Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 212 of 343
Found at i:69746183 original size:15 final size:16
Alignment explanation
Indices: 69746165--69746194 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
69746155 GATAATAATG
69746165 AATTTTTT-AATTTTT
1 AATTTTTTGAATTTTT
69746180 AATTTTTTGAATTTT
1 AATTTTTTGAATTTT
69746195 AAAGAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
AATTTTTTGAATTTTT
Found at i:69766542 original size:21 final size:21
Alignment explanation
Indices: 69766516--69766611 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
69766506 CTTGATCAGT
** * *
69766516 ATACGACACATAAAGTGTCTG
1 ATACGACACACGAGGTGCCTG
69766537 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
69766558 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
69766579 ATATGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
69766600 AAATACGACACA
1 --ATACGACACA
69766612 TAAAGTGTCT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 58 0.87
23 9 0.13
ACGTcount: A:0.34, C:0.25, G:0.24, T:0.17
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:69766563 original size:42 final size:43
Alignment explanation
Indices: 69766516--69766624 Score: 157
Period size: 42 Copynumber: 2.5 Consensus size: 43
69766506 CTTGATCAGT
69766516 ATACGACACATAAAGTGTCTGATACGACACACGAGGTGCCTG-
1 ATACGACACATAAAGTGTCTGATACGACACACGAGGTGCCTGA
** * * *
69766558 ATACGACACACGAGGTGCCTGATATGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGTCTGATACGACACACGAGGTGCCTG-A
69766602 ATACGACACATAAAGTGTCTGAT
1 ATACGACACATAAAGTGTCTGAT
69766625 CAGTAAAGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 37 0.66
44 19 0.34
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (43 bp):
ATACGACACATAAAGTGTCTGATACGACACACGAGGTGCCTGA
Found at i:69767017 original size:15 final size:15
Alignment explanation
Indices: 69766992--69767049 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
69766982 TCATATATAT
69766992 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
69767008 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
69767023 AATAATTTCAATCAA
1 TATAAATTCAATCAA
69767038 TATAAATTCAAT
1 TATAAATTCAAT
69767050 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:69768333 original size:5 final size:5
Alignment explanation
Indices: 69768320--69768351 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
69768310 TTCTTTAGTT
69768320 TATATA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA T
69768352 TAAAACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:69771445 original size:23 final size:22
Alignment explanation
Indices: 69771393--69771445 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
69771383 TCCACGTCTT
*
69771393 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
69771415 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
69771438 TTTCTTTT
1 TTTCTTTT
69771446 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:69774904 original size:31 final size:31
Alignment explanation
Indices: 69774837--69774904 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
69774827 TTTTAACGGC
*
69774837 AGTGACTAGTTTAATCAATTATCTTAATAAG
1 AGTGATTAGTTTAATCAATTATCTTAATAAG
*
69774868 AGTGATTAGTTTAATCAATTATCTTAATTAG
1 AGTGATTAGTTTAATCAATTATCTTAATAAG
69774899 AGTGAT
1 AGTGAT
69774905 CAAATTGGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (31 bp):
AGTGATTAGTTTAATCAATTATCTTAATAAG
Found at i:69784150 original size:18 final size:18
Alignment explanation
Indices: 69784123--69784215 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
69784113 CCCAACTACT
* *
69784123 GTATATGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
69784141 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
69784159 GTATACGTAAATAGTACT
1 GTATACGTGAATAGTACC
* *
69784177 ATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
69784195 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
69784213 GTA
1 GTA
69784216 AACGGTCGTA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:69788810 original size:23 final size:24
Alignment explanation
Indices: 69788779--69788834 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 24
69788769 ATATTATTTT
*
69788779 TATTTTTTTAAATATTT-AT-ATTA
1 TATTATTTT-AATATTTAATAATTA
69788802 TATTATTTTAATATTTAATAATTA
1 TATTATTTTAATATTTAATAATTA
69788826 TATATATTT
1 TAT-TATTT
69788835 AAAGTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 7 0.24
23 10 0.34
24 7 0.24
25 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTATTTTAATATTTAATAATTA
Found at i:69789824 original size:22 final size:19
Alignment explanation
Indices: 69789780--69789825 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
69789770 TTTGCTTTGG
*
69789780 TTGTTATTTTTTGTTAAAT
1 TTGTTATTTTTTGTTAAAA
69789799 TTGTTATTTTTTTGTTATAGAA
1 TTGTTA-TTTTTTGTTA-A-AA
69789821 TTGTT
1 TTGTT
69789826 TAAGTGAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 10 0.43
21 1 0.04
22 6 0.26
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (19 bp):
TTGTTATTTTTTGTTAAAA
Found at i:69798612 original size:21 final size:21
Alignment explanation
Indices: 69798588--69798659 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
69798578 TGATCTGTAC
69798588 TCATTGAATTGTGGTCTGAGT
1 TCATTGAATTGTGGTCTGAGT
* **
69798609 TCA-TGATATTTGTGACATCTGAAC
1 TCATTGA-A-TTGTG--GTCTGAGT
*
69798633 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAATTGTGGTCTGAGT
69798654 TC-TTGA
1 TCATTGA
69798660 TGTATGTGAC
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
20 7 0.18
21 11 0.28
22 5 0.13
23 5 0.13
24 8 0.21
25 3 0.08
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.42
Consensus pattern (21 bp):
TCATTGAATTGTGGTCTGAGT
Found at i:69798637 original size:45 final size:45
Alignment explanation
Indices: 69798580--69798670 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
69798570 AATTATTGTG
* *
69798580 ATCTGTACTCATTGAATTGTGGTCTGAGTTCATGATATTTGTGAC
1 ATCTGAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTGAC
* * *
69798625 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCTTGATGTATGTGAC
1 ATCTGAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTGAC
69798670 A
1 A
69798671 CATGTTTTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.22, C:0.13, G:0.24, T:0.41
Consensus pattern (45 bp):
ATCTGAACTCATTGAATTGTGGTCTGAGTTCATGATATATGTGAC
Found at i:69804597 original size:16 final size:16
Alignment explanation
Indices: 69804576--69804624 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
69804566 TTAAACTTTA
*
69804576 TATTTTATGAATTATT
1 TATTTTATGATTTATT
*
69804592 TATTTTTAT-TTTTATT
1 TA-TTTTATGATTTATT
69804608 TATTTTATGATTTATT
1 TATTTTATGATTTATT
69804624 T
1 T
69804625 CAAATTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
15 6 0.21
16 16 0.57
17 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (16 bp):
TATTTTATGATTTATT
Found at i:69805759 original size:24 final size:25
Alignment explanation
Indices: 69805732--69805780 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
69805722 TTTTTTTTAT
*
69805732 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
69805756 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
69805781 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:69805773 original size:25 final size:23
Alignment explanation
Indices: 69805744--69805789 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
69805734 AATAAAAAAC
*
69805744 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
69805769 TTTAAAACATAAAAACAAATA
1 TTTAAAACATAAAAACAAATA
69805790 TTAAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:69805808 original size:11 final size:12
Alignment explanation
Indices: 69805779--69805817 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
69805769 TTTAAAACAT
*
69805779 AAAAACAAATAT
1 AAAAACAAATAA
*
69805791 TAAAACAAA-AA
1 AAAAACAAATAA
69805802 AAAAACAAATAA
1 AAAAACAAATAA
69805814 AAAA
1 AAAA
69805818 TAAGATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.82, C:0.08, G:0.00, T:0.10
Consensus pattern (12 bp):
AAAAACAAATAA
Found at i:69806049 original size:17 final size:18
Alignment explanation
Indices: 69806006--69806051 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
69805996 CTAAAGTTAC
*
69806006 TTAAAATTAAAAATAAAT
1 TTAATATTAAAAATAAAT
* *
69806024 TT-TTTTTAAAAAT-AAT
