Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 229 of 332
Found at i:75993665 original size:18 final size:18
Alignment explanation
Indices: 75993642--75993701 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
75993632 AGGAACTTGT
75993642 ATGTGAGCATTAATATGA
1 ATGTGAGCATTAATATGA
** *
75993660 ATGTGA-CTAGGAACT-TGT
1 ATGTGAGC-ATTAA-TATGA
75993678 ATGTGAGCATTAATATGA
1 ATGTGAGCATTAATATGA
75993696 ATGTGA
1 ATGTGA
75993702 CTGGGCCTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
17 2 0.06
18 28 0.88
19 2 0.06
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (18 bp):
ATGTGAGCATTAATATGA
Found at i:75993672 original size:36 final size:36
Alignment explanation
Indices: 75993625--75993703 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
75993615 TGTTGATGCT
75993625 ATGTGA-TAGGAACTTGTATGTGAGCATTAATATGA
1 ATGTGACTAGGAACTTGTATGTGAGCATTAATATGA
75993660 ATGTGACTAGGAACTTGTATGTGAGCATTAATATGA
1 ATGTGACTAGGAACTTGTATGTGAGCATTAATATGA
75993696 ATGTGACT
1 ATGTGACT
75993704 GGGCCTAACG
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 6 0.14
36 37 0.86
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.34
Consensus pattern (36 bp):
ATGTGACTAGGAACTTGTATGTGAGCATTAATATGA
Found at i:75993771 original size:28 final size:28
Alignment explanation
Indices: 75993690--75993775 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
75993680 GTGAGCATTA
* * *
75993690 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCTTAATGGGCC
*
75993718 ATATAAATGTGATTTGGGCTTAATGGGCC
1 ATATGAATGTGA-TTGGGCTTAATGGGCC
*
75993747 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCTTAATGGGCC
75993775 A
1 A
75993776 GATACATGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 28 0.55
29 23 0.45
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCTTAATGGGCC
Found at i:75994645 original size:18 final size:18
Alignment explanation
Indices: 75994622--75994656 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
75994612 TTTCATTATG
75994622 TTATTATTATTTGCATTA
1 TTATTATTATTTGCATTA
*
75994640 TTATTATTATTTTCATT
1 TTATTATTATTTGCATT
75994657 GTAAACGAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.66
Consensus pattern (18 bp):
TTATTATTATTTGCATTA
Found at i:76000242 original size:26 final size:26
Alignment explanation
Indices: 76000206--76000257 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
76000196 CACAACATAG
*
76000206 CCATAATCTCTATCATTGCGGCTTAA
1 CCATAATCTCTATCATTGCGACTTAA
76000232 CCATAATCTCTATCATTGCGACTTAA
1 CCATAATCTCTATCATTGCGACTTAA
76000258 ACCGTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.35
Consensus pattern (26 bp):
CCATAATCTCTATCATTGCGACTTAA
Found at i:76000446 original size:49 final size:49
Alignment explanation
Indices: 76000381--76000692 Score: 199
Period size: 49 Copynumber: 6.6 Consensus size: 49
76000371 ATCAAAGTCG
* *
76000381 ATGCCATGTCCCAGACAAGTCTTACACTGACTTTCATATATCGAG-GCCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATC-AGTGCCA
* * * * * * *
76000430 ATGTCGTGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCA
* * **
76000479 ATGCCATGTCCCAGACAGGTCTTACACTGA----CACATATCA-AGCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCA
* * * *
76000523 ATGCCATGTCCCAGAAAGGTCTTACACT-AGCT-TGTATATCTCGAG-GCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTCT-CATATATC-AGTGCCA
* * * * *
76000572 ATG-CATGTCCCAGACATGTCTTACACT-AGCTCTCGTCTA--AATGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTCTCATATATCAGTGCCA
* * * *
76000618 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATA-AT--GTGGTCG
1 ATGCCATGTCCCAGACA-GGTCTTACACTGACTCTCATATATCAGT-GCCA
*
76000666 ATG-CATGTCCCAGACATGTCTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
76000693 AGCACGCATA
Statistics
Matches: 209, Mismatches: 39, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 29 0.14
45 8 0.04
46 16 0.08
47 28 0.13
48 56 0.27
49 71 0.34
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCA
Found at i:76000532 original size:98 final size:96
Alignment explanation
Indices: 76000339--76000515 Score: 241
Period size: 98 Copynumber: 1.8 Consensus size: 96
76000329 GTCGACGTCA
*
76000339 TGTCCTAGACATGGTCTTATACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACAAGTCTT
1 TGTCCTAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACAAGTCTT
* *
76000404 ACACTGACTTTCATATATCGAGGCCAATGTCG
66 ACACTGAC-TACATATAGCGAGGCCAATGTCG
** ** *
76000436 TGTCCTAGACA-GGTCTTACACTGGCTCTCATCTATCAGTGTCGATGCCATGTCCCAGACAGGTC
1 TGTCCTAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGTCGATGCCATGTCCCAGACAAGTC
76000500 TTACACTGAC-ACATAT
64 TTACACTGACTACATAT
76000516 CAAGCTGATG
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
96 21 0.30
97 12 0.17
98 38 0.54
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (96 bp):
TGTCCTAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACAAGTCTT
ACACTGACTACATATAGCGAGGCCAATGTCG
Found at i:76000548 original size:142 final size:140
Alignment explanation
Indices: 76000337--76000644 Score: 374
Period size: 142 Copynumber: 2.2 Consensus size: 140
76000327 ATGTCGACGT
* * * *
76000337 CATGTCCTAGACATGGTCTTATACTGGCTAGCACATCAAAG-TCGATGCCATGTCCCAGACAAGT
1 CATGTCCCAGACATGGTCTTACACTGAC-A-CATATC-AAGCT-GATGCCATGTCCCAGACAAGT
* * *
76000401 CTTACACT-GACTT-TCATATATCGAGGCCAATGTCGTGTCCTAGACAGGTCTTACACTGGCTCT
62 CTTACACTAG-CTTGT-ATATATCGAGGCCAATG-CATGTCCCAGACAGGTCTTACACTAGCTCT
* *
76000464 CATCTATCAGTGTCGATGC
124 CATCTA--AATGCCGATGC
76000483 CATGTCCCAGACA-GGTCTTACACTGACACATATCAAGCTGATGCCATGTCCCAGA-AAGGTCTT
1 CATGTCCCAGACATGGTCTTACACTGACACATATCAAGCTGATGCCATGTCCCAGACAA-GTCTT
* * * *
76000546 ACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTA
65 ACACTAGCTTGTATATATCGAGGCCAATGCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTA
76000611 AATGCCGATGC
130 AATGCCGATGC
76000622 CATGTCCCAGACATGGTCTTACA
1 CATGTCCCAGACATGGTCTTACA
76000645 TTGGCTCTCA
Statistics
Matches: 144, Mismatches: 13, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
139 22 0.15
140 9 0.06
141 33 0.23
142 47 0.33
143 8 0.06
144 1 0.01
145 12 0.08
146 12 0.08
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTGACACATATCAAGCTGATGCCATGTCCCAGACAAGTCTTA
CACTAGCTTGTATATATCGAGGCCAATGCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTAA
ATGCCGATGC
Found at i:76000673 original size:142 final size:141
Alignment explanation
Indices: 76000337--76000695 Score: 365
Period size: 142 Copynumber: 2.5 Consensus size: 141
76000327 ATGTCGACGT
* * * * *
76000337 CATGTCCTAGACATGGTCTTATACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACAAGTC
1 CATGTCCCAGACA-GGTCTTACACTGAC-A-CATATCAAGGTCGATGCCATGTCCCAGA-AAGTC
* * *
76000402 TTACACT-GACTTTCATATATCGAGGCCAATGTCGTGTCCTAGACAGGTCTTACACTGGCTCTCA
62 TTACACTAG-CTTTCATATATCGAGGCCAATGTCATGTCCCAGACAGGTCTTACACTAGCTCTCA
* *
76000466 TCTATCAGTGTCGATGC
126 TCTA-CAATGCCGATGC
*
76000483 CATGTCCCAGACAGGTCTTACACTGACACATATCAAGCT-GATGCCATGTCCCAGAAAGGTCTTA
1 CATGTCCCAGACAGGTCTTACACTGACACATATCAAGGTCGATGCCATGTCCCAGAAA-GTCTTA
* * * *
76000547 CACTAGCTTGT-ATATCTCGAGGCCGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
65 CACTAGCTT-TCATATATCGAGGCCAATGTCATGTCCCAGACAGGTCTTACACTAGCTCTCATCT
76000610 A-AATGCCGATGC
129 ACAATGCCGATGC
* * * *
76000622 CATGTCCCAGACATGGTCTTACATTGGCTC-TCAT-AATGTGGTCGATG-CATGTCCCAGACATG
1 CATGTCCCAGACA-GGTCTTACACTGACACAT-ATCAA---GGTCGATGCCATGTCCCAGA-AAG
76000684 TCTTACACTAGC
60 TCTTACACTAGC
76000696 ACGCATATCA
Statistics
Matches: 183, Mismatches: 20, Indels: 24
0.81 0.09 0.11
Matches are distributed among these distances:
139 25 0.14
140 15 0.08
141 33 0.18
142 70 0.38
143 15 0.08
144 1 0.01
145 12 0.07
146 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (141 bp):
CATGTCCCAGACAGGTCTTACACTGACACATATCAAGGTCGATGCCATGTCCCAGAAAGTCTTAC
ACTAGCTTTCATATATCGAGGCCAATGTCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTAC
AATGCCGATGC
Found at i:76000679 original size:94 final size:93
Alignment explanation
Indices: 76000436--76000703 Score: 285
Period size: 94 Copynumber: 2.9 Consensus size: 93
76000426 GCCAATGTCG
* * *
76000436 TGTCCTAGACAGGTCTTACACTGGCTCTCATCTATCAGT-GTCGATGCCATGTCCCAGACAGGTC
1 TGTCCCAGACAGGTCTTACACTGGCTCTCAT-AATC-GTGGTCGATG-CATGTCCCAGACATGTC
* *
76000500 TTACACT-G-ACACATATCAAGCTGATGCCA
63 TTACACTAGCACACATATAAAGCCGATGCCA
* * * * * *
76000529 TGTCCCAGAAAGGTCTTACACTAGCT-TGTATATCTCGAGGCCGATGCATGTCCCAGACATGTCT
1 TGTCCCAGACAGGTCTTACACTGGCTCT-CATA-ATCGTGGTCGATGCATGTCCCAGACATGTCT
* * * *
76000593 TACACTAGCTCTCGTCTAAATGCCGATGCCA
64 TACACTAGCACACATATAAA-GCCGATGCCA
*
76000624 TGTCCCAGACATGGTCTTACATTGGCTCTCATAAT-GTGGTCGATGCATGTCCCAGACATGTCTT
1 TGTCCCAGACA-GGTCTTACACTGGCTCTCATAATCGTGGTCGATGCATGTCCCAGACATGTCTT
*
76000688 ACACTAGCACGCATAT
65 ACACTAGCACACATAT
76000704 CACCTAAATG
Statistics
Matches: 141, Mismatches: 26, Indels: 15
0.77 0.14 0.08
Matches are distributed among these distances:
92 25 0.18
93 34 0.24
94 45 0.32
95 20 0.14
96 16 0.11
97 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (93 bp):
TGTCCCAGACAGGTCTTACACTGGCTCTCATAATCGTGGTCGATGCATGTCCCAGACATGTCTTA
CACTAGCACACATATAAAGCCGATGCCA
Found at i:76011603 original size:2 final size:2
Alignment explanation
Indices: 76011596--76011623 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
76011586 AATTATTTTA
76011596 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
76011624 TTTGTACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76013754 original size:5 final size:5
Alignment explanation
Indices: 76013744--76013803 Score: 120
Period size: 5 Copynumber: 12.0 Consensus size: 5
76013734 ATTATGAAGT
76013744 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
76013794 TAATA TAATA
1 TAATA TAATA
76013804 AAACATAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 55 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:76014091 original size:21 final size:21
Alignment explanation
Indices: 76014066--76014141 Score: 84
Period size: 21 Copynumber: 3.6 Consensus size: 21
76014056 ATGTTGAAAT
76014066 AATTAA-AGAATTAGGGGGTTA
1 AATTAACAGAATTA-GGGGTTA
****
76014087 AATTAACAGAATTTCAAGTTA
