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 109 of 332
Found at i:35056746 original size:22 final size:21
Alignment explanation
Indices: 35056700--35056748 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
35056690 TCTTTCCAAA
*
35056700 TTTTCTCAAATTTCTCTCAAT
1 TTTTGTCAAATTTCTCTCAAT
35056721 TTTTGTCAAAGTTGTCTCT-AAT
1 TTTTGTCAAA-TT-TCTCTCAAT
35056743 TTTTGT
1 TTTTGT
35056749 AAAAAAGCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 9 0.36
22 11 0.44
23 5 0.20
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.55
Consensus pattern (21 bp):
TTTTGTCAAATTTCTCTCAAT
Found at i:35058576 original size:18 final size:18
Alignment explanation
Indices: 35058536--35058582 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
35058526 ATTATGCGAG
*
35058536 ATATGTATCCTAGCCCTT
1 ATATGTATCCTAACCCTT
*
35058554 ATATGTATCCTAACCTTT
1 ATATGTATCCTAACCCTT
* *
35058572 TTATGTTTCCT
1 ATATGTATCCT
35058583 TTTCCCAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.21, C:0.23, G:0.09, T:0.47
Consensus pattern (18 bp):
ATATGTATCCTAACCCTT
Found at i:35059126 original size:9 final size:9
Alignment explanation
Indices: 35059112--35059142 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
35059102 TGACTACGGC
35059112 AATATTTTT
1 AATATTTTT
35059121 AATATTTTT
1 AATATTTTT
*
35059130 TATATTTTT
1 AATATTTTT
35059139 AATA
1 AATA
35059143 AAATATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
AATATTTTT
Found at i:35062636 original size:124 final size:125
Alignment explanation
Indices: 35062354--35062846 Score: 774
Period size: 126 Copynumber: 3.9 Consensus size: 125
35062344 TTTTTCCGAC
* *
35062354 AGTGCATCCTTCTTGATA-TGTTTTTGACACTATTTGTTCAGAAACATTTTCTCAAAATTATTTT
1 AGTGCATCCTTCTTGA-AGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTT
* * * * *
35062418 ATCATATACTACTGTAGCAAAAGAGCGTCCACGTGATAGTTTTTTTCTGTAATTTTGCTGAC
65 ATCAGATACTACTATAGCAAAAGAGCGTCCACGTGAGAG-CTTTTTCTGTAATTTTGCTGAT
35062480 AGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTA
1 AGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTA
* *
35062545 TCAGAT-CTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTGTAATTTTGCTGAT
66 TCAGATACTACTATAGCAAAAGAGCGTCCACGTGAGAGCTTTTTCTGTAATTTTGCTGAT
35062604 AGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTA
1 AGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTA
* * * * *
35062669 TCAGATATTACTATAGCAAAAGAGTGTCCACGTGGGAGCTATTTTCCGTAATTTTGTTGAT
66 TCAGATACTACTATAGCAAAAGAGCGTCCACGTGAGAGCT-TTTTCTGTAATTTTGCTGAT
* * *
35062730 AGTGCATCCTTCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAATTTATTTTT
1 AGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTA
* *
35062795 TCAGATACTACTATAGCAAAAGATCGTCCACGTGAGAGCTTTTTCGGTAATT
66 TCAGATACTACTATAGCAAAAGAGCGTCCACGTGAGAGCTTTTTCTGTAATT
35062847 AATAGTTAAT
Statistics
Matches: 344, Mismatches: 20, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
124 91 0.26
125 71 0.21
126 182 0.53
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (125 bp):
AGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTA
TCAGATACTACTATAGCAAAAGAGCGTCCACGTGAGAGCTTTTTCTGTAATTTTGCTGAT
Found at i:35062722 original size:250 final size:250
Alignment explanation
Indices: 35062174--35062846 Score: 976
Period size: 250 Copynumber: 2.7 Consensus size: 250
35062164 AGTCTAAGGC
* * * *
35062174 TTTT-TCAAATACTACTGTAGCAAAAGAACGTCCACATGGGAGCTTTTTTCCGTAATTTTACTGA
1 TTTTATCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGA
*
35062238 CAGTGCATCCTTCTTGAAGCGTTTTTAACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTT
66 CAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTT
*
35062303 ATCAAATACTTA-TGTAGCAAAAGAGCGTCCACGTGGGAG------CT-T--TTTTCCGACAGTG
131 ATCAGATAC-TACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTGTAATTTTCCGACAGTG
* *
35062358 CATCCTTCTTGATATGTTTTTGACACTATTTGTTCAGAAACATTTTCTCAAAATTA
195 CATCCTTCTTGATACGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* ** * *
35062414 TTTTATCATATACTACTGTAGCAAAAGAGCGTCCACGTGATAGTTTTTTTCTGTAATTTTGCTGA
1 TTTTATCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGA
35062479 CAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTT
66 CAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTT
* *
35062544 ATCAGAT-CTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTGTAATTTTGCTGATAGTG
131 ATCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTGTAATTTT-CCGACAGTG
35062608 CATCCTTCTTGA-AGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
195 CATCCTTCTTGATA-CGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
* * * * *
35062664 TTTTATCAGATATTACTATAGCAAAAGAGTGTCCACGTGGGAGCTATTTTCCGTAATTTTGTTGA
1 TTTTATCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGA
* * *
35062729 TAGTGCATCCTTCTTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAATTTATTTT
66 CAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTT
* * * * *
35062794 TTCAGATACTACTATAGCAAAAGATCGTCCACGTGAGAGCTTTTTCGGTAATT
131 ATCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTGTAATT
35062847 AATAGTTAAT
Statistics
Matches: 387, Mismatches: 32, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
239 2 0.01
240 32 0.08
241 122 0.32
246 2 0.01
247 1 0.00
249 5 0.01
250 182 0.47
251 41 0.11
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (250 bp):
TTTTATCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCCGTAATTTTGCTGA
CAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTT
ATCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCTGTAATTTTCCGACAGTGC
ATCCTTCTTGATACGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTA
Found at i:35063162 original size:159 final size:158
Alignment explanation
Indices: 35062874--35063495 Score: 887
Period size: 159 Copynumber: 4.0 Consensus size: 158
35062864 ATGAACCCTG
* ** *
35062874 AAAAAACCCTAAACCCTAATTTAATTAATTTTTAAAATTTCATAGTTAATTTAATTAATTAACCC
1 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCC
*
35062939 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAGCCACTAAAACCCTAA
66 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCCTAA
*
35063004 TCCTAAAACAATCAAAAACTCTAACCTT
131 TCCTAAAACAATCAAAAACCCTAACCTT
*
35063032 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTTATTTTTATAGTTAATTTAATTAATTAACC
1 AAAAAACCCTAAACCCTAATTTAATTGA-TTTTTTTATTTTCATAGTTAATTTAATTAATTAACC
* * * *
35063097 CTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACCCTGAAATCCTAAACTACTAAAACCCTA
65 CTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCCTA
* *
35063162 ATCCTAAAACAATCAAAAACCCTAGCTTT
130 ATCCTAAAACAATCAAAAACCCTAACCTT
* **
35063191 AAAAAACCCGAAACTATAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCC
1 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCC
* *
35063256 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACTCTAAATCACT--AA----AA
66 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCCTAA
* * * *
35063315 TCCT-AAAC--CCTAAAA---TGA--TA
131 TCCTAAAACAATCAAAAACCCTAACCTT
*
35063335 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAATCC
1 AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCC
* *
35063400 TCAACTCTAATTAAATTAA-TTTTACCTTTAAAAACACTAAAACCCTAAACCACTAAAACCCTAA
66 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCCTAA
* *
35063464 TCCTAAAATAATCAAAAACCCTAACCCT
131 TCCTAAAACAATCAAAAACCCTAACCTT
35063492 AAAA
1 AAAA
35063496 CAATCAAAAA
Statistics
Matches: 407, Mismatches: 42, Indels: 31
0.85 0.09 0.06
Matches are distributed among these distances:
143 31 0.08
144 81 0.20
145 2 0.00
146 1 0.00
149 11 0.03
150 3 0.01
151 4 0.01
152 11 0.03
155 2 0.00
156 2 0.00
157 4 0.01
158 112 0.28
159 143 0.35
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (158 bp):
AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACCC
TCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCACTAAAACCCTAA
TCCTAAAACAATCAAAAACCCTAACCTT
Found at i:35063180 original size:24 final size:22
Alignment explanation
Indices: 35063128--35063185 Score: 62
Period size: 24 Copynumber: 2.5 Consensus size: 22
35063118 TTTTCCCTTA
*
35063128 AAAAACCCTGAAATCCTAAACTAC
1 AAAAACCCT--AATCCTAAACAAC
*
35063152 TAAAACCCTAATCCTAAAACAATC
1 AAAAACCCTAATCCT-AAACAA-C
35063176 AAAAACCCTA
1 AAAAACCCTA
35063186 GCTTTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 6 0.21
23 5 0.17
24 18 0.62
ACGTcount: A:0.52, C:0.29, G:0.02, T:0.17
Consensus pattern (22 bp):
AAAAACCCTAATCCTAAACAAC
Found at i:35063320 original size:16 final size:16
Alignment explanation
Indices: 35063288--35063330 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
35063278 TTCCCTTAAA
35063288 AAACACTAAAA-CTCT
1 AAACACTAAAATCTCT
35063303 AAATCACTAAAATC-CT
1 AAA-CACTAAAATCTCT
*
35063319 AAACCCTAAAAT
1 AAACACTAAAAT
35063331 GATAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 11 0.44
16 13 0.52
17 1 0.04
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (16 bp):
AAACACTAAAATCTCT
Found at i:35063355 original size:144 final size:141
Alignment explanation
Indices: 35063190--35063493 Score: 466
Period size: 144 Copynumber: 2.1 Consensus size: 141
35063180 ACCCTAGCTT
* **
35063190 TAAAAAACCCGAAACTATAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACC
1 TAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACC
* * * *
35063255 CTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACTCTAAATCACTAAAATCCTA
66 CTCAACTCTAATTAAATTAA-TTTTACCTTAAAAAACACTAAAACCCTAAACCACTAAAACCCT-
*
35063320 AACCCTAAAATGA
129 AACCCTAAAATAA
*
35063333 TAAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAAT
1 T-AAAAAACCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAAC
*
35063398 CCTCAACTCTAATTAAATTAATTTTACCTTTAAAAACACTAAAACCCTAAACCACTAAAACCCTA
65 CCTCAACTCTAATTAAATTAATTTTACCTTAAAAAACACTAAAACCCTAAACCACTAAAACCCTA
*
35063463 ATCCTAAAATAA
130 ACCCTAAAATAA
*
35063475 TCAAAAACCCT-AACCCTAA
1 TAAAAAACCCTAAACCCTAA
35063494 AACAATCAAA
Statistics
Matches: 148, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
140 8 0.05
141 9 0.06
142 12 0.08
143 39 0.26
144 80 0.54
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (141 bp):
TAAAAAACCCTAAACCCTAATTTAATTGATTTTTTTATTTTCATAGTTAATTTAATTAATTAACC
CTCAACTCTAATTAAATTAATTTTACCTTAAAAAACACTAAAACCCTAAACCACTAAAACCCTAA
CCCTAAAATAA
Found at i:35063481 original size:24 final size:24
Alignment explanation
Indices: 35063454--35063519 Score: 114
Period size: 24 Copynumber: 2.8 Consensus size: 24
35063444 CTAAACCACT
* *
35063454 AAAACCCTAATCCTAAAATAATCA
1 AAAACCCTAACCCTAAAACAATCA
35063478 AAAACCCTAACCCTAAAACAATCA
1 AAAACCCTAACCCTAAAACAATCA
35063502 AAAACCCTAACCCTAAAA
1 AAAACCCTAACCCTAAAA
35063520 ACTTTAAACC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.15
Consensus pattern (24 bp):
AAAACCCTAACCCTAAAACAATCA
Found at i:35064040 original size:17 final size:18
Alignment explanation
Indices: 35064014--35064047 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
35064004 TTTTACATAA
35064014 GTTTTATTTTA-TTTTTG
1 GTTTTATTTTACTTTTTG
*
35064031 GTTTTTTTTTACTTTTT
1 GTTTTATTTTACTTTTT
35064048 AAAGGTTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.09, C:0.03, G:0.09, T:0.79
Consensus pattern (18 bp):
GTTTTATTTTACTTTTTG
Found at i:35068297 original size:12 final size:13
Alignment explanation
Indices: 35068273--35068297 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35068263 TTATAATGAA
35068273 TTTTTAAATTTTT
1 TTTTTAAATTTTT
35068286 TTTTTAAATTTT
1 TTTTTAAATTTT
35068298 GAGTGACATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTAAATTTTT
Found at i:35075372 original size:15 final size:14
Alignment explanation
Indices: 35075341--35075374 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
35075331 CGATTTGATG
*
35075341 TTAAATTAATTAAA
1 TTAAATTAATCAAA
35075355 TTAAATTATATCAAA
1 TTAAATTA-ATCAAA
35075370 TTAAA
1 TTAAA