1 TTAATATTAAAAATAAAT
69806040 TTAATATTAAAA
1 TTAATATTAAAA
69806052 TCGGGCCGGG
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
16 5 0.23
17 15 0.68
18 2 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAATATTAAAAATAAAT
Found at i:69806201 original size:13 final size:13
Alignment explanation
Indices: 69806177--69806214 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
69806167 CTTCCATTTT
69806177 TCGGGC-GGGCCG
1 TCGGGCTGGGCCG
69806189 TCGGGCTGGGCCG
1 TCGGGCTGGGCCG
69806202 TCGGGCTGGGCCG
1 TCGGGCTGGGCCG
69806215 GGCCGCCCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.00, C:0.32, G:0.55, T:0.13
Consensus pattern (13 bp):
TCGGGCTGGGCCG
Found at i:69809106 original size:21 final size:21
Alignment explanation
Indices: 69809082--69809151 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
69809072 TGATCTGAAC
69809082 TCATTGAGTTGTGGTTTGAGT
1 TCATTGAGTTGTGGTTTGAGT
* * **
69809103 TCA-TGATATTTGTGACATTTGAAC
1 TCATTG--AGTTGTG--GTTTGAGT
*
69809127 TCATTGAGTTGTGGTATGAGT
1 TCATTGAGTTGTGGTTTGAGT
69809148 TCAT
1 TCAT
69809152 GATGTATGTG
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
20 2 0.06
21 11 0.31
22 6 0.17
23 6 0.17
24 8 0.23
25 2 0.06
ACGTcount: A:0.21, C:0.09, G:0.26, T:0.44
Consensus pattern (21 bp):
TCATTGAGTTGTGGTTTGAGT
Found at i:69809131 original size:45 final size:45
Alignment explanation
Indices: 69809077--69809164 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
69809067 TATTGTGATC
* *
69809077 TGAACTCATTGAGTTGTGGTTTGAGTTCATGATATTTGTGACATT
1 TGAACTCATTGAGTTGTGGTATGAGTTCATGATATATGTGACATT
*
69809122 TGAACTCATTGAGTTGTGGTATGAGTTCATGATGTATGTGACA
1 TGAACTCATTGAGTTGTGGTATGAGTTCATGATATATGTGACA
69809165 CATGTTTTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (45 bp):
TGAACTCATTGAGTTGTGGTATGAGTTCATGATATATGTGACATT
Found at i:69831607 original size:43 final size:43
Alignment explanation
Indices: 69831551--69831722 Score: 177
Period size: 43 Copynumber: 4.0 Consensus size: 43
69831541 AGCTCGTACA
* * * *
69831551 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * *
69831594 ATGTCACTGTCCCAGACATGGTCTTACACAAAATGAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * *
69831636 ATGCCAATATCCCAGACATGGTCTTACACGTAAATCTCAA-ATCC
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATC-AAATATCG
* ** *
69831680 ATGCCAATGTCCTAGATGTGGTCTTACACGAAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
69831723 GAATCCTATG
Statistics
Matches: 103, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
42 29 0.28
43 45 0.44
44 29 0.28
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:69840061 original size:68 final size:67
Alignment explanation
Indices: 69839989--69840174 Score: 179
Period size: 67 Copynumber: 2.8 Consensus size: 67
69839979 CATCATGTGT
* * *
69839989 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC-AG-CA-TAT-ATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACC
69840051 ATGTAG
62 ATGTAG
* * * *
69840057 ACAAGAGAGCTACAGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
69840122 AG
66 AG
* *
69840124 ACAAGAGAGCTACGAG-ATAAACTG--GCTAGGTCACATGGGTGG-TACTAAGTG
1 ACAAGAGAGCTAC-AGCATATA-TGTAGCTAGGTCGCATGGGTGGATAC-AAGTG
69840175 TTCACCATGT
Statistics
Matches: 101, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
64 20 0.20
65 9 0.09
66 24 0.24
67 31 0.31
68 17 0.17
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (67 bp):
ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGGGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:69844301 original size:10 final size:10
Alignment explanation
Indices: 69844286--69844324 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
69844276 TGTTTTTGTA
69844286 CATGATATGC
1 CATGATATGC
69844296 CATGATATGC
1 CATGATATGC
69844306 ACATGATATGC
1 -CATGATATGC
69844317 CATGATAT
1 CATGATAT
69844325 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:69844310 original size:21 final size:21
Alignment explanation
Indices: 69844285--69844324 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
69844275 CTGTTTTTGT
69844285 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
69844306 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
69844325 ATTCACATAT
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:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:69844405 original size:25 final size:25
Alignment explanation
Indices: 69844371--69844440 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
69844361 AGGAAGTGCT
* *
69844371 AAAAGGGCTTTGCCTTAGTTTACCG
1 AAAAGGGCTTTGCCATAGTTTACCA
* *
69844396 AAAAGGGCTTTGCCACAGTTTATCA
1 AAAAGGGCTTTGCCATAGTTTACCA
*
69844421 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCATAGTT
69844441 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTGCCATAGTTTACCA
Found at i:69844453 original size:24 final size:25
Alignment explanation
Indices: 69844370--69844453 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
69844360 GAGGAAGTGC
* *
69844370 TAAAAGGGCTTTGCC-TTAGTTTACC
1 TAAAAGGGCTTTGCCACTAGTTTA-T
*
69844395 GAAAAGGGCTTTGCCAC-AGTTTAT
1 TAAAAGGGCTTTGCCACTAGTTTAT
*
69844419 CAAAAAGGGCTTTGCC-CTAG-TTAT
1 -TAAAAGGGCTTTGCCACTAGTTTAT
69844443 TAAAAGAGGCT
1 TAAAAG-GGCT
69844454 AGGCCTCTAG
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
23 5 0.10
24 9 0.18
25 36 0.72
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (25 bp):
TAAAAGGGCTTTGCCACTAGTTTAT
Found at i:69846350 original size:42 final size:44
Alignment explanation
Indices: 69846250--69846403 Score: 149
Period size: 43 Copynumber: 3.6 Consensus size: 44
69846240 AGCTCGTACA
* * * *
69846250 ATGCCAACGTCTCAGACGTGGTC--TTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTTTACATGAAATCAAATA-CG
*
69846293 ATGCCACTGTCCCAGACA-GG-CTTTTACATGAAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTTTACATGAAATCAAATACG
**
69846335 ATGCCAATGTCCCAGACATGGTCTTACACAT-AAATTTCAAAT-CG
1 ATGCCAATGTCCCAGACATGGTCTTTTACATGAAA--TCAAATACG
* * *
69846379 ATGCCAACGCCCCAGACGTGGTCTT
1 ATGCCAATGTCCCAGACATGGTCTT
69846404 ACACGAAATC
Statistics
Matches: 94, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 21 0.22
43 35 0.37
44 31 0.33
45 6 0.06
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTTTACATGAAATCAAATACG
Found at i:69850581 original size:17 final size:18
Alignment explanation
Indices: 69850559--69850592 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
69850549 TACCCGTGTA
69850559 GGGCCCACA-AGCCCATC
1 GGGCCCACACAGCCCATC
69850576 GGGCCCACACAGCCCAT
1 GGGCCCACACAGCCCAT
69850593 TTCGACCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.24, C:0.47, G:0.24, T:0.06
Consensus pattern (18 bp):
GGGCCCACACAGCCCATC
Found at i:69857237 original size:27 final size:26
Alignment explanation
Indices: 69857207--69857272 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 26
69857197 AAAATCATCT
69857207 CTTTCAAAAACCAAGGTTTAGA-AAAAA
1 CTTTCAAAAACCAA--TTTAGAGAAAAA
** *
69857234 CTTTTGAAAACTCAATTTTGAGAAAAA
1 CTTTCAAAAAC-CAATTTAGAGAAAAA
*
69857261 TTTTCAAAAACC
1 CTTTCAAAAACC
69857273 CATTCCACAG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
26 6 0.19
27 22 0.71
28 3 0.10
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (26 bp):
CTTTCAAAAACCAATTTAGAGAAAAA
Found at i:69860025 original size:21 final size:21
Alignment explanation
Indices: 69859965--69860017 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
69859955 GAATTATTTC
69859965 ATTTTTGAA-TTTGA-GAT-G
1 ATTTTTGAAGTTTGATGATAG
69859983 -TTTTTGAAGTTTGATGATAG
1 ATTTTTGAAGTTTGATGATAG
69860003 ATTTTT-AAGTTTGAT
1 ATTTTTGAAGTTTGAT
69860018 AGCTAGATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 8 0.26
18 5 0.16
19 3 0.10
20 10 0.32
21 5 0.16
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.53
Consensus pattern (21 bp):
ATTTTTGAAGTTTGATGATAG
Found at i:69860854 original size:13 final size:13
Alignment explanation
Indices: 69860846--69860902 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
69860836 AAAAATGGTA
69860846 ATATGAAATGGAT
1 ATATGAAATGGAT
**
69860859 ATATGAAATGTTT
1 ATATGAAATGGAT
**
69860872 ATATGGAAATAAAT
1 ATAT-GAAATGGAT
* *
69860886 GTATGAAATGGTT
1 ATATGAAATGGAT
69860899 ATAT
1 ATAT
69860903 ACCACCTCCG
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
13 24 0.73
14 9 0.27
