
46167850 AAA-AAAAAAAAAATAATTA-T-ATAT
1 AAATAAAATAAAAATAATTACTCATAT
46167874 AAATAAAATAAAA
1 AAATAAAATAAAA
46167887 TAAAAATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 4 0.12
25 11 0.32
26 1 0.03
28 15 0.44
29 3 0.09
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (27 bp):
AAATAAAATAAAAATAATTACTCATAT
Found at i:46167836 original size:30 final size:30
Alignment explanation
Indices: 46167800--46167898 Score: 141
Period size: 30 Copynumber: 3.4 Consensus size: 30
46167790 TAGATTATAA
46167800 AAAAATAATTATATATAAATAAAATAAAAT
1 AAAAATAATTATATATAAATAAAATAAAAT
** *
46167830 AAAAATAATTACCTCAT-ATTAAAA-AAAA-
1 AAAAATAATTATAT-ATAAATAAAATAAAAT
46167858 AAAAATAATTATATATAAATAAAATAAAAT
1 AAAAATAATTATATATAAATAAAATAAAAT
46167888 AAAAATAATTA
1 AAAAATAATTA
46167899 CCTCGTATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
27 2 0.03
28 18 0.31
29 8 0.14
30 29 0.49
31 2 0.03
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (30 bp):
AAAAATAATTATATATAAATAAAATAAAAT
Found at i:46167867 original size:58 final size:58
Alignment explanation
Indices: 46167798--46167915 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
46167788 TATAGATTAT
46167798 AAAAAAATAATTATATATAAATAAAATAAAATAAAAATAATTACCTCATATTAAAAAA
1 AAAAAAATAATTATATATAAATAAAATAAAATAAAAATAATTACCTCATATTAAAAAA
*
46167856 AAAAAAATAATTATATATAAATAAAATAAAATAAAAATAATTACCTCGTATTAAAAAA
1 AAAAAAATAATTATATATAAATAAAATAAAATAAAAATAATTACCTCATATTAAAAAA
46167914 AA
1 AA
46167916 TAAATATGCG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.27
Consensus pattern (58 bp):
AAAAAAATAATTATATATAAATAAAATAAAATAAAAATAATTACCTCATATTAAAAAA
Found at i:46167876 original size:24 final size:24
Alignment explanation
Indices: 46167798--46167889 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 24
46167788 TATAGATTAT
* * *
46167798 AAAAAAATAATTATATATAAATAAA
1 AAAAAAAAAATAAT-TATATATAAA
46167823 ATAAAATAAAAATAATTACCTCATATTAAA
1 A-AAAA-AAAAATAATTA--T-ATA-TAAA
46167853 AAAAAAAAAATAATTATATATAAA
1 AAAAAAAAAATAATTATATATAAA
* *
46167877 TAAAATAAAATAA
1 AAAAAAAAAATAA
46167890 AAATAATTAC
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
24 15 0.27
25 4 0.07
26 7 0.12
27 7 0.12
28 12 0.21
29 6 0.11
30 5 0.09
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (24 bp):
AAAAAAAAAATAATTATATATAAA
Found at i:46167911 original size:30 final size:29
Alignment explanation
Indices: 46167819--46167919 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 29
46167809 TATATATAAA
46167819 TAAAATAAAATAAAAATAATTACCTCATAT
1 TAAAA-AAAATAAAAATAATTACCTCATAT
** *
46167849 TAAAAAAAA-AAAAATAATTATAT-ATAAA
1 TAAAAAAAATAAAAATAATTACCTCAT-AT
*
46167877 TAAAATAAAATAAAAATAATTACCTCGTAT
1 TAAAA-AAAATAAAAATAATTACCTCATAT
46167907 TAAAAAAAATAAA
1 TAAAAAAAATAAA
46167920 TATGCGAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
27 2 0.03
28 18 0.30
29 16 0.27
30 23 0.38
31 1 0.02
ACGTcount: A:0.66, C:0.06, G:0.01, T:0.27
Consensus pattern (29 bp):
TAAAAAAAATAAAAATAATTACCTCATAT
Found at i:46167916 original size:34 final size:34
Alignment explanation
Indices: 46167800--46167919 Score: 124
Period size: 30 Copynumber: 3.9 Consensus size: 34
46167790 TAGATTATAA
46167800 AAAAATAATTA--T-ATA-TAAATAAAATAAAAT
1 AAAAATAATTACCTCATATTAAATAAAATAAAAT
46167830 AAAAATAATTACCTCATA-T---TAAAA-AAAA-
1 AAAAATAATTACCTCATATTAAATAAAATAAAAT
46167858 AAAAATAATTA--T-ATA-TAAATAAAATAAAAT
1 AAAAATAATTACCTCATATTAAATAAAATAAAAT
* *
46167888 AAAAATAATTACCTCGTATTAAAAAAAATAAA
1 AAAAATAATTACCTCATATTAAATAAAATAAA
46167920 TATGCGAAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 20
0.78 0.02 0.20
Matches are distributed among these distances:
25 4 0.05
26 1 0.01
28 16 0.21
29 8 0.11
30 27 0.36
32 2 0.03
33 6 0.08
34 12 0.16
ACGTcount: A:0.67, C:0.05, G:0.01, T:0.28
Consensus pattern (34 bp):
AAAAATAATTACCTCATATTAAATAAAATAAAAT
Found at i:46168618 original size:19 final size:19
Alignment explanation
Indices: 46168594--46168725 Score: 210
Period size: 19 Copynumber: 6.8 Consensus size: 19
46168584 AATCATATAT
46168594 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
46168613 TCTAAGATTATATATAATA
1 TCTAAGATTGCATATCATA
46168632 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
46168651 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
46168672 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
46168691 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
46168710 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
46168726 CTCAAAAATT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
19 84 0.82
21 19 0.18
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:46168678 original size:59 final size:59
Alignment explanation
