Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 192 of 438
Found at i:59628163 original size:37 final size:36
Alignment explanation
Indices: 59628079--59628165 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 36
59628069 GGATATTACA
*
59628079 ATTAAGATTGTTAAACCAAAAGCATGACAAACATGCC
1 ATTAA-ATTGTTAAACAAAAAGCATGACAAACATGCC
* * * *
59628116 ACTGAAATTGTTAAACAAAAATCATGATAAGCATGCC
1 A-TTAAATTGTTAAACAAAAAGCATGACAAACATGCC
59628153 ATTAATATTGTTA
1 ATTAA-ATTGTTA
59628166 CTGCTATCGA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
36 3 0.07
37 36 0.86
38 3 0.07
ACGTcount: A:0.45, C:0.15, G:0.13, T:0.28
Consensus pattern (36 bp):
ATTAAATTGTTAAACAAAAAGCATGACAAACATGCC
Found at i:59630630 original size:40 final size:40
Alignment explanation
Indices: 59630478--59630659 Score: 282
Period size: 39 Copynumber: 4.6 Consensus size: 40
59630468 CAAACCCAAG
* *
59630478 TGCCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAA
*
59630517 TGCCTTCGGGTCTTAG-CCGGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
* *
59630556 AGCCTTCGGGACTTAGCCC-GATATAGTCACTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
59630595 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
59630635 TGCCTTCGGGACTTAGCCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATAT
59630660 CATTCGAATA
Statistics
Matches: 132, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 83 0.63
40 49 0.37
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
Found at i:59640721 original size:16 final size:15
Alignment explanation
Indices: 59640691--59640729 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
59640681 CAGTTTTAGG
*
59640691 TTTTCTTTAGATTAT
1 TTTTATTTAGATTAT
*
59640706 TTTGTATTTAGGTTAT
1 TTT-TATTTAGATTAT
59640722 TTTTATTT
1 TTTTATTT
59640730 CTAATTCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (15 bp):
TTTTATTTAGATTAT
Found at i:59643379 original size:25 final size:25
Alignment explanation
Indices: 59643346--59643408 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
59643336 AATCTAAATG
*
59643346 AGAATCAGAATCAGAAACAGGTGAC
1 AGAATCAGAATCAGAAACAAGTGAC
**
59643371 AGAATCAGAATCAGAATTAAGTGAC
1 AGAATCAGAATCAGAAACAAGTGAC
59643396 AGAATCAGAATCA
1 AGAATCAGAATCA
59643409 ATATCAGGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.49, C:0.14, G:0.21, T:0.16
Consensus pattern (25 bp):
AGAATCAGAATCAGAAACAAGTGAC
Found at i:59643717 original size:67 final size:67
Alignment explanation
Indices: 59643616--59643791 Score: 235
Period size: 67 Copynumber: 2.6 Consensus size: 67
59643606 GAACAAATAT
* * * * * * * * *
59643616 ATATGTGTGGCGAAGCCACCAGAATACAGTGAGGCTTCTAGATATTCTGATGAAGTCACTAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTCTGACGAAGTCACCAGAAC
59643681 AG
66 AG
*
59643683 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTCTGACGAAGTCACCAGAAC
59643748 AG
66 AG
** *
59643750 ATATATGTGTTGAGGCCACCAAATTGCAGCGAGGCTGCCAGA
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGA
59643792 ACGCTTCCTC
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 96 1.00
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTCTGACGAAGTCACCAGAAC
AG
Found at i:59644384 original size:26 final size:27
Alignment explanation
Indices: 59644355--59644408 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
59644345 TCACACAAGT
*
59644355 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
59644381 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
59644408 T
1 T
59644409 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:59644438 original size:27 final size:27
Alignment explanation
Indices: 59644410--59644550 Score: 185
Period size: 27 Copynumber: 5.2 Consensus size: 27
59644400 GGGCAAAATG
* *
59644410 GTAATTTTACCCTACAAGGGTATCTT-G
1 GTAATTCTACCCTACAAGGGTAT-TTCA
* *
59644437 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
59644464 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
*
59644491 GTAATTCTATCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
59644518 GTAATTCTACCCTATAAGGGTGTTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
59644545 GTAATT
1 GTAATT
59644551 TTGTAAATTG
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.02
27 98 0.98
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:59644601 original size:27 final size:27
Alignment explanation
Indices: 59644571--59644739 Score: 189
Period size: 27 Copynumber: 6.3 Consensus size: 27
59644561 AGGGTAAAAC
* * *
59644571 GGTAATTCTATAAATTAGGGGTACTTT
1 GGTAATTTTACAAATTAGGGGTATTTT
* * * *
59644598 GGTAATTGTAC-AAGTCGAAGGTATTTT
1 GGTAATTTTACAAATTAG-GGGTATTTT
* * *
59644625 AGTAATTTTACAAATCA-GGGTATTTC
1 GGTAATTTTACAAATTAGGGGTATTTT
*
59644651 AGTAATTTTACAAATTAGGGGTATTTT
1 GGTAATTTTACAAATTAGGGGTATTTT
*
59644678 GGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAATTAGGGGTATTTT
**
59644705 GGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAATTAGGGGTATTTT
59644732 GGTAATTT
1 GGTAATTT
59644740 GGTAAACTAA
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
26 27 0.22
27 92 0.76
28 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACAAATTAGGGGTATTTT
Found at i:59644668 original size:80 final size:81
Alignment explanation
Indices: 59644572--59644739 Score: 214
Period size: 80 Copynumber: 2.1 Consensus size: 81
59644562 GGGTAAAACG
* * *
59644572 GTAATTCTATAAATTAGGGGTACTTTGGTAATTGTACAAGTCGA-AGGTATTTTAGTAATTTTAC
1 GTAATTTTACAAATTAGGGGTACTTTGGTAATTGTACAA-ACGAGAGGTATTTTAGTAATTTTAC
*
59644636 AAATCA-GGGTATTTCA
65 AAACCAGGGGTATTTCA
* * * * *
59644652 GTAATTTTACAAATTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACA
1 GTAATTTTACAAATTAGGGGTACTTTGGTAATTGTACAAACGAGAGGTATTTTAGTAATTTTACA
**
59644717 AACCAGGGGTATTTTG
66 AACCAGGGGTATTTCA
59644733 GTAATTT
1 GTAATTT
59644740 GGTAAACTAA
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
79 2 0.03
80 58 0.77
81 15 0.20
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
GTAATTTTACAAATTAGGGGTACTTTGGTAATTGTACAAACGAGAGGTATTTTAGTAATTTTACA
AACCAGGGGTATTTCA
Found at i:59648030 original size:39 final size:39
Alignment explanation
Indices: 59647976--59648117 Score: 239
Period size: 39 Copynumber: 3.6 Consensus size: 39
59647966 AATGTTCGAG
59647976 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGT
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGT
* * *
59648015 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTAT
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGT
59648054 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGT
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGT
*
59648093 GATATCCGGGTTAAGTCCCGAAGGC
1 GATATCCGGGCTAAG-CCCGAAGGC
59648118 CTTTGTGCGG
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 86 0.91
40 9 0.09
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGT
Found at i:59648067 original size:78 final size:79
Alignment explanation
Indices: 59647976--59648157 Score: 276
Period size: 78 Copynumber: 2.3 Consensus size: 79
59647966 AATGTTCGAG
59647976 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
*
59648040 ATTGTGCGAGTTAT
66 ATTGTGCGAGTTAC
* *
59648054 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGCC
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
* *
59648119 TTTGTGCGGGTTAC
66 ATTGTGCGAGTTAC
* * *
59648133 CATAACCGGGCTATGTCCCGAAGGC
1 GATATCCGGGCTAAG-CCCGAAGGC
59648158 GTTTGAACGA
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 53 0.56
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (79 bp):
GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTAC
Found at i:59656937 original size:6 final size:6
Alignment explanation
Indices: 59656907--59657031 Score: 60
Period size: 6 Copynumber: 20.3 Consensus size: 6
59656897 AAGAAACATT
* * * *
59656907 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA AACAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * *
59656956 ATTAGA ATCAAA ATCAGA ATCAGA ATTTAGTG AT-AGA ATTAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA ATCAGA ATCAGA
*
59657005 ATCAGGTA A-CAGA ATCAGA ATTAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
59657032 GTGAATGCAA
Statistics
Matches: 89, Mismatches: 19, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
5 5 0.06
6 70 0.79
7 11 0.12
8 3 0.03
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:59657009 original size:37 final size:37
Alignment explanation
Indices: 59656930--59657002 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
59656920 TCAAAATGAG
59656930 AATCAGAATCAGAAACAGGTGACAGAATTAGAATCAA
1 AATCAGAATCAGAAACAGGTGACAGAATTAGAATCAA
** *
59656967 AATCAGAATCAGAATTTA-GTGATAGAATTAGAATCA
1 AATCAGAATCAGAA-ACAGGTGACAGAATTAGAATCA
59657003 GTATCAGGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 31 0.97
38 1 0.03
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.22
Consensus pattern (37 bp):
AATCAGAATCAGAAACAGGTGACAGAATTAGAATCAA
Found at i:59657228 original size:31 final size:32
Alignment explanation
Indices: 59657171--59657233 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
59657161 ACGAAGTCAC
* *
59657171 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
59657203 CAGATATATATA-TGTGGCGAAGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
59657234 TACAGCGAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 17 0.61
32 11 0.39
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:59657945 original size:27 final size:27
Alignment explanation
Indices: 59657915--59658058 Score: 137
Period size: 27 Copynumber: 5.3 Consensus size: 27
59657905 GGGGCAAAAT
* *
59657915 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
59657942 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
*
59657969 GGT-ATTTCTACCCTATAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
59657996 GGTAATTCTATCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * * *
59658023 AGTAATTCTACCCTATAAGGGTGTTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
59658050 GGTAATTTT
1 GGTAATTTT
59658059 GTAAATCGAG
Statistics
Matches: 94, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
26 3 0.03
27 88 0.94
28 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:59658054 original size:54 final size:54
Alignment explanation
Indices: 59657916--59658056 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 54
59657906 GGGCAAAATG
* * * * *
59657916 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTA
* *
59657970 GTATTTCTACCCTATAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTTA
1 GTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTA
* *
59658024 GTAATTCTACCCTATAAGGGTGTTTTGGTAATT
1 GTAATTCTACCCTATAAGGGTATTTCGGTAATT
59658057 TTGTAAATCG
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (54 bp):
GTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTA
Found at i:59658106 original size:27 final size:27
Alignment explanation
Indices: 59658047--59658110 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
59658037 ATAAGGGTGT
*
59658047 TTTGGTAATTTTGTAAATCGAGGGTAA
1 TTTGGTAATTCTGTAAATCGAGGGTAA
** * * *
59658074 AATGGTAATTCTGTAAATTGGGGGTAC
1 TTTGGTAATTCTGTAAATCGAGGGTAA
59658101 TTTGGTAATT
1 TTTGGTAATT
59658111 GTACAAGTCG
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.05, G:0.27, T:0.41
Consensus pattern (27 bp):
TTTGGTAATTCTGTAAATCGAGGGTAA
Found at i:59658270 original size:81 final size:80
Alignment explanation
Indices: 59658123--59658299 Score: 264
Period size: 81 Copynumber: 2.2 Consensus size: 80
59658113 ACAAGTCGAA
* * * *
59658123 GGTATTTTAGTAATTTTACAAATCGGGGTATTTCAGTAATTTTACAAATCAAGGATATTTTGGTA
1 GGTATTTTGGTAATTTTACAAATAGGGGTATTTCAGTAATTTTACAAACCAAGGATATTTTAGTA
*
59658188 ATTTTACAAACTAAG
66 ATTTTACAAACCAAG
** * *
59658203 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTGGGTAATTTTATAAACCAAGGGTATTTTAGT
1 GGTATTTTGGTAATTTTACAAA-TAGGGGTATTTCAGTAATTTTACAAACCAAGGATATTTTAGT
59658268 AATTTTACAAACCAAG
65 AATTTTACAAACCAAG
59658284 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
59658300 GGTAAACTAA
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 21 0.24
81 66 0.76
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.41
Consensus pattern (80 bp):
GGTATTTTGGTAATTTTACAAATAGGGGTATTTCAGTAATTTTACAAACCAAGGATATTTTAGTA
ATTTTACAAACCAAG
Found at i:59658306 original size:27 final size:27
Alignment explanation
Indices: 59658095--59658299 Score: 234
Period size: 27 Copynumber: 7.6 Consensus size: 27
59658085 TGTAAATTGG
* * * *
59658095 GGGTACTTTGGTAATTGTACAAGTCGAA
1 GGGTATTTTGGTAATTTTACAA-ACCAA
* * *
59658123 -GGTATTTTAGTAATTTTACAAATC-G
1 GGGTATTTTGGTAATTTTACAAACCAA
** *
59658148 GGGTATTTCAGTAATTTTACAAATCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
59658175 GGATATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
59658202 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
59658229 GGGTATTTGGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
*
59658256 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
59658283 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
59658300 GGTAAACTAA
Statistics
Matches: 151, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
26 23 0.15
27 128 0.85
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:59660547 original size:22 final size:22
Alignment explanation
Indices: 59660522--59660565 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
59660512 TAAAAGTATG
59660522 TTATGAAAAAGAAAGAAACAAA
1 TTATGAAAAAGAAAGAAACAAA
59660544 TTATGAAAAAGAAAGAAACAAA
1 TTATGAAAAAGAAAGAAACAAA
59660566 AGCTAGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.68, C:0.05, G:0.14, T:0.14
Consensus pattern (22 bp):
TTATGAAAAAGAAAGAAACAAA
Found at i:59666112 original size:31 final size:31
Alignment explanation
Indices: 59666077--59666139 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
59666067 GATTTCACTT
59666077 AATCAAGCATTTTACCGAGGCCTATAACAGC
1 AATCAAGCATTTTACCGAGGCCTATAACAGC
59666108 AATCAAGCATTTTACCGAGGCCTATAACAGC
1 AATCAAGCATTTTACCGAGGCCTATAACAGC
59666139 A
1 A
59666140 TAAACATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (31 bp):
AATCAAGCATTTTACCGAGGCCTATAACAGC
Found at i:59671568 original size:28 final size:29
Alignment explanation
Indices: 59671504--59671605 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
59671494 GTGACGAGAT
* * *
59671504 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
59671533 TGGCACTAAGTGTGCGA-TTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
59671561 TGGCACTATGTGTGCGGGCTT-GAATCACA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
59671590 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59671606 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
28 25 0.42
29 35 0.58
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:59679445 original size:28 final size:29
Alignment explanation
Indices: 59679381--59679482 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
59679371 GTGACGAGAT
* * *
59679381 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
59679410 TGGCACTAAGTGTGCGA-TTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
59679438 TGGCACTATGTGTGCGGGCTT-GAATCACA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
59679467 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59679483 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
28 25 0.42
29 35 0.58
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:59698637 original size:30 final size:30
Alignment explanation
Indices: 59698580--59698637 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
59698570 TAGGCACTTC
* * *
59698580 CACACGGGTAATCCACACACCCGTGTGTGA
1 CACACAGGTAAACCACACACCCATGTGTGA
*
59698610 CACACAGGTAAACCACACACCTATGTGT
1 CACACAGGTAAACCACACACCCATGTGT
59698638 TATGGCCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (30 bp):
CACACAGGTAAACCACACACCCATGTGTGA
Found at i:59701114 original size:40 final size:39
Alignment explanation
Indices: 59701070--59701199 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 39
59701060 GACTCACTCA
* *
59701070 AATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCACG
1 AATGCCTTCGGGACTAAGCCCGGTT-TAGTAACTCGCACG
* *
59701110 AATGCCTTCGGGACTTAA-CCCGGGTTTAGTAACTTGCACA
1 AATGCCTTCGGGAC-TAAGCCC-GGTTTAGTAACTCGCACG
* *
59701150 AATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTAAGCCCGG-TTTAGTAACTCGCACG
59701189 AATGCCTTCGG
1 AATGCCTTCGG
59701200 ATCCTAGTCC
Statistics
Matches: 78, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
38 4 0.05
39 28 0.36
40 40 0.51
41 6 0.08
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTAAGCCCGGTTTAGTAACTCGCACG
Found at i:59701169 original size:79 final size:81
Alignment explanation
Indices: 59701068--59701252 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
59701058 ACGACTCACT
** * *
59701068 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
59701131 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
59701148 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
59701212 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
*
59701228 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59701253 CATCATTCGA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:59701252 original size:40 final size:39
Alignment explanation
Indices: 59701068--59701252 Score: 149
Period size: 40 Copynumber: 4.6 Consensus size: 39
59701058 ACGACTCACT
** * *
59701068 CAAATGCCTTCGGGACGAAGCCCGGTTATAGTGACTCGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * * *
59701108 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCA
1 C-AAAGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59701148 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * * *
59701187 CGAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCA
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
59701228 CAAAGCCTTTGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
59701253 CATCATTCGA
Statistics
Matches: 114, Mismatches: 24, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.26
40 72 0.63
41 10 0.09
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:59709189 original size:79 final size:81
Alignment explanation
Indices: 59709088--59709272 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
59709078 ACGACTCGCT
** * *
59709088 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
59709151 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
59709168 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
59709232 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
59709248 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59709273 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:59709272 original size:40 final size:39
Alignment explanation
Indices: 59709081--59709272 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
59709071 GGATATAACG
* ** * *
59709081 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
59709121 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
59709161 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
59709200 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
59709240 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
59709273 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:59715656 original size:18 final size:18
Alignment explanation
Indices: 59715633--59715681 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
59715623 TCTCCCTCTC
*
59715633 TTCTTCTTTCATCTTTT-T
1 TTCTTCTTTC-CCTTTTCT
59715651 TTCTTCTCTTCCCTTTTCT
1 TTCTTCT-TTCCCTTTTCT
59715670 TTCTTTCTTTCC
1 TTC-TTCTTTCC
59715682 TATTTGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 12 0.44
19 11 0.41
20 4 0.15
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTCTTTCCCTTTTCT
Found at i:59716016 original size:3 final size:3
Alignment explanation
Indices: 59716008--59716129 Score: 104
Period size: 3 Copynumber: 40.0 Consensus size: 3
59715998 TTTATTTTTA
* *
59716008 ATT ATT ATT ATT CATT ATT ATT ATT ACT GTT ATT ATT CATT A-T ATTT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT A-TT
* * * * *
59716055 GTT ATT AAGT ATT ATT ATT ATT ATT ATT ACT ATT ACT ATT ATT ATA
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* **
59716101 ATT ATG ATT ATT ATT CCT -TT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
59716130 TTGTTGGTTG
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
2 3 0.03
3 82 0.87
4 9 0.10
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:59723466 original size:20 final size:19
Alignment explanation
Indices: 59723421--59723466 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
59723411 AAACATGTTC
*
59723421 ATATTTTAAGTGCAATTTC
1 ATATTTTAAGTGCAATTTA
*
59723440 ATATTTTAAGTGCACTTTA
1 ATATTTTAAGTGCAATTTA
59723459 ATTATTTT
1 A-TATTTT
59723467 TCGACAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (19 bp):
ATATTTTAAGTGCAATTTA
Found at i:59723983 original size:18 final size:18
Alignment explanation
Indices: 59723960--59723996 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
59723950 TTGCATCAAC
59723960 ACACATCCCAAACTATTT
1 ACACATCCCAAACTATTT
59723978 ACACATCCCAAACTATTT
1 ACACATCCCAAACTATTT
59723996 A
1 A
59723997 ATAAAGCGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.27
Consensus pattern (18 bp):
ACACATCCCAAACTATTT
Found at i:59731782 original size:27 final size:26
Alignment explanation
Indices: 59731725--59731783 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
59731715 AGCATGGCTG
*
59731725 CCAGAACAGATATTTTGACAGAGTCA
1 CCAGAACAGATATTTTGACAGAGCCA