1 AATTAACAGAATTAGGGGTTA
76014108 GAATTAA-AGAATTAGGGGTTA
1 -AATTAACAGAATTAGGGGTTA
76014129 AATTAACAGAATT
1 AATTAACAGAATT
76014142 TCAAGTTAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 6 0.14
21 26 0.59
22 12 0.27
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (21 bp):
AATTAACAGAATTAGGGGTTA
Found at i:76014138 original size:42 final size:43
Alignment explanation
Indices: 76014066--76014156 Score: 175
Period size: 42 Copynumber: 2.1 Consensus size: 43
76014056 ATGTTGAAAT
76014066 AATTAAAGAATTAGGGGGTTAAATTAACAGAATTTCAAGTTAG
1 AATTAAAGAATTAGGGGGTTAAATTAACAGAATTTCAAGTTAG
76014109 AATTAAAGAATTA-GGGGTTAAATTAACAGAATTTCAAGTTAG
1 AATTAAAGAATTAGGGGGTTAAATTAACAGAATTTCAAGTTAG
76014151 AATTAA
1 AATTAA
76014157 GAAAAGGATT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 35 0.73
43 13 0.27
ACGTcount: A:0.46, C:0.04, G:0.19, T:0.31
Consensus pattern (43 bp):
AATTAAAGAATTAGGGGGTTAAATTAACAGAATTTCAAGTTAG
Found at i:76014149 original size:21 final size:22
Alignment explanation
Indices: 76014083--76014156 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
76014073 GAATTAGGGG
76014083 GTTA-AATTAACAGAATTTCAA
1 GTTAGAATTAACAGAATTTCAA
****
76014104 GTTAGAATTAA-AGAATTAGGG
1 GTTAGAATTAACAGAATTTCAA
76014125 GTTA-AATTAACAGAATTTCAA
1 GTTAGAATTAACAGAATTTCAA
76014146 GTTAGAATTAA
1 GTTAGAATTAA
76014157 GAAAAGGATT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
20 6 0.14
21 24 0.57
22 12 0.29
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (22 bp):
GTTAGAATTAACAGAATTTCAA
Found at i:76016387 original size:42 final size:42
Alignment explanation
Indices: 76016333--76016473 Score: 122
Period size: 42 Copynumber: 3.4 Consensus size: 42
76016323 TAAGATTATA
* * *
76016333 TCTGGGATATGGCGTTGATATGAGATTTCGTGTAAGACCACG
1 TCTGGGACATGGCGTCGATATGAGATTTCATGTAAGACCACG
* * * * **
76016375 TCTGAGACATGGCAG-CAAAATGAGATTTCATATAAGACCATA
1 TCTGGGACATGGC-GTCGATATGAGATTTCATGTAAGACCACG
* ** * **
76016417 TCTGGGATATGGCAACGATGTGAGATCCCATGTAAGACCACG
1 TCTGGGACATGGCGTCGATATGAGATTTCATGTAAGACCACG
*
76016459 TTTGGGACATGGCGT
1 TCTGGGACATGGCGT
76016474 TGACATCTTA
Statistics
Matches: 73, Mismatches: 24, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
42 72 0.99
43 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (42 bp):
TCTGGGACATGGCGTCGATATGAGATTTCATGTAAGACCACG
Found at i:76023955 original size:42 final size:42
Alignment explanation
Indices: 76023836--76023943 Score: 144
Period size: 42 Copynumber: 2.6 Consensus size: 42
76023826 TGTTATCATG
* *
76023836 TAATACCATATCTGGGATATGGCGTTGATATGAGATTTCGTG
1 TAATACCATATCTGGGATATGGCATTGATATGAGATTTCGTA
* * ** * *
76023878 TAAGACAACGTCTGGGACATGGCATTGAAATGAGATTTCGTA
1 TAATACCATATCTGGGATATGGCATTGATATGAGATTTCGTA
76023920 TAATACCATATCTGGGATATGGCA
1 TAATACCATATCTGGGATATGGCA
76023944 ACGATGTGAG
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (42 bp):
TAATACCATATCTGGGATATGGCATTGATATGAGATTTCGTA
Found at i:76026164 original size:13 final size:13
Alignment explanation
Indices: 76026146--76026172 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
76026136 GAAGCAATCG
76026146 CACACGGGCGTGT
1 CACACGGGCGTGT
76026159 CACACGGGCGTGT
1 CACACGGGCGTGT
76026172 C
1 C
76026173 CCTGTCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:76038730 original size:17 final size:17
Alignment explanation
Indices: 76038705--76038737 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
76038695 AAGCCATGGT
76038705 TTTTACTTTT-TGTCAG
1 TTTTACTTTTGTGTCAG
76038721 TTTTAGCTTTTGTGTCA
1 TTTTA-CTTTTGTGTCA
76038738 TTCATCGGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.12, C:0.12, G:0.15, T:0.61
Consensus pattern (17 bp):
TTTTACTTTTGTGTCAG
Found at i:76041470 original size:17 final size:19
Alignment explanation
Indices: 76041437--76041472 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
76041427 TTAAATTACA
76041437 AATATATATGTATAATAAT
1 AATATATATGTATAATAAT
76041456 AATATATAT-TA-AATAAT
1 AATATATATGTATAATAAT
76041473 TTAAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
AATATATATGTATAATAAT
Found at i:76047148 original size:12 final size:12
Alignment explanation
Indices: 76047133--76047163 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
76047123 AAGTGGTGAG
76047133 AAGAGAAAAAAA
1 AAGAGAAAAAAA
*
76047145 AAGAAAAAAAAA
1 AAGAGAAAAAAA
76047157 AAGAGAA
1 AAGAGAA
76047164 GAGATTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAGAGAAAAAAA
Found at i:76049270 original size:31 final size:31
Alignment explanation
Indices: 76049235--76049296 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
76049225 ATTAAAGATG
76049235 ATAATTTGAATATGTGATTTAAATAAATAGT
1 ATAATTTGAATATGTGATTTAAATAAATAGT
76049266 ATAATTTGAATATGTGATTTAAATAAATAGT
1 ATAATTTGAATATGTGATTTAAATAAATAGT
76049297 TTATTTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (31 bp):
ATAATTTGAATATGTGATTTAAATAAATAGT
Found at i:76054106 original size:24 final size:24
Alignment explanation
Indices: 76054074--76054128 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
76054064 TCTTCTATTT
76054074 AAACTCTGTTTATTTGTTTCAATC
1 AAACTCTGTTTATTTGTTTCAATC
*
76054098 AAACTCTGTTTATTTGTTTCAATT
1 AAACTCTGTTTATTTGTTTCAATC
76054122 AAACTCT
1 AAACTCT
76054129 ACTTAGTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.49
Consensus pattern (24 bp):
AAACTCTGTTTATTTGTTTCAATC
Found at i:76059080 original size:18 final size:18
Alignment explanation
Indices: 76059062--76059096 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
76059052 TTAGATATAT
*
76059062 TTATAA-AATTTTTATTA
1 TTATAATAATTATTATTA
76059079 TTATAATAATTATTATTA
1 TTATAATAATTATTATTA
76059097 GATAGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATAATAATTATTATTA
Found at i:76059971 original size:27 final size:29
Alignment explanation
Indices: 76059912--76059985 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 29
76059902 GTTTTGATAT
* * *
76059912 TTTCTCTTCTTCCA-TTTTCTTTCCTTCTTC
1 TTTCTCTTCTT--ATTTTTCTCTCCATCTAC
76059942 TTT-TCTT-TTATTTTTCTCTCCATCTAC
1 TTTCTCTTCTTATTTTTCTCTCCATCTAC
*
76059969 TTTCTCTTCTTCTTTTT
1 TTTCTCTTCTTATTTTT
76059986 ATTTTTTCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
26 1 0.03
27 16 0.43
28 6 0.16
29 11 0.30
30 3 0.08
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.66
Consensus pattern (29 bp):
TTTCTCTTCTTATTTTTCTCTCCATCTAC
Found at i:76060790 original size:8 final size:8
Alignment explanation
Indices: 76060771--76060810 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
76060761 CTAGATCGGT
*
76060771 AAAAGTCG
1 AAAAGCCG
*
76060779 AAAAGCCA
1 AAAAGCCG
*
76060787 AAAAGTCG
1 AAAAGCCG
76060795 AAAAGCCG
1 AAAAGCCG
76060803 AAAAGCCG
1 AAAAGCCG
76060811 GCATTTGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.53, C:0.20, G:0.23, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:76060792 original size:16 final size:16
Alignment explanation
Indices: 76060771--76060807 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
76060761 CTAGATCGGT
76060771 AAAAGTCGAAAAGCCA
1 AAAAGTCGAAAAGCCA
*
76060787 AAAAGTCGAAAAGCCG
1 AAAAGTCGAAAAGCCA
76060803 AAAAG
1 AAAAG
76060808 CCGGCATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.57, C:0.16, G:0.22, T:0.05
Consensus pattern (16 bp):
AAAAGTCGAAAAGCCA
Found at i:76060957 original size:19 final size:19
Alignment explanation
Indices: 76060933--76060976 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
76060923 TAAGGCTTAA
76060933 TGGGCCGAAAACGGGTTAG
1 TGGGCCGAAAACGGGTTAG
76060952 TGGGCCGAAAACGGGTTAG
1 TGGGCCGAAAACGGGTTAG
76060971 TGGGCC
1 TGGGCC
76060977 AACGGGCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.23, C:0.18, G:0.43, T:0.16
Consensus pattern (19 bp):
TGGGCCGAAAACGGGTTAG
Found at i:76061109 original size:27 final size:27
Alignment explanation
Indices: 76061077--76061137 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
76061067 TTTATTAAAC
* *
76061077 TACCCCTAAGTATG-AAAATTACCATTT
1 TACCCCTAAG-ATGCAAAATGACCATTA
*
76061104 TACCCCT-AGGTGCAAAATGACCATTA
1 TACCCCTAAGATGCAAAATGACCATTA
76061130 TACCCCTA
1 TACCCCTA
76061138 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (27 bp):
TACCCCTAAGATGCAAAATGACCATTA
Found at i:76061482 original size:20 final size:21
Alignment explanation
Indices: 76061439--76061484 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
76061429 ACTGTTCTGT
76061439 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
76061459 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
76061478 TATGGGC
1 TATGGGC
76061485 AAGGCCCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:76065405 original size:2 final size:2
Alignment explanation
Indices: 76065398--76065423 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
76065388 ATTTCAATGT
76065398 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
76065424 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:76069225 original size:11 final size:10
Alignment explanation
Indices: 76069177--76069226 Score: 64
Period size: 11 Copynumber: 4.6 Consensus size: 10
76069167 CACAATAGTC
76069177 CTCTCACAATT
1 CTCTCA-AATT
76069188 CTCTCTAAATT
1 CTCTC-AAATT
76069199 CTCTCCAAATT
1 CTCT-CAAATT
76069210 CTCTCAAATTT
1 CTCTCAAA-TT
76069221 CTCTCA
1 CTCTCA
76069227 GTTTTTGTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 4 0.11
11 30 0.83
12 2 0.06
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (10 bp):
CTCTCAAATT
Found at i:76069244 original size:21 final size:21
Alignment explanation
Indices: 76069220--76069259 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
76069210 CTCTCAAATT
*
76069220 TCTCTC-AGTTTTTGTCAAAGC
1 TCTCTCTAATTTTTG-CAAAGC
76069241 TCTCTCTAATTTTTGCAAA
1 TCTCTCTAATTTTTGCAAA
76069260 AAAACTCTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.45
Consensus pattern (21 bp):
TCTCTCTAATTTTTGCAAAGC
Found at i:76070304 original size:7 final size:7
Alignment explanation
Indices: 76070292--76070322 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
76070282 GTCGTTTCGC
76070292 ATTTAGT
1 ATTTAGT
76070299 ATTTAGT
1 ATTTAGT
*
76070306 ATTTATT
1 ATTTAGT
76070313 ATTTAGT