Indices: 46168587--46168724 Score: 212
Period size: 59 Copynumber: 2.4 Consensus size: 59
46168577 ATTACAAAAT
*
46168587 CATAT-AT-TCTAAGATTGC--ATATCATATCTAAGATTATATATAATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATAATATCTAAGATTG
* * *
46168642 CATATCATATCTAAGATTGCATATATCATATCTAAGATTGCATATCATATCTAGGATTG
1 CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATAATATCTAAGATTG
46168701 CATATCATATCTAAGATTGCATAT
1 CATATCATATCTAAGATTGCATAT
46168725 CCTCAAAAAT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
55 5 0.07
56 2 0.03
57 11 0.15
59 57 0.76
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATATCATATCTAAGATTACATATAATATCTAAGATTG
Found at i:46170645 original size:2 final size:2
Alignment explanation
Indices: 46170638--46170664 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
46170628 ACTAGTATCC
46170638 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
46170665 GCTCCCCCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:46185989 original size:98 final size:97
Alignment explanation
Indices: 46185856--46186042 Score: 331
Period size: 98 Copynumber: 1.9 Consensus size: 97
46185846 AGGTGCACAT
*
46185856 GGGCCGGGCCCATAAAAAAATTTCGACCCGGCCCGAAATATGGGCCTAAGATTTTGCCCAGGCCC
1 GGGCCGGGCCCATAAAAAAATTTCGACCCGACCCGAAATATGGGCCTAAGATTTTGCCCAGGCCC
46185921 GGCCC-GAGAAAAAAATCATAAGCCCGGGCGTTC
66 GGCCCTG-GAAAAAAAT-ATAAGCCCGGGCGTTC
*
46185954 GGGCCGGGCCCATAAAAAAATTTCGGCCCGACCCGAAATATGGGCCTAAGATTTTGCCCAGGCCC
1 GGGCCGGGCCCATAAAAAAATTTCGACCCGACCCGAAATATGGGCCTAAGATTTTGCCCAGGCCC
46186019 GGCCCTGGAAAAAAATATAAGCCC
66 GGCCCTGGAAAAAAATATAAGCCC
46186043 AAGCCCGGCC
Statistics
Matches: 86, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
97 8 0.09
98 77 0.90
99 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (97 bp):
GGGCCGGGCCCATAAAAAAATTTCGACCCGACCCGAAATATGGGCCTAAGATTTTGCCCAGGCCC
GGCCCTGGAAAAAAATATAAGCCCGGGCGTTC
Found at i:46186103 original size:20 final size:20
Alignment explanation
Indices: 46186080--46186168 Score: 66
Period size: 20 Copynumber: 4.7 Consensus size: 20
46186070 AAAAATTTTA
46186080 AAAAATTAAAAAAAGTATTT
1 AAAAATTAAAAAAAGTATTT
***
46186100 AAAAAATATTTTAAAA-TATTT
1 -AAAAAT-TAAAAAAAGTATTT
*
46186121 TAAAATTAAAAAAAGTA-TT
1 AAAAATTAAAAAAAGTATTT
46186140 -----TTAAAAAAAGTATTT
1 AAAAATTAAAAAAAGTATTT
*
46186155 TAAAATTAAAAAAA
1 AAAAATTAAAAAAA
46186169 TTAAAAAAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
14 12 0.23
15 2 0.04
19 7 0.13
20 16 0.30
21 11 0.21
22 5 0.09
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAAATTAAAAAAAGTATTT
Found at i:46186126 original size:10 final size:10
Alignment explanation
Indices: 46186064--46186126 Score: 56
Period size: 10 Copynumber: 6.1 Consensus size: 10
46186054 GGCCTATTTT
46186064 TATTTTAAAA
1 TATTTTAAAA
46186074 -ATTTTAAAA
1 TATTTTAAAA
* **
46186083 AATTAAAAAAA
1 TATT-TTAAAA
*
46186094 GTATTTAAAAAA
1 -TATTT-TAAAA
46186106 TATTTTAAAA
1 TATTTTAAAA
46186116 TATTTTAAAA
1 TATTTTAAAA
46186126 T
1 T
46186127 TAAAAAAAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
9 9 0.20
10 18 0.41
11 9 0.20
12 8 0.18
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:46186126 original size:41 final size:40
Alignment explanation
Indices: 46186064--46186250 Score: 257
Period size: 41 Copynumber: 4.5 Consensus size: 40
46186054 GGCCTATTTT
46186064 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTAAAAAA
1 TATTTT-AAAA-TTTAAAAAATTAAAAAAAGTATTTAAAAAA
**
46186106 TATTTTAAAATATTTTAAAATTAAAAAAAGTATTTTAAAAAAA
1 TATTTTAAAAT-TTAAAAAATTAAAAAAAGTA-TTT-AAAAAA
* *
46186149 GTATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
1 -TATTTTAAAATTTAAAAAATTAAAAAAAGTATTTAAAAAA
*
46186190 TATTTTAAAATTTAAAAAAATTAAAAAAAGTATGTAAAAAA
1 TATTTTAAAATTT-AAAAAATTAAAAAAAGTATTTAAAAAA
*
46186231 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTTAAAAAAT
46186251 AAATATATTT
Statistics
Matches: 130, Mismatches: 10, Indels: 12
0.86 0.07 0.08
Matches are distributed among these distances:
40 20 0.15
41 64 0.49
42 12 0.09
43 23 0.18
44 11 0.08
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (40 bp):
TATTTTAAAATTTAAAAAATTAAAAAAAGTATTTAAAAAA
Found at i:46186145 original size:14 final size:14
Alignment explanation
Indices: 46186126--46186189 Score: 76
Period size: 14 Copynumber: 4.5 Consensus size: 14
46186116 TATTTTAAAA
46186126 TTAAAAAAAGTATT
1 TTAAAAAAAGTATT
46186140 TTAAAAAAAGTATT
1 TTAAAAAAAGTATT
* **
46186154 TTAAAATTAAA-AAAA
1 TTAAAA--AAAGTATT
46186169 TTAAAAAAAGTATT
1 TTAAAAAAAGTATT
46186183 TTAAAAA
1 TTAAAAA
46186190 TATTTTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
13 3 0.07
14 28 0.68
15 7 0.17
16 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (14 bp):
TTAAAAAAAGTATT
