Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 287 of 345
Found at i:85892104 original size:46 final size:47
Alignment explanation
Indices: 85891955--85892220 Score: 226
Period size: 47 Copynumber: 5.7 Consensus size: 47
85891945 TGGGTAAGGT
*
85891955 GCCGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCATATCTC-AA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATA-CTCGAG
** * * * * * *
85892002 ATCAATGCCATCTCCCAAACATGGTCTTACATTGACTATCATA-TCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATACTCG-AG
*
85892050 GCCAATGCATGTCCCAGACATGTCTTACACTGGCT-T-ACTACTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCA-TACTCGAG
* * * * *
85892096 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTCGAG
* * *
85892142 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATACTCGAG
85892190 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
85892221 AGCCAATAAT
Statistics
Matches: 178, Mismatches: 29, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
44 1 0.01
45 4 0.02
46 67 0.38
47 70 0.39
48 29 0.16
49 7 0.04
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTCGAG
Found at i:85892215 original size:140 final size:141
Alignment explanation
Indices: 85891958--85892220 Score: 374
Period size: 140 Copynumber: 1.9 Consensus size: 141
85891948 GTAAGGTGCC
*
85891958 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAATCAATGCCATCTCCCAAACA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAATCAATGCCATCTCCCAAACA
*
85892023 TGGTCTTACATTGACTATCATATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTAC
66 TGGTCTTACACTGACTATCATATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTAC
85892088 TACTCGAGGCT
131 TACTCGAGGCT
* * *
85892099 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTC-AATGCCGATGCCATGTCCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAAAT--CAATGCCATCTCCCAA
* * * *
85892160 ACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACT
63 ACATGGTCTTACACTGACTATCAT-ATCGTAGCCAATGCATGTCCCAGACATGTCTTACACT
85892221 AGCCAATAAT
Statistics
Matches: 109, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
138 4 0.04
139 18 0.17
140 81 0.74
141 6 0.06
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (141 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAATCAATGCCATCTCCCAAACA
TGGTCTTACACTGACTATCATATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTGGCTTAC
TACTCGAGGCT
Found at i:85892299 original size:49 final size:49
Alignment explanation
Indices: 85892242--85892338 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
85892232 ACCCATAGGT
*
85892242 TACGGCATGAATATCCGATTTATATTCCACGTTCAAACAGGAATTCTAA
1 TACGGCATGAATATCCGATTTATATCCCACGTTCAAACAGGAATTCTAA
*
85892291 TACGGCATGAATATCCGATTTATATCCCACGTTCAAATAGGAATTCTA
1 TACGGCATGAATATCCGATTTATATCCCACGTTCAAACAGGAATTCTA
85892339 CTATCTCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (49 bp):
TACGGCATGAATATCCGATTTATATCCCACGTTCAAACAGGAATTCTAA
Found at i:85894497 original size:23 final size:24
Alignment explanation
Indices: 85894418--85894582 Score: 230
Period size: 23 Copynumber: 7.0 Consensus size: 24
85894408 GCTTTATCAT
* *
85894418 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
85894443 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
*
85894467 ATAACTGGGGCAGAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
85894490 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
85894514 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
85894538 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
85894561 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
85894583 TCACTTCCTC
Statistics
Matches: 132, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
23 61 0.46
24 59 0.45
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:85894497 original size:47 final size:48
Alignment explanation
Indices: 85894418--85894582 Score: 230
Period size: 47 Copynumber: 3.5 Consensus size: 48
85894408 GCTTTATCAT
* * **
85894418 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTG
*
85894467 ATAACTGGGGCAGAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTG
*
85894514 ATAACTGGGGCATAAGCCCTTTTGATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTG
85894561 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
85894583 TCACTTCCTC
Statistics
Matches: 108, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
46 16 0.15
47 66 0.61
48 14 0.13
49 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTG
Found at i:85894657 original size:20 final size:20
Alignment explanation
Indices: 85894632--85894692 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
85894622 TTATGATTAC
85894632 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
85894652 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
85894672 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
85894692 A
1 A
85894693 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:85894767 original size:25 final size:25
Alignment explanation
Indices: 85894735--85894782 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
85894725 ATACATAAAC
* * *
85894735 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
85894760 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
85894783 ATGGTATAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:85896041 original size:27 final size:27
Alignment explanation
Indices: 85896020--85896496 Score: 516
Period size: 27 Copynumber: 17.7 Consensus size: 27
85896010 AAGGGTATTT
*
85896020 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
85896047 CAGTAATTCTATAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
85896074 TAGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
85896101 -CGATAATTATGTAAATCGGGGGTAAAA
1 TAG-TAATTCTGTAAATCGAGGGTAAAA
* * *
85896128 TGGTAATTATGTAAAT-TAGGGGTAAAA
1 TAGTAATTCTGTAAATCGA-GGGTAAAA
* *
85896155 TGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
85896182 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
**
85896209 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * **
85896236 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** *
85896263 CGGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
85896290 CAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* *
85896317 CAATAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
*
85896344 CAGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
85896371 TAGTAATTCTGTAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
**
85896398 CGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * **
85896425 CGGTAATTTTACAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
85896452 CAATAATTCTATAAA-CTGAGGGTAAAA
1 TAGTAATTCTGTAAATC-GAGGGTAAAA
*
85896479 CAGTAATTCTGTAAATCG
1 TAGTAATTCTGTAAATCG
85896497 GGAGTACTTT
Statistics
Matches: 395, Mismatches: 43, Indels: 24
0.85 0.09 0.05
Matches are distributed among these distances:
26 5 0.01
27 384 0.97
28 6 0.02
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:85896513 original size:54 final size:54
Alignment explanation
Indices: 85896021--85896496 Score: 577
Period size: 54 Copynumber: 8.8 Consensus size: 54
85896011 AGGGTATTTT
* * * *
85896021 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* * *
85896075 AGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGTAAATCGGGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAAC
* * * ** * *
85896129 GGTAATTATGTAAAT-TAGGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGA-GGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
*
85896183 AGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* * ** * *
85896237 GGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* *
85896291 AGTAATTCTGTAAATCAAGGGTAAAACAATAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAAC
*
85896345 AGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAAC
* * * **
85896399 GGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* *
85896453 AATAATTCTATAAA-CTGAGGGTAAAACAGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATC-GAGGGTAAAACAGTAATTCTGTAAATCG
85896497 GGAGTACTTT
Statistics
Matches: 366, Mismatches: 47, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
53 4 0.01
54 358 0.98
55 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (54 bp):
AGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:85902727 original size:24 final size:24
Alignment explanation
Indices: 85902695--85902742 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
85902685 TCAAGTGTGC
85902695 ATGTCTTAATGTAAATACCATAAT
1 ATGTCTTAATGTAAATACCATAAT
85902719 ATGTCTTAATGTAAATACCATAAT
1 ATGTCTTAATGTAAATACCATAAT
85902743 TCATATTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (24 bp):
ATGTCTTAATGTAAATACCATAAT
Found at i:85902751 original size:24 final size:24
Alignment explanation
Indices: 85902700--85902751 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
85902690 TGTGCATGTC
* *
85902700 TTAATGTAAATACCATAATATGTC
1 TTAATGTAAATACCATAATATATA
85902724 TTAATGTAAATACCATAAT-TCATA
1 TTAATGTAAATACCATAATAT-ATA
85902748 TTAA
1 TTAA
85902752 CTTAGTAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (24 bp):
TTAATGTAAATACCATAATATATA
Found at i:85912399 original size:40 final size:40
Alignment explanation
Indices: 85912271--85912401 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
85912261 TATGCTGGAA
* * *
85912271 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * * **
85912311 GCTACATCCGGGCTAAGACCCGAAGGCGTTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
85912351 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
85912391 ATTATATCCGG
1 ATTATATCCGG
85912402 TTATATTCCG
Statistics
Matches: 71, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
39 1 0.01
40 70 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:85920087 original size:50 final size:50