1 ATTTAGT
76070320 ATT
1 ATT
76070323 ACCTATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (7 bp):
ATTTAGT
Found at i:76070962 original size:18 final size:18
Alignment explanation
Indices: 76070939--76070982 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
76070929 ATGCCATGTG
*
76070939 TGTATCCTAGCCCTTATA
1 TGTATCCTAACCCTTATA
*
76070957 TGTATCCTAACCCTTTTA
1 TGTATCCTAACCCTTATA
*
76070975 TGTTTCCT
1 TGTATCCT
76070983 TTTCCCAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.45
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:76071248 original size:21 final size:21
Alignment explanation
Indices: 76071224--76071270 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
76071214 CAACACCCAC
76071224 AACCAT-ATCCCCTACCGAAGG
1 AACCATAATCCCC-ACCGAAGG
* *
76071245 AACCATAATCTCCACCGGAGG
1 AACCATAATCCCCACCGAAGG
76071266 AACCA
1 AACCA
76071271 CAACCTTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.36, C:0.36, G:0.15, T:0.13
Consensus pattern (21 bp):
AACCATAATCCCCACCGAAGG
Found at i:76074962 original size:6 final size:7
Alignment explanation
Indices: 76074910--76074942 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
76074900 TAAAACCTAA
76074910 AAACCCT
1 AAACCCT
76074917 AAACCACT
1 AAACC-CT
76074925 AAACCCT
1 AAACCCT
76074932 -AACCCT
1 AAACCCT
76074938 AAACC
1 AAACC
76074943 AATCAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.45, C:0.42, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:76075649 original size:44 final size:45
Alignment explanation
Indices: 76075590--76075686 Score: 112
Period size: 46 Copynumber: 2.2 Consensus size: 45
76075580 CTATTATAAC
* * *
76075590 ATTT-ATTCTATTCAACCAAATATAA-GAA-TA-TTATTACAGTTCT
1 ATTTCATTCCATTCAA-CAAA-ATAATGAATTACTAATTACAATTCT
76075633 ATTTCATTCCATTCAACAAAATAATTGAATTACTAATTACAATTCT
1 ATTTCATTCCATTCAACAAAATAA-TGAATTACTAATTACAATTCT
76075679 ATTTCATT
1 ATTTCATT
76075687 ATAGTCTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
42 4 0.09
43 8 0.17
44 13 0.28
45 2 0.04
46 19 0.41
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.42
Consensus pattern (45 bp):
ATTTCATTCCATTCAACAAAATAATGAATTACTAATTACAATTCT
Found at i:76080366 original size:31 final size:29
Alignment explanation
Indices: 76080297--76080370 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
76080287 ACAAAATAAT
**
76080297 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGGCA
*
76080326 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAACGTAACAT--GGCA
*
76080357 AACAAAAGTGACTA
1 AACATAAGTGACTA
76080371 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGCA
Found at i:76083957 original size:24 final size:25
Alignment explanation
Indices: 76083930--76083988 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
76083920 AGTTTTAGCA
* ** *
76083930 TTTATTTATAATTAA-TTATTTAAT
1 TTTATTTATAATAAAGTTATCAAAA
76083954 TTTATTTA-AATAAAGTTATCAAAA
1 TTTATTTATAATAAAGTTATCAAAA
76083978 TTTATTTATAA
1 TTTATTTATAA
76083989 GTCTTCTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 5 0.17
24 22 0.76
25 2 0.07
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
TTTATTTATAATAAAGTTATCAAAA
Found at i:76084080 original size:16 final size:16
Alignment explanation
Indices: 76084059--76084090 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
76084049 TTTATATCCC
76084059 GAGAATATATTAAATA
1 GAGAATATATTAAATA
76084075 GAGAATATATTAAATA
1 GAGAATATATTAAATA
76084091 TTCTCTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (16 bp):
GAGAATATATTAAATA
Found at i:76084637 original size:17 final size:17
Alignment explanation
Indices: 76084615--76084669 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
76084605 CAAGTTGGAA
76084615 TTAAGAATTTATAATAT
1 TTAAGAATTTATAATAT
* *
76084632 TTAAGATTTTTCTAAT-T
1 TTAAGA-ATTTATAATAT
*
76084649 CTAA-AATTTATAATAT
1 TTAAGAATTTATAATAT
76084665 TTAAG
1 TTAAG
76084670 TTATAAAGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
15 7 0.24
16 5 0.17
17 10 0.34
18 7 0.24
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (17 bp):
TTAAGAATTTATAATAT
Found at i:76084947 original size:3 final size:3
Alignment explanation
Indices: 76084941--76084989 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
76084931 TTTTGATGAT
*
76084941 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
76084989 A
1 A
76084990 GAGTTTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:76085691 original size:3 final size:3
Alignment explanation
Indices: 76085677--76085707 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
76085667 TTTTCACAAT
*
76085677 ATG ATA ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
76085708 CTGAATCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:76094991 original size:27 final size:27
Alignment explanation
Indices: 76094970--76095026 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
76094960 GGAGGAAATG
*
76094970 ATTTCCCACATGAAGATTGAGGAAGCCA
1 ATTT-CCACATGAAGATTGAGGAAGACA
* *
76094998 ATTTCTACATGAAGATTGAGGAAGGCA
1 ATTTCCACATGAAGATTGAGGAAGACA
76095025 AT
1 AT
76095027 CATCTTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (27 bp):
ATTTCCACATGAAGATTGAGGAAGACA
Found at i:76095899 original size:87 final size:87
Alignment explanation
Indices: 76095791--76096044 Score: 321
Period size: 87 Copynumber: 2.9 Consensus size: 87
76095781 TACATGCATA
* * * * *
76095791 AGGTTGAG-TTCTTACTCTTAATGAATTCATATCACAGGGTTTGGATGGTCCTATTGACACGGAC
1 AGGTTGAGTTTCTTACTCTTAATGAGTTCATATCCCAGAGTTTGGGTGGTCCTATTGAGACGGAC
* ** ** **
76095855 ATGATGAATTCATGATTATGTG
66 TTGATGAATTCACCAACACATG
*
76095877 AGGTTGAGTTTCTTACTCTTAATGAGTTTATATCCCAGAGTTTGGGTGGTCCTATTGAGACGGAC
1 AGGTTGAGTTTCTTACTCTTAATGAGTTCATATCCCAGAGTTTGGGTGGTCCTATTGAGACGGAC
*
76095942 TTGATGAATTAACCAACACATG
66 TTGATGAATTCACCAACACATG
** * * **
76095964 AGGTTGAGTTTCTTACTCCAAATGAGTTCATATCCCAAAGTTTGGGTGGTCTTATTGAGATAGAC
1 AGGTTGAGTTTCTTACTCTTAATGAGTTCATATCCCAGAGTTTGGGTGGTCCTATTGAGACGGAC
76096029 TTGATGAATTCACCAA
66 TTGATGAATTCACCAA
76096045 ACTTAAATTT
Statistics
Matches: 145, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
86 8 0.06
87 137 0.94
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.35
Consensus pattern (87 bp):
AGGTTGAGTTTCTTACTCTTAATGAGTTCATATCCCAGAGTTTGGGTGGTCCTATTGAGACGGAC
TTGATGAATTCACCAACACATG
Found at i:76103473 original size:20 final size:20
Alignment explanation
Indices: 76103444--76103490 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
76103434 ATTTTGATAA
*
76103444 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
76103464 ACATGATATGTGTGATATGC
1 ACATGATATGTATGATATGC
76103484 ACATGAT
1 ACATGAT
76103491 GTAATCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:76103624 original size:24 final size:23
Alignment explanation
Indices: 76103541--76103657 Score: 164
Period size: 23 Copynumber: 5.0 Consensus size: 23
76103531 AGGAAGTGAA
76103541 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
76103564 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
76103587 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
76103610 AAAAGGGATTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
*
76103634 CAAAGGGGC-TAAGCCTCCAGTTAT
1 -AAA-GGGCTTATGCC-CCAGTTAT
76103658 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
23 46 0.54
24 28 0.33
25 11 0.13
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:76103886 original size:31 final size:31
Alignment explanation
Indices: 76103851--76103914 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
76103841 CGTTTACAGT
76103851 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
76103882 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
76103913 AA
1 AA
76103915 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:76111139 original size:36 final size:36
Alignment explanation
Indices: 76111091--76111162 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
76111081 ATTAGGAACA
*
76111091 TTGGAAATGGTAAGAACGTCATTTTTGGCATTCACG
1 TTGGAAACGGTAAGAACGTCATTTTTGGCATTCACG
76111127 TTGGAAACGGTAAGAACGTCATTTTTGGCATTCACG
1 TTGGAAACGGTAAGAACGTCATTTTTGGCATTCACG
76111163 GTAAGTTAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (36 bp):
TTGGAAACGGTAAGAACGTCATTTTTGGCATTCACG
Found at i:76111586 original size:20 final size:20
Alignment explanation
Indices: 76111563--76111601 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
76111553 TAAACATGGT
76111563 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
76111583 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
76111602 TGTAATCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:76111731 original size:24 final size:23
Alignment explanation
Indices: 76111653--76111769 Score: 155
Period size: 23 Copynumber: 5.0 Consensus size: 23
76111643 AGGAAGTGAA
76111653 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
76111676 AAAGGGCTTATGCCCCATTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
76111699 AAAGGGCTTATGCCCCACTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
76111722 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
*
76111746 CAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAG-GGCTTATGCC-CCAGTTAT
76111770 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
23 44 0.52
24 29 0.35
25 11 0.13
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:76111998 original size:31 final size:31
Alignment explanation
Indices: 76111963--76112026 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
76111953 CGTTTACAGT
76111963 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
76111994 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
76112025 AA
1 AA
76112027 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:76115690 original size:36 final size:36
Alignment explanation
Indices: 76115613--76115698 Score: 95
Period size: 38 Copynumber: 2.3 Consensus size: 36
76115603 CACCACTTCG
* * *
76115613 TCCACCTTGCACACCACATTAGGGCTATAGTAGGCCCA
1 TCCACCTT--ACACCACATTAGGACCATAGTAAGCCCA
76115651 TCCATCCTGTACACCACA-TAGGACCATA-TAAGCCCA
1 TCCA-CCT-TACACCACATTAGGACCATAGTAAGCCCA
76115687 TCCACCTTACAC
1 TCCACCTTACAC