35075375 ATTTAGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAAATTAATCAAA
Found at i:35075597 original size:26 final size:27
Alignment explanation
Indices: 35075562--35075628 Score: 118
Period size: 26 Copynumber: 2.5 Consensus size: 27
35075552 TAGTATTGTT
35075562 TTTTTGGGATAAATCAACTAATA-TTG
1 TTTTTGGGATAAATCAACTAATATTTG
35075588 TTTTTGGGATAAATCAACTAATATTTG
1 TTTTTGGGATAAATCAACTAATATTTG
*
35075615 TTTTGGGGATAAAT
1 TTTTTGGGATAAAT
35075629 TAACATTTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 23 0.59
27 16 0.41
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (27 bp):
TTTTTGGGATAAATCAACTAATATTTG
Found at i:35077552 original size:18 final size:18
Alignment explanation
Indices: 35077522--35077569 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
35077512 AGAATTATTT
*
35077522 TTTTAAAGAATTA-TAAAG
1 TTTTAAA-AATTATTAAAA
35077540 TTTTAAAACATTATTAAAA
1 TTTTAAAA-ATTATTAAAA
35077559 TTTATAAAAAT
1 TTT-TAAAAAT
35077570 ATTTACTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 1 0.04
18 11 0.42
19 9 0.35
20 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (18 bp):
TTTTAAAAATTATTAAAA
Found at i:35083669 original size:30 final size:31
Alignment explanation
Indices: 35083630--35083688 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
35083620 GATGGGATGA
*
35083630 GAAGAGAGTAAAAATTTTGGGGGAAAAGTGG
1 GAAGAGAGTAAAAATTTTGGAGGAAAAGTGG
* *
35083661 GAAG-GAGTAAAAGTTTTGGATGAAAAGT
1 GAAGAGAGTAAAAATTTTGGAGGAAAAGT
35083689 AAAGAGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.36, T:0.22
Consensus pattern (31 bp):
GAAGAGAGTAAAAATTTTGGAGGAAAAGTGG
Found at i:35086295 original size:29 final size:31
Alignment explanation
Indices: 35086263--35086322 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
35086253 ATACAATTTA
35086263 AATTTAGTCTCTT-TA-TTTTT-ATTTTAAAG
1 AATTTAGT-TCTTATACTTTTTAATTTTAAAG
35086292 AATTTAGTTCTTATACTTTTTAGATTTTAAA
1 AATTTAGTTCTTATACTTTTTA-ATTTTAAA
35086323 ATTCAAGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 4 0.15
29 10 0.37
30 5 0.19
32 8 0.30
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (31 bp):
AATTTAGTTCTTATACTTTTTAATTTTAAAG
Found at i:35087905 original size:43 final size:46
Alignment explanation
Indices: 35087857--35087954 Score: 141
Period size: 43 Copynumber: 2.2 Consensus size: 46
35087847 TTCCTAAAAG
* *
35087857 ATAATATCCCATTAGGAATCAAATTGCTAAGA-GATAATAT-C-AT-
1 ATAATATCCCATTAGGAATCAAACTACTAA-ACGATAATATACAATA
35087900 ATAATATCCCATTAGGAATCAAACTACTAAACGATAATATACAATA
1 ATAATATCCCATTAGGAATCAAACTACTAAACGATAATATACAATA
35087946 ATAATATCC
1 ATAATATCC
35087955 TAACAGCCTC
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
42 1 0.02
43 36 0.73
44 1 0.02
45 2 0.04
46 9 0.18
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (46 bp):
ATAATATCCCATTAGGAATCAAACTACTAAACGATAATATACAATA
Found at i:35089678 original size:44 final size:44
Alignment explanation
Indices: 35089615--35089702 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
35089605 AAGATGAGAG
35089615 ATAGACTTTTCTTTATGATGGTATGAGTAAAAAAATCTCTAAGC
1 ATAGACTTTTCTTTATGATGGTATGAGTAAAAAAATCTCTAAGC
35089659 ATAGACTTTTCTTTATGATGGTATGAGTAAAAAAATCTCTAAGC
1 ATAGACTTTTCTTTATGATGGTATGAGTAAAAAAATCTCTAAGC
35089703 TTTACAAAGG
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:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (44 bp):
ATAGACTTTTCTTTATGATGGTATGAGTAAAAAAATCTCTAAGC
Found at i:35092793 original size:48 final size:46
Alignment explanation
Indices: 35092721--35092936 Score: 186
Period size: 46 Copynumber: 4.6 Consensus size: 46
35092711 CTATCGGTGT
*
35092721 CGATGCCATGTCCCAGACAGGTCTTACACTAGGTTGTATATCGTGAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACT-GGTTGTATATC-TGAGGC
* * * * * **
35092770 TGATGCATGTCCCAGACATGTCTTATACTAGCTT-TCGTCTCT-ATAC
1 CGATGCATGTCCCAGACATGTCTTACACT-GGTTGT-ATATCTGAGGC
**
35092816 CGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGG-TTGTATATCT-GAGGC
* * * * * *
35092864 CAATGTATGTCTCAGACATGTCTTACACTGGCTGTCAT-GCTGTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGTTGT-ATATCTGAGGC
*
35092910 TGATGCATGTCCCAGACATGTCTTACA
1 CGATGCATGTCCCAGACATGTCTTACA
35092937 TTAGTACACA
Statistics
Matches: 133, Mismatches: 28, Indels: 15
0.76 0.16 0.09
Matches are distributed among these distances:
45 1 0.01
46 62 0.47
47 5 0.04
48 61 0.46
49 4 0.03
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGTTGTATATCTGAGGC
Found at i:35092839 original size:94 final size:94
Alignment explanation
Indices: 35092721--35092936 Score: 240
Period size: 94 Copynumber: 2.3 Consensus size: 94
35092711 CTATCGGTGT
* ** **
35092721 CGATGCCATGTCCCAGACAGGTCTTACACTAGG-TTGTATATCGT-GAGGCTGATGCATGTCCCA
1 CGATG-CATGTCCCAGACATGTCTTACACT-GGCTTAAATATC-TCGAGGCCAATGCATGTCCCA
* * * *
35092784 GACATGTCTTATACTAGCTTTCGT-CTCTATAC
63 GACATGTCTTACACTAGCTGTCATGCTCT-GAC
* *
35092816 CGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCAATGTATGTCTCAGAC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCAATGCATGTCCCAGAC
* * *
35092881 ATGTCTTACACTGGCTGTCATGCTGTGGC
66 ATGTCTTACACTAGCTGTCATGCTCTGAC
*
35092910 TGATGCATGTCCCAGACATGTCTTACA
1 CGATGCATGTCCCAGACATGTCTTACA
35092937 TTAGTACACA
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
93 3 0.03
94 92 0.89
95 8 0.08
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (94 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCAATGCATGTCCCAGAC
ATGTCTTACACTAGCTGTCATGCTCTGAC
Found at i:35096101 original size:40 final size:40
Alignment explanation
Indices: 35096046--35096227 Score: 305
Period size: 40 Copynumber: 4.6 Consensus size: 40
35096036 TGTTCGAATG
35096046 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
35096086 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
35096126 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
35096166 ATATACGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
35096206 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
35096228 TACTTGGGTT
Statistics
Matches: 135, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.10
40 119 0.88
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:35099707 original size:90 final size:90
Alignment explanation
Indices: 35099582--35099758 Score: 221
Period size: 90 Copynumber: 2.0 Consensus size: 90
35099572 ATTATCTAGC
* * *
35099582 AGCTTTTATCTACAACTATGTTGTACATTCACAACCATCTAGCAGTATATTAACCTGCGACACTG
1 AGCTTTTATCTACAACTAGGCTGTACATTCACAACCATCTAGCAGTATATTAACCTGCAACACTG
* *
35099647 GTGGTTCATCTACCTATTTTCTGGT
66 GTGGTTCATCCACCTATATTCTGGT
* * * * * * *
35099672 AGCTTTTATCTGCAATTAGGCTGTGCATT-ATCAACCATCTGGTAGTGTATTAACCTGCAACAGT
1 AGCTTTTATCTACAACTAGGCTGTACATTCA-CAACCATCTAGCAGTATATTAACCTGCAACACT
*
35099736 GGTGTTTCATCCACCTATATTCT
65 GGTGGTTCATCCACCTATATTCT
35099759 AGCAGTTCTC
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
89 1 0.01
90 72 0.99
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (90 bp):
AGCTTTTATCTACAACTAGGCTGTACATTCACAACCATCTAGCAGTATATTAACCTGCAACACTG
GTGGTTCATCCACCTATATTCTGGT
Found at i:35099797 original size:90 final size:90
Alignment explanation
Indices: 35099554--35099803 Score: 209
Period size: 90 Copynumber: 2.8 Consensus size: 90
35099544 CTACAAAACT
* ** * * * ** *
35099554 CTGGTTGTTCATCCACAGAT-TATCTAGCAGCTTTTATCTACAACTATGTTGTACATTCACAACC
1 CTGGTGGTTCATCCACCTATAT-TCTAGCAGCTTTCATATGCAAAAATGTTGTACATTTACAACC
*
35099618 ATCTAGCAGTATATTAACCTGCGACA
65 ATCTAGCAGTATATTAACCTGCAACA
* * * * * * ** * * *
35099644 CTGGTGGTTCATCTACCTATTTTCTGGTAGCTTTTATCTGCAATTAGGCTGTGCA-TTATCAACC
1 CTGGTGGTTCATCCACCTATATTCTAGCAGCTTTCATATGCAAAAATGTTGTACATTTA-CAACC
* * *
35099708 ATCTGGTAGTGTATTAACCTGCAACA
65 ATCTAGCAGTATATTAACCTGCAACA
* * *
35099734 GTGGTGTTTCATCCACCTATATTCTAGCAG-TTCTCATATGCAAAAATGTTGTTCATTTACAACC
1 CTGGTGGTTCATCCACCTATATTCTAGCAGCTT-TCATATGCAAAAATGTTGTACATTTACAACC
35099798 ATCTAG
65 ATCTAG
35099804 TGACATATTA
Statistics
Matches: 126, Mismatches: 30, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
89 4 0.03
90 118 0.94
91 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (90 bp):
CTGGTGGTTCATCCACCTATATTCTAGCAGCTTTCATATGCAAAAATGTTGTACATTTACAACCA
TCTAGCAGTATATTAACCTGCAACA
Found at i:35103051 original size:21 final size:19
Alignment explanation
Indices: 35103004--35103053 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
35102994 AAACAAAAAT
*
35103004 ATATATTTTTTAAATTTCT
1 ATATATTTTTTAAATTTCC
* *
35103023 ATAAATTTTATATAACTTTCC
1 ATATATTTT-T-TAAATTTCC
35103044 ATATATTTTT
1 ATATATTTTT
35103054 CTGATTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 8 0.32
20 2 0.08
21 15 0.60
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATATTTTTTAAATTTCC
Found at i:35106839 original size:22 final size:23
Alignment explanation
Indices: 35106813--35106857 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
35106803 TCGAATAAAC
35106813 TAAATACTAAA-CTATATTATTT
1 TAAATACTAAATCTATATTATTT
** *
35106835 TAAATTTTAAATTTATATTATTT
1 TAAATACTAAATCTATATTATTT
35106858 ACTCTAATCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
TAAATACTAAATCTATATTATTT
Found at i:35113888 original size:42 final size:40
Alignment explanation
Indices: 35113816--35113894 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 40
35113806 TGTTTTTGCA
*
35113816 CACAGGCTAGGACACGGGCGTGTCATGGCCGTGTGAAGGG
1 CACAGGCCAGGACACGGGCGTGTCATGGCCGTGTGAAGGG
*
35113856 CACAGGCCAGGGACACGGGCATGTTTCA-GGCCGTGTGAA
1 CACAGGCCA-GGACACGGGC--GTGTCATGGCCGTGTGAA
35113895 AACCCCTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 8 0.24
41 10 0.29
42 11 0.32
43 5 0.15
ACGTcount: A:0.22, C:0.24, G:0.39, T:0.15
Consensus pattern (40 bp):
CACAGGCCAGGACACGGGCGTGTCATGGCCGTGTGAAGGG
Found at i:35118105 original size:41 final size:41
Alignment explanation
Indices: 35118060--35118148 Score: 142
Period size: 41 Copynumber: 2.2 Consensus size: 41
35118050 TGTGCATAGT
*
35118060 AGGCTTAGTGTCGGTGTATTGATTCAGGCTTCATGCCTAGC
1 AGGCTTAGTGTCGGTGTATTGATTCAGACTTCATGCCTAGC
**
35118101 AGGCTTAGTGTCGGTGTATTGATTCAGACTTTGTGCCTAGC
1 AGGCTTAGTGTCGGTGTATTGATTCAGACTTCATGCCTAGC
*
35118142 TGGCTTA
1 AGGCTTA
35118149 ATGCCGATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.17, C:0.18, G:0.29, T:0.36
Consensus pattern (41 bp):
AGGCTTAGTGTCGGTGTATTGATTCAGACTTCATGCCTAGC
Found at i:35118186 original size:38 final size:38
Alignment explanation
Indices: 35118135--35118223 Score: 92
Period size: 38 Copynumber: 2.3 Consensus size: 38
35118125 CAGACTTTGT
* * * *
35118135 GCCTAGCT-GGCTTAATGCC-GATGTTATTTAGGCTTAAT
1 GCCTAG-TAGGCTTAATGCCAG-TGTTACTCAAGCTTAAA
* *
35118173 GTCTAGTAGGCTTAGTGCCAGTGTTACTCAAGCTTAAA
1 GCCTAGTAGGCTTAATGCCAGTGTTACTCAAGCTTAAA
35118211 GCCTAGTAGGCTT
1 GCCTAGTAGGCTT
35118224 GATACCGGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
37 1 0.02
38 40 0.95
39 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (38 bp):
GCCTAGTAGGCTTAATGCCAGTGTTACTCAAGCTTAAA
Found at i:35120276 original size:46 final size:48
Alignment explanation
Indices: 35120134--35120394 Score: 211
Period size: 47 Copynumber: 5.6 Consensus size: 48
35120124 TGTGGGCTAC
* * *
35120134 TGTAAG-ACATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGAGCCTG
1 TGTAAGAACATGTCTGGGACATGGCATCGGCCTCGA-GATGAGAGCCAG
* * * * * *
35120180 TATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAG
1 TGTAAGAACATGTCTGGGACATGGCATCGGCCTCGAGATGAGAGCCAG
*
35120228 TGTAA-AACATGTCTGGGACAT-GCATCGGCCTCGAGACGTA-AGCCAG
1 TGTAAGAACATGTCTGGGACATGGCATCGGCCTCGAGATG-AGAGCCAG
* * * * * *
35120274 TGTAAG-ATATGTATAGGACAT-GCATCGG-GTACGAGATGATAGTCAG
1 TGTAAGAACATGTCTGGGACATGGCATCGGCCT-CGAGATGAGAGCCAG
* * * *
35120320 TGTAAGACCATGTCTGGGACATAGCATC-GACTTGAGAT-ATGAGCCAG
1 TGTAAGAACATGTCTGGGACATGGCATCGGCCTCGAGATGA-GAGCCAG
* *
35120367 GGTAAGACCATGTCTGGGACATGGCATC
1 TGTAAGAACATGTCTGGGACATGGCATC
