Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 45 of 311
Found at i:12894348 original size:96 final size:96
Alignment explanation
Indices: 12894182--12894373 Score: 357
Period size: 96 Copynumber: 2.0 Consensus size: 96
12894172 AAGAGATGAA
*
12894182 ATCACTCCACAAAAATAGAACATGGGACCTTCTGAAACTTCCTAAAGGTAAAAAGGTTGTTTGTT
1 ATCACTCCACAAAAACAGAACATGGGACCTTCTGAAACTTCCTAAAGGTAAAAAGGTTGTTTGTT
*
12894247 GTAAATGGGTGTTTAAAAAGAAAGAAGGGAC
66 ATAAATGGGTGTTTAAAAAGAAAGAAGGGAC
*
12894278 ATCACTCCACAAAAACAGAACATGGGACCTTGTGAAACTTCCTAAAGGTAAAAAGGTTGTTTGTT
1 ATCACTCCACAAAAACAGAACATGGGACCTTCTGAAACTTCCTAAAGGTAAAAAGGTTGTTTGTT
12894343 ATAAATGGGTGTTTAAAAAGAAAGAAGGGAC
66 ATAAATGGGTGTTTAAAAAGAAAGAAGGGAC
12894374 TCCAGGAGTT
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 93 1.00
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (96 bp):
ATCACTCCACAAAAACAGAACATGGGACCTTCTGAAACTTCCTAAAGGTAAAAAGGTTGTTTGTT
ATAAATGGGTGTTTAAAAAGAAAGAAGGGAC
Found at i:12896904 original size:22 final size:21
Alignment explanation
Indices: 12896875--12896928 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
12896865 ATTGTGCATG
12896875 AAACCACTCATCATTGTAGAT
1 AAACCACTCATCATTGTAGAT
**
12896896 AAACACACTCATTGTTGTAGAT
1 AAAC-CACTCATCATTGTAGAT
*
12896918 AAACTACTCAT
1 AAACCACTCAT
12896929 AATAAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (21 bp):
AAACCACTCATCATTGTAGAT
Found at i:12900654 original size:20 final size:20
Alignment explanation
Indices: 12900617--12900656 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
12900607 CTTGTACGGA
* * *
12900617 TTGCACTTTGGTGTCTCTGT
1 TTGCACTTCGATGCCTCTGT
12900637 TTGCACTTCGATGCCTCTGT
1 TTGCACTTCGATGCCTCTGT
12900657 ATTTGCACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.07, C:0.25, G:0.23, T:0.45
Consensus pattern (20 bp):
TTGCACTTCGATGCCTCTGT
Found at i:12902259 original size:20 final size:19
Alignment explanation
Indices: 12902230--12902267 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
12902220 ACGATTAGTG
12902230 TCAAGATTTGGCAAGATCA
1 TCAAGATTTGGCAAGATCA
*
12902249 TCAAGGATTTGGTAAGATC
1 TCAA-GATTTGGCAAGATC
12902268 CAAAGAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (19 bp):
TCAAGATTTGGCAAGATCA
Found at i:12903492 original size:11 final size:11
Alignment explanation
Indices: 12903456--12903498 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
12903446 AAAAAATTAA
12903456 AAATATATATAT
1 AAATATATAT-T
12903468 AAATAT-T-TT
1 AAATATATATT
*
12903477 CAATATATATT
1 AAATATATATT
12903488 AAATATATATT
1 AAATATATATT
12903499 TATAAAATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 6 0.22
10 2 0.07
11 13 0.48
12 6 0.22
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (11 bp):
AAATATATATT
Found at i:12903568 original size:20 final size:20
Alignment explanation
Indices: 12903524--12903585 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
12903514 TCTTGATTCT
* *
12903524 ATTTTTATATATTTTTTAAG
1 ATTTTTATATATTTTTGAAA
*
12903544 A-TTAT-TAT-TTTTTGAAA
1 ATTTTTATATATTTTTGAAA
12903561 ATTTTTATATATTTTTGAAA
1 ATTTTTATATATTTTTGAAA
12903581 ATTTT
1 ATTTT
12903586 AGAATTAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 8 0.23
18 6 0.17
19 6 0.17
20 15 0.43
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
ATTTTTATATATTTTTGAAA
Found at i:12904838 original size:6 final size:6
Alignment explanation
Indices: 12904827--12904866 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
12904817 TCTTCCTCCC
*
12904827 CCCAAA CCCAAA CCCAAA CCCAAA CCCCAAC CCCAAA CCC
1 CCCAAA CCCAAA CCCAAA CCCAAA -CCCAAA CCCAAA CCC
12904867 CTCCTTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.42, C:0.57, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCAAA
Found at i:12904861 original size:13 final size:13
Alignment explanation
Indices: 12904826--12904867 Score: 68
Period size: 13 Copynumber: 3.3 Consensus size: 13
12904816 TTCTTCCTCC
12904826 CCCCAAACCCAAA
1 CCCCAAACCCAAA
12904839 -CCCAAACCCAAA
1 CCCCAAACCCAAA
*
12904851 CCCCAACCCCAAA
1 CCCCAAACCCAAA
12904864 CCCC
1 CCCC
12904868 TCCTTTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 12 0.44
13 15 0.56
ACGTcount: A:0.40, C:0.60, G:0.00, T:0.00
Consensus pattern (13 bp):
CCCCAAACCCAAA
Found at i:12906525 original size:6 final size:6
Alignment explanation
Indices: 12906516--12906546 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
12906506 GGAATTGCAT
12906516 GTTGAA GTTGAA GTTGAA GTTGAA GTTGAA G
1 GTTGAA GTTGAA GTTGAA GTTGAA GTTGAA G
12906547 ATGCTTGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (6 bp):
GTTGAA
Found at i:12911070 original size:2 final size:2
Alignment explanation
Indices: 12911063--12911096 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
12911053 TTGTTTAAGT
12911063 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12911097 ACATATTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12913328 original size:97 final size:95
Alignment explanation
Indices: 12913134--12913327 Score: 255
Period size: 96 Copynumber: 2.0 Consensus size: 95
12913124 TAAGCTTATT
* * * * *
12913134 AACACCTTGAATCTTTCTAACCCTAGGTTATGGCTTATTGATCAAGTGTTCATTTATCTCAGAAA
1 AACACCTTGAATCTTTCTAACCCTAAGTTATGGCCTATTGATCAAGTATTCA-TTATCCCAAAAA
* *
12913199 TATCTCGAGTTCAAATTATTATTATAAAAAA
65 TATCTCGAGTTCAAATCATTATAATAAAAAA
* *
12913230 AACACTTTGAATCTTTTTGAACCCTAAGTTATGGCCTATTGATCAAGTATTCA-TATGCCCAAAA
1 AACACCTTGAATCTTTCT-AACCCTAAGTTATGGCCTATTGATCAAGTATTCATTAT-CCCAAAA
* *
12913294 ATATCTTGAGTTCAAATCATTGTAATAAAAAA
64 ATATCTCGAGTTCAAATCATTATAATAAAAAA
12913326 AA
1 AA
12913328 AACATTTTAA
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
95 3 0.04
96 51 0.60
97 31 0.36
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (95 bp):
AACACCTTGAATCTTTCTAACCCTAAGTTATGGCCTATTGATCAAGTATTCATTATCCCAAAAAT
ATCTCGAGTTCAAATCATTATAATAAAAAA
Found at i:12913612 original size:117 final size:118
Alignment explanation
Indices: 12913464--12913698 Score: 375
Period size: 117 Copynumber: 2.0 Consensus size: 118
12913454 GATGAGGAAG
*
12913464 AAGGATACTTAATTTATTACCTTAATTAAAGCTTTCTCTCTTTAACCCATA-TTTTCTCTCACTA
1 AAGGATACTTAATTTATTACCTTAATTAAAGCTTTCTCTCTTTAACCCAAACTTTT-TCTCACTA
* *
12913528 TACTATAGAAACCATAAGC-TTCAATGGAGAGATTAAGGATGTAAACATGCTTA
65 TACTATAGAAACCATAAACTTTCAACGGAGAGATTAAGGATGTAAACATGCTTA
*
12913581 AAGGATACTTAATTTTTTACCTTAATTAAAGCTTTCTCTCTTTAACCCAAACTTTTTCTCACTAT
1 AAGGATACTTAATTTATTACCTTAATTAAAGCTTTCTCTCTTTAACCCAAACTTTTTCTCACTAT
* * * *
12913646 ACTATAGGAACCCTAAACTTTTAACGGAGAGATTGAGGATGTAAACATGCTTA
66 ACTATAGAAACCATAAACTTTCAACGGAGAGATTAAGGATGTAAACATGCTTA
12913699 GGAGGTGATT
Statistics
Matches: 108, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
117 73 0.68
118 35 0.32
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (118 bp):
AAGGATACTTAATTTATTACCTTAATTAAAGCTTTCTCTCTTTAACCCAAACTTTTTCTCACTAT
ACTATAGAAACCATAAACTTTCAACGGAGAGATTAAGGATGTAAACATGCTTA
Found at i:12918182 original size:5 final size:5
Alignment explanation
Indices: 12918172--12918222 Score: 95
Period size: 5 Copynumber: 10.4 Consensus size: 5
12918162 TTATGTTTTA
12918172 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
12918221 AT
1 AT
12918223 GAACTAAAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.09
5 41 0.91
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:12918397 original size:9 final size:9
Alignment explanation
Indices: 12918383--12918409 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
12918373 TAATTTTGAT
12918383 GTTTTAGAA
1 GTTTTAGAA
12918392 GTTTTAGAA
1 GTTTTAGAA
12918401 GTTTTAGAA
1 GTTTTAGAA
12918410 CAAAGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (9 bp):
GTTTTAGAA
Found at i:12919522 original size:15 final size:15
Alignment explanation
Indices: 12919502--12919558 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
12919492 CGATGAATTT
12919502 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
12919517 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
*
12919532 ATCGAATTTATATTG
1 ATTGAATTTATATTG
12919547 ATTGAA-TTATAT
1 ATTGAATTTATAT
12919559 AATATATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 6 0.17
15 30 0.83
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:12919532 original size:26 final size:28
Alignment explanation