76115699 ACCACAAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
34 5 0.12
35 3 0.07
36 11 0.26
37 8 0.19
38 12 0.28
39 3 0.07
40 1 0.02
ACGTcount: A:0.29, C:0.37, G:0.13, T:0.21
Consensus pattern (36 bp):
TCCACCTTACACCACATTAGGACCATAGTAAGCCCA
Found at i:76115701 original size:36 final size:37
Alignment explanation
Indices: 76115613--76115704 Score: 100
Period size: 36 Copynumber: 2.5 Consensus size: 37
76115603 CACCACTTCG
* * *
76115613 TCCACCTTGCACACCACATTAGGGCTATAGTAGGCCCA
1 TCCACCTT-CACACCACATTAGGACCATAGTAAGCCCA
76115651 TCCATCCTGT-ACACCACA-TAGGACCATA-TAAGCCCA
1 TCCA-CCT-TCACACCACATTAGGACCATAGTAAGCCCA
76115687 TCCACCTTACACACCACA
1 TCCACCTT-CACACCACA
76115705 AATGTGGACT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
34 1 0.02
35 3 0.06
36 19 0.40
37 8 0.17
38 12 0.26
39 3 0.06
40 1 0.02
ACGTcount: A:0.30, C:0.38, G:0.12, T:0.20
Consensus pattern (37 bp):
TCCACCTTCACACCACATTAGGACCATAGTAAGCCCA
Found at i:76119238 original size:4 final size:4
Alignment explanation
Indices: 76119229--76119309 Score: 72
Period size: 4 Copynumber: 19.8 Consensus size: 4
76119219 CCCTTTTCTA
** * * * **
76119229 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCAC GTTTGC TCTC TGTA ACTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC TTTC
*
76119279 TTTC TATC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
76119310 TTTAACTTAC
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
4 57 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.05, C:0.26, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:76119886 original size:20 final size:20
Alignment explanation
Indices: 76119838--76119901 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
76119828 AACCTGTTTG
76119838 AAAATCATTTTGA--TGTGTT
1 AAAATCATTTTGACTTG-GTT
*
76119857 AAAATGATTTT-ATCTTGGTT
1 AAAATCATTTTGA-CTTGGTT
*
76119877 GAAATCATTTTGACTTGGTT
1 AAAATCATTTTGACTTGGTT
76119897 AAAAT
1 AAAAT
76119902 TTGAAGTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
18 1 0.03
19 10 0.27
20 23 0.62
21 3 0.08
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.45
Consensus pattern (20 bp):
AAAATCATTTTGACTTGGTT
Found at i:76120567 original size:58 final size:60
Alignment explanation
Indices: 76120502--76120618 Score: 175
Period size: 61 Copynumber: 2.0 Consensus size: 60
76120492 TAATCACTAA
* *
76120502 TATTAAATTAATATAATAATTA-T-CAAGATAAATATTCAATTCAATTTAATATTAAAAC
1 TATTAAATTAATAGAATAATTACTACAAGATAAATATTAAATTCAATTTAATATTAAAAC
* *
76120560 TATTAAATTAATAGAATACTTATCTACAAGATAAATATTAAATTTAATTTAATATTAAA
1 TATTAAATTAATAGAATAATTA-CTACAAGATAAATATTAAATTCAATTTAATATTAAA
76120619 TTAACAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 20 0.38
60 1 0.02
61 31 0.60
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (60 bp):
TATTAAATTAATAGAATAATTACTACAAGATAAATATTAAATTCAATTTAATATTAAAAC
Found at i:76120657 original size:48 final size:51
Alignment explanation
Indices: 76120560--76120667 Score: 141
Period size: 48 Copynumber: 2.2 Consensus size: 51
76120550 ATATTAAAAC
* * * *
76120560 TATTAAATTAATAGAATACTTATCTACAAGATAAATATTAAATTTAATTTAA
1 TATTAAATTAACAAAATACTTA-CTACAAGATAAATATCAAATTAAATTTAA
*
76120612 TATTAAATTAACAAAATAC-TA-TA-AAGATAAGTATCAAATTAAATTTAA
1 TATTAAATTAACAAAATACTTACTACAAGATAAATATCAAATTAAATTTAA
76120660 TATTAAAT
1 TATTAAAT
76120668 CTATTAAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
48 30 0.59
49 2 0.04
51 2 0.04
52 17 0.33
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.38
Consensus pattern (51 bp):
TATTAAATTAACAAAATACTTACTACAAGATAAATATCAAATTAAATTTAA
Found at i:76120964 original size:18 final size:19
Alignment explanation
Indices: 76120941--76120976 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
76120931 CTTCGCATAC
76120941 TAGAC-TAGTTTTGGGTTT
1 TAGACTTAGTTTTGGGTTT
76120959 TAGACTTAGTTTTGGGTT
1 TAGACTTAGTTTTGGGTT
76120977 CTCGGACCCA
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:0.17, C:0.06, G:0.28, T:0.50
Consensus pattern (19 bp):
TAGACTTAGTTTTGGGTTT
Found at i:76121133 original size:14 final size:13
Alignment explanation
Indices: 76121114--76121152 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
76121104 TACTTTATCA
76121114 AAATTAATTTTCCC
1 AAATTAATTTT-CC
*
76121128 AAATTAGATTTTCT
1 AAATTA-ATTTTCC
76121142 AAATTAATTTT
1 AAATTAATTTT
76121153 TCAAGAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 5 0.22
14 13 0.57
15 5 0.22
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (13 bp):
AAATTAATTTTCC
Found at i:76121945 original size:23 final size:23
Alignment explanation
Indices: 76121915--76121972 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
76121905 CGTCACAAGT
76121915 GAATTAATTCATAAATGGATTCA
1 GAATTAATTCATAAATGGATTCA
76121938 GAATTAATTCATAAATGGATTCA
1 GAATTAATTCATAAATGGATTCA
76121961 GAATTAATTCAT
1 GAATTAATTCAT
76121973 CTTGGGTCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (23 bp):
GAATTAATTCATAAATGGATTCA
Found at i:76129003 original size:19 final size:19
Alignment explanation
Indices: 76128979--76129015 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
76128969 ATCTAAAAAT
76128979 ATAAAAAAATAAAAATAAC
1 ATAAAAAAATAAAAATAAC
* *
76128998 ATAAAATAATGAAAATAA
1 ATAAAAAAATAAAAATAA
76129016 AAATAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (19 bp):
ATAAAAAAATAAAAATAAC
Found at i:76137059 original size:17 final size:18
Alignment explanation
Indices: 76137039--76137082 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
76137029 AAAGTTTTTT
*
76137039 AATAAATATTTTTAAA-A
1 AATAAATATTTTCAAAGA
76137056 AATAAA-ATTTTCAAAGTA
1 AATAAATATTTTCAAAG-A
76137074 AATAAATAT
1 AATAAATAT
76137083 ATCAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 8 0.35
17 6 0.26
18 7 0.30
19 2 0.09
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
AATAAATATTTTCAAAGA
Found at i:76137913 original size:27 final size:27
Alignment explanation
Indices: 76137858--76137909 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
76137848 ATCATCCCAT
*
76137858 TAAAAATAATTTTATATCAATATTAAA
1 TAAAAATAATTGTATATCAATATTAAA
76137885 TAAAAATAATTGTAT-T-AATATTAAA
1 TAAAAATAATTGTATATCAATATTAAA
76137910 AATATCCCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.38
26 1 0.04
27 14 0.58
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (27 bp):
TAAAAATAATTGTATATCAATATTAAA
Found at i:76142731 original size:38 final size:38
Alignment explanation
Indices: 76142689--76142766 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
76142679 TTTGGGGACG
76142689 AAATTCTTTTAAGGGGGAGAGAGTTGTAACATTCAAAA
1 AAATTCTTTTAAGGGGGAGAGAGTTGTAACATTCAAAA
76142727 AAATTCTTTTAAGGGGGAGAGAGTTGTAACATTCAAAA
1 AAATTCTTTTAAGGGGGAGAGAGTTGTAACATTCAAAA
76142765 AA
1 AA
76142767 TCGAGTTAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (38 bp):
AAATTCTTTTAAGGGGGAGAGAGTTGTAACATTCAAAA
Found at i:76144409 original size:43 final size:41
Alignment explanation
Indices: 76144297--76144453 Score: 136
Period size: 43 Copynumber: 3.7 Consensus size: 41
76144287 CAATGCCAAC
* * *
76144297 ATCCCAAACGTGGTCTTACATGTAATCAAATATCGATGCCATT
1 ATCCCAAACATGGTCTTACACGAAATCAAATA-CGATGCCA-T
* * * *
76144340 ATCCTAGATAAGGTCTTACACGAAATCAAATACGATGCCGAT
1 ATCCCAAACATGGTCTTACACGAAATCAAATACGATGCC-AT
* * * *
76144382 GTCCCAGACATGGTCTTACACGTAAATCTCAAAT-TGATGCCAAC
1 ATCCCAAACATGGTCTTACACG-AAA--TCAAATACGATGCC-AT
*
76144426 ATCCCAAACGTGGTCTTACACGAAATCA
1 ATCCCAAACATGGTCTTACACGAAATCA
76144454 CATATAGGAA
Statistics
Matches: 93, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
41 3 0.03
42 26 0.28
43 32 0.34
44 26 0.28
45 6 0.06
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (41 bp):
ATCCCAAACATGGTCTTACACGAAATCAAATACGATGCCAT
Found at i:76149170 original size:2 final size:2
Alignment explanation
Indices: 76149163--76149198 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
76149153 GAAAATAAGC
76149163 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
76149199 GAAAAGCTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:76156283 original size:9 final size:9
Alignment explanation
Indices: 76156269--76156318 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
76156259 ATAAGTATAA
76156269 AATTAACCG
1 AATTAACCG
*
76156278 AATTAACCA
1 AATTAACCG
*
76156287 AATTAATCG
1 AATTAACCG
**
76156296 AATTGCCCG
1 AATTAACCG
76156305 AATTAACCG
1 AATTAACCG
76156314 AATTA
1 AATTA
76156319 TTTGTATAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:76156352 original size:5 final size:6
Alignment explanation
Indices: 76156337--76156377 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
76156327 AAATTATATG
*
76156337 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
76156378 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:76157499 original size:48 final size:48
Alignment explanation
Indices: 76157423--76157744 Score: 361
Period size: 48 Copynumber: 6.7 Consensus size: 48
76157413 GGTAAATTGC
* * *
76157423 CGATTCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGT
* *
76157471 TGATGCCATGTCCCAGACATGGTCTTACACTAGCGT-ACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC-TCACATATCAATGT
* * *
76157519 CGATGTCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAACGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGT
* * * * *
76157567 CGATTCCATGTCCTAGACATGGTCTTACACTAGCGCACCTATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGT
* *
76157615 CGATGCCATGTCCCAAACATGGTCTTACACTAGCT--CTTAT-AATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGT
* * *
76157660 GGCCGATGCCATGTCCCAGAGATGGTCTTACACTGGCTCTC--AT-AATGT
1 ---CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGT
*
76157708 GGCCGATGCCATGTCCCAGACATGGTCTTATACTAGC
1 ---CGATGCCATGTCCCAGACATGGTCTTACACTAGC
76157745 GTATATATCA
Statistics
Matches: 239, Mismatches: 28, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
45 4 0.02
46 4 0.02
48 229 0.96
49 1 0.00
50 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAATGT
Found at i:76157685 original size:144 final size:144
Alignment explanation
Indices: 76157423--76157754 Score: 402
Period size: 144 Copynumber: 2.3 Consensus size: 144
