Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 275 of 325
Found at i:85353239 original size:19 final size:18
Alignment explanation
Indices: 85353203--85353250 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
85353193 ACAAAGTTAC
*
85353203 AGAGAAAGAAATGTGAAA
1 AGAGAAAGAAATGAGAAA
85353221 GAGAGAAAGAAA-GAAGAAA
1 -AGAGAAAGAAATG-AGAAA
*
85353240 AGAAAAAGAAA
1 AGAGAAAGAAA
85353251 AAGGATTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (18 bp):
AGAGAAAGAAATGAGAAA
Found at i:85354639 original size:13 final size:13
Alignment explanation
Indices: 85354603--85354639 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
85354593 TGATAGTTTG
*
85354603 GTATGAATTTATAT
1 GTATG-ATTTGTAT
85354617 GTATGATTTGTAT
1 GTATGATTTGTAT
85354630 GTATGATTTG
1 GTATGATTTG
85354640 CTAATTATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (13 bp):
GTATGATTTGTAT
Found at i:85355151 original size:20 final size:20
Alignment explanation
Indices: 85355123--85355180 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
85355113 TGCCCATGGG
*
85355123 CAGGCCACACGGGCGTG-CTC
1 CAGGCCACACGGGCATGTC-C
*
85355143 CAGGTCACACGGGCATGTCC
1 CAGGCCACACGGGCATGTCC
85355163 CAGGCCACACGGGCATGT
1 CAGGCCACACGGGCATGT
85355181 GCCCCTATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 33 0.97
21 1 0.03
ACGTcount: A:0.19, C:0.36, G:0.33, T:0.12
Consensus pattern (20 bp):
CAGGCCACACGGGCATGTCC
Found at i:85355854 original size:114 final size:112
Alignment explanation
Indices: 85355728--85356068 Score: 372
Period size: 114 Copynumber: 3.0 Consensus size: 112
85355718 CCAGCACTAG
* * *
85355728 AGACTAGTAAAAAAAACAATTTTTTTTGTTCTGGCCTTCTAATGGCTGGCACCAGGGACTTTTTT
1 AGACCAGTAAAAAAAA-AATTTTTTTTGTTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTT
* * *
85355793 CGTGTCCTAATGCAATTTTTTTTA-TTGTTCTACACTGATGGTCAGCACC
65 -GTGTCCCAATGCAATTTTTTTTACTT-TTCTACACTGATGGTCGGCACT
* * *
85355842 AGACCAGTAAAAAAAAAA------TAGTTTTGGCCTTCTAATGGCCGGCACCAAGGATTTTTTTT
1 AGACCAGTAAAAAAAAAATTTTTTTTGTTCTGGCCTTCTAATGGCCGGCACCAAGGA-CTTTTTT
* *
85355901 GTGTCCCAATGCAATTTTTTTTTTACTTTTCTATATTGATGGTCGGCACT
65 GTGTCCCAATGCAA--TTTTTTTTACTTTTCTACACTGATGGTCGGCACT
*******
85355951 AGACCAGTAAATTTTGTTTTTTTTTTTGGTTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTT
1 AGACCAGTAAA-AAAAAAATTTTTTTT-GTTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTT
* * *
85356016 TGTGCCCCAATGCAAATTATTTTACTTTTCTACACTGATGGTCGGCACT
64 TGTGTCCCAATGCAATTTTTTTTACTTTTCTACACTGATGGTCGGCACT
85356065 AGAC
1 AGAC
85356069 TAGCAATTTA
Statistics
Matches: 189, Mismatches: 26, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
107 42 0.22
108 6 0.03
109 38 0.20
110 2 0.01
113 2 0.01
114 49 0.26
116 20 0.11
117 30 0.16
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (112 bp):
AGACCAGTAAAAAAAAAATTTTTTTTGTTCTGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTG
TGTCCCAATGCAATTTTTTTTACTTTTCTACACTGATGGTCGGCACT
Found at i:85355887 original size:107 final size:106
Alignment explanation
Indices: 85355759--85356108 Score: 351
Period size: 109 Copynumber: 3.2 Consensus size: 106
85355749 TTTTTTGTTC
* * *
85355759 TGGCCTTCTAATGGCTGGCACCAGGGACTTTTTTCGTGTCCTAATGCAATTTTTTTTA-TTGTTC