Indices: 12919499--12919556 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 28
12919489 ATGCGATGAA
*
12919499 TTTATTGAATTTATATTGATTGAAATTAT
1 TTTATCGAATTTATATTGATTG-AATTAT
12919528 TTTGATCGAATTTATATTGATTGAATTAT
1 TTT-ATCGAATTTATATTGATTGAATTAT
12919557 ATAATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (28 bp):
TTTATCGAATTTATATTGATTGAATTAT
Found at i:12919989 original size:21 final size:22
Alignment explanation
Indices: 12919930--12919995 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 22
12919920 GCTTTATCGA
*
12919930 TTAGGCACTTTATGTGTCGTAT
1 TTAGGCCCTTTATGTGTCGTAT
**
12919952 TTCAGGCACC-TCGTGTGTCGT-T
1 TT-AGGC-CCTTTATGTGTCGTAT
12919974 TTAGGCCCTTTATGTGTCGTAT
1 TTAGGCCCTTTATGTGTCGTAT
12919996 ACTGATCAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
20 2 0.06
21 13 0.37
22 6 0.17
23 13 0.37
24 1 0.03
ACGTcount: A:0.14, C:0.20, G:0.24, T:0.42
Consensus pattern (22 bp):
TTAGGCCCTTTATGTGTCGTAT
Found at i:12924269 original size:35 final size:35
Alignment explanation
Indices: 12924242--12924408 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
12924232 CATGGCAAAG
12924242 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
12924277 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
*
12924312 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-T-T---ATCCATACTGAGC
** * * *
12924352 TAAGAAATGTAGGTATGGCATT-TCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATTAT-CCATACTGAGC
** *
12924387 TGAAAAATGTAGGTATAGTATT
1 TGTGAAATGTAGGTATGGTATT
12924409 TCAATGAGGA
Statistics
Matches: 117, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
34 1 0.01
35 83 0.71
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 29 0.25
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
Found at i:12924332 original size:40 final size:40
Alignment explanation
Indices: 12924253--12924369 Score: 131
Period size: 40 Copynumber: 3.0 Consensus size: 40
12924243 GTGAAATGTA
12924253 GGTATGGTATTATCCATACTGAGCTGTGAAA--T--GTA-
1 GGTATGGTATTATCCATACTGAGCTGTGAAATGTAGGTAT
12924288 GGTATGGTATTATCCATACTGAGCTGTGAAATGTAGGTAT
1 GGTATGGTATTATCCATACTGAGCTGTGAAATGTAGGTAT
* * **
12924328 GGTAT--TATCAAATCCATACTGAGTTAAGAAATGTAGGTAT
1 GGTATGGTAT--TATCCATACTGAGCTGTGAAATGTAGGTAT
12924368 GG
1 GG
12924370 CATTTCCCAT
Statistics
Matches: 71, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
35 31 0.44
37 1 0.01
38 3 0.04
39 3 0.04
40 33 0.46
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (40 bp):
GGTATGGTATTATCCATACTGAGCTGTGAAATGTAGGTAT
Found at i:12924380 original size:75 final size:74
Alignment explanation
Indices: 12924242--12924412 Score: 208
Period size: 75 Copynumber: 2.4 Consensus size: 74
12924232 CATGGCAAAG
** *
12924242 TGTGAAATGTAGGTATGGTA-TT---ATCCATACTGAGCTGTGAAATGTAGGTATGGTATTATCC
1 TGTGAAATGTAGGTATGGTATTTCAAATCCATACTGAGCTAAGAAATGTAGGTATGGCATTATCC
*
12924303 ATACTGAGC
66 ATACCGAGC
*
12924312 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
1 TGTGAAATGTAGGTATGGTATT-TCAAATCCATACTGAGCTAAGAAATGTAGGTATGGCATTAT-
*
12924376 CCATACCGAGT
64 CCATACCGAGC
** *
12924387 TGAAAAATGTAGGTATAGTATTTCAA
1 TGTGAAATGTAGGTATGGTATTTCAA
12924413 TGAGGAAAAC
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
70 20 0.23
71 1 0.01
72 1 0.01
74 5 0.06
75 59 0.69
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.33
Consensus pattern (74 bp):
TGTGAAATGTAGGTATGGTATTTCAAATCCATACTGAGCTAAGAAATGTAGGTATGGCATTATCC
ATACCGAGC
Found at i:12926215 original size:15 final size:16
Alignment explanation
Indices: 12926188--12926222 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
12926178 ATATAATAAG
12926188 ATTGATAAAAAAAAAT
1 ATTGATAAAAAAAAAT
12926204 ATTGAT-AAAAAAAAT
1 ATTGATAAAAAAAAAT
12926219 ATTG
1 ATTG
12926223 TCTTTGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.29
Consensus pattern (16 bp):
ATTGATAAAAAAAAAT
Found at i:12930082 original size:15 final size:16
Alignment explanation
Indices: 12930057--12930095 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
12930047 AAAGAAAATA
12930057 TAAAA-AAAAATA-AT
1 TAAAATAAAAATATAT
12930071 TAAAATAAAAATATAT
1 TAAAATAAAAATATAT
*
12930087 TTAAATAAA
1 TAAAATAAA
12930096 TTTAAGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 7 0.32
16 10 0.45
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAATAAAAATATAT
Found at i:12930092 original size:16 final size:15
Alignment explanation
Indices: 12930057--12930095 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
12930047 AAAGAAAATA
*
12930057 TAAAAAAAAATAATT
1 TAAATAAAAATAATT
*
12930072 AAAATAAAAATATATT
1 TAAATAAAAATA-ATT
12930088 TAAATAAA
1 TAAATAAA
12930096 TTTAAGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATAAAAATAATT
Found at i:12930689 original size:21 final size:22
Alignment explanation
Indices: 12930654--12930694 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12930644 AGTTGGAATG
*
12930654 AATAAAAATTCTATTATTAAAA
1 AATAAAAACTCTATTATTAAAA
*
12930676 AATAAAAACT-TATTTTTAA
1 AATAAAAACTCTATTATTAA
12930695 TGTCAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
AATAAAAACTCTATTATTAAAA
Found at i:12931053 original size:24 final size:25
Alignment explanation
Indices: 12930997--12931054 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
12930987 TTCATATATA
*
12930997 TATTTTTAAAAATATTATATTATTT
1 TATTTTTAAAAATATAATATTATTT
*
12931022 TA-ATTTAAAAAT-TAATATT-TTT
1 TATTTTTAAAAATATAATATTATTT
12931044 TATTTATTAAA
1 TATTT-TTAAA
12931055 TTTTATTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 5 0.18
23 7 0.25
24 14 0.50
25 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TATTTTTAAAAATATAATATTATTT
Found at i:12942687 original size:13 final size:13
Alignment explanation
Indices: 12942669--12942695 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12942659 ATTGGTCCGA
12942669 ATCACTGAAGAGT
1 ATCACTGAAGAGT
12942682 ATCACTGAAGAGT
1 ATCACTGAAGAGT
12942695 A
1 A
12942696 AACTGCCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (13 bp):
ATCACTGAAGAGT
Found at i:12943071 original size:21 final size:21
Alignment explanation
Indices: 12943047--12943102 Score: 58
Period size: 25 Copynumber: 2.5 Consensus size: 21
12943037 ATGCATAGAC
*
12943047 GTACCTATACACCCCTAGAAT
1 GTACATATACACCCCTAGAAT
12943068 GTACTTATATATACACCCCTAGAAT
1 GTAC----ATATACACCCCTAGAAT
*
12943093 GTACTTATAC
1 GTACATATAC
12943103 TTTGCTCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
21 9 0.31
25 20 0.69
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (21 bp):
GTACATATACACCCCTAGAAT
Found at i:12943080 original size:25 final size:25
Alignment explanation
Indices: 12943052--12943101 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
12943042 TAGACGTACC
12943052 TATACACCCCTAGAATGTACTTATA
1 TATACACCCCTAGAATGTACTTATA
12943077 TATACACCCCTAGAATGTACTTATA
1 TATACACCCCTAGAATGTACTTATA
12943102 CTTTGCTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (25 bp):
TATACACCCCTAGAATGTACTTATA
Found at i:12943518 original size:20 final size:21
Alignment explanation
Indices: 12943478--12943525 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
12943468 ATAAAAATCG
12943478 ATAGAATTGTTATTCTAGAAA
1 ATAGAATTGTTATTCTAGAAA
12943499 ATAGAATT-TATATT-TAGAAA
1 ATAGAATTGT-TATTCTAGAAA
12943519 ATA-AATT
1 ATAGAATT
12943526 CTCACTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.15
20 10 0.38
21 12 0.46
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (21 bp):
ATAGAATTGTTATTCTAGAAA
Found at i:12944860 original size:38 final size:38
Alignment explanation
Indices: 12944809--12944884 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
12944799 AAAGCAAGAA
12944809 TACAAAAAAAAGGTTGATTTCGATTTCTATTTTCGTGT
1 TACAAAAAAAAGGTTGATTTCGATTTCTATTTTCGTGT
12944847 TACAAAAAAAAGGTTGATTTCGATTTCTATTTTCGTGT
1 TACAAAAAAAAGGTTGATTTCGATTTCTATTTTCGTGT
12944885 CTTTTCGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.42
Consensus pattern (38 bp):
TACAAAAAAAAGGTTGATTTCGATTTCTATTTTCGTGT
Found at i:12945951 original size:16 final size:15
Alignment explanation
Indices: 12945934--12945979 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 15
12945924 TTCTAATTAT
12945934 TTTATATGTTATTTA
1 TTTATATGTTATTTA
12945949 TTT-TATG-T-TTTA
1 TTTATATGTTATTTA
*
12945961 TGTATATGTTATTTTA
1 TTTATATGTTA-TTTA
12945977 TTT
1 TTT