*
59731751 CCAGATACAGATATTGTTG-TAGAGCCA
1 CCAGA-ACAGATATT-TTGACAGAGCCA
*
59731778 TCAGAA
1 CCAGAA
59731784 TGCTTCCTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 6 0.21
27 19 0.68
28 3 0.11
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (26 bp):
CCAGAACAGATATTTTGACAGAGCCA
Found at i:59733653 original size:9 final size:9
Alignment explanation
Indices: 59733639--59733672 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
59733629 TAAAATTTAT
59733639 CAAAAATCA
1 CAAAAATCA
*
59733648 CAAAAATCC
1 CAAAAATCA
*
59733657 CAAAAATCT
1 CAAAAATCA
59733666 CAAAAAT
1 CAAAAAT
59733673 TGGGGTGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.15
Consensus pattern (9 bp):
CAAAAATCA
Found at i:59739465 original size:27 final size:26
Alignment explanation
Indices: 59739425--59739539 Score: 124
Period size: 27 Copynumber: 4.3 Consensus size: 26
59739415 AGCATGGCTG
* *
59739425 CCAGAACAGATATTGTGATAGAGTCA
1 CCAGAACAGATATTGTGGTAGAGCCA
59739451 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGGTAGAGCCA
* * *
59739478 CTAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGTAGAGCCA
*
59739505 CCAGAAACAGATATTTATGGTATG-GCCA
1 CCAG-AACAGATA-TTGTGGTA-GAGCCA
59739533 CCAGAAC
1 CCAGAAC
59739540 TCTTCCTCCA
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
26 12 0.16
27 41 0.54
28 23 0.30
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGTAGAGCCA
Found at i:59741432 original size:9 final size:9
Alignment explanation
Indices: 59741420--59741453 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
59741410 TAGAACTCAT
*
59741420 CAAAAATCA
1 CAAAAATCC
59741429 CAAAAATCC
1 CAAAAATCC
*
59741438 CGAAAATCC
1 CAAAAATCC
59741447 CAAAAAT
1 CAAAAAT
59741454 TGAGGCGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.59, C:0.26, G:0.03, T:0.12
Consensus pattern (9 bp):
CAAAAATCC
Found at i:59742029 original size:47 final size:49
Alignment explanation
Indices: 59741960--59742272 Score: 180
Period size: 47 Copynumber: 6.6 Consensus size: 49
59741950 GTATAATGCA
*
59741960 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATC-A-ACTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAGAC-C
* *
59742007 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCGAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-AAATCGAGACC
* * * *
59742056 GACGCCATGTCCCTGACATGGTCTTACACTAGCTC-TCACATATTCGTG-CC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCA-A-A-TCGAGACC
* * * * ** * *
59742106 GATGACATGTCCTAAACATAGTCTTACACTAACACATC---TCGTAG-TC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCG-AGACC
* *** *
59742152 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTC-TCGTCTCAATGA-C
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGA-GACC
* * * * *
59742198 GATG-CATGTCCTAGACAT-GTCTTGCACTGGCAT-TTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC-TCATCA-AATCGAGACC
59742245 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
59742273 AGCACAAACA
Statistics
Matches: 213, Mismatches: 34, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
43 2 0.01
44 12 0.06
45 17 0.08
46 42 0.20
47 63 0.30
48 5 0.02
49 35 0.16
50 31 0.15
51 6 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAAATCGAGACC
Found at i:59744832 original size:15 final size:13
Alignment explanation
Indices: 59744814--59744866 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 13
59744804 CATAACGGAG
59744814 AAATCCAGAATATAA
1 AAATCCA-AATA-AA
59744829 AAATCCAACATAAA
1 AAATCCAA-ATAAA
59744843 GAAATCCAAAATAAGA
1 -AAATCC-AAATAA-A
59744859 AAATCCAA
1 AAATCCAA
59744867 TCACGATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.15
15 26 0.76
16 3 0.09
ACGTcount: A:0.62, C:0.17, G:0.06, T:0.15
Consensus pattern (13 bp):
AAATCCAAATAAA
Found at i:59746560 original size:40 final size:40
Alignment explanation
Indices: 59746515--59746681 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
59746505 CGGAATATAA
59746515 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59746555 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59746595 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59746635 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59746674 CCGGATAT
1 CCGGATAT
59746682 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:59747524 original size:17 final size:19
Alignment explanation
Indices: 59747501--59747546 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
59747491 AAGAAGCATG
59747501 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
59747519 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
59747537 AATCATGCTC
1 AATCATGCTC
59747547 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:59754565 original size:40 final size:41
Alignment explanation
Indices: 59754520--59754686 Score: 164
Period size: 40 Copynumber: 4.2 Consensus size: 41
59754510 CGGAATATAA
*
59754520 CCGGATATAATCAAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
59754560 CCGGATAGAAT-AACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
59754600 CCGGATGT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59754640 CCGGATATAAT-TTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
59754679 CCGGATAT
1 CCGGATAT
59754687 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 17 0.16
40 87 0.83
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CCGGATATAATCAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59755535 original size:17 final size:19
Alignment explanation
Indices: 59755512--59755557 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
59755502 AAGAAGCATG
59755512 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
59755530 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
59755548 AATCATGCTC
1 AATCATGCTC
59755558 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:59760545 original size:27 final size:28
Alignment explanation
Indices: 59760489--59760558 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
59760479 AAATTTGTAC
*
59760489 AGCACTAAGTGTTCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
59760517 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
59760544 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
59760559 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 25 0.61
28 16 0.39
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:59760569 original size:27 final size:27
Alignment explanation
Indices: 59760489--59760570 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
59760479 AAATTTGTAC
* * * *
59760489 AGCACTAAGTGTTCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
* * *
59760517 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
59760544 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
59760571 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.02
27 32 0.65
28 16 0.33
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:59762879 original size:26 final size:26
Alignment explanation
Indices: 59762850--59762904 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
59762840 GATAAAAATA
59762850 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
59762876 GATAATGGGTTAGGTAAATGTTCCAT
1 GATAATGGGTTAGGTAAATGTTCCAT
59762902 GAT
1 GAT
59762905 GGGCATTTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
GATAATGGGTTAGGTAAATGTTCCAT
Found at i:59768677 original size:28 final size:28
Alignment explanation
Indices: 59768612--59768710 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 28
59768602 TCATGAATTG
* ** *
59768612 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-TGATTATATA
59768641 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
59768669 GCACTAAGTGTGCGAGTTTGACTAT-TAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
59768697 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
59768711 GGCTTATTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.02
28 46 0.72
29 17 0.27
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:59772877 original size:29 final size:29
Alignment explanation
Indices: 59772844--59772946 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
59772834 GTGACGAGAT
59772844 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
59772873 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
59772902 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
59772931 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
59772947 AGTTCGGAGG
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:59777433 original size:38 final size:39
Alignment explanation
Indices: 59777381--59777521 Score: 230
Period size: 39 Copynumber: 3.6 Consensus size: 39
59777371 AATGTTCGAG
59777381 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGT
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGT
* * *
59777420 GATAT-CGGGCTAAGCCCGAAGGCAATTGTGCGAGTTAT
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGT
59777458 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGT
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGT
*
59777497 GATATCCGGGTTAAGTCCCGAAGGC
1 GATATCCGGGCTAAG-CCCGAAGGC
59777522 CTTTGTGCGG
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 35 0.38
39 49 0.53
40 9 0.10
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGT
Found at i:59777470 original size:77 final size:79
Alignment explanation
Indices: 59777381--59777561 Score: 267
Period size: 77 Copynumber: 2.3 Consensus size: 79
59777371 AATGTTCGAG
59777381 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATAT-CGGGCTAAG-CCCGAAGGCA
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
*
59777444 ATTGTGCGAGTTAT
66 ATTGTGCGAGTTAC
* *
59777458 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGCC
1 GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
* *
59777523 TTTGTGCGGGTTAC
66 ATTGTGCGAGTTAC
* * *
59777537 CATAACCGGGCTATGTCCCGAAGGC
1 GATATCCGGGCTAAG-CCCGAAGGC
59777562 GTTTGAACGA
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
77 44 0.47
78 8 0.09
79 32 0.34
80 9 0.10
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
GATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTAC
Found at i:59789662 original size:40 final size:39
Alignment explanation
Indices: 59789494--59789664 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
59789484 AGAAATTGAA
* *
59789494 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
59789534 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
59789574 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
59789614 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
59789654 TGATATCCGGG
1 TGATATCCGGG
59789665 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:59791364 original size:26 final size:26
Alignment explanation
Indices: 59791328--59791378 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