1 TGGCCTTCTAATGGCCGGCACCAAGGACTTTTTT-GTGTCCCAATGCAATTTTTTTTACTT-TTC
* * *
85355823 TACACTGATGGTCAGCACCAGACCAGTAAAAAAAAAATAGTTT
64 TACACTGATGGTCGGCACTAGACCAGTAAAAAAAAAATGGTTT
*
85355866 TGGCCTTCTAATGGCCGGCACCAAGGATTTTTTTTGTGTCCCAATGCAATTTTTTTTTTACTTTT
1 TGGCCTTCTAATGGCCGGCACCAAGGA-CTTTTTTGTGTCCCAATGCAA--TTTTTTTTACTTTT
* * ******* *
85355931 CTATATTGATGGTCGGCACTAGACCAGTAAATTTTGTTTTTTTTTTTGGTTC
63 CTACACTGATGGTCGGCACTAGACCAGTAAA--------AAAAAAATGGTTT
* * *
85355983 TGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTGTGCCCCAATGCAAATTATTTTACTTTTCTA
1 TGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTGTGTCCCAATGCAATTTTTTTTACTTTTCTA
* *
85356048 CACTGATGGTCGGCACTAGACTAGCAATTTAAAAAAAATGGTTT
66 CACTGATGGTCGGCACTAGACCAGTAA---AAAAAAAATGGTTT
85356092 TGGCCTTCTAATGGCCG
1 TGGCCTTCTAATGGCCG
85356109 AGACCAGAGT
Statistics
Matches: 195, Mismatches: 33, Indels: 28
0.76 0.13 0.11
Matches are distributed among these distances:
107 38 0.19
108 6 0.03
109 60 0.31
110 2 0.01
114 38 0.19
116 19 0.10
117 32 0.16
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (106 bp):
TGGCCTTCTAATGGCCGGCACCAAGGACTTTTTTGTGTCCCAATGCAATTTTTTTTACTTTTCTA
CACTGATGGTCGGCACTAGACCAGTAAAAAAAAAATGGTTT
Found at i:85356410 original size:27 final size:27
Alignment explanation
Indices: 85356373--85356435 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
85356363 ATCATGAAAT
*
85356373 GAGTTTGTTTGTAGTGGATTGTATG-TGG
1 GAGTTT-TTTGTAGTGGATTGTA-GATGA
85356401 GAGTTTTTTGTAGTGGATTGTAGATGA
1 GAGTTTTTTGTAGTGGATTGTAGATGA
85356428 GAGTTTTT
1 GAGTTTTT
85356436 CATAGTGTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 1 0.03
27 26 0.79
28 6 0.18
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (27 bp):
GAGTTTTTTGTAGTGGATTGTAGATGA
Found at i:85356441 original size:27 final size:27
Alignment explanation
Indices: 85356384--85356442 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
85356374 AGTTTGTTTG
* **
85356384 TAGTGGATTGTATGTGGGAGTTTTTTG
1 TAGTGGATTGTATGTGAGAGTTTTTCA
85356411 TAGTGGATTGTA-GATGAGAGTTTTTCA
1 TAGTGGATTGTATG-TGAGAGTTTTTCA
85356438 TAGTG
1 TAGTG
85356443 TACAACCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.44
Consensus pattern (27 bp):
TAGTGGATTGTATGTGAGAGTTTTTCA
Found at i:85357152 original size:20 final size:20
Alignment explanation
Indices: 85357115--85357153 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
85357105 GTGCGTATTA
*
85357115 TTTTTGTTTGAATCTTTTAT
1 TTTTTGTTTGAATATTTTAT
85357135 TTTTTGTATT-AATATTTTA
1 TTTTTGT-TTGAATATTTTA
85357154 GAATGTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.69
Consensus pattern (20 bp):
TTTTTGTTTGAATATTTTAT
Found at i:85359681 original size:21 final size:22
Alignment explanation
Indices: 85359635--85359682 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
85359625 GATTTCCATT
85359635 TCATTTAAATTATCTATCTTTC
1 TCATTTAAATTATCTATCTTTC
*
85359657 -CATTTAAATTTAT-T-TTTTTC
1 TCATTTAAA-TTATCTATCTTTC
85359677 TCATTT
1 TCATTT
85359683 CAAAGTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 5 0.22
21 14 0.61
22 4 0.17
ACGTcount: A:0.25, C:0.15, G:0.00, T:0.60
Consensus pattern (22 bp):
TCATTTAAATTATCTATCTTTC
Found at i:85359772 original size:5 final size:5
Alignment explanation