12945980 TAAACTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
12 6 0.24
13 5 0.20
14 5 0.20
15 3 0.12
16 6 0.24
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.70
Consensus pattern (15 bp):
TTTATATGTTATTTA
Found at i:12945972 original size:23 final size:21
Alignment explanation
Indices: 12945930--12945981 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
12945920 TTATTTCTAA
12945930 TTATTTTATATGTTATTTATT
1 TTATTTTATATGTTATTTATT
12945951 TTATGTTT-TATGTATATGTTATT
1 TTAT-TTTATATGT-TAT-TTATT
12945974 TTATTTTA
1 TTATTTTA
12945982 AACTTTTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 9 0.33
22 9 0.33
23 9 0.33
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (21 bp):
TTATTTTATATGTTATTTATT
Found at i:12946014 original size:20 final size:21
Alignment explanation
Indices: 12945975--12946014 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
12945965 TATGTTATTT
*
12945975 TATTTTAAACTTTTACATATCA
1 TATTTTAAAC-TTCACATATCA
12945997 TATTTTAAA-TTCACATAT
1 TATTTTAAACTTCACATAT
12946015 TAAGTAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
22 9 0.53
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTTTAAACTTCACATATCA
Found at i:12946137 original size:24 final size:23
Alignment explanation
Indices: 12946083--12946137 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
12946073 TTTCAAATCG
*
12946083 TATTATTATTTACTTTAAGTTTA
1 TATTATTATTTACTTGAAGTTTA
* *
12946106 TATATATTATTTACTTGAGGCTTTT
1 TAT-TATTATTTACTTGAAG-TTTA
12946131 TATTATT
1 TATTATT
12946138 TATTCGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 18 0.67
25 6 0.22
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.60
Consensus pattern (23 bp):
TATTATTATTTACTTGAAGTTTA
Found at i:12949913 original size:19 final size:19
Alignment explanation
Indices: 12949889--12949936 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
12949879 ACGCCTCTTT
*
12949889 TTACA-TTCATTCATTTGCA
1 TTACATTTCA-TCATATGCA
12949908 TTACATTTCATCATATGCA
1 TTACATTTCATCATATGCA
*
12949927 TTAAATTTCA
1 TTACATTTCA
12949937 CGAAAAGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.31, C:0.19, G:0.04, T:0.46
Consensus pattern (19 bp):
TTACATTTCATCATATGCA
Found at i:12958432 original size:45 final size:45
Alignment explanation
Indices: 12958340--12958435 Score: 113
Period size: 45 Copynumber: 2.1 Consensus size: 45
12958330 GCCATTAACA
* ** *
12958340 TTATCTCCCTGAAGATGCAGTGGAGCAGTTTGAAATTACCAAGTC
1 TTATCTCCCTGAAGATGCAGTGGAACAGACTGAAATTACCAAATC
* * *
12958385 TTATCTCCCTGAAGTTGCAGTGGAATAGACTGAAGA-TAGCAAATC
1 TTATCTCCCTGAAGATGCAGTGGAACAGACTGAA-ATTACCAAATC
12958430 TTATCT
1 TTATCT
12958436 TTTTAAAGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 42 0.98
46 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (45 bp):
TTATCTCCCTGAAGATGCAGTGGAACAGACTGAAATTACCAAATC
Found at i:12958614 original size:227 final size:225
Alignment explanation
Indices: 12958157--12958645 Score: 590
Period size: 227 Copynumber: 2.2 Consensus size: 225
12958147 ATATTGTAGA
* * *
12958157 TCTTGTCTCCCTAAAGTTGCAGTGGAGCAGATCAAAGATAGCAAATCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAACAGATCAAAGATAGCAAATCTTATCTCTCTAAAGTTGC
* *
12958222 AGTAGAGCAGATTAAGGCTAAATCCTATACCTCTGAAGTTACAGTAGGTCGGATCAAATCTACCA
66 AGTAGAGCAGATTAAGGCTAAATCCTATACATCTGAAGTTACAGTAGGTCAGATCAAATCTACCA
* * * **
12958287 TGGTAAATCTTATCACTCTGAAGTTGCAGTAGAGCATATTAAAGCCATTAACATTATCTCCCTGA
131 TGGCAAATCTTATCACCCTGAAGTTGCAGTAGAGCAGATTAAAGCCA-TAACACCATCTCCCTGA
* *
12958352 AGATGCAGTGGAGCAGTTTGAAATTACCAAG
195 AGATGCAATGGAGCAGGTTGAAATTACCAAG
* * * * *
12958383 TCTTATCTCCCTGAAGTTGCAGTGGAATAGA-CTGAAGATAGCAAATCTTATCTTTTTAAAGTTG
1 TCTTATCTCCCTAAAGTTGCAGTGGAACAGATC-AAAGATAGCAAATCTTATCTCTCTAAAGTTG
* * *
12958447 CAGTAGAGCAGATTAAGGCTATAAATCCTATACATCTGAAGTTGCAGTGGGTCA-AGTCAAGTC-
65 CAGTAGAGCAGATTAAGGC--TAAATCCTATACATCTGAAGTTACAGTAGGTCAGA-TCAAATCT
** * * * * *
12958510 ACCATGGCGGATCTTATCTCCCTGAATTTGCAGTGGAGCAGATTGAAATCGCA-AACCCCATCTC
127 ACCATGGCAAATCTTATCACCCTGAAGTTGCAGTAGAGCAGATT-AAAGC-CATAACACCATCTC
12958574 CCTGAAGATGCAATGGAGCAGGTTGAAATTACCAAG
190 CCTGAAGATGCAATGGAGCAGGTTGAAATTACCAAG
** * * **
12958610 TCTTATCTCTTTAAAGTTCCAGCGGAGTAGATCAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAACAGATCAAA
12958646 ACTACAAATC
Statistics
Matches: 222, Mismatches: 34, Indels: 13
0.83 0.13 0.05
Matches are distributed among these distances:
225 1 0.00
226 73 0.33
227 106 0.48
228 40 0.18
229 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (225 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAACAGATCAAAGATAGCAAATCTTATCTCTCTAAAGTTGC
AGTAGAGCAGATTAAGGCTAAATCCTATACATCTGAAGTTACAGTAGGTCAGATCAAATCTACCA
TGGCAAATCTTATCACCCTGAAGTTGCAGTAGAGCAGATTAAAGCCATAACACCATCTCCCTGAA
GATGCAATGGAGCAGGTTGAAATTACCAAG
Found at i:12960518 original size:20 final size:22
Alignment explanation
Indices: 12960479--12960518 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12960469 TATGTTATTT
12960479 TATTTTAAACTTCTACATATCA
1 TATTTTAAACTTCTACATATCA
12960501 TATTTTAAA-TTC-ACATAT
1 TATTTTAAACTTCTACATAT
12960519 TAAGTAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (22 bp):
TATTTTAAACTTCTACATATCA
Found at i:12960644 original size:24 final size:23
Alignment explanation
Indices: 12960589--12960644 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
12960579 TCAAATCGTA
*
12960589 TTATTATTATTTACTTTAAGTTT
1 TTATTATTATTTACTTGAAGTTT
* *
12960612 ATATATATTATTTACTTGAGGCTTT
1 TTAT-TATTATTTACTTGAAG-TTT
12960637 TTATTATT
1 TTATTATT
12960645 TATTCGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.11
24 18 0.67
25 6 0.22
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (23 bp):
TTATTATTATTTACTTGAAGTTT
Found at i:12962478 original size:20 final size:19
Alignment explanation
Indices: 12962449--12962486 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
12962439 CGTGTGGTTA
12962449 ACCTACACACACGTGTGCG
1 ACCTACACACACGTGTGCG
*
12962468 ACCTCACACACTCGTGTGC
1 ACCT-ACACACACGTGTGC
12962487 AAGGACCGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.24, C:0.39, G:0.18, T:0.18
Consensus pattern (19 bp):
ACCTACACACACGTGTGCG
Found at i:12962978 original size:22 final size:23
Alignment explanation
Indices: 12962953--12962998 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
12962943 CAACCAAATC
12962953 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
12962975 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
12962998 A
1 A
12962999 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:12963004 original size:23 final size:23
Alignment explanation
Indices: 12962960--12963004 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
12962950 ATCAATTCAA
*
12962960 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
12962983 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
12963005 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:12970471 original size:20 final size:21
Alignment explanation
Indices: 12970433--12970473 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
12970423 TTCTTCACAA
*
12970433 AATTTTCTCTTCTTTTTCTCT
1 AATTTTCTCTTCTTCTTCTCT
*
12970454 AATTTT-TCTTGTTCTTCTCT
1 AATTTTCTCTTCTTCTTCTCT
12970474 GCAACTTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.10, C:0.22, G:0.02, T:0.66
Consensus pattern (21 bp):
AATTTTCTCTTCTTCTTCTCT
Found at i:12985872 original size:14 final size:13
Alignment explanation
Indices: 12985852--12985883 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
12985842 AATATTTAAC
12985852 TTGTTCTTAATTA
1 TTGTTCTTAATTA
12985865 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
12985879 TTGTT
1 TTGTT
12985884 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:12988771 original size:20 final size:21
Alignment explanation
Indices: 12988725--12988764 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
12988715 AGACTATAAG
12988725 TAAATTTCTCTTTTGGTCACT
1 TAAATTTCTCTTTTGGTCACT
* *
12988746 TAAATTTCTTTTTTTGTCA
1 TAAATTTCTCTTTTGGTCA
12988765 TTCAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (21 bp):
TAAATTTCTCTTTTGGTCACT
Found at i:12989969 original size:2 final size:2
Alignment explanation
Indices: 12989962--12989986 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12989952 GTCGATTTTG