35120395 AGTACCTTAC
Statistics
Matches: 174, Mismatches: 30, Indels: 21
0.77 0.13 0.09
Matches are distributed among these distances:
45 2 0.01
46 67 0.39
47 78 0.45
48 26 0.15
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
TGTAAGAACATGTCTGGGACATGGCATCGGCCTCGAGATGAGAGCCAG
Found at i:35121286 original size:42 final size:42
Alignment explanation
Indices: 35121240--35121327 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
35121230 GTCTCAGCCA
*
35121240 TGTGGAGGGCACGGCCTAGCACACGGGCGTGTGCATTGGCCG
1 TGTGGAAGGCACGGCCTAGCACACGGGCGTGTGCATTGGCCG
*
35121282 TGTGGAAGGCACGGCCTAGTACACGGGCGTGTGCATTGGCCG
1 TGTGGAAGGCACGGCCTAGCACACGGGCGTGTGCATTGGCCG
35121324 TGTG
1 TGTG
35121328 ACATCATGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.15, C:0.24, G:0.42, T:0.19
Consensus pattern (42 bp):
TGTGGAAGGCACGGCCTAGCACACGGGCGTGTGCATTGGCCG
Found at i:35122272 original size:32 final size:32
Alignment explanation
Indices: 35122236--35122302 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
35122226 ATTATGATGT
35122236 TAAGTGTTTTCTGACTGTATGGTAATGCTCCA
1 TAAGTGTTTTCTGACTGTATGGTAATGCTCCA
35122268 TAAGTGTTTTCTGACTGTATGGTAATGCTCCA
1 TAAGTGTTTTCTGACTGTATGGTAATGCTCCA
35122300 TAA
1 TAA
35122303 CCCTTGTTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (32 bp):
TAAGTGTTTTCTGACTGTATGGTAATGCTCCA
Found at i:35122486 original size:102 final size:102
Alignment explanation
Indices: 35122370--35122584 Score: 340
Period size: 102 Copynumber: 2.1 Consensus size: 102
35122360 ATGTTGTGAG
* * * *
35122370 ACACATCCCCTTTTTCACTCCTTATTTCACTCTCTTGCCAAAACCTCCTTTCTTGTCATAAGATT
1 ACACATCCCTTTTTTCAATCATTATTTCACTCTCTTGCCAAAACCTCCTTTCTTGTCATAAAATT
35122435 GTGATACAATGAACCTGGTTAAAGTTGACCAAGCTAC
66 GTGATACAATGAACCTGGTTAAAGTTGACCAAGCTAC
35122472 ACACATCCCTTTTTTCAATCATTATTTCACTCTCTTGCCAAAACCTCCTTTCTTGTCATAAAATT
1 ACACATCCCTTTTTTCAATCATTATTTCACTCTCTTGCCAAAACCTCCTTTCTTGTCATAAAATT
* * * * *
35122537 GTGGTAGAATGCACTTGGTTATAGTTGACCAAGCTAC
66 GTGATACAATGAACCTGGTTAAAGTTGACCAAGCTAC
*
35122574 ACACACCCCTT
1 ACACATCCCTT
35122585 GTGCCATCCA
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.35
Consensus pattern (102 bp):
ACACATCCCTTTTTTCAATCATTATTTCACTCTCTTGCCAAAACCTCCTTTCTTGTCATAAAATT
GTGATACAATGAACCTGGTTAAAGTTGACCAAGCTAC
Found at i:35125274 original size:31 final size:31
Alignment explanation
Indices: 35125234--35125295 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 31
35125224 TTAAATTTTA
35125234 TAAATAATTAATATTT-AT-TACTTAAAAATATT
1 TAAATAATT-ATATTTCATATA-TT-AAAATATT
35125266 TAAA-AATTATATTTCATATATTAAAATATT
1 TAAATAATTATATTTCATATATTAAAATATT
35125296 AACAACAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
30 14 0.50
31 8 0.29
32 6 0.21
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (31 bp):
TAAATAATTATATTTCATATATTAAAATATT
Found at i:35127966 original size:14 final size:14
Alignment explanation
Indices: 35127949--35127978 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
35127939 TTAAGAAAAC
35127949 TTAATTCACATTTA
1 TTAATTCACATTTA
35127963 TTAATTCACATTTA
1 TTAATTCACATTTA
35127977 TT
1 TT
35127979 GATTGAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAATTCACATTTA
Found at i:35134356 original size:26 final size:25
Alignment explanation
Indices: 35134316--35134380 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
35134306 AAAATGGTTT
* **
35134316 CATTACTTATTTTAAATTGTTCTACA
1 CATTA-TTATGTTAAATAATTCTACA
* *
35134342 CATTATTTATGTTAAATAATTTTATA
1 CATTA-TTATGTTAAATAATTCTACA
35134368 CATTATTATGTTA
1 CATTATTATGTTA
35134381 TACATTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 8 0.24
26 25 0.76
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (25 bp):
CATTATTATGTTAAATAATTCTACA
Found at i:35151328 original size:40 final size:40
Alignment explanation
Indices: 35151284--35151395 Score: 147
Period size: 40 Copynumber: 2.8 Consensus size: 40
35151274 CAAAATTTAA
** *
35151284 CCGGTTATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGTTATAG-TAACTCGCACAAATGCCTTCGGGACATAAC
*
35151324 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACATAAC
*
35151364 CCGGATT-TAGTAACTCGCACCAATGCCTTCGG
1 CCGG-TTATAGTAACTCGCACAAATGCCTTCGG
35151396 ATCTTAGTCC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.02
40 62 0.95
41 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:35151408 original size:40 final size:41
Alignment explanation
Indices: 35151303--35151448 Score: 176
Period size: 40 Copynumber: 3.6 Consensus size: 41
35151293 GCTACTCGTT
*
35151303 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
*
35151343 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* * * * *
35151383 CCAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCA
35151424 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35151449 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
39 4 0.04
40 75 0.82
41 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
Found at i:35153216 original size:44 final size:44
Alignment explanation
Indices: 35153167--35153789 Score: 192
Period size: 44 Copynumber: 14.0 Consensus size: 44
35153157 TTTATCCACC
**
35153167 AGTCTTATCTCTCTGAGGTAGCAAGGGAGCAGGTTGAAGATTGT
1 AGTCTTATCTCTCTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
35153211 AGTCTTATCT-TCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
1 AGTCTTATCTCT-CTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
* ** * *
35153255 AGATCTTCTCTC-CTGAAATTA-C-AGTGGAACAGA-TCGAAGA-CG-
1 AG-TCTTATCTCTCTG-AGGTAGCAAG-GGAGCAGACT-GAAGATTGT
** * * * * * * *
35153297 ACGAATCTTATCT-TCCCAAGGTATCAGGGGAGTAGATTTTAACCA--CT
1 A-G--TCTTATCTCT-CTGAGGTAGCAAGGGAGCAGA-CTGAA-GATTGT
* * *
35153344 AGCCTTATCTCTCTGAGATAG-TAGGAGAGC-GAGCTGAAGATTGT
1 AGTCTTATCTCTCTGAGGTAGCAAGG-GAGCAGA-CTGAAGATTGT
* * * *
35153388 AGTCTTATCT-TCCTGAGGTAGCAAGGGAGTAAACTAAAAATTGT
1 AGTCTTATCTCT-CTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
* * * * **
35153432 AGATATTGTCTC-CTCGAGATAGC-AGTGGAGCAGA-TCGAAAACGGT
1 AG-TCTTATCTCTCT-GAGGTAGCAAG-GGAGCAGACT-GAAGATTGT
* * ** * * ** *****
35153477 GAATCTTATCTTTCCAAGGTAGCAGGGGAGCAGATTTTAGCCACC
1 -AGTCTTATCTCTCTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
* * *
35153522 AGTCTTATCTCTCTGAGGTAGCAAGGGAGTAGGCTAAAGATTGT
1 AGTCTTATCTCTCTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
* *
35153566 AATCTTATCT-TCCTGAGGTAGTAAGGGAGCAGACTGAAGATTGT
1 AGTCTTATCTCT-CTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
* * * * **
35153610 ATGTCTTGTCTC-CTTGAGATAGC-AGTGAAACAGACTGAAGACAGT
1 A-GTCTTATCTCTC-TGAGGTAGCAAG-GGAGCAGACTGAAGATTGT
* * * * * ** *****
35153655 AAATCTTATCT-TCCCGAGGTAGCAGGGGAGTAGATTTTACCCACT
1 -AGTCTTATCTCT-CTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
* * * **
35153700 AGCCTTATCTTTCTGAGGTAG-AAGGAGAGCGGGTTGAAGATTGT
1 AGTCTTATCTCTCTGAGGTAGCAAGG-GAGCAGACTGAAGATTGT
* * *
35153744 AGTCTTATCT-TCCTGAGGTAGCAACGGAGCAAACTGAAAATTGT
1 AGTCTTATCTCT-CTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
35153788 AG
1 AG
35153790 ATATTGTCTT
Statistics
Matches: 410, Mismatches: 124, Indels: 90
0.66 0.20 0.14
Matches are distributed among these distances:
42 2 0.00
43 19 0.05
44 248 0.60
45 127 0.31
46 11 0.03
47 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCTCTGAGGTAGCAAGGGAGCAGACTGAAGATTGT
Found at i:35153534 original size:178 final size:179
Alignment explanation
Indices: 35153147--35153906 Score: 925
Period size: 178 Copynumber: 4.3 Consensus size: 179
35153137 GTCACAAACA
* * *
35153147 GGGAGTAGATTTTATCCACCAGTCTTATCTCTCTGAGGTAGCAAGGGAGC-AGGTTGAAGATTGT
1 GGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCGAGGCTGAAGATTGT
* * * * *
35153211 AGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTCTCTCCT-GAAATT
66 AGTCTTATCTTCCTGAGGTAGCAAGGGAGCAAACTGAAAATTGTAGATATTGTCTCCTCGAGA-T
* *
35153275 A-CAGTGGAACAGATCGAAGACGACGAATCTTATCTTCCCAAGGTATCAG
130 AGCAGTGGAACAGATCGAAGACGATGAATCTTATCTTCCCAAGGTAGCAG
* * * *
35153324 GGGAGTAGATTTTAACCACTAGCCTTATCTCTCTGAGATAG-TAGGAGAGCGA-GCTGAAGATTG
1 GGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGG-GAGCGAGGCTGAAGATTG
* *
35153387 TAGTCTTATCTTCCTGAGGTAGCAAGGGAGTAAACTAAAAATTGTAGATATTGTCTCCTCGAGAT
65 TAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAAACTGAAAATTGTAGATATTGTCTCCTCGAGAT
* * * *
35153452 AGCAGTGGAGCAGATCGAAAACGGTGAATCTTATCTTTCCAAGGTAGCAG
130 AGCAGTGGAACAGATCGAAGACGATGAATCTTATCTTCCCAAGGTAGCAG
* * * *
35153502 GGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCAAGGGAG-TAGGCTAAAGATTGT
1 GGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCGAGGCTGAAGATTGT
* * * * * *
35153566 AATCTTATCTTCCTGAGGTAGTAAGGGAGCAGACTGAAGATTGTATG-TCTTGTCTCCTTGAGAT
66 AGTCTTATCTTCCTGAGGTAGCAAGGGAGCAAACTGAAAATTGTA-GATATTGTCTCCTCGAGAT
* * *
35153630 AGCAGTGAAACAGA-CTGAAGAC-AGTAAATCTTATCTTCCCGAGGTAGCAG
130 AGCAGTGGAACAGATC-GAAGACGA-TGAATCTTATCTTCCCAAGGTAGCAG
* * * *
35153680 GGGAGTAGATTTTACCCACTAGCCTTATCTTTCTGAGGTAG-AAGGAGAGCG-GGTTGAAGATTG
1 GGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGG-GAGCGAGGCTGAAGATTG
* * *
35153743 TAGTCTTATCTTCCTGAGGTAGCAACGGAGCAAACTGAAAATTGTAGATATTGTCTTCTCAAGAT
65 TAGTCTTATCTTCCTGAGGTAGCAAGGGAGCAAACTGAAAATTGTAGATATTGTCTCCTCGAGAT
* * * *
35153808 AACAGTGGAGCAGATCGAATACGATGAATCTTATCTTCCCGAGGTAGTC-G
130 AGCAGTGGAACAGATCGAAGACGATGAATCTTATCTTCCCAAGGTAG-CAG
* * * *
35153858 GGGAGTAGAGTTTAGCCACTAGCTTTATCT-TCTTGAGGTAGAAAGGGAG
1 GGGAGTAGATTTTAGCCACCAGCCTTATCTCTC-TGAGGTAGCAAGGGAG
35153907 TAGACTGATG
Statistics
Matches: 499, Mismatches: 67, Indels: 33
0.83 0.11 0.06
Matches are distributed among these distances:
176 3 0.01
177 115 0.23
178 370 0.74
179 11 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (179 bp):
GGGAGTAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCGAGGCTGAAGATTGT
AGTCTTATCTTCCTGAGGTAGCAAGGGAGCAAACTGAAAATTGTAGATATTGTCTCCTCGAGATA
GCAGTGGAACAGATCGAAGACGATGAATCTTATCTTCCCAAGGTAGCAG
Found at i:35153816 original size:356 final size:354
Alignment explanation
Indices: 35153147--35153909 Score: 1108
Period size: 356 Copynumber: 2.1 Consensus size: 354
35153137 GTCACAAACA
* * * *
35153147 GGGAGTAGATTTTATCCACCAGTCTTATCTCTCTGAGGTAGCAAGGGAGCAGGTTGAAGATTGTA
1 GGGAGTAGATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCAAGGGAGTAGGCTAAAGATTGTA
*
35153212 GTCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTCTCTCCTGAAATTAC
66 ATCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTCTCTCCTGAAATTAC
* *
35153277 AGTGGAACAGATCGAAGACGACGAATCTTATCTTCCCAAGGTATCAGGGGAGTAGATTTTAACCA
131 AGTGAAACAGATCGAAGACGAC-AATCTTATCTTCCCAAGGTAGCAGGGGAGTAGATTTTAACCA
*
35153342 CTAGCCTTATCTCTCTGAGATAGTAGGAGAGCGAGCTGAAGATTGTAGTCTTATCTTCCTGAGGT
195 CTAGCCTTATCTCTCTGAGATAGAAGGAGAGCGAGCTGAAGATTGTAGTCTTATCTTCCTGAGGT
* * * *
35153407 AGCAAGGGAGTAAACTAAAAATTGTAGATATTGTCTCCTCGAGATAGCAGTGGAGCAGATCGAAA
260 AGCAACGGAGCAAACTAAAAATTGTAGATATTGTCTCCTCAAGATAACAGTGGAGCAGATCGAAA
* *
35153472 ACGGTGAATCTTATCTTTCCAAGGTAG-CAG
325 ACGATGAATCTTATCTTCCCAAGGTAGTC-G
*
35153502 GGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCAAGGGAGTAGGCTAAAGATTGTA
1 GGGAGTAGATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCAAGGGAGTAGGCTAAAGATTGTA
* * *
35153567 ATCTTATCTTCCTGAGGTAGTAAGGGAGCAGACTGAAGATTGTATG-TCTTGTCTCCTTGAGA-T
66 ATCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTA-GATCTTCTCTCC-TGAAATT
*
35153630 AGCAGTGAAACAGA-CTGAAGACAGTA-AATCTTATCTTCCCGAGGTAGCAGGGGAGTAGATTTT
129 A-CAGTGAAACAGATC-GAAGAC-G-ACAATCTTATCTTCCCAAGGTAGCAGGGGAGTAGATTTT
* * * * *
35153693 ACCCACTAGCCTTATCTTTCTGAGGTAGAAGGAGAGCGGGTTGAAGATTGTAGTCTTATCTTCCT
190 AACCACTAGCCTTATCTCTCTGAGATAGAAGGAGAGCGAGCTGAAGATTGTAGTCTTATCTTCCT
* *
35153758 GAGGTAGCAACGGAGCAAACTGAAAATTGTAGATATTGTCTTCTCAAGATAACAGTGGAGCAGAT
255 GAGGTAGCAACGGAGCAAACTAAAAATTGTAGATATTGTCTCCTCAAGATAACAGTGGAGCAGAT
* *
35153823 CGAATACGATGAATCTTATCTTCCCGAGGTAGTCG