Indices: 85359742--85359864 Score: 61
Period size: 5 Copynumber: 22.6 Consensus size: 5
85359732 TTTTTTTAAA
* * *
85359742 ATTTC ATTCC ATTTC ATAATC A--TC ATTTC ATTTT ATATTC ATTTAAC
1 ATTTC ATTTC ATTTC AT-TTC ATTTC ATTTC ATTTC AT-TTC ATTT--C
* * * *
85359789 ATTTC ATTTA ATTTC ATATTC ATTAC AAATTAC ATTTC TTTTC ATATTC
1 ATTTC ATTTC ATTTC AT-TTC ATTTC --ATTTC ATTTC ATTTC AT-TTC
85359838 ATATTTC ATTTAAC ATTTC ATTTC ATT
1 --ATTTC ATTT--C ATTTC ATTTC ATT
85359865 AATTTTTTTT
Statistics
Matches: 93, Mismatches: 11, Indels: 28
0.70 0.08 0.21
Matches are distributed among these distances:
3 3 0.03
5 55 0.59
6 15 0.16
7 18 0.19
8 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (5 bp):
ATTTC
Found at i:85359796 original size:28 final size:28
Alignment explanation
Indices: 85359764--85359864 Score: 103
Period size: 28 Copynumber: 3.4 Consensus size: 28
85359754 TTCATAATCA
*
85359764 TCATTTCATTTTATATTCATTTAACATT
1 TCATTTCATTTCATATTCATTTAACATT
* *
85359792 TCATTTAATTTCATATTCATTACAAATTACATT
1 TCATTTCATTTCATATTCATT-----TAACATT
*
85359825 TCTTTTCATATTCATATTTCATTTAACATT
1 TCATTTCAT-TTCATA-TTCATTTAACATT
85359855 TCATTTCATT
1 TCATTTCATT
85359865 AATTTTTTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
28 19 0.32
29 1 0.02
30 14 0.24
33 13 0.22
34 6 0.10
35 6 0.10
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (28 bp):
TCATTTCATTTCATATTCATTTAACATT
Found at i:85360026 original size:16 final size:16
Alignment explanation
Indices: 85359986--85360027 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
85359976 TATTAAGGTC
85359986 ATTTAAATTTTTTCGA
1 ATTTAAATTTTTTCGA
*
85360002 ATTT-TATTTTTATC-A
1 ATTTAAATTTTT-TCGA
85360017 ATTTAAATTTT
1 ATTTAAATTTT
85360028 AAATTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTTAAATTTTTTCGA
Found at i:85360245 original size:16 final size:16
Alignment explanation
Indices: 85360226--85360270 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
85360216 CACTTTTTTT
85360226 TTTCATTTCATTTTCA
1 TTTCATTTCATTTTCA
*
85360242 TTTCATTTC-GTTTCA
1 TTTCATTTCATTTTCA
85360257 TTTCCATTCTCATT
1 TTT-CATT-TCATT
85360271 CCTATTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 8 0.33
16 13 0.54
17 2 0.08
18 1 0.04
ACGTcount: A:0.16, C:0.22, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTCATTTCATTTTCA
Found at i:85360255 original size:10 final size:10
Alignment explanation
Indices: 85360226--85360282 Score: 60
Period size: 11 Copynumber: 5.3 Consensus size: 10
85360216 CACTTTTTTT
85360226 TTTCATTTCA
1 TTTCATTTCA
85360236 TTTTCATTTCA
1 -TTTCATTTCA
*
85360247 TTTCGTTTCA
1 TTTCATTTCA
85360257 TTTCCATTCTCA
1 TTT-CATT-TCA
*
85360269 TTCCTATTTCA
1 TTTC-ATTTCA
85360280 TTT
1 TTT
85360283 AAATTATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 12 0.31
11 19 0.49
12 8 0.21
ACGTcount: A:0.16, C:0.23, G:0.02, T:0.60
Consensus pattern (10 bp):
TTTCATTTCA
Found at i:85360255 original size:21 final size:22
Alignment explanation
Indices: 85360226--85360282 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
85360216 CACTTTTTTT
*
85360226 TTTCATTTCATTTTCATT-TCA
1 TTTCATTTCATTTCCATTCTCA
*
85360247 TTTCGTTTCATTTCCATTCTCA
1 TTTCATTTCATTTCCATTCTCA
*
85360269 TTCCTATTTCATTT
1 TTