Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 98 of 250
Found at i:31779611 original size:20 final size:20
Alignment explanation
Indices: 31779565--31779612 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
31779555 AGTAAGCTCG
31779565 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
* * *
31779585 ATCGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
31779605 GTTGAGCT
1 GTTGAGCT
31779613 GGACGGAGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:31781225 original size:18 final size:19
Alignment explanation
Indices: 31781202--31781240 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
31781192 TTTATCTCAA
*
31781202 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
31781220 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
31781239 TT
1 TT
31781241 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:31781256 original size:48 final size:49
Alignment explanation
Indices: 31781204--31781307 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 49
31781194 TATCTCAATT
* * *
31781204 TCTTTTTCCACTCT-TTTTTC-TTGTTCACATTCTTTTTCTCTCTCAAAC
1 TCTTTTTCCACTCTCTTTTTCAAT-CTCACATTCTTTTTCACTCTCAAAC
* ** *
31781252 TCTTTTT-CATTCTCTTTTTCAATCTCATTTTCTTTTTCACTCTCAATC
1 TCTTTTTCCACTCTCTTTTTCAATCTCACATTCTTTTTCACTCTCAAAC
31781300 TCTTTTTC
1 TCTTTTTC
31781308 TTTTTCTTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
47 5 0.11
48 40 0.87
49 1 0.02
ACGTcount: A:0.12, C:0.28, G:0.01, T:0.59
Consensus pattern (49 bp):
TCTTTTTCCACTCTCTTTTTCAATCTCACATTCTTTTTCACTCTCAAAC
Found at i:31781279 original size:18 final size:18
Alignment explanation
Indices: 31781258--31781307 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
31781248 AAACTCTTTT
31781258 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
31781276 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
31781294 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
31781308 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:31781297 original size:24 final size:24
Alignment explanation
Indices: 31781233--31781314 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
31781223 CTTGTTCACA
*
31781233 TTCTTTTTCTCTCTCAAACTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
* * * * *
31781257 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTTTCTCTCTCAATCTCTTT
*
31781281 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
31781305 TTCTTTTTCT
1 TTCTTTTTCT
31781315 TTCATTTCTT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.61
Consensus pattern (24 bp):
TTCTTTTTCTCTCTCAATCTCTTT
Found at i:31781366 original size:42 final size:42
Alignment explanation
Indices: 31781311--31781407 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
31781301 CTTTTTCTTT
* * *
31781311 TTCTTTCA-TTTCTTTGTTTCTTTTCTCGATTTCATTCAAGA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
*
31781352 TTCTCTCATTTTCTTTGTTTCTTCTCTTGATTTCATTCAAAA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
*
31781394 TCCTCTCATTTTCT
1 TTCTCTCATTTTCT
31781408 CTCATAATCT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 7 0.14
42 43 0.86
ACGTcount: A:0.14, C:0.23, G:0.05, T:0.58
Consensus pattern (42 bp):
TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
Found at i:31789996 original size:29 final size:29
Alignment explanation
Indices: 31789907--31789996 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 29
31789897 AGCATTACAT
*
31789907 ACTTAGTAAGTTTGTATAATAGAAACTAA
1 ACTTAGTAAGTTCGTATAATAGAAACTAA
** * * * ** *
31789936 ACTTACCAA-TCCCATTTAATA-TTAC-AT
1 ACTTAGTAAGT-TCGTATAATAGAAACTAA
31789963 ACTTAGTAAGTTCGTATAATAGAAACTAA
1 ACTTAGTAAGTTCGTATAATAGAAACTAA
31789992 ACTTA
1 ACTTA
31789997 CCAATCTTGT
Statistics
Matches: 40, Mismatches: 17, Indels: 8
0.62 0.26 0.12
Matches are distributed among these distances:
27 15 0.38
28 6 0.15
29 19 0.47
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.34
Consensus pattern (29 bp):
ACTTAGTAAGTTCGTATAATAGAAACTAA
Found at i:31808067 original size:17 final size:17
Alignment explanation
Indices: 31808045--31808077 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31808035 GCTCGGACAC
31808045 GCCTGTGTAACTCTCTA
1 GCCTGTGTAACTCTCTA
31808062 GCCTGTGTAACTCTCT
1 GCCTGTGTAACTCTCT
31808078 GTTTATGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.36
Consensus pattern (17 bp):
GCCTGTGTAACTCTCTA
Found at i:31809066 original size:29 final size:29
Alignment explanation
Indices: 31809031--31809088 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
31809021 CTCTAAATTA
31809031 GGATCCACTAATTTTACCTGAAATTAGAC
1 GGATCCACTAATTTTACCTGAAATTAGAC
31809060 GGATCCACTAATTTTACCTGAAATTAGAC
1 GGATCCACTAATTTTACCTGAAATTAGAC
31809089 TCACATATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (29 bp):
GGATCCACTAATTTTACCTGAAATTAGAC
Found at i:31809578 original size:6 final size:6
Alignment explanation
Indices: 31809564--31809597 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
31809554 TGTTGACATA
*
31809564 ATAAAC ATAATC ATAAAC ATAAAC ATAAAC ATAA
1 ATAAAC ATAAAC ATAAAC ATAAAC ATAAAC ATAA
31809598 GTTTATTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.21
Consensus pattern (6 bp):
ATAAAC
Found at i:31810110 original size:52 final size:52
Alignment explanation
Indices: 31810029--31810130 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 52
31810019 TTCCAATTAT
* * * *
31810029 ATGTATCGCATCCATTATGAACTCGGACCAACTGAATGAGCTCGGATGCCAC
1 ATGTATCGCATCCATTATGAACCCAGACCAACTCAATGAGCTCGAATGCCAC
*
31810081 ATGTATCGTATCCATTATGAACCCAGACCAACTCAATGAGCTCGAATGCC
1 ATGTATCGCATCCATTATGAACCCAGACCAACTCAATGAGCTCGAATGCC
31810131 GCATACATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (52 bp):
ATGTATCGCATCCATTATGAACCCAGACCAACTCAATGAGCTCGAATGCCAC
Found at i:31819917 original size:50 final size:50
Alignment explanation
Indices: 31819778--31820073 Score: 227
Period size: 50 Copynumber: 5.9 Consensus size: 50
31819768 ATTGTGACAA
* ** *
31819778 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAGATAG--TTAGGT
* ** *
31819830 CACATGTGTAGTACTAAGTGCAAGCTACTACATGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAGATAGTTAGGT
** * * ** * * *
31819880 CGTATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAGA-TAGTT-AGGT
* * * * * **
31819931 CACGTGTGTACTAGTAAGTGCAGGCTACTAAGTGTATAAGACGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAGATAGTTAGGT
** * ** * *
31819981 CATGTGTGTAGTACTAAGTACAGGCTACTACATGTACTAGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAGATAGTTAGGT
* * * *
31820030 CACATGTATAGTACTAAGTACAGGCTACTATGCGTACTAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAGATAG
31820074 CTTCAGTTAC
Statistics
Matches: 190, Mismatches: 51, Indels: 9
0.76 0.20 0.04
Matches are distributed among these distances:
49 41 0.22
50 78 0.41
51 34 0.18
52 37 0.19
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAAGATAGTTAGGT
Found at i:31821296 original size:17 final size:14
Alignment explanation
Indices: 31821260--31821287 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31821250 CATTATAACA
31821260 AAAACATATTAGCT
1 AAAACATATTAGCT
31821274 AAAACATATTAGCT
1 AAAACATATTAGCT
31821288 CATAAAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
AAAACATATTAGCT
Found at i:31821964 original size:42 final size:41
Alignment explanation
Indices: 31821918--31822111 Score: 178
Period size: 43 Copynumber: 4.6 Consensus size: 41
31821908 TCAATGCCTC
* * *
31821918 TGTCCCATACAAGGTCTTACACGAAA-TCAGATACGATGCCGA
1 TGTCCCAGACACGGTCTTACACGAAACTCA-AT-CGAGGCCGA
* *
31821960 TGTCCCAGACATGGTCTTATACGTAAATCTCAATCGAGGCCTG-
1 TGTCCCAGACACGGTCTTACACG-AAA-CTCAATCGAGGCC-GA
** *
31822003 TGTCCCAGACACGGTCTTACACGAAA-TCAGATACGTTGCTGA
1 TGTCCCAGACACGGTCTTACACGAAACTCA-AT-CGAGGCCGA
* * * *
31822045 TGTCCCAGACATGGTCTTATACTTAAATCTCAATCGAGGCCTA
1 TGTCCCAGACACGGTCTTACAC-GAAA-CTCAATCGAGGCCGA
31822088 TGTCCCAGACACGGTCTTACACGA
1 TGTCCCAGACACGGTCTTACACGA
31822112 TATCTCAGAC
Statistics
Matches: 123, Mismatches: 19, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
40 3 0.02
41 3 0.02
42 48 0.39
43 58 0.47
44 5 0.04
45 6 0.05
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
TGTCCCAGACACGGTCTTACACGAAACTCAATCGAGGCCGA
Found at i:31822019 original size:85 final size:85
Alignment explanation
Indices: 31821913--31822111 Score: 335
Period size: 85 Copynumber: 2.3 Consensus size: 85
31821903 CAATATCAAT
* * *
31821913 GCCTCTGTCCCATACAAGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACATGGTCTT
1 GCCTATGTCCCAGACACGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACATGGTCTT
31821978 ATACGTAAATCTCAATCGAG
66 ATACGTAAATCTCAATCGAG
* * *
31821998 GCCTGTGTCCCAGACACGGTCTTACACGAAATCAGATACGTTGCTGATGTCCCAGACATGGTCTT
1 GCCTATGTCCCAGACACGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACATGGTCTT
*
31822063 ATACTTAAATCTCAATCGAG
66 ATACGTAAATCTCAATCGAG
31822083 GCCTATGTCCCAGACACGGTCTTACACGA
1 GCCTATGTCCCAGACACGGTCTTACACGA
31822112 TATCTCAGAC
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 107 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (85 bp):
GCCTATGTCCCAGACACGGTCTTACACGAAATCAGATACGATGCCGATGTCCCAGACATGGTCTT
ATACGTAAATCTCAATCGAG
Found at i:31839476 original size:40 final size:40
Alignment explanation
Indices: 31839429--31839523 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
31839419 CTCGATATCA
31839429 CACACTTAGTGCCTCA-TATAGCCGAAGCT-ATTCCAATTCG
1 CACACTTAGTGCCT-ATTATAGCCGAAGCTGATTCCAA-TCG
* **
31839469 CACACTTAGTG-CTATTTATAGCCGAAGCTGTTTTGAATCG
1 CACACTTAGTGCCTA-TTATAGCCGAAGCTGATTCCAATCG
31839509 CACACTTAGTGCCTA
1 CACACTTAGTGCCTA
31839524 AAATAGTCGA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 1 0.02
39 2 0.04
40 38 0.79
41 7 0.15
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (40 bp):
CACACTTAGTGCCTATTATAGCCGAAGCTGATTCCAATCG
Found at i:31853956 original size:40 final size:40