12989962 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
12989987 TTTTTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12994638 original size:12 final size:12
Alignment explanation
Indices: 12994621--12994645 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12994611 ACTTTATATT
12994621 TTTTATATACAA
1 TTTTATATACAA
12994633 TTTTATATACAA
1 TTTTATATACAA
12994645 T
1 T
12994646 ATAATATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTATATACAA
Found at i:13001875 original size:114 final size:114
Alignment explanation
Indices: 13001675--13001914 Score: 367
Period size: 114 Copynumber: 2.1 Consensus size: 114
13001665 GCAAACCTCC
* *
13001675 TTGTGCGAACCCATCTGTATGAAACCCTAGGTGCGAGCCTTAAAGTGCAAACTCCGATTAAGCGA
1 TTGTGCGAACCCATCTATATGAAACCCTAGGTGCGAGCCTTAAAGTGCAAACCCCGATTAAGCGA
*
13001740 ACCCCTATGTAAAAAGATATAGGGTTGGTCATGCGAGCCCCCAATATAT
66 ACCCCTATGTAAAAAGATATAGGATTGGTCATGCGAGCCCCCAATATAT
* * ** *
13001789 TTGTGCGAACTCATCTATATGAAACCCTAGGTGCGAGCCTTAAATTGTGAACCCC-AGTTAAGTG
1 TTGTGCGAACCCATCTATATGAAACCCTAGGTGCGAGCCTTAAAGTGCAAACCCCGA-TTAAGCG
13001853 AACCCCTATGTAAAACA-ATATAGGATTGGTCATGCGAGCCCCCAATATAT
65 AACCCCTATGTAAAA-AGATATAGGATTGGTCATGCGAGCCCCCAATATAT
*
13001903 TTATGCGAACCC
1 TTGTGCGAACCC
13001915 TAATTATTGA
Statistics
Matches: 114, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
113 1 0.01
114 112 0.98
115 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (114 bp):
TTGTGCGAACCCATCTATATGAAACCCTAGGTGCGAGCCTTAAAGTGCAAACCCCGATTAAGCGA
ACCCCTATGTAAAAAGATATAGGATTGGTCATGCGAGCCCCCAATATAT
Found at i:13001982 original size:22 final size:22
Alignment explanation
Indices: 13001957--13002002 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
13001947 TGTGTTAGGT
* *
13001957 GAGCCATGTATTTATGTTATGC
1 GAGCCATGAATATATGTTATGC
13001979 GAGCCATGAATATATGTTATGC
1 GAGCCATGAATATATGTTATGC
13002001 GA
1 GA
13002003 ACCCTAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (22 bp):
GAGCCATGAATATATGTTATGC
Found at i:13002180 original size:29 final size:29
Alignment explanation
Indices: 13002148--13002474 Score: 257
Period size: 29 Copynumber: 11.4 Consensus size: 29
13002138 AGGTACATGT
* **
13002148 GAGCCTATATGCGAACCTTAGGAACTTAT
1 GAGCCTATATGCGAACCCTAGGAACTTGC
* * * *
13002177 GAGCCTTTATGCGAACCCTAGGTACATGT
1 GAGCCTATATGCGAACCCTAGGAACTTGC
*
13002206 GAGCCTATATGCGAACCCTAGAAACTTGC
1 GAGCCTATATGCGAACCCTAGGAACTTGC
* * * * **
13002235 GAGCTTGTATGCGAACACTAGGTACACGC
1 GAGCCTATATGCGAACCCTAGGAACTTGC
13002264 GAGCCTATATGCGAACCCTAGGAACTTGC
1 GAGCCTATATGCGAACCCTAGGAACTTGC
* * * * * * *
13002293 GAGCCTGTATTCGAGCCCCATGTACATGC
1 GAGCCTATATGCGAACCCTAGGAACTTGC
* * * *
13002322 GAG-C--T-TGTGAAACTTAGGAATTTGC
1 GAGCCTATATGCGAACCCTAGGAACTTGC
*** * * *
13002347 GATTTTATATGCGAATCCTAGGAACCTAC
1 GAGCCTATATGCGAACCCTAGGAACTTGC
* * * *
13002376 GAGCCTATATGCGAACACTAGGTACATGT
1 GAGCCTATATGCGAACCCTAGGAACTTGC
*
13002405 GAGCCTATATGCGAACCCTAGGAACTTGT
1 GAGCCTATATGCGAACCCTAGGAACTTGC
* ** *
13002434 GAGCCTATATACGAACCCTAGGTGCATGC
1 GAGCCTATATGCGAACCCTAGGAACTTGC
*
13002463 AAGCCTATATGC
1 GAGCCTATATGC
13002475 CATGCGAGCC
Statistics
Matches: 227, Mismatches: 67, Indels: 8
0.75 0.22 0.03
Matches are distributed among these distances:
25 12 0.05
26 1 0.00
28 2 0.01
29 212 0.93
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (29 bp):
GAGCCTATATGCGAACCCTAGGAACTTGC
Found at i:13002456 original size:58 final size:58
Alignment explanation
Indices: 13002136--13002474 Score: 299
Period size: 58 Copynumber: 5.9 Consensus size: 58
13002126 AACCTTAGGA
* * ** *
13002136 CTAGGTACATGTGAGCCTATATGCGAACCTTAGGAACTTATGAGCCTTTATGCGAACC
1 CTAGGTACATGCGAGCCTATATGCGAACCCTAGGAACTTGCGAGCCTATATGCGAACC
* * * * *
13002194 CTAGGTACATGTGAGCCTATATGCGAACCCTAGAAACTTGCGAGCTTGTATGCGAACA
1 CTAGGTACATGCGAGCCTATATGCGAACCCTAGGAACTTGCGAGCCTATATGCGAACC
* * * *
13002252 CTAGGTACACGCGAGCCTATATGCGAACCCTAGGAACTTGCGAGCCTGTATTCGAGCC
1 CTAGGTACATGCGAGCCTATATGCGAACCCTAGGAACTTGCGAGCCTATATGCGAACC
* * * * * * *** *
13002310 CCATGTACATGCGAG-C--T-TGTGAAACTTAGGAATTTGCGATTTTATATGCGAATC
1 CTAGGTACATGCGAGCCTATATGCGAACCCTAGGAACTTGCGAGCCTATATGCGAACC
* * * * * * *
13002364 CTAGGAACCTACGAGCCTATATGCGAACACTAGGTACATGTGAGCCTATATGCGAACC
1 CTAGGTACATGCGAGCCTATATGCGAACCCTAGGAACTTGCGAGCCTATATGCGAACC
* * * * ** * *
13002422 CTAGGAACTTGTGAGCCTATATACGAACCCTAGGTGCATGCAAGCCTATATGC
1 CTAGGTACATGCGAGCCTATATGCGAACCCTAGGAACTTGCGAGCCTATATGC
13002475 CATGCGAGCC
Statistics
Matches: 224, Mismatches: 53, Indels: 8
0.79 0.19 0.03
Matches are distributed among these distances:
54 36 0.16
55 2 0.01
57 2 0.01
58 184 0.82
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (58 bp):
CTAGGTACATGCGAGCCTATATGCGAACCCTAGGAACTTGCGAGCCTATATGCGAACC
Found at i:13006983 original size:11 final size:11
Alignment explanation
Indices: 13006967--13007000 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
13006957 AATATAGTGT
*
13006967 AAAGAAAAGGA
1 AAAGAAAAGAA
*
13006978 AAAGAAAATAA
1 AAAGAAAAGAA
13006989 AAAGAAAAGAA
1 AAAGAAAAGAA
13007000 A
1 A
13007001 TTGAAGATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (11 bp):
AAAGAAAAGAA
Found at i:13007526 original size:13 final size:15
Alignment explanation
Indices: 13007496--13007528 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
13007486 GTGAATGTAT
13007496 ATTAAATATTTATCA
1 ATTAAATATTTATCA
13007511 ATTAAA-ATTT-TCA
1 ATTAAATATTTATCA
13007524 ATTAA
1 ATTAA
13007529 TTAATTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 4 0.22
15 6 0.33
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTAAATATTTATCA
Found at i:13009136 original size:21 final size:20
Alignment explanation
Indices: 13009098--13009136 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
13009088 GTTTTATAAG
*
13009098 TTTATATCTATTATAAATTT
1 TTTATATCTATTAAAAATTT
*
13009118 TTTATATTTTATTAAAAAT
1 TTTATA-TCTATTAAAAAT
13009137 GTCAAGTGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTATATCTATTAAAAATTT
Found at i:13014973 original size:26 final size:26
Alignment explanation
Indices: 13014944--13014995 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
13014934 TGATATGTTT
13014944 GATTATATT-TAATGTTT-ATCAATTTA
1 GATTA-ATTATAAT-TTTGATCAATTTA
*
13014970 GATTAATTATAATTTTGATGAATTTA
1 GATTAATTATAATTTTGATCAATTTA
13014996 CTTAAAAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (26 bp):
GATTAATTATAATTTTGATCAATTTA
Found at i:13017180 original size:20 final size:21
Alignment explanation
Indices: 13017146--13017190 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
13017136 AAGCATATAA
*
13017146 AAAATTTTATAAGAGAGTACC
1 AAAATTTTATAAGAGAATACC
*
13017167 AAAA-TTTATGAGAGAATACC
1 AAAATTTTATAAGAGAATACC
13017187 AAAA
1 AAAA
13017191 AAACACGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.24
Consensus pattern (21 bp):
AAAATTTTATAAGAGAATACC
Found at i:13017272 original size:20 final size:21
Alignment explanation
Indices: 13017247--13017293 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
13017237 AGGGATTGTA
*
13017247 AAAAAATTGTGAGGAAATAC-
1 AAAAAATTATGAGGAAATACT
*
13017267 AAAAAATTATGAGGAATTACT
1 AAAAAATTATGAGGAAATACT
13017288 AAAAAA
1 AAAAAA
13017294 CTTGATGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.60, C:0.04, G:0.15, T:0.21
Consensus pattern (21 bp):
AAAAAATTATGAGGAAATACT
Found at i:13019411 original size:49 final size:50
Alignment explanation
Indices: 13019358--13019457 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
13019348 ATTTGTGGAG
13019358 TATGCCTCATATTTACG-AATTGACGTTTCAAGGAGGAAGAGCCAATGTC
1 TATGCCTCATATTTACGAAATTGACGTTTCAAGGAGGAAGAGCCAATGTC
** *
13019407 TATGCCTTGTATTTACGAAATTGACGTTTCAATGAGGAAGAGCCAATGTC
1 TATGCCTCATATTTACGAAATTGACGTTTCAAGGAGGAAGAGCCAATGTC
13019457 T
1 T
13019458 CGATGATGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 15 0.32
50 32 0.68
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (50 bp):
TATGCCTCATATTTACGAAATTGACGTTTCAAGGAGGAAGAGCCAATGTC
Found at i:13020495 original size:19 final size:20
Alignment explanation
Indices: 13020471--13020509 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
13020461 GTATAAAAAA
*
13020471 ATATATTT-TTATTCCAAAT
1 ATATATTTCTTATGCCAAAT
13020490 ATATATTTCTTATGCCAAAT
1 ATATATTTCTTATGCCAAAT
13020510 CCTAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (20 bp):