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (13 bp):
ATATGAAATGGAT
Found at i:69860967 original size:30 final size:30
Alignment explanation
Indices: 69860931--69860994 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
69860921 AATGTTCAGA
69860931 GTAGAAATAATGTACAAAATATATTAAAAG
1 GTAGAAATAATGTACAAAATATATTAAAAG
** *
69860961 GTAGAAATCCTGTACAAAATATGTTAAAAG
1 GTAGAAATAATGTACAAAATATATTAAAAG
69860991 GTAG
1 GTAG
69860995 TATTCGCAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (30 bp):
GTAGAAATAATGTACAAAATATATTAAAAG
Found at i:69868187 original size:21 final size:21
Alignment explanation
Indices: 69868163--69868211 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
69868153 TCTTTCCTAT
69868163 TTCACTTGGTTTTTAAAAAAA
1 TTCACTTGGTTTTTAAAAAAA
69868184 TTCACTTGGTTTTTAAAAAAA
1 TTCACTTGGTTTTTAAAAAAA
69868205 TTCACTT
1 TTCACTT
69868212 TTATGTATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (21 bp):
TTCACTTGGTTTTTAAAAAAA
Found at i:69873798 original size:47 final size:46
Alignment explanation
Indices: 69873689--69873808 Score: 138
Period size: 47 Copynumber: 2.6 Consensus size: 46
69873679 TTACTGTGAG
* *
69873689 CTAGTGTAAGACATGTCTGGGACAT-GTATCAGCCACATTACGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGGCATCAG-CACATTACGAGAA
* *
69873735 CCAGTGTAAGACCATGTCTGGGACATGGCATC-G-GCATTGAGACGAGAA
1 CTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCACATT---ACGAGAA
69873783 CTAGTGTAAGACATGTCTGGGACATG
1 CTAGTGTAAGACATGTCTGGGACATG
69873809 CATGTTGATG
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
45 4 0.06
46 10 0.16
47 30 0.47
48 20 0.31
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
CTAGTGTAAGACATGTCTGGGACATGGCATCAGCACATTACGAGAA
Found at i:69878581 original size:27 final size:26
Alignment explanation
Indices: 69878540--69878590 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
69878530 AAACAACAAA
*
69878540 TGTGGCAAAGTCACCAGTATCAGTAAT
1 TGTGGCAAAGCCACCAGTA-CAGTAAT
*
69878567 TGTGGCATAGCCACCAGTACAGTA
1 TGTGGCAAAGCCACCAGTACAGTA
69878591 CTTCCTCCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (26 bp):
TGTGGCAAAGCCACCAGTACAGTAAT
Found at i:69883517 original size:27 final size:27
Alignment explanation
Indices: 69883487--69883691 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
69883477 ATATTAAGTC
* *
69883487 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
69883514 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
69883542 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
69883569 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
69883596 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
69883623 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
69883650 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
69883677 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
69883692 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.83
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:69883626 original size:54 final size:54
Alignment explanation
Indices: 69883487--69883690 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
69883477 ATATTAAGTC
* * * **
69883487 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
69883542 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
** ** *
69883596 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
69883650 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
69883691 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:69883656 original size:81 final size:81
Alignment explanation
Indices: 69883541--69883690 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
69883531 ATAATCAAAC
* * * * * *
69883541 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
69883606 GTGCATCATTTTCATT
66 GTGCATCATTTTCATT
* *
69883622 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
69883687 GTGC
66 GTGC
69883691 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:69886807 original size:28 final size:27
Alignment explanation
Indices: 69886715--69886818 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 27
69886705 AGGAAGCGTC
* *
69886715 CTGGTGGCTATGCTACAATTAT-TG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
*
69886741 CTGGTGGCTCTGCCACATATATCTAT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
69886768 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
** *
69886796 CTGGTGATTCTGTCACATTATCT
1 CTGGTGGCTCTGCCACATTATCT
69886819 ATTTTGGCAG
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
25 2 0.03
26 17 0.26
27 31 0.47
28 16 0.24
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:69896369 original size:22 final size:22
Alignment explanation
Indices: 69896341--69896395 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
69896331 GTGTTGAAGA
69896341 CACACGGGCGTGTCCCTGTGTC
1 CACACGGGCGTGTCCCTGTGTC
69896363 CACACGGGCGTGTCCCTGTGTC
1 CACACGGGCGTGTCCCTGTGTC
*
69896385 CACATGGGCGT
1 CACACGGGCGT
69896396 ATGGCTTCGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.11, C:0.35, G:0.33, T:0.22
Consensus pattern (22 bp):
CACACGGGCGTGTCCCTGTGTC
Found at i:69899649 original size:46 final size:46
Alignment explanation
Indices: 69899599--69899771 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
69899589 TGGTTGAGCA
* *
69899599 TCCGAGCTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
69899645 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
69899690 CATCCGAACTCGTTGAGTTGAGTCCTAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
69899738 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
69899772 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 57 0.55
47 28 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:69899755 original size:93 final size:93
Alignment explanation
Indices: 69899596--69899766 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
69899586 GGATGGTTGA
* * *
69899596 GCATCCGAGCTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
69899661 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
69899689 GCATCCGAACTCGTTGAGTTGAGTCCTAGTTCATTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
69899754 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
69899767 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:69912576 original size:22 final size:23
Alignment explanation
Indices: 69912551--69912602 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
69912541 AGAATTGAGT
69912551 TAGCACACCCTATAATGGTTT-C
1 TAGCACACCCTATAATGGTTTCC
* *
69912573 TAGCACACCTTGTAATGGTTTCC
1 TAGCACACCCTATAATGGTTTCC
69912596 T-GCACAC
1 TAGCACAC
69912603 TCACAAAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (23 bp):
TAGCACACCCTATAATGGTTTCC
Found at i:69916401 original size:27 final size:26
Alignment explanation
Indices: 69916343--69916451 Score: 146
Period size: 27 Copynumber: 4.1 Consensus size: 26
69916333 CATGGTTGCT
* *
69916343 AGAACAGATAATGTGACAGAGTCACC
1 AGAACAGATAATGTGGCAGAGCCACC
69916369 AGAACAGATAATCGTGGCAGAGCCACC
1 AGAACAGATAAT-GTGGCAGAGCCACC
*
69916396 AAAACAGATATATGTGGCAGAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
* *
69916423 AGATCAGATAATTGTGGCATAGCCACC
1 AGAACAGATAA-TGTGGCAGAGCCACC
69916450 AG
1 AG
69916452 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 13 0.18
27 59 0.80
28 2 0.03
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
AGAACAGATAATGTGGCAGAGCCACC
Found at i:69916600 original size:26 final size:27
Alignment explanation
Indices: 69916578--69916629 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
69916568 TGGTAATTTT
*
69916578 ACACCTAGGGGTATATC-AATAATTTCC
1 ACACATAGGGGTAT-TCAAATAATTTCC
*
69916605 ATACATAGGGGTATTCAAATAATTT
1 ACACATAGGGGTATTCAAATAATTT
69916630 AACTATTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (27 bp):
ACACATAGGGGTATTCAAATAATTTCC
Found at i:69917867 original size:24 final size:23
Alignment explanation
Indices: 69917834--69917939 Score: 140
Period size: 24 Copynumber: 4.4 Consensus size: 23
69917824 GCCGACCAAC
69917834 TCTTGCTCCTTGATCAGCTCCTAAA
1 TCTT-CTCCTT-ATCAGCTCCTAAA
*
69917859 TCTTCTCCTTTATTAGCTCCTAAA
1 TCTTCTCC-TTATCAGCTCCTAAA
*
69917883 TCCTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
*
69917907 TCCTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
69917931 TCTTCTCCT
1 TCTTCTCCT