Found at i:46186174 original size:84 final size:81
Alignment explanation
Indices: 46186064--46186250 Score: 268
Period size: 84 Copynumber: 2.2 Consensus size: 81
46186054 GGCCTATTTT
* **
46186064 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTAAAAAATATTTTAAAATATT-TTAAAATT
1 TATTTT-AAAA-TTAAAAAAATTAAAAAAAGTATTTAAAAAATATTTTAAAAT-TTAAAAAAATT
*
46186128 AAAAAAAGTATTTTAAAAAAA
63 AAAAAAAGTA-TGT-AAAAAA
*
46186149 GTATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAATTAA
1 -TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTAAAAAATATTTTAAAATTTAAAAAAATTAA
46186214 AAAAAGTATGTAAAAAA
65 AAAAAGTATGTAAAAAA
46186231 TATTTTAAAATTAAAAAAAT
1 TATTTTAAAATTAAAAAAAT
46186251 AAATATATTT
Statistics
Matches: 95, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
81 20 0.21
82 6 0.06
83 4 0.04
84 55 0.58
85 4 0.04
86 6 0.06
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (81 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTAAAAAATATTTTAAAATTTAAAAAAATTAAA
AAAAGTATGTAAAAAA
Found at i:46188749 original size:103 final size:103
Alignment explanation
Indices: 46188570--46188774 Score: 356
Period size: 103 Copynumber: 2.0 Consensus size: 103
46188560 GCTACGTGAG
*
46188570 AAAAGAGAGAATGTATTGAAAGACAAGAACTTAATATTTTTGATTGATGAATTAATGAACAATAC
1 AAAAGAGAGAATGTATTGAAAGACAAGAACTTAATATTTTTGATTGATGAATAAATGAACAATAC
* *
46188635 AAGCTCTATTTATACTAGGGGATTTACTAAATTAGGAA
66 AAACTCTATTTATACTAGGGAATTTACTAAATTAGGAA
*
46188673 AAAAGGGAGAATGTATTGAAAGACAAGAACTTAATATTTTTGATTGATGAATAAATGAACAATAC
1 AAAAGAGAGAATGTATTGAAAGACAAGAACTTAATATTTTTGATTGATGAATAAATGAACAATAC
* *
46188738 AAACTCTATTTATAGTAGTGAATTTACTAAATTAGGA
66 AAACTCTATTTATACTAGGGAATTTACTAAATTAGGA
46188775 GCCAACTAGT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 96 1.00
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.31
Consensus pattern (103 bp):
AAAAGAGAGAATGTATTGAAAGACAAGAACTTAATATTTTTGATTGATGAATAAATGAACAATAC
AAACTCTATTTATACTAGGGAATTTACTAAATTAGGAA
Found at i:46192621 original size:11 final size:11
Alignment explanation
Indices: 46192605--46192629 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46192595 TTTTTTTAAC
46192605 TTTAAAATATT
1 TTTAAAATATT
46192616 TTTAAAATATT
1 TTTAAAATATT
46192627 TTT
1 TTT
46192630 TTTTATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTAAAATATT
Found at i:46194611 original size:25 final size:27
Alignment explanation
Indices: 46194581--46194644 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 27
46194571 TAATTTTTGA
*
46194581 ATTTGATGATGATTTTGTG-TTT-TGCT
1 ATTTGATGAT-AGTTTGTGATTTCTGCT
*
46194607 A-TTGATGATAGTTTGTGATTTCTGTT
1 ATTTGATGATAGTTTGTGATTTCTGCT
46194633 ATTTGATGATAG
1 ATTTGATGATAG
46194645 AAAATAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 7 0.21
25 11 0.33
26 5 0.15
27 10 0.30
ACGTcount: A:0.20, C:0.03, G:0.23, T:0.53
Consensus pattern (27 bp):
ATTTGATGATAGTTTGTGATTTCTGCT
Found at i:46198137 original size:51 final size:51
Alignment explanation
Indices: 46198073--46198212 Score: 156
Period size: 51 Copynumber: 2.7 Consensus size: 51
46198063 TGTTCAGTTT
* * *
46198073 ACATACTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATAC
1 ACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATAC
* * * * *
46198124 ACGTAGTAGCCTGCACATAGTACTATACACGTGATCGA-AACTATCCGGTAC
1 ACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATAACCATCCGATAC
** * *
46198175 GTATAGTAGCTTACACATAGTACTACACACGTGACCAT
1 ACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
46198213 CAATTTCACT
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
50 2 0.03
51 68 0.94
52 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (51 bp):
ACATAGTAGCCTGCACATAGTACTACACACGTGACCATAACCATCCGATAC
Found at i:46200208 original size:25 final size:25
Alignment explanation
Indices: 46200160--46200211 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
46200150 GTTCTTCGTT
**
46200160 TTTTTTTCTTTGTCGATTTCTTTTC
1 TTTTTTTCTTTGTCGAAATCTTTTC
46200185 TTTTTTTCTTT-TCGAAATCGTTTTC
1 TTTTTTTCTTTGTCGAAATC-TTTTC
46200210 TT
1 TT
46200212 AAGAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.08, C:0.15, G:0.08, T:0.69
Consensus pattern (25 bp):
TTTTTTTCTTTGTCGAAATCTTTTC
Found at i:46208049 original size:11 final size:11
Alignment explanation
Indices: 46208035--46208123 Score: 65
Period size: 11 Copynumber: 8.9 Consensus size: 11
46208025 ATTTTTTAAA
46208035 TTTTAAAATAT
1 TTTTAAAATAT
46208046 TTTTAAAATACT
1 TTTTAAAATA-T
*
46208058 ATTTT---TTAT
1 -TTTTAAAATAT
*
46208067 TTTT-TAAT--
1 TTTTAAAATAT
46208075 TTT-AAAATAT
1 TTTTAAAATAT
46208085 TTTTAAAATAT
1 TTTTAAAATAT
46208096 TTTT--AA-A-
1 TTTTAAAATAT
46208103 TTTTAAAATAT
1 TTTTAAAATAT
46208114 TTTTAAAATA