Alignment explanation
Indices: 85919969--85920216 Score: 237
Period size: 50 Copynumber: 4.9 Consensus size: 50
85919959 GTGAGAACAC
* *** *
85919969 GTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGTCACGT
* * * **
85920021 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCAC
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACGT
** * * * *
85920071 GTGTAGTACTAAGTGCAGGCTACTATACGTACCCGACAACTTCA-ATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGTCACGT
* * * *
85920122 GTGTAGTACTAAGTGCAAGCTACTATGTATATCAGATGGTTAGGTCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACGT
* * * *
85920172 GTGTGGTACTACGTGCAGGCTACTACGTGTACCAAATAGTTAGGT
1 GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
85920217 TGTAACACCC
Statistics
Matches: 156, Mismatches: 37, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
49 1 0.01
50 84 0.54
51 36 0.23
52 35 0.22
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
GTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGTCACGT
Found at i:85920145 original size:101 final size:101
Alignment explanation
Indices: 85920015--85920196 Score: 265
Period size: 101 Copynumber: 1.8 Consensus size: 101
85920005 TGGTTTTAGG
* * * *
85920015 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCACGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTATACCAGATAGTTAGGTCACACGTGTAGTAC
85920080 TAAGTGCAGGCTACTATACGTACCCGACAACTTCAA
66 TAAGTGCAGGCTACTATACGTACCCGACAACTTCAA
* * * ** *
85920116 TCACGTGTGTAGTACTAAGTGCAAGCTACTATGTATATCAGATGGTTAGGTCACGTGTGTGGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTATACCAGATAGTTAGGTCACACGTGTAGTAC
*
85920181 TACGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
85920197 CGTGTACCAA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 70 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTATACCAGATAGTTAGGTCACACGTGTAGTAC
TAAGTGCAGGCTACTATACGTACCCGACAACTTCAA
Found at i:85921617 original size:40 final size:40
Alignment explanation
Indices: 85921572--85921738 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
85921562 CGGAATATAA
85921572 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
85921612 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
85921652 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
85921692 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
85921731 CCGGATAT
1 CCGGATAT
85921739 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:85931346 original size:39 final size:39
Alignment explanation
Indices: 85931248--85931438 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
85931238 CGAATGATGT
* * *
85931248 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * * * *
85931288 TCGGACTAGGAT-GCGAAGGCATTTGTGCGAGTTAATAAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
85931327 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
85931366 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
** *
85931407 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
85931439 CGTTATATCC
Statistics
Matches: 121, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
39 34 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:85939653 original size:29 final size:29
Alignment explanation
Indices: 85939620--85939721 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
85939610 TGACGAGATC
85939620 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
85939649 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
85939678 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
85939707 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
85939722 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:85947681 original size:29 final size:29
Alignment explanation
Indices: 85947648--85947749 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
85947638 TGACGAGATC
85947648 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
85947677 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
85947706 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
85947735 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
85947750 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:85957733 original size:6 final size:6
Alignment explanation
Indices: 85957724--85957768 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
85957714 AATAAAATTG
* *
85957724 AAATGA AAATGA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
85957769 GATAGGAGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:85957745 original size:18 final size:17
Alignment explanation
Indices: 85957714--85957768 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
85957704 AAAAGAAAAT
** *
85957714 AATAAAATTGAAATGAA
1 AATAAAATAAAAATAAA
85957731 AATGAAAATAAAAATAAA
1 AAT-AAAATAAAAATAAA
85957749 AATAAAAATAAAAATAAA
1 AAT-AAAATAAAAATAAA
85957767 AA
1 AA
85957769 GATAGGAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
17 3 0.09
18 30 0.91
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (17 bp):
AATAAAATAAAAATAAA
Found at i:85961457 original size:14 final size:14
Alignment explanation
Indices: 85961438--85961481 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
85961428 AATTCAAAGA
85961438 TAAAGTTAATGATT
1 TAAAGTTAATGATT
*
85961452 TAAAG-T-AT--TA
1 TAAAGTTAATGATT
85961462 TAAAGTTAATGATT
1 TAAAGTTAATGATT
85961476 TAAAGT
1 TAAAGT
85961482 ATTAGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
10 6 0.25
11 1 0.04
12 4 0.17
13 1 0.04
14 12 0.50
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (14 bp):
TAAAGTTAATGATT
Found at i:85961469 original size:24 final size:24
Alignment explanation
Indices: 85961437--85961493 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
85961427 CAATTCAAAG
85961437 ATAAAGTTAATGATTTAAAGTATT
1 ATAAAGTTAATGATTTAAAGTATT
85961461 ATAAAGTTAATGATTTAAAGTATT
1 ATAAAGTTAATGATTTAAAGTATT
*
85961485 AGAAA-TTAA
1 ATAAAGTTAA
85961494 AAATAAAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 4 0.12
24 28 0.88
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (24 bp):
ATAAAGTTAATGATTTAAAGTATT
Found at i:85969272 original size:40 final size:40
Alignment explanation
Indices: 85969227--85969394 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
85969217 CGGAATATAA
85969227 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
85969267 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
85969307 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * * * *
85969347 CCGAATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
85969387 CCGGATAT
1 CCGGATAT
85969395 CATTCAATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 104 0.99
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:85972184 original size:40 final size:40
Alignment explanation
Indices: 85972125--85972400 Score: 453
Period size: 40 Copynumber: 6.9 Consensus size: 40
85972115 CTCGACGATG
*
85972125 ATCCGGGCAAAATCTCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
*
85972165 ATCCGGGCCAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* *
85972205 ATTCGGGAAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
*
85972245 ATCCGGGCAAAATCCCGAAGGGCATTCGTGTCGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
85972285 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* * * *
85972325 ATCCGGGCTAAATCCCAAAGGGTATTCGTGCCGATGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* *
85972365 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTG
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTG
85972401 ATGTGTATTC
Statistics
Matches: 219, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 219 1.00
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (40 bp):
ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
Found at i:85986017 original size:23 final size:23
Alignment explanation
Indices: 85985987--85986033 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
85985977 AAGGAGTAAG
85985987 AACCTATAAATTATATTTTTTTA
1 AACCTATAAATTATATTTTTTTA
85986010 AACCTATAAATTATATTTTTTTA
1 AACCTATAAATTATATTTTTTTA
85986033 A
1 A
85986034 GCATTGCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (23 bp):
AACCTATAAATTATATTTTTTTA
Found at i:85989149 original size:69 final size:70
Alignment explanation
Indices: 85989062--85989225 Score: 163
Period size: 69 Copynumber: 2.4 Consensus size: 70
85989052 TAATTAGTGA
* * * * * *
85989062 GCCCAGCTG-TAGTTGGATAAACCAACAGTATTTGTGTCCAACGCTAGTTAGATAAACCGACGAA
1 GCCCAGC-GCTAGTCGGATAAACCAACAGAATCTGTGCCCAACACTAGTCAGATAAACCGACGAA
*
85989126 TG-TGT
65 AGTTGT
** * * * **
85989131 GCCCAGCGCTAGTCGGATAAACTGA-TGAATCTGTGCCCAGCACTAGTCAGCTAAATTGACGAAA
1 GCCCAGCGCTAGTCGGATAAACCAACAGAATCTGTGCCCAACACTAGTCAGATAAACCGACGAAA
85989195 GTTGT
66 GTTGT
*
85989200 GCCCAGCGCTAGTCGGATAAATCAAC
1 GCCCAGCGCTAGTCGGATAAACCAAC
85989226 GAAATAATTA
Statistics
Matches: 75, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
68 30 0.40
69 45 0.60
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (70 bp):
GCCCAGCGCTAGTCGGATAAACCAACAGAATCTGTGCCCAACACTAGTCAGATAAACCGACGAAA
GTTGT
Found at i:85989150 original size:34 final size:34
Alignment explanation
Indices: 85989062--85989220 Score: 131
Period size: 34 Copynumber: 4.6 Consensus size: 34
85989052 TAATTAGTGA
* * * *
85989062 GCCCAGCTG-TAGTTGGATAAACCAACAGTATTTGT
1 GCCCAGC-GCTAGTCGGATAAACCGAC-GAATGTGT
* * **
85989097 GTCCAACGCTAGTTAGATAAACCGACGAATGTGT
1 GCCCAGCGCTAGTCGGATAAACCGACGAATGTGT
* * *
85989131 GCCCAGCGCTAGTCGGATAAACTGATGAATCTGT
1 GCCCAGCGCTAGTCGGATAAACCGACGAATGTGT
* * * ** *
85989165 GCCCAGCACTAGTCAGCTAAATTGACGAAAGTTGT
1 GCCCAGCGCTAGTCGGATAAACCGACGAATG-TGT
85989200 GCCCAGCGCTAGTCGGATAAA
1 GCCCAGCGCTAGTCGGATAAA
85989221 TCAACGAAAT
Statistics
Matches: 99, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
34 58 0.59
35 41 0.41
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (34 bp):