59791318 AAAATAGATA
*
59791328 ATGGGTTAGGTAAATGTTCCATGATC
1 ATGGGTTAGGTAAATATTCCATGATC
59791354 ATGGGTTAGGTAAATATTCCATGAT
1 ATGGGTTAGGTAAATATTCCATGAT
59791379 GGGCATTTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.35
Consensus pattern (26 bp):
ATGGGTTAGGTAAATATTCCATGATC
Found at i:59794399 original size:47 final size:49
Alignment explanation
Indices: 59794330--59794455 Score: 168
Period size: 47 Copynumber: 2.6 Consensus size: 49
59794320 TATAATGCCG
59794330 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-C-AT-CAAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAATCCAAGCCA
** *
59794377 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-ATCCAAGCCA
* *
59794427 ATGTCATGTCCTAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
59794456 GACACTTCTC
Statistics
Matches: 70, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
46 2 0.03
47 35 0.50
49 2 0.03
50 31 0.44
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATCCAAGCCA
Found at i:59797150 original size:27 final size:28
Alignment explanation
Indices: 59797094--59797161 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 28
59797084 AAATTTGTAC
59797094 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
* *
59797122 AGCACTAAGTGTGCTAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
59797149 AGCACTAAGTGTG
1 AGCACTAAGTGTG
59797162 AGGACTCACT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:59801679 original size:29 final size:29
Alignment explanation
Indices: 59801646--59801806 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
59801636 GTGACGAGAT
59801646 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
59801675 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
59801704 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ***
59801733 TGGCACTAAGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
59801762 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
59801791 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59801807 AAATCGAGTA
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 115 0.98
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:59805597 original size:50 final size:50
Alignment explanation
Indices: 59805516--59805612 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
59805506 TCGTCTAACG
** **
59805516 TGATTGCCAGGCCGTGTTTGATCCGTCAAATTGTACACAACCGTGTGACA
1 TGATTGCCAGGCCGTGTTAAATCCGTCAAATTACACACAACCGTGTGACA
* * *
59805566 TGATTGCCAGGCCGTGTTAAATTCGTTAAATTACACACGACCGTGTG
1 TGATTGCCAGGCCGTGTTAAATCCGTCAAATTACACACAACCGTGTG
59805613 GGTCAATGGC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.29
Consensus pattern (50 bp):
TGATTGCCAGGCCGTGTTAAATCCGTCAAATTACACACAACCGTGTGACA
Found at i:59817696 original size:40 final size:40
Alignment explanation
Indices: 59817651--59817816 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
59817641 CGGAATATAA
59817651 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59817691 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59817731 CCGGATATAGCCACTAGCAC-ATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59817770 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59817809 CCGGATAT
1 CCGGATAT
59817817 CATTCAATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
39 45 0.42
40 61 0.58
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59819564 original size:40 final size:40
Alignment explanation
Indices: 59819503--59819757 Score: 322
Period size: 40 Copynumber: 6.4 Consensus size: 40
59819493 GTCACAAACG
* * *
59819503 GGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* *
59819543 GAGCTCAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
59819583 GGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
59819623 GGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* **
59819663 -GGCCAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
59819702 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
59819742 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
59819758 TACTTGGTTT
Statistics
Matches: 192, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 51 0.27
40 140 0.73
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:59819641 original size:80 final size:79
Alignment explanation
Indices: 59819507--59819757 Score: 319
Period size: 79 Copynumber: 3.2 Consensus size: 79
59819497 CAAACGGGGC
* * * * *
59819507 TAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATTCCGAGCTCAGTCCCGAAGGCATTTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
59819571 GTTACTA-ATTCCGGGA
65 GTTACTATA-TCC-GGA
*
59819587 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCTCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
59819652 TTACTATATCCGGC
66 TTACTATATCCGGA
* ** *
59819666 CAAGTCCCGAAGGCATTTGTGCGAACTACTATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
* *
59819731 -TAGCTATATTCGGT
66 TTA-CTATATCCGGA
*
59819745 TAAATCCCGAAGG
1 TAAGTCCCGAAGG
59819758 TACTTGGTTT
Statistics
Matches: 152, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
78 2 0.01
79 82 0.54
80 66 0.43
81 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTATATCCGGA
Found at i:59823820 original size:40 final size:40
Alignment explanation
Indices: 59823775--59823941 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
59823765 CGGAATATAA
59823775 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
59823815 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59823855 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59823895 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59823934 CCGGATAT
1 CCGGATAT
59823942 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59823925 original size:80 final size:79
Alignment explanation
Indices: 59823791--59823941 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
59823781 ATAATCACGT
*
59823791 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
59823856 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
59823871 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
59823934 CCGGATAT
64 CCGGATAT
59823942 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:59828994 original size:40 final size:40
Alignment explanation
Indices: 59828865--59828995 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
59828855 TATGCTGGAA
* * *
59828865 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * *
59828905 GCTATATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
59828945 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
*
59828985 ATTAAATCCGG
1 ATTATATCCGG
59828996 TTATATTCCG
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:59834097 original size:40 final size:40
Alignment explanation
Indices: 59834002--59834303 Score: 491
Period size: 40 Copynumber: 7.6 Consensus size: 40
59833992 CGGATGATAA
* * *
59834002 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
59834041 TGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
59834081 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
59834121 CGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
59834160 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
59834200 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* **
59834240 CGGGCTAAGTCTCGAAGGCATTTGTGCGAACTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
59834280 CGGGATAAGTCCCAAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
59834304 AGCTGTAATA
Statistics
Matches: 246, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 70 0.28
40 176 0.72
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:59834164 original size:79 final size:80
Alignment explanation
Indices: 59834002--59834303 Score: 491
Period size: 79 Copynumber: 3.8 Consensus size: 80
59833992 CGGATGATAA
* * **
59834002 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
59834066 GCGAGTTACTATATC
66 GCGAGTTACTATATC
*
59834081 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
*
59834146 GCGAGTTACTA-ATT
66 GCGAGTTACTATATC
59834160 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
59834225 GCGAGTTACTATATC
66 GCGAGTTACTATATC
* ** * *
59834240 CGGGCTAAGTCTCGAAGGCATTTGTGCGAACTACTATATCCGGGATAAGTCCCAAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
59834304 AGCTGTAATA
Statistics
Matches: 208, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
79 111 0.53
80 97 0.47
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGTTACTATATC
Found at i:59834216 original size:119 final size:119
Alignment explanation
Indices: 59834005--59834303 Score: 499
Period size: 119 Copynumber: 2.5 Consensus size: 119
59833995 ATGATAACGG
* * *
59834005 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTGGGCTAAGTCCCGAAGGCATTTGTGCGA
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCGGGCTAAGTCCCGAAGGCATTTGTGCGA
59834070 GTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGA
66 GTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGA
59834124 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCGGGCTAAGTCCCGAAGGCATTTGTGCGA
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCGGGCTAAGTCCCGAAGGCATTTGTGCGA
*
59834189 GTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
66 GTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGA
* ** * * *
59834243 GCTAAGTCTCGAAGGCATTTGTGCGAACTACTATATCCGGGATAAGTCCCAAAGGCATTTG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCGGGCTAAGTCCCGAAGGCATTTG
59834304 AGCTGTAATA
Statistics
Matches: 169, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
119 145 0.86
120 24 0.14
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (119 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCGGGCTAAGTCCCGAAGGCATTTGTGCGA
GTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGA
Found at i:59839077 original size:14 final size:14
Alignment explanation
Indices: 59839060--59839101 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
59839050 AACGTAGTTT
59839060 TAAAAATATAAAAG
1 TAAAAATATAAAAG
*
59839074 TAAAAATATAAAAA
1 TAAAAATATAAAAG
*
59839088 TAATAA-ATAAAAG
1 TAAAAATATAAAAG
59839101 T
1 T
59839102 CTTTAAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 7 0.28
14 18 0.72
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (14 bp):
TAAAAATATAAAAG
Found at i:59841395 original size:71 final size:71
Alignment explanation
Indices: 59841311--59841474 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
59841301 CGATTTGTCT
59841311 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59841376 CTTTCA
66 CTTTCA
59841382 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
59841447 CTTTCA
66 CTTTCA
59841453 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