1 TTTTAAAATA
46208124 CATTTTTTTA
Statistics
Matches: 63, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
7 4 0.06
8 11 0.17
9 5 0.08
10 7 0.11
11 31 0.49
12 1 0.02
13 4 0.06
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:46208076 original size:39 final size:41
Alignment explanation
Indices: 46208017--46208094 Score: 133
Period size: 39 Copynumber: 1.9 Consensus size: 41
46208007 AATATATTTA
46208017 TTTTTTAAATTTTTTAAATTTTAAAATATTTTTAAAATACTA
1 TTTTTT-AATTTTTTAAATTTTAAAATATTTTTAAAATACTA
46208059 TTTTTT-ATTTTTT-AATTTTAAAATATTTTTAAAATA
1 TTTTTTAATTTTTTAAATTTTAAAATATTTTTAAAATA
46208095 TTTTTAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
39 23 0.64
40 7 0.19
42 6 0.17
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (41 bp):
TTTTTTAATTTTTTAAATTTTAAAATATTTTTAAAATACTA
Found at i:46208096 original size:29 final size:29
Alignment explanation
Indices: 46208064--46208145 Score: 119
Period size: 29 Copynumber: 2.7 Consensus size: 29
46208054 TACTATTTTT
46208064 TATTTTTTAATTTTAAAATATTTTTAAAA
1 TATTTTTTAATTTTAAAATATTTTTAAAA
*
46208093 TATTTTTAAATTTTAAAATATTTTTAAAA
1 TATTTTTTAATTTTAAAATATTTTTAAAA
46208122 TACATTTTTTTAATTTTTAAAATA
1 T--A-TTTTTTAA-TTTTAAAATA
46208146 AAATTTTGGT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
29 29 0.62
31 1 0.02
32 7 0.15
33 10 0.21
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (29 bp):
TATTTTTTAATTTTAAAATATTTTTAAAA
Found at i:46208102 original size:68 final size:67
Alignment explanation
Indices: 46208015--46208141 Score: 211
Period size: 68 Copynumber: 1.9 Consensus size: 67
46208005 TAAATATATT
* *
46208015 TATTTTTTAAATTTTTTAAATTTTAAAATATTTTTAAAATAC-TATTTTTTATTTTTTAATTTTA
1 TATTTTTAAAATTTTTTAAATTTTAAAATATTTTTAAAATACAT-TTTTTTAATTTTTAATTTTA
46208079 AAA
65 AAA
46208082 TATTTTTAAAATATTTTTAAATTTTAAAATATTTTTAAAATACATTTTTTTAATTTTTAA
1 TATTTTTAAAAT-TTTTTAAATTTTAAAATATTTTTAAAATACATTTTTTTAATTTTTAA
46208142 AATAAAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
67 11 0.20
68 44 0.79
69 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (67 bp):
TATTTTTAAAATTTTTTAAATTTTAAAATATTTTTAAAATACATTTTTTTAATTTTTAATTTTAA
AA
Found at i:46208130 original size:13 final size:11
Alignment explanation
Indices: 46208074--46208123 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
46208064 TATTTTTTAA
46208074 TTTTAAAATAT
1 TTTTAAAATAT
46208085 TTTTAAAATAT
1 TTTTAAAATAT
46208096 TTTT--AA-A-
1 TTTTAAAATAT
46208103 TTTTAAAATAT
1 TTTTAAAATAT
46208114 TTTTAAAATA
1 TTTTAAAATA
46208124 CATTTTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
7 4 0.11
8 1 0.03
9 4 0.11
10 1 0.03
11 25 0.71
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:46208159 original size:22 final size:21
Alignment explanation
Indices: 46208111--46208166 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
46208101 AATTTTAAAA
* **
46208111 TATTTTTAAAATACATTTTTT
1 TATTTTTAAAATAAATTTTGG
46208132 TAATTTTTAAAATAAAATTTTGG
1 T-ATTTTTAAAAT-AAATTTTGG
46208155 TATTTATTAAAA
1 TATTT-TTAAAA
46208167 AATAGGCCGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.03
22 15 0.52
23 13 0.45
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTGG
Found at i:46214032 original size:24 final size:24
Alignment explanation
Indices: 46214005--46214051 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
46213995 ATTGAAATGG
46214005 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
46214029 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
46214052 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:46214049 original size:15 final size:15
Alignment explanation
Indices: 46214029--46214077 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 15
46214019 TGATGAATTT
46214029 ATTGAATTTATATTG
1 ATTGAATTTATATTG
46214044 ATTGAATTGGTATATAT-
1 ATTGAATT--TATAT-TG
46214061 ATTGAA--TATATTG
1 ATTGAATTTATATTG
46214074 ATTG
1 ATTG
46214078 TTTTAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 1 0.03
13 9 0.30
15 8 0.27
17 11 0.37
18 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:46214828 original size:18 final size:18
Alignment explanation
Indices: 46214805--46214841 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
46214795 GTTATATACA
46214805 TATAAATATATGTTTATG
1 TATAAATATATGTTTATG
46214823 TATAAATATATGTTTATG
1 TATAAATATATGTTTATG
46214841 T
1 T
46214842 TTGAGGTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
TATAAATATATGTTTATG
Found at i:46223978 original size:18 final size:18
Alignment explanation
Indices: 46223957--46223994 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
46223947 ATATACATTA
*
46223957 AAATTATAATAAAAGTTT
1 AAATTATAATAAAAATTT
*
46223975 AAATTATGATAAAAATTT
1 AAATTATAATAAAAATTT