GCCCAGCGCTAGTCGGATAAACCGACGAATGTGT
Found at i:85997740 original size:47 final size:47
Alignment explanation
Indices: 85997565--85997912 Score: 489
Period size: 47 Copynumber: 7.3 Consensus size: 47
85997555 CCCTTCGGGA
* * * * * * *
85997565 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85997612 CCTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
*
85997661 CTTATCACATATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * *
85997710 CTTACCTCATATATGCACTTTCACATTCATCATATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85997757 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85997804 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
85997851 CTTATCACATATATGCACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85997898 CTTATCACATATATA
1 CTTATCACATATATA
85997913 TATCTCATAC
Statistics
Matches: 270, Mismatches: 27, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
47 192 0.71
49 72 0.27
51 6 0.02
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85997867 original size:141 final size:142
Alignment explanation
Indices: 85997565--85997912 Score: 554
Period size: 141 Copynumber: 2.4 Consensus size: 142
85997555 CCCTTCGGGA
* * * * * * *
85997565 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT--AC
*
85997630 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCGCATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCA
85997695 CATCGGCCATTAGGC
128 CATCGGCCATTAGGC
* * *
85997710 CTTACCTCATATATGCACTTTCACATTCATCATATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
85997775 TTTCACATTCATCACATCGGCCATTCGGCCTTATCAC-ATATATACACTTTCACATTCATCACAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
85997839 CGGCCATTAGGC
131 CGGCCATTAGGC
85997851 CTTATCACATATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
1 CTTATCACATATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
85997913 TATCTCATAC
Statistics
Matches: 188, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
141 97 0.52
143 40 0.21
145 51 0.27
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (142 bp):
CTTATCACATATATGCACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:86008702 original size:48 final size:48
Alignment explanation
Indices: 86008630--86008729 Score: 166
Period size: 48 Copynumber: 2.1 Consensus size: 48
86008620 CAATCTGGTG
* *
86008630 GCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAATATGTGGCA
1 GCCTAGCCACATATATCTGTTCTGGTGACTTCGTCACAATATCTGGCA
86008678 GCCTAGCCACA-ATATCTGTATCTGGTGACTTCGTCACAATATCTGGCA
1 GCCTAGCCACATATATCTGT-TCTGGTGACTTCGTCACAATATCTGGCA
86008726 GCCT
1 GCCT
86008730 CGTTGCAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 8 0.16
48 41 0.84
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (48 bp):
GCCTAGCCACATATATCTGTTCTGGTGACTTCGTCACAATATCTGGCA
Found at i:86034148 original size:49 final size:50
Alignment explanation
Indices: 86034093--86034338 Score: 289
Period size: 49 Copynumber: 4.9 Consensus size: 50
86034083 ATCTATTGTG
*
86034093 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * * *
86034143 -GGTCACATGTGTAGTACTAAGTGCATGCTATTATGAGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
86034193 CGATCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
86034243 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
86034293 -GGTCGCATGTGTAGTACTAAGTTCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
86034339 GCTTTGGCTA
Statistics
Matches: 161, Mismatches: 33, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
49 79 0.49
50 46 0.29
51 36 0.22
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:86034302 original size:101 final size:98
Alignment explanation
Indices: 86034100--86034337 Score: 293
Period size: 101 Copynumber: 2.4 Consensus size: 98
86034090 GTGAGGTCAC
*
86034100 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCACATGTGTAGTACTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGT
* * *
86034165 GCATGCTATTATGAGTACCCGATAACTTCGATCA
66 GCAGGCTACTATCAGTACCCGATAACTTCGA-CA
* * *
86034199 TGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAA
1 -GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATT-GGTCACATGTGTAGTACTAA
* *
86034264 GTGCAGGCTACTA-CATGTACCGGATAATTGGTCG-CA
64 GTGCAGGCTACTATCA-GTACCCGATAACT--TCGACA
* * *
86034300 -TGTGTAGTACTAAGTTCAGGCTACTATGCGTACCAGAT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
86034338 AGCTTTGGCT
Statistics
Matches: 121, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
99 34 0.28
100 41 0.34
101 43 0.36
103 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGT
GCAGGCTACTATCAGTACCCGATAACTTCGACA
Found at i:86048266 original size:50 final size:48
Alignment explanation
Indices: 86048164--86048881 Score: 950
Period size: 48 Copynumber: 14.7 Consensus size: 48
86048154 CAAGATAAAT
*
86048164 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
86048212 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
86048260 ATATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 --ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
86048310 ATATATATATATGTGGTAAAGCCGAATGGCTAATATAAAATATGTATGAG
1 --ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
86048360 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
86048408 ACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
86048456 ATATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATA--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
86048506 ACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
86048554 ATATATATATGTGGTAAAG-CGAATGGCTAATGTGAAATATGCATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
86048601 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGCATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
86048649 ATATATATATGTGGTAAAG-C------CTAATCTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
86048690 ATATGTATATGTGGTAAAGCCGAATAGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* ** * * *
86048738 ATATGTATATGTGAGATATGTATATGTGGTAAAGCCGAATG-GCTAATATGAAATATGTATGAG
1 ATATATATATGTG-G-TA---A-A-GCCG-AATGGCTAATGTG--AA-A-----TATGTATGAG
*
86048801 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
86048849 AGATGTATATTTGGTAAAGCCGAATGGCTAATG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATG
86048882 ACCAATATGT
Statistics
Matches: 605, Mismatches: 36, Indels: 58
0.87 0.05 0.08
Matches are distributed among these distances:
41 37 0.06
42 1 0.00
47 48 0.08
48 320 0.53
49 1 0.00
50 144 0.24
53 2 0.00
54 3 0.00
55 11 0.02
56 8 0.01
57 3 0.00
58 2 0.00
61 2 0.00
62 1 0.00
63 22 0.04
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:86048369 original size:98 final size:96
Alignment explanation
Indices: 86048164--86048881 Score: 957
Period size: 98 Copynumber: 7.3 Consensus size: 96
86048154 CAAGATAAAT
*
86048164 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGTAA
86048229 AGCCGAATGGCTAATGTGAAATATGTATGAG
66 AGCCGAATGGCTAATGTGAAATATGTATGAG
86048260 ATATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATATGTG
1 --ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG--ATATATATATGTG
* *
86048325 GTAAAGCCGAATGGCTAATATAAAATATGTATGAG
62 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
86048360 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGTAA
86048425 AGCCGAATGGCTAATGTGAAATATGTATGAG
66 AGCCGAATGGCTAATGTGAAATATGTATGAG
* *
86048456 ATATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGACATGTATATGTGGT
1 ATATA--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGT
*
86048521 AAAGCCGAATGGCTAATGTGAAATATGCATGAG
64 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
86048554 ATATATATATGTGGTAAAG-CGAATGGCTAATGTGAAATATGCATGAGATATATATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGTAA
*
86048618 AGCCGAATGGCTAATGTGAAATATGCATGAG
66 AGCCGAATGGCTAATGTGAAATATGTATGAG
* *
86048649 ATATATATATGTGGTAAAG-C------CTAATCTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGTAA
* *
86048707 AGCCGAATAGCTAATATGAAATATGTATGAG
66 AGCCGAATGGCTAATGTGAAATATGTATGAG
* ** * * * *
86048738 ATATGTATATGTGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGAT
1 ATATATATATGTG-G-TA---A-A-GCCG-AATGGCTAAT-G-T--GA---AATATGTATGAGAT
*
86048803 ATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
51 ATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
86048849 AGATGTATATTTGGTAAAGCCGAATGGCTAATG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATG
86048882 ACCAATATGT
Statistics
Matches: 559, Mismatches: 35, Indels: 48
0.87 0.05 0.07
Matches are distributed among these distances:
89 75 0.13
90 1 0.00
91 2 0.00
94 1 0.00
95 94 0.17
96 63 0.11
98 189 0.34
100 46 0.08
102 1 0.00
103 7 0.01
104 6 0.01
105 1 0.00
106 2 0.00
108 1 0.00
109 2 0.00
110 1 0.00
111 67 0.12
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (96 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGTAA
AGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:86048749 original size:17 final size:16
Alignment explanation
Indices: 86048727--86048764 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
86048717 CTAATATGAA
86048727 ATATGTATGAGATATGT
1 ATATGT-TGAGATATGT
86048744 ATATG-TGAGATATGT
1 ATATGTTGAGATATGT
86048759 ATATGT
1 ATATGT
86048765 GGTAAAGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 15 0.75
17 5 0.25
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (16 bp):
ATATGTTGAGATATGT
Found at i:86048754 original size:15 final size:15
Alignment explanation
Indices: 86048734--86048765 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
86048724 GAAATATGTA
86048734 TGAGATATGTATATG
1 TGAGATATGTATATG
86048749 TGAGATATGTATATG
1 TGAGATATGTATATG
86048764 TG
1 TG
86048766 GTAAAGCCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (15 bp):
TGAGATATGTATATG
Found at i:86048759 original size:63 final size:63