ATATATTTCTTATGCCAAAT
Found at i:13020613 original size:19 final size:20
Alignment explanation
Indices: 13020569--13020637 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
13020559 TGAGGGATTG
13020569 TCAAAAATTTTGAAGAAGTA
1 TCAAAAATTTTGAAGAAGTA
*
13020589 TCAAAAATTTTGAGGAAGTA
1 TCAAAAATTTTGAAGAAGTA
** * * *
13020609 GAAAAAATTGTGAAGGATTA
1 TCAAAAATTTTGAAGAAGTA
*
13020629 CCAAAAATT
1 TCAAAAATT
13020638 ATGAGGGAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.28
Consensus pattern (20 bp):
TCAAAAATTTTGAAGAAGTA
Found at i:13020615 original size:40 final size:41
Alignment explanation
Indices: 13020547--13020656 Score: 111
Period size: 40 Copynumber: 2.7 Consensus size: 41
13020537 TTTAAAAGCA
* * *
13020547 TACCAAATATTATGAGGG-ATTGTC-AAAAATTTTGAAGAAG
1 TACCAAAAATTATGAGGGAATAG-CAAAAAATTGTGAAGAAG
* * * *
13020587 TATCAAAAATTTTGA-GGAAGTAG-AAAAAATTGTGAAGGAT
1 TACCAAAAATTATGAGGGAA-TAGCAAAAAATTGTGAAGAAG
13020627 TACCAAAAATTATGAGGGAATAGCAAAAAA
1 TACCAAAAATTATGAGGGAATAGCAAAAAA
13020657 ACATGAGAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
39 2 0.04
40 42 0.75
41 12 0.21
ACGTcount: A:0.48, C:0.06, G:0.20, T:0.25
Consensus pattern (41 bp):
TACCAAAAATTATGAGGGAATAGCAAAAAATTGTGAAGAAG
Found at i:13020653 original size:20 final size:19
Alignment explanation
Indices: 13020550--13020655 Score: 68
Period size: 20 Copynumber: 5.3 Consensus size: 19
13020540 AAAAGCATAC
* * *
13020550 CAAATATTATGAGGGATTG
1 CAAAAATTATGAGGAATAG
* * *
13020569 TCAAAAATTTTGAAGAAGTAT
1 -CAAAAATTATGAGGAA-TAG
*
13020590 CAAAAATTTTGAGGAAGTAG
1 CAAAAATTATGAGGAA-TAG
* * * *
13020610 AAAAAATTGTGAAGGATTAC
1 CAAAAATTATG-AGGAATAG
13020630 CAAAAATTATGAGGGAATAG
1 CAAAAATTATGA-GGAATAG
13020650 CAAAAA
1 CAAAAA
13020656 AACATGAGAA
Statistics
Matches: 67, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
19 1 0.01
20 61 0.91
21 5 0.07
ACGTcount: A:0.48, C:0.06, G:0.21, T:0.25
Consensus pattern (19 bp):
CAAAAATTATGAGGAATAG
Found at i:13021435 original size:20 final size:21
Alignment explanation
Indices: 13021420--13021458 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13021410 CCATGACAGT
13021420 TTACC-AAAAATTATGAAGGA
1 TTACCAAAAAATTATGAAGGA
13021440 TTACCAAAAAATTATGAAG
1 TTACCAAAAAATTATGAAG
13021459 ATGTACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.51, C:0.10, G:0.13, T:0.26
Consensus pattern (21 bp):
TTACCAAAAAATTATGAAGGA
Found at i:13021449 original size:21 final size:20
Alignment explanation
Indices: 13021420--13021476 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
13021410 CCATGACAGT
13021420 TTACCAAAAATTATGAAGGA
1 TTACCAAAAATTATGAAGGA
13021440 TTACCAAAAAATTATGAA-GA
1 TTACC-AAAAATTATGAAGGA
* *
13021460 TGTACTAAAAACTATGA
1 T-TACCAAAAATTATGA
13021477 GAGATTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.26
Consensus pattern (20 bp):
TTACCAAAAATTATGAAGGA
Found at i:13030987 original size:6 final size:6
Alignment explanation
Indices: 13030978--13031050 Score: 74
Period size: 6 Copynumber: 11.5 Consensus size: 6
13030968 GAAGACTAAG
*
13030978 AAAATA AAAATAA AACAACTA AAAATA AAAATA AAAATAA AAAATA AACATA
1 AAAATA AAAAT-A AA-AA-TA AAAATA AAAATA AAAAT-A AAAATA AAAATA
* * *
13031030 AAAATA AGAATG AAAAGA AAA
1 AAAATA AAAATA AAAATA AAA
13031051 GAAATAAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
6 39 0.70
7 11 0.20
8 5 0.09
9 1 0.02
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:13031016 original size:33 final size:32
Alignment explanation
Indices: 13030979--13031059 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 32
13030969 AAGACTAAGA
13030979 AAATAAAAATAAAACAACTAAAAATAAAAAT-AA
1 AAATAAAAATAAAAC-A-TAAAAATAAAAATGAA
*
13031012 AAATAAAAA-ATAAACATAAAAATAAGAATGAA
1 AAATAAAAATA-AAACATAAAAATAAAAATGAA
*
13031044 AAGAAAAGAAATAAAA
1 AA-ATAA-AAATAAAA
13031060 TCAATGATCT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
31 12 0.29
32 6 0.15
33 16 0.39
34 6 0.15
35 1 0.02
ACGTcount: A:0.78, C:0.04, G:0.05, T:0.14
Consensus pattern (32 bp):
AAATAAAAATAAAACATAAAAATAAAAATGAA
Found at i:13031022 original size:19 final size:19
Alignment explanation
Indices: 13030978--13031036 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 19
13030968 GAAGACTAAG
13030978 AAAATAAAAATAAAACA-ACTA
1 AAAATAAAAATAAAA-ATA--A
13030999 AAAATAAAAATAAAAATAA
1 AAAATAAAAATAAAAATAA
*
13031018 AAAATAAACATAAAAATAA
1 AAAATAAAAATAAAAATAA
13031037 GAATGAAAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 19 0.53
20 1 0.03
21 16 0.44
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAATAAAAATAAAAATAA
Found at i:13032587 original size:19 final size:19
Alignment explanation
Indices: 13032555--13032598 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
13032545 GTAATAAAAT
*
13032555 AAGAA-AATAATAAATGAA
1 AAGAATAATAATAAATAAA
* *
13032573 AATAATAATACTAAATAAA
1 AAGAATAATAATAAATAAA
13032592 AAGAATA
1 AAGAATA
13032599 TGAGTAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (19 bp):
AAGAATAATAATAAATAAA
Found at i:13033127 original size:13 final size:13
Alignment explanation
Indices: 13033095--13033136 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
13033085 AAAAGGGAGG
13033095 AAGAGAAAAAGAGA
1 AAGA-AAAAAGAGA
*
13033109 AA-AAAAAAGATA
1 AAGAAAAAAGAGA
*
13033121 AAGAAAAAAGGGA
1 AAGAAAAAAGAGA
13033134 AAG
1 AAG
13033137 GAGGAGGGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 10 0.42
13 12 0.50
14 2 0.08
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (13 bp):
AAGAAAAAAGAGA
Found at i:13048532 original size:44 final size:45
Alignment explanation
Indices: 13048421--13048532 Score: 129
Period size: 45 Copynumber: 2.5 Consensus size: 45
13048411 TTCTGGAAAT
* * *
13048421 GAGTAAGACCATAGCTGAAAGACGCTATGGTATCATGATTCAAAC
1 GAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTCAAAC
**
13048466 GAGTAAGACTGTAGCT-ATAAGATGCTATGGCATCACGATTC-AAC
1 GAGTAAGACCATAGCTGA-AAGATGCTATGGCATCACGATTCAAAC
* **
13048510 GTGTAAGACCATAATTGAAAGAT
1 GAGTAAGACCATAGCTGAAAGAT
13048533 ATTATGACAA
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
44 20 0.36
45 35 0.64
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTCAAAC
Found at i:13048969 original size:15 final size:15
Alignment explanation
Indices: 13048930--13048969 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
13048920 TAGCTATTCG
13048930 AAATGATTATATATA
1 AAATGATTATATATA
*
13048945 AAAAGA--ATATATA
1 AAATGATTATATATA
13048958 AAATGATTATAT
1 AAATGATTATAT
13048970 GAATCGGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
13 12 0.57
15 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (15 bp):
AAATGATTATATATA
Found at i:13049943 original size:36 final size:36
Alignment explanation
Indices: 13049897--13049974 Score: 149
Period size: 36 Copynumber: 2.2 Consensus size: 36
13049887 ATAAATTGTT
13049897 AATTG-AGGAAAATTATACTAATTGGGGAAGGACTA
1 AATTGTAGGAAAATTATACTAATTGGGGAAGGACTA
13049932 AATTGTAGGAAAATTATACTAATTGGGGAAGGACTA
1 AATTGTAGGAAAATTATACTAATTGGGGAAGGACTA
13049968 AATTGTA
1 AATTGTA
13049975 AAAACTATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 5 0.12
36 37 0.88
ACGTcount: A:0.42, C:0.05, G:0.24, T:0.28
Consensus pattern (36 bp):
AATTGTAGGAAAATTATACTAATTGGGGAAGGACTA
Found at i:13050431 original size:21 final size:21
Alignment explanation
Indices: 13050405--13050457 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
13050395 TTGTATTTAC
*
13050405 TTTCTGTTTAGCTC-TCATGAG
1 TTTCTGTTTAACTCAT-ATGAG
13050426 TTTCTG-TTAACTCATATGAG
1 TTTCTGTTTAACTCATATGAG
13050446 TTTCTGTTTAAC
1 TTTCTGTTTAAC
13050458 CCTAATGGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (21 bp):
TTTCTGTTTAACTCATATGAG
Found at i:13050497 original size:42 final size:42
Alignment explanation
Indices: 13050432--13050512 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
13050422 TGAGTTTCTG
* * *
13050432 TTAACTCATATGAGTTTCTGTTTAACCCTAATGGATTTCCAT
1 TTAACTCATATGAGCTTCAGTTTAACCCTAATGCATTTCCAT
* * *
13050474 TTAACTCTTTTGAGCTTCAGTTTAACCCTTATGCATTTC
1 TTAACTCATATGAGCTTCAGTTTAACCCTAATGCATTTC
13050513 AGTTCAGCTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.44
Consensus pattern (42 bp):
TTAACTCATATGAGCTTCAGTTTAACCCTAATGCATTTCCAT
Found at i:13050513 original size:21 final size:20
Alignment explanation