Alignment explanation
Indices: 31853919--31854136 Score: 208
Period size: 40 Copynumber: 5.6 Consensus size: 40
31853909 GCTACTCGTT
*
31853919 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
31853959 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
31853999 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
31854038 CCAATGCCTTC-GG-CTT----CGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
31854072 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
31854113 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
31854137 ACATCATTCG
Statistics
Matches: 155, Mismatches: 11, Indels: 24
0.82 0.06 0.13
Matches are distributed among these distances:
34 30 0.19
36 3 0.02
38 5 0.03
39 32 0.21
40 71 0.46
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:31854058 original size:34 final size:36
Alignment explanation
Indices: 31853947--31854084 Score: 172
Period size: 39 Copynumber: 3.7 Consensus size: 36
31853937 AGCCCGGTTA
*
31853947 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGG-CTT---CCGGAAT
*
31853987 TAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTT---CCGGAAT
*
31854026 TAGTAACTCGCACCAATGCCTTC-GGCTT-CGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTCCGGAAT
31854060 TAGTAACTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
31854085 ATCTTAGTCC
Statistics
Matches: 93, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
34 28 0.30
35 1 0.01
38 5 0.05
39 34 0.37
40 25 0.27
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (36 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTCCGGAAT
Found at i:31862140 original size:39 final size:39
Alignment explanation
Indices: 31862020--31862241 Score: 189
Period size: 39 Copynumber: 5.6 Consensus size: 39
31862010 TACTCGTTCA
* * * * *
31862020 AATGCCTTCGGAACATAGCCCGG-TTATAGTAACTCTCACA
1 AATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAACTCGCACC
* * * * * *
31862060 AATGCCTTCAGGACTTAACCTGGATTTAGTAGCTCGGACC
1 AATGCCTTC-GGGCTTAGCCCGGAATTAGTAACTCGCACC
31862100 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
* *
31862139 AATGCCTTTGGGCTTAGCCTGGAATTAGTAACTCGCACC
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
* * * * *
31862178 AATGCCTTCGGATCTTAGTCCGG-ATATGGTCACTTAGCA-C
1 AATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAAC-TCGCACC
*
31862218 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGA
31862242 CATCATTCGA
Statistics
Matches: 150, Mismatches: 25, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
39 73 0.49
40 69 0.46
41 8 0.05
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACC
Found at i:31862195 original size:79 final size:81
Alignment explanation
Indices: 31862020--31862234 Score: 226
Period size: 79 Copynumber: 2.7 Consensus size: 81
31862010 TACTCGTTCA
* * *
31862020 AATGCCTTCGGAACATAGCCCGG-TTATAGTAACTCTCACAAATGCCTTCAGGACTTAACCTGGA
1 AATGCCTTCGGAACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCTGGA
* * *
31862084 TTTAGTAGCTCGGACC
66 ATTAGTAACTCGCACC
* * * * *
31862100 AATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAACTCGCACCAATGCCTT-TGGGCTTAGCCTGGA
1 AATGCCTTCGGAACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCTGGA
31862162 ATTAGTAACTCGCACC
66 ATTAGTAACTCGCACC
* * * * * *
31862178 AATGCCTTCGGATCTTAGTCCGG-ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
1 AATGCCTTCGGAACTTAGCCCGGAATATAGTAAC-TCGCACAAATGCCTTCAGGACTTA
31862235 GCCCGGACAT
Statistics
Matches: 111, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
78 38 0.34
79 48 0.43
80 25 0.23
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (81 bp):
AATGCCTTCGGAACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCTGGA
ATTAGTAACTCGCACC
Found at i:31870531 original size:39 final size:40
Alignment explanation
Indices: 31870430--31870614 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
31870420 TTGAATGATG
* * *
31870430 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
31870469 ATCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
31870510 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
31870549 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
31870588 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
31870615 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 36 0.29
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:31873929 original size:16 final size:16
Alignment explanation
Indices: 31873910--31873940 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31873900 GGCAAAAGTC
*
31873910 GAAATGCCGAAAAGCT
1 GAAATGCCAAAAAGCT
31873926 GAAATGCCAAAAAGC
1 GAAATGCCAAAAAGC
31873941 AAAAAGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.23, T:0.10
Consensus pattern (16 bp):
GAAATGCCAAAAAGCT
Found at i:31874189 original size:29 final size:29
Alignment explanation
Indices: 31874150--31874225 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
31874140 GCATGAATAT
31874150 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGATTTGGGCCTAATGGGCCACATA
*
31874179 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGATTTGGGCCTAATGGGCCACATA
31874208 AATGTGATTTGGGCCTAA
1 AATGTGATTTGGGCCTAA
31874226 AGGGTCATGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCACATA
Found at i:31874298 original size:127 final size:127
Alignment explanation
Indices: 31874139--31874394 Score: 503
Period size: 127 Copynumber: 2.0 Consensus size: 127
31874129 TTCGAATGTG
31874139 AGCATGAATATAATGTGATTTGGGCCTAATGGGCCACATAAATGTGATTTGGGCCTAATGGGCCA
1 AGCATGAATATAATGTGATTTGGGCCTAATGGGCCACATAAATGTGATTTGGGCCTAATGGGCCA
31874204 TATAAATGTGATTTGGGCCTAAAGGGTCATGTGAATATAATTGGGTCTACTGGGCCATATAC
66 TATAAATGTGATTTGGGCCTAAAGGGTCATGTGAATATAATTGGGTCTACTGGGCCATATAC
31874266 AGCATGAATATAATGTGATTTGGGCCTAATGGGCCACATAAATGTGATTTGGGCCTAATGGGCCA
1 AGCATGAATATAATGTGATTTGGGCCTAATGGGCCACATAAATGTGATTTGGGCCTAATGGGCCA
*
31874331 TATAAATGTGATTTGGGCCTAAAGGGTCATGTGAATATAATTGGGTCTAGTGGGCCATATAC
66 TATAAATGTGATTTGGGCCTAAAGGGTCATGTGAATATAATTGGGTCTACTGGGCCATATAC
31874393 AG
1 AG
31874395 GTATGTGAAT
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 128 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (127 bp):
AGCATGAATATAATGTGATTTGGGCCTAATGGGCCACATAAATGTGATTTGGGCCTAATGGGCCA
TATAAATGTGATTTGGGCCTAAAGGGTCATGTGAATATAATTGGGTCTACTGGGCCATATAC
Found at i:31874311 original size:29 final size:29
Alignment explanation
Indices: 31874277--31874352 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
31874267 GCATGAATAT
31874277 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGATTTGGGCCTAATGGGCCACATA
*
31874306 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGATTTGGGCCTAATGGGCCACATA
31874335 AATGTGATTTGGGCCTAA
1 AATGTGATTTGGGCCTAA
31874353 AGGGTCATGT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCACATA
Found at i:31876375 original size:24 final size:23
Alignment explanation
Indices: 31876348--31876471 Score: 83
Period size: 24 Copynumber: 5.1 Consensus size: 23
31876338 AGCTCGTAAA
*
31876348 AGCTTACTGTTCTCAGCTCAAATG
1 AGCTTACTATTCTCAGCTCAAA-G
* *
31876372 AGCTTACTATTTTCTGCTCGTAAA-
1 AGCTTACTATTCTCAGCTC--AAAG
* *
31876396 AGCTTACAATT-TCAGCTTAATAG
1 AGCTTACTATTCTCAGCTCAA-AG
*
31876419 AGCTTACTGTTCATCAGCTCAGGAAG
1 AGCTTACTATTC-TCAGCTCA--AAG
*
31876445 AGCTTACTAATCAT-AGCTCGAAAG
1 AGCTTACTATTC-TCAGCTC-AAAG
31876469 AGC
1 AGC
31876472 AGAAATGATA
Statistics
Matches: 80, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
21 2 0.03
22 1 0.01
23 14 0.17
24 32 0.40
25 12 0.15
26 18 0.22
27 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (23 bp):
AGCTTACTATTCTCAGCTCAAAG
Found at i:31876458 original size:26 final size:24
Alignment explanation
Indices: 31876417--31876471 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
31876407 TCAGCTTAAT
** *
31876417 AGAGCTTACTGTTCATCAGCTCAGGA
1 AGAGCTTACTAATCAT-AGCTC-GAA
31876443 AGAGCTTACTAATCATAGCTCGAA
1 AGAGCTTACTAATCATAGCTCGAA
31876467 AGAGC
1 AGAGC
31876472 AGAAATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 7 0.27
25 5 0.19
26 14 0.54
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (24 bp):
AGAGCTTACTAATCATAGCTCGAA
Found at i:31884045 original size:24 final size:24
Alignment explanation
Indices: 31884009--31884113 Score: 81
Period size: 23 Copynumber: 4.4 Consensus size: 24
31883999 TAGTTGGAGG
*
31884009 TTACTATT-TCAGCTCATAAGAGC
1 TTACTGTTCTCAGCTCATAAGAGC
* *
31884032 TTACTGTTCTCAGCTCATCAGAAC
1 TTACTGTTCTCAGCTCATAAGAGC
** * *
31884056 TTACCATT-TTATCTCA-ATAGAGC
1 TTACTGTTCTCAGCTCATA-AGAGC
* *
31884079 TTACTGTTCATCAGCTCAGGAGGAGC
1 TTACTGTTC-TCAGCTCA-TAAGAGC
31884105 TTACTGTTC
1 TTACTGTTC
31884114 ATAGCTCGAA
Statistics
Matches: 62, Mismatches: 14, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
23 23 0.37
24 19 0.31
25 6 0.10
26 13 0.21
27 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (24 bp):
TTACTGTTCTCAGCTCATAAGAGC
Found at i:31884248 original size:20 final size:20
Alignment explanation
Indices: 31884219--31884269 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
31884209 CAACGGGCAT
31884219 AAATACTGTTTATATGGATG
1 AAATACTGTTTATATGGATG
*
31884239 AAATATTGTTTATATGGATG
1 AAATACTGTTTATATGGATG
**
31884259 AGCTACTGTTT
1 AAATACTGTTT
31884270 GCAAATGGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (20 bp):
AAATACTGTTTATATGGATG
Found at i:31888655 original size:27 final size:27
Alignment explanation
Indices: 31888625--31888676 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
31888615 GTACAGTTTG
* *
31888625 GGCCTTAGCCCTATACAGTAATAGTGT
1 GGCCTAAGCCCAATACAGTAATAGTGT
* *
31888652 GGCCTAAGCCCAATATAGTATTAGT
1 GGCCTAAGCCCAATACAGTAATAGT
31888677 ACAGTGTAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (27 bp):
GGCCTAAGCCCAATACAGTAATAGTGT
Found at i:31890023 original size:25 final size:25
Alignment explanation