Alignment explanation
Indices: 86048686--86048813 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
86048676 GAAATATGTA
*
86048686 TGAGATATGTATATGTGGTAAAGCCGAATAGCTAATATGAAATATGTATGAGATATGTATATG
1 TGAGATATGTATATGTGGTAAAGCCGAATAGCTAATATGAAATATGTATGAGATATATATATG
*
86048749 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAGATATATATATG
1 TGAGATATGTATATGTGGTAAAGCCGAATAGCTAATATGAAATATGTATGAGATATATATATG
86048812 TG
1 TG
86048814 GTAAATCCGA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.34
Consensus pattern (63 bp):
TGAGATATGTATATGTGGTAAAGCCGAATAGCTAATATGAAATATGTATGAGATATATATATG
Found at i:86049089 original size:37 final size:37
Alignment explanation
Indices: 86049039--86049148 Score: 193
Period size: 37 Copynumber: 3.0 Consensus size: 37
86049029 GGAAATATAT
86049039 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
86049076 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
86049113 TCCGGGTAAGACCCGATAACTACGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
86049149 TCGAGCTAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:86050259 original size:27 final size:27
Alignment explanation
Indices: 86050229--86050420 Score: 251
Period size: 27 Copynumber: 7.1 Consensus size: 27
86050219 ACTGAAATAT
**
86050229 CCTCGATTTGTAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCATTTTAC
* * *
86050256 CCTCGATTTATAGAATTACCGTTTCAC
1 CCTCGATTTACAGAATTACCATTTTAC
* *
86050283 CCTCGATTTACAAAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCATTTTAC
* * *
86050310 CCTCGATTTATAGAATTACAAATTTAC
1 CCTCGATTTACAGAATTACCATTTTAC
*
86050337 CCTCG-TTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCATTTTAC
*
86050363 CCTCGATTTACAAAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCATTTTAC
* *
86050390 CCTCAATTTACAAAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCATTTTAC
86050417 CCTC
1 CCTC
86050421 AATTGTGAAA
Statistics
Matches: 146, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 22 0.15
27 124 0.85
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.38
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACCATTTTAC
Found at i:86050381 original size:80 final size:81
Alignment explanation
Indices: 86050229--86050420 Score: 296
Period size: 80 Copynumber: 2.4 Consensus size: 81
86050219 ACTGAAATAT
* *
86050229 CCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTAC
*
86050294 AAAATTACCGTTTTAC
66 AAAATTACCATTTTAC
* * *
86050310 CCTCGATTTATAGAATTACAAATTTACCCTCG-TTTACAGAATTACCGTTTTACCCTCGATTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTAC
86050374 AAAATTACCATTTTAC
66 AAAATTACCATTTTAC
* * *
86050390 CCTCAATTTACAAAATTACCATTTTACCCTC
1 CCTCGATTTATAGAATTACCATTTTACCCTC
86050421 AATTGTGAAA
Statistics
Matches: 100, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 71 0.71
81 29 0.29
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.38
Consensus pattern (81 bp):
CCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTTAC
AAAATTACCATTTTAC
Found at i:86050467 original size:27 final size:27
Alignment explanation
Indices: 86050456--86050633 Score: 216
Period size: 27 Copynumber: 6.6 Consensus size: 27
86050446 TGTAGGATAG
*
86050456 AATTACCAAAATACCTCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
86050483 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
86050510 AATTACCAAAATACCCCTAGTTTATAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
86050537 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
** *
86050564 AATTACTGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
86050591 AATTACCAAAATACCTCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
*
86050618 AATTACAAAAATACCC
1 AATTACCAAAATACCC
86050634 TTGACTTTCT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.02
27 122 0.95
28 3 0.02
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:86050543 original size:81 final size:81
Alignment explanation
Indices: 86050456--86050632 Score: 241
Period size: 81 Copynumber: 2.2 Consensus size: 81
86050446 TGTAGGATAG
* *
86050456 AATTACCAAAATACCTCTAGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAA
1 AATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCTC-AATTTGTAAAATTACCAAA
*
86050520 ATACCCCT-AGTTTATAA
65 ATACCCCTGA-TTTACAA
* * **
86050537 AATTACCAAAATACCACTGGTTTGTGAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAA
1 AATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
*
86050602 TACCTCTGATTTACAA
66 TACCCCTGATTTACAA
*
86050618 AATTACAAAAATACC
1 AATTACCAAAATACC
86050633 CTTGACTTTC
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
81 83 0.98
82 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAA
TACCCCTGATTTACAA
Found at i:86050621 original size:54 final size:54
Alignment explanation
Indices: 86050456--86050690 Score: 183
Period size: 54 Copynumber: 4.3 Consensus size: 54
86050446 TGTAGGATAG
* * * **
86050456 AATTACCAAAATA-CCTCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACTAAAATACCCTC-AATTTGTAAAATTACCAAAATACCTCTGA-TTTACAA
* * * * * ***
86050510 AATTACCAAAATACCC-CTAGTTTATAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACTAAAATACCCTC-AATTTGTAAAATTACCAAAATACCTCTGATTTACAA
*
86050564 AATTACTGAAATACCCTCAATTTGTAAAATTACCAAAATACCTCTGATTTACAA
1 AATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCTCTGATTTACAA
* * * * * *
86050618 AATTACAAAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCAT-TGGTTTACAA
1 AATTACTAAAATACCC-TCAATTTGT-AAAATTACCA-AAATACC-TCTGATTTACAA
*
86050674 AATTACTGAAATACCCT
1 AATTACTAAAATACCCT
86050691 TGGTTTGTAG
Statistics
Matches: 152, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
54 103 0.68
55 11 0.07
56 37 0.24
57 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCTCTGATTTACAA
Found at i:86050684 original size:27 final size:27
Alignment explanation
Indices: 86050481--86050696 Score: 125
Period size: 27 Copynumber: 7.9 Consensus size: 27
86050471 TCTAGTTTGT
* * * **
86050481 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTAAAATACCCTTGGTTTAC
* * * *
86050508 AAAATTACCAAAATACCCCTAGTTTAT
1 AAAATTACTAAAATACCCTTGGTTTAC
* **
86050535 AAAATTACCAAAATACCAC-TGGTTTGT
1 AAAATTACTAAAATACC-CTTGGTTTAC
* * *** **
86050562 GAAATTACTGAAATACCCTCAATTTGT
1 AAAATTACTAAAATACCCTTGGTTTAC
* *
86050589 AAAATTACCAAAATA-CCTCTGATTTAC
1 AAAATTACTAAAATACCCT-TGGTTTAC
* *
86050616 AAAATTACAAAAATACCCTTGACTTT-C
1 AAAATTACTAAAATACCCTTG-GTTTAC
*
86050643 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACTA-AAATACCCTTGGTTTAC
*
86050672 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTAAAATACCCTTGGTTT
86050697 GTAGATTTAC
Statistics
Matches: 156, Mismatches: 23, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
26 4 0.03
27 122 0.78
28 12 0.08
29 18 0.12
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTTGGTTTAC
Found at i:86050780 original size:27 final size:27
Alignment explanation
Indices: 86050737--86050810 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
86050727 AAATGACTAA
*
86050737 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
86050764 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
86050791 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
86050811 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:86050814 original size:27 final size:27
Alignment explanation
Indices: 86050750--86050814 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
86050740 ACCCCTAATA
*
86050750 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
86050777 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
86050804 GGTAAAATGAC
1 GGTAAAATGAC
86050815 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:86051661 original size:25 final size:24
Alignment explanation
Indices: 86051623--86051692 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
86051613 AGAAAGTGCT
* *
86051623 AAAAGGGCTCTGCCCCAGTTTCCC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
86051647 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
86051672 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
86051693 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:86051705 original size:24 final size:23
Alignment explanation
Indices: 86051623--86051719 Score: 88
Period size: 25 Copynumber: 4.0 Consensus size: 23
86051613 AGAAAGTGCT
*
86051623 AAAAGGGCTCTGCCCCAGTT-TCCC
1 AAAAGGGCTTTGCCCCAGTTAT--C
86051647 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAG-TTATC
*
86051672 AGAAAGGGCTTTGCCCCAGTTATT
1 A-AAAGGGCTTTGCCCCAGTTATC
**
86051696 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
86051720 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 4 0.06
24 13 0.21
25 43 0.68
26 2 0.03
27 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.25
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATC
Found at i:86051899 original size:42 final size:42
Alignment explanation
Indices: 86051840--86051931 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
86051830 TAGTCTCCCC
* * *
86051840 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTAAATCTGATATTG
86051882 AAATGGGCTTGCATACATCCATTGACATTAAATCTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTAAATCTGATATTG
86051924 AAATGGGC
1 AAATGGGC
86051932 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTAAATCTGATATTG
Found at i:86051990 original size:31 final size:31
Alignment explanation
Indices: 86051955--86052069 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
86051945 CGTTTACAGT
*
86051955 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
86051986 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
86052017 AAAGGCTTCGACCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
86052048 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
86052070 TCAAGACTAA
Statistics
Matches: 80, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.06