320 CGAAAACGATGAATCTTATCTTCCCAAGGTAGTCG
* * *
35153858 GGGAGTAGAGTTTAGCCACTAG-CTTTATCT-TCTTGAGGTAGAAAGGGAGTAG
1 GGGAGTAGATTTTAGCCACCAGTC-TTATCTCTC-TGAGGTAGCAAGGGAGTAG
35153910 ACTGATGATG
Statistics
Matches: 367, Mismatches: 32, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
355 117 0.32
356 247 0.67
357 2 0.01
358 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (354 bp):
GGGAGTAGATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCAAGGGAGTAGGCTAAAGATTGTA
ATCTTATCTTCCTGAGGTAGCAAGGGAGCAGACTGAAGATTGTAGATCTTCTCTCCTGAAATTAC
AGTGAAACAGATCGAAGACGACAATCTTATCTTCCCAAGGTAGCAGGGGAGTAGATTTTAACCAC
TAGCCTTATCTCTCTGAGATAGAAGGAGAGCGAGCTGAAGATTGTAGTCTTATCTTCCTGAGGTA
GCAACGGAGCAAACTAAAAATTGTAGATATTGTCTCCTCAAGATAACAGTGGAGCAGATCGAAAA
CGATGAATCTTATCTTCCCAAGGTAGTCG
Found at i:35167327 original size:30 final size:30
Alignment explanation
Indices: 35167293--35167354 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
35167283 CGCAAGAGAG
35167293 AATGAATCGAAAATGGGAATCAAAGACTGA
1 AATGAATCGAAAATGGGAATCAAAGACTGA
35167323 AATGAATCGAAAATGGGAATCAAAGACTGA
1 AATGAATCGAAAATGGGAATCAAAGACTGA
35167353 AA
1 AA
35167355 AGAGGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.52, C:0.10, G:0.23, T:0.16
Consensus pattern (30 bp):
AATGAATCGAAAATGGGAATCAAAGACTGA
Found at i:35178046 original size:35 final size:36
Alignment explanation
Indices: 35177957--35178052 Score: 106
Period size: 35 Copynumber: 2.6 Consensus size: 36
35177947 CATTGTAATT
* * *
35177957 AACGCTACTTATTTTACTATTTTTTTTCTTTTTGGTTC
1 AACGCTACTTATTTTACTA--TTTTATCTTTATGCTTC
*
35177995 AACGCTATTTATTTTACTATTTTAT-TTTATGCTTC
1 AACGCTACTTATTTTACTATTTTATCTTTATGCTTC
*
35178030 AACGCTACTTGA-TTTACTGTTTT
1 AACGCTACTT-ATTTTACTATTTT
35178053 GCCCTTTTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
35 27 0.53
36 6 0.12
38 18 0.35
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (36 bp):
AACGCTACTTATTTTACTATTTTATCTTTATGCTTC
Found at i:35184916 original size:7 final size:8
Alignment explanation
Indices: 35184899--35184938 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
35184889 TCCACCCAAC
*
35184899 TCTCCTTT
1 TCTCTTTT
35184907 TCT-TTTT
1 TCTCTTTT
*
35184914 TCTTTTTT
1 TCTCTTTT
35184922 TCTCTTTT
1 TCTCTTTT
35184930 TCTCTTTT
1 TCTCTTTT
35184938 T
1 T
35184939 AATTATAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (8 bp):
TCTCTTTT
Found at i:35186560 original size:25 final size:26
Alignment explanation
Indices: 35186526--35186577 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
35186516 TTTTTTTCTT
*
35186526 ATTTATTAAAT-AAAAAAATTTAAAA
1 ATTTAATAAATCAAAAAAATTTAAAA
* *
35186551 ATTTAATAAATCAAATATATTTAAAA
1 ATTTAATAAATCAAAAAAATTTAAAA
35186577 A
1 A
35186578 CATAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
ATTTAATAAATCAAAAAAATTTAAAA
Found at i:35192627 original size:37 final size:37
Alignment explanation
Indices: 35192585--35192660 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
35192575 TAAAATCAAG
35192585 AAAATTTTATTTCAACCAATTATTCCACAAGGTCCAA
1 AAAATTTTATTTCAACCAATTATTCCACAAGGTCCAA
35192622 AAAATTTTATTTCAACCAATTATTCCACAAGGTCCAA
1 AAAATTTTATTTCAACCAATTATTCCACAAGGTCCAA
35192659 AA
1 AA
35192661 CAACTCATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (37 bp):
AAAATTTTATTTCAACCAATTATTCCACAAGGTCCAA
Found at i:35207909 original size:18 final size:19
Alignment explanation
Indices: 35207875--35207910 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
35207865 GCTTGTTTGC
*
35207875 TTAAGTAGAAATGAATGAT
1 TTAAGTAGAAATCAATGAT
35207894 TTAAGT-GAAATCAATGA
1 TTAAGTAGAAATCAATGA
35207911 CCCTATACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (19 bp):
TTAAGTAGAAATCAATGAT
Found at i:35212219 original size:25 final size:24
Alignment explanation
Indices: 35212191--35212256 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 24
35212181 CAACTCTTTA
* *
35212191 TGAGCGTCCTGTTATATGCTCTTCT
1 TGAGCATCCTGTTATATGCTC-GCT
*
35212216 TGAGCTTCCTG--ATATGGCTCGCT
1 TGAGCATCCTGTTATAT-GCTCGCT
*
35212239 TGAACATCCTGTTATATG
1 TGAGCATCCTGTTATATG
35212257 GCTATCTAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
23 15 0.44
24 5 0.15
25 14 0.41
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (24 bp):
TGAGCATCCTGTTATATGCTCGCT
Found at i:35212240 original size:23 final size:23
Alignment explanation
Indices: 35212214--35212277 Score: 56
Period size: 25 Copynumber: 2.7 Consensus size: 23
35212204 ATATGCTCTT
*
35212214 CTTGAGCTTCCTGATATGGCTCG
1 CTTGAGCTTCCTGATATGGCTAG
* * *
35212237 CTTGAACATCCTGTTATATGGCTAT
1 CTTGAGCTTCCTG--ATATGGCTAG
* *
35212262 CTAGAGCTCCCTGATA
1 CTTGAGCTTCCTGATA
35212278 ATAGCTCTTG
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
23 14 0.45
25 17 0.55
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (23 bp):
CTTGAGCTTCCTGATATGGCTAG
Found at i:35214359 original size:17 final size:18
Alignment explanation
Indices: 35214339--35214372 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
35214329 TTAATAATCA
35214339 ATTTTTATATTT-TTTTC
1 ATTTTTATATTTATTTTC
*
35214356 ATTTTTTTATTTATTTT
1 ATTTTTATATTTATTTT
35214373 TACCATATGG
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:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (18 bp):
ATTTTTATATTTATTTTC
Found at i:35229984 original size:8 final size:8
Alignment explanation
Indices: 35229971--35229996 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
35229961 GAGAGCTTTG
35229971 TTTTATTT
1 TTTTATTT
35229979 TTTTATTT
1 TTTTATTT
35229987 TTTTATTT
1 TTTTATTT
35229995 TT
1 TT
35229997 ACTATTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTATTT
Found at i:35236164 original size:9 final size:10
Alignment explanation
Indices: 35236150--35236190 Score: 61
Period size: 9 Copynumber: 4.4 Consensus size: 10
35236140 CTTTAAGACC
35236150 AAAAAAGA-A
1 AAAAAAGAGA
35236159 AAAAAAGAGA
1 AAAAAAGAGA
35236169 AAAAAA-AGA
1 AAAAAAGAGA
35236178 AAAAAAGA-A
1 AAAAAAGAGA
35236187 AAAA
1 AAAA
35236191 GGAGAGGCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 22 0.73
10 8 0.27
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAGAGA
Found at i:35236169 original size:11 final size:11
Alignment explanation
Indices: 35236150--35236183 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
35236140 CTTTAAGACC
35236150 AAAAA-AGAAA
1 AAAAAGAGAAA
35236160 AAAAAGAGAAA
1 AAAAAGAGAAA
35236171 AAAAAGA-AAA
1 AAAAAGAGAAA
35236181 AAA
1 AAA
35236184 GAAAAAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 11 0.48
11 12 0.52
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAGAGAAA
Found at i:35237378 original size:65 final size:60
Alignment explanation
Indices: 35237268--35237392 Score: 187
Period size: 61 Copynumber: 2.0 Consensus size: 60
35237258 TCTACAATAA
35237268 CACATCTAGTTAGGAGCATTTGATTCATTTCATAACATCCTAATTATTTGACATAAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCATAACATCCTAATTATTTGACAT-AAGCAT
* *
35237329 CACATTTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTC-AT-A-A-CATCCTAATTATTTGACATAAGCAT
35237393 GGATACATTA
Statistics
Matches: 58, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 30 0.52
62 2 0.03
63 1 0.02
64 7 0.12
65 18 0.31
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.37
Consensus pattern (60 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCATAACATCCTAATTATTTGACATAAGCAT
Found at i:35237901 original size:205 final size:205
Alignment explanation
Indices: 35237537--35238025 Score: 789
Period size: 205 Copynumber: 2.4 Consensus size: 205
35237527 ATCAGGCGGA
*
35237537 GAGCAGATCGAAGACATAGCTGATTTAGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTAGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* *
35237602 TTGGCATCTCTGTATTGTTAGAGAACAAATTAAAGTCTAGTATCTCCACTTCGACGAAAGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATTAAAGTCTAGCATCTCCACTTCGACGAAAGGCAGA
* * * **
35237667 CACATAGTAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTACCATCCTTG
35237732 TGCTTACAAG
196 TGCTTACAAG
* * * *
35237742 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCTAAGATGAC
1 GAGCAAATCGAAGACATAGCTGATTTAGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
* * * * * *
35237807 TTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTCTGGCATCTCCACTTCGATGGAGGGTAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATTAAAGTCTAGCATCTCCACTTCGACGAAAGGCAGA
35237872 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTACCATCCTTG
131 CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTACCATCCTTG
35237937 TGCTTACAAG
196 TGCTTACAAG
* *
35237947 GAGCAAATCGAAGACATAGCTGATTTAGCTTTCACGTGTTTACGTTGAAGCAAATCCAAGATAAT
1 GAGCAAATCGAAGACATAGCTGATTTAGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
*
35238012 TTGGCGTCTCTGTA
66 TTGGCATCTCTGTA
35238026 GCGGCAGAGA
Statistics
Matches: 259, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
205 259 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTAGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAACAAATTAAAGTCTAGCATCTCCACTTCGACGAAAGGCAGA
CACATAGCAGATCCAACCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTACCATCCTTG
TGCTTACAAG
Found at i:35238112 original size:44 final size:45
Alignment explanation
Indices: 35238035--35238886 Score: 390
Period size: 44 Copynumber: 19.4 Consensus size: 45
35238025 AGCGGCAGAG
* * * * *
35238035 AGCAGATCGAAGATTGCAGATTTAGCATCCCTGTGTTTATAGGGA
1 AGCAGATCGAAGATAGCAGATCTAACATCCCTGTGCTTACAGGGA
* * * *
35238080 A-CATATCGAAGATAGTAGATCTAACATTCCTGTGCTTACAGTGA
1 AGCAGATCGAAGATAGCAGATCTAACATCCCTGTGCTTACAGGGA
** ** *
35238124 AGCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGA
1 AGCAGATCGAAGATAGCAGATC-TAACATCCCTGTGCTTACAGGGA
* * * * ** *
35238168 A-CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
1 AGCAGA-TCGAAGATAGCAGATCTAACATCCCTGTGCTTACAGGGA
* ** * * *
35238212 A-TAGATCGAAGATAATAGATCTGACAT-TCTGTGCTTACAGTGA
1 AGCAGATCGAAGATAGCAGATCTAACATCCCTGTGCTTACAGGGA
** ** *
35238255 AGCAGATCGAAGATTTCA-A-CATGGCATCCCTGTGCTTATAGGGA
1 AGCAGATCGAAGATAGCAGATC-TAACATCCCTGTGCTTACAGGGA
* * * * ** * *
35238299 A-CA-AGTTGAAAACAGCAGATTTGGCATCCCCGTGCTTATAGGGA
1 AGCAGA-TCGAAGATAGCAGATCTAACATCCCTGTGCTTACAGGGA
* * * *
35238343 A-CAGATCGAAGATAGCAGATCTGACATTCCTGTACTTACAGTGA
1 AGCAGATCGAAGATAGCAGATCTAACATCCCTGTGCTTACAGGGA
** ** *
35238387 AGCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGA
1 AGCAGATCGAAGATAGCAGATC-TAACATCCCTGTGCTTACAGGGA
* * * * ** *
35238431 A-CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGA
1 AGCAGA-TCGAAGATAGCAGATCTAACATCCCTGTGCTTACAGGGA
* * *
35238475 A-CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGA
1 AGCAGATCGAAGATAGCAGATCTAACATCCCTGTGCTTACAGGGA
** ** *
35238519 AGCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGA
1 AGCAGATCGAAGATAGCAGATC-TAACATCCCTGTGCTTACAGGGA
* * * * ** *
35238563 A-CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATA-GGA
1 AGCAGA-TCGAAGATAGCAGATCTAACATCCCTGTGCTTACAGGGA
** * * * *
35238606 AATAGATTGAAGATAGCAGATTTGACATTCCTGTGCTTAC-GGTGA
1 AGCAGATCGAAGATAGCAGATCTAACATCCCTGTGCTTACAGG-GA
** ** *
35238651 AGCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGA
1 AGCAGATCGAAGATAGCAGATC-TAACATCCCTGTGCTTACAGGGA
* * ** *
35238695 A-CA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTATAGGGA
1 AGCAGA-TCGAAGATAGCAGATCTAACATCCCTGTGCTTACAGGGA
* * * * *
35238739 A-CAGATCGAAAATAGTAGATCTGACATTCATGTGCTTAC-GGTGA
1 AGCAGATCGAAGATAGCAGATCTAACATCCCTGTGCTTACAGG-GA
** ** *
35238783 AGCAGATCGAAGATTTCAGCAT-GGA-ATCCCTGTGCTTATAGGGA
1 AGCAGATCGAAGATAGCAG-ATCTAACATCCCTGTGCTTACAGGGA
* * ** * *
35238827 A-CA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTA-TGAGGA
1 AGCAGA-TCGAAGATAGCAGATCTAACATCCCTGTGCTTACAG-GGA
35238871 A-CAGATCGAAGA-AGCA
1 AGCAGATCGAAGATAGCA
35238887 AATCAAGAAC
Statistics
Matches: 628, Mismatches: 136, Indels: 88