Indices: 31889994--31890043 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
31889984 CATTATATAG
31889994 AAGTAACGATAATCATAGAAAGGAA
1 AAGTAACGATAATCATAGAAAGGAA
* *
31890019 AAGTAAGGATAATCCTAGAAAGGAA
1 AAGTAACGATAATCATAGAAAGGAA
31890044 GACCGCAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.54, C:0.08, G:0.22, T:0.16
Consensus pattern (25 bp):
AAGTAACGATAATCATAGAAAGGAA
Found at i:31901333 original size:14 final size:13
Alignment explanation
Indices: 31901316--31901358 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
31901306 AATAAAATTT
31901316 AAATGAAAATAAAA
1 AAAT-AAAATAAAA
*
31901330 AAATAAAAAATAAA
1 AAATAAAATA-AAA
31901344 AAATAAAAATAAAA
1 AAAT-AAAATAAAA
31901358 A
1 A
31901359 GATAGAAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 5 0.20
14 15 0.60
15 5 0.20
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (13 bp):
AAATAAAATAAAA
Found at i:31901343 original size:25 final size:25
Alignment explanation
Indices: 31901296--31901343 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
31901286 TATGTCTTTC
* **
31901296 AAAAGAAAATAATAAAATTTAAATG
1 AAAAGAAAAAAATAAAAAATAAATG
*
31901321 AAAATAAAAAAATAAAAAATAAA
1 AAAAGAAAAAAATAAAAAATAAA
31901344 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (25 bp):
AAAAGAAAAAAATAAAAAATAAATG
Found at i:31901358 original size:6 final size:7
Alignment explanation
Indices: 31901321--31901358 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
31901311 AATTTAAATG
31901321 AAAATAAA
1 AAAAT-AA
31901329 AAAATAA
1 AAAATAA
31901336 AAAATAA
1 AAAATAA
31901343 AAAAT-A
1 AAAATAA
31901349 AAAATAA
1 AAAATAA
31901356 AAA
1 AAA
31901359 GATAGAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.21
7 18 0.62
8 5 0.17
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:31906136 original size:7 final size:7
Alignment explanation
Indices: 31906126--31906151 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31906116 ATAAAGGTTA
31906126 AAAATGT
1 AAAATGT
31906133 AAAATGT
1 AAAATGT
31906140 AAAATGT
1 AAAATGT
31906147 AAAAT
1 AAAAT
31906152 AATATGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (7 bp):
AAAATGT
Found at i:31906771 original size:40 final size:40
Alignment explanation
Indices: 31906727--31906808 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
31906717 ATAATGGATG
*
31906727 GTTACATGTACTTCTATGGCTAACTTGTTGATGAATGTTT
1 GTTACATCTACTTCTATGGCTAACTTGTTGATGAATGTTT
31906767 GTTACATCTACTTCTATGGCTAACTTGTTGATGAATGTTT
1 GTTACATCTACTTCTATGGCTAACTTGTTGATGAATGTTT
31906807 GT
1 GT
31906809 GTTTAGGCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (40 bp):
GTTACATCTACTTCTATGGCTAACTTGTTGATGAATGTTT
Found at i:31916012 original size:46 final size:46
Alignment explanation
Indices: 31915962--31916132 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 46
31915952 GGTTGAGCAT
*
31915962 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
* * * *
31916008 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTC
* * *
31916055 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
*
31916101 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31916133 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.56
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
Found at i:31916121 original size:93 final size:92
Alignment explanation
Indices: 31915958--31916127 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
31915948 GGATGGTTGA
* *
31915958 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTT
1 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTT
31916023 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* * *
31916050 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCAT-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
31916115 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
31916128 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 4 0.06
93 68 0.94
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31916393 original size:19 final size:20
Alignment explanation
Indices: 31916356--31916393 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
31916346 ATAAGGTGGT
31916356 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
31916376 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
31916394 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:31928913 original size:24 final size:24
Alignment explanation
Indices: 31928877--31928962 Score: 93
Period size: 24 Copynumber: 3.6 Consensus size: 24
31928867 GATATATCAA
* *
31928877 CTCGTAAGTGCTTACTGTTTTTAG
1 CTCGTTAGAGCTTACTGTTTTTAG
* *
31928901 CTCGTTGGAGCTTACTG-TTTCAG
1 CTCGTTAGAGCTTACTGTTTTTAG
* * * *
31928924 CTCATAAGAGCTTACTCTTCTTAG
1 CTCGTTAGAGCTTACTGTTTTTAG
31928948 CTCGTTAGAGCTTAC
1 CTCGTTAGAGCTTAC
31928963 CATTTCAGCT
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
23 18 0.37
24 31 0.63
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.40
Consensus pattern (24 bp):
CTCGTTAGAGCTTACTGTTTTTAG
Found at i:31928934 original size:23 final size:23
Alignment explanation
Indices: 31928881--31929012 Score: 79
Period size: 23 Copynumber: 5.5 Consensus size: 23
31928871 TATCAACTCG
* * *
31928881 TAAGTGCTTACTGTTTTTAGCTCG
1 TAAGAGCTTACTG-TTTCAGCTCA
**
31928905 TTGGAGCTTACTGTTTCAGCTCA
1 TAAGAGCTTACTGTTTCAGCTCA
* * *
31928928 TAAGAGCTTACTCTTCTTAGCTCG
1 TAAGAGCTTACTGTT-TCAGCTCA
* **
31928952 TTAGAGCTTACCATTTCAGCTCA
1 TAAGAGCTTACTGTTTCAGCTCA
*
31928975 -ATAGAGCTTCCTGTTCATCAGCTCA
1 TA-AGAGCTTACTGTT--TCAGCTCA
31929000 -AGAGGAGCTTACT
1 TA-A-GAGCTTACT
31929013 ATTTGTAGCT
Statistics
Matches: 82, Mismatches: 21, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
23 36 0.44
24 28 0.34
25 10 0.12
26 8 0.10
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (23 bp):
TAAGAGCTTACTGTTTCAGCTCA
Found at i:31928950 original size:47 final size:47
Alignment explanation
Indices: 31928858--31928983 Score: 137
Period size: 47 Copynumber: 2.6 Consensus size: 47
31928848 CAGCTCGAAT
* * * * * *
31928858 GAGCTTACCGATATATCAACTCGTAAGTGCTTACTGTTTTTAGCTCGTTG
1 GAGCTTACC-AT-T-TCAGCTCATAAGAGCTTACTCTTCTTAGCTCGTTA
**
31928908 GAGCTTACTGTTTCAGCTCATAAGAGCTTACTCTTCTTAGCTCGTTA
1 GAGCTTACCATTTCAGCTCATAAGAGCTTACTCTTCTTAGCTCGTTA
31928955 GAGCTTACCATTTCAGCTCA-ATAGAGCTT
1 GAGCTTACCATTTCAGCTCATA-AGAGCTT
31928984 CCTGTTCATC
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 54 0.83
48 1 0.02
49 1 0.02
50 8 0.12
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (47 bp):
GAGCTTACCATTTCAGCTCATAAGAGCTTACTCTTCTTAGCTCGTTA
Found at i:31936294 original size:27 final size:28
Alignment explanation
Indices: 31936257--31936396 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
31936247 AGCATGGTTG
* * *
31936257 CCAGA-ACAGATA-ATGCGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
31936283 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
31936311 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
31936338 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
31936365 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
31936392 CCAGA
1 CCAGA
31936397 ACGCTTCCTC
Statistics
Matches: 105, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.80
28 16 0.15
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:31938033 original size:26 final size:26
Alignment explanation
Indices: 31937997--31938106 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
31937987 CATGAAATTC
31937997 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
31938023 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
31938049 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
31938075 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
31938101 TTATCA
1 TTATCA
31938107 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:31939006 original size:38 final size:38
Alignment explanation
Indices: 31938964--31939053 Score: 135
Period size: 38 Copynumber: 2.4 Consensus size: 38
31938954 GTAGGCTATA
* * * *
31938964 TGCTGGAATTATATCCGGGTTAAATCCCACAGGCTTCG
1 TGCTGGTATTATATCCCGGTTAAATCCCACAGGCCTAG
*
31939002 TGCTGGTATTATATCCCGGTTAAATCCCGCAGGCCTAG
1 TGCTGGTATTATATCCCGGTTAAATCCCACAGGCCTAG
31939040 TGCTGGTATTATAT
1 TGCTGGTATTATAT
31939054 ATGAGTTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.32
Consensus pattern (38 bp):
TGCTGGTATTATATCCCGGTTAAATCCCACAGGCCTAG
Found at i:31940611 original size:60 final size:60
Alignment explanation
Indices: 31940540--31940659 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
31940530 TATATGATAT
*
31940540 AATGTCAAGGTGTATATGATATGTATATATTGAAACAAAGTAAGTGAATTGCAAATATGA
1 AATGTCAAGGTGTATATGATATGTATATATTGAAACAAAGTAAGTGAATTACAAATATGA
31940600 AATGTCAAGGTGTATATGATATGTATATATTGAAACAAAGTAAGTGAATTACAAATATGA
1 AATGTCAAGGTGTATATGATATGTATATATTGAAACAAAGTAAGTGAATTACAAATATGA
31940660 TATGCTATAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.32
Consensus pattern (60 bp):
AATGTCAAGGTGTATATGATATGTATATATTGAAACAAAGTAAGTGAATTACAAATATGA
Found at i:31940862 original size:43 final size:43
Alignment explanation
Indices: 31940730--31940863 Score: 178
Period size: 43 Copynumber: 3.1 Consensus size: 43
31940720 TACAAAGTAA
31940730 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
* * * *
31940773 ATGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTACTG
1 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
* * * * **
31940816 GTGATGTGTATCCGGGTCTTCGTACCTAGAAGGCTTAATGCCG
1 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
31940859 GTGAT
1 GTGAT
31940864 TCGAGCAAGG
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 77 1.00
ACGTcount: A:0.14, C:0.22, G:0.32, T:0.32
Consensus pattern (43 bp):
GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
Found at i:31941096 original size:58 final size:58
Alignment explanation
Indices: 31940993--31941181 Score: 289
Period size: 58 Copynumber: 3.3 Consensus size: 58