69917940 GACAGCCTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
23 3 0.04
24 64 0.85
25 8 0.11
ACGTcount: A:0.19, C:0.37, G:0.06, T:0.39
Consensus pattern (23 bp):
TCTTCTCCTTATCAGCTCCTAAA
Found at i:69924230 original size:26 final size:26
Alignment explanation
Indices: 69924200--69924310 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 26
69924190 AGCATGGCTG
* *
69924200 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
69924226 CCAGAACAGATAATCGTGGCAAAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
* * *
69924253 CCAGGACAAATATATATGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
69924280 CCA-AATCAGATAATTATGGCATAGCCA
1 CCAGAA-CAGATAA-TGTGGCAGAGCCA
69924307 CCAG
1 CCAG
69924311 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
26 16 0.23
27 52 0.74
28 2 0.03
ACGTcount: A:0.41, C:0.23, G:0.21, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:69925714 original size:12 final size:12
Alignment explanation
Indices: 69925697--69925791 Score: 50
Period size: 12 Copynumber: 7.9 Consensus size: 12
69925687 ACCAACTCTT
*
69925697 GCTCCTTGATCA
1 GCTCCTTAATCA
* *
69925709 GCTCCTAAATCT
1 GCTCCTTAATCA
* *
69925721 TCTCCTTTATCA
1 GCTCCTTAATCA
* *
69925733 GCTCCTAAATCC
1 GCTCCTTAATCA
*
69925745 TCTCCCTT-ATCA
1 GCT-CCTTAATCA
* *
69925757 GCTCCTAAATCC
1 GCTCCTTAATCA
*
69925769 TCTCCCTT-ATCA
1 GCT-CCTTAATCA
*
69925781 GCTCCTAAATC
1 GCTCCTTAATC
69925792 TTCTCCTGAC
Statistics
Matches: 57, Mismatches: 22, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
11 6 0.11
12 45 0.79
13 6 0.11
ACGTcount: A:0.21, C:0.38, G:0.06, T:0.35
Consensus pattern (12 bp):
GCTCCTTAATCA
Found at i:69925726 original size:24 final size:23
Alignment explanation
Indices: 69925693--69925798 Score: 149
Period size: 24 Copynumber: 4.4 Consensus size: 23
69925683 GCCGACCAAC
69925693 TCTTGCTCCTTGATCAGCTCCTAAA
1 TCTT-CTCCTT-ATCAGCTCCTAAA
69925718 TCTTCTCCTTTATCAGCTCCTAAA
1 TCTTCTCC-TTATCAGCTCCTAAA
*
69925742 TCCTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
*
69925766 TCCTCTCCCTTATCAGCTCCTAAA
1 TCTTCT-CCTTATCAGCTCCTAAA
69925790 TCTTCTCCT
1 TCTTCTCCT
69925799 GACAGCCTTT
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
23 3 0.04
24 66 0.86
25 8 0.10
ACGTcount: A:0.19, C:0.38, G:0.06, T:0.38
Consensus pattern (23 bp):
TCTTCTCCTTATCAGCTCCTAAA
Found at i:69941234 original size:28 final size:29
Alignment explanation
Indices: 69941202--69941278 Score: 95
Period size: 28 Copynumber: 2.7 Consensus size: 29
69941192 CTCTTCGATG
69941202 TCTCGCACACTAAGTGCCATACTCAATA-
1 TCTCGCACACTAAGTGCCATACTCAATAT
* * *
69941230 TCTCGCACACCAAGTGCCATTCTTAATAT
1 TCTCGCACACTAAGTGCCATACTCAATAT
* *
69941259 TTTC-CACACTAAGTGTCATA
1 TCTCGCACACTAAGTGCCATA
69941279 TACATATATA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 38 0.93
29 3 0.07
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (29 bp):
TCTCGCACACTAAGTGCCATACTCAATAT
Found at i:69944772 original size:41 final size:41
Alignment explanation
Indices: 69944727--69944805 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
69944717 TTTACAAATT
*
69944727 TTTCTGTCATCCACAAGTTCAAACAGTAAATTTACTTAATG
1 TTTCTGTCATCCACAAGTTCAAACAGAAAATTTACTTAATG
*
69944768 TTTCTGTCATCCACAATTTCAAACAGAAAATTTACTTA
1 TTTCTGTCATCCACAAGTTCAAACAGAAAATTTACTTA
69944806 CTTGAGCCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (41 bp):
TTTCTGTCATCCACAAGTTCAAACAGAAAATTTACTTAATG
Found at i:69945035 original size:42 final size:42
Alignment explanation
Indices: 69944989--69945089 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
69944979 GTCTTATACA
*
69944989 AAATCACATATCGATGCCGCATCCCAGACACGGACTTACACG
1 AAATCACATATCGATGCCACATCCCAGACACGGACTTACACG
* * * * * *
69945031 AAATCTA-ATATCGAAGACATATCCCAGAGATGGTCTTACACG
1 AAATC-ACATATCGATGCCACATCCCAGACACGGACTTACACG
* *
69945073 TAATCTCATATCGATGC
1 AAATCACATATCGATGC
69945090 TGATGTCATA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.23
Consensus pattern (42 bp):
AAATCACATATCGATGCCACATCCCAGACACGGACTTACACG
Found at i:69945195 original size:36 final size:37
Alignment explanation
Indices: 69945150--69945234 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
69945140 TGTCCTAGAC
* *
69945150 ATGGCCTTACACGT-ATCACAATGCCATAGCCCTGCT
1 ATGGTCTTACACGTCATCACAATGCCATAGCCCAGCT
* **
69945186 ATGGTCTTACATGTCATCATGATGCCATAGCCCAGCT
1 ATGGTCTTACACGTCATCACAATGCCATAGCCCAGCT
69945223 ATGGTCTTACAC
1 ATGGTCTTACAC
69945235 ATACCACATG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 12 0.29
37 30 0.71
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (37 bp):
ATGGTCTTACACGTCATCACAATGCCATAGCCCAGCT
Found at i:69949329 original size:48 final size:46
Alignment explanation
Indices: 69949210--69949330 Score: 163
Period size: 46 Copynumber: 2.6 Consensus size: 46
69949200 TGGGATGTGT
*
69949210 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
* * *
69949256 GCAAGTGTAAGACATGTATGGGACATGCATCTGCCTCGAGAT-ATGCAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA-G--A
*
69949304 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
69949331 GCATTGGCTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
45 1 0.02
46 39 0.60
48 25 0.38
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:69954608 original size:16 final size:16
Alignment explanation
Indices: 69954587--69954627 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
69954577 GGTTGGGGTG
*
69954587 AATGGAATAGGGCA-GT
1 AATGGAATAGAG-ATGT
69954603 AATGGAATAGAGATGT
1 AATGGAATAGAGATGT
69954619 AATGGAATA
1 AATGGAATA
69954628 TGTGACATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.44, C:0.02, G:0.32, T:0.22
Consensus pattern (16 bp):
AATGGAATAGAGATGT
Found at i:69956494 original size:29 final size:29
Alignment explanation
Indices: 69956459--69956522 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
69956449 ATTCGAGAGG
* ** *
69956459 ATTTGGTGATCTTATTGCATTTATTCGTT
1 ATTTGGTAATCTTATCACATTTATTAGTT
* *
69956488 ATTTGGTAATTTTGTCACATTTATTAGTT
1 ATTTGGTAATCTTATCACATTTATTAGTT
69956517 ATTTGG
1 ATTTGG
69956523 CAGATTTTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.08, G:0.17, T:0.55
Consensus pattern (29 bp):
ATTTGGTAATCTTATCACATTTATTAGTT
Found at i:69956540 original size:29 final size:28
Alignment explanation
Indices: 69956474--69956540 Score: 64
Period size: 29 Copynumber: 2.3 Consensus size: 28
69956464 GTGATCTTAT
* * * *
69956474 TGCATTTATTCGTTATTTGGTAATTTTG
1 TGCAATTATTAGTTATTTGGCAATTTTC
69956502 T-CACATTTATTAGTTATTTGGCAGATTTTC
1 TGCA-A-TTATTAGTTATTTGGCA-ATTTTC
69956532 TGCAATTAT
1 TGCAATTAT
69956541 ATTCATTTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
27 2 0.06
28 1 0.03
29 19 0.61
30 7 0.23
31 2 0.06
ACGTcount: A:0.22, C:0.10, G:0.15, T:0.52
Consensus pattern (28 bp):
TGCAATTATTAGTTATTTGGCAATTTTC
Found at i:69957606 original size:27 final size:27
Alignment explanation
Indices: 69957575--69957636 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
69957565 AATTTAATAA
*
69957575 AATAATATAT-AACTTAATAAAAATCTT
1 AATAATATATGAA-TTAATAAAAATCAT
*
69957602 AATAAAATATGAATTAATAAAAATCAT
1 AATAATATATGAATTAATAAAAATCAT
69957629 AAT-ATATA
1 AATAATATA
69957637 ATATTATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 4 0.13
27 25 0.81
28 2 0.06
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.34
Consensus pattern (27 bp):
AATAATATATGAATTAATAAAAATCAT
Found at i:69961756 original size:13 final size:13
Alignment explanation
Indices: 69961725--69961764 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
69961715 CCGAATGTAA
69961725 TTTTTG-AGCACT
1 TTTTTGAAGCACT
* *
69961737 TTCTTGAAGCAGT
1 TTTTTGAAGCACT
69961750 TTTTTGAAGCACT
1 TTTTTGAAGCACT
69961763 TT
1 TT
69961765 CTCGGAGGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.47
Consensus pattern (13 bp):
TTTTTGAAGCACT
Found at i:69974024 original size:46 final size:46
Alignment explanation
Indices: 69973971--69974061 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
69973961 AAAACAAGTT
69973971 TAAATCATGTCTTAAACATGACATATTATAACATACAACCAATGTC
1 TAAATCATGTCTTAAACATGACATATTATAACATACAACCAATGTC
69974017 TAAATCATGTCTTAAACATGACATATTATAACATACAACCAATGT
1 TAAATCATGTCTTAAACATGACATATTATAACATACAACCAATGT
69974062 ACCCTTAGGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.31
Consensus pattern (46 bp):