31 75 0.94
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:86062233 original size:42 final size:43
Alignment explanation
Indices: 86062156--86062308 Score: 138
Period size: 43 Copynumber: 3.6 Consensus size: 43
86062146 TCCTAGACGT
* *
86062156 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCATACAG
1 GGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAAACAG
* * *
86062199 GGTCTTACATGAAATCCAATA-CGATGCTGA-TGTCCCAAACAT
1 GGTCTTACATGAAATCAAATATCGATGC-CACTGTCCCAAACAG
* * *
86062241 GGTCTTACACGTAAATCTCAAAT-T-GA-GTCAATGTCCCAAAC-G
1 GGTCTTACATG-AAA--TCAAATATCGATGCCACTGTCCCAAACAG
*
86062283 TGGTCTTACATGAAATCACATATCGA
1 -GGTCTTACATGAAATCAAATATCGA
86062309 AAATCCTATG
Statistics
Matches: 89, Mismatches: 12, Indels: 19
0.74 0.10 0.16
Matches are distributed among these distances:
40 5 0.06
41 1 0.01
42 32 0.36
43 44 0.49
44 2 0.02
45 5 0.06
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGAAATCAAATATCGATGCCACTGTCCCAAACAG
Found at i:86068056 original size:68 final size:67
Alignment explanation
Indices: 86067984--86068133 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
86067974 CATCATGTGT
* * * *
86067984 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
86068046 ATGTAG
62 ATGTAG
** * *
86068052 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
86068117 AG
66 AG
86068119 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
86068134 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:86068089 original size:64 final size:64
Alignment explanation
Indices: 86068008--86068191 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
86067998 AGACATTATG
* *
86068008 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
86068072 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
86068137 AA
63 AA
* * * *
86068139 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
86068192 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:86074447 original size:40 final size:40
Alignment explanation
Indices: 86074402--86074531 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
86074392 CGGAATACAA
86074402 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
86074442 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
86074482 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
86074522 CCGGATATAA
1 CCGGATATAA
86074532 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:86074546 original size:40 final size:40
Alignment explanation
Indices: 86074402--86074565 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
86074392 CGGAATACAA
* **
86074402 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
86074442 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
86074482 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
86074522 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
86074562 CCGG
1 CCGG
86074566 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:86088707 original size:55 final size:56
Alignment explanation
Indices: 86088642--86088746 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 56
86088632 AGCATGGCTG
* * *
86088642 CCAGATACAGA-AAATGTGACATAGTCACCAGAAACAGATATTTTGTGGCAGTGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAG-AACAGATAATTTGTGGCAGTGCCA
* * *
86088698 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCA
86088747 TAATGTAACA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
55 22 0.52
56 20 0.48
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCAGTGCCA
Found at i:86088724 original size:27 final size:27
Alignment explanation
Indices: 86088667--86088746 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
86088657 GTGACATAGT
*
86088667 CACCAGAAACAGATATTTTGTGGCAGTGC
1 CACCAG-AACAGATA-TTTGTGGCAGGGC
*
86088696 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
86088723 CACCAGAACAGATAATTTGTGGCA
1 CACCAGAACAGAT-ATTTGTGGCA
86088747 TAATGTAACA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.51
28 17 0.36
29 6 0.13
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:86090481 original size:25 final size:25
Alignment explanation
Indices: 86090452--86090499 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
86090442 TTATACCATG
* * *
86090452 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
86090477 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
86090500 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:86090602 original size:20 final size:20
Alignment explanation
Indices: 86090542--86090602 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
86090532 ATAAATGTGG
*
86090542 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
86090562 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
86090582 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
86090602 T
1 T
86090603 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:86090737 original size:46 final size:47
Alignment explanation
Indices: 86090652--86090793 Score: 189
Period size: 46 Copynumber: 3.0 Consensus size: 47
86090642 GAGGAAGTGA
*
86090652 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
86090700 AAAAGGGCTTATG-CCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
86090746 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
86090794 ATGATAAAGC
Statistics
Matches: 85, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
46 33 0.39
47 17 0.20
48 24 0.28
49 11 0.13
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:86090789 original size:25 final size:24
Alignment explanation
Indices: 86090652--86090793 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
86090642 GAGGAAGTGA
*
86090652 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
* *
86090676 AAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
86090700 AAAAGGGCTTATG-CCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
86090722 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
86090746 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
86090770 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
86090794 ATGATAAAGC
Statistics
Matches: 106, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
22 13 0.12
23 15 0.14
24 67 0.63
25 11 0.10
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:86091020 original size:31 final size:31
Alignment explanation
Indices: 86090985--86091048 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
86090975 CGTTTACAGT
86090985 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
86091016 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
86091047 AA
1 AA
86091049 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:86091928 original size:28 final size:28
Alignment explanation
Indices: 86091881--86091973 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
86091871 AAATTAACCC
* * *
86091881 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATTATGGTAATTTTGCATACA
86091909 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATTATGGTAATTTTGCATACA
86091937 TAGGGGTATTATGGTAATTTTGCATACA
1 TAGGGGTATTATGGTAATTTTGCATACA
86091965 TAGGGGTAT
1 TAGGGGTAT
86091974 AATAGTACAT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.37
Consensus pattern (28 bp):
TAGGGGTATTATGGTAATTTTGCATACA
Found at i:86096102 original size:26 final size:26
Alignment explanation
Indices: 86096043--86096109 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 26
86096033 CTTTACATAA
86096043 ATGCTCACATGAGCTGTGAAAAGAGT
1 ATGCTCACATGAGCTGTGAAAAGAGT
* * *
86096069 ATGCTCACACGAGCTGTGAAATGGGT
1 ATGCTCACATGAGCTGTGAAAAGAGT
* *
86096095 CTGTTCACATGAGCT
1 ATGCTCACATGAGCT
86096110 ATGGGTCGGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (26 bp):
ATGCTCACATGAGCTGTGAAAAGAGT
Found at i:86105954 original size:29 final size:29
Alignment explanation
Indices: 86105903--86105978 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
86105893 GGGATATCAC
* * *
86105903 ATGGCCCCTTTAGGCCTAAATCACCTGTAT
1 ATGG-CCCGTTAGGCCCAAATCACATGTAT
* *
86105933 ATGGCCCAG-TAGGCCCACATCACATTTAT
1 ATGGCCC-GTTAGGCCCAAATCACATGTAT
86105962 ATGGCCCGTTAGGCCCA
1 ATGGCCCGTTAGGCCCA
86105979 GGCACATTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.03
29 34 0.87
30 4 0.10
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.25
Consensus pattern (29 bp):
ATGGCCCGTTAGGCCCAAATCACATGTAT
Found at i:86106231 original size:24 final size:24
Alignment explanation
Indices: 86106201--86106251 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
86106191 GTAGCCACAC
* * *
86106201 TTTCGGCTTTTTAGTATTTTGGCT
1 TTTCGGCTTTTCAGCATTTCGGCT
86106225 TTTCGGCTTTTCAGCATTTCGGCT
1 TTTCGGCTTTTCAGCATTTCGGCT
86106249 TTT
1 TTT
86106252 GTTGATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.08, C:0.18, G:0.20, T:0.55
Consensus pattern (24 bp):
TTTCGGCTTTTCAGCATTTCGGCT
Found at i:86112580 original size:17 final size:18
Alignment explanation
Indices: 86112558--86112591 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
86112548 CATATTAAAG
86112558 TGTTTT-AGTGAAAACTA
1 TGTTTTCAGTGAAAACTA
*
86112575 TGTTTTCATTGAAAACT
1 TGTTTTCAGTGAAAACT
86112592 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACTA
Found at i:86121803 original size:7 final size:7
Alignment explanation
Indices: 86121791--86121858 Score: 50
Period size: 7 Copynumber: 9.9 Consensus size: 7
86121781 ACTCCAAACA
86121791 TATTTTT
1 TATTTTT
*
86121798 TATTTTA
1 TATTTTT
*
86121805 TCTTTTT
1 TATTTTT
86121812 TCA-TTTT
1 T-ATTTTT
* *
86121819 CATTTTC
1 TATTTTT
86121826 TATTTTT
1 TATTTTT
*
86121833 T-TGTTT
1 TATTTTT
86121839 TATTTTT
1 TATTTTT
*
86121846 AATTTTT
1 TATTTTT
*
86121853 TCTTTT
1 TATTTT
86121859 ATTTTTGTTT
Statistics
Matches: 45, Mismatches: 13, Indels: 6
0.70 0.20 0.09
Matches are distributed among these distances:
6 6 0.13
7 39 0.87
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.78
Consensus pattern (7 bp):
TATTTTT