76157413 GGTAAATTGC
* * * ** *
76157423 CGATTCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGTTGATGCCATGTCCCAGA
1 CGATTCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCCAAA
*
76157488 CATGGTCTTACACTAGCGTACATATCAATGCCGATGTCATGTCCCAGACATGGTCTTACACTAGC
66 CATGGTCTTACACTAGCGTACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
76157553 GCACATATCAACGT
131 GCACATATCAACGT
* *
76157567 CGATTCCATGTCCTAGACATGGTCTTACACTAGCGCACCTATCAATGCCGATGCCATGTCCCAAA
1 CGATTCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCCAAA
* *
76157632 CATGGTCTTACACTAGC-T-CTTAT-AATGTGGCCGATGCCATGTCCCAGAGATGGTCTTACACT
66 CATGGTCTTACACTAGCGTACATATCAA--T-GCCGATGCCATGTCCCAGACATGGTCTTACACT
* * * *** *
76157694 GGCTCTCATAAT-GTGGC
128 AGCGCACAT-ATCAACGT
* * * *
76157711 CGATGCCATGTCCCAGACATGGTCTTATACTAGCGTATATATCA
1 CGATTCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCA
76157755 GCCAAATGTC
Statistics
Matches: 160, Mismatches: 24, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
141 2 0.01
142 4 0.03
143 2 0.01
144 150 0.94
145 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (144 bp):
CGATTCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCCAAA
CATGGTCTTACACTAGCGTACATATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
GCACATATCAACGT
Found at i:76172697 original size:16 final size:17
Alignment explanation
Indices: 76172676--76172709 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
76172666 ATTATTTGGA
76172676 ATTAGGTT-ATTCAATT
1 ATTAGGTTGATTCAATT
76172692 ATTAGGTTGGATTCAATT
1 ATTAGGTT-GATTCAATT
76172710 TAAATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (17 bp):
ATTAGGTTGATTCAATT
Found at i:76174470 original size:96 final size:94
Alignment explanation
Indices: 76174322--76174650 Score: 356
Period size: 96 Copynumber: 3.4 Consensus size: 94
76174312 GACCATGGCG
* * * * * *
76174322 ATATGAGAGCC-GTGTAAGACCATGTCTGGGACATGGCATCGGTCTCGATATGTGTCAATGTAAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGTATTGTTATGTGTCAGTGTAAG
*
76174386 ACCATGTCTAGGACATGGCATCATCACCGGT
66 ACCATGTCTAGGACATGGCATC--CACCGAT
* * *
76174417 ATATGCGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTATTGTTATGTGAGCCAGTGTA
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGTATTGTTATGT--GTCAGTGTA
* * *
76174482 AGACCATGTCTGGGACATGGCATCGACCTCA-
64 AGACCATGTCTAGGACATGGCATCCACC-GAT
* * * * *
76174513 ATATGCGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGAATTGTTAGATGTGTCGGTGTA
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGTATTGTT--ATGTGTCAGTGTA
*
76174578 AGAACATGTCTAGGACATGGCATCGGCACCGAT
64 AGACCATGTCTAGGACATGGCATC--CACCGAT
* * * *
76174611 GTATGAGAGCTAGTGTAAGACCAGGTCTGGGACATGGCAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCAT
76174651 TGGCATTTTA
Statistics
Matches: 198, Mismatches: 27, Indels: 15
0.82 0.11 0.06
Matches are distributed among these distances:
95 10 0.05
96 117 0.59
97 1 0.01
98 70 0.35
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (94 bp):
ATATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGTATTGTTATGTGTCAGTGTAAG
ACCATGTCTAGGACATGGCATCCACCGAT
Found at i:76174487 original size:48 final size:48
Alignment explanation
Indices: 76174323--76174650 Score: 234
Period size: 48 Copynumber: 6.8 Consensus size: 48
76174313 ACCATGGCGA
* * * *
76174323 TATGAGAGCC-GTGTAAGACCATGTCTGGGACATGGCATCGGTCTCGA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTATCGT
* * * * * * *
76174370 TATGT--GTCAATGTAATACCATGTCTAGGACATGGCATC-ATCACCGGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGT-ATC-GT
* * *
76174417 ATATGCGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTATTGT
1 -TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTATCGT
* *** **
76174466 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTATCGT
* * * * *
76174514 TATGCGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGAATTGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTATCGT
* * * * * * * *
76174562 TA-GATGTGTCGGTGTAAGAACATGTCTAGGACATGGCATCGGCACCGAT
1 TATG-TGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTATCG-T
* * * *
76174611 GTATGAGAGCTAGTGTAAGACCAGGTCTGGGACATGGCAT
1 -TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCAT
76174651 TGGCATTTTA
Statistics
Matches: 212, Mismatches: 58, Indels: 19
0.73 0.20 0.07
Matches are distributed among these distances:
45 3 0.01
46 27 0.13
47 6 0.03
48 114 0.54
49 3 0.01
50 57 0.27
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTATCGT
Found at i:76176628 original size:15 final size:15
Alignment explanation
Indices: 76176610--76176652 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
76176600 GGTTTTACAT
76176610 AGTTGTGTACATTTA
1 AGTTGTGTACATTTA
76176625 AGTT-T-TACA--T-
1 AGTTGTGTACATTTA
76176635 AGTTGTGTACATTTA
1 AGTTGTGTACATTTA
76176650 AGT
1 AGT
76176653 CTAATAATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 4 0.17
11 2 0.09
12 4 0.17
13 4 0.17
14 2 0.09
15 7 0.30
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.47
Consensus pattern (15 bp):
AGTTGTGTACATTTA
Found at i:76176635 original size:25 final size:25
Alignment explanation
Indices: 76176601--76176652 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
76176591 TTATAGCTCG
76176601 GTTTTACATAGTTGTGTACATTTAA
1 GTTTTACATAGTTGTGTACATTTAA
76176626 GTTTTACATAGTTGTGTACATTTAA
1 GTTTTACATAGTTGTGTACATTTAA
76176651 GT
1 GT
76176653 CTAATAATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (25 bp):
GTTTTACATAGTTGTGTACATTTAA
Found at i:76176825 original size:21 final size:21
Alignment explanation
Indices: 76176801--76176840 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
76176791 ATTGTTATCG
76176801 TGTTCACCATTACTGACCCGT
1 TGTTCACCATTACTGACCCGT
**
76176822 TGTTTGCCATTACTGACCC
1 TGTTCACCATTACTGACCC
76176841 ATTACCCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.33, G:0.15, T:0.35
Consensus pattern (21 bp):
TGTTCACCATTACTGACCCGT
Found at i:76182902 original size:61 final size:61
Alignment explanation
Indices: 76182836--76182950 Score: 149
Period size: 61 Copynumber: 1.9 Consensus size: 61
76182826 ATTAATAAAT
* *
76182836 ACTAAAATGTAACACGCGAAAAAGAACAGGAGACGAATAGGAAAATATTCCCAAATAAAGG
1 ACTAAAATATAACACACGAAAAAGAACAGGAGACGAATAGGAAAATATTCCCAAATAAAGG
* * ** * * *
76182897 ACTAAAATATAACGCATGAAAAAGAGTAGGGGGCGAATGGGAAAATATTCCCAA
1 ACTAAAATATAACACACGAAAAAGAACAGGAGACGAATAGGAAAATATTCCCAA
76182951 CCTTAGGACA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 45 1.00
ACGTcount: A:0.50, C:0.14, G:0.22, T:0.15
Consensus pattern (61 bp):
ACTAAAATATAACACACGAAAAAGAACAGGAGACGAATAGGAAAATATTCCCAAATAAAGG
Found at i:76184375 original size:44 final size:44
Alignment explanation
Indices: 76184321--76184684 Score: 293
Period size: 44 Copynumber: 8.0 Consensus size: 44
76184311 AACTTCAAGG
* * * * *
76184321 GTAGTTTCAATCTACTCCGCTATAACTTCAGGGAGATGAGATTC
1 GTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTT
* * * * *
76184365 GTAGCTTCAATTTGCTCTACTACAACTTCAAGGAAATAAGATTT
1 GTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTT
* * * * *
76184409 GTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATGAGACTCGCTAT
1 GTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGA-T---T-T
* * * *
76184458 GGTAGATTTAATCTGAC-CCACTGCAACTTCAGAGG-TATAAGATTT
1 -GTAGCTTCAATCT-ACTCCACTACAACTTCAG-GGAGATAAGATTT
* *
76184503 GTCA-CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT
1 GT-AGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTT
* * ** *
76184547 ATAGCTTCAATCTGCTCCACTGTAACTTCAAGGAGATAAAGATTTGTTGTT
1 GTAGCTTCAATCTACTCCACTACAACTTCAGGGAGAT-AAGA-----T-TT
* *
76184598 GTAGCTTCAATCTACTCCACTAAAACTTTAGGGAGATAAGATTT
1 GTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTT
* *
76184642 GTAGCTTTAATCTACTCCACTACAACTTTAGGGAGATAAGATT
1 GTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATT
76184685 CGCTATGGTC
Statistics
Matches: 263, Mismatches: 38, Indels: 38
0.78 0.11 0.11
Matches are distributed among these distances:
43 4 0.02
44 175 0.67
45 8 0.03
46 1 0.00
48 1 0.00
49 2 0.01
50 37 0.14
51 35 0.13
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (44 bp):
GTAGCTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTT
Found at i:76184583 original size:138 final size:139
Alignment explanation
Indices: 76184320--76184684 Score: 407
Period size: 138 Copynumber: 2.6 Consensus size: 139
76184310 TAACTTCAAG
* * * * * * *
76184320 GGTAGTTTCAATCTACTCCGCTATAACTTCAGGGAGATGAGATTCGTAGCTTCAATTTGCTCTAC
1 GGTAGATTCAATCTACTCCACTAAAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCAC
* * * * *
76184385 TACAACTTCAAGGAAATAAGATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGAT-GAG
66 TACAACTTCAGGGAGATAAGATTTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAAG
76184449 ACTCGCTAT
131 ACTCGCTAT
* ** *
76184458 GGTAGATTTAATCTGAC-CCACTGCAACTTCAGAGG-TATAAGATTTGTCA-CTTCAATCTGCTC
1 GGTAGATTCAATCT-ACTCCACTAAAACTTCAG-GGAGATAAGATTTGT-AGCTTCAATCTGCTC
* *
76184520 CACTGCAACTTCAGGGAGATAAGATTTATAGCTTCAATCTGCTCCACTGTAACTTCA-AGGAGAT
63 CACTACAACTTCAGGGAGATAAGATTTATAGCTTCAATCTGCTCCACTGCAACTTCAGA-GAGAT
* * * *
76184584 AAAGATTTGTTGT
127 AAAGACTCGCTAT
* * * * *
76184597 TGTAGCTTCAATCTACTCCACTAAAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTACTCCAC
1 GGTAGATTCAATCTACTCCACTAAAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCAC
*
76184662 TACAACTTTAGGGAGATAAGATT
66 TACAACTTCAGGGAGATAAGATT
76184685 CGCTATGGTC
Statistics
Matches: 187, Mismatches: 32, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
137 1 0.01
138 105 0.56
139 81 0.43
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (139 bp):
GGTAGATTCAATCTACTCCACTAAAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCAC
TACAACTTCAGGGAGATAAGATTTATAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAAG
ACTCGCTAT
Found at i:76184631 original size:95 final size:94
Alignment explanation
Indices: 76184321--76184684 Score: 252
Period size: 95 Copynumber: 3.9 Consensus size: 94
76184311 AACTTCAAGG
* * * * ** * * *
76184321 GTAGTTTCAATCTACTCCGCTATAACTTCAGGGAGATGAGATTCGTAGCTTCAATTTGCTCTACT