Indices: 13050440--13050516 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 20
13050430 TGTTAACTCA
*
13050440 TATGAGTTTCTGTTTAACCCT
1 TATGA-TTTCAGTTTAACCCT
* *
13050461 AATGGATTTCCA-TTTAACTCT
1 TAT-GATTT-CAGTTTAACCCT
* *
13050482 TTTGAGCTTCAGTTTAACCCT
1 TATGA-TTTCAGTTTAACCCT
13050503 TATGCATTTCAGTT
1 TATG-ATTTCAGTT
13050517 CAGCTCCTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
20 4 0.10
21 34 0.81
22 4 0.10
ACGTcount: A:0.22, C:0.19, G:0.13, T:0.45
Consensus pattern (20 bp):
TATGATTTCAGTTTAACCCT
Found at i:13050530 original size:42 final size:42
Alignment explanation
Indices: 13050434--13050546 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 42
13050424 AGTTTCTGTT
* * * * * *
13050434 AACTCATATGAGTTTCTGTTTAACCCTAATGGATTTCCATTT
1 AACTCCTATGAGCTTCAGTTTAACCCTTATGCATTTCCATTC
* *
13050476 AACTCTTTTGAGCTTCAGTTTAACCCTTATGCATTT-CAGTTC
1 AACTCCTATGAGCTTCAGTTTAACCCTTATGCATTTCCA-TTC
* *
13050518 AGCTCCTATGAGCTTCCA-TTCAACCCTTA
1 AACTCCTATGAGCTT-CAGTTTAACCCTTA
13050547 AGGGTTTTTG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
41 2 0.03
42 54 0.93
43 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.40
Consensus pattern (42 bp):
AACTCCTATGAGCTTCAGTTTAACCCTTATGCATTTCCATTC
Found at i:13051675 original size:73 final size:73
Alignment explanation
Indices: 13051597--13051745 Score: 226
Period size: 73 Copynumber: 2.0 Consensus size: 73
13051587 GAAATGAGAA
* * * * *
13051597 ATGTGAAATGTTAAATGAATAGATGTTGAATGAGTGATATATCTAATGTGTTTACTTGTATATGT
1 ATGTGAAATGTTAAATGAATAGATGTTGAATAAATGACATATCTAATGCGTTTACATGTATATGT
13051662 TTTACAAC
66 TTTACAAC
* *
13051670 ATGTGAAATGTTAAATGAATAGATGTTGAATAAATGGCATATCTATTGCGTTTACATGTATATGT
1 ATGTGAAATGTTAAATGAATAGATGTTGAATAAATGACATATCTAATGCGTTTACATGTATATGT
*
13051735 TTTATAAC
66 TTTACAAC
13051743 ATG
1 ATG
13051746 AAAAGGTTAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (73 bp):
ATGTGAAATGTTAAATGAATAGATGTTGAATAAATGACATATCTAATGCGTTTACATGTATATGT
TTTACAAC
Found at i:13054209 original size:3 final size:3
Alignment explanation
Indices: 13054203--13054227 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13054193 AGAGAGAAGA
13054203 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
13054228 GGTCATCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13054868 original size:24 final size:23
Alignment explanation
Indices: 13054832--13054876 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
13054822 TTTGAAAGTG
13054832 AAAGTATATTTTATTAGTGAATTGA
1 AAAGTATATTTTA-TAGT-AATTGA
*
13054857 AAAGTGTA-TTTATAGTAATT
1 AAAGTATATTTTATAGTAATT
13054877 TAAAGATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 4 0.21
24 4 0.21
25 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (23 bp):
AAAGTATATTTTATAGTAATTGA
Found at i:13054934 original size:39 final size:39
Alignment explanation
Indices: 13054891--13054969 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
13054881 GATTAAAGAC
13054891 TTAATTGCTAAGAGTACAAAATTAGATAAGTGAAATAGA
1 TTAATTGCTAAGAGTACAAAATTAGATAAGTGAAATAGA
*
13054930 TTAATTGTTAAGAGTACAAAATTAGATAAGTGAAATAGA
1 TTAATTGCTAAGAGTACAAAATTAGATAAGTGAAATAGA
13054969 T
1 T
13054970 ATTAATACGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.48, C:0.04, G:0.18, T:0.30
Consensus pattern (39 bp):
TTAATTGCTAAGAGTACAAAATTAGATAAGTGAAATAGA
Found at i:13077196 original size:64 final size:64
Alignment explanation
Indices: 13077081--13077201 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 64
13077071 CAAGAATCAC
* *
13077081 CAAAACTTTACACACGTCGAACATGTAGCATTAACGTTAGCATCTATCACTCCATTAAGACCCT
1 CAAAACTTTACACACGTCGAACATGTAGCATTAACATTAGCACCTATCACTCCATTAAGACCCT
* * * * *
13077145 CAAAACTTTACATATGTCGAACATGTGGCATTATCATTAGGACCTGA-CACTCCATTA
1 CAAAACTTTACACACGTCGAACATGTAGCATTAACATTAGCACCT-ATCACTCCATTA
13077202 CACGGCCACC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
64 48 0.98
65 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (64 bp):
CAAAACTTTACACACGTCGAACATGTAGCATTAACATTAGCACCTATCACTCCATTAAGACCCT
Found at i:13079094 original size:18 final size:17
Alignment explanation
Indices: 13079060--13079118 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 17
13079050 CTGGAAACAT
13079060 ATTATGATTTAAAATTTTA
1 ATTAT-ATTT-AAATTTTA
13079079 ATTATATTATAAA-TTTA
1 ATTATATT-TAAATTTTA
*
13079096 GATTATATTTAATATTTTG
1 -ATTATATTTAA-ATTTTA
13079115 ATTA
1 ATTA
13079119 AATTGGTCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
17 7 0.20
18 19 0.54
19 9 0.26
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
ATTATATTTAAATTTTA
Found at i:13079267 original size:23 final size:24
Alignment explanation
Indices: 13079223--13079267 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
13079213 AGCTATCTCA
*
13079223 TTATTATTTTAGTCAATTTAATTT
1 TTATTATTTTAGTCAATGTAATTT
* *
13079247 TTATT-TTTTTGTTAATGTAAT
1 TTATTATTTTAGTCAATGTAAT
13079268 CATTAACATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (24 bp):
TTATTATTTTAGTCAATGTAATTT
Found at i:13079334 original size:8 final size:9
Alignment explanation
Indices: 13079309--13079333 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13079299 CATTGTTAAA
13079309 TTTTTTTTC
1 TTTTTTTTC
13079318 TTTTTTTTC
1 TTTTTTTTC
13079327 TTTTTTT
1 TTTTTTT
13079334 CCGGTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:13079453 original size:21 final size:21
Alignment explanation
Indices: 13079429--13079469 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13079419 GTTGCTTCCA
13079429 TCAAATCATCACTAATAAGCG
1 TCAAATCATCACTAATAAGCG
* *
13079450 TCAAATCATCATTGATAAGC
1 TCAAATCATCACTAATAAGC
13079470 TTAAAAGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (21 bp):
TCAAATCATCACTAATAAGCG
Found at i:13082222 original size:18 final size:18
Alignment explanation
Indices: 13082199--13082233 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13082189 GTCAAATTTT
13082199 TTAAATAATAATTATAAA
1 TTAAATAATAATTATAAA
*
13082217 TTAAATTATAATTATAA
1 TTAAATAATAATTATAA
13082234 TTATCACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAATAATAATTATAAA
Found at i:13082466 original size:2 final size:2
Alignment explanation
Indices: 13082423--13082447 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13082413 TTTGTGCTTT
13082423 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13082448 TAGATTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13083430 original size:43 final size:43
Alignment explanation
Indices: 13083372--13083559 Score: 252
Period size: 43 Copynumber: 4.4 Consensus size: 43
13083362 CCACCATTGC
* * *
13083372 TTTGCAGATAAAAACTACTACTGGGTTGTGGATGCATAACATA
1 TTTGTAGATAAAAACTACCACTGGGTTGTGGATGCACAACATA
** * *
13083415 TTTGTAGATAAAAACTACTTCTGGATTGTGGATGCATAACATA
1 TTTGTAGATAAAAACTACCACTGGGTTGTGGATGCACAACATA
*
13083458 TTCGTAGATAAAAACTACCACTGGGTTGTGGATGCACAACAT-
1 TTTGTAGATAAAAACTACCACTGGGTTGTGGATGCACAACATA
** * *
13083500 TTTCACAGATAAAAACTACCACTAGGATGTGGATGCACAACATA
1 TTT-GTAGATAAAAACTACCACTGGGTTGTGGATGCACAACATA
13083544 TTTGTAGATAAAAACT
1 TTTGTAGATAAAAACT
13083560 GTTGTGGATG
Statistics
Matches: 128, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
42 2 0.02
43 123 0.96
44 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (43 bp):
TTTGTAGATAAAAACTACCACTGGGTTGTGGATGCACAACATA
Found at i:13083573 original size:35 final size:35
Alignment explanation
Indices: 13083527--13083697 Score: 173
Period size: 35 Copynumber: 4.7 Consensus size: 35
13083517 ACCACTAGGA
**
13083527 TGTGGATGCACAACATATTTGTAGATAAAAACTGT
1 TGTGGATGCACAACATATTTACAGATAAAAACTGT
* * * *
13083562 TGTGGATGCACAACATATTTGCAGATAATAATTAT
1 TGTGGATGCACAACATATTTACAGATAAAAACTGT
*
13083597 TGTGGATGCACAACAT-TTTCACAGATAAAAACTACCACTAGGC
1 TGTGGATGCACAACATATTT-ACAGAT--AAA--A--ACT--GT
* *
13083640 TGTAGATGTACAACATATTTACAGATAAAAACTGT
1 TGTGGATGCACAACATATTTACAGATAAAAACTGT
13083675 TGTGGATGCACAACATATTTACA
1 TGTGGATGCACAACATATTTACA
13083698 TATCGTCTCA
Statistics
Matches: 112, Mismatches: 14, Indels: 20
0.77 0.10 0.14
Matches are distributed among these distances:
34 3 0.03
35 74 0.66
37 5 0.04
39 2 0.02
41 5 0.04
43 20 0.18
44 3 0.03
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (35 bp):
TGTGGATGCACAACATATTTACAGATAAAAACTGT
Found at i:13083681 original size:113 final size:113
Alignment explanation
Indices: 13083483--13083694 Score: 379