Found at i:86121823 original size:21 final size:21
Alignment explanation
Indices: 86121794--86121863 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
86121784 CCAAACATAT
* *
86121794 TTTTTATTTTATCTTTTTTCA
1 TTTTCATTTTATATTTTTTCA
* **
86121815 TTTTCATTTTCTATTTTTTTG
1 TTTTCATTTTATATTTTTTCA
86121836 TTTT-ATTTT-TAATTTTTTC-
1 TTTTCATTTTAT-ATTTTTTCA
86121855 TTTT-ATTTT
1 TTTTCATTTT
86121864 TGTTTTTGAC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
19 10 0.24
20 12 0.29
21 20 0.48
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.79
Consensus pattern (21 bp):
TTTTCATTTTATATTTTTTCA
Found at i:86121870 original size:19 final size:19
Alignment explanation
Indices: 86121795--86121870 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 19
86121785 CAAACATATT
86121795 TTTTA-TTTTATCTTTTTTC
1 TTTTATTTTTAT-TTTTTTC
*
86121814 ATTTTCATTTTCTATTTTTTTG
1 -TTTT-ATTTT-TATTTTTTTC
*
86121836 TTTTATTTTTAATTTTTTC
1 TTTTATTTTTATTTTTTTC
*
86121855 TTTTATTTTTGTTTTT
1 TTTTATTTTTATTTTT
86121871 GACATTCTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
19 22 0.46
20 9 0.19
21 5 0.10
22 9 0.19
23 3 0.06
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTATTTTTATTTTTTTC
Found at i:86123248 original size:13 final size:15
Alignment explanation
Indices: 86123219--86123251 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
86123209 CATGGAGAAA
86123219 ATAAATATTTGATAT
1 ATAAATATTTGATAT
86123234 ATAAATA-TT-ATAT
1 ATAAATATTTGATAT
86123247 ATAAA
1 ATAAA
86123252 GAAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 2 0.11
15 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATAAATATTTGATAT
Found at i:86137695 original size:30 final size:29
Alignment explanation
Indices: 86137661--86137724 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
86137651 ATGAATCGGA
86137661 AGCTTTGGCACTAAATGTGCGATTTAAACT
1 AGCTTTGGCACTAAATGTGCGATTT-AACT
*
86137691 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAATGTGCGATTTAACT
86137720 AGCTT
1 AGCTT
86137725 CGGCTACTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (29 bp):
AGCTTTGGCACTAAATGTGCGATTTAACT
Found at i:86145708 original size:40 final size:40
Alignment explanation
Indices: 86145663--86145830 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
86145653 CGGAATACAA
86145663 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
86145703 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
86145743 CCAGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
86145783 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
86145823 CCGGATAT
1 CCGGATAT
86145831 CATTCAATTG
Statistics
Matches: 103, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 3 0.03
40 98 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:86156145 original size:71 final size:71
Alignment explanation
Indices: 86156061--86156224 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
86156051 CGATTTGTCT
86156061 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
86156126 CTTTCA
66 CTTTCA
86156132 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
86156197 CTTTCA
66 CTTTCA
86156203 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
86156225 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:86156262 original size:71 final size:70
Alignment explanation
Indices: 86156061--86156258 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
86156051 CGATTTGTCT
* * * *
86156061 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
86156126 CTTTCA
65 CTTTCA
* * * *
86156132 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
86156197 CTTTCA
65 CTTTCA
* *
86156203 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
86156259 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:86171023 original size:29 final size:29
Alignment explanation
Indices: 86170990--86171120 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
86170980 TGACGAGATC
*
86170990 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* *
86171019 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
*
86171048 GGCACTAAGTGTGCATGCTGGAAAAATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
* * ** *
86171077 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAT
**
86171106 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
86171121 AGCTCGGAGG
Statistics
Matches: 90, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 90 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAT
Found at i:86174599 original size:40 final size:40
Alignment explanation
Indices: 86174534--86174777 Score: 294
Period size: 40 Copynumber: 6.1 Consensus size: 40
86174524 CGAAATACAA
* ** * * *
86174534 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
86174574 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
86174614 CCGGATATAACAACATGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
86174654 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
86174694 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
86174734 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
86174774 CCGG
1 CCGG
86174778 GTATCATTCA
Statistics
Matches: 180, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
40 179 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:86174965 original size:123 final size:123
Alignment explanation
Indices: 86174746--86175084 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
86174736 GGATATAATT
* * * * * * *
86174746 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
86174811 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
86174869 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
86174934 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
* *
86174992 ACTAGCATAATTGCCTTCGGGACTTAGCTCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
86175057 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
86175085 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:86175047 original size:64 final size:64
Alignment explanation
Indices: 86174851--86175047 Score: 149
Period size: 64 Copynumber: 3.2 Consensus size: 64
86174841 GTTACTAAGG
*
86174851 CTCAAACACAAACATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATA
1 CTCAAACACAAACATATCACTAGCATAATTGCCTTCGGGACTTAGCTCGGGTACCATTCAAATA
* * * * * * * *** * ** *
86174915 CTCATACACACATATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AA
1 CTCAAACACAAACATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCTCGGGTACCATTCAAA
**
86174972 GG
63 TA
86174974 CTCAAACACAAACATATCACTAGCATAATTGCCTTCGGGACTTAGCTCGGGTACCATTCAAATA
1 CTCAAACACAAACATATCACTAGCATAATTGCCTTCGGGACTTAGCTCGGGTACCATTCAAATA
*
86175038 CTCATACACA
1 CTCAAACACA
86175048 CATATGTCAA
Statistics
Matches: 88, Mismatches: 34, Indels: 22
0.61 0.24 0.15
Matches are distributed among these distances:
58 2 0.02
59 24 0.27
60 7 0.08
61 7 0.08
62 7 0.08
63 7 0.08
64 33 0.38
65 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (64 bp):
CTCAAACACAAACATATCACTAGCATAATTGCCTTCGGGACTTAGCTCGGGTACCATTCAAATA
Found at i:86185459 original size:40 final size:40
Alignment explanation
Indices: 86185374--86185524 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
86185364 AATTGAATGA
* * * **
86185374 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
86185414 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
86185455 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
86185494 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
86185525 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:86185538 original size:40 final size:40
Alignment explanation
Indices: 86185411--86185540 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
86185401 ATGCTGGAAA
* * *
86185411 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
86185451 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
86185491 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
86185531 TTATATCCGG
1 TTATATCCGG
86185541 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:86193435 original size:40 final size:40
Alignment explanation
Indices: 86193350--86193500 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
86193340 AATTGAATGA
* * * **
86193350 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-TAC
* *
86193390 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
86193431 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
86193470 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
86193501 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 5 0.05
40 84 0.91
41 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:86193514 original size:40 final size:40
Alignment explanation
Indices: 86193387--86193516 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
86193377 ATGCTGGAAA
* * *
86193387 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
86193427 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
86193467 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
86193507 TTATATCCGG
1 TTATATCCGG
86193517 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:86208282 original size:19 final size:19
Alignment explanation
Indices: 86208242--86208283 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
86208232 ATTTTAAAAC
* *
86208242 AAAATTGAATTTAGTTTTA
1 AAAATTCAATTTAGTTTAA
86208261 AAAATTCAATTTTA-TTTAA
1 AAAATTCAA-TTTAGTTTAA
86208280 AAAA
1 AAAA
86208284 CAATTTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (19 bp):
AAAATTCAATTTAGTTTAA
Found at i:86209275 original size:24 final size:24
Alignment explanation
Indices: 86209225--86209275 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
86209215 ATCTTTATTT
* * *
86209225 TAAAAAATATTTAATATATGTATA
1 TAAAAAATATTTAAAATATGCAAA
86209249 TAAAAAATATTTACAAATAT-CAAA
1 TAAAAAATATTTA-AAATATGCAAA
86209273 TAA
1 TAA
86209276 TAAGGTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