31940983 GGATGAATAT
* * *
31940993 GAGCACTATGTGTGCGA-AT-GAT--TAGAGGCACTTTGTGTGCAAATTCCTTTAACC
1 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
31941047 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
1 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
* * *
31941105 GAGCACTATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCGAGTT-CTTCAACC
1 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
31941162 GAGCACTATGTGTGCGAGAT
1 GAGCACTATGTGTGCGAGAT
31941182 TGGTCAGTGG
Statistics
Matches: 125, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
54 17 0.14
55 2 0.02
56 3 0.02
57 27 0.22
58 76 0.61
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (58 bp):
GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
Found at i:31941120 original size:29 final size:28
Alignment explanation
Indices: 31941020--31941178 Score: 124
Period size: 29 Copynumber: 5.5 Consensus size: 28
31941010 ATGATTAGAG
* *
31941020 GCACTTTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCGAATT-CTTTAACCGA
** **
31941049 GCACTATGTGTGCGAGA-TCGATAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
*
31941077 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTATGTGTGCGAATT-CTTTAACCGA
** **
31941107 GCACTATGTGTGCGAGA-TCGGTAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
* * *
31941135 GGCACTGTGTGTGCGAGTTCTTCAACCGA
1 -GCACTATGTGTGCGAATTCTTTAACCGA
31941164 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
31941179 GATTGGTCAG
Statistics
Matches: 99, Mismatches: 24, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
28 27 0.27
29 64 0.65
30 8 0.08
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:31941195 original size:28 final size:28
Alignment explanation
Indices: 31941107--31941203 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 28
31941097 CTTTAACCGA
* * *
31941107 GCACTATGTGTGCGAGATCGGTAATTGAG
1 GCACTATGTGTGCGAGATTGGTCACTG-G
* ** * *
31941136 GCACTGTGTGTGCGAG-TTCTTCAACCGA
1 GCACTATGTGTGCGAGATTGGTC-ACTGG
*
31941164 GCACTATGTGTGCGAGATTGGTCAGTGG
1 GCACTATGTGTGCGAGATTGGTCACTGG
*
31941192 GCACTAAGTGTG
1 GCACTATGTGTG
31941204 TGAAATGAGA
Statistics
Matches: 51, Mismatches: 15, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
28 30 0.59
29 21 0.41
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.28
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATTGGTCACTGG
Found at i:31944833 original size:38 final size:38
Alignment explanation
Indices: 31944791--31944910 Score: 168
Period size: 38 Copynumber: 3.1 Consensus size: 38
31944781 GTAGGCTATA
*
31944791 TGCTGGAATTATATCCGGGTTAAATCCCGTAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGTAGGCTTCG
* * *
31944829 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGTAGGCTTCG
* *
31944867 TGCTGGTATTATATCTGAGTTTAAAGTCCCGTAGGCTTCG
1 TGCTGGTATTATATCCG-GGTTAAA-TCCCGTAGGCTTCG
31944907 TGCT
1 TGCT
31944911 AGTGTTATGT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 50 0.70
39 6 0.08
40 15 0.21
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.33
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGTAGGCTTCG
Found at i:31949339 original size:43 final size:43
Alignment explanation
Indices: 31949258--31949412 Score: 147
Period size: 43 Copynumber: 3.6 Consensus size: 43
31949248 GTGATTATAA
*
31949258 GTAAGACCATGTCTTGGACATTGGCAT--TGTATTGTGATTACGT
1 GTAAGACCATGTCTAGGACATTGGCATCAT-TA-TGTGATTACGT
* * *
31949301 GTAAGACCATGTCTGGGACATTGGCATCATTATATGATTTCGT
1 GTAAGACCATGTCTAGGACATTGGCATCATTATGTGATTACGT
* * * * * *
31949344 ATAAGACCCTATCTAGGACAGTGGCATCGA-TATGTGATAACAT
1 GTAAGACCATGTCTAGGACATTGGCATC-ATTATGTGATTACGT
* *
31949387 GTAAGACCATATCTAGGATA-TGGCAT
1 GTAAGACCATGTCTAGGACATTGGCAT
31949413 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
42 6 0.06
43 84 0.89
44 3 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
GTAAGACCATGTCTAGGACATTGGCATCATTATGTGATTACGT
Found at i:31950449 original size:40 final size:40
Alignment explanation
Indices: 31950404--31950557 Score: 245
Period size: 40 Copynumber: 3.9 Consensus size: 40
31950394 AAGCCTGTAA
* *
31950404 GATTTAACCCGGATATCTATTACCAGCTCAAAGCCTGTGG
1 GATTTAACCCGGATATCTATTACCAGCACAAAGCCTGCGG
* *
31950444 GATTTAACCTGGATATCTATTACTAGCACAAAGCCTGCGG
1 GATTTAACCCGGATATCTATTACCAGCACAAAGCCTGCGG
*
31950484 GATTTAACCCGGATATCTATTACCCGCACAAAGCCTGCGG
1 GATTTAACCCGGATATCTATTACCAGCACAAAGCCTGCGG
* *
31950524 GATTTAACACGGACATCTATTACCAGCACAAAGC
1 GATTTAACCCGGATATCTATTACCAGCACAAAGC
31950558 TTACGGACTA
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (40 bp):
GATTTAACCCGGATATCTATTACCAGCACAAAGCCTGCGG
Found at i:31952023 original size:46 final size:46
Alignment explanation
Indices: 31951973--31952140 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
31951963 TGAGCATCCT
*
31951973 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCCG
* * *
31952019 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--ATG--TCCG
* * *
31952066 AACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCCG
* *
31952112 AGCTCATTGAGTTGAGT-CGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
31952141 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 15 0.15
46 43 0.42
47 29 0.28
48 4 0.04
50 6 0.06
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAATGTCCG
Found at i:31952125 original size:93 final size:92
Alignment explanation
Indices: 31951966--31952135 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 92
31951956 GGATGGTTGA
* * *
31951966 GCATCCTAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
31952031 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGT-CGAGTTCGTGAGATGTAACTAG
* ** *
31952059 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAATGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
31952124 TGAGTCGAGTTC
66 TGAGTCGAGTTC
31952136 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 7 0.10
93 63 0.90
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
TGAGTCGAGTTCGTGAGATGTAACTAG
Found at i:31952401 original size:19 final size:20
Alignment explanation
Indices: 31952364--31952401 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
31952354 ATAAGGTGGT
31952364 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
31952384 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
31952402 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:31959580 original size:46 final size:46
Alignment explanation
Indices: 31959530--31959702 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
31959520 TGGTTGAGCA
* *
31959530 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
31959576 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
* *
31959623 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* *
31959669 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
31959703 GGGCGGTTAC
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:31959686 original size:93 final size:93
Alignment explanation
Indices: 31959527--31959697 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
31959517 GGATGGTTGA
* *
31959527 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
31959592 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* ** *
31959620 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
31959685 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
31959698 ACTTAGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:31959961 original size:19 final size:20
Alignment explanation
Indices: 31959924--31959961 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
31959914 ATAAGGTGGT
31959924 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
31959944 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
31959962 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:31965369 original size:45 final size:45
Alignment explanation
Indices: 31965305--31965393 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
31965295 TAGGTATGTC
31965305 TGAGTCTCGAAATCGTAACTGATAATAACCCGATCTCAAATCTAA
1 TGAGTCTCGAAATCGTAACTGATAATAACCCGATCTCAAATCTAA
31965350 TGAGTCTC-AAACTCGTAACTGATAATAACCCGATCTCAAATCTA
1 TGAGTCTCGAAA-TCGTAACTGATAATAACCCGATCTCAAATCTA
31965394 TCTTTGAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 3 0.07
45 40 0.93
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (45 bp):
TGAGTCTCGAAATCGTAACTGATAATAACCCGATCTCAAATCTAA
Found at i:31967422 original size:40 final size:39
Alignment explanation
Indices: 31967367--31967609 Score: 307
Period size: 40 Copynumber: 6.2 Consensus size: 39
31967357 CGGATGAGAA
* *
31967367 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGT-ACTATA-TCCGGGCTAAGTCC
* *
31967407 CGAAGGCATTTGTGCTAGTGACTA-ATTCCAGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGT-ACTATA-TCCGGGCTAAGTCC
*
31967447 CGAAGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCC
31967487 CGAAGGCATTTGTGCGAGTTACTATATCCGGG-TAAGTCC
1 CGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCC
31967526 CGAAGGCA-TTGTGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCC
* * *
31967565 CGAAGGCATTTGAGCGAGTAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTA-CTATATCCGGGCTAAGTCC
31967604 CGAAGG
1 CGAAGG
31967610 TACTTAGTTT
Statistics
Matches: 188, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
38 22 0.12
39 46 0.24
40 118 0.63
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCC
Found at i:31967500 original size:80 final size:79
Alignment explanation
Indices: 31967367--31967609 Score: 323
Period size: 78 Copynumber: 3.1 Consensus size: 79
31967357 CGGATGAGAA
* * * *
31967367 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGTTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
1 CGAAGGCATTTGTGCGAGTTACTATATT-CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA
31967431 -ATTCCAGGCTAAGTCC
65 TA-TCC-GGCTAAGTCC
*
31967447 CGAAGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