0.74 0.16 0.10
Matches are distributed among these distances:
42 9 0.01
43 98 0.16
44 434 0.69
45 85 0.14
46 2 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (45 bp):
AGCAGATCGAAGATAGCAGATCTAACATCCCTGTGCTTACAGGGA
Found at i:35238459 original size:132 final size:132
Alignment explanation
Indices: 35238050--35238886 Score: 1410
Period size: 132 Copynumber: 6.4 Consensus size: 132
35238040 ATCGAAGATT
* * * * *
35238050 GCAGATTTAGCATCCCTGTGTTTATAGGGAACATATCGAAGATAGTAGATCTAACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
35238115 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
35238180 CA
131 CA
* **
35238182 GCAGATTTGGCATCCCTGTGCTTATAGGGAATAGATCGAAGATAATAGATCTGACATT-CTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
*
35238246 TTACAGTGAAGCAGATCGAAGATTTCAACATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
35238311 CA
131 CA
* *
35238313 GCAGATTTGGCATCCCCGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTAC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
35238378 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
35238443 CA
131 CA
35238445 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
35238510 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
35238575 CA
131 CA
* * * *
35238577 GCAGATTTGGCATCCCTGTGCTTATAGGAAATAGATTGAAGATAGCAGATTTGACATTCCTGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* *
35238642 TTACGGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
*
35238707 TA
131 CA
* * *
35238709 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAAATAGTAGATCTGACATTCATGTGC
1 GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
* * *
35238774 TTACGGTGAAGCAGATCGAAGATTTCAGCATGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGA
66 TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
*
35238839 TA
131 CA
*
35238841 GCAGATTTGGCATCCCTGTGTTTAT-GAGGAACAGATCGAAGA-AGCA
1 GCAGATTTGGCATCCCTGTGCTTATAG-GGAACAGATCGAAGATAGCA
35238887 AATCAAGAAC
Statistics
Matches: 670, Mismatches: 33, Indels: 5
0.95 0.05 0.01
Matches are distributed among these distances:
131 130 0.19
132 540 0.81
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
GCAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAA
CA
Found at i:35239159 original size:13 final size:13
Alignment explanation
Indices: 35239141--35239293 Score: 97
Period size: 13 Copynumber: 12.6 Consensus size: 13
35239131 AAATATCTTT
35239141 ACTCCACTAAACC
1 ACTCCACTAAACC
35239154 ACT-C-C-AAA-C
1 ACTCCACTAAACC
35239163 ACT-C-C-AA-CC
1 ACTCCACTAAACC
35239172 ACTCCACTAAACC
1 ACTCCACTAAACC
*
35239185 ACTCCAACCACTCTAACC
1 ACT----CCACT-AAACC
*
35239203 ACTCTACTAAACC
1 ACTCCACTAAACC
*
35239216 ACTACACTAAACC
1 ACTCCACTAAACC
35239229 ACTCCACTAAACC
1 ACTCCACTAAACC
35239242 AC-CC-C--AACC
1 ACTCCACTAAACC
35239251 AC-CCTACTAAACC
1 ACTCC-ACTAAACC
*
35239264 ACTCCAGTAAACC
1 ACTCCACTAAACC
35239277 AC-CC-C--AACC
1 ACTCCACTAAACC
35239286 ACTCCACT
1 ACTCCACT
35239294 TGCCTACAAA
Statistics
Matches: 114, Mismatches: 8, Indels: 37
0.72 0.05 0.23
Matches are distributed among these distances:
9 26 0.23
10 6 0.05
11 5 0.04
12 7 0.06
13 52 0.46
14 6 0.05
17 5 0.04
18 7 0.06
ACGTcount: A:0.37, C:0.48, G:0.01, T:0.14
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:35239166 original size:22 final size:22
Alignment explanation
Indices: 35239141--35239269 Score: 76
Period size: 22 Copynumber: 5.9 Consensus size: 22
35239131 AAATATCTTT
35239141 ACTCCACTAAACCACTCCAAAC
1 ACTCCACTAAACCACTCCAAAC
35239163 ACT-C-C--AACCACTCCACTAA-
1 ACTCCACTAAACCACTCCA--AAC
* * *
35239182 A--CCACTCCAACCACTCTAACC
1 ACTCCACT-AAACCACTCCAAAC
*
35239203 ACTCTACTAAACCACTACACTAAACC
1 ACTCCACTAAACCACT-C-C-AAA-C
* *
35239229 ACTCCACTAAACCACCCCAACC
1 ACTCCACTAAACCACTCCAAAC
35239251 AC-CCTACTAAACCACTCCA
1 ACTCC-ACTAAACCACTCCA
35239270 GTAAACCACC
Statistics
Matches: 82, Mismatches: 10, Indels: 30
0.67 0.08 0.25
Matches are distributed among these distances:
18 11 0.13
19 2 0.02
20 4 0.05
21 4 0.05
22 35 0.43
23 7 0.09
24 1 0.01
25 3 0.04
26 15 0.18
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.15
Consensus pattern (22 bp):
ACTCCACTAAACCACTCCAAAC
Found at i:35239177 original size:31 final size:31
Alignment explanation
Indices: 35239141--35239289 Score: 146
Period size: 31 Copynumber: 4.8 Consensus size: 31
35239131 AAATATCTTT
*
35239141 ACTCCACTAAACCACTCCAAACACTCCAACC
1 ACTCCACTAAACCACTCCAAACACTCAAACC
* *
35239172 ACTCCACTAAACCACTCCAACCACTCTAACC
1 ACTCCACTAAACCACTCCAAACACTCAAACC
*
35239203 ACTCTACTAAACCACT----ACACT-AAACC
1 ACTCCACTAAACCACTCCAAACACTCAAACC
* *
35239229 ACTCCACTAAACCACCCCAACCACCCTACTAAACC
1 ACTCCACTAAACCACTCCAA--ACACT-C-AAACC
* * *
35239264 ACTCCAGTAAACCACCCCAACCACTC
1 ACTCCACTAAACCACTCCAAACACTC
35239290 CACTTGCCTA
Statistics
Matches: 98, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
26 18 0.18
27 4 0.04
31 44 0.45
32 5 0.05
33 3 0.03
35 24 0.24
ACGTcount: A:0.38, C:0.48, G:0.01, T:0.14
Consensus pattern (31 bp):
ACTCCACTAAACCACTCCAAACACTCAAACC
Found at i:35239193 original size:9 final size:9
Alignment explanation
Indices: 35239150--35239206 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
35239140 TACTCCACTA
35239150 AACCACTCC
1 AACCACTCC
*
35239159 AAACACTCC
1 AACCACTCC
35239168 AACCACTCCAC
1 AACCACT-C-C
35239179 TAAACCACTCC
1 --AACCACTCC
*
35239190 AACCACTCT
1 AACCACTCC
35239199 AACCACTC
1 AACCACTC
35239207 TACTAAACCA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
9 30 0.73
10 1 0.02
11 2 0.05
12 1 0.02
13 7 0.17
ACGTcount: A:0.37, C:0.49, G:0.00, T:0.14
Consensus pattern (9 bp):
AACCACTCC
Found at i:35239251 original size:35 final size:35
Alignment explanation
Indices: 35239212--35239293 Score: 130
Period size: 35 Copynumber: 2.3 Consensus size: 35
35239202 CACTCTACTA
*
35239212 AACCACTACACTAAACCACTCCACTAAACCACCCC
1 AACCACTCCACTAAACCACTCCACTAAACCACCCC
*
35239247 AACCAC-CCTACTAAACCACTCCAGTAAACCACCCC
1 AACCACTCC-ACTAAACCACTCCACTAAACCACCCC
35239282 AACCACTCCACT
1 AACCACTCCACT
35239294 TGCCTACAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 1 0.02
35 40 0.93
36 2 0.05
ACGTcount: A:0.38, C:0.49, G:0.01, T:0.12
Consensus pattern (35 bp):
AACCACTCCACTAAACCACTCCACTAAACCACCCC
Found at i:35239261 original size:48 final size:44
Alignment explanation
Indices: 35239168--35239287 Score: 150
Period size: 48 Copynumber: 2.6 Consensus size: 44
35239158 CAAACACTCC
* * *
35239168 AACCACTCCACTAAACCACTCCAACCACTCTAACCACTCTACTA
1 AACCACTCCACTAAACCACTCCAACCACCCCAACCACCCTACTA
*
35239212 AACCACTACACTAAACCACTCCACTAAACCACCCCAACCACCCTACTA
1 AACCACTCCACTAAACCACT-C-C--AACCACCCCAACCACCCTACTA
* *
35239260 AACCACTCCAGTAAACCACCCCAACCAC
1 AACCACTCCACTAAACCACTCCAACCAC
35239288 TCCACTTGCC
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
44 25 0.38
45 1 0.02
46 2 0.03
47 1 0.02
48 36 0.55
ACGTcount: A:0.38, C:0.47, G:0.01, T:0.13
Consensus pattern (44 bp):
AACCACTCCACTAAACCACTCCAACCACCCCAACCACCCTACTA
Found at i:35239699 original size:19 final size:18
Alignment explanation
Indices: 35239662--35239703 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
35239652 GGGGAAAGTG
*
35239662 TTATTTTTAATATTGTTA
1 TTATTTTTAATATTATTA
*
35239680 TTATTTTCTATTATTATTA
1 TTATTTT-TAATATTATTA
35239699 TTATT
1 TTATT
35239704 ACTAATACCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATTTTTAATATTATTA
Found at i:35241755 original size:19 final size:17
Alignment explanation
Indices: 35241727--35241766 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
35241717 ACATAAACAC
*
35241727 AAATATGAATAGTAACGAT
1 AAATACGAAT-GTAA-GAT
35241746 AAATACGAATGTAAGAT
1 AAATACGAATGTAAGAT
35241763 AAAT
1 AAAT
35241767 GAGTCGAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 4 0.20
19 9 0.45
ACGTcount: A:0.55, C:0.05, G:0.15, T:0.25
Consensus pattern (17 bp):
AAATACGAATGTAAGAT
Found at i:35242042 original size:33 final size:39
Alignment explanation
Indices: 35241998--35242079 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 39
35241988 GTAAAAACAC
*
35241998 AATAGTTATAATAATGA-AA-A-T-GTATTA-TAAT-AT
1 AATAGTAATAATAATGATAATAGTGGTATTAGTAATAAT
*
35242031 AATAGTAATAATGATGATAATAGTGGTATTAGTAATAAT
1 AATAGTAATAATAATGATAATAGTGGTATTAGTAATAAT
*
35242070 AATAATAATA
1 AATAGTAATA
35242080 GAAAATAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 15 0.38
34 2 0.05
35 1 0.03
36 1 0.03
37 6 0.15
38 4 0.10
39 11 0.28
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (39 bp):
AATAGTAATAATAATGATAATAGTGGTATTAGTAATAAT
Found at i:35242103 original size:19 final size:19
Alignment explanation
Indices: 35242064--35242103 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35242054 TGGTATTAGT
* *
35242064 AATAATAATAATAATAGAA
1 AATAATAACAATAATAAAA
*
35242083 AATAATAACAATATTAAAA
1 AATAATAACAATAATAAAA
35242102 AA
1 AA
35242104 AACACTCTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (19 bp):
AATAATAACAATAATAAAA
Found at i:35242506 original size:13 final size:12
Alignment explanation
Indices: 35242488--35242556 Score: 63
Period size: 13 Copynumber: 5.7 Consensus size: 12
35242478 GGAGTGGTTG
35242488 GGGTGGTTTAGT
1 GGGTGGTTTAGT
35242500 AGGGTGG-TT-G-
1 -GGGTGGTTTAGT
35242510 GGGTGGTTTAGT
1 GGGTGGTTTAGT
35242522 GGAGTGGTTTAGT
1 GG-GTGGTTTAGT
**
35242535 ATAGTGGTTTAGT
1 -GGGTGGTTTAGT
35242548 GGAGTGGTT
1 GG-GTGGTT
35242557 AAAGTGGTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
9 6 0.13
10 2 0.04
11 2 0.04
12 4 0.09
13 32 0.70
ACGTcount: A:0.13, C:0.00, G:0.48, T:0.39
Consensus pattern (12 bp):
GGGTGGTTTAGT
Found at i:35242563 original size:22 final size:22
Alignment explanation
Indices: 35242475--35242614 Score: 103
Period size: 22 Copynumber: 6.4 Consensus size: 22
35242465 TTTGTAGGCA
*
35242475 AGTGGAGTGGTTGGGGTGGTTT
1 AGTGGAGTGGTTGGAGTGGTTT
*
35242497 AGTAGG-GTGGTTGGGGTGGTTT
1 AGT-GGAGTGGTTGGAGTGGTTT
*
35242519 AGTGGAGTGGTTTAGTATAGTGGTTT
1 AGTGGAGTGG-TT-G--GAGTGGTTT
**
35242545 AGTGGAGTGGTTAAAGTGG--T
1 AGTGGAGTGGTTGGAGTGGTTT
* **
35242565 --TGGAGTGGTT-TAGTGGAGT
1 AGTGGAGTGGTTGGAGTGGTTT
*
35242584 AGTTGGAGTGTTTGGAGTGGTTT
1 AG-TGGAGTGGTTGGAGTGGTTT
35242607 AGTGGAGT
1 AGTGGAGT
35242615 AAAGATATTT
Statistics
Matches: 97, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
17 5 0.05
18 10 0.10
19 1 0.01
20 1 0.01
21 2 0.02
22 46 0.47
23 12 0.12
24 1 0.01
25 2 0.02
26 17 0.18
ACGTcount: A:0.16, C:0.00, G:0.47, T:0.37
Consensus pattern (22 bp):
AGTGGAGTGGTTGGAGTGGTTT
Found at i:35242572 original size:31 final size:31
Alignment explanation
Indices: 35242537--35242615 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
35242527 GGTTTAGTAT
*
35242537 AGTGGTTTAGTGGAGTGGTTAAAGTGGTTGG
1 AGTGGTTTAGTGGAGTAGTTAAAGTGGTTGG
** *
35242568 AGTGGTTTAGTGGAGTAGTTGGAGTGTTTGG
1 AGTGGTTTAGTGGAGTAGTTAAAGTGGTTGG
35242599 AGTGGTTTAGTGGAGTA
1 AGTGGTTTAGTGGAGTA
35242616 AAGATATTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (31 bp):
AGTGGTTTAGTGGAGTAGTTAAAGTGGTTGG
Found at i:35244159 original size:28 final size:27
Alignment explanation
Indices: 35244101--35244156 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
35244091 ACAAGTTAAA
35244101 TTGAAAATTAAAAGAATTAATAAAAAT
1 TTGAAAATTAAAAGAATTAATAAAAAT
* *
35244128 TTGAAAATATAAAA-AATTAGTTAAAAT
1 TTGAAAAT-TAAAAGAATTAATAAAAAT
35244155 TT
1 TT
35244157 TGATTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (27 bp):
TTGAAAATTAAAAGAATTAATAAAAAT
Found at i:35245165 original size:40 final size:38
Alignment explanation
Indices: 35245086--35245161 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
35245076 AATTTTAATC
*
35245086 TTTATCTTTTTTTTAAATATTCATTATATTTTAGATAT
1 TTTATCTTTTTTTTAAATAGTCATTATATTTTAGATAT
35245124 TTTATCTTTTTTTTCAAAATAAGT-ATTAT-TTTTA-ATAT
1 TTTATCTTTTTTTT--AAAT-AGTCATTATATTTTAGATAT
35245162 ATTTGTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