TAAAAAATATTTAAAATATGCAAA
Found at i:86209898 original size:6 final size:6
Alignment explanation
Indices: 86209889--86209913 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
86209879 ATTATATTGC
86209889 ATTTGT ATTTGT ATTTGT ATTTGT A
1 ATTTGT ATTTGT ATTTGT ATTTGT A
86209914 AACTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (6 bp):
ATTTGT
Found at i:86215242 original size:47 final size:46
Alignment explanation
Indices: 86215173--86215302 Score: 140
Period size: 46 Copynumber: 2.8 Consensus size: 46
86215163 ATGGTTGAGT
* * * * *
86215173 TCCGAACTCGTTAAGTTGAGTCCGAGTTCGTGATATGTA-AC-TAGGC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGT--TATGGATACGAACGC
*
86215219 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGC
1 -TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTTATGGATACGAACGC
86215267 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCG-TTATGG
86215303 GCGGGTTACA
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
46 39 0.54
47 29 0.40
48 4 0.06
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGTTATGGATACGAACGC
Found at i:86223412 original size:79 final size:79
Alignment explanation
Indices: 86223301--86223524 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 79
86223291 GCTACTCGTT
* * *
86223301 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
*
86223366 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* *
86223381 CCAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
86223444 AATTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * * * * *
86223459 CAAATGCCTTCGGATCTTAGTCTGGATATAGTCACTTAGCACGAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAACTCA-CACAAATGCCTTCGGGACTTAGCCCG
86223523 GA
64 GA
86223525 CATCATTCGA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 36 0.29
79 59 0.47
80 30 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:86223415 original size:39 final size:40
Alignment explanation
Indices: 86223301--86223524 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
86223291 GCTACTCGTT
* * *
86223301 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
86223341 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
86223381 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
86223420 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
86223459 CAAATGCCTTC-GGATCTTAGTCTGG-ATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
*
86223500 CGAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
86223525 CATCATTCGA
Statistics
Matches: 163, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 74 0.45
40 75 0.46
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:86226168 original size:47 final size:46
Alignment explanation
Indices: 86226099--86226219 Score: 133
Period size: 46 Copynumber: 2.6 Consensus size: 46
86226089 ATGGTTGAGT
* *
86226099 TCCGAACTCGTTGACTTGAGTCCGAGTT-CGT-GAGATGT-AACTAGGC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTACGTAGAGATGTGAAC---GC
* *
86226145 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAACGC
1 -TCCGAGCTCGTTGAGTTGAGTCCGAGTT-ACGTAGAGATGTGAACGC
86226193 -CCGAGCTCGTTGAGTTGAGTCCGAGTT
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTT
86226220 TGTTTATGGG
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
46 27 0.41
47 26 0.39
48 2 0.03
49 2 0.03
50 6 0.09
51 3 0.05
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTACGTAGAGATGTGAACGC
Found at i:86226171 original size:20 final size:20
Alignment explanation
Indices: 86226146--86226217 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 20
86226136 TAACTAGGCA
86226146 TCCGAGCTCGTTGAGTTGAG
1 TCCGAGCTCGTTGAGTTGAG
* * *
86226166 TCCGAGTTCACTTATAGATGTGAACG
1 TCCGAGCTC-GTT-GAG-T-TG-A-G
*
86226192 CCCGAGCTCGTTGAGTTGAG
1 TCCGAGCTCGTTGAGTTGAG
86226212 TCCGAG
1 TCCGAG
86226218 TTTGTTTATG
Statistics
Matches: 38, Mismatches: 8, Indels: 12
0.66 0.14 0.21
Matches are distributed among these distances:
20 14 0.37
21 3 0.08
22 4 0.11
23 2 0.05
24 4 0.11
25 3 0.08
26 8 0.21
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (20 bp):
TCCGAGCTCGTTGAGTTGAG
Found at i:86228011 original size:14 final size:14
Alignment explanation
Indices: 86227992--86228022 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
86227982 TGCTGCTATT
86227992 TTACTATTATGTTG
1 TTACTATTATGTTG
*
86228006 TTACTATTTTGTTG
1 TTACTATTATGTTG
86228020 TTA
1 TTA
86228023 TTGTTTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:86228093 original size:30 final size:30
Alignment explanation
Indices: 86228057--86228117 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
86228047 ATTTTATTGT
*
86228057 TAATTTTTTTATTATTTTAAAGACATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
* *
86228087 TAATTTTGTTATTATTTTAGAGGCATTTGC
1 TAATTTTGTTATTATTTTAAAGACATTTGC
86228117 T
1 T
86228118 TATTAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.26, C:0.07, G:0.11, T:0.56
Consensus pattern (30 bp):
TAATTTTGTTATTATTTTAAAGACATTTGC
Found at i:86229906 original size:24 final size:24
Alignment explanation
Indices: 86229879--86229925 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
86229869 TCAAAGAGTT
86229879 AATTTAGCATGTTTTTATGCTAAC
1 AATTTAGCATGTTTTTATGCTAAC
86229903 AATTTAGCATGTTTTTATGCTAA
1 AATTTAGCATGTTTTTATGCTAA
86229926 AATCATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTAGCATGTTTTTATGCTAAC
Found at i:86230271 original size:41 final size:42
Alignment explanation
Indices: 86230212--86230326 Score: 114
Period size: 40 Copynumber: 2.8 Consensus size: 42
86230202 CTTGCTATCA
* * *
86230212 ATGAGCTTTAAC-CATTCACCCAAAATATGATGCTTC-TACGT
1 ATGAGCTTAAACTGATTCA-CCAAAATATGATGCTTCTTACGC
* ** *
86230253 ATGAGCTTAAATTG-TTCACCAAAATATGGCGC-TCTTAGGC
1 ATGAGCTTAAACTGATTCACCAAAATATGATGCTTCTTACGC
86230293 ATGAGCTTAAACTGATT-ATCCAAAATATGATGCT
1 ATGAGCTTAAACTGATTCA-CCAAAATATGATGCT
86230327 CCTAAGCACA
Statistics
Matches: 59, Mismatches: 10, Indels: 9
0.76 0.13 0.12
Matches are distributed among these distances:
39 2 0.03
40 29 0.49
41 28 0.47
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGAGCTTAAACTGATTCACCAAAATATGATGCTTCTTACGC
Found at i:86231658 original size:13 final size:14
Alignment explanation
Indices: 86231642--86231670 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
86231632 AAATTAAACT
86231642 AAAAAG-AAAAGAA
1 AAAAAGAAAAAGAA
86231655 AAAAAGAAAAAGAA
1 AAAAAGAAAAAGAA
86231669 AA
1 AA
86231671 GAGAAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAGAA
Found at i:86233242 original size:3 final size:3
Alignment explanation
Indices: 86233234--86233262 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
86233224 ACTAACTGTT
86233234 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
86233263 TTTTCCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:86237231 original size:15 final size:15
Alignment explanation
Indices: 86237213--86237242 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
86237203 TTCCTCTTCT
*
86237213 TTCTTTTTCTTTTTG
1 TTCTTTTCCTTTTTG
86237228 TTCTTTTCCTTTTTG
1 TTCTTTTCCTTTTTG
86237243 CCTCCTATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.77
Consensus pattern (15 bp):
TTCTTTTCCTTTTTG
Found at i:86239182 original size:21 final size:20
Alignment explanation
Indices: 86239154--86239203 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
86239144 GGAGACTCTA
86239154 AAAATTTTTCGCGAAATTTC
1 AAAATTTTTCGCGAAATTTC
86239174 AAAATTTTTCGCGAAATTTC
1 AAAATTTTTCGCGAAATTTC
86239194 AAAATTTTTC
1 AAAATTTTTC
86239204 CAAAGTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAATTTTTCGCGAAATTTC
Found at i:86243537 original size:2 final size:2
Alignment explanation
Indices: 86243530--86243595 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
86243520 ATTTCAATGT
* *
86243530 CA CA CA CA CA TA CA CA CA CA CA CA TA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
86243572 CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA
86243596 TATATATATA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:86244644 original size:74 final size:75
Alignment explanation
Indices: 86244479--86244645 Score: 212
Period size: 75 Copynumber: 2.2 Consensus size: 75
86244469 AATTATTTTG
* * * * ** *
86244479 ATGGTCACAATTATTTAATTTTTTTATGACTAAATTATTGACACTAAAATTGTAAATAATTAGGG
1 ATGGTCACAATTATTCAATTTTCTTAGGACCAAATTATTGACACTAAAATCATAAACAATTAGGG
86244544 ATGAAATTAA
66 ATGAAATTAA
* * * *
86244554 ATGGTCACAATTATTCAATTTTCTTGGGACCAAATTATTGACACTAAAATCATAAGCACTT-GTG
1 ATGGTCACAATTATTCAATTTTCTTAGGACCAAATTATTGACACTAAAATCATAAACAATTAGGG
86244618 -TCGAAATTAA
66 AT-GAAATTAA
86244628 ATGGTCACAATTATTCAA
1 ATGGTCACAATTATTCAA
86244646 AGAAATTGGT
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
73 1 0.01
74 28 0.35
75 51 0.64
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.37
Consensus pattern (75 bp):
ATGGTCACAATTATTCAATTTTCTTAGGACCAAATTATTGACACTAAAATCATAAACAATTAGGG
ATGAAATTAA
Found at i:86247432 original size:28 final size:28
Alignment explanation
Indices: 86247384--86247452 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
86247374 ATTTAAACCC
*
86247384 TAGGGGT-ATATCGGTAATTTTACTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
*
86247411 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTACTCTT
86247439 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
86247453 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.20, C:0.10, G:0.26, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTACTCTT
Found at i:86248103 original size:27 final size:27
Alignment explanation
Indices: 86248073--86248134 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
86248063 GGGCAAAATG
86248073 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
86248100 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
86248127 GTAATTTT
1 GTAATTTT