46223993 AA
1 AA
46223995 TAATATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
AAATTATAATAAAAATTT
Found at i:46224035 original size:27 final size:28
Alignment explanation
Indices: 46223986--46224039 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
46223976 AATTATGATA
**
46223986 AAAATTTAATAATATAATTATACTAAATC
1 AAAATTTAATAATATAAAAATAC-AAATC
46224015 AAAATTT-AT-ATATAAAAATACAAAT
1 AAAATTTAATAATATAAAAATACAAAT
46224040 TAGATAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.17
27 10 0.43
28 2 0.09
29 7 0.30
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (28 bp):
AAAATTTAATAATATAAAAATACAAATC
Found at i:46224881 original size:13 final size:15
Alignment explanation
Indices: 46224852--46224884 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
46224842 CGTGAAGAAA
46224852 ATAAATACTTGACAT
1 ATAAATACTTGACAT
46224867 ATAAATA-TT-ACAT
1 ATAAATACTTGACAT
46224880 ATAAA
1 ATAAA
46224885 GAAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 2 0.11
15 7 0.39
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.33
Consensus pattern (15 bp):
ATAAATACTTGACAT
Found at i:46225050 original size:17 final size:15
Alignment explanation
Indices: 46225032--46225060 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
46225022 GATGAATTAA
46225032 AAAATAATATATTTG
1 AAAATAATATATTTG
46225047 AAAATAATATATTT
1 AAAATAATATATTT
46225061 ATTAATTAAA
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:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
AAAATAATATATTTG
Found at i:46227494 original size:118 final size:118
Alignment explanation
Indices: 46227352--46227568 Score: 328
Period size: 118 Copynumber: 1.8 Consensus size: 118
46227342 TGTATGTTGA
* * * *
46227352 TTTTATTTTTTAATGATAATTTGTATAGTTTT-AAATATAACATTGATCATTATATTTTTGATCG
1 TTTTATATTATAATAATAATTTGTATA-TTTTAAAATATAACATTGAACATTATATTTTTGATCG
* *
46227416 AATGATTAGACTTATGTTGAAAGTAATATTAAGATTCGTTTGACTAGTGTATTT
65 AATAATTAGACTTATGTTGAAAATAATATTAAGATTCGTTTGACTAGTGTATTT
* *
46227470 TTTTATATTATAATAATAATTTGTATATTTTAAAATATAACATTGAACATTATATTTTTGTTTGA
1 TTTTATATTATAATAATAATTTGTATATTTTAAAATATAACATTGAACATTATATTTTTGATCGA
* *
46227535 ATAATTAGATTTGTGTTGAAAATAATATTAAGAT
66 ATAATTAGACTTATGTTGAAAATAATATTAAGAT
46227569 ACTTTTTATA
Statistics
Matches: 88, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
117 4 0.05
118 84 0.95
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.49
Consensus pattern (118 bp):
TTTTATATTATAATAATAATTTGTATATTTTAAAATATAACATTGAACATTATATTTTTGATCGA
ATAATTAGACTTATGTTGAAAATAATATTAAGATTCGTTTGACTAGTGTATTT
Found at i:46232513 original size:19 final size:19
Alignment explanation
Indices: 46232489--46232611 Score: 52
Period size: 19 Copynumber: 6.3 Consensus size: 19
46232479 ATTTTCTATA
46232489 TTTTAATATTTTTAATAAT
1 TTTTAATATTTTTAATAAT
46232508 TTTTAAAATTATTTTTAA-AAT
1 TTTT--AA-TATTTTTAATAAT
** * *
46232529 TTAAAATATATTT-ATATT
1 TTTTAATATTTTTAATAAT
* ** *
46232547 TTTTATAAATTTAAAATATTT
1 TTTTA-ATATTTTTAATA-AT
* * *
46232568 TTTTTATATTTTTTTATCAT
1 TTTTAATA-TTTTTAATAAT
* * *
46232588 TTTTATTAATTTTAATAGT
1 TTTTAATATTTTTAATAAT
46232607 TTTTA
1 TTTTA
46232612 TCATTTTTGC
Statistics
Matches: 73, Mismatches: 23, Indels: 16
0.65 0.21 0.14
Matches are distributed among these distances:
17 1 0.01
18 11 0.15
19 22 0.30
20 12 0.16
21 18 0.25
22 9 0.12
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTAATATTTTTAATAAT
Found at i:46233982 original size:19 final size:21
Alignment explanation
Indices: 46233955--46234022 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
46233945 CGAATACGCC
*
46233955 AACAAAAGCTCG-AA-AGCTT
1 AACAGAAGCTCGTAAGAGCTT
**
46233974 AACAGAAGCTCGTAAGATTTT
1 AACAGAAGCTCGTAAGAGCTT
* *
46233995 AACAGAAGCTCGTAAGAACTA
1 AACAGAAGCTCGTAAGAGCTT
46234016 AACAGAA
1 AACAGAA
46234023 AGTAAAACAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.27
20 2 0.05
21 28 0.68
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTT
Found at i:46233998 original size:21 final size:21
Alignment explanation
Indices: 46233972--46234011 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
46233962 GCTCGAAAGC
46233972 TTAACAGAAGCTCGTAAGATT
1 TTAACAGAAGCTCGTAAGATT
46233993 TTAACAGAAGCTCGTAAGA
1 TTAACAGAAGCTCGTAAGA
46234012 ACTAAACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (21 bp):
TTAACAGAAGCTCGTAAGATT
Found at i:46235233 original size:13 final size:13
Alignment explanation
Indices: 46235215--46235239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46235205 ATTTACGGCT
46235215 CGGTTTATAGAAA
1 CGGTTTATAGAAA
46235228 CGGTTTATAGAA
1 CGGTTTATAGAA
46235240 GCATAATCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (13 bp):
CGGTTTATAGAAA