38 18 0.53
39 5 0.15
40 9 0.26
41 2 0.06
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (38 bp):
TTTATCTTTTTTTTAAATAGTCATTATATTTTAGATAT
Found at i:35252789 original size:55 final size:55
Alignment explanation
Indices: 35252722--35252854 Score: 160
Period size: 55 Copynumber: 2.4 Consensus size: 55
35252712 TGCCCTTAGT
* * * ** * *
35252722 CCGTGTGCAACACTGACTTTAGAACACGGCCATGACACATTCCTA-TGTGGCCTGC
1 CCGTGTACAACACTGACTTAAAAACACGGCCATGACACACGCC-AGTGTAGACTGC
*
35252777 CCGTGTACAACACTGACTTAAAAACACGGCCATGGCACACGCCAGTGTAGACTGC
1 CCGTGTACAACACTGACTTAAAAACACGGCCATGACACACGCCAGTGTAGACTGC
* *
35252832 CTGTGTACAACATTGACTTAAAA
1 CCGTGTACAACACTGACTTAAAA
35252855 TTTTAAGTAC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
54 1 0.01
55 66 0.99
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (55 bp):
CCGTGTACAACACTGACTTAAAAACACGGCCATGACACACGCCAGTGTAGACTGC
Found at i:35261919 original size:13 final size:12
Alignment explanation
Indices: 35261901--35261945 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
35261891 ATCATTTTCT
35261901 CTTCTTTCTTCAA
1 CTTCTTT-TTCAA
35261914 CTTCTTTTTCAA
1 CTTCTTTTTCAA
*
35261926 TTTCTTTTTC-A
1 CTTCTTTTTCAA
35261937 CATTCTTTT
1 C-TTCTTTT
35261946 CACTCTCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 1 0.03
12 21 0.72
13 7 0.24
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.62
Consensus pattern (12 bp):
CTTCTTTTTCAA
Found at i:35261930 original size:12 final size:11
Alignment explanation
Indices: 35261880--35261945 Score: 53
Period size: 12 Copynumber: 5.6 Consensus size: 11
35261870 TTTCTTTTGT
35261880 TTCTTTTTCTAA
1 TTCTTTTTC-AA
* **
35261892 -TCATTTTCTC
1 TTCTTTTTCAA
35261902 TTCTTTCTTCAA
1 TTCTTT-TTCAA
35261914 CTTCTTTTTCAA
1 -TTCTTTTTCAA
35261926 TTTCTTTTTCACA
1 -TTCTTTTTCA-A
35261939 TTCTTTT
1 TTCTTTT
35261946 CACTCTCAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 11 0.26
12 25 0.58
13 7 0.16
ACGTcount: A:0.14, C:0.23, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTTTTTCAA
Found at i:35264275 original size:4 final size:4
Alignment explanation
Indices: 35264266--35264301 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
35264256 TTAAACTAAG
35264266 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
35264302 AATAAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:35267628 original size:4 final size:4
Alignment explanation
Indices: 35267619--35267646 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
35267609 TTAAACTAAG
35267619 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
35267647 AATAAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:35272255 original size:20 final size:21
Alignment explanation
Indices: 35272217--35272255 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
35272207 AGAGGTTCTC
*
35272217 GTAATTTTAGAGGTAAAGGTT
1 GTAAATTTAGAGGTAAAGGTT
*
35272238 GTAAATTTA-AGGTGAAGG
1 GTAAATTTAGAGGTAAAGG
35272256 CTTTAGGTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (21 bp):
GTAAATTTAGAGGTAAAGGTT
Found at i:35276024 original size:29 final size:30
Alignment explanation
Indices: 35275955--35276035 Score: 76
Period size: 32 Copynumber: 2.7 Consensus size: 30
35275945 CTTTTATACT
* *
35275955 TAATAAATAATAATAAAATAATAAAATATC
1 TAATTAATATTAATAAAATAATAAAATATC
* **
35275985 TTATTAAAATATTAATAAAATAAT-ATTTATC
1 TAATT--AATATTAATAAAATAATAAAATATC
35276016 TAATTAATAGTT-ATAAAATA
1 TAATTAATA-TTAATAAAATA
35276036 TCATCAACAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
29 12 0.29
30 5 0.12
31 9 0.21
32 16 0.38
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.38
Consensus pattern (30 bp):
TAATTAATATTAATAAAATAATAAAATATC
Found at i:35278798 original size:26 final size:26
Alignment explanation
Indices: 35278769--35278828 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
35278759 TCCCTTTGAA
* * *
35278769 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
35278795 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
35278823 TCATTC
1 TCATTC
35278829 TCAATATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
27 2 0.07
28 22 0.76
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:35278814 original size:28 final size:28
Alignment explanation
Indices: 35278783--35278845 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
35278773 TCGATATTTT
35278783 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
35278811 GCACACTAAGTGTCATTCTCAATATTTC
1 GCACACTAAGTGTCATTCTCAATATCTC
*
35278839 GTACACT
1 GCACACT
35278846 GAGTACCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (28 bp):
GCACACTAAGTGTCATTCTCAATATCTC
Found at i:35281732 original size:53 final size:52
Alignment explanation
Indices: 35281585--35281744 Score: 196
Period size: 52 Copynumber: 3.1 Consensus size: 52
35281575 TGACGGAAAA
* * * *
35281585 GATGTGATATATGATTCCGTATAAGACCATAGCCGGGCTATGGTATCGGTAC
1 GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * * *
35281637 AATGTGATTTGTG-TTCCCGTATAAGACCATAGCTAGGCTATGGCATCGGTGT
1 GATGTGATATGTGATT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
* * *
35281689 GATGTGATAATGTGATTCCGTATAAGGCCATATCTGGGATATGGCATCGGTAT
1 GATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
35281742 GAT
1 GAT
35281745 ATGTGATCCG
Statistics
Matches: 90, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
51 2 0.02
52 48 0.53
53 38 0.42
54 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (52 bp):
GATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAT
Found at i:35282073 original size:42 final size:42
Alignment explanation
Indices: 35282026--35282111 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
35282016 TTTGGAAAGA
*
35282026 TTTGTGAGATTAGGCCTATGAGCTTACTAAGCTTCTATAAGC
1 TTTGTGAAATTAGGCCTATGAGCTTACTAAGCTTCTATAAGC
* *
35282068 TTTGTGAAATTATGCCTATGAGCTTACTAAGCTTCTGTAAGC
1 TTTGTGAAATTAGGCCTATGAGCTTACTAAGCTTCTATAAGC
35282110 TT
1 TT
35282112 ACTTGTGTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (42 bp):
TTTGTGAAATTAGGCCTATGAGCTTACTAAGCTTCTATAAGC
Found at i:35289159 original size:53 final size:51
Alignment explanation
Indices: 35289011--35289224 Score: 205
Period size: 52 Copynumber: 4.3 Consensus size: 51
35289001 TGACGGAAAA
* *
35289011 GATGTGATATATGATTCCGTATAAGACCATAGCTGGGCTATGGCATCG-GT
1 GATGTGATATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGTGT
* *
35289061 ACAATGTGATTTGTG-TTCCCGTATAAGACCATAGT-TGGGCTATGGCATCAGTGT
1 --GATGTGATATGTGATT-CCGTATAAGACCATA-TCTGGGCTATGGCATC-GTGT
*
35289115 GATGTGATAATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCG-GT
1 GATGTGAT-ATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGTGT
* ** * *
35289166 -A--TGATATGTGA-TCCGTCTAAGACCATGGCAGGGCTATGGCTTCG-GT
1 GATGTGATATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGTGT
*
35289212 G-TGTGATGTGTGA
1 GATGTGATATGTGA
35289225 CAATATGAAA
Statistics
Matches: 138, Mismatches: 14, Indels: 24
0.78 0.08 0.14
Matches are distributed among these distances:
46 29 0.21
47 6 0.04
48 13 0.09
50 1 0.01
51 4 0.03
52 48 0.35
53 33 0.24
54 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.31
Consensus pattern (51 bp):
GATGTGATATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGTGT
Found at i:35289989 original size:20 final size:20
Alignment explanation
Indices: 35289961--35290018 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
35289951 TGCACTTGGG
*
35289961 CAAGCCACACGGGCATGTTC
1 CAAGCCACACGGGCATGTCC
* * *
35289981 CAGGCCACATGGGCGTGTCC
1 CAAGCCACACGGGCATGTCC
*
35290001 CAAGCCATACGGGCATGT
1 CAAGCCACACGGGCATGT
35290019 GCCCCTATCT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.33, G:0.29, T:0.16
Consensus pattern (20 bp):
CAAGCCACACGGGCATGTCC
Found at i:35290638 original size:21 final size:22
Alignment explanation
Indices: 35290598--35290638 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
35290588 TAATTTAATT
35290598 TTTCTTTTTTGGTCATCCAAAA
1 TTTCTTTTTTGGTCATCCAAAA
35290620 TTTCTTTTTTGGTCA-CCAA
1 TTTCTTTTTTGGTCATCCAA
35290639 TCGTTAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.51
Consensus pattern (22 bp):
TTTCTTTTTTGGTCATCCAAAA
Found at i:35305312 original size:46 final size:46
Alignment explanation
Indices: 35305254--35305521 Score: 258
Period size: 47 Copynumber: 5.7 Consensus size: 46
35305244 ATTCGTGTGT
* *
35305254 GAGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-GATGA
* * *
35305300 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGA
* *
35305348 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCCCGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATG-A
* *
35305395 -AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGA
* * * * **
35305440 TAGTTAATGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGAT-A
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACGAGATGA
* *
35305486 TGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
1 -GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
35305522 AGCACCTTAC
Statistics
Matches: 186, Mismatches: 26, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
45 1 0.01
46 76 0.41
47 81 0.44
48 27 0.15
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGA
Found at i:35305506 original size:140 final size:140
Alignment explanation
Indices: 35305255--35305516 Score: 368
Period size: 140 Copynumber: 1.9 Consensus size: 140
35305245 TTCGTGTGTG
* * * *
35305255 AGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCACATTATGAGAGCCAGTGTAAGACCATGT
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAATGTAAGACCATGT
* * *
35305320 CTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCC
66 CTGGGACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGCATTGGCC
35305385 CCGAGATGTA
131 CCGAGATGTA
* * **
35305395 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACGA-GATGATAGTTAATGTAAGACCATG
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATGATGAGAGCCAATGTAAGACCATG
*
35305459 TCTGGGACATGGCATCGAC-TTGAGA-TATGAGCCAGTGTAAGACCATGTCTAGGACATG
65 TCTGGGACATGGCATCGACATTGAGACGA-GAGCCAGTGTAAGA-CATGTCTAGGACATG
35305517 GCATCAGCAC
Statistics
Matches: 107, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
138 1 0.01
139 19 0.18
140 86 0.80
141 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (140 bp):
AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATGATGAGAGCCAATGTAAGACCATGT
CTGGGACATGGCATCGACATTGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGCATTGGCC
CCGAGATGTA
Found at i:35312956 original size:47 final size:47
Alignment explanation
Indices: 35312886--35313016 Score: 169
Period size: 47 Copynumber: 2.8 Consensus size: 47
35312876 ATTCGTTTGT
* *
35312886 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAGATTG-TAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCAGA--GATAA
** *
35312932 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCAGAGATAA
*
35312979 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGAC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
35313017 ACCTTACCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
46 14 0.18
47 53 0.70
48 9 0.12
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCAGAGATAA
Found at i:35319414 original size:37 final size:38
Alignment explanation
Indices: 35319306--35319488 Score: 239
Period size: 38 Copynumber: 4.8 Consensus size: 38
35319296 GGCTTAAAGA
*
35319306 CCCGCAGGCTAT-ATGCTGG-AATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCGTGCTGGTAA-TATATCCGGGTTAAAT
* *
35319344 TCTGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
*
35319382 CCCGCAGGCTTCGCT-CT-GTAATATATCTGGGTTAAAT
1 CCCGCAGGCTTCG-TGCTGGTAATATATCCGGGTTAAAT
35319419 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
* * * *
35319457 CCCGCAGGCCTAGTGCTGGTACTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTAATATATCCGGG
35319489 CCTTCGTGCC
Statistics