1 GTAGCTTCAATCTACTCCACTAAAACTTCAGGGAGATAAGATTTATAGCTTCAATCTACTCCACT
*
76184386 ACAACTTCAAGGAAATAAGA-----T-TT
66 ACAACTTCAAGGAGATAAGATTTGTTGTT
* * ** * * * * *
76184409 GTAGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATGAGACTCGCTATGGTAGATTTAATCTGA
1 GTAGCTTCAATCTACTCCACTAAAACTTCAGGGAGATAAGA-T---T-T-ATAGCTTCAATCT-A
* *
76184474 C-CCACTGCAACTTCAGAGG-TATAAGA--T-TTG-T
59 CTCCACTACAACTTCA-AGGAGATAAGATTTGTTGTT
* * ** *
76184505 -CA-CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAGCTTCAATCTGCTCCACT
1 GTAGCTTCAATCTACTCCACTAAAACTTCAGGGAGATAAGATTTATAGCTTCAATCTACTCCACT
**
76184568 GTAACTTCAAGGAGATAAAGATTTGTTGTT
66 ACAACTTCAAGGAGAT-AAGATTTGTTGTT
* * *
76184598 GTAGCTTCAATCTACTCCACTAAAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTACTCCACT
1 GTAGCTTCAATCTACTCCACTAAAACTTCAGGGAGATAAGATTTATAGCTTCAATCTACTCCACT
* *
76184663 ACAACTTTAGGGAGATAAGATT
66 ACAACTTCAAGGAGATAAGATT
76184685 CGCTATGGTC
Statistics
Matches: 219, Mismatches: 37, Indels: 34
0.76 0.13 0.12
Matches are distributed among these distances:
87 4 0.02
88 59 0.27
89 6 0.03
90 1 0.00
91 1 0.00
92 4 0.02
93 2 0.01
94 69 0.32
95 71 0.32
96 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (94 bp):
GTAGCTTCAATCTACTCCACTAAAACTTCAGGGAGATAAGATTTATAGCTTCAATCTACTCCACT
ACAACTTCAAGGAGATAAGATTTGTTGTT
Found at i:76190804 original size:50 final size:48
Alignment explanation
Indices: 76190681--76190810 Score: 136
Period size: 49 Copynumber: 2.6 Consensus size: 48
76190671 GGTATAACGC
* * *
76190681 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGAAATCGAGGC
1 CGATGCCATGT-CCAGACATGGTCTTACACTAGCTATCGAAATCCAGGA
* * * *
76190730 CGACGCCATGTCTCAAACATGGTCTTACACTAGCTCTC-ACATATCCATGA
1 CGATGCCATGTC-CAGACATGGTCTTACACTAGCTATCGA-A-ATCCAGGA
*
76190780 CGATGCCATGTACCAGGCATGGTCTTACACT
1 CGATGCCATGT-CCAGACATGGTCTTACACT
76190811 GACACATCTC
Statistics
Matches: 67, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
48 2 0.03
49 33 0.49
50 31 0.46
51 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCAGACATGGTCTTACACTAGCTATCGAAATCCAGGA
Found at i:76190874 original size:46 final size:47
Alignment explanation
Indices: 76190679--76190939 Score: 219
Period size: 46 Copynumber: 5.5 Consensus size: 47
76190669 AGGGTATAAC
*
76190679 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-C-ATATCGAG
* * * * * *
76190728 GCCGACGCCATGTCTCAAACATGGTCTTACACTAGCTCTCACATATCCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCT-ACATATCGAG
* * * * *
76190778 GACGATGCCATGTACCAGGCATGGTCTTACACTGAC-ACATCTCGTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATATCG-AG
*
76190824 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATATCGAG
* * * * * * *
76190870 GCCGATG-CATGTCTCAGACAT-GTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-ACATATCGAG
*
76190916 GCCGATGCCATGTCCCAAACATGG
1 GCCGATGCCATGTCCCAGACATGG
76190940 CCTCTCGTCT
Statistics
Matches: 172, Mismatches: 30, Indels: 21
0.77 0.13 0.09
Matches are distributed among these distances:
44 12 0.07
45 14 0.08
46 63 0.37
47 13 0.08
48 2 0.01
49 31 0.18
50 33 0.19
51 3 0.02
52 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATATCGAG
Found at i:76190946 original size:38 final size:38
Alignment explanation
Indices: 76190903--76191018 Score: 214
Period size: 38 Copynumber: 3.1 Consensus size: 38
76190893 CTTACACTAG
76190903 CTCTCGTCTCAATGCCGATGCCATGTCCCAAACATGGC
1 CTCTCGTCTCAATGCCGATGCCATGTCCCAAACATGGC
76190941 CTCTCGTCTCAATGCCGATGCCATGTCCCAAACATGGC
1 CTCTCGTCTCAATGCCGATGCCATGTCCCAAACATGGC
* *
76190979 CTTTCGTCTCAATGCCGATGCCATGTCCCAGACATGGC
1 CTCTCGTCTCAATGCCGATGCCATGTCCCAAACATGGC
76191017 CT
1 CT
76191019 TACACTGGCT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 76 1.00
ACGTcount: A:0.20, C:0.36, G:0.19, T:0.25
Consensus pattern (38 bp):
CTCTCGTCTCAATGCCGATGCCATGTCCCAAACATGGC
Found at i:76196297 original size:94 final size:94
Alignment explanation
Indices: 76196135--76196338 Score: 327
Period size: 94 Copynumber: 2.2 Consensus size: 94
76196125 TTAAGGCTTG
* * *
76196135 CTGATTTACGATCACAGCCTAAGTTCATTTATTTATGATCATGAACAATCTTCTATGAGTTAACT
1 CTGATTTATGATCACAGCCTAAGTTCATTGATTTACGATCATGAACAATCTTCTATGAGTTAACT
* * *
76196200 GATTTACTATCACTACTTCAAACAATTCG
66 GATTTACTATCACTACTCCAAACAACTCA
* * *
76196229 TTGATTTATGATCACAGCCTAAGTTCATTGATTTACGATCATGAACAATTTTCTATGAGTTAGCT
1 CTGATTTATGATCACAGCCTAAGTTCATTGATTTACGATCATGAACAATCTTCTATGAGTTAACT
76196294 GATTTACTATCACTACTCCAAACAACTCA
66 GATTTACTATCACTACTCCAAACAACTCA
76196323 CTGATTTATGATCACA
1 CTGATTTATGATCACA
76196339 ACTGATATTA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 100 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (94 bp):
CTGATTTATGATCACAGCCTAAGTTCATTGATTTACGATCATGAACAATCTTCTATGAGTTAACT
GATTTACTATCACTACTCCAAACAACTCA
Found at i:76213870 original size:19 final size:20
Alignment explanation
Indices: 76213827--76213871 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
76213817 CTTAAAATTT
76213827 TTTTAATAGGTGTAAAAAAA
1 TTTTAATAGGTGTAAAAAAA
* *
76213847 ATTTAATAGGTG-AAAAATA
1 TTTTAATAGGTGTAAAAAAA
76213866 TTTTAA
1 TTTTAA
76213872 CGGGTATTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (20 bp):
TTTTAATAGGTGTAAAAAAA
Found at i:76214993 original size:29 final size:28
Alignment explanation
Indices: 76214961--76215053 Score: 91
Period size: 29 Copynumber: 3.1 Consensus size: 28
76214951 ATTTATTTTG
76214961 TTATTCTAATACTATTATTATTTATCTATT
1 TTATT-TAATACTATTATTATTT-TCTATT
*
76214991 TATATTT-CTACTATTATTATATTTCTATT
1 T-TATTTAATACTATTATTAT-TTTCTATT
*
76215020 TCTATTTATATACTAATATTATTTTC-ATT
1 T-TATTTA-ATACTATTATTATTTTCTATT
76215049 ATTAT
1 -TTAT
76215054 CTTTCTTATA
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
29 30 0.56
30 9 0.17
31 15 0.28
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (28 bp):
TTATTTAATACTATTATTATTTTCTATT
Found at i:76215019 original size:43 final size:43
Alignment explanation
Indices: 76214930--76215028 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
76214920 TTATTGCTAT
** * *
76214930 TATTATTATGTT-TCTATTTATATTTATTTTGTTATTCTAATAC
1 TATTATTAT-TTATCTATTTATATTTATACTATTATTATAATAC
* * *
76214973 TATTATTATTTATCTATTTATATTTCTACTATTATTATATTTC
1 TATTATTATTTATCTATTTATATTTATACTATTATTATAATAC
76215016 TATT-TCTATTTAT
1 TATTAT-TATTTAT
76215029 ATACTAATAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.06
43 44 0.94
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.64
Consensus pattern (43 bp):
TATTATTATTTATCTATTTATATTTATACTATTATTATAATAC
Found at i:76215168 original size:3 final size:3
Alignment explanation
Indices: 76215160--76215312 Score: 95
Period size: 3 Copynumber: 51.3 Consensus size: 3
76215150 TTTAAAAATT
76215160 TTA TTA TTA TTA TTA TTA TTA TTA -TA TT- TCTA TT- TCTA TTTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA T-TA -TTA T-TA
* * * * *
76215206 TTA ATA TCA ATA TT- TT- TTA TT- TTT TTA -TA TTA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
76215250 TTT TTA TTA CTA TTA GTA CTA TTA TTA TTT TCTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
76215296 GTA TTA TTA TTA GTTA T
1 TTA TTA TTA TTA -TTA T
76215313 AGTATATTTA
Statistics
Matches: 117, Mismatches: 21, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
2 12 0.10
3 93 0.79
4 11 0.09
5 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:76215324 original size:18 final size:18
Alignment explanation
Indices: 76215282--76215317 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
76215272 TATTATTTTC
76215282 TATTATTATTACTAGTAT
1 TATTATTATTACTAGTAT
76215300 TATTATTAGTTA-TAGTAT
1 TATTATTA-TTACTAGTAT
76215318 ATTTATTCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (18 bp):
TATTATTATTACTAGTAT
Found at i:76215324 original size:49 final size:50
Alignment explanation
Indices: 76215221--76215324 Score: 117
Period size: 49 Copynumber: 2.1 Consensus size: 50
76215211 ATCAATATTT
* * *
76215221 TTTATTTTTTTATATTATTATTATTATCATTTTTATTACTATTAGTACTA
1 TTTATTATTTTATATTATTATTACTATCATTATTATTACTATTAGTACTA
* *
76215271 -TTATTATTTTCTATTATTATTACTAGT-ATTATTATTAGT-TATAGTA-TA
1 TTTATTATTTTATATTATTATTACTA-TCATTATTATTACTAT-TAGTACTA
76215319 TTTATT
1 TTTATT
76215325 CACAAATTGC
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
48 3 0.07
49 42 0.91
50 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (50 bp):
TTTATTATTTTATATTATTATTACTATCATTATTATTACTATTAGTACTA
Found at i:76218193 original size:19 final size:19
Alignment explanation
Indices: 76218162--76218199 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
76218152 TTGCAATTTA
76218162 AATTTTTATTTTATTTTCT
1 AATTTTTATTTTATTTTCT
76218181 AATTCTTTA-TTTATTTTCT
1 AATT-TTTATTTTATTTTCT
76218200 TTTGATAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:76221919 original size:9 final size:9
Alignment explanation
Indices: 76221907--76221937 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
76221897 TTATTCTTAA
76221907 AAAAAAAAG
1 AAAAAAAAG
76221916 AAAAAAAAAG
1 -AAAAAAAAG
76221926 AAAAAAAAG
1 AAAAAAAAG
76221935 AAA
1 AAA
76221938 CAACAACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:76221921 original size:10 final size:10
Alignment explanation
Indices: 76221906--76221937 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
76221896 CTTATTCTTA
76221906 AAAAAAAAAG
1 AAAAAAAAAG
76221916 AAAAAAAAAG
1 AAAAAAAAAG
76221926 -AAAAAAAAG
1 AAAAAAAAAG
76221935 AAA
1 AAA
76221938 CAACAACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:76224514 original size:26 final size:26
Alignment explanation
Indices: 76224485--76224539 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
76224475 TAGTAGAGGC
76224485 ATCCATTGGGAAGTTCGCGAGATTTG
1 ATCCATTGGGAAGTTCGCGAGATTTG
76224511 ATCCATTGGGAAGTTCGCGAGATTTG
1 ATCCATTGGGAAGTTCGCGAGATTTG
76224537 ATC
1 ATC
76224540 TTAACATCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (26 bp):
ATCCATTGGGAAGTTCGCGAGATTTG
Found at i:76226784 original size:23 final size:23
Alignment explanation
Indices: 76226741--76226784 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
76226731 TAGATTCTTT
*
76226741 TATTCTTTAGACTTTCTTTCAAG
1 TATTCTTTAGACTTTCATTCAAG
*
76226764 TATTCTTTTAGTC-TTCATTCA
1 TATTC-TTTAGACTTTCATTCA
76226785 TGATCATACC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.20, C:0.18, G:0.07, T:0.55
Consensus pattern (23 bp):
TATTCTTTAGACTTTCATTCAAG
Found at i:76230175 original size:40 final size:40
Alignment explanation
Indices: 76229957--76230179 Score: 267
Period size: 40 Copynumber: 5.6 Consensus size: 40
76229947 GCTACTCGTT
*
76229957 CAAATGCCTTCGGGACATAGCCCG-ATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAATT-TAGTAACTCGCA
* *
76229997 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCA
* *
76230037 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCA
* *
76230077 CAAATGCCTTC-GGATCTTAGTCCGAATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGAATTTAGTAACTCGCA
* * * * *
76230117 CAAATGCCTTC--GATCTTAGTCCGAATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGAATTTAGT-AACTCGCA
76230157 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
76230180 GACATCATTC
Statistics
Matches: 166, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
39 27 0.16
40 134 0.81
41 5 0.03
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCA
Found at i:76237982 original size:40 final size:40
Alignment explanation
Indices: 76237945--76238170 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
76237935 GCTACTCGTT
* *
76237945 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
76237985 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
76238025 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * *
76238065 CAAATGCCTTC-GGATCTTAGTCTGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
*** * * * *
76238105 CAAATGCCTTC-GGATCTTAGTTCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
76238146 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
76238171 CATCATTCAA
Statistics
Matches: 167, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 150 0.90
41 14 0.08
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:76240506 original size:44 final size:44
Alignment explanation
Indices: 76240449--76240720 Score: 181
Period size: 44 Copynumber: 6.1 Consensus size: 44
76240439 ACCACAAATT
*
76240449 TTATC-TCCTTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTC
1 TTATCTTCC-TGAGGTAGCAAGGGAGCAGACCGAAGATTGTAGTC
* * * *
76240493 TTATCTTCCTGAGGTAGCAAGGAAACAGACTGAATATTGTAGATC
1 TTATCTTCCTGAGGTAGCAAGGGAGCAGACCGAAGATTGTAG-TC
* * * * ** * *
76240538 TTATCTCCCTGAGATAGC-AGTGGAGTAGATCGAAGACGGCGAATC
1 TTATCTTCCTGAGGTAGCAAG-GGAGCAGACCGAAGATTG-TAGTC
* * **** ***** *
76240583 TTATCTTCC-AAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCC
1 TTATCTTCCTGAGGTAGCAAGGGAGCAGACCGAAGATTGTAGTC
* * *
76240626 TTATCTCCCTGAGGTAGTAAGGGAGCAGGCCGAAGATTGTAGTC
1 TTATCTTCCTGAGGTAGCAAGGGAGCAGACCGAAGATTGTAGTC
* * * * *
76240670 TTATCTTCCTGAGGTAGCAACGAAGCAAACTGAAGATTTTAGATC
1 TTATCTTCCTGAGGTAGCAAGGGAGCAGACCGAAGATTGTAG-TC
76240715 TTATCT
1 TTATCT
76240721 CATTGAGATA
Statistics
Matches: 167, Mismatches: 54, Indels: 13
0.71 0.23 0.06
Matches are distributed among these distances:
43 10 0.06
44 106 0.63
45 50 0.30
46 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (44 bp):
TTATCTTCCTGAGGTAGCAAGGGAGCAGACCGAAGATTGTAGTC
Found at i:76240733 original size:45 final size:44
Alignment explanation
Indices: 76240657--76240741 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 44
76240647 GGAGCAGGCC
*
76240657 GAAGATTGTAGTCTTATCTTCCTGAGGTAGCAACGAAGCAAACT
1 GAAGATTGTAGTCTTATCTTCCTGAGATAGCAACGAAGCAAACT
* * *
76240701 GAAGATTTTAGATCTTATC-TCATTGAGATAGCAATGAAGCA
1 GAAGATTGTAG-TCTTATCTTC-CTGAGATAGCAACGAAGCA
76240742 GATCGAAGAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
44 12 0.34
45 23 0.66
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.29
Consensus pattern (44 bp):
GAAGATTGTAGTCTTATCTTCCTGAGATAGCAACGAAGCAAACT
Found at i:76240747 original size:177 final size:178
Alignment explanation
Indices: 76240449--76240859 Score: 635
Period size: 177 Copynumber: 2.3 Consensus size: 178
76240439 ACCACAAATT
* *
76240449 TTATCTCCTTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAG
1 TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAC
* * * * * * *
76240514 GAAACAGACTGAATATTGTAGATCTTATCTCCCTGAGATAGCAGTGGAGTAGATCGAAGACGGCG
66 GAAACAAACTGAAGATTGTAGATCTTATCTCACTGAGATAGCAATGAAGCAGATCGAAGACGGCA
*
76240579 AATCTTATCTTC-CAAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCC
131 AATCGTATCTTCTCAAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCC
*
76240626 TTATCTCCCTGAGGTAGTAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAC
1 TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAC
* * *
76240691 GAAGCAAACTGAAGATTTTAGATCTTATCTCATTGAGATAGCAATGAAGCAGATCGAAGACGGCA
66 GAAACAAACTGAAGATTGTAGATCTTATCTCACTGAGATAGCAATGAAGCAGATCGAAGACGGCA
* *
76240756 AATCGTATCTTCTCGAGGTAGCAGGGGAGCAGATTTTAGCCACCTGCC
131 AATCGTATCTTCTCAAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCC
* ** *
76240804 TTATTTCCCTGAGGTAGCAAGGGAGCAGGCTAAAGATTGTAGTCTTATCTCCCTGA
1 TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGA
76240860 AGTTGCAGTG
Statistics
Matches: 212, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
177 128 0.60
178 84 0.40
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (178 bp):
TTATCTCCCTGAGGTAGCAAGGGAGCAGGCCGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAC
GAAACAAACTGAAGATTGTAGATCTTATCTCACTGAGATAGCAATGAAGCAGATCGAAGACGGCA
AATCGTATCTTCTCAAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCC
Found at i:76240750 original size:45 final size:43
Alignment explanation
Indices: 76240656--76240750 Score: 102
Period size: 45 Copynumber: 2.1 Consensus size: 43
76240646 GGGAGCAGGC
*
76240656 CGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAACGAAGCAAA
1 CGAAGATTGTAGTCTTATCTTCCTGAGATAGCAACGAAGCAAA
* * * *
76240699 CTGAAGATTTTAGATCTTATC-TCATTGAGATAGCAATGAAGCAGAT
1 C-GAAGATTGTAG-TCTTATCTTC-CTGAGATAGCAACGAAGCA-AA
76240745 CGAAGA
1 CGAAGA
76240751 CGGCAAATCG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.02
44 12 0.28
45 28 0.65
46 2 0.05
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (43 bp):
CGAAGATTGTAGTCTTATCTTCCTGAGATAGCAACGAAGCAAA
Found at i:76240902 original size:45 final size:44
Alignment explanation
Indices: 76240846--76241266 Score: 314
Period size: 45 Copynumber: 9.4 Consensus size: 44
76240836 AAGATTGTAG
* **
76240846 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGCA-A
* ** * ** *
76240891 TCTTATCTCCCTGAAGTTACAACAGAATAGATCAAAGATTGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGC-AA
* * * *
76240936 CCTTATCTCTCTGAAGTTGTAGTAGAACATG-TTGAAG-TACCAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAACA-GATTGAAGATAGCAA
* * * * *
76240979 GTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTGAAAATAGCAGA
1 -TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGCA-A
* * * ** *
76241025 TCTTATCTCCCTGAAGTTACAGCAGAATAGATCAAAGATAGAAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAG-CAA
* * * * *
76241070 CCTTATCTCTCTGAAGTTGTAGTAGAGCA-AGTTGAAG-TAACAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAACAGA-TTGAAGATAGCAA
*
76241113 GTCTTATCTCCCTGAAGTTGCAAT-GAAACAGATTGAAGATAGCAGA
1 -TCTTATCTCCCTGAAGTTGCAGTAG-AACAGATTGAAGATAGCA-A
** * * * *
76241159 TCTTATCTCCCTGAAGTTATAGCAGAATAGATCGAAAATAGCAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGCAA
* * * *
76241203 ACATTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TAGCAA
1 TC-TTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGCAA
*
76241247 GTCTTATCTCCCTAAAGTTG
1 -TCTTATCTCCCTGAAGTTG
76241267 AAATGGAGCA
Statistics
Matches: 285, Mismatches: 75, Indels: 33
0.73 0.19 0.08
Matches are distributed among these distances:
43 6 0.02
44 84 0.29
45 189 0.66
46 6 0.02
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGCAA
Found at i:76240940 original size:134 final size:134
Alignment explanation
Indices: 76240844--76241283 Score: 666
Period size: 134 Copynumber: 3.3 Consensus size: 134
76240834 TAAAGATTGT
*
76240844 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGATAGCAGATCTTATCTCCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAGATCTTATCTCCCTGAAGTT
* * * *
76240909 ACAACAGAATAGATCAAAGATTGCAAACCTTATCTCTCTGAAGTTGTAGTAGAACATGTTGAAGT
66 ACAGCAGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGTAGTAGAGCAAGTTGAAGT
*
76240974 ACCA
131 AACA
* * *
76240978 AGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTGAAAATAGCAGATCTTATCTCCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAGATCTTATCTCCCTGAAGTT
*
76241043 ACAGCAGAATAGATCAAAGATAGAAAACCTTATCTCTCTGAAGTTGTAGTAGAGCAAGTTGAAGT
66 ACAGCAGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGTAGTAGAGCAAGTTGAAGT
76241108 AACA
131 AACA
* * *
76241112 AGTCTTATCTCCCTGAAGTTGCAATGAAACAGATTGAAGATAGCAGATCTTATCTCCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAGATCTTATCTCCCTGAAGTT
* * * *
76241177 ATAGCAGAATAGATCGAAA-ATAGCAAACATTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG
66 ACAGCAGAATAGATC-AAAGATAGCAAACCTTATCTCTCTGAAGTTGTAGTAGAGCAAGTTGAAG
*
76241241 TAGCA
130 TAACA
* * * *
76241246 AGTCTTATCTCCCTAAAGTTGAAATGGAGCAAATTGAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
76241284 TACCACAAAC
Statistics
Matches: 278, Mismatches: 27, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
134 275 0.99
135 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (134 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAGATCTTATCTCCCTGAAGTT
ACAGCAGAATAGATCAAAGATAGCAAACCTTATCTCTCTGAAGTTGTAGTAGAGCAAGTTGAAGT
AACA
Found at i:76241462 original size:133 final size:133
Alignment explanation
Indices: 76241286--76241552 Score: 381
Period size: 133 Copynumber: 2.0 Consensus size: 133
76241276 AAATTGAATA
* *
76241286 CCACAAACCTTATCTAACTAAAGTAGCAGTGGAGCAGGTTGAAATTACCAACTCTTACCTCCTTG
1 CCACAAACCTTATCTAACTAAAGTAGCAATGGAACAGGTTGAAATTACCAACTCTTACCTCCTTG
* *
76241351 AAGTTCCAGCAGAGTAGATCGAAGCTACAACTATCTTCTCCCTAAAATTACATTGGAGCAGATCG
66 AACTTCCAGCAGAGTAGATCGAAGCTACAAATATCTTCTCCCTAAAATTACATTGGAGCAGATCG
76241416 AAG
131 AAG
* ** * * * *