Period size: 113 Copynumber: 1.9 Consensus size: 113
13083473 TACCACTGGG
* *
13083483 TTGTGGATGCACAACATTTTCACAGATAAAAACTACCACTAGGATGTGGATGCACAACATATTTG
1 TTGTGGATGCACAACATTTTCACAGATAAAAACTACCACTAGGATGTAGATGCACAACATATTTA
*
13083548 TAGATAAAAACTGTTGTGGATGCACAACATATTTGCAGATAATAATTA
66 CAGATAAAAACTGTTGTGGATGCACAACATATTTGCAGATAATAATTA
* *
13083596 TTGTGGATGCACAACATTTTCACAGATAAAAACTACCACTAGGCTGTAGATGTACAACATATTTA
1 TTGTGGATGCACAACATTTTCACAGATAAAAACTACCACTAGGATGTAGATGCACAACATATTTA
13083661 CAGATAAAAACTGTTGTGGATGCACAACATATTT
66 CAGATAAAAACTGTTGTGGATGCACAACATATTT
13083695 ACATATCGTC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 94 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (113 bp):
TTGTGGATGCACAACATTTTCACAGATAAAAACTACCACTAGGATGTAGATGCACAACATATTTA
CAGATAAAAACTGTTGTGGATGCACAACATATTTGCAGATAATAATTA
Found at i:13083797 original size:38 final size:38
Alignment explanation
Indices: 13083745--13083818 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
13083735 TGTAATAGAA
* * *
13083745 CAATTCAACGCTAGCAGTAGACATGCTTAACATGTATT
1 CAATTAAACACTAGCAATAGACATGCTTAACATGTATT
*
13083783 CAATTAAACACTAGCAATAGACATGCTTATCATGTA
1 CAATTAAACACTAGCAATAGACATGCTTAACATGTA
13083819 CTCTGTAGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (38 bp):
CAATTAAACACTAGCAATAGACATGCTTAACATGTATT
Found at i:13090961 original size:43 final size:43
Alignment explanation
Indices: 13090909--13091002 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
13090899 CACCACTTTG
* *
13090909 CAAATAAAAACTACCACTAGG-TTGTGGGTGCACAACATATTTA
1 CAAATAAAAACTACCACT-GGACTGTGGATGCACAACATATTTA
*
13090952 CAGATAAAAACTACCACTGGACTGTGGATGCACAACATATTTA
1 CAAATAAAAACTACCACTGGACTGTGGATGCACAACATATTTA
13090995 CAAATAAA
1 CAAATAAA
13091003 CTGCCACTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 2 0.04
43 44 0.96
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (43 bp):
CAAATAAAAACTACCACTGGACTGTGGATGCACAACATATTTA
Found at i:13092436 original size:21 final size:21
Alignment explanation
Indices: 13092400--13092441 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13092390 TTGTGAATTT
*
13092400 GAAAACACTTTTTGACTTCAAA
1 GAAAACACTATTTGAC-TCAAA
13092422 GAAAACA-TATTTGACTCAAA
1 GAAAACACTATTTGACTCAAA
13092442 CACATTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.29
Consensus pattern (21 bp):
GAAAACACTATTTGACTCAAA
Found at i:13094261 original size:19 final size:19
Alignment explanation
Indices: 13094229--13094273 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
13094219 ATTTGTAAAT
13094229 ATATTATTAATATTTTTTC
1 ATATTATTAATATTTTTTC
*
13094248 TTATT-TTAATTATTTTTTC
1 ATATTATTAA-TATTTTTTC
13094267 ATATTAT
1 ATATTAT
13094274 ATTTATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 17 0.77
20 1 0.05
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
ATATTATTAATATTTTTTC
Found at i:13094279 original size:19 final size:19
Alignment explanation
Indices: 13094229--13094279 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
13094219 ATTTGTAAAT
13094229 ATATTATTAA-TATTTTTTC
1 ATATTA-TAATTATTTTTTC
* *
13094248 TTATTTTAATTATTTTTTC
1 ATATTATAATTATTTTTTC
*
13094267 ATATTATATTTAT
1 ATATTATAATTAT
13094280 AAAATATTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 3 0.12
19 23 0.88
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (19 bp):
ATATTATAATTATTTTTTC
Found at i:13094629 original size:37 final size:36
Alignment explanation
Indices: 13094588--13094657 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
13094578 ATGTGTCAAG
*
13094588 AAAAAGGAAAAAAATCACTTAAAAATAT-TAAAAATAT
1 AAAAAGCAAAAAAATCA-TTAAAAA-ATCTAAAAATAT
* *
13094625 AAAAATCCAAAAAATCATTAAAAAATCTAAAAA
1 AAAAAGCAAAAAAATCATTAAAAAATCTAAAAA
13094658 AAAAACTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 2 0.07
36 13 0.45
37 14 0.48
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.20
Consensus pattern (36 bp):
AAAAAGCAAAAAAATCATTAAAAAATCTAAAAATAT
Found at i:13097018 original size:41 final size:41
Alignment explanation
Indices: 13096973--13097055 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
13096963 ATTGAGTTGG
*
13096973 TATCGAGTTGAGTTGTGATATCAACTTAATCAACAATAATA
1 TATCGAGTTGAGTTGTGATATCAACTTAATCAACAACAATA
*
13097014 TATCGAGTTGAGTTGTGATATCAACTTAATCAATAACAATA
1 TATCGAGTTGAGTTGTGATATCAACTTAATCAACAACAATA
13097055 T
1 T
13097056 CAATATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (41 bp):
TATCGAGTTGAGTTGTGATATCAACTTAATCAACAACAATA
Found at i:13099372 original size:12 final size:12
Alignment explanation
Indices: 13099355--13099379 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13099345 ACACTTGCTG
13099355 CTTTTCTTTTTT
1 CTTTTCTTTTTT
13099367 CTTTTCTTTTTT
1 CTTTTCTTTTTT
13099379 C
1 C
13099380 CTTAAAGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
CTTTTCTTTTTT
Found at i:13099792 original size:3 final size:3
Alignment explanation
Indices: 13099786--13099824 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
13099776 ACCCTCAACA
* * *
13099786 TCT TCT TCT TCT TCT TCT TCT TCA TCA TCA TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
13099825 ACTACTCATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.08, C:0.33, G:0.00, T:0.59
Consensus pattern (3 bp):
TCT
Found at i:13107422 original size:3 final size:3
Alignment explanation
Indices: 13107404--13107442 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
13107394 TAAAAGATAT
13107404 TTA TATA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13107443 CAAATTAAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:13108952 original size:22 final size:22
Alignment explanation
Indices: 13108924--13108988 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
13108914 CTCTGATTAT
13108924 TAGCACATTAGTGCTCTCTG-A
1 TAGCACATTAGTGCTCTCTGTA
13108945 CTAGCACATCT-GTGCTCTCTGTA
1 -TAGCACAT-TAGTGCTCTCTGTA
*
13108968 TAGCACTTTAGTGCTCTCTGT
1 TAGCACATTAGTGCTCTCTGT
13108989 TCATTAGTGC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
21 1 0.03
22 36 0.92
23 2 0.05
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.37
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Found at i:13110405 original size:19 final size:20
Alignment explanation
Indices: 13110363--13110405 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
13110353 CCATATTAAC
** *
13110363 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
13110383 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
13110402 ACAG
1 ACAG
13110406 CCTCATATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:13110725 original size:27 final size:26
Alignment explanation
Indices: 13110695--13110759 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
13110685 GTCAAAATTA
* *
13110695 ACCTTAGGGGTATAACGGTCATTTTGC
1 ACCTTAGGGGTAAAACGGTAATTTT-C
*
13110722 ACC-TAGGGGTAAAATGGTAATTTTC
1 ACCTTAGGGGTAAAACGGTAATTTTC
*
13110747 ATACTTAGGGGTA
1 A-CCTTAGGGGTA
13110760 GTTTAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.06
26 19 0.59
27 11 0.34
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (26 bp):
ACCTTAGGGGTAAAACGGTAATTTTC
Found at i:13114849 original size:35 final size:35
Alignment explanation
Indices: 13114810--13114879 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
13114800 AAATACATAG
13114810 AACATCTCAGAAGAAATTGTTAAATCTATTCAGCC
1 AACATCTCAGAAGAAATTGTTAAATCTATTCAGCC
13114845 AACATCTCAGAAGAAATTGTTAAATCTATTCAGCC
1 AACATCTCAGAAGAAATTGTTAAATCTATTCAGCC
13114880 GTAACTATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (35 bp):
AACATCTCAGAAGAAATTGTTAAATCTATTCAGCC
Found at i:13118373 original size:30 final size:30
Alignment explanation
Indices: 13118338--13118394 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
13118328 AAAATCATAT
* *
13118338 TTTGTCAAAATTATAATTTTGCCCCTAAAC
1 TTTGTCAAAATTACAATTTTCCCCCTAAAC
*
13118368 TTTGTCAAAATTACATTTTTCCCCCTA
1 TTTGTCAAAATTACAATTTTCCCCCTA
13118395 GACTCGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (30 bp):
TTTGTCAAAATTACAATTTTCCCCCTAAAC
Found at i:13121770 original size:30 final size:30
Alignment explanation
Indices: 13121736--13121796 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
13121726 TCCTTAACTC
13121736 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
13121766 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