Found at i:46237806 original size:21 final size:21
Alignment explanation
Indices: 46237782--46237821 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
46237772 ACATTTTCTA
*
46237782 AAGTTAAAAGTCAAAACTATT
1 AAGTTAAAAGGCAAAACTATT
46237803 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
46237822 CGTTGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATT
Found at i:46237816 original size:70 final size:67
Alignment explanation
Indices: 46237738--46237870 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 67
46237728 TCCGAATATG
* ** *
46237738 AAAAGGCAAAACTACGTCATTTTGATAAATGTTTACATTTTCTAAAGTTAAAAGTCAAAACTATT
1 AAAAGGCAAAACTACGTCATTTTGATAAATATTTAC-TCAT-TAAA-TTAAAAGGCAAAACTATT
46237803 AAGTT
63 AAGTT
**
46237808 AAAAGGCAAAACTACGTTGTTTTGATAAATATTTACTCATTAAATTAAAAGGCAAAACTATTA
1 AAAAGGCAAAACTACGTCATTTTGATAAATATTTACTCATTAAATTAAAAGGCAAAACTATTA
46237871 TATTGTTTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 18 0.32
68 4 0.07
69 2 0.04
70 33 0.58
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (67 bp):
AAAAGGCAAAACTACGTCATTTTGATAAATATTTACTCATTAAATTAAAAGGCAAAACTATTAAG
TT
Found at i:46240113 original size:18 final size:18
Alignment explanation
Indices: 46240102--46240209 Score: 56
Period size: 18 Copynumber: 5.4 Consensus size: 18
46240092 TTTTACATAC
46240102 TTTTTAAATTTTAAAATA
1 TTTTTAAATTTTAAAATA
* *
46240120 TTTTTAAAGTACTTTTTTTAAATT
1 TTTTT-AA--A---TTTTAAAATA
*
46240144 TTTTTTAATTTTAAAATA
1 TTTTTAAATTTTAAAATA
* *
46240162 TTTTTAAAAAAAATTTT-AATTT
1 TTTTT-----AAATTTTAAAATA
*
46240184 TTTTTTAATTTTAAAATA
1 TTTTTAAATTTTAAAATA
46240202 TTTTTAAA
1 TTTTTAAA
46240210 ATACTTTTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 24
0.65 0.12 0.24
Matches are distributed among these distances:
17 6 0.09
18 28 0.42
19 2 0.03
21 2 0.03
22 8 0.12
23 7 0.11
24 13 0.20
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (18 bp):
TTTTTAAATTTTAAAATA
Found at i:46240133 original size:30 final size:31
Alignment explanation
Indices: 46240071--46240145 Score: 100
Period size: 30 Copynumber: 2.4 Consensus size: 31
46240061 AATATATTTA
* *
46240071 TTTTTTTAATTTTAAAATATTTTTTACATAC
1 TTTTTTAAATTTTAAAATATTTTTTAAATAC
46240102 -TTTTTAAATTTTAAAATA-TTTTTAAAGTAC
1 TTTTTTAAATTTTAAAATATTTTTTAAA-TAC
46240132 TTTTTTTAAATTTT
1 -TTTTTTAAATTTT
46240146 TTTTAATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 7 0.18
30 20 0.51
32 12 0.31
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (31 bp):
TTTTTTAAATTTTAAAATATTTTTTAAATAC
Found at i:46240154 original size:42 final size:41
Alignment explanation
Indices: 46240102--46240243 Score: 171
Period size: 42 Copynumber: 3.4 Consensus size: 41
46240092 TTTTACATAC
46240102 TTTTTAAATTTTAAAATATTTTTAAAGTACTTTTTTTAAATT
1 TTTTTAAATTTTAAAATATTTTTAAA-TACTTTTTTTAAATT
* **** *
46240144 TTTTTTAATTTTAAAATATTTTTAAA-AAAAATTTTAATTT
1 TTTTTAAATTTTAAAATATTTTTAAATACTTTTTTTAAATT
*
46240184 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT-AATT
1 TTTTTAAATTTTAAAATATTTTT-AAATACTTTTTTTAAATT
*
46240225 TTTTAAAATTTTTAAAATA
1 TTTTTAAA-TTTTAAAATA
46240244 AAAATGGGCC
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
40 32 0.38
41 12 0.14
42 40 0.48
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (41 bp):
TTTTTAAATTTTAAAATATTTTTAAATACTTTTTTTAAATT
Found at i:46240157 original size:17 final size:17
Alignment explanation
Indices: 46240135--46240168 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
46240125 AAAGTACTTT
* *
46240135 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
46240152 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
46240169 AAAAAATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:46240165 original size:82 final size:82
Alignment explanation
Indices: 46240092--46240243 Score: 225
Period size: 82 Copynumber: 1.8 Consensus size: 82
46240082 TTAAAATATT
* **
46240092 TTTTACATACTTTTTAAATTTTAAAATATTTTTAAAGTACTTTTTTTAAATTTTTTTTAA-TTTT
1 TTTTA-ATACTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTT-AATTTTTTAAAATTTTT
46240156 AAAATATTTTTAAAAAAAA
64 AAAATATTTTTAAAAAAAA
** *
46240175 TTTTAATTTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAA
1 TTTTAATACTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAA
46240240 AATA
66 AATA
46240244 AAAATGGGCC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 10 0.16
82 47 0.76
83 5 0.08
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.59
Consensus pattern (82 bp):
TTTTAATACTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAA
AATATTTTTAAAAAAAA
Found at i:46240221 original size:31 final size:31
Alignment explanation
Indices: 46240183--46240243 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
46240173 AATTTTAATT