59841475 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:59841512 original size:71 final size:70
Alignment explanation
Indices: 59841311--59841508 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
59841301 CGATTTGTCT
* * * *
59841311 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
59841376 CTTTCA
65 CTTTCA
* * * *
59841382 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
59841447 CTTTCA
65 CTTTCA
* *
59841453 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
59841509 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:59849205 original size:28 final size:28
Alignment explanation
Indices: 59849144--59849241 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
59849134 TCACAAATTG
** * *
59849144 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
59849173 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
59849201 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
59849229 GCACTAAGTGTGC
1 GCACTAAGTGTGC
59849242 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:59864670 original size:27 final size:28
Alignment explanation
Indices: 59864614--59864683 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
59864604 AAATTTGTAC
59864614 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
* *
59864642 AGCACTAAGTGTGCTAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
59864669 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
59864684 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:59864694 original size:27 final size:27
Alignment explanation
Indices: 59864614--59864695 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
59864604 AAATTTGTAC
* *
59864614 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * * *
59864642 AGCACTAAGTGTGCTAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
59864669 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
59864696 GCTTTTGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 29 0.62
28 17 0.36
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:59867908 original size:21 final size:20
Alignment explanation
Indices: 59867878--59867916 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
59867868 AATGCAAACA
59867878 AGGGCACACGCCCATGTGGG
1 AGGGCACACGCCCATGTGGG
*
59867898 AGGGCGACACGCCCGTGTG
1 AGGGC-ACACGCCCATGTG
59867917 TCCTTTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.18, C:0.31, G:0.41, T:0.10
Consensus pattern (20 bp):
AGGGCACACGCCCATGTGGG
Found at i:59869230 original size:50 final size:48
Alignment explanation
Indices: 59869157--59869330 Score: 179
Period size: 48 Copynumber: 3.6 Consensus size: 48
59869147 TATCGATGTT
*
59869157 ATGTCCCAGACATGGTCTTACACTAGCTCTCATAAAGTGGTATCGATGCC
1 ATGTCCCAAACATGGTCTTACACTAGCTCTCATAAAGTGG--TCGATGCC
* * * ** ** * *
59869207 ATGTTCCAAACATTGTCTCACACTAGCTCAAATATCGAGGTCGATACC
1 ATGTCCCAAACATGGTCTTACACTAGCTCTCATAAAGTGGTCGATGCC
* * *
59869255 ATGTCCCAAATATGGTCTTACACTAGCTCTCATATAAAT-GCCGATGCC
1 ATGTCCCAAACATGGTCTTACACTAGCTCTCATA-AAGTGGTCGATGCC
* *
59869303 ATGTTCCAAACATGGTCTTACATTAGCT
1 ATGTCCCAAACATGGTCTTACACTAGCT
59869331 TACATAACCC
Statistics
Matches: 98, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
48 67 0.68
50 31 0.32
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (48 bp):
ATGTCCCAAACATGGTCTTACACTAGCTCTCATAAAGTGGTCGATGCC
Found at i:59875203 original size:93 final size:93
Alignment explanation
Indices: 59875091--59875262 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59875081 GCCCATAAGT
* *
59875091 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59875156 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59875184 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59875249 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
59875263 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59875258 original size:46 final size:46
Alignment explanation
Indices: 59875083--59875258 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
59875073 TGTAACCCGC
* * *
59875083 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
59875129 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
59875179 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
59875222 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59875259 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:59877685 original size:30 final size:30
Alignment explanation
Indices: 59877641--59877729 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
59877631 CAAAGATAAC
59877641 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
59877670 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
59877700 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
59877730 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:59877689 original size:15 final size:15
Alignment explanation
Indices: 59877641--59877720 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
59877631 CAAAGATAAC
*
59877641 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
59877655 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
59877670 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
59877685 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
59877700 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
59877715 AAGAAA
1 AAGAAA
59877721 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:59877729 original size:15 final size:15
Alignment explanation
Indices: 59877652--59877729 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
59877642 AGAAAACCGA
59877652 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
59877667 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
59877681 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
59877696 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
59877712 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
59877727 ATA
1 ATA
59877730 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:59880792 original size:93 final size:93
Alignment explanation
Indices: 59880680--59880851 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
59880670 GCCCATAAGT
* *
59880680 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59880745 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
59880773 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
59880838 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
59880852 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59880847 original size:46 final size:46
Alignment explanation
Indices: 59880672--59880847 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
59880662 TGTAACCCGC
* * *
59880672 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
59880718 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
59880768 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
59880811 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
59880848 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:59883589 original size:49 final size:49
Alignment explanation
Indices: 59883527--59883810 Score: 461
Period size: 49 Copynumber: 5.9 Consensus size: 49
59883517 TGTGAAAGAG
*
59883527 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
*
59883576 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGG-G--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGGTGTA
59883623 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
* * *
59883672 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGAG--
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
* *
59883719 TATATAGGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTATA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
59883768 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
59883811 ACATATGTGT
Statistics
Matches: 217, Mismatches: 12, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
46 4 0.02
47 83 0.38
49 126 0.58
50 4 0.02
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
Found at i:59883681 original size:96 final size:96
Alignment explanation
Indices: 59883517--59883811 Score: 545
Period size: 96 Copynumber: 3.1 Consensus size: 96
59883507 TATTAAAATT
*
59883517 TGTGAAAGAGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAGGTGTATATATA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATA
59883582 TGTGATAAGGCCTAATGGCCAATGTGATGAA
66 TGTGATAAGGCCTAATGGCCAATGTGATGAA
*
59883613 TGTGAAAGGGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATA
59883678 TGTGATAAGGCCTAATGGCCAATGTGATGAA
66 TGTGATAAGGCCTAATGGCCAATGTGATGAA
* *
59883709 TGTGAAAGAGTATATAGGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTATATATATA
1 TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATA
*
59883774 TGTGATAAGGCCTAATGGCCGATGTGATGAA
66 TGTGATAAGGCCTAATGGCCAATGTGATGAA
59883805 TGTGAAA
1 TGTGAAA
59883812 CATATGTGTG
Statistics
Matches: 193, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 193 1.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
TGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATA
TGTGATAAGGCCTAATGGCCAATGTGATGAA
Found at i:59883859 original size:48 final size:48
Alignment explanation
Indices: 59883803--59884049 Score: 442
Period size: 48 Copynumber: 5.2 Consensus size: 48
59883793 CGATGTGATG
* *
59883803 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCT
*
59883851 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGGATGGCT
1 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCT
59883899 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAA-GGCT
1 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCT
*
59883946 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCT
*
59883994 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCT
59884042 AATGTGAA
1 AATGTGAA
59884050 TGTTGTAACA
Statistics
Matches: 191, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 46 0.24
48 145 0.76
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCT
Found at i:59883864 original size:96 final size:96
Alignment explanation
Indices: 59883562--59884049 Score: 309
Period size: 96 Copynumber: 5.1 Consensus size: 96
59883552 CGATGTGATG
* * * ** *
59883562 AATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG-AAA-GGGTA
1 AATGTGAAGATATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATGTG
* * * *
59883625 T-ATATGTGATAAG-GCCTAATGGCCG-ATGTGAT
66 TGATATGT-ATATGTG-GTAA-AGCCGAATG-GCT
* * * *
59883657 GAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTG-AAAGA-GT
1 -AATGTGAAGATATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATGT
* * * * * *
59883720 AT-ATAGGTGATAAG-GCCTAATGGCCG-ATGTGAT
65 GTGATATGT-ATATGTG-GTAA-AGCCGAATG-GCT
*
59883753 GAATGTGAAGGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAACATATG
1 -AATGTGAAGATATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-ATATG