TAAATCATGTCTTAAACATGACATATTATAACATACAACCAATGTC
Found at i:69974795 original size:29 final size:30
Alignment explanation
Indices: 69974762--69974819 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
69974752 CTTTTTTACT
*
69974762 TTTCCCTCAAAACTTTTACT-CCTTCCCAC
1 TTTCCCCCAAAACTTTTACTCCCTTCCCAC
69974791 TTTCCCCCAAAACTTTTACTCCCTTCCCA
1 TTTCCCCCAAAACTTTTACTCCCTTCCCA
69974820 TCCCAACCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.21, C:0.43, G:0.00, T:0.36
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:69975076 original size:17 final size:17
Alignment explanation
Indices: 69975041--69975072 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
69975031 TTTTAATATT
69975041 TTCCCTCAAAACTTTTA
1 TTCCCTCAAAACTTTTA
69975058 TTCCC-CAAAACTTTT
1 TTCCCTCAAAACTTTT
69975073 TATTTTCCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (17 bp):
TTCCCTCAAAACTTTTA
Found at i:69975219 original size:17 final size:17
Alignment explanation
Indices: 69975199--69975245 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
69975189 CACATTTTAT
69975199 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
69975216 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
69975234 A-TATTTATATTA
1 ATTATTTATATTA
69975246 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:69976857 original size:17 final size:17
Alignment explanation
Indices: 69976819--69976858 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
69976809 ATTTTTATCA
69976819 TTTATCATTTATCGGGC
1 TTTATCATTTATCGGGC
* * *
69976836 ATTATCTTTTATCGGGT
1 TTTATCATTTATCGGGC
69976853 TTTATC
1 TTTATC
69976859 GGATATGTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.15, G:0.15, T:0.53
Consensus pattern (17 bp):
TTTATCATTTATCGGGC
Found at i:69977595 original size:14 final size:14
Alignment explanation
Indices: 69977576--69977605 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
69977566 TTATATCGAG
69977576 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
69977590 ACCAATCCAATTCA
1 ACCAATCCAAATCA
69977604 AC
1 AC
69977606 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:69995025 original size:45 final size:45
Alignment explanation
Indices: 69994929--69995050 Score: 174
Period size: 45 Copynumber: 2.7 Consensus size: 45
69994919 TAGGATTTTG
* *
69994929 ATATGTATTTTCGA-GTAAGACCACGTCTAGGATGTTGGCATCGAT
1 ATATGTGTTTTC-ATGTAAGACCACGTCTGGGATGTTGGCATCGAT
*
69994974 ATATGTGTTTTCTTGTAAGACCACGTCTGGGATGTTGGCATCGAT
1 ATATGTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCATCGAT
* * *
69995019 ATATGTGGTTACATGTAAGACCATGTCTGGGA
1 ATATGTGTTTTCATGTAAGACCACGTCTGGGA
69995051 CATCGGTATC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (45 bp):
ATATGTGTTTTCATGTAAGACCACGTCTGGGATGTTGGCATCGAT
Found at i:70004410 original size:27 final size:27
Alignment explanation
Indices: 70004380--70004720 Score: 224
Period size: 27 Copynumber: 12.6 Consensus size: 27
70004370 TATAAGGTAG
* *
70004380 AATTACCAAAATACCCTCGATTAGCAA
1 AATTACCAAAATACCCTCGATTTGTAA
*
70004407 AATTACCAAAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCCTCGA-TTTGTAA
*
70004434 AATTACCAAAATACCC-CTGATTTGTGA
1 AATTACCAAAATACCCTC-GATTTGTAA
* **
70004461 AATTACCAAAATACCCTCAACCTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
* * *
70004488 AATTACCGAAATACCCTTGAATTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
* *
70004515 AATTATCAAAATACCATCGATTTGTAA
1 AATTACCAAAATACCCTCGATTTGTAA
*
70004542 AATTACCAAAATACCC-CTAATTTG-AA
1 AATTACCAAAATACCCTC-GATTTGTAA
*** * * *
70004568 AATTTAATGAAATACCATTGATTTGAAA
1 AA-TTACCAAAATACCCTCGATTTGTAA
** * **
70004596 AATTAGAAAAATACCCT-AATTTACAA
1 AATTACCAAAATACCCTCGATTTGTAA
* * * **
70004622 AATTACAAAAATACCATTGACTTTCAAA
1 AATTACCAAAATACCCTCGA-TTTGTAA
* * * * * *
70004650 AATTACAAAAATGCCTTTGGTTTGCAA
1 AATTACCAAAATACCCTCGATTTGTAA
** * * *
70004677 AATTACTGAAATACCCTAGGTTTGTAG
1 AATTACCAAAATACCCTCGATTTGTAA
* *
70004704 ATTTACCAAAACACCCT
1 AATTACCAAAATACCCT
70004721 TGTAGGGTGA
Statistics
Matches: 249, Mismatches: 56, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
26 28 0.11
27 193 0.78
28 28 0.11
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCTCGATTTGTAA
Found at i:70004678 original size:28 final size:27
Alignment explanation
Indices: 70004577--70004661 Score: 86
Period size: 26 Copynumber: 3.1 Consensus size: 27
70004567 AAATTTAATG
* *
70004577 AAATACCATTGA-TTTGAAAAATTAGAA
1 AAATACCATTGACTTT-CAAAATTACAA
* *
70004604 AAATACC-CT-AATTTACAAAATTACAA
1 AAATACCATTGACTTT-CAAAATTACAA
70004630 AAATACCATTGACTTTCAAAAATTACAA
1 AAATACCATTGACTTTC-AAAATTACAA
70004658 AAAT
1 AAAT
70004662 GCCTTTGGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
25 1 0.02
26 20 0.42
27 9 0.19
28 18 0.38
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (27 bp):
AAATACCATTGACTTTCAAAATTACAA
Found at i:70005009 original size:41 final size:41
Alignment explanation
Indices: 70004964--70005080 Score: 189
Period size: 41 Copynumber: 2.9 Consensus size: 41
70004954 GAAGAAATTG
*
70004964 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGGTTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
70005005 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
* * * *
70005046 AGGATTGAATGGTTGCTTGATGACTGTGGATCCAC
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCAC
70005081 AGGTGGTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.26
Consensus pattern (41 bp):
AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
Found at i:70005276 original size:22 final size:21
Alignment explanation
Indices: 70005227--70005277 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
70005217 AATTATTCTG
*
70005227 ATTATGGCTTTGCGCCAACCT
1 ATTATGGCTCTGCGCCAACCT
* *
70005248 ATATATGGCTCTGGGCCAACTT
1 AT-TATGGCTCTGCGCCAACCT
70005270 CATTATGG
1 -ATTATGG
70005278 TTGTGTGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 21 0.84
23 2 0.08
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (21 bp):
ATTATGGCTCTGCGCCAACCT
Found at i:70008554 original size:54 final size:52
Alignment explanation
Indices: 70008443--70008562 Score: 150
Period size: 53 Copynumber: 2.2 Consensus size: 52
70008433 CTCAATTTGT
** ** *
70008443 AAAATTACCAAAATACCCCTAATTTGGAAAATTAATGAAATACCCTTGATTTGA
1 AAAATTA-CAAAATA-CCCTAATTTACAAAATTAAAAAAATACCCTTGATTTCA
*
70008497 AAAATTACAGAAATACCCTAATTTACAAAATTAAAAAAATACCTTTGACTTTCA
1 AAAATTACA-AAATACCCTAATTTACAAAATTAAAAAAATACCCTTGA-TTTCA
70008551 AAAATTACAAAA
1 AAAATTACAAAA
70008563 ATACTATTGG
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
53 33 0.57
54 25 0.43
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (52 bp):
AAAATTACAAAATACCCTAATTTACAAAATTAAAAAAATACCCTTGATTTCA
Found at i:70008601 original size:27 final size:27
Alignment explanation
Indices: 70008280--70008603 Score: 239
Period size: 27 Copynumber: 12.0 Consensus size: 27
70008270 ATTTAGTTTA
* *
70008280 CAAAATTACCAAAATACCCTCGATTAG
1 CAAAATTACCAAAATACCCTAGATTTG
*
70008307 CAAAATTACCAAGATACCCCTAG-TTTG
1 CAAAATTACCAAAATA-CCCTAGATTTG
*
70008334 TAAAATTACCAAAATACCCCT-GATTTG
1 CAAAATTACCAAAATA-CCCTAGATTTG
** * * *
70008361 TGAAATTACCGAAATACCCTCGACTTG
1 CAAAATTACCAAAATACCCTAGATTTG
* * * *
70008388 TAAAATTACCGAAATACCCTTGACTTG
1 CAAAATTACCAAAATACCCTAGATTTG
* *
70008415 TAAAATTACCGAAATACCCTCA-ATTTG
1 CAAAATTACCAAAATACCCT-AGATTTG
*
70008442 TAAAATTACCAAAATACCCCTA-ATTTG
1 CAAAATTACCAAAATA-CCCTAGATTTG
* *** *
70008469 GAAAATTAATGAAATACCCTTGATTTG
1 CAAAATTACCAAAATACCCTAGATTTG
* *
70008496 AAAAATTA-CAGAAATACCCTA-ATTTA
1 CAAAATTACCA-AAATACCCTAGATTTG
** * *
70008522 CAAAATTAAAAAAATACCTTTGACTTT-
1 CAAAATTACCAAAATACCCTAGA-TTTG
* ** * *
70008549 CAAAAATTACAAAAATACTATTGGTTTG
1 C-AAAATTACCAAAATACCCTAGATTTG
*
70008577 CAAAATTACCAAAATACCCTAGGTTTG
1 CAAAATTACCAAAATACCCTAGATTTG
70008604 TAAATGTAAC
Statistics
Matches: 250, Mismatches: 35, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
26 28 0.11
27 191 0.76
28 31 0.12
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (27 bp):
CAAAATTACCAAAATACCCTAGATTTG
Found at i:70009669 original size:21 final size:21
Alignment explanation
Indices: 70009645--70009705 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
70009635 TATAGTGAAT
70009645 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