46240183 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTAAAA-ATTTTTAAAATAC
*
46240214 TTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTTTTAATTTTTAAAAATTTTTAAAATA
46240244 AAAATGGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTTTAATTTTTAAAAATTTTTAAAATAC
Found at i:46241748 original size:41 final size:41
Alignment explanation
Indices: 46241703--46241864 Score: 209
Period size: 41 Copynumber: 4.0 Consensus size: 41
46241693 TTGTATAAAA
* * * * * *
46241703 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTC
1 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
*
46241744 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATGCATTT
1 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
*
46241785 CACCGGTACAAAGCCTGCTAGACATAAAGTCTGATACATTT
1 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
* * *
46241826 CACCGGTATC-AAGCCTGCTAGACGTAAAGTCTGAAACAT
1 CACCGGCA-CAAAGCCTGCTAGACATAAAGTCTGATACAT
46241865 CTTATTTTCA
Statistics
Matches: 109, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 108 0.99
42 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATACATTT
Found at i:46242275 original size:76 final size:77
Alignment explanation
Indices: 46242188--46242436 Score: 242
Period size: 76 Copynumber: 3.2 Consensus size: 77
46242178 TTGACTTCAT
*
46242188 GTATACATATATAATTCCAAACCTAATTTCAATTCAAGAAATTATACATGTACATTTATACATAT
1 GTATAAATATATAATTCCAAACCTAATTTCAATTCAAGAAATTATACATGTACATTTATACATAT
46242253 TCGAATCTACCA
66 TCGAATCTACCA
* ** * * * *
46242265 -TATAAATATATAAATT-CATA-CTCAATTTCAAAACATA-AACTTATACA--TATATATATGCA
1 GTATAAATATAT-AATTCCAAACCT-AATTTCAATTCA-AGAAATTATACATGTACATTTATACA
* *
46242324 TATACGTTCACATTTGACTTCA
63 TATTCG---A-ATCT-AC--CA
*
46242346 TGTATACATATATAATTCCAAACCTAATTTCAATTCAAGAAATTATACATGTACATTTATACATA
1 -GTATAAATATATAATTCCAAACCTAATTTCAATTCAAGAAATTATACATGTACATTTATACATA
*
46242411 TTAGAATCTA-CA
65 TTCGAATCTACCA
46242423 GTATAAATATATAA
1 GTATAAATATATAA
46242437 ATTCATACTC
Statistics
Matches: 133, Mismatches: 22, Indels: 35
0.70 0.12 0.18
Matches are distributed among these distances:
74 14 0.11
75 2 0.02
76 45 0.34
77 8 0.06
78 3 0.02
79 2 0.02
80 1 0.01
81 5 0.04
82 6 0.05
83 32 0.24
84 2 0.02
85 13 0.10
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (77 bp):
GTATAAATATATAATTCCAAACCTAATTTCAATTCAAGAAATTATACATGTACATTTATACATAT
TCGAATCTACCA
Found at i:46242450 original size:159 final size:159
Alignment explanation
Indices: 46242161--46242486 Score: 618
Period size: 159 Copynumber: 2.0 Consensus size: 159
46242151 CTTGTACATT
46242161 TGCATATACGTTCACATTTGACTTCATGTATACATATATAATTCCAAACCTAATTTCAATTCAAG
1 TGCATATACGTTCACATTTGACTTCATGTATACATATATAATTCCAAACCTAATTTCAATTCAAG
*
46242226 AAATTATACATGTACATTTATACATATTCGAATCTACCATATAAATATATAAATTCATACTCAAT
66 AAATTATACATGTACATTTATACATATTAGAATCTACCATATAAATATATAAATTCATACTCAAT
46242291 TTCAAAACATAAACTTATACATATATATA
131 TTCAAAACATAAACTTATACATATATATA
46242320 TGCATATACGTTCACATTTGACTTCATGTATACATATATAATTCCAAACCTAATTTCAATTCAAG
1 TGCATATACGTTCACATTTGACTTCATGTATACATATATAATTCCAAACCTAATTTCAATTCAAG
46242385 AAATTATACATGTACATTTATACATATTAGAATCTA-CAGTATAAATATATAAATTCATACTCAA
66 AAATTATACATGTACATTTATACATATTAGAATCTACCA-TATAAATATATAAATTCATACTCAA
46242449 TTTCAAAACATAAACTTATACATATATATA
130 TTTCAAAACATAAACTTATACATATATATA
46242479 TGACATAT
1 TG-CATAT
46242487 CTAAATTCAA
Statistics
Matches: 164, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
158 2 0.01
159 157 0.96
160 5 0.03
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (159 bp):
TGCATATACGTTCACATTTGACTTCATGTATACATATATAATTCCAAACCTAATTTCAATTCAAG
AAATTATACATGTACATTTATACATATTAGAATCTACCATATAAATATATAAATTCATACTCAAT
TTCAAAACATAAACTTATACATATATATA
Found at i:46242694 original size:16 final size:17
Alignment explanation
Indices: 46242673--46242707 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46242663 ATCTAATAAT
46242673 TTATACAT-GTATATAC
1 TTATACATCGTATATAC
*
46242689 TTATACATCGTTTATAC
1 TTATACATCGTATATAC
46242706 TT
1 TT
46242708 CAACTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (17 bp):
TTATACATCGTATATAC
Found at i:46247671 original size:15 final size:15
Alignment explanation
Indices: 46247619--46247672 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
46247609 GAAAATTTAT
46247619 GTTTTCCATCCTTCTA
1 GTTTT-CATCCTTCTA
*
46247635 GTTTTCTACGCCTTCTA
1 GTTTTC-A-TCCTTCTA
* *
46247652 TTTTTCATCCTTCTG
1 GTTTTCATCCTTCTA
46247667 GTTTTC
1 GTTTTC
46247673 TTTCCACTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 12 0.39
16 7 0.23
17 12 0.39
ACGTcount: A:0.09, C:0.28, G:0.09, T:0.54
Consensus pattern (15 bp):
GTTTTCATCCTTCTA
Found at i:46254953 original size:18 final size:18
Alignment explanation