59883818 TGTGATATGTATATGTGGTAAAGCCGAATGGCT
64 TGTGATATGTATATGTGGTAAAGCCGAATGGCT
* * * * * *
59883851 AATGTGAA-ATATATGTGTGATGTGTATATGTG-GTAA-AGCCGGATG-GCT-AATGTGAAATAT
1 AATGTGAAGATATATATAT-ATGTG-ATAAG-GCCTAATGGCC-GATGTGATGAATGTGAAA-AT
*
59883911 ATGTGTGATGTGTATATGTGGTAAAGCCGAA-GGCT
61 ATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* * * * *
59883946 AATGTGAA-ATATATGTGTGATATGT-ATATGTG-GTAA-AGCCGAATG-GCT-AATGTGAAATA
1 AATGTGAAGATATA--TAT-ATATGTGATAAG-GCCTAATGGCCG-ATGTGATGAATGTGAAA-A
* *
59884005 TATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
60 TATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
59884042 AATGTGAA
1 AATGTGAA
59884050 TGTTGTAACA
Statistics
Matches: 354, Mismatches: 22, Indels: 32
0.87 0.05 0.08
Matches are distributed among these distances:
94 1 0.00
95 80 0.23
96 206 0.58
97 27 0.08
98 20 0.06
99 14 0.04
100 6 0.02
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (96 bp):
AATGTGAAGATATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATATGTG
TGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:59883983 original size:95 final size:96
Alignment explanation
Indices: 59883803--59884049 Score: 442
Period size: 95 Copynumber: 2.6 Consensus size: 96
59883793 CGATGTGATG
* *
59883803 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTG
1 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTG
* *
59883868 TGATGTGTATATGTGGTAAAGCCGGATGGCT
66 TGATATGTATATGTGGTAAAGCCGAATGGCT
59883899 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAA-GGCTAATGTGAAATATATGTG
1 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTG
59883963 TGATATGTATATGTGGTAAAGCCGAATGGCT
66 TGATATGTATATGTGGTAAAGCCGAATGGCT
*
59883994 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCTAATGTGAA
1 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
59884050 TGTTGTAACA
Statistics
Matches: 145, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
95 92 0.63
96 53 0.37
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (96 bp):
AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTG
TGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:59886873 original size:28 final size:28
Alignment explanation
Indices: 59886835--59886921 Score: 165
Period size: 28 Copynumber: 3.1 Consensus size: 28
59886825 TTATTACATT
59886835 CATATATAAAACCCATTCAAATCATTCA
1 CATATATAAAACCCATTCAAATCATTCA
59886863 CATATATAAAACCCATTCAAATCATTCA
1 CATATATAAAACCCATTCAAATCATTCA
*
59886891 TATATATAAAACCCATTCAAATCATTCA
1 CATATATAAAACCCATTCAAATCATTCA
59886919 CAT
1 CAT
59886922 TGTCCCTTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (28 bp):
CATATATAAAACCCATTCAAATCATTCA
Found at i:59891108 original size:40 final size:39
Alignment explanation
Indices: 59891050--59891212 Score: 159
Period size: 40 Copynumber: 4.1 Consensus size: 39
59891040 TGAATGATAC
* * * *
59891050 CCGGGCTAAGTCCTGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TTATAT
*
59891090 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTTATAT
* * * *
59891130 CCGGGCTAAGACTCGAAGGCAATTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGT--TATAT
* * *
59891170 CCGGGTTAAGACCCGATGGCAATTGTGCTTGTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
59891209 CCGG
1 CCGG
59891213 TTAAATCCCG
Statistics
Matches: 101, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
38 1 0.01
39 10 0.10
40 84 0.83
41 6 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
Found at i:59895234 original size:47 final size:47
Alignment explanation
Indices: 59895162--59895463 Score: 489
Period size: 47 Copynumber: 6.4 Consensus size: 47
59895152 ATATGTGATA
*
59895162 ATGTGATGAATGT-AAAGAGTATATATGTGATAAGGCCTAATGGCCT
1 ATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCG
59895208 ATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCG
* * *
59895255 ATGTGATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCG
* *
59895302 ATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGAGTATAT--ATGTGATAAGGCCTAATGGCCG
59895351 ATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCG
* *
59895398 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGAG--TATATATGTGATAAGGCCTAATGGCCG
59895447 ATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAAA
59895464 CATATGTGTG
Statistics
Matches: 241, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
46 13 0.05
47 139 0.58
49 89 0.37
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCG
Found at i:59895361 original size:96 final size:95
Alignment explanation
Indices: 59895161--59895463 Score: 502
Period size: 96 Copynumber: 3.2 Consensus size: 95
59895151 TATATGTGAT
*
59895161 AATGTGATGAATGT-AAAGAGTATATATGTGATAAGGCCTAATGGCCTATGTGATGAATGTGAAA
1 AATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
59895225 GAGTATAT-ATGTGATAAGGCCTAATGGCC
66 GTGTATATAATGTGATAAGGCCTAATGGCC
* * *
59895254 GATGTGATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 AATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
59895319 GTGTATATACATGTGATAAGGCCTAATGGCC
66 GTGTATATA-ATGTGATAAGGCCTAATGGCC
* *
59895350 AATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAG
1 AATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
59895415 GTGTATATATATGTGATAAGGCCTAATGGCC
66 GTGTATATA-ATGTGATAAGGCCTAATGGCC
*
59895446 GATGTGATGAATGTGAAA
1 AATGTGATGAATGTGAAA
59895464 CATATGTGTG
Statistics
Matches: 195, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
93 13 0.07
94 54 0.28
96 128 0.66
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (95 bp):
AATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
GTGTATATAATGTGATAAGGCCTAATGGCC
Found at i:59895511 original size:48 final size:48
Alignment explanation
Indices: 59895455--59895654 Score: 346
Period size: 48 Copynumber: 4.2 Consensus size: 48
59895445 CGATGTGATG
* *
59895455 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCTGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
59895503 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
59895551 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
59895599 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
59895647 AATGTGAA
1 AATGTGAA
59895655 TGTTGTAACA
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 144 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.33
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:59895740 original size:37 final size:37
Alignment explanation
Indices: 59895694--59895784 Score: 155
Period size: 37 Copynumber: 2.4 Consensus size: 37
59895684 AACTTGGAAA
* *
59895694 TATGTTCCGGGTGAGACCCGATGACTACTTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
59895732 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
59895769 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
59895785 TTCGTAATAA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 47 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:59898667 original size:80 final size:81
Alignment explanation
Indices: 59898520--59898725 Score: 224
Period size: 80 Copynumber: 2.6 Consensus size: 81
59898510 CGGAATACGA
* * *
59898520 CCGGATATAACCA-CATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCCCAAA
1 CCGGATATAACAACCA-GCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAA
*
59898583 TGCCTTCGGGTATTAGC
65 TGCCTTCGGGTATTAAC
* *
59898600 CCGGATTTAACAACTC-GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAA
1 CCGGATATAACAAC-CAGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAA
* *
59898662 TTGCCTTCGGGTCTTAAC
64 ATGCCTTCGGGTATTAAC
** ** * *
59898680 CCGGATATAATTACCAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACCAGCACGAATGCCTTCGGGTCTTAGCCCGGAT
59898726 ATCATTCAAT
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
79 1 0.01
80 100 0.94
81 1 0.01
82 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CCGGATATAACAACCAGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:59898727 original size:40 final size:40
Alignment explanation
Indices: 59898520--59898727 Score: 190
Period size: 40 Copynumber: 5.2 Consensus size: 40
59898510 CGGAATACGA
* *
59898520 CCGGATATAACCA-CATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCA-GCACAAATGCCTTCGGGTCTTAGC
* ** * *
59898560 CCGGATAGAA-CGACTTGCCCAAATGCCTTCGGGTATTAGC
1 CCGGATATAATC-ACCAGCACAAATGCCTTCGGGTCTTAGC
* *
59898600 CCGGATTTAA-CAACTC-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-AC-CAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
59898640 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
* * * *
59898680 CCGGATATAATTACCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
59898720 CCGGATAT
1 CCGGATAT
59898728 CATTCAATTG
Statistics
Matches: 135, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.01
40 133 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59900969 original size:40 final size:39
Alignment explanation
Indices: 59900923--59901099 Score: 169
Period size: 40 Copynumber: 4.5 Consensus size: 39
59900913 TGAATGATAC
*
59900923 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTG-ATATAT
* * *
59900963 CCGGGCTAAGACCCGAAGGCATTTGTG-TGAGTTGTTATAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TGATATAT
* * * * *
59901003 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GATATAT
* * *
59901043 CC-GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGATATAT
* *
59901082 CTGGGCTAGGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
59901100 AGCAATCATG
Statistics
Matches: 112, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
39 20 0.18
40 89 0.79
41 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATATAT
Found at i:59902990 original size:37 final size:36
Alignment explanation
Indices: 59902940--59903026 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
59902930 TGCGAAGTCT
*
59902940 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACATAGTCATCGGGTC
59902976 GTACCCGGACATAATCTCCACACATAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACATAGTCATCGGGTC
59903013 TCACCCGGAACATA
1 T-ACCCGG-ACATA
59903027 TTTCCAAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.87
38 5 0.11
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACATAGTCATCGGGTC
Found at i:59903165 original size:49 final size:49
Alignment explanation
Indices: 59903093--59903448 Score: 511
Period size: 49 Copynumber: 7.1 Consensus size: 49
59903083 GCTTTACCAC
*
59903093 ATATACA-TATCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
* *
59903141 ATATACACTTTCACATTCCTCACATCGGCCATTAGGCCTTATCGCATATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CACATAT
*
59903192 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
59903241 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
*
59903290 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATAT
59903343 ACATTTTCATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--AT
1 --A---T-ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
* *
59903396 ATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
59903445 ATAT
1 ATAT
59903449 GTATATCATA
Statistics
Matches: 285, Mismatches: 8, Indels: 29
0.89 0.02 0.09
Matches are distributed among these distances:
47 42 0.15
48 8 0.03
49 138 0.48
51 47 0.16
53 6 0.02
55 1 0.00
58 1 0.00
59 42 0.15
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (49 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
Found at i:59903174 original size:100 final size:100
Alignment explanation
Indices: 59903070--59903448 Score: 427
Period size: 100 Copynumber: 3.8 Consensus size: 100
59903060 ACAACATTCA
* *
59903070 CATTA-GCCATTCGGCTTTAC-CACATATACA-TATCACATTCATCACATCGGCCATTAGGCCTT
1 CATTAGGCCATTC-GC-TTACACATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTT
*
59903132 ATCACATATATATACACTTTCACATTCCTCACATCGGC
64 ATCACATATATATACATTTTCACATT-CTCACATCGGC
* * *
59903170 CATTAGGCCTTATCGC--ATATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CATTAGGCCAT-TCGCTTACACATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTA
59903233 TCACATATATATACATTTTCACATTCATCACATCGGC
65 TCACATATATATACATTTTCACATTC-TCACATCGGC
* * *
59903270 CATTAGGCC-TT--ATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CATTAGGCCATTCGCTTACACATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTAT
**
59903332 CACATATATATACATTTTCATACACTT-TCACATTCATC
66 CACATATATATACATTTTC--ACA-TTCTCACA-TCGGC
* * * *
59903370 ACA-TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCC
1 -CATTAGGCCATT-CG-CTTA-CACATATATACATTTTCACATTCATCACATCGGCCATTAGGCC
*
59903434 TTATCACACATATAT
62 TTATCACATATATAT
59903449 GTATATCATA
Statistics
Matches: 244, Mismatches: 17, Indels: 30
0.84 0.06 0.10
Matches are distributed among these distances:
98 68 0.28
99 15 0.06
100 91 0.37
101 12 0.05
102 2 0.01
105 2 0.01
106 54 0.22
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (100 bp):
CATTAGGCCATTCGCTTACACATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATATACATTTTCACATTCTCACATCGGC
Found at i:59903270 original size:149 final size:150
Alignment explanation
Indices: 59903093--59903448 Score: 549
Period size: 149 Copynumber: 2.3 Consensus size: 150
59903083 GCTTTACCAC
*
59903093 ATATACATATCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
1 ATATACATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
* * *
59903158 CCTCACATCGGCCATTAGGCCTTATCGC-ATATAT-A-T-ATACATTTTCACATTCATCACATCG
66 CATCACATCGGCCATTAGGCCTTATCACAATATATAATTCATACACTTTCACATTCATCACATCG
59903219 GCCATTAGGCCTTATCACATAT
131 GCCATTAGGCCTTATCAC--AT
*
59903241 ATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCACAT
1 ATATACA-TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACAT
59903306 TCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCATACACTTTCACATTCATCA
65 TCATCACATCGGCCATTAGGCCTTATCACA-ATATATA-A--TTCATACACTTTCACATTCATCA
59903371 CATCGGCCATTAGGCCTTATCACAT
126 CATCGGCCATTAGGCCTTATCACAT
* *
59903396 ATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACACATATAT
1 ATATACA-TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
59903449 GTATATCATA
Statistics
Matches: 191, Mismatches: 8, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
148 7 0.04
149 82 0.43
151 6 0.03
153 1 0.01
155 52 0.27
156 1 0.01
157 42 0.22
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (150 bp):
ATATACATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
CATCACATCGGCCATTAGGCCTTATCACAATATATAATTCATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACAT
Found at i:59903363 original size:108 final size:106
Alignment explanation
Indices: 59903243--59903448 Score: 358
Period size: 106 Copynumber: 1.9 Consensus size: 106
59903233 TCACATATAT
* *
59903243 ATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCACATTC
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTC
*
59903308 ATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTC
64 ATCACATCGGCCATTAGGCCTTATCACACATATATACATTTTC
59903351 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
*
59903416 CACATTGGCCATTAGGCCTTATCACACATATAT
66 CACATCGGCCATTAGGCCTTATCACACATATAT
59903449 GTATATCATA
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
106 52 0.55
108 42 0.45
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (106 bp):
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
CACATCGGCCATTAGGCCTTATCACACATATATACATTTTC
Found at i:59903394 original size:31 final size:31
Alignment explanation
Indices: 59903300--59903395 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 31
59903290 ATATACATTT
59903300 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
* ***
59903331 TCACATAT-ATATACAT-TTTCA-TA--CACTT-
1 TCACAT-TCAT-CACATCGGCCATTAGGC-CTTA
59903359 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
59903390 TCACAT
1 TCACAT
59903396 ATATACACTT
Statistics
Matches: 48, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
27 5 0.10
28 11 0.23
29 5 0.10
30 5 0.10
31 17 0.35
32 5 0.10
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (31 bp):
TCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:59903404 original size:47 final size:47
Alignment explanation
Indices: 59903351--59903447 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
59903341 ATACATTTTC
*
59903351 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACAT
*
59903398 ATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACACAT
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACAT
59903445 ATA
1 ATA
59903448 TGTATATCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACAT
Found at i:59909059 original size:25 final size:25
Alignment explanation
Indices: 59909031--59909109 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
59909021 ATATGTGATA
59909031 ATGTGATGAATGTGAAAGAGTATAT
1 ATGTGATGAATGTGAAAGAGTATAT
* * **
59909056 ATGTGAT-AAGGCCT-AATG-G-CCA-
1 ATGTGATGAATG--TGAAAGAGTATAT
59909078 ATGTGATGAATGTGAAAGAGTATAT
1 ATGTGATGAATGTGAAAGAGTATAT
59909103 ATGTGAT
1 ATGTGAT
59909110 AAGGCCTAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 14
0.64 0.13 0.23
Matches are distributed among these distances:
21 1 0.03
22 10 0.26
23 5 0.13
24 5 0.13
25 17 0.44
26 1 0.03
ACGTcount: A:0.37, C:0.05, G:0.28, T:0.30
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGAGTATAT
Found at i:59909170 original size:49 final size:47
Alignment explanation
Indices: 59909031--59909190 Score: 275
Period size: 47 Copynumber: 3.4 Consensus size: 47
59909021 ATATGTGATA
*
59909031 ATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCG
59909078 ATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCG
* *
59909125 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGAG--TATATATGTGATAAGGCCTAATGGCCG
59909174 ATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAAA
59909191 CATATGTGTG
Statistics
Matches: 107, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
47 64 0.60
49 43 0.40
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGAGTATATATGTGATAAGGCCTAATGGCCG
Found at i:59909238 original size:48 final size:48
Alignment explanation
Indices: 59909182--59909381 Score: 355
Period size: 48 Copynumber: 4.2 Consensus size: 48
59909172 CGATGTGATG
*
59909182 AATGTGAAACATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
59909230 AATGTGAAATATATGTGTGATGTGTATATGTGGTAAAGCCGAAGGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
59909278 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
* *
59909326 AATGTGAAATATATGTGTGATGTGTATGTGTGGTAAAGCCGAATGGCT
1 AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
59909374 AATGTGAA
1 AATGTGAA
59909382 TGTTGTAACA
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 145 1.00
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.32
Consensus pattern (48 bp):
AATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCT
Found at i:59909475 original size:37 final size:37
Alignment explanation
Indices: 59909421--59909511 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
59909411 AACTTGGAAA
*
59909421 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
59909459 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
59909496 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
59909512 TTCGTAATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 48 0.92
38 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:59917053 original size:39 final size:39
Alignment explanation
Indices: 59916993--59917154 Score: 177
Period size: 40 Copynumber: 4.1 Consensus size: 39
59916983 TGAATGATAC
* * *
59916993 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TTATAT
*
59917033 CCGGGCTAAGA-CCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTTATAT
* * *
59917072 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGT--TATAT
* *
59917112 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
59917151 CCGG
1 CCGG
59917155 TTAAATCCCG
Statistics
Matches: 103, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
38 3 0.03
39 38 0.37
40 58 0.56
41 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTTATAT
Found at i:59917124 original size:79 final size:79
Alignment explanation
Indices: 59916993--59917154 Score: 193
Period size: 79 Copynumber: 2.1 Consensus size: 79
59916983 TGAATGATAC
* * * ** *
59916993 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGA-CCGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATT-
59917056 GTGCGAGTTGTTATAT
65 GTGCGAG-TGTTATAT
* * *
59917072 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
**
59917137 TGCTTGTGTTATAT
66 TGCGAGTGTTATAT
59917151 CCGG
1 CCGG
59917155 TTAAATCCCG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
79 54 0.77
80 13 0.19
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGTTATAT
Found at i:59920468 original size:48 final size:49
Alignment explanation
Indices: 59920359--59920468 Score: 141
Period size: 49 Copynumber: 2.2 Consensus size: 49
59920349 AATTTCAAAA
* * * * *
59920359 ATGTGGGCCCACATGCCCGTGTGGCCCACATGCCCAAATTGGTCTTGCCT
1 ATGT-GGCCTACACGCCCGTGTGGCCCACATGCCCAAATTGGCCTAGCCG
*
59920409 ATGTGGCCTACACGCCCGTTTGGCCCACATGCCC-AATTGGCCTAGCCG
1 ATGTGGCCTACACGCCCGTGTGGCCCACATGCCCAAATTGGCCTAGCCG
*
59920457 ATGTGGTCTACA
1 ATGTGGCCTACA
59920469 TAGCCACACT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
48 22 0.42
49 27 0.51
50 4 0.08
ACGTcount: A:0.17, C:0.34, G:0.25, T:0.24
Consensus pattern (49 bp):
ATGTGGCCTACACGCCCGTGTGGCCCACATGCCCAAATTGGCCTAGCCG
Found at i:59928125 original size:19 final size:19
Alignment explanation
Indices: 59928101--59928212 Score: 147