76241419 CCACAATCCTTATCTCCCTGAAGTTGCAATGGAACAGGTTGAAATTACCAATTCTTATCTCCTTG
1 CCACAAACCTTATCTAACTAAAGTAGCAATGGAACAGGTTGAAATTACCAACTCTTACCTCCTTG
* * * * * *
76241484 AACTTTCAGCGGAGTAGATCGAAGCTACAAATTTCTTTTCCCTGAAATTACATTGGAGCGGATCG
66 AACTTCCAGCAGAGTAGATCGAAGCTACAAATATCTTCTCCCTAAAATTACATTGGAGCAGATCG
76241549 AAG
131 AAG
76241552 C
1 C
76241553 ACCAATTCCT
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
133 117 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (133 bp):
CCACAAACCTTATCTAACTAAAGTAGCAATGGAACAGGTTGAAATTACCAACTCTTACCTCCTTG
AACTTCCAGCAGAGTAGATCGAAGCTACAAATATCTTCTCCCTAAAATTACATTGGAGCAGATCG
AAG
Found at i:76241930 original size:10 final size:10
Alignment explanation
Indices: 76241915--76241940 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
76241905 AAGATATTAT
76241915 TTTATTTTAA
1 TTTATTTTAA
76241925 TTTATTTTAA
1 TTTATTTTAA
76241935 TTTATT
1 TTTATT
76241941 AAATTAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATTTTAA
Found at i:76242488 original size:15 final size:14
Alignment explanation
Indices: 76242415--76242571 Score: 65
Period size: 15 Copynumber: 10.8 Consensus size: 14
76242405 ATATATTATT
*
76242415 TTTAT-TATTATTA
1 TTTATCTATTTTTA
*
76242428 TGTT-TCTATTTCTA
1 T-TTATCTATTTTTA
*
76242442 TTTAT-T-TTGTTA
1 TTTATCTATTTTTA
*
76242454 TTCTAATACTATTATTA
1 TT-T-AT-CTATTTTTA
76242471 TTTATCTAATTTTTA
1 TTTATCT-ATTTTTA
*
76242486 TTTATCTATTTATA
1 TTTATCTATTTTTA
* *
76242500 TTTCTACTATTATTA
1 TTTAT-CTATTTTTA
*
76242515 TATT-TCAATTTATTA
1 T-TTATCTATTT-TTA
*
76242530 TATT-TCTATTTCTA
1 T-TTATCTATTTTTA
*
76242544 TTTATATCATGTTATTA
1 TTTATCT-AT-TT-TTA
*
76242561 TTTATTTATTT
1 TTTATCTATTT
76242572 ATGTCCTCCT
Statistics
Matches: 111, Mismatches: 17, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
12 6 0.05
13 8 0.07
14 33 0.30
15 41 0.37
16 8 0.07
17 15 0.14
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTATCTATTTTTA
Found at i:76242508 original size:44 final size:44
Alignment explanation
Indices: 76242459--76242565 Score: 121
Period size: 44 Copynumber: 2.4 Consensus size: 44
76242449 TGTTATTCTA
76242459 ATACTATTATTATTTATCTAATTT-TTAT-TTATCTATTTATATTT
1 ATACTATTATTATTTATC-AATTTATTATATT-TCTATTTATATTT
* *
76242503 CTACTATTATTATATT-TCAATTTATTATATTTCTATTTCTATTT
1 ATACTATTATTAT-TTATCAATTTATTATATTTCTATTTATATTT
*
76242547 ATATCATGTTATTATTTAT
1 ATA-C-TATTATTATTTAT
76242566 TTATTTATGT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
43 5 0.09
44 32 0.60
45 7 0.13
46 9 0.17
ACGTcount: A:0.29, C:0.08, G:0.01, T:0.62
Consensus pattern (44 bp):
ATACTATTATTATTTATCAATTTATTATATTTCTATTTATATTT
Found at i:76242607 original size:3 final size:3
Alignment explanation
Indices: 76242599--76242767 Score: 113
Period size: 3 Copynumber: 56.7 Consensus size: 3
76242589 TTTAAAACTT
76242599 TTA TTA TTA TTA TTA TTA -TA TT- TCTA TGTA TTA -TA TT- TCTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA T-TA TTA
* *
76242642 TATA TTTA TGTA TTA ATA TCA TTA TT- TT- TTA TT- TT- TTA TATA TTA
1 T-TA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * * * * *
76242687 TTG TTA TTA TCA TTA TTA TTA CTA TCA GTA CTA TTA TTA TTT TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
76242733 TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
76242768 TATAGTATAT
Statistics
Matches: 132, Mismatches: 20, Indels: 28
0.73 0.11 0.16
Matches are distributed among these distances:
2 15 0.11
3 101 0.77
4 15 0.11
5 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:76245260 original size:20 final size:18
Alignment explanation
Indices: 76245213--76245261 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
76245203 CAAGATAAAC
76245213 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
76245230 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
76245250 ATTAAATTAATA
1 ATTAAATTAATA
76245262 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:76252753 original size:43 final size:42
Alignment explanation
Indices: 76252621--76252783 Score: 204
Period size: 42 Copynumber: 3.9 Consensus size: 42
76252611 TTAGGGTTAC
*
76252621 TGAGATTACGTGTAAGACCATATCTGGG-TATGGCATCTATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
** * *
76252662 TGAGATTTTGTGTAAGACCTTATCTGGGATATGGCATTGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
76252704 TGAGATTTCGTGTAAGACCATAGT-TGGGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATA-TCTGGGATA-TGGCATCGATA
* * *
76252747 TTAGATTACATGTAAGACCATATTTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGATATGGCAT
76252784 TGGTACGATA
Statistics
Matches: 105, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
41 25 0.24
42 44 0.42
43 36 0.34
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.34
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:76252765 original size:85 final size:83
Alignment explanation
Indices: 76252621--76252785 Score: 224
Period size: 85 Copynumber: 2.0 Consensus size: 83
76252611 TTAGGGTTAC
* *** *
76252621 TGAGATTACGTGTAAGACCATATCTGGGTATGGCATCTATATGAGATTTTGTGTAAGACCTTATC
1 TGAGATTACGTGTAAGACCATATCTGGGTATGGCATCGATATGAGATTACATGTAAGACCATATC
76252686 TGGGATATGGCATTGATA
66 TGGGATATGGCATTGATA
* *
76252704 TGAGATTTCGTGTAAGACCATAGT-TGGGCTATTGGCATCGATATTAGATTACATGTAAGACCAT
1 TGAGATTACGTGTAAGACCATA-TCTGGG-TA-TGGCATCGATATGAGATTACATGTAAGACCAT
*
76252768 ATTTGGGATATGGCATTG
63 ATCTGGGATATGGCATTG
76252786 GTACGATACT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
83 25 0.35
84 3 0.04
85 43 0.61
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (83 bp):
TGAGATTACGTGTAAGACCATATCTGGGTATGGCATCGATATGAGATTACATGTAAGACCATATC
TGGGATATGGCATTGATA
Found at i:76273244 original size:17 final size:18
Alignment explanation
Indices: 76273218--76273251 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
76273208 TTTTTGTTTA
76273218 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
76273235 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
76273252 ATATTTGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:76273803 original size:25 final size:24
Alignment explanation
Indices: 76273766--76273833 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 24
76273756 TTTTCTCCTA
*
76273766 AATTTTAATTTTAATTAATTATT-T
1 AATTTTTA-TTTAATTAATTATTAT
76273790 AATTTTTCAATTT-ATTGAATTATTAAT
1 AATTTTT--ATTTAATT-AATTATT-AT
76273817 AATTTTTATTTAATTAA
1 AATTTTTATTTAATTAA
76273834 ATTTTTGAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
24 9 0.24
25 16 0.43
26 4 0.11
27 8 0.22
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (24 bp):
AATTTTTATTTAATTAATTATTAT
Found at i:76299848 original size:51 final size:49
Alignment explanation
Indices: 76299705--76300390 Score: 1090
Period size: 47 Copynumber: 14.1 Consensus size: 49
76299695 GAAATGACAG
76299705 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
76299754 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
76299803 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
76299854 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
*
76299905 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
76299952 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
76299999 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
76300046 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGAGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
76300093 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
76300142 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
76300191 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
76300242 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
*
76300293 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * * *
76300340 CAGGGTCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
76300387 TAAG
1 TAAG
76300391 TCCCGAAGGG
Statistics
Matches: 611, Mismatches: 18, Indels: 18
0.94 0.03 0.03
Matches are distributed among these distances:
47 230 0.38
48 1 0.00
49 181 0.30
51 199 0.33
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:76300565 original size:37 final size:37
Alignment explanation
Indices: 76300509--76300584 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
76300499 CCGAGCTCTA
** * *
76300509 AAGACCCGATGGCTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
76300546 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
76300583 AA
1 AA
76300585 CACTTCGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:76310137 original size:70 final size:69
Alignment explanation
Indices: 76310057--76310200 Score: 200
Period size: 70 Copynumber: 2.1 Consensus size: 69
76310047 ATCAAGGTAA
*
76310057 AAATAATTTTTTTAGA-ATAATTAATATAAACATGATATAAAATAAATAATAAAGAAAATAAAAG
1 AAATAATTTTTATA-ATATAATTAATATAAACATGATATAAAATAAATAATAAA-AAAATAAAAG
* *
76310121 AATAAT
64 AAGAAG
* * * *
76310127 AAATATTTTTTATAATATAATTAATATAAACATGTTATGAAATATATAATAAAAAAATAAAAGAA
1 AAATAATTTTTATAATATAATTAATATAAACATGATATAAAATAAATAATAAAAAAATAAAAGAA
76310192 GAAG
66 GAAG
76310196 AAATA
1 AAATA
76310201 GAAGAACAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
69 20 0.30
70 46 0.70
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (69 bp):
AAATAATTTTTATAATATAATTAATATAAACATGATATAAAATAAATAATAAAAAAATAAAAGAA
GAAG
Found at i:76310200 original size:23 final size:22
Alignment explanation
Indices: 76310174--76310217 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
76310164 TGAAATATAT
*
76310174 AATAAAAAAATAAAAGAAGAAGA
1 AATAAAAAAACAAAAG-AGAAGA
* *
76310197 AATAGAAGAACAAAAGAGAAG
1 AATAAAAAAACAAAAGAGAAG
76310218 GCATTTTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (22 bp):
AATAAAAAAACAAAAGAGAAGA
Found at i:76318231 original size:8 final size:8
Alignment explanation
Indices: 76318218--76318260 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
76318208 CTAAATCGAC
*
76318218 AAAAGCTG
1 AAAAGCTA
76318226 AAAAGCTA
1 AAAAGCTA
*
76318234 AAAAGCCA
1 AAAAGCTA
*
76318242 AAAAGGTA
1 AAAAGCTA
*
76318250 AAAAGCCA
1 AAAAGCTA
76318258 AAA
1 AAA
76318261 TGTGGGTTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.63, C:0.14, G:0.16, T:0.07
Consensus pattern (8 bp):
AAAAGCTA
Done.