Matches: 129, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
36 1 0.01
37 35 0.27
38 90 0.70
39 3 0.02
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
Found at i:35319534 original size:43 final size:43
Alignment explanation
Indices: 35319481--35319609 Score: 222
Period size: 43 Copynumber: 3.0 Consensus size: 43
35319471 GCTGGTACTA
35319481 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
35319524 TATTCAGGCCTTCGTGCCTAGCAGGCTTCATGCCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
35319567 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
35319610 CAGTCCTAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 79 1.00
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:35321358 original size:94 final size:94
Alignment explanation
Indices: 35321197--35321474 Score: 493
Period size: 94 Copynumber: 3.0 Consensus size: 94
35321187 TGACCGTATG
* *
35321197 TGCTATTTGAATTAAGTAAGTTGCCATATTATAATGAGTTAACATTGGCACTATGTGTGCGGAAT
1 TGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCGGAAT
35321262 TAAATGTCACTTTGTGTGTAGATTTTATA
66 TAAATGTCACTTTGTGTGTAGATTTTATA
*
35321291 TGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCAGAAT
1 TGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCGGAAT
*
35321356 TAAATGTCACTTTGTGTGCAGATTTTATA
66 TAAATGTCACTTTGTGTGTAGATTTTATA
*
35321385 TGCTATTTGAATTGAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCGGAAT
1 TGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCGGAAT
* *
35321450 TAAATGGCACTATGTGTGTAGATTT
66 TAAATGTCACTTTGTGTGTAGATTT
35321475 GAATGTCGAT
Statistics
Matches: 175, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 175 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (94 bp):
TGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCGGAAT
TAAATGTCACTTTGTGTGTAGATTTTATA
Found at i:35329129 original size:94 final size:94
Alignment explanation
Indices: 35328968--35329343 Score: 662
Period size: 94 Copynumber: 4.0 Consensus size: 94
35328958 AATGTGACCG
* * *
35328968 TATATTCTATTTGAATTAAGTAAGTTGCCATATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
35329033 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
*
35329062 TATATGCTATTTGAATTAAGTAAATTGCCTTATTACAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
35329127 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
*
35329156 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
*
35329221 GAATTAAATGTCACTTTGTGTGTAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
* *
35329250 TATATGCTATTTGAATTAAGTAAATTGCCTTACTATAATGAGTTAACATTGGCACTATGTGTCCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
* *
35329315 GAATTAAATGGCACTATGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
35329344 GAATGTCGAT
Statistics
Matches: 269, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 269 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (94 bp):
TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
GAATTAAATGTCACTTTGTGTGCAGATTT
Found at i:35331135 original size:10 final size:10
Alignment explanation
Indices: 35331120--35331154 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
35331110 CGGGTCAGGG
35331120 TGTGAAAGTA
1 TGTGAAAGTA
35331130 TGTGAAAGTA
1 TGTGAAAGTA
35331140 TGTGAAAGTA
1 TGTGAAAGTA
35331150 TGTGA
1 TGTGA
35331155 TTTAATTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.31, T:0.31
Consensus pattern (10 bp):
TGTGAAAGTA
Found at i:35335804 original size:37 final size:37
Alignment explanation
Indices: 35335732--35335870 Score: 172
Period size: 38 Copynumber: 3.7 Consensus size: 37
35335722 GGCCTAAAGA
* *
35335732 CCCGCAGGCTAT-TTGCTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCGTGCTGTAA-TATATCCGGGTTAAAT
*
35335770 CCCGCAGGCTTCGTGCTGTAATATATCTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGTAATATATCCGGGTTAAAT
*
35335807 CCCGCAGGCTTCGTGCTGGTAATATATCCGAGTTAAAT
1 CCCGCAGGCTTCGTGCT-GTAATATATCCGGGTTAAAT
* * * *
35335845 CCTGCAGGCCTAGTGCTGTATTATAT
1 CCCGCAGGCTTCGTGCTGTAATATAT
35335871 TCGAGCCTTC
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
37 41 0.46
38 49 0.54
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (37 bp):
CCCGCAGGCTTCGTGCTGTAATATATCCGGGTTAAAT
Found at i:35335824 original size:75 final size:75
Alignment explanation
Indices: 35335732--35335870 Score: 192
Period size: 75 Copynumber: 1.9 Consensus size: 75
35335722 GGCCTAAAGA
* * * *
35335732 CCCGCAGGCTATTTGCTGG-AATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGTAATATAT
1 CCCGCAGGCTATGTGCTGGTAA-TATATCCGAGTTAAATCCCGCAGGCCTAGTGCTGTAATATAT
35335796 CTGGGTTAAAT
65 CTGGGTTAAAT
* *
35335807 CCCGCAGGCT-TCGTGCTGGTAATATATCCGAGTTAAATCCTGCAGGCCTAGTGCTGTATTATAT
1 CCCGCAGGCTAT-GTGCTGGTAATATATCCGAGTTAAATCCCGCAGGCCTAGTGCTGTAATATAT
35335871 TCGAGCCTTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
74 1 0.02
75 53 0.95
76 2 0.04
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (75 bp):
CCCGCAGGCTATGTGCTGGTAATATATCCGAGTTAAATCCCGCAGGCCTAGTGCTGTAATATATC
TGGGTTAAAT
Found at i:35335916 original size:43 final size:43
Alignment explanation
Indices: 35335868--35335992 Score: 205
Period size: 43 Copynumber: 2.9 Consensus size: 43
35335858 TGCTGTATTA
*
35335868 TATTCGAGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* *
35335911 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* *
35335954 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGA
35335993 AATGATATGT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 75 1.00
ACGTcount: A:0.14, C:0.26, G:0.32, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
Found at i:35336602 original size:10 final size:10
Alignment explanation
Indices: 35336587--35336617 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
35336577 CGGGTCAGGG
35336587 TGTGAAAGTA
1 TGTGAAAGTA
35336597 TGTGAAAGTA
1 TGTGAAAGTA
35336607 TGTGAAAGTA
1 TGTGAAAGTA
35336617 T
1 T
35336618 TTGATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
TGTGAAAGTA
Found at i:35341187 original size:43 final size:43
Alignment explanation
Indices: 35341088--35341209 Score: 113
Period size: 43 Copynumber: 2.9 Consensus size: 43
35341078 AATTAAAAAG
* * * ** *
35341088 TCCGAGCTCGTTGAGTGGT-CTAGTTTCATGATATATGTG-GCA
1 TCCGAGCTCGTTGAGTAGTCCGAG-TTCATAATGGATGCGAGCA
** *
35341130 TCCGAGCTCGTTGAGTAGTTTGAGTTCATTATGGATGCGAGCA
1 TCCGAGCTCGTTGAGTAGTCCGAGTTCATAATGGATGCGAGCA
* * *
35341173 TCTGAGCTTGTTGAGTGGTCCGAGTTCATAATGGATG
1 TCCGAGCTCGTTGAGTAGTCCGAGTTCATAATGGATG
35341210 TGATACATCT
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 29 0.45
43 36 0.55
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGTAGTCCGAGTTCATAATGGATGCGAGCA
Found at i:35342798 original size:19 final size:20
Alignment explanation
Indices: 35342774--35342822 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
35342764 TTATACAGCT
35342774 AGAGGACACAGG-CGTGTCG
1 AGAGGACACAGGACGTGTCG
*
35342793 AGAGGACAC-GGACGTGTTG
1 AGAGGACACAGGACGTGTCG
35342812 AGAGGACACAG
1 AGAGGACACAG
35342823 ACATGTCCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 2 0.07
19 24 0.89
20 1 0.04
ACGTcount: A:0.31, C:0.18, G:0.41, T:0.10
Consensus pattern (20 bp):
AGAGGACACAGGACGTGTCG
Found at i:35359136 original size:42 final size:43
Alignment explanation
Indices: 35359025--35359226 Score: 228
Period size: 42 Copynumber: 4.7 Consensus size: 43
35359015 ATATGTGTTA
* * * *
35359025 TCATGTAAGACCATGTCTGGGACGTTGGCATCGATTTTTGGTT
1 TCATGTAAGACCATGTCTGGGACATTGGCATCGATATATGATT
*
35359068 TACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATATGATT
1 T-CATGTAAGACCATGTCTGGGACATTGGCATCGATATATGATT
* * *
35359111 TCATGTAAGACCCTGTTTGGAACATTGGCATCG-TATATGATT
1 TCATGTAAGACCATGTCTGGGACATTGGCATCGATATATGATT
* * * *
35359153 TCATGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGATT
1 TCATGTAAGACCATGTCTGGGACATTGGCATCGATATATGATT
* * * * *
35359196 ACATATAAGACCACGTCTAGGACGTTGGCAT
1 TCATGTAAGACCATGTCTGGGACATTGGCAT
35359227 TGTACGAGCT
Statistics
Matches: 135, Mismatches: 22, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
42 66 0.49
43 39 0.29
44 30 0.22
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (43 bp):
TCATGTAAGACCATGTCTGGGACATTGGCATCGATATATGATT
Found at i:35365169 original size:46 final size:46
Alignment explanation
Indices: 35365116--35365288 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
35365106 TAGTTGAGCA
*
35365116 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * * *
35365162 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
35365207 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
35365255 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
35365289 AGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 59 0.57
47 28 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:35365272 original size:93 final size:93
Alignment explanation
Indices: 35365113--35365283 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
35365103 GGATAGTTGA
* *
35365113 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
35365178 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
35365206 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
*
35365271 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
35365284 ACTTAAGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:35371224 original size:19 final size:19
Alignment explanation
Indices: 35371200--35371238 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
35371190 GAGTTTTGGA
35371200 GAGTGATCGGTTTGAGACT
1 GAGTGATCGGTTTGAGACT
35371219 GAGTGATCGGTTTGAGACT
1 GAGTGATCGGTTTGAGACT
35371238 G
1 G
35371239 GAGGAGGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.38, T:0.31
Consensus pattern (19 bp):
GAGTGATCGGTTTGAGACT
Found at i:35378904 original size:42 final size:43
Alignment explanation
Indices: 35378798--35378954 Score: 190
Period size: 43 Copynumber: 3.7 Consensus size: 43
35378788 TGTGTTATCC
* * * *
35378798 TGTAAGACCATGTCTGGGACACTGGCATCGGTTTGTGATTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTT-CA
35378842 TGTAAGACCATGTCTGGGACATTGGCATC-ATATATGATTTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTTCA
* * * * * *
35378884 TGGAAGACCCTGTCTGGGACAGTGGCATCGATATTTGACTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTTCA
* *
35378927 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
35378955 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 28 0.29
43 41 0.42
44 28 0.29
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTTCA
Found at i:35380989 original size:39 final size:40
Alignment explanation
Indices: 35380920--35381121 Score: 239
Period size: 40 Copynumber: 5.1 Consensus size: 40
35380910 TTAACATATA
* * * * *
35380920 CAATTAGGGGTCCTAAAGTACAAACTGGGGCAAGTATGTG
1 CAATCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTG
* *
35380960 CAATCA-GGGTACTGAAGTACAAAAAGGGGCAC-AATGTG
1 CAATCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTG
*
35380998 CAATCAGGGGTACTGAAGTACAAACAGGGGCACCTGA-GTG
1 CAATCAGGGGTACTGAAGTACAAACAGGGGCACGT-ATGTG
* * *
35381038 CAATCAGGGGTATTGAAGTACAACCAGGGGCACGTGTGTG
1 CAATCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTG
* * * *
35381078 CAATCAAGGGTACCGAAGTACAAACAAGGGCACGTATATG
1 CAATCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTG
35381118 CAAT
1 CAAT
35381122 TCAAGTATAA
Statistics
Matches: 138, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
38 11 0.08
39 46 0.33
40 80 0.58
41 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.18
Consensus pattern (40 bp):
CAATCAGGGGTACTGAAGTACAAACAGGGGCACGTATGTG
Found at i:35381027 original size:20 final size:20
Alignment explanation
Indices: 35380966--35381103 Score: 86
Period size: 20 Copynumber: 7.0 Consensus size: 20
35380956 TGTGCAATCA
*
35380966 GGGTACTGAAGTACAAAAAG
1 GGGTACTGAAGTACAAACAG
* * *
35380986 GGGCAC--AATGTGCAATCAG
1 GGGTACTGAA-GTACAAACAG