1 CGAAGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAT
*
31967512 ATCCGGGTAAGTCC
66 ATCCGGCTAAGTCC
* * *
31967526 CGAAGGCA-TTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTA
1 CGAAGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTA
* *
31967589 TATCCGGTTAAATCC
65 TATCCGGCTAAGTCC
31967604 CGAAGG
1 CGAAGG
31967610 TACTTAGTTT
Statistics
Matches: 149, Mismatches: 11, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
77 1 0.01
78 69 0.46
79 17 0.11
80 58 0.39
81 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
CGAAGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAT
ATCCGGCTAAGTCC
Found at i:31975089 original size:40 final size:40
Alignment explanation
Indices: 31975019--31975263 Score: 325
Period size: 40 Copynumber: 6.2 Consensus size: 40
31975009 CGGATGACAA
* * * *
31975019 CGAAGACATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCT
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
31975059 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
31975099 CAAAGGAATTTGTGGGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
31975139 CGAAGGAATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
31975179 CGAAGGCATTGGTGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * * *
31975219 CGAAGGCATTTGAGCGAG-TAGCTATAT-CTGGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
31975258 CGAAGG
1 CGAAGG
31975264 TACTTGGTTT
Statistics
Matches: 186, Mismatches: 17, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
39 17 0.09
40 168 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:31982444 original size:40 final size:40
Alignment explanation
Indices: 31982389--31982477 Score: 142
Period size: 40 Copynumber: 2.2 Consensus size: 40
31982379 CACCTGTATT
*
31982389 AAGCCTACGGGATTTAACCCGGATATCTATTACCAGCACA
1 AAGCCTGCGGGATTTAACCCGGATATCTATTACCAGCACA
* *
31982429 AAGCCTGCGGGATTTAACCCTGATATCTGTTACCAGCACA
1 AAGCCTGCGGGATTTAACCCGGATATCTATTACCAGCACA
*
31982469 AATCCTGCG
1 AAGCCTGCG
31982478 AACTATAAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
AAGCCTGCGGGATTTAACCCGGATATCTATTACCAGCACA
Found at i:31989976 original size:93 final size:93
Alignment explanation
Indices: 31989817--31989987 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 93
31989807 GGATGGTTGA
* * * ** *
31989817 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCGCTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCATTGAGT
31989882 TGACTCAGAGTTCGTGAGATGTAACTAG
66 TGACTCAGAGTTCGTGAGATGTAACTAG
* * *
31989910 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCTAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCATTGAGT
* *
31989975 TGAGTCCGAGTTC
66 TGACTCAGAGTTC
31989988 ACTTAGGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCATTGAGT
TGACTCAGAGTTCGTGAGATGTAACTAG
Found at i:31994327 original size:79 final size:81
Alignment explanation
Indices: 31994225--31994409 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
31994215 GCTCCTCGTT
* *
31994225 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
31994288 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
31994305 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
31994369 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
31994385 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31994410 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:31994409 original size:40 final size:40
Alignment explanation
Indices: 31994225--31994409 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
31994215 GCTCCTCGTT
* *
31994225 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
31994265 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
31994305 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
31994344 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
31994385 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31994410 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:32067789 original size:40 final size:39
Alignment explanation
Indices: 32067745--32068094 Score: 479
Period size: 40 Copynumber: 8.8 Consensus size: 39
32067735 CCAGCATGAT
* * *
32067745 TGCTCTTCGGGACCTAGCCTGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCC-GGATATATCACTAGCACGAA
32067785 TGCTCTTCGGG--TTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGC-CGGATATATCACTAGCACGAA
** *
32067823 TGCTCTTCGAAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAG-CCGGATATATCACTAGCACGAA
**
32067863 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGC-CGGATATATCACTAGCACGAA
* *
32067903 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAG-CCGGATATATCACTAGCACGAA
* *
32067943 TGCTCTTCGGGACTTAGTACGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAG-CCGGATATATCACTAGCACGAA
* *
32067983 TGCTCTTCGGGACTTAGCCCAGATATGTCACTAGCACGAA
1 TGCTCTTCGGGACTTAG-CCGGATATATCACTAGCACGAA
32068023 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAG-CCGGATATATCACTAGCACGAA
32068063 TGCTCTTCGGGACTTAGCACGGATATATCACT
1 TGCTCTTCGGGACTTAGC-CGGATATATCACT
32068095 CTCAATTCTC
Statistics
Matches: 278, Mismatches: 25, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
38 31 0.11
39 3 0.01
40 242 0.87
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
TGCTCTTCGGGACTTAGCCGGATATATCACTAGCACGAA
Found at i:32067909 original size:80 final size:80
Alignment explanation
Indices: 32067745--32068094 Score: 533
Period size: 80 Copynumber: 4.4 Consensus size: 80
32067735 CCAGCATGAT
* * * *
32067745 TGCTCTTCGGGACCTAGCCTGGATATAACACCAGCACGAATGCTCTTCGGG--TTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCACGGATA
32067808 TATCACTAGCACGAA
66 TATCACTAGCACGAA
** * **
32067823 TGCTCTTCGAAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCACGGATA
32067888 TATCACTAGCACGAA
66 TATCACTAGCACGAA
* * *
32067903 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCACGGATA
*
32067968 CATCACTAGCACGAA
66 TATCACTAGCACGAA
* * *
32067983 TGCTCTTCGGGACTTAGCCCAGATATGTCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCACGGATA
32068048 TATCACTAGCACGAA
66 TATCACTAGCACGAA
*
32068063 TGCTCTTCGGGACTTAGCACGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
32068095 CTCAATTCTC
Statistics
Matches: 248, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
78 44 0.18
80 204 0.82
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCACGGATA
TATCACTAGCACGAA
Found at i:32069423 original size:37 final size:37
Alignment explanation
Indices: 32069364--32069472 Score: 157
Period size: 37 Copynumber: 2.9 Consensus size: 37
32069354 AGCTCAGACG
* *
32069364 AAATCTCCACACGAAGTT-ATCGGGTCTTACCGGGACA
1 AAATCTCCACACGTA-TTCATCGGGTCTTACCCGGACA
32069401 AAATCTCCACACGTATTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTATTCATCGGGTCTTACCCGGACA
* * *
32069438 TAATCTCCATACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTATTCATCGGGTCTTACCCGGA
32069473 ATATATTTCC
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
36 2 0.03
37 64 0.97
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTATTCATCGGGTCTTACCCGGACA
Found at i:32069731 original size:47 final size:47
Alignment explanation
Indices: 32069679--32069872 Score: 298
Period size: 47 Copynumber: 4.1 Consensus size: 47
32069669 CATACATATT
* * * *
32069679 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
32069726 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
32069773 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
32069820 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
32069867 TCACAT
1 TCACAT
32069873 AAATCCTAAA
Statistics
Matches: 135, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:32069751 original size:22 final size:22
Alignment explanation
Indices: 32069725--32069843 Score: 59
Period size: 23 Copynumber: 5.1 Consensus size: 22
32069715 GTTCATATTC
32069725 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
32069747 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
32069771 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
32069794 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
32069818 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
32069841 ATC
1 ATC
32069844 TCATATATAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 18 0.25
23 19 0.27
24 19 0.27
25 15 0.21
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:32075190 original size:46 final size:45
Alignment explanation
Indices: 32075088--32075251 Score: 197
Period size: 46 Copynumber: 3.5 Consensus size: 45
32075078 ATTGTGAGCT
*
32075088 AGTGTAAGACATGTCTGGGACATGGCATCGGCATCGAGACG-AGTGC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGACGAAGT-C
* *
32075134 TAGTGCAAGACATGTCTGGCACATGCATCGGCCTCGAGACGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AAGTC
* * *
32075181 AGTGTAAGACATGTCTAGGACATGCATC-GACTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGA-AGTC
32075227 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
32075252 GTATCGACTT
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
45 4 0.04
46 60 0.58
47 36 0.35
48 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAAGTC
Found at i:32075266 original size:47 final size:45
Alignment explanation
Indices: 32075088--32075303 Score: 206
Period size: 47 Copynumber: 4.6 Consensus size: 45
32075078 ATTGTGAGCT
*
32075088 AGTGTAAGACATGTCTGGGACATGGCATCGGCATCGAGACG-AGTGC
1 AGTGTAAGACATGTCTGGGACATGGCATCGAC-TCGAGACGTAGT-C
* * *
32075134 TAGTGCAAGACATGTCTGGCACAT-GCATCGGCCTCGAGACGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGGCATC-GACTCGAGACGT-AGTC
* *
32075181 AGTGTAAGACATGTCTAGGACAT-GCATCGACTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACT-CGAGACG-TAGTC
* * *
32075227 AGTGTAAGACCATGTCTGGGACATGGTATCGACTTGAGATACG-AGCC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGACTCGAG--ACGTAGTC
* *
32075274 AGTATAAGACCATGTCTGGGAAATGGCATC
1 AGTGTAAGA-CATGTCTGGGACATGGCATC