70009666 ATATCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
*
70009687 ATATCATGGCATATCATGT
1 ATATCATAGCATATCATGT
70009706 ATATCAATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:70009704 original size:10 final size:10
Alignment explanation
Indices: 70009645--70009704 Score: 75
Period size: 10 Copynumber: 5.8 Consensus size: 10
70009635 TATAGTGAAT
*
70009645 ATATCATAGC
1 ATATCATGGC
70009655 ATATCATGTGC
1 ATATCATG-GC
**
70009666 ATATCATAAC
1 ATATCATGGC
70009676 ATATCATGTGC
1 ATATCATG-GC
70009687 ATATCATGGC
1 ATATCATGGC
70009697 ATATCATG
1 ATATCATG
70009705 TATATCAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
10 25 0.58
11 18 0.42
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:70009787 original size:25 final size:25
Alignment explanation
Indices: 70009741--70009789 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
70009731 ATAATCAAAC
* * *
70009741 CCTAGGGGTATAATAGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
*
70009766 CCTAGGGGCAAAACAGTTATTTTT
1 CCTAGGGGCAAAACAGTCATTTTT
70009790 CATATTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:70011698 original size:41 final size:41
Alignment explanation
Indices: 70011580--70011698 Score: 202
Period size: 41 Copynumber: 2.9 Consensus size: 41
70011570 GAAGAAATTG
*
70011580 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCAATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
* *
70011621 ATGATCGCATGGTTGCTTGACGACCGTAGATCCACCGATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
*
70011662 AGGATCGCATAGTTGCTTGACGACCGTGGATCCACCG
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
70011699 GTGGTTTTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (41 bp):
AGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGATTA
Found at i:70011892 original size:22 final size:22
Alignment explanation
Indices: 70011841--70011893 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
70011831 CCAATTATTA
* *
70011841 TGATTATGGCTTTGCGCCGACC
1 TGATTATGGCTCTGCGCCAACC
* *
70011863 T-ACATATGGCTCTGGGCCAACC
1 TGA-TTATGGCTCTGCGCCAACC
70011885 TGATTATGG
1 TGATTATGG
70011894 TTGTGTGCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.30
Consensus pattern (22 bp):
TGATTATGGCTCTGCGCCAACC
Found at i:70016663 original size:25 final size:24
Alignment explanation
Indices: 70016628--70016696 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 24
70016618 CCATACAAGC
70016628 ATGTAAACGGGAAGCTCTTTCGAGCT
1 ATGT-AACGGGAAGCTCTTT-GAGCT
*
70016654 ATGTAACGGGAAGCTCATGTGAGCT
1 ATGTAACGGGAAGCTC-TTTGAGCT
* *
70016679 GTATAACGGGAAGCTCTT
1 ATGTAACGGGAAGCTCTT
70016697 GCGAACCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 31 0.82
26 6 0.16
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (24 bp):
ATGTAACGGGAAGCTCTTTGAGCT
Found at i:70016788 original size:25 final size:25
Alignment explanation
Indices: 70016723--70016795 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
70016713 GAAGCTTAAG
* *
70016723 AGAGCCAAAT-ATCGAGAAGCTCGTA
1 AGAGCCAAATAAT-GGGAAGCTCATA
* *
70016748 AGAGCCAAATATTGGGATGCTCATA
1 AGAGCCAAATAATGGGAAGCTCATA
*
70016773 AGAGCTAAATAATGGGAAGCTCA
1 AGAGCCAAATAATGGGAAGCTCA
70016796 CGAGATTTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 39 0.98
26 1 0.03
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (25 bp):
AGAGCCAAATAATGGGAAGCTCATA
Found at i:70022676 original size:21 final size:21
Alignment explanation
Indices: 70022650--70022696 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
70022640 TATGAGGAAA
*
70022650 AAAAAAACATGAGTGCATACC
1 AAAAAAACATGAGAGCATACC
*
70022671 AAAAAAACATGAGAGTATACC
1 AAAAAAACATGAGAGCATACC
70022692 AAAAA
1 AAAAA
70022697 TATACGAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.60, C:0.15, G:0.13, T:0.13
Consensus pattern (21 bp):
AAAAAAACATGAGAGCATACC
Found at i:70022705 original size:21 final size:21
Alignment explanation
Indices: 70022650--70022706 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
70022640 TATGAGGAAA
* * *
70022650 AAAAAAACATGAGTGCATACC
1 AAAAAAACACGAGAGTATACC
*
70022671 AAAAAAACATGAGAGTATACC
1 AAAAAAACACGAGAGTATACC
* *
70022692 AAAAATATACGAGAG
1 AAAAAAACACGAGAG
70022707 ACTATTTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.56, C:0.14, G:0.16, T:0.14
Consensus pattern (21 bp):
AAAAAAACACGAGAGTATACC
Found at i:70024748 original size:27 final size:26
Alignment explanation
Indices: 70024700--70024778 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 26
70024690 GCGAGGCTGC
* *
70024700 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
70024726 ACAGATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
* *
70024753 CAGATAATCGTGGCATAGCCACCAGA
1 CAGAT-ATTGTGGCAGAGCCACCAGA
70024779 ACGCTTCCTC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.11
27 40 0.87
28 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:70026395 original size:26 final size:26
Alignment explanation
Indices: 70026364--70026419 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
70026354 TGAAATGCCC
70026364 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
70026390 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
70026416 ATCA
1 ATCA
70026420 ATTGTACCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:70031664 original size:27 final size:27
Alignment explanation
Indices: 70031616--70031721 Score: 137
Period size: 27 Copynumber: 3.9 Consensus size: 27
70031606 GCGAGGCTGC
* *
70031616 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
70031643 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
70031669 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
70031696 CAGATAATTGTGGCATAGCCACCAGA
1 CAGAT-ATTGTGGCAGAGCCACCAGA
70031722 CGCTTCCTCC
Statistics
Matches: 72, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 8 0.11
27 61 0.85
28 3 0.04
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:70033315 original size:26 final size:26
Alignment explanation
Indices: 70033284--70033339 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
70033274 TGAAATGCCC
70033284 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
70033310 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
70033336 ATCA
1 ATCA
70033340 ATTTGTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:70036684 original size:15 final size:15
Alignment explanation
Indices: 70036664--70036697 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
70036654 TGTTGTTTCG
70036664 ATTGTTTAATATAT-A
1 ATTGTTT-ATATATGA
70036679 ATTGTTTATATATGA
1 ATTGTTTATATATGA
70036694 ATTG
1 ATTG
70036698 AGTTCGTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGTTTATATATGA
Found at i:70036843 original size:45 final size:46
Alignment explanation
Indices: 70036765--70036878 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 46
70036755 TACAAAAATG
* *** * * *
70036765 AGTAAGACTATAACTGAAAGACGTTATGGCATCACGATTC-TATCA
1 AGTAAGACCATAACTGAAAGACACAATGCCATCACGAATCAAATCA
*
70036810 AGTAAGACCATAACTGAAAGACACAATGCCATCACGAATCAAATGA
1 AGTAAGACCATAACTGAAAGACACAATGCCATCACGAATCAAATCA
**
70036856 A-TAAGACCATAGTTGAAAGACAC
1 AGTAAGACCATAACTGAAAGACAC
70036879 TATAGTGACA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 54 0.93
46 4 0.07
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (46 bp):
AGTAAGACCATAACTGAAAGACACAATGCCATCACGAATCAAATCA
Found at i:70036911 original size:46 final size:46
Alignment explanation
Indices: 70036850--70036967 Score: 191
Period size: 46 Copynumber: 2.6 Consensus size: 46
70036840 ATCACGAATC
**
70036850 AAATGAATAAGACCATAGTTGAAAGACACTATAGTGACATGACGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATAGAAACATGACGGA
*
70036896 AAATGAATAAGACCATAGTTGAAAGACACTATAGAAACATGATGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATAGAAACATGACGGA
* *
70036942 AAATGAATAAGCCCATGGTTGAAAGA
1 AAATGAATAAGACCATAGTTGAAAGA
70036968 TGCCATGGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.19
Consensus pattern (46 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATAGAAACATGACGGA
Found at i:70038783 original size:25 final size:25
Alignment explanation
Indices: 70038749--70038800 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
70038739 CATACTGTGA
*
70038749 TACATTATTCAATTATATAAGACAT
1 TACATTATTCAATTATATAAGAAAT
70038774 TACATTATTCAATTATATAAGAAAT