35381005 GGGTACTGAAGTACAAACAG
1 GGGTACTGAAGTACAAACAG
* * *
35381025 GGGCACCTG-AGTGCAATCAG
1 GGGTA-CTGAAGTACAAACAG
* *
35381045 GGGTATTGAAGTACAACCAG
1 GGGTACTGAAGTACAAACAG
* * * * *
35381065 GGGCACGTG-TGTGCAATCAA
1 GGGTAC-TGAAGTACAAACAG
*
35381085 GGGTACCGAAGTACAAACA
1 GGGTACTGAAGTACAAACA
35381104 AGGGCACGTA
Statistics
Matches: 86, Mismatches: 25, Indels: 14
0.69 0.20 0.11
Matches are distributed among these distances:
18 2 0.02
19 15 0.17
20 62 0.72
21 7 0.08
ACGTcount: A:0.35, C:0.18, G:0.31, T:0.16
Consensus pattern (20 bp):
GGGTACTGAAGTACAAACAG
Found at i:35384758 original size:39 final size:40
Alignment explanation
Indices: 35384641--35384823 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
35384631 GCTACTCGTT
*
35384641 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
35384681 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
35384721 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
35384760 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
35384801 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
35384824 AACATCATTC
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 74 0.61
41 13 0.11
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:35384785 original size:79 final size:81
Alignment explanation
Indices: 35384641--35384823 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
35384631 GCTACTCGTT
* * *
35384641 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
35384706 ATTTAGTAAC-TCGCG
66 ATATAGTAACTTAGCA
* **
35384721 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
35384783 GGATATGGTCACTTAGCA
64 GGATATAGTAACTTAGCA
35384801 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
35384824 AACATCATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 4 0.05
79 54 0.61
80 30 0.34
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Found at i:35390094 original size:21 final size:22
Alignment explanation
Indices: 35390053--35390095 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
35390043 ACTAACTTTA
* *
35390053 CCCAATTTTTAACCCTTAAAAC
1 CCCAATTTATAACCCTCAAAAC
35390075 CCCAATTTATAACCC-CAAAAC
1 CCCAATTTATAACCCTCAAAAC
35390096 TATATCTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.26
Consensus pattern (22 bp):
CCCAATTTATAACCCTCAAAAC
Found at i:35392274 original size:28 final size:28
Alignment explanation
Indices: 35392231--35392314 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
35392221 TGGGAAGTAG
* **
35392231 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATAGGCCATATGAATAAGA
*
35392259 TTGGGCCTGATAGGCCATGTGAATAAGA
1 TTGGGCCTGATAGGCCATATGAATAAGA
* * *
35392287 TTGGGCCTAAAAGGGCCAAATGAATAAG
1 TTGGGCCTGATA-GGCCATATGAATAAG
35392315 TGTAGATCTG
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 34 0.72
29 13 0.28
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCATATGAATAAGA
Found at i:35392639 original size:27 final size:27
Alignment explanation
Indices: 35392609--35392891 Score: 310
Period size: 27 Copynumber: 10.6 Consensus size: 27
35392599 TAATAAAGAG
35392609 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
35392636 AAATTAC-GAAATACCCCCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
35392662 AAATTACCGAAATACCCTCGA-TTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
* *
35392688 AAATGACTGAAATACCTTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * * *
35392715 AAATTACCGAAATACCCCCAATTTTTG
1 AAATTACTGAAATACCCTCGATTTGTA
*
35392742 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
35392769 AAATTA-TCAAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
35392796 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
35392823 AAATTACTGAAACACCC-CTTATTTGTA
1 AAATTACTGAAATACCCTC-GATTTGTA
* *
35392850 AAATTA-TCGAAATACCCTTG-TAGTGTA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
*
35392877 AAATTACCGAAATAC
1 AAATTACTGAAATAC
35392892 ATTTGTAGTG
Statistics
Matches: 215, Mismatches: 32, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
26 50 0.23
27 164 0.76
28 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:35392827 original size:81 final size:81
Alignment explanation
Indices: 35392609--35392891 Score: 362
Period size: 81 Copynumber: 3.5 Consensus size: 81
35392599 TAATAAAGAG
*
35392609 AAATTA-CTGAAATACCCTCGATTTGTAAAATTA-CGAAATACCCCCAATTTGTAAAATTACCGA
1 AAATTATC-GAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAATTTGTAAAATTACTGA
* *
35392672 AATACCCTCGA-TTGTG
65 AACACCCTCGATTTGTA
* * * *
35392688 AAATGA-CTGAAATACCTTCGATTTGTAAAATTACCGAAATACCCCCAATTTTTGAAATTACTGA
1 AAATTATC-GAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAATTTGTAAAATTACTGA
35392752 AACACCCTCGATTTGTA
65 AACACCCTCGATTTGTA
* * * *
35392769 AAATTATCAAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACTGAA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAATTTGTAAAATTACTGAA
*
35392834 ACACCC-CTTATTTGTA
66 ACACCCTC-GATTTGTA
* *
35392850 AAATTATCGAAATACCCTTG-TAGTGTAAAATTACCGAAATAC
1 AAATTATCGAAATACCCTCGAT-TTGTAAAATTACCGAAATAC
35392892 ATTTGTAGTG
Statistics
Matches: 179, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
79 31 0.17
80 39 0.22
81 108 0.60
82 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (81 bp):
AAATTATCGAAATACCCTCGATTTGTAAAATTACCGAAATACCCCCAATTTGTAAAATTACTGAA
ACACCCTCGATTTGTA
Found at i:35392897 original size:27 final size:27
Alignment explanation
Indices: 35392765--35392934 Score: 139
Period size: 27 Copynumber: 6.3 Consensus size: 27
35392755 ACCCTCGATT
* * * *
35392765 TGTAAAATTATCAAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * *
35392792 TGTAAAATTATCGAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * * *
35392819 TGTAAAATTACTGAAACACCCCT-TATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
*
35392846 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
**
35392873 TGTAAAATTACCGAAATACATTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* *
35392900 TGTAAAATGACCGACATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
35392927 GGTAAAAT
1 TGTAAAAT
35392935 AACTGTTTTG
Statistics
Matches: 122, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 120 0.98
28 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:35393411 original size:11 final size:11
Alignment explanation
Indices: 35393395--35393420 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
35393385 ATTGCATGTA
35393395 TGATATTATTG
1 TGATATTATTG
35393406 TGATATTATTG
1 TGATATTATTG
35393417 TGAT
1 TGAT
35393421 GTCGGCTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:35396775 original size:21 final size:21
Alignment explanation
Indices: 35396751--35396791 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
35396741 ATGTTCACAA
35396751 ATGTCATCTATATTCAATGGC
1 ATGTCATCTATATTCAATGGC
35396772 ATGTCATCTATATTCAATGG
1 ATGTCATCTATATTCAATGG
35396792 ATCCACCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (21 bp):
ATGTCATCTATATTCAATGGC
Found at i:35398539 original size:48 final size:47
Alignment explanation
Indices: 35398487--35398765 Score: 183
Period size: 48 Copynumber: 5.8 Consensus size: 47
35398477 ATGTGAGTAT
35398487 TGAGATCCAATATAAGACCATATCTTGGATATGGCATCGGCATTGAAA
1 TGAGATCC-ATATAAGACCATATCTTGGATATGGCATCGGCATTGAAA
* * * *
35398535 TGAGATCTCGTTTAAGACCATATC-TGTGATATGGCATCAGCA-TCAAGA
1 TGAGATC-CATATAAGACCATATCTTG-GATATGGCATCGGCATTGAA-A
* * * * *
35398583 TGAGATCCCGTGTAAGACCATAT-TTGGGATATGACATCGACATCGATAA
1 TGAGAT-CCATATAAGACCATATCTT-GGATATGGCATCGGCATTGA-AA
* * ** * * * *
35398632 -GTGATCCTGTATAAGACCACGTCTGGGACATGGCATCGGCA-TCAGTA
1 TGAGATCC-ATATAAGACCATATCTTGGATATGGCATCGGCATTGA-AA
* * * *
35398679 TGAGATCCCATGTAAGACCATATC-TGGAATATGGCATTGGCATCGATA
1 TGAGAT-CCATATAAGACCATATCTTGG-ATATGGCATCGGCATTGAAA
* * * *
35398727 TGAGGTCTCATATAAGACCATGTCTGGGACATGGCATCG
1 TGAGATC-CATATAAGACCATATCTTGGATATGGCATCG
35398766 ACACCGTTAT
Statistics
Matches: 177, Mismatches: 38, Indels: 32
0.72 0.15 0.13
Matches are distributed among these distances:
47 12 0.07
48 153 0.86
49 11 0.06
50 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (47 bp):
TGAGATCCATATAAGACCATATCTTGGATATGGCATCGGCATTGAAA
Found at i:35398730 original size:144 final size:144
Alignment explanation
Indices: 35398497--35398768 Score: 323
Period size: 144 Copynumber: 1.9 Consensus size: 144
35398487 TGAGATCCAA
* * * * * * *
35398497 TATAAGACCATATCTTGGATATGGCATCGGCATTGAAATGAGATCTCGTTTAAGACCATATCTGT
1 TATAAGACCACATCTGGGACATGGCATCGGCATAGAAATGAGATCCCATGTAAGACCATATCTGT
* * * *
35398562 GATATGGCATCAGCATCAAGATGAGATCCCGTGTAAGACCATATTTGGGATATGACATCGACATC
66 GATATGGCATCAGCATCAAGATGAGATCCCATATAAGACCATATCTGGGACATGACATCGACATC
35398627 GATAAGTGATCCTG
131 GATAAGTGATCCTG
* *
35398641 TATAAGACCACGTCTGGGACATGGCATCGGCATCAG-TATGAGATCCCATGTAAGACCATATCTG
1 TATAAGACCACATCTGGGACATGGCATCGGCAT-AGAAATGAGATCCCATGTAAGACCATATCTG
** * * * * * *
35398705 -GAATATGGCATTGGCATCGATATGAGGTCTCATATAAGACCATGTCTGGGACATGGCATCGACA
65 TG-ATATGGCATCAGCATCAAGATGAGATCCCATATAAGACCATATCTGGGACATGACATCGACA
35398769 CCGTTATGAG
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
143 1 0.01
144 103 0.98
145 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (144 bp):
TATAAGACCACATCTGGGACATGGCATCGGCATAGAAATGAGATCCCATGTAAGACCATATCTGT
GATATGGCATCAGCATCAAGATGAGATCCCATATAAGACCATATCTGGGACATGACATCGACATC
GATAAGTGATCCTG
Found at i:35398765 original size:96 final size:96
Alignment explanation
Indices: 35398482--35398765 Score: 331
Period size: 96 Copynumber: 2.9 Consensus size: 96
35398472 ACGACATGTG
* * * * *
35398482 AGTATTGAGATCCAATATAAGACCATATCTTGGATATGGCATCGGCATTGAAATGAGATCTCGTT
1 AGTA-TGAGATCCCATGTAAGACCATATC-TGGATATGGCATCGGCATCGATATGAGATCTCGTA
* * * *
35398547 TAAGACCATATCTGTGATATGGCATCAGCATCA
64 TAAGACCATGTCTGGGACATGGCATCGGCATCA
* * * * * *
35398580 AG-ATGAGATCCCGTGTAAGACCATATTTGGGATATGACATCGACATCGATAAGTGATC-CTGTA
1 AGTATGAGATCCCATGTAAGACCATATCT-GGATATGGCATCGGCATCGATATGAGATCTC-GTA
*
35398643 TAAGACCACGTCTGGGACATGGCATCGGCATC-
64 TAAGACCATGTCTGGGACATGGCATCGGCATCA
* * *
35398675 AGTATGAGATCCCATGTAAGACCATATCTGGAATATGGCATTGGCATCGATATGAGGTCTCATAT
1 AGTATGAGATCCCATGTAAGACCATATCTGG-ATATGGCATCGGCATCGATATGAGATCTCGTAT
35398740 AAGACCATGTCTGGGACATGGCATCG
65 AAGACCATGTCTGGGACATGGCATCG
35398766 ACACCGTTAT
Statistics
Matches: 155, Mismatches: 26, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
95 6 0.04
96 145 0.94
97 2 0.01
98 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (96 bp):
AGTATGAGATCCCATGTAAGACCATATCTGGATATGGCATCGGCATCGATATGAGATCTCGTATA
AGACCATGTCTGGGACATGGCATCGGCATCA
Found at i:35398791 original size:48 final size:47
Alignment explanation
Indices: 35398499--35398795 Score: 161
Period size: 48 Copynumber: 6.2 Consensus size: 47
35398489 AGATCCAATA
* * * ** * * *
35398499 TAAGACCATATCTTGGATATGGCATCGGCATTGAAATGAGATCTCGTT
1 TAAGACCATGTCTGGGACATGGCATCGGCACCG-TATGAGATCTCATG
* * * * * * *
35398547 TAAGACCATATCTGTGATATGGCATCAGCATCAAG-ATGAGATCCCGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCA-C-CGTATGAGATCTCATG
* * * * * * * *
35398595 TAAGACCATATTTGGGATATGACATCGACATCGATAAGTGATC-C-TG
1 TAAGACCATGTCTGGGACATGGCATCGGCACCG-TATGAGATCTCATG
* * *
35398641 TATAAGACCACGTCTGGGACATGGCATCGGCATCAGTATGAGATCCCATG
1 --TAAGACCATGTCTGGGACATGGCATCGGCA-CCGTATGAGATCTCATG
* * * * * * *
35398691 TAAGACCATATCTGGAATATGGCATTGGCATCGATATGAGGTCTCATA
1 TAAGACCATGTCTGGGACATGGCATCGGCACCG-TATGAGATCTCATG
* *
35398739 TAAGACCATGTCTGGGACATGGCATCGACACCGTTATGAGA-CTTCGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCACCG-TATGAGATC-TCATG
35398787 TAAGACCAT
1 TAAGACCAT
35398796 AGTTAGGCTA
Statistics
Matches: 192, Mismatches: 46, Indels: 22
0.74 0.18 0.08
Matches are distributed among these distances:
46 3 0.02
47 3 0.02
48 181 0.94
49 2 0.01
50 3 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGGCACCGTATGAGATCTCATG
Done.