13121796 A
1 A
13121797 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:13126173 original size:30 final size:30
Alignment explanation
Indices: 13126139--13126199 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
13126129 TCCTTAACTC
13126139 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
13126169 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
13126199 A
1 A
13126200 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:13127486 original size:15 final size:14
Alignment explanation
Indices: 13127461--13127494 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
13127451 ACAATTTTAC
13127461 TAAAATAACTAAAG
1 TAAAATAACTAAAG
*
13127475 TAAAAGTAACTAGAG
1 TAAAA-TAACTAAAG
13127490 TAAAA
1 TAAAA
13127495 AGGTTCTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (14 bp):
TAAAATAACTAAAG
Found at i:13132905 original size:26 final size:26
Alignment explanation
Indices: 13132806--13132890 Score: 170
Period size: 26 Copynumber: 3.3 Consensus size: 26
13132796 ATGTTTGTTC
13132806 ATTTGAATAAATGTAAGCATGATAGG
1 ATTTGAATAAATGTAAGCATGATAGG
13132832 ATTTGAATAAATGTAAGCATGATAGG
1 ATTTGAATAAATGTAAGCATGATAGG
13132858 ATTTGAATAAATGTAAGCATGATAGG
1 ATTTGAATAAATGTAAGCATGATAGG
13132884 ATTTGAA
1 ATTTGAA
13132891 ATATTTTAGG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 59 1.00
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (26 bp):
ATTTGAATAAATGTAAGCATGATAGG
Found at i:13135479 original size:22 final size:22
Alignment explanation
Indices: 13135451--13135517 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
13135441 TCTCTGATTA
13135451 TTAGCACATTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
13135473 TTAGCACATTCA-TGCTCTCTGT
1 TTAGCACATT-AGTGCTCTCTGT
* * *
13135495 ATAGCACCTCAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
13135517 T
1 T
13135518 CATTAATGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 37 0.95
23 1 0.03
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:13140008 original size:7 final size:7
Alignment explanation
Indices: 13139996--13140027 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
13139986 TATATTTATT
13139996 TTAAATA
1 TTAAATA
13140003 TTAAATA
1 TTAAATA
13140010 TTAAATA
1 TTAAATA
13140017 TTAAATA
1 TTAAATA
13140024 TTAA
1 TTAA
13140028 TTTTCTTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TTAAATA
Found at i:13140568 original size:22 final size:22
Alignment explanation
Indices: 13140538--13140592 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
13140528 CATTTTTTGG
13140538 ATTACAATACAATTTAAACATAC
1 ATTA-AATACAATTTAAACATAC
*
13140561 ATTAAATACAATTTAAACATAG
1 ATTAAATACAATTTAAACATAC
13140583 ATTAAATACA
1 ATTAAATACA
13140593 TCACTTGAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.55, C:0.13, G:0.02, T:0.31
Consensus pattern (22 bp):
ATTAAATACAATTTAAACATAC
Found at i:13143225 original size:26 final size:26
Alignment explanation
Indices: 13143161--13143225 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
13143151 TGAGCGTCCC
*
13143161 ATTATATGGCTCTTTGTGAGCTTCCTG
1 ATTA-ATGGCTCTTTGTGAGCTTCCTA
* *
13143188 ATTAAAGGCTCTTTGTGAGCTTCTTA
1 ATTAATGGCTCTTTGTGAGCTTCCTA
*
13143214 ATTAATGACTCT
1 ATTAATGGCTCT
13143226 CCGGAGCTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 29 0.88
27 4 0.12
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (26 bp):
ATTAATGGCTCTTTGTGAGCTTCCTA
Found at i:13143329 original size:24 final size:24
Alignment explanation
Indices: 13143302--13143363 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
13143292 TGGCTCTTCG
*
13143302 GAGCTACCTGTTATTAGCTCTTAT
1 GAGCTTCCTGTTATTAGCTCTTAT
* *
13143326 GAGCTTCCTGATTA-TGGCTCTTTT
1 GAGCTTCCTG-TTATTAGCTCTTAT
*
13143350 GAGCTTCCCGTTAT
1 GAGCTTCCTGTTAT
13143364 ACATTCCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 3 0.09
24 26 0.81
25 3 0.09
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (24 bp):
GAGCTTCCTGTTATTAGCTCTTAT
Found at i:13143354 original size:73 final size:74
Alignment explanation
Indices: 13143177--13143359 Score: 169
Period size: 73 Copynumber: 2.5 Consensus size: 74
13143167 TGGCTCTTTG
* ***
13143177 TGAGCTTCCTGATTAAAGGCTCTTTGTGAGCTTCTTAATTAATGACTCTCCGGAGCTACCTGATA
1 TGAGCTTCCTGATT-ATGGCTCTTT-TGAGCTTCCCGATTAATGACTCTCCGGAGCTACCTGATA
13143242 TGACTTGCTTA
64 TGACTTGCTTA
* * *** * * *
13143253 --AACTT-CTCGATATATGGCTATCAGGAGCTTCCCGATTAATGGCTCTTCGGAGCTACCTGTTA
1 TGAGCTTCCT-GAT-TATGGCTCTTTTGAGCTTCCCGATTAATGACTCTCCGGAGCTACCTGATA
*
13143315 TTAGC-T-CTTA
64 TGA-CTTGCTTA
13143325 TGAGCTTCCTGATTATGGCTCTTTTGAGCTTCCCG
1 TGAGCTTCCTGATTATGGCTCTTTTGAGCTTCCCG
13143360 TTATACATTC
Statistics
Matches: 83, Mismatches: 18, Indels: 15
0.72 0.16 0.13
Matches are distributed among these distances:
72 4 0.05
73 55 0.66
74 21 0.25
75 3 0.04
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (74 bp):
TGAGCTTCCTGATTATGGCTCTTTTGAGCTTCCCGATTAATGACTCTCCGGAGCTACCTGATATG
ACTTGCTTA
Found at i:13152831 original size:46 final size:46
Alignment explanation
Indices: 13152778--13152914 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
13152768 TATATATACA
* * * * *
13152778 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCAAATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
13152824 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
13152870 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
13152915 ATACACTTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 82 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:13152959 original size:47 final size:47
Alignment explanation
Indices: 13152888--13153078 Score: 240
Period size: 47 Copynumber: 4.1 Consensus size: 47
13152878 ACACATTTCG
* * * * *
13152888 CATTAGCCATTCGGCTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACATTCATCA
* *
13152935 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* *
13152982 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
* * * **
13153029 CATTTGTCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
13153076 CAT
1 CAT
13153079 AAAATCCTAA
Statistics
Matches: 129, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 1 0.01
47 128 0.99
ACGTcount: A:0.26, C:0.29, G:0.09, T:0.36
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCA
Found at i:13156498 original size:40 final size:40
Alignment explanation
Indices: 13156445--13156731 Score: 367
Period size: 40 Copynumber: 6.9 Consensus size: 40
13156435 GAATACACAT
* *
13156445 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
13156485 CACCAGTACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
13156525 CTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
13156565 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
13156605 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
13156645 CACCAGCACGTATGCTCTTCGGGTGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACG-A----------ATGCTCTTCGGGACTTAGCCCGGATATAA
* *
13156696 CACCAGCGCGTATGCTCTTCGGGACTTAGCCCGGAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
13156732 CATATATAAC
Statistics
Matches: 218, Mismatches: 18, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
40 181 0.83
51 37 0.17
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:13156693 original size:51 final size:51
Alignment explanation
Indices: 13156617--13156718 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
13156607 CCAGCACGTA
13156617 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGG
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGG
*
13156668 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCGCGTATGCTCTTCGGG
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGG
13156719 ACTTAGCCCG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.25
Consensus pattern (51 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGTATGCTCTTCGGG
Found at i:13158274 original size:46 final size:46
Alignment explanation
Indices: 13158221--13158357 Score: 220
Period size: 46 Copynumber: 3.0 Consensus size: 46
13158211 TATATATACA
* * * *
13158221 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
13158267 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
13158313 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
13158358 ATACACTTCC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Done.