1 TACATTATTCAATTATATAAGAAAT
70038799 TA
1 TA
70038801 ATATGAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (25 bp):
TACATTATTCAATTATATAAGAAAT
Found at i:70039207 original size:20 final size:20
Alignment explanation
Indices: 70039184--70039240 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
70039174 ATGAGGACAA
* *
70039184 ACCAAAAATCATGAGCGTAT
1 ACCAAAAAACATGAGAGTAT
*
70039204 ACCAAAAAACATTAGAGTAT
1 ACCAAAAAACATGAGAGTAT
* *
70039224 ACCAAAACATATGAGAG
1 ACCAAAAAACATGAGAG
70039241 GCTACTTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.51, C:0.18, G:0.14, T:0.18
Consensus pattern (20 bp):
ACCAAAAAACATGAGAGTAT
Found at i:70043641 original size:26 final size:26
Alignment explanation
Indices: 70043610--70043665 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
70043600 TGAAATGCCC
70043610 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
70043636 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
70043662 ATCA
1 ATCA
70043666 ATTTGTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:70048929 original size:27 final size:27
Alignment explanation
Indices: 70048881--70048986 Score: 128
Period size: 27 Copynumber: 3.9 Consensus size: 27
70048871 GCGAGGCTGC
* *
70048881 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
70048908 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
70048934 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
70048961 CAGATAATCGTGGCATAGCCACCAGA
1 CAGAT-ATTGTGGCAGAGCCACCAGA
70048987 ACGCTTCCTC
Statistics
Matches: 71, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
26 8 0.11
27 60 0.85
28 3 0.04
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:70050598 original size:26 final size:26
Alignment explanation
Indices: 70050567--70050622 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
70050557 TGAAATGCCC
70050567 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
70050593 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
70050619 ATCA
1 ATCA
70050623 ATTTGTACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:70053969 original size:15 final size:15
Alignment explanation
Indices: 70053949--70053982 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
70053939 TGTTGTTTCG
70053949 ATTGTTTAATATAT-A
1 ATTGTTT-ATATATGA
70053964 ATTGTTTATATATGA
1 ATTGTTTATATATGA
70053979 ATTG
1 ATTG
70053983 AGTTCGTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGTTTATATATGA
Found at i:70054129 original size:45 final size:46
Alignment explanation
Indices: 70054051--70054164 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 46
70054041 ACCAAAAATG
* *** * * *
70054051 AGTAAGACTATAACTGAAAGACGTTATGGCATCACGATTC-TATCA
1 AGTAAGACCATAACTGAAAGACACAATGCCATCACGAATCAAATCA
*
70054096 AGTAAGACCATAACTGAAAGACACAATGCCATCACGAATCAAATGA
1 AGTAAGACCATAACTGAAAGACACAATGCCATCACGAATCAAATCA
**
70054142 A-TAAGACCATAGTTGAAAGACAC
1 AGTAAGACCATAACTGAAAGACAC
70054165 TATAGTGACA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
45 54 0.93
46 4 0.07
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (46 bp):
AGTAAGACCATAACTGAAAGACACAATGCCATCACGAATCAAATCA
Found at i:70054197 original size:46 final size:46
Alignment explanation
Indices: 70054136--70054253 Score: 191
Period size: 46 Copynumber: 2.6 Consensus size: 46
70054126 ATCACGAATC
**
70054136 AAATGAATAAGACCATAGTTGAAAGACACTATAGTGACATGACGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATAGAAACATGACGGA
*
70054182 AAATGAATAAGACCATAGTTGAAAGACACTATAGAAACATGATGGA
1 AAATGAATAAGACCATAGTTGAAAGACACTATAGAAACATGACGGA
* *
70054228 AAATGAATAAGCCCATGGTTGAAAGA
1 AAATGAATAAGACCATAGTTGAAAGA
70054254 TGCCATGGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.19
Consensus pattern (46 bp):
AAATGAATAAGACCATAGTTGAAAGACACTATAGAAACATGACGGA
Found at i:70056070 original size:25 final size:25
Alignment explanation
Indices: 70056036--70056087 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
70056026 CATACTGTGA
*
70056036 TACATTATTCAATTATATAAGACAT
1 TACATTATTCAATTATATAAGAAAT
70056061 TACATTATTCAATTATATAAGAAAT
1 TACATTATTCAATTATATAAGAAAT
70056086 TA
1 TA
70056088 ATATGAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (25 bp):
TACATTATTCAATTATATAAGAAAT
Found at i:70056495 original size:20 final size:20
Alignment explanation
Indices: 70056472--70056528 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
70056462 ATGAGGACAA
* *
70056472 ACCAAAAATCATGAGCGTAT
1 ACCAAAAAACATGAGAGTAT
*
70056492 ACCAAAAAACATTAGAGTAT
1 ACCAAAAAACATGAGAGTAT
* *
70056512 ACCAAAACATATGAGAG
1 ACCAAAAAACATGAGAG
70056529 GCTACTTGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.51, C:0.18, G:0.14, T:0.18
Consensus pattern (20 bp):
ACCAAAAAACATGAGAGTAT
Found at i:70057449 original size:10 final size:10
Alignment explanation
Indices: 70057434--70057480 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
70057424 TAACAAAATA
70057434 AGAAAATAGT
1 AGAAAATAGT
*
70057444 AGAAAATAAT
1 AGAAAATAGT
*
70057454 AGTGAAATAGT
1 AG-AAAATAGT
70057465 AGTAAAATAGT
1 AG-AAAATAGT
70057476 A-AAAA
1 AGAAAA
70057481 ACAAGAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 4 0.12
10 11 0.34
11 17 0.53
ACGTcount: A:0.62, C:0.00, G:0.17, T:0.21
Consensus pattern (10 bp):
AGAAAATAGT
Found at i:70057467 original size:11 final size:11
Alignment explanation
Indices: 70057436--70057476 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
70057426 ACAAAATAAG
70057436 AAAATAGTAG-
1 AAAATAGTAGT
*
70057446 AAAATAATAGT
1 AAAATAGTAGT
*
70057457 GAAATAGTAGT
1 AAAATAGTAGT
70057468 AAAATAGTA
1 AAAATAGTA
70057477 AAAAACAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.59, C:0.00, G:0.17, T:0.24
Consensus pattern (11 bp):
AAAATAGTAGT
Found at i:70061889 original size:16 final size:16
Alignment explanation
Indices: 70061868--70061899 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
70061858 TTTGACTGGG
*
70061868 AAAATATATATTGAAT
1 AAAATATAGATTGAAT
70061884 AAAATATAGATTGAAT
1 AAAATATAGATTGAAT
70061900 TTCAAAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (16 bp):
AAAATATAGATTGAAT
Found at i:70063829 original size:2 final size:2
Alignment explanation
Indices: 70063822--70063853 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
70063812 TTGGGTAATA
70063822 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70063854 CAAATATAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70064039 original size:30 final size:29
Alignment explanation
Indices: 70063983--70064040 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
70063973 TAAATATAAA
70063983 ATTATAAATTATCATGAATATACATTTATG
1 ATTATAAATTAT-ATGAATATACATTTATG
*
70064013 ATTATAAATT-TATTGAATTATTCATTTA
1 ATTATAAATTATA-TGAA-TATACATTTA
70064041 CCTTTTGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 1 0.04
29 5 0.20
30 19 0.76
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.48
Consensus pattern (29 bp):
ATTATAAATTATATGAATATACATTTATG
Found at i:70069834 original size:46 final size:46
Alignment explanation
Indices: 70069652--70069867 Score: 165
Period size: 46 Copynumber: 4.6 Consensus size: 46
70069642 ATTTGTGTGT
* * * *
70069652 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTA-TAA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCACCGGCTACGA-GACT-A
* ** * *
70069698 GATCCAGTGTAAGACCATGTCTGGGACATGGCATTGAC-AGTGAGACTA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCACCGGCTA-CGAGACTA
* ** * *
70069746 GAGCTAGTGTAAGACATGTCTATGACATGCATCTGCCT-CGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCA-CCGGCTACGAGAC-TA
70069793 -AGCCAGTGTAAGACATGTCTGGGACATGCACCGGCTACGAGA-TGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCACCGGCTACGAGACT-A
* *
70069838 TAGTCAGTGTAAGACCATGTCTGGGACATG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG
70069868 ACATCAGCAC
Statistics
Matches: 139, Mismatches: 19, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
44 1 0.01
45 5 0.04
46 64 0.46
47 47 0.34
48 20 0.14
49 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCACCGGCTACGAGACTA
Found at i:70071622 original size:18 final size:18
Alignment explanation
Indices: 70071599--70071636 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
70071589 TCAAGTGTTG
70071599 AAATGGTATAAGCTTACT
1 AAATGGTATAAGCTTACT
*
70071617 AAATGGTATGAGCTTACT