32075304 AGCACCTTAC
Statistics
Matches: 144, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
45 3 0.02
46 57 0.40
47 71 0.49
48 11 0.08
49 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACTCGAGACGTAGTC
Found at i:32079191 original size:28 final size:29
Alignment explanation
Indices: 32079159--32079214 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
32079149 TATATGCATA
*
32079159 TGGCCCACTAGGCCC-AATCTCATTCATT
1 TGGCCCACTAGGCCCAAATCACATTCATT
*
32079187 TGGCCCATTAGGCCCAAATCACATTCAT
1 TGGCCCACTAGGCCCAAATCACATTCAT
32079215 ATACATGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.25, C:0.34, G:0.14, T:0.27
Consensus pattern (29 bp):
TGGCCCACTAGGCCCAAATCACATTCATT
Found at i:32084525 original size:27 final size:24
Alignment explanation
Indices: 32084495--32084564 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
32084485 CGAATGGGGC
*
32084495 AGCACTATGTGTGCGTATGGAAAAGCT
1 AGCACTATGTGTGCGAAT-GAAAA--T
* *
32084522 AGCACTAGGTGTGCGAATGAATAT
1 AGCACTATGTGTGCGAATGAAAAT
32084546 ATGCACTATGTGTGCGAAT
1 A-GCACTATGTGTGCGAAT
32084565 TTATTAACCG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 2 0.05
25 16 0.42
26 4 0.11
27 16 0.42
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (24 bp):
AGCACTATGTGTGCGAATGAAAAT
Found at i:32084558 original size:25 final size:26
Alignment explanation
Indices: 32084473--32084564 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 26
32084463 AATGAAAAGG
**
32084473 GCACTATGTGTGCGAATGG--GGC-A
1 GCACTATGTGTGCGAATGGAAAACTA
*
32084496 GCACTATGTGTGCGTATGGAAAAGCTA
1 GCACTATGTGTGCGAATGGAAAA-CTA
* *
32084523 GCACTAGGTGTGCGAAT-GAATA-TA
1 GCACTATGTGTGCGAATGGAAAACTA
32084547 TGCACTATGTGTGCGAAT
1 -GCACTATGTGTGCGAAT
32084565 TTATTAACCG
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
23 18 0.32
24 2 0.04
25 16 0.28
26 5 0.09
27 16 0.28
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (26 bp):
GCACTATGTGTGCGAATGGAAAACTA
Found at i:32086824 original size:40 final size:40
Alignment explanation
Indices: 32086754--32086921 Score: 140
Period size: 40 Copynumber: 4.2 Consensus size: 40
32086744 CGGGGTTTAG
** * *
32086754 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* ** * *
32086793 CCGGATATGGTCACTAGCATGAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
** * **
32086833 CCGGATATAGTTGCTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * * *
32086873 CCTGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGTCTTAAC
32086914 CCGGATAT
1 CCGGATAT
32086922 CATTCGAGTA
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 15 0.15
40 59 0.58
41 28 0.27
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:32092151 original size:15 final size:15
Alignment explanation
Indices: 32092133--32092168 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
32092123 CAGAATAAGC
32092133 AAATCCAAGATAAAG
1 AAATCCAAGATAAAG
* *
32092148 AAATCCATGATAAGG
1 AAATCCAAGATAAAG
32092163 AAATCC
1 AAATCC
32092169 TATTTACAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.17, G:0.14, T:0.17
Consensus pattern (15 bp):
AAATCCAAGATAAAG
Found at i:32093068 original size:20 final size:21
Alignment explanation
Indices: 32093018--32093071 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
32093008 CTTTCTTATG
*
32093018 CATATGCATATAACACTATTT
1 CATAAGCATATAACACTATTT
* *
32093039 CATCATCATAGTAACA-T-TTT
1 CATAAGCATA-TAACACTATTT
32093059 CATAAGCATATAA
1 CATAAGCATATAA
32093072 TTCATTTCAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.11
20 11 0.41
21 8 0.30
22 5 0.19
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.35
Consensus pattern (21 bp):
CATAAGCATATAACACTATTT
Found at i:32095176 original size:38 final size:38
Alignment explanation
Indices: 32095133--32095206 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
32095123 ACTTTTCAAA
* *
32095133 TTACATGTATGACTGTGGCATATCCACTTAGCACCATG
1 TTACATGTATAACCGTGGCATATCCACTTAGCACCATG
* *
32095171 TTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TTACATGTATAACCGTGGCATATCCACTTAGCACCA
32095207 CATTAATGAA
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:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (38 bp):
TTACATGTATAACCGTGGCATATCCACTTAGCACCATG
Found at i:32095287 original size:48 final size:48
Alignment explanation
Indices: 32095185--32095435 Score: 240
Period size: 48 Copynumber: 5.5 Consensus size: 48
32095175 ATGTTTAACC
* * *
32095185 GTGGTATATCCACTTAGCACCACATTA-ATGAATCAATAAATGTAATA
1 GTGGCATATCCACTTAGCACCACATTACATGTATCAATATATGTAATA
* *
32095232 GTGGCATATCCACTTAGCACCACATTACATTTATCAATATGTGTAATA
1 GTGGCATATCCACTTAGCACCACATTACATGTATCAATATATGTAATA
* **
32095280 GTGGCATATCCACTTAGCACCACGTTACATG------TATA-G---CC
1 GTGGCATATCCACTTAGCACCACATTACATGTATCAATATATGTAATA
* * * **
32095318 GTGGTATATCCATTTAGCACCACATTA-ATGAATCAATATATGTAACC
1 GTGGCATATCCACTTAGCACCACATTACATGTATCAATATATGTAATA
* * * *
32095365 GTGGCATATCCATTTAGCACCACGTTACATGTATCGATATGTGTAATCA
1 GTGGCATATCCACTTAGCACCACATTACATGTATCAATATATGTAAT-A
*
32095414 -TGGTATATCCACTTAGCACCAC
1 GTGGCATATCCACTTAGCACCAC
32095436 GCCATTCCGA
Statistics
Matches: 169, Mismatches: 22, Indels: 25
0.78 0.10 0.12
Matches are distributed among these distances:
37 3 0.02
38 24 0.14
41 1 0.01
42 3 0.02
43 4 0.02
44 1 0.01
47 53 0.31
48 80 0.47
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (48 bp):
GTGGCATATCCACTTAGCACCACATTACATGTATCAATATATGTAATA
Found at i:32095329 original size:133 final size:134
Alignment explanation
Indices: 32095147--32095436 Score: 458
Period size: 133 Copynumber: 2.2 Consensus size: 134
32095137 ATGTATGACT
* *
32095147 GTGGCATATCCACTTAGCACCATGTTACATGTTTAACCGTGGTATATCCACTTAGCACCACATTA
1 GTGGCATATCCACTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAGCACCACATTA
* *
32095212 ATGAATCAATAAATGTAATAGTGGCATATCCACTTAGCACCACATTACATTTATCAATATGTGTA
66 ATGAATCAATAAATGTAACAGTGGCATATCCACTTAGCACCACATTACATGTATCAATATGTGTA
32095277 AT-A
131 ATCA
* *
32095280 GTGGCATATCCACTTAGCACCACGTTACATGTATAGCCGTGGTATATCCATTTAGCACCACATTA
1 GTGGCATATCCACTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAGCACCACATTA
* * * * *
32095345 ATGAATCAATATATGTAACCGTGGCATATCCATTTAGCACCACGTTACATGTATCGATATGTGTA
66 ATGAATCAATAAATGTAACAGTGGCATATCCACTTAGCACCACATTACATGTATCAATATGTGTA
32095410 ATCA
131 ATCA
*
32095414 -TGGTATATCCACTTAGCACCACG
1 GTGGCATATCCACTTAGCACCACG
32095437 CCATTCCGAA
Statistics
Matches: 144, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
133 143 0.99
134 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (134 bp):
GTGGCATATCCACTTAGCACCACGTTACATGTATAACCGTGGTATATCCACTTAGCACCACATTA
ATGAATCAATAAATGTAACAGTGGCATATCCACTTAGCACCACATTACATGTATCAATATGTGTA
ATCA
Found at i:32095336 original size:38 final size:40
Alignment explanation
Indices: 32095280--32095398 Score: 118
Period size: 47 Copynumber: 2.9 Consensus size: 40
32095270 ATGTGTAATA
*
32095280 GTGGCATATCCACTTAGCACCACGTTACATGTATA-G-CC
1 GTGGCATATCCATTTAGCACCACGTTACATGTATATGACC
* *
32095318 GTGGTATATCCATTTAGCACCACATTA-ATGAATCAATATATGTAACC
1 GTGGCATATCCATTTAGCACCACGTTACATG------TATATG--ACC
32095365 GTGGCATATCCATTTAGCACCACGTTACATGTAT
1 GTGGCATATCCATTTAGCACCACGTTACATGTAT
32095399 CGATATGTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
37 3 0.05
38 24 0.37
42 3 0.05
43 4 0.06
44 1 0.02
47 27 0.42
48 3 0.05
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (40 bp):
GTGGCATATCCATTTAGCACCACGTTACATGTATATGACC
Found at i:32095382 original size:85 final size:86
Alignment explanation
Indices: 32095232--32095398 Score: 255
Period size: 85 Copynumber: 2.0 Consensus size: 86
32095222 AAATGTAATA
** * *
32095232 GTGGCATATCCACTTAGCACCACATTACATTTATCAATATGTGTAATAGTGGCATATCCACTTAG
1 GTGGCATATCCACTTAGCACCACATTACATGAATCAATATATGTAACAGTGGCATATCCACTTAG
32095297 CACCACGTTACATGTATAGCC
66 CACCACGTTACATGTATAGCC
* * * *
32095318 GTGGTATATCCATTTAGCACCACATTA-ATGAATCAATATATGTAACCGTGGCATATCCATTTAG
1 GTGGCATATCCACTTAGCACCACATTACATGAATCAATATATGTAACAGTGGCATATCCACTTAG
32095382 CACCACGTTACATGTAT
66 CACCACGTTACATGTAT
32095399 CGATATGTGT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
85 48 0.66
86 25 0.34
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (86 bp):
GTGGCATATCCACTTAGCACCACATTACATGAATCAATATATGTAACAGTGGCATATCCACTTAG
CACCACGTTACATGTATAGCC
Found at i:32096767 original size:32 final size:32
Alignment explanation
Indices: 32096731--32096795 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
32096721 TTGTAATCTA
32096731 ACCATTGGAATGGCTAGTAATGGTTGTTTTTC
1 ACCATTGGAATGGCTAGTAATGGTTGTTTTTC
32096763 ACCATTGGAATGGCTAGTAATGGTTGTTTTTC
1 ACCATTGGAATGGCTAGTAATGGTTGTTTTTC
32096795 A
1 A
32096796 TATACTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.23, C:0.12, G:0.25, T:0.40
Consensus pattern (32 bp):
ACCATTGGAATGGCTAGTAATGGTTGTTTTTC
Found at i:32120404 original size:45 final size:45
Alignment explanation
Indices: 32120354--32120440 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
32120344 CCAAAACATG
32120354 TGTCACATAAATCACGAACTCAAACCACAACTCAATGAGTTTGGA
1 TGTCACATAAATCACGAACTCAAACCACAACTCAATGAGTTTGGA
* *
32120399 TGTCACATATATCATGAACTCAAACCACAACTCAATGAGTTT
1 TGTCACATAAATCACGAACTCAAACCACAACTCAATGAGTTT
32120441 AGATTACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.25
Consensus pattern (45 bp):
TGTCACATAAATCACGAACTCAAACCACAACTCAATGAGTTTGGA
Found at i:32123045 original size:18 final size:18
Alignment explanation
Indices: 32123019--32123056 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
32123009 CAAAATTAGA
32123019 GAAAGAAAATAGCCATTG
1 GAAAGAAAATAGCCATTG
*
32123037 GAAATAAAATAGCCATTG
1 GAAAGAAAATAGCCATTG
32123055 GA
1 GA
32123057 GATTATAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.11, G:0.21, T:0.18
Consensus pattern (18 bp):
GAAAGAAAATAGCCATTG
Found at i:32131168 original size:45 final size:45
Alignment explanation