Indices: 46254910--46254953 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
46254900 GGTTAAAATG
**
46254910 AATAATTTTTGAAATATT
1 AATAATTTTAAAAATATT
46254928 AATCAATTTTAAAAATATT
1 AAT-AATTTTAAAAATATT
46254947 AATAATT
1 AATAATT
46254954 GAAGGATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
AATAATTTTAAAAATATT
Found at i:46257199 original size:31 final size:31
Alignment explanation
Indices: 46257161--46257226 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
46257151 TTTAAAAAGG
*
46257161 TCAAATAAGAACAAAATCTTTTCGAAAGTGC
1 TCAAATAAGAACAAAATATTTTCGAAAGTGC
* *
46257192 TCAAATAAGGACTAAATATTTTCGAAAGTGC
1 TCAAATAAGAACAAAATATTTTCGAAAGTGC
46257223 TCAA
1 TCAA
46257227 CTAATGGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (31 bp):
TCAAATAAGAACAAAATATTTTCGAAAGTGC
Found at i:46259058 original size:22 final size:22
Alignment explanation
Indices: 46259028--46259070 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
46259018 AAATAACATA
*
46259028 AAACCATTTAAAATAAATAATG
1 AAACAATTTAAAATAAATAATG
* *
46259050 AAACAATTTTAAATAAGTAAT
1 AAACAATTTAAAATAAATAAT
46259071 ACATAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (22 bp):
AAACAATTTAAAATAAATAATG
Found at i:46262123 original size:131 final size:131
Alignment explanation
Indices: 46261956--46262193 Score: 381
Period size: 131 Copynumber: 1.8 Consensus size: 131
46261946 TTAGAAAACG
46261956 CAAGTAAAATTCCAAAGAAACATTCGATTATTTTGAACAAACAGG-AAATTGCAACCC-AGCACG
1 CAAGTAAAATTCCAAAGAAACATTCGATTATTTTGAACAAAC-GGAAAATTGCAACCCGA-CACG
*
46262019 ATAGGGCACGATTCCCCGAATTGTCAAATATCTAATATTACCTTCATTTTGAAGAATTTTTAAAG
64 ATAGGGCACGATTCCCCGAATTGTCAAATATCGAATATTACCTTCATTTTGAAGAATTTTTAAAG
46262084 ACA
129 ACA
* * * * *
46262087 CAAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAATAAACGGAAAATTGCAACCCGACACGAT
1 CAAGTAAAATTCCAAAGAAACATTCGATTATTTTGAACAAACGGAAAATTGCAACCCGACACGAT
*
46262152 AGGGCACGATTCCCCGAATTGTCAAATATCGAATATTGCCTT
66 AGGGCACGATTCCCCGAATTGTCAAATATCGAATATTACCTT
46262194 TGCTTTTTAA
Statistics
Matches: 98, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
130 2 0.02
131 95 0.97
132 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (131 bp):
CAAGTAAAATTCCAAAGAAACATTCGATTATTTTGAACAAACGGAAAATTGCAACCCGACACGAT
AGGGCACGATTCCCCGAATTGTCAAATATCGAATATTACCTTCATTTTGAAGAATTTTTAAAGAC
A
Found at i:46264828 original size:14 final size:14
Alignment explanation
Indices: 46264809--46264838 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
46264799 AGCTTTTAAT
46264809 CTGCTCTACTGCAA
1 CTGCTCTACTGCAA
46264823 CTGCTCTACTGCAA
1 CTGCTCTACTGCAA
46264837 CT
1 CT
46264839 TCAGGGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.37, G:0.13, T:0.30
Consensus pattern (14 bp):
CTGCTCTACTGCAA
Found at i:46264857 original size:45 final size:45
Alignment explanation
Indices: 46264808--46264896 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
46264798 TAGCTTTTAA
* *
46264808 TCTGCTCTACTGCA-ACTGCTCTACTGCAACTTCAGGGAGATAAGG
1 TCTGCTAT-CTGCAGACTGCTCCACTGCAACTTCAGGGAGATAAGG
* * *
46264853 TCTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAG
1 TCTGCTATCTGCAGACTGCTCCACTGCAACTTCAGGGAGATAAG
46264897 ACTTGCAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
44 4 0.11
45 34 0.89
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTGCTATCTGCAGACTGCTCCACTGCAACTTCAGGGAGATAAGG
Found at i:46265107 original size:79 final size:79
Alignment explanation
Indices: 46265002--46265213 Score: 338
Period size: 79 Copynumber: 2.7 Consensus size: 79
46264992 ATCTCCGGCC
46265002 TGTTACCCTACTACTTAGGGGGTTAAGGTTTGTTTTC-TCTGATCTGCTCCACTGGAGACGAGAT
1 TGTTACCCTACTACTTAGGGGGTTAAGGTTTGTTTTCTTC-GATCTGCTCCACTGGAGACGAGAT
46265066 CTGCAATCTTCAACA
65 CTGCAATCTTCAACA
**
46265081 TGTTACCCTACTACTTAAAGGGTTAAGGTTTGTTTTCTTCGATCTGCTCCACTGGAGACGAGATC
1 TGTTACCCTACTACTTAGGGGGTTAAGGTTTGTTTTCTTCGATCTGCTCCACTGGAGACGAGATC
* * *
46265146 TGTAATCTTCGACC
66 TGCAATCTTCAACA
*
46265160 TGTTACCCTACTACTTAGGGGGTTAAGGTTTGTTTTCTTCGGTCTG-TCCCACTG
1 TGTTACCCTACTACTTAGGGGGTTAAGGTTTGTTTTCTTCGATCTGCT-CCACTG
46265214 CAACTTTAGA
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
78 1 0.01
79 120 0.98
80 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (79 bp):
TGTTACCCTACTACTTAGGGGGTTAAGGTTTGTTTTCTTCGATCTGCTCCACTGGAGACGAGATC
TGCAATCTTCAACA
Found at i:46281626 original size:3 final size:3
Alignment explanation
Indices: 46281602--46281672 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
46281592 AATATCCTTG
* * * *
46281602 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
46281649 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
46281673 GTACGTGTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Done.