Period size: 19 Copynumber: 5.8 Consensus size: 19
59928091 AATCTTTAAG
59928101 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
59928120 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
59928139 AATAT--AACCTTAGATAT
1 GATATGCAATCTTAGATAT
59928156 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
59928175 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
* *
59928196 GATCTTGTAATCTTAGA
1 GAT-ATGCAATCTTAGA
59928213 GATTTAATTT
Statistics
Matches: 82, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
17 15 0.18
19 47 0.57
20 3 0.04
21 9 0.11
22 8 0.10
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:59928131 original size:36 final size:36
Alignment explanation
Indices: 59928091--59928198 Score: 94
Period size: 36 Copynumber: 2.9 Consensus size: 36
59928081 ATGGAAATAT
59928091 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
* ** *
59928127 AATC-TT-AGATATAATATAACCTTAGATATGATATGC
1 AATCTTTAAG-GAT-ATGCAATCTTAGATATGATATGC
* *
59928163 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT-TA-AGGATATGCAATCTT--AGATATGAT
59928199 CTTGTAATCT
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
34 2 0.04
35 4 0.07
36 28 0.52
37 1 0.02
38 7 0.13
39 2 0.04
40 10 0.19
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (36 bp):
AATCTTTAAGGATATGCAATCTTAGATATGATATGC
Found at i:59935020 original size:40 final size:40
Alignment explanation
Indices: 59934975--59935141 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
59934965 CGGAATATAA
59934975 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
59935015 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59935055 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59935095 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59935134 CCGGATAT
1 CCGGATAT
59935142 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59935125 original size:80 final size:79
Alignment explanation
Indices: 59934991--59935141 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
59934981 ATAATCACGT
*
59934991 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
59935056 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
59935071 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
59935134 CCGGATAT
64 CCGGATAT
59935142 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:59943031 original size:40 final size:40
Alignment explanation
Indices: 59942986--59943152 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
59942976 CGGAATATAA
59942986 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
59943026 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
59943066 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
59943106 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
59943145 CCGGATAT
1 CCGGATAT
59943153 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:59943136 original size:80 final size:79
Alignment explanation
Indices: 59943002--59943152 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
59942992 ATAATCACGT
*
59943002 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
59943067 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
59943082 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
59943145 CCGGATAT
64 CCGGATAT
59943153 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:59945902 original size:14 final size:14
Alignment explanation
Indices: 59945870--59945919 Score: 54
Period size: 15 Copynumber: 3.8 Consensus size: 14
59945860 CTTCTATTTC
59945870 AAAAA-AAAAAG--
1 AAAAATAAAAAGAA
59945881 AAAAAT-AAAAGAA
1 AAAAATAAAAAGAA
59945894 AAAATATAAAAAGAA
1 AAAA-ATAAAAAGAA
*
59945909 AAAAAGAAAAA
1 AAAAATAAAAA
59945920 TGGAGAGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
11 10 0.30
13 4 0.12
14 8 0.24
15 11 0.33
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (14 bp):
AAAAATAAAAAGAA
Found at i:59947374 original size:200 final size:201
Alignment explanation
Indices: 59946862--59947406 Score: 867
Period size: 205 Copynumber: 2.7 Consensus size: 201
59946852 GTAGATCTAG
* * * *
59946862 CTGAAGCAAGATCCAAGATTGTTAGGCATCCTTATGCTTACAAGGAACAAATCGAAGGCATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
59946927 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGTTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* **
59946992 AGAACAAATCGAAGTCTGGCATCTCCATTTCGACAAAGATTAGATACATAGCAGATCTAACCTTC
130 AGAACAAATCAAAGTCTGGCATCTCCATTTCGACAAAGAGCAGATACATAGCAGATCTAACCTTC
59947057 AAATGTTTATA
195 AAATG----TA
*
59947068 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATTGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
**
59947133 ATTTGGTTTTTGCGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGTTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* ***
59947198 GAACAAATCAAAGTTTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCA
131 GAACAAATCAAAGTCTGGCATCTCCATTTCGACAAAGAGCAGATACATAGCAGATCTAACCTTCA
*
59947263 TATG-A
196 AATGTA
59947268 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * *
59947333 ATTTGGTTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTTGCATCTCTGTATTGTTAGA
66 ATTTGGTTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
59947398 GAACAAATC
131 GAACAAATC
59947407 GAAGAAACAG
Statistics
Matches: 317, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
200 134 0.42
205 176 0.56
206 7 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (201 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGTTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCAAAGTCTGGCATCTCCATTTCGACAAAGAGCAGATACATAGCAGATCTAACCTTCA
AATGTA
Found at i:59947594 original size:87 final size:86
Alignment explanation
Indices: 59947480--59947644 Score: 206
Period size: 87 Copynumber: 1.9 Consensus size: 86
59947470 TCATAAGTTT
* * * *
59947480 ACAAGAAGCAGATTAAAGACATAGCAGATCTGACCTTCAGATGATTTTA-CTGAAGCAGATCTAA
1 ACAAGAAGCAAATTAAAGACACAGCAGATCTGACCTTCACATG--TTTACCTGAAACAGATCTAA
59947544 GATGATTTGGCATCCTTGTGTTC
64 GATGATTTGGCATCCTTGTGTTC
* * * * * *
59947567 ACAAGGAGCAAATTGAAGACACAGCAGATTTGGCTTTCACTTGTTTACGCTGAAACAGATCTAAG
1 ACAAGAAGCAAATTAAAGACACAGCAGATCTGACCTTCACATGTTTAC-CTGAAACAGATCTAAG
59947632 ATGATTTGGCATC
65 ATGATTTGGCATC
59947645 TCTATATTGT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 4 0.06
87 62 0.94
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (86 bp):
ACAAGAAGCAAATTAAAGACACAGCAGATCTGACCTTCACATGTTTACCTGAAACAGATCTAAGA
TGATTTGGCATCCTTGTGTTC
Found at i:59947753 original size:261 final size:261
Alignment explanation
Indices: 59947267--59947754 Score: 699
Period size: 261 Copynumber: 1.9 Consensus size: 261
59947257 CCTTCATATG
* * *
59947267 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACACAGCA
* * * * *
59947332 GATTTGGTTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTTGCATCTCTGTATTGTTAG
66 GATTTGGCTTTCACGTGCTTACGCTGAAACAAATCTAAGATGATTTGGCATCTCTATATTGTCAG
* ** *
59947397 AGAACAAATCGAAGAAACAGATTTGGCGTCTCTGTATTCGGTGGAGAGTAGATCAAAGATATCAA
131 AAAACAAATCGAAGAAACAGATTTGGCGTCTCTGTATTCGACGGAGAGCAGATCAAAGATATCAA
*
59947462 CAGGACAGTCATAAGTTTACAAGAAGCAGATTAAAGACATAGCAGATCTGACCTTCAGATGATTT
196 CAGGACAATCATAAGTTTACAAGAAGCAGATTAAAGACATAGCAGATCTGACCTTCAGATGATTT
59947527 T
261 T
* * *
59947528 ACTGAAGCAGATCTAAGATGATTTGGCATCCTTGTG-TTCACAAGGAGCAAATTGAAGACACAGC
1 ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTT-ACAAGGAACAAATCGAAGACACAGC
* * *
59947592 AGATTTGGCTTTCACTTGTTTACGCTGAAACAGATCTAAGATGATTTGGCATCTCTATATTGTCA
65 AGATTTGGCTTTCACGTGCTTACGCTGAAACAAATCTAAGATGATTTGGCATCTCTATATTGTCA
* * * * *
59947657 GAAAACAAATGGAAGAAGCAGATTTGGCGTCTCTGTGTTTGACGGAGAGCAGATCGAAGATATCA
130 GAAAACAAATCGAAGAAACAGATTTGGCGTCTCTGTATTCGACGGAGAGCAGATCAAAGATATCA
* * * * *
59947722 ACATGACAATCCTGAGTTTGCAAGGAGCAGATT
195 ACAGGACAATCATAAGTTTACAAGAAGCAGATT
59947755 GAGGACCATG
Statistics
Matches: 197, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
260 2 0.01
261 195 0.99
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (261 bp):
ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACACAGCA
GATTTGGCTTTCACGTGCTTACGCTGAAACAAATCTAAGATGATTTGGCATCTCTATATTGTCAG
AAAACAAATCGAAGAAACAGATTTGGCGTCTCTGTATTCGACGGAGAGCAGATCAAAGATATCAA
CAGGACAATCATAAGTTTACAAGAAGCAGATTAAAGACATAGCAGATCTGACCTTCAGATGATTT
T
Found at i:59953280 original size:42 final size:41
Alignment explanation
Indices: 59953155--59953456 Score: 327
Period size: 41 Copynumber: 7.3 Consensus size: 41
59953145 GTTTGCAAGA
* * *
59953155 AAACACCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTTC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * *
59953196 AAAGGCCGCTAAAAACTGAGCAATAGCGGCATTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * * *
59953237 AAATGCCATTAAAAACTGAGCAAATAGTGGTGTTTTTGATCC
1 AAACGCCACTAAAAACTGAGC-AATAGCGGCGTTTTTGGTCC
*** * *
59953279 AAACGCCACTAAAAACTGAGCAATAGCAATGTTTCTAGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * *
59953320 AAACGCTACTAAAAATTGAACAATAACGGCGTTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * * *
59953361 AAACACCACTAAAAACTAAGCAATAGTGGCTTTTTTTGGTCA
1 AAACGCCACTAAAAACTGAGCAATAGCGGC-GTTTTTGGTCC
* * *
59953403 AAACTCCGCTAAAAACTGAGCAATAACGGCGTTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
59953444 AAACGCCAC-AAAA
1 AAACGCCACTAAAA
59953457 CGTTGAGCAG
Statistics
Matches: 211, Mismatches: 48, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
40 4 0.02
41 138 0.65
42 69 0.33
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
Found at i:59953295 original size:83 final size:82
Alignment explanation
Indices: 59953160--59953456 Score: 323
Period size: 83 Copynumber: 3.6 Consensus size: 82
59953150 CAAGAAAACA
* * * * *
59953160 CCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTTCAAAGGCCGCTAAAAACTGAGCAATAGCGG
1 CCACTAAAAACTGAGCAATAACGGCGTTTTTGGTCCAAACGCCACTAAAAACTGAGCAATAGCGG
59953225 CATTTTTGGTCCAAATG
66 CATTTTTGGTCCAAATG
* ** * *
59953242 CCATTAAAAACTGAGCAAATAGTGGTGTTTTTGATCCAAACGCCACTAAAAACTGAGCAATAGC-
1 CCACTAAAAACTGAGC-AATAACGGCGTTTTTGGTCCAAACGCCACTAAAAACTGAGCAATAGCG
* * *
59953306 -AATGTTTCTAGTCCAAACG
65 GCAT-TTT-TGGTCCAAATG
* * * * * *
59953325 CTACTAAAAATTGAACAATAACGGCGTTTTTGGTCCAAACACCACTAAAAACTAAGCAATAGTGG
1 CCACTAAAAACTGAGCAATAACGGCGTTTTTGGTCCAAACGCCACTAAAAACTGAGCAATAGCGG
* *
59953390 CTTTTTTTGGTCAAAACT-
66 C-ATTTTTGGTCCAAA-TG
*
59953408 CCGCTAAAAACTGAGCAATAACGGCGTTTTTGGTCCAAACGCCAC-AAAA
1 CCACTAAAAACTGAGCAATAACGGCGTTTTTGGTCCAAACGCCACTAAAA
59953457 CGTTGAGCAG
Statistics
Matches: 176, Mismatches: 32, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
81 2 0.01
82 62 0.35
83 108 0.61
84 3 0.02
85 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (82 bp):
CCACTAAAAACTGAGCAATAACGGCGTTTTTGGTCCAAACGCCACTAAAAACTGAGCAATAGCGG
CATTTTTGGTCCAAATG
Done.