86248135 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:86248147 original size:27 final size:27
Alignment explanation
Indices: 86248114--86248193 Score: 124
Period size: 27 Copynumber: 3.0 Consensus size: 27
86248104 TTTTACCCTA
* *
86248114 CAGGGGTATTTTAGTAATTTTTCAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
86248141 CATGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
86248168 TAGGGGTATTTTGGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
86248194 TTGAGGGTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:86248148 original size:54 final size:54
Alignment explanation
Indices: 86248089--86248215 Score: 141
Period size: 54 Copynumber: 2.4 Consensus size: 54
86248079 TTACCCCACA
** *
86248089 AGGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAA-CC
1 AGGGTATTTCAGTAATTTTA-CAAACTAGGGGTATTTTAGTAATTTTACAAATCC
** * **
86248142 ATGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
*
86248197 AGGGTATTTCTGTAATTTT
1 AGGGTATTTCAGTAATTTT
86248216 GTAAATCGAG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
53 4 0.07
54 56 0.92
55 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCC
Found at i:86248201 original size:27 final size:28
Alignment explanation
Indices: 86248115--86248227 Score: 117
Period size: 27 Copynumber: 4.1 Consensus size: 28
86248105 TTTACCCTAC
* * *
86248115 AGGGGTATTTTAGTAATTTTTCAAA-CC
1 AGGGGTATTTTGGTAATTTTACAAATCG
* *
86248142 ATGGGTATTTTGGTAATTTTACAAA-CT
1 AGGGGTATTTTGGTAATTTTACAAATCG
*
86248169 AGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGGTATTTTGGTAATTTTACAAATCG
**
86248197 A-GGGTATTTCT-GTAATTTTGTAAATCG
1 AGGGGTATTT-TGGTAATTTTACAAATCG
86248224 AGGG
1 AGGG
86248228 TAAAATAGTA
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
27 69 0.95
28 4 0.05
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (28 bp):
AGGGGTATTTTGGTAATTTTACAAATCG
Found at i:86248228 original size:27 final size:27
Alignment explanation
Indices: 86248208--86248523 Score: 359
Period size: 27 Copynumber: 11.7 Consensus size: 27
86248198 GGGTATTTCT
*
86248208 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTTGTAAATCGAGGGTAAAACA
* * * * *
86248235 GTAATTCTGTAAATCAAGAGAAAAATA
1 GTAATTTTGTAAATCGAGGGTAAAACA
* * *
86248262 GTAATTCTATAAATCGACGGTAAAAC-
1 GTAATTTTGTAAATCGAGGGTAAAACA
86248288 GATAATTTTGTAAATCGAGGGTAAAACA
1 G-TAATTTTGTAAATCGAGGGTAAAACA
* * *
86248316 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACA
*
86248343 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTAAAACA
* * * *
86248370 ATAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACA
*
86248397 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTAAAACA
* * * *
86248424 ATAATTCTGTAAATCGACGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACA
*
86248451 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACA
* *
86248478 GTAATTATGTAAATCGGGGGTAAAAC-
1 GTAATTTTGTAAATCGAGGGTAAAACA
*
86248504 GATAATTCTGTAAATC-AGGG
1 G-TAATTTTGTAAATCGAGGG
86248524 GTACTTTGGT
Statistics
Matches: 244, Mismatches: 42, Indels: 7
0.83 0.14 0.02
Matches are distributed among these distances:
26 5 0.02
27 238 0.98
28 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
GTAATTTTGTAAATCGAGGGTAAAACA
Found at i:86248266 original size:54 final size:54
Alignment explanation
Indices: 86248208--86248523 Score: 418
Period size: 54 Copynumber: 5.9 Consensus size: 54
86248198 GGGTATTTCT
* ** * * * * *
86248208 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGAGAAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACA
* * *
86248262 GTAATTCTATAAATCGACGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACA
* *
86248316 GTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACA
* * *
86248370 ATAATTCTGTAAATCAAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACA
* * *
86248424 ATAATTCTGTAAATCGACGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACA
* * * *
86248478 GTAATTATGTAAATCGGGGGTAAAACGATAATTCTGTAAATC-AGGG
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGG
86248524 GTACTTTGGT
Statistics
Matches: 235, Mismatches: 27, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
53 4 0.02
54 231 0.98
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACA
Found at i:86248553 original size:27 final size:27
Alignment explanation
Indices: 86248532--86248621 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
86248522 GGGTACTTTG
*
86248532 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
86248559 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * * *
86248586 GTATTTTTACAAA-CTAGGGGTATTTCG
1 GTAATTTTACAAATCGA-AGGTATTTCA
86248613 GTAATTTTA
1 GTAATTTTA
86248622 GTAAACTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 2 0.04
27 54 0.96
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:86250213 original size:31 final size:31
Alignment explanation
Indices: 86250165--86250250 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
86250155 TCAATCTCAG
*
86250165 CATAT-ACTGGGCTGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
86250195 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
86250226 CATATCACTGTGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
86250251 TGTAACAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:86250483 original size:25 final size:26
Alignment explanation
Indices: 86250455--86250539 Score: 111
Period size: 26 Copynumber: 3.3 Consensus size: 26
86250445 CTGGAGGCCT
*
86250455 AGCCTTTTTTAAT-AACTGGGGCAAA
1 AGCCCTTTTTAATAAACTGGGGCAAA
*
86250480 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTTAATAAACTGGGGCAAA
***
86250506 AGCCCTTTTCGGTAAACTGGGGC-AA
1 AGCCCTTTTTAATAAACTGGGGCAAA
86250531 AGCCCTTTT
1 AGCCCTTTT
86250540 GCACTTCCTC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
25 22 0.40
26 33 0.60
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTTAATAAACTGGGGCAAA
Found at i:86250700 original size:25 final size:25
Alignment explanation
Indices: 86250672--86250719 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
86250662 ATAATTAAAC
* **
86250672 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
86250697 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
86250720 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:86257176 original size:80 final size:80
Alignment explanation
Indices: 86257092--86257240 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
86257082 TATGGTAACC
* * * *
86257092 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
86257156 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
86257172 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
86257237 CCGG
66 CCGG
86257241 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:86257182 original size:40 final size:38
Alignment explanation
Indices: 86257133--86257240 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
86257123 ATCACGATTT
*
86257133 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
86257173 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
86257213 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
86257241 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:86265229 original size:40 final size:38
Alignment explanation
Indices: 86265180--86265287 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
86265170 ATCACGATTT
*
86265180 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
86265220 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
86265260 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
86265288 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:86265247 original size:80 final size:80
Alignment explanation
Indices: 86265139--86265287 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
86265129 TATGGTAACC
* * * *
86265139 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
86265203 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
86265219 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
86265284 CCGG
66 CCGG
86265288 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:86267741 original size:40 final size:40
Alignment explanation
Indices: 86267615--86267743 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
86267605 ATGCTGGAAA
* *
86267615 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* **
86267655 CTA-ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
86267694 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
86267734 TTATATCCGG
1 TTATATCCGG
86267744 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
38 3 0.04
39 30 0.39
40 43 0.57
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:86275749 original size:40 final size:40
Alignment explanation
Indices: 86275622--86275751 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
86275612 ATGCTGGAAA
* *
86275622 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
86275662 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
86275702 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
86275742 TTATATCCGG
1 TTATATCCGG
86275752 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:86287059 original size:29 final size:29
Alignment explanation
Indices: 86287027--86287091 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
86287017 CTCGACACCC
*
86287027 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
86287056 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
86287085 AGTGCCA
1 AGTGCCA
86287092 ATCTCGTCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:86291072 original size:16 final size:16
Alignment explanation
Indices: 86291051--86291081 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
86291041 TAAAATGCTC
86291051 AACTTGGAATGTGTGA
1 AACTTGGAATGTGTGA
86291067 AACTTGGAATGTGTG
1 AACTTGGAATGTGTG
86291082 GGGGTATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.32, T:0.32
Consensus pattern (16 bp):
AACTTGGAATGTGTGA
Done.