Indices: 32131104--32131196 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
32131094 GACTTCCTAC
32131104 TCAAGGCGTCAGCGACCACACTCGCGTTACCCGGATGGTAATCGG
1 TCAAGGCGTCAGCGACCACACTCGCGTTACCCGGATGGTAATCGG
*
32131149 TCAAGGCGTCAGCGGCCACACTCGCGTTACCCGGATGGTAATCGG
1 TCAAGGCGTCAGCGACCACACTCGCGTTACCCGGATGGTAATCGG
32131194 TCA
1 TCA
32131197 CAAGCTCATA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.18
Consensus pattern (45 bp):
TCAAGGCGTCAGCGACCACACTCGCGTTACCCGGATGGTAATCGG
Found at i:32136966 original size:28 final size:28
Alignment explanation
Indices: 32136935--32136999 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
32136925 ATTTACTAGA
* *
32136935 ATACCCTTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
32136963 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
32136991 ATACCCCTA
1 ATACCCCTA
32137000 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:32137145 original size:28 final size:29
Alignment explanation
Indices: 32137104--32137166 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
32137094 AGGAAGCGTC
*
32137104 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
32137132 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
32137161 CTGGTG
1 CTGGTG
32137167 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:32137177 original size:29 final size:28
Alignment explanation
Indices: 32137114--32137177 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
32137104 CTGGTGGCTA
* *
32137114 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
32137142 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
32137171 TGTCACA
1 TGCCACA
32137178 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:32137654 original size:19 final size:19
Alignment explanation
Indices: 32137630--32137668 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
32137620 TTTTAATTAT
* *
32137630 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
32137649 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
32137668 T
1 T
32137669 ATGGTGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:32138163 original size:11 final size:10
Alignment explanation
Indices: 32138135--32138168 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
32138125 AGCCTGTAAG
32138135 TATTCTGAAT
1 TATTCTGAAT
*
32138145 TTTTCTGAAT
1 TATTCTGAAT
32138155 ATATTCTGAAT
1 -TATTCTGAAT
32138166 TAT
1 TAT
32138169 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:32144687 original size:28 final size:28
Alignment explanation
Indices: 32144655--32144719 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
32144645 ATTTACTAGA
*
32144655 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
32144683 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
32144711 ATACCCCTA
1 ATACCCCTA
32144720 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:32144866 original size:28 final size:29
Alignment explanation
Indices: 32144825--32144887 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
32144815 AGGAAGCGTC
*
32144825 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
32144853 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
32144882 CTGGTG
1 CTGGTG
32144888 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:32144898 original size:29 final size:28
Alignment explanation
Indices: 32144835--32144898 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
32144825 CTGGTGGCTA
* *
32144835 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
32144863 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
32144892 TGTCACA
1 TGCCACA
32144899 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:32145375 original size:19 final size:19
Alignment explanation
Indices: 32145351--32145389 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
32145341 TTTTAATTAT
* *
32145351 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
32145370 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
32145389 T
1 T
32145390 ATGGTGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:32152697 original size:43 final size:43
Alignment explanation
Indices: 32152648--32152733 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
32152638 GTTTGAACCT
32152648 TAGGAATAGATTAGGATACAAGTTACATGTCACTAGGAATTAA
1 TAGGAATAGATTAGGATACAAGTTACATGTCACTAGGAATTAA
32152691 TAGGAATAGATTAGGATACAAGTTACATGTCACTAGGAATTAA
1 TAGGAATAGATTAGGATACAAGTTACATGTCACTAGGAATTAA
32152734 AAAGTCCGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (43 bp):
TAGGAATAGATTAGGATACAAGTTACATGTCACTAGGAATTAA
Found at i:32157876 original size:43 final size:43
Alignment explanation
Indices: 32157829--32157911 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
32157819 TGAGATTACA
32157829 TGTAAGACCATGTATGGGACATGGGCATCATTTATCGATTATG
1 TGTAAGACCATGTATGGGACATGGGCATCATTTATCGATTATG
* * * * *
32157872 TGTAAGACCATGTTTGGGGCATTGGCATCGTTTATTGATT
1 TGTAAGACCATGTATGGGACATGGGCATCATTTATCGATT
32157912 TCATGGAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (43 bp):
TGTAAGACCATGTATGGGACATGGGCATCATTTATCGATTATG
Found at i:32157922 original size:43 final size:43
Alignment explanation
Indices: 32157822--32157935 Score: 115
Period size: 43 Copynumber: 2.7 Consensus size: 43
32157812 ACCAAGATGA
* *
32157822 GATTACATGTAAGACCATGTATGGGACATGGGCATCATTTATC
1 GATTTCATGGAAGACCATGTATGGGACATGGGCATCATTTATC
* * * * *
32157865 GA-TT-ATGTGTAAGACCATGTTTGGGGCATTGGCATCGTTTATT
1 GATTTCATG-G-AAGACCATGTATGGGACATGGGCATCATTTATC
* *
32157908 GATTTCATGGAAGACCCTGTCTGGGACA
1 GATTTCATGGAAGACCATGTATGGGACA
32157936 GTGGTATTGA
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
41 3 0.05
42 1 0.02
43 47 0.82
44 3 0.05
45 3 0.05
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
GATTTCATGGAAGACCATGTATGGGACATGGGCATCATTTATC
Found at i:32162209 original size:40 final size:40
Alignment explanation
Indices: 32162172--32162249 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
32162162 AGTAAACGCA
* *
32162172 AGAATGCAATTGATTTAGAAAGCTTCCGCTATAAAACGAT
1 AGAATGCAATTGATTTACAAAGCTTCCACTATAAAACGAT
* *
32162212 ATAATGCAATTGATTTACAAAGCTTCCATTATAAAACG
1 AGAATGCAATTGATTTACAAAGCTTCCACTATAAAACG
32162250 TTATCTTGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (40 bp):
AGAATGCAATTGATTTACAAAGCTTCCACTATAAAACGAT
Found at i:32171955 original size:47 final size:48
Alignment explanation
Indices: 32171882--32172010 Score: 151
Period size: 47 Copynumber: 2.8 Consensus size: 48
32171872 TTCGTTGTGT
* * * *
32171882 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCA-CATTATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGA-CAGAAATATGA
32171928 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATGAAATATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACA-GAAATATGA
* *
32171977 -A-CCAGGGTAAGACCGTGTCTAGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
32172011 GCACCTTACC
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
46 13 0.18
47 46 0.63
48 8 0.11
49 6 0.08
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACAGAAATATGA
Found at i:32173189 original size:21 final size:22
Alignment explanation
Indices: 32173150--32173190 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
32173140 TTGGAATGCT
32173150 CACACGGCCGTGTTGCCCCTCC
1 CACACGGCCGTGTTGCCCCTCC
32173172 CACACAGG-CGTG-TGCCCCT
1 CACAC-GGCCGTGTTGCCCCT
32173191 GTGCCAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 9 0.50
23 2 0.11
ACGTcount: A:0.12, C:0.46, G:0.24, T:0.17
Consensus pattern (22 bp):
CACACGGCCGTGTTGCCCCTCC
Found at i:32179820 original size:42 final size:42
Alignment explanation
Indices: 32179728--32179872 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 42
32179718 TAAGACCACA
* *
32179728 TCTGGGACGTTGGCAT-TGACTTATGATTTAAGCGTAAGACCAC-G
1 TCTGGGACGTTGGCATCTTA-TT-TGATTT-AGTGTAAGACC-CTG
32179772 TCTGGGACGTTGGCATCTTATTTGATTTAGTGTAAGACCCTG
1 TCTGGGACGTTGGCATCTTATTTGATTTAGTGTAAGACCCTG
* * * *
32179814 TCTGGGACAG-TGGCATCGATATTTGATTAAATGTAAGACCATG
1 TCTGGGAC-GTTGGCATC-TTATTTGATTTAGTGTAAGACCCTG
*
32179857 TCTGGGACATTGGCAT
1 TCTGGGACGTTGGCAT
32179873 TGTACGAGAT
Statistics
Matches: 89, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.01
42 26 0.29
43 42 0.47
44 18 0.20
45 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
TCTGGGACGTTGGCATCTTATTTGATTTAGTGTAAGACCCTG
Found at i:32180113 original size:27 final size:27
Alignment explanation
Indices: 32180083--32180136 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
32180073 TGAAATGAGT
32180083 ATATGGGAAATGTACATGAGTTATGTG
1 ATATGGGAAATGTACATGAGTTATGTG
32180110 ATATGGGAAATGTACATGAGTTATGTG
1 ATATGGGAAATGTACATGAGTTATGTG
32180137 GTTTGTGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (27 bp):
ATATGGGAAATGTACATGAGTTATGTG
Found at i:32182022 original size:43 final size:43
Alignment explanation
Indices: 32181967--32182121 Score: 194
Period size: 43 Copynumber: 3.7 Consensus size: 43
32181957 ATATTGTACA
*
32181967 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * *
32182010 ATGCC-ACTGTCCCAGACAGGGTCTTACACG-AATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCACATATCG
* *
32182051 ATGCTAATGTCCCAGACATGGTCTTACATGTAATCGTACAT-T-G
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATC--ACATATCG
32182094 ATGCCAACGTCCCAGACATGGTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
32182122 CGAGAACACA
Statistics
Matches: 95, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
41 26 0.27
42 15 0.16
43 51 0.54
44 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:32182739 original size:15 final size:15
Alignment explanation
Indices: 32182715--32182746 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32182705 ATCAAAAATT
32182715 TCAATACAAAACATA
1 TCAATACAAAACATA
*
32182730 TCAATCCAAAACATA
1 TCAATACAAAACATA
32182745 TC
1 TC
32182747 TTTCATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.25, G:0.00, T:0.22