1 AAATGGTATAAGCTTACT
70071635 AA
1 AA
70071637 GTATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (18 bp):
AAATGGTATAAGCTTACT
Found at i:70072163 original size:25 final size:25
Alignment explanation
Indices: 70072114--70072169 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
70072104 GTATTGTGTA
*
70072114 TTGTGTGTACTATAAGTTATACGAG
1 TTGTGTGTACTATAACTTATACGAG
70072139 TTGTGTGTA-TATGAACTGTAT-CGAG
1 TTGTGTGTACTAT-AACT-TATACGAG
*
70072164 TGGTGT
1 TTGTGT
70072170 AAAAAATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 3 0.11
25 21 0.78
26 3 0.11
ACGTcount: A:0.23, C:0.07, G:0.29, T:0.41
Consensus pattern (25 bp):
TTGTGTGTACTATAACTTATACGAG
Found at i:70073216 original size:17 final size:17
Alignment explanation
Indices: 70073190--70073227 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
70073180 TTGAATAATT
70073190 AAAT-AAGAAGAAAATA
1 AAATAAAGAAGAAAATA
*
70073206 AAATAAAGAAGAACATA
1 AAATAAAGAAGAAAATA
70073223 AAATA
1 AAATA
70073228 GATAGATGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.74, C:0.03, G:0.11, T:0.13
Consensus pattern (17 bp):
AAATAAAGAAGAAAATA
Found at i:70084931 original size:12 final size:13
Alignment explanation
Indices: 70084914--70084945 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
70084904 ATAGCACATT
70084914 TCAAAAC-ATGCA
1 TCAAAACTATGCA
70084926 TCAAAACTATGCA
1 TCAAAACTATGCA
70084939 -CAAAACT
1 TCAAAACT
70084946 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:70092087 original size:12 final size:13
Alignment explanation
Indices: 70092070--70092101 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
70092060 ATAGCACATT
70092070 TCAAAAC-ATGCA
1 TCAAAACTATGCA
70092082 TCAAAACTATGCA
1 TCAAAACTATGCA
70092095 -CAAAACT
1 TCAAAACT
70092102 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:70092650 original size:42 final size:43
Alignment explanation
Indices: 70092550--70092662 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
70092540 GACAAGTACA
* **
70092550 ATGCCGACGTCCCAGAC-GTGGTCTTACATGTAATTCAGTATCG
1 ATGCCGATGTCCCAGACAG-GGTCTTACATGTAAAACAGTATCG
** *
70092593 ATGCCTCTGTCCCAGACAGGGTCTTATATG-AAAACAG-ATACG
1 ATGCCGATGTCCCAGACAGGGTCTTACATGTAAAACAGTAT-CG
*
70092635 ATGCCGATGTCCCAGACATGGTCTTACA
1 ATGCCGATGTCCCAGACAGGGTCTTACA
70092663 CTTAAATTTC
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
41 2 0.03
42 31 0.53
43 24 0.41
44 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACAGGGTCTTACATGTAAAACAGTATCG
Found at i:70095204 original size:30 final size:30
Alignment explanation
Indices: 70095168--70095236 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
70095158 CATATGGGTA
70095168 GACACACGGGCATGTGTCTAGGCCGTGTGT
1 GACACACGGGCATGTGTCTAGGCCGTGTGT
70095198 GACACACGGGCATGTGTCTAGGCCGTGTGT
1 GACACACGGGCATGTGTCTAGGCCGTGTGT
70095228 GACACACGG
1 GACACACGG
70095237 TCTGCCCCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.19, C:0.25, G:0.36, T:0.20
Consensus pattern (30 bp):
GACACACGGGCATGTGTCTAGGCCGTGTGT
Found at i:70097119 original size:15 final size:15
Alignment explanation
Indices: 70097094--70097134 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
70097084 TTGGGTCCAT
70097094 AATCATTAGTCTTCAA
1 AATC-TTAGTCTTCAA
70097110 AATCTTAGTCTTCAA
1 AATCTTAGTCTTCAA
70097125 AATCTTAGTC
1 AATCTTAGTC
70097135 CCTTTAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (15 bp):
AATCTTAGTCTTCAA
Found at i:70101594 original size:23 final size:23
Alignment explanation
Indices: 70101568--70101654 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
70101558 GCTTTATTGA
* *
70101568 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
70101591 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
70101612 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
70101634 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
70101655 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:70107428 original size:21 final size:22
Alignment explanation
Indices: 70107402--70107443 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
70107392 TGTCCTTGTT
70107402 TAAAAGTTATG-TGTGGATGTG
1 TAAAAGTTATGATGTGGATGTG
*
70107423 TAAAAGTTATGATGTTGATGT
1 TAAAAGTTATGATGTGGATGT
70107444 AGTGTCTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.31, C:0.00, G:0.29, T:0.40
Consensus pattern (22 bp):
TAAAAGTTATGATGTGGATGTG
Found at i:70109926 original size:46 final size:44
Alignment explanation
Indices: 70109826--70109952 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 44
70109816 ATATCCGTGT
**
70109826 CGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACATCTCGTAGC
* *
70109872 CAATGCATGTCCCAGACATGTATTACACTGGCTTACATCTCG-AGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC--ACATCTCGTA-GC
*
70109918 CGATGCATGTCCTAGACATGTCTTACACTGGCACA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACA
70109953 CAAATAACCT
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
44 13 0.18
45 15 0.21
46 43 0.61
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACATCTCGTAGC
Found at i:70134330 original size:8 final size:8
Alignment explanation
Indices: 70134317--70134363 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
70134307 TATATTTCCT
70134317 TTTTTTTC
1 TTTTTTTC
70134325 TTTTTTTTC
1 -TTTTTTTC
*
70134334 TTTCTTTC
1 TTTTTTTC
*
70134342 TTTCTTTC
1 TTTTTTTC
70134350 TTTTTTT-
1 TTTTTTTC
70134357 TTTTTTT
1 TTTTTTT
70134364 TTTGTTGTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
7 7 0.19
8 21 0.58
9 8 0.22
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTC
Found at i:70139856 original size:44 final size:44
Alignment explanation
Indices: 70139793--70139880 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
70139783 TGATAAAATA
70139793 AAATCCTAAGTGTCTAGCCTTCATCTTTTTCACCTATTCTTTCT
1 AAATCCTAAGTGTCTAGCCTTCATCTTTTTCACCTATTCTTTCT
70139837 AAATCCTAAGTGTCTAGCCTTCATCTTTTTCACCTATTCTTTCT
1 AAATCCTAAGTGTCTAGCCTTCATCTTTTTCACCTATTCTTTCT
70139881 TTCTAACCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.45
Consensus pattern (44 bp):
AAATCCTAAGTGTCTAGCCTTCATCTTTTTCACCTATTCTTTCT
Found at i:70140846 original size:46 final size:47
Alignment explanation
Indices: 70140697--70140920 Score: 180
Period size: 46 Copynumber: 4.8 Consensus size: 47
70140687 TCACTTGTAT
* * * *
70140697 GAGCTAGTGTAAGACATGTCTTGGACATG-CATCGGCCA-C-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGACATCGG-CATCGA-GACGA
* *
70140743 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACATGACATCGGCATCGAGACGA
* * * * *
70140791 GTGCTAGTGTAAGACATGTCTGGGAC-TTACTTCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGACATCGGCATCGAGACG-A
70140838 -AGCCAGTGTAAGACATGTCTGGGACATG-CATCGGC-TAC-A-A-GA
1 GAGCCAGTGTAAGACATGTCTGGGACATGACATCGGCAT-CGAGACGA
* * * *
70140880 TGTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAT
1 -GAGCCAGTGTAAGA-CATGTCTGGGACATGACATCGGCAT
70140921 AAATATGCTA
Statistics
Matches: 147, Mismatches: 19, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 12 0.08
45 17 0.12
46 63 0.43
47 31 0.21
48 21 0.14
49 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGACATCGGCATCGAGACGA
Found at i:70164033 original size:38 final size:38
Alignment explanation
Indices: 70163991--70164078 Score: 122
Period size: 40 Copynumber: 2.3 Consensus size: 38
70163981 GTCCAACCCA
* *
70163991 ACACACCATGTGGGGATAAAATTGACCCACCCATCCCT
1 ACACACCATATGGGGATAAAATTGACCCACCCAGCCCT
* *
70164029 ACACACCAAATATGGGGATAAAATTGACCCATCTAGCCCT
1 ACACACC--ATATGGGGATAAAATTGACCCACCCAGCCCT
70164069 ACACACCATA
1 ACACACCATA
70164079 AAGTACCCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
38 10 0.23
40 34 0.77
ACGTcount: A:0.36, C:0.32, G:0.14, T:0.18
Consensus pattern (38 bp):
ACACACCATATGGGGATAAAATTGACCCACCCAGCCCT
Found at i:70164048 original size:40 final size:40
Alignment explanation
Indices: 70164001--70164076 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
70163991 ACACACCATG
*
70164001 TGGGGATAAAATTGACCCACCCATCCCTACACACCAAATA
1 TGGGGATAAAATTGACCCACCCAGCCCTACACACCAAATA
* *
70164041 TGGGGATAAAATTGACCCATCTAGCCCTACACACCA
1 TGGGGATAAAATTGACCCACCCAGCCCTACACACCA
70164077 TAAAGTACCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.36, C:0.32, G:0.14, T:0.18
Consensus pattern (40 bp):
TGGGGATAAAATTGACCCACCCAGCCCTACACACCAAATA
Done.