Consensus pattern (15 bp):
TCAATACAAAACATA
Found at i:32184709 original size:47 final size:47
Alignment explanation
Indices: 32184639--32184767 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 47
32184629 CACAATAAAT
* * * *
32184639 AAGTACCTATATCATGGCTCGTAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* * * *
32184686 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGATAACTCCTCTCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* * *
32184733 AAATACCTATACCATGGCCCGTAGCGAAATTAAGG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGG
32184768 CATTTACTCG
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.22
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
Found at i:32186726 original size:23 final size:23
Alignment explanation
Indices: 32186673--32186728 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
32186663 ATCACTACCG
32186673 ATCAGGATGCTCGCAAGAACTAT
1 ATCAGGATGCTCGCAAGAACTAT
**
32186696 ATAACAGGATGCTCG-AGAGGGCTAT
1 AT--CAGGATGCTCGCA-AGAACTAT
32186721 ATCAGGAT
1 ATCAGGAT
32186729 TACTCGTCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 8 0.29
24 1 0.04
25 19 0.68
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (23 bp):
ATCAGGATGCTCGCAAGAACTAT
Found at i:32197220 original size:47 final size:47
Alignment explanation
Indices: 32197157--32197406 Score: 383
Period size: 47 Copynumber: 5.3 Consensus size: 47
32197147 TGAATGTATA
*
32197157 TATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
32197204 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
32197251 TATAAATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
32197298 TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
32197345 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
32197392 TATAAATGTGATAAG
1 TATATATGTGATAAG
32197407 TCCCGAAGGG
Statistics
Matches: 186, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 186 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:32199041 original size:46 final size:48
Alignment explanation
Indices: 32198988--32199221 Score: 193
Period size: 49 Copynumber: 4.9 Consensus size: 48
32198978 GCATCGACCT
*
32198988 CGAGATGTAAGCCAGTGTAAGA-CATATCTGGGACAT-GCATCGGCTA
1 CGAGATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA
* *
32199034 CGAGATGT--GTCAGTGTAAGACCATGTCTGGGACATGGCACCGGC-A
1 CGAGATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA
* * * *
32199079 CGGATATGTGAGAGCTAGTGTAAGACCATGTCTTGGACATGGCATCAGCCT-
1 C-GAGATGT-A-AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCTA
* * * *
32199130 C-A-ATTTCAATAGTCAGTGTAAGACCATGTCTGGGACTTGGCATCGACT-
1 CGAGATGT--A-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA
* *
32199178 TGATGGAT-T-AGCCAGTGTAAGAACATGTCTGGGACATGGCATCG
1 CGA--GATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
32199222 ACACTATACC
Statistics
Matches: 153, Mismatches: 21, Indels: 27
0.76 0.10 0.13
Matches are distributed among these distances:
44 11 0.07
45 15 0.10
46 21 0.14
47 32 0.21
48 6 0.04
49 33 0.22
50 29 0.19
51 4 0.03
52 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
CGAGATGTAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA
Found at i:32199217 original size:96 final size:98
Alignment explanation
Indices: 32199042--32199220 Score: 240
Period size: 96 Copynumber: 1.8 Consensus size: 98
32199032 TACGAGATGT
* *
32199042 GTCAGTGTAAGACCATGTCTGGGACATGGCACCGGCACGGATATGTGAGAGCTAGTGTAAGACCA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCACCGGCACGGA-ATGTGAGAGCCAGTGTAAGAACA
*
32199107 TGTCTTGGACATGGCATCAGCCTCAATTTCAATA
65 TGTCTGGGACATGGCATCAGCCTCAATTTCAATA
* * * *
32199141 GTCAGTGTAAGACCATGTCTGGGACTTGGCATC-G-ACTTG-ATG-GATTAGCCAGTGTAAGAAC
1 GTCAGTGTAAGACCATGTCTGGGACATGGCACCGGCAC-GGAATGTGA-GAGCCAGTGTAAGAAC
32199202 ATGTCTGGGACATGGCATC
64 ATGTCTGGGACATGGCATC
32199221 GACACTATAC
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
95 2 0.03
96 34 0.48
97 2 0.03
98 2 0.03
99 31 0.44
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (98 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCACCGGCACGGAATGTGAGAGCCAGTGTAAGAACAT
GTCTGGGACATGGCATCAGCCTCAATTTCAATA
Found at i:32202451 original size:38 final size:38
Alignment explanation
Indices: 32202380--32202499 Score: 150
Period size: 38 Copynumber: 3.1 Consensus size: 38
32202370 ATTTGATGTG
* * * * *
32202380 TATCCGGGCTTAAAGACCAGCAGGCTATATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTTGTGCTGGTATTA
*
32202420 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTATTT
1 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
* *
32202458 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
32202496 TATC
1 TATC
32202500 TGAGTTTTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 58 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
Found at i:32204335 original size:29 final size:28
Alignment explanation
Indices: 32204302--32204458 Score: 102
Period size: 29 Copynumber: 5.5 Consensus size: 28
32204292 ATGATTAGAG
*
32204302 GCACTGTGTGTGCAAATTCCTTTAACTGA
1 GCACTATGTGTGCAAATT-CTTTAACTGA
* ** *
32204331 GCACTATGTGTGCGAGA-TCGGTAATTGA
1 GCACTATGTGTGC-AAATTCTTTAACTGA
* * *
32204359 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTATGTGTGCAAATT-CTTTAACTGA
* ** *
32204389 GCACTATGTGTGCGAGA-TCGATAATTGA
1 GCACTATGTGTGC-AAATTCTTTAACTGA
* * * *
32204417 GGCACTGTGTGTGCGAGTTCTTTAACCGA
1 -GCACTATGTGTGCAAATTCTTTAACTGA
32204446 GCACTATGTGTGC
1 GCACTATGTGTGC
32204459 GAGATCGATC
Statistics
Matches: 93, Mismatches: 28, Indels: 15
0.68 0.21 0.11
Matches are distributed among these distances:
28 26 0.28
29 58 0.62
30 9 0.10
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (28 bp):
GCACTATGTGTGCAAATTCTTTAACTGA
Found at i:32204466 original size:57 final size:58
Alignment explanation
Indices: 32204275--32204467 Score: 297
Period size: 58 Copynumber: 3.4 Consensus size: 58
32204265 GAATGAATAT
* * * *
32204275 GAGCATTATGTGTGCGA-AT-GAT--TAGAGGCACTGTGTGTGCAAATTCCTTTAACT
1 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
*
32204329 GAGCACTATGTGTGCGAGATCGGTAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
1 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
*
32204387 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAGTT-CTTTAACC
1 GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
32204444 GAGCACTATGTGTGCGAGATCGAT
1 GAGCACTATGTGTGCGAGATCGAT
32204468 CAGTGGGCAC
Statistics
Matches: 128, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
54 16 0.12
55 2 0.02
56 2 0.02
57 32 0.25
58 76 0.59
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (58 bp):
GAGCACTATGTGTGCGAGATCGATAATTGAGGCACTGTGTGTGCGAATTCCTTTAACC
Found at i:32204477 original size:28 final size:28
Alignment explanation
Indices: 32204324--32204485 Score: 119
Period size: 29 Copynumber: 5.7 Consensus size: 28
32204314 CAAATTCCTT
* *
32204324 TAACTGAGCACTATGTGTGCGAGATCGG
1 TAACTGGGCACTATGTGTGCGAGATCGA
* * **
32204352 TAATTGAGGCACTGTGTGTGCGA-ATTCCTT
1 TAACTG-GGCACTATGTGTGCGAGA-T-CGA
* *
32204382 TAACCGAGCACTATGTGTGCGAGATCGA
1 TAACTGGGCACTATGTGTGCGAGATCGA
* * * **
32204410 TAATTGAGGCACTGTGTGTGCGAGTTCTT
1 TAACTG-GGCACTATGTGTGCGAGATCGA
* *
32204439 TAACCGAGCACTATGTGTGCGAGATCGA
1 TAACTGGGCACTATGTGTGCGAGATCGA
* * *
32204467 TCAGTGGGCACTAAGTGTG
1 TAACTGGGCACTATGTGTG
32204486 TGAAATGAGA
Statistics
Matches: 99, Mismatches: 30, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
28 42 0.42
29 51 0.52
30 6 0.06
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
TAACTGGGCACTATGTGTGCGAGATCGA
Found at i:32206823 original size:41 final size:40
Alignment explanation
Indices: 32206770--32206939 Score: 145
Period size: 41 Copynumber: 4.2 Consensus size: 40
32206760 AGTCCGATTC
*
32206770 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* *
32206809 TTAGACTACTGGCTC-GAAGACCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAG-CCCTTCGAG-ACCAAGCT-CGGA
* * *
32206849 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
*
32206894 TTAG-CACTAGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
32206933 TTTAGAC
1 -TTAGAC
32206940 CCTGATTAGC
Statistics
Matches: 106, Mismatches: 9, Indels: 30
0.73 0.06 0.21
Matches are distributed among these distances:
39 5 0.05
40 21 0.20
41 48 0.45
42 16 0.15
43 12 0.11
44 1 0.01
45 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:32211740 original size:40 final size:38
Alignment explanation
Indices: 32211611--32211748 Score: 161
Period size: 38 Copynumber: 3.6 Consensus size: 38
32211601 TTAAAGACCA
* *
32211611 GCAGGCTATA-TGCTGGAATTATATCCGGGTTAAATCCC
1 GCAGGCT-TAGTGCTGGTATTATATCTGGGTTAAATCCC
*
32211649 GCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATCCC
1 GCAGGCTTAGTGCTGGTATTATATCTGGGTTAAATCCC
* * *
32211687 GCAGGCCTAGTGCTGGTATTATATCTGAGTTTAATGTCCC
1 GCAGGCTTAGTGCTGGTATTATATCTG-GGTTAA-ATCCC
* * *
32211727 GTAGGCTTTGTGCTGGTGTTAT
1 GCAGGCTTAGTGCTGGTATTAT
32211749 GTTCGGGTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
37 1 0.01
38 58 0.67
39 5 0.06
40 22 0.26
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.35
Consensus pattern (38 bp):
GCAGGCTTAGTGCTGGTATTATATCTGGGTTAAATCCC
Found at i:32216237 original size:29 final size:29
Alignment explanation
Indices: 32216176--32216301 Score: 150
Period size: 29 Copynumber: 4.4 Consensus size: 29
32216166 ATAGTAAGTC
*
32216176 CGCACACTTAGTG-TTATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
32216204 TGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
32216233 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * * *
32216261 TGCACACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCT-TACATAATCAAACT
32216290 CGCACACTTAGT
1 CGCACACTTAGT
32216302 ACCAATCTCA
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
28 38 0.45
29 44 0.52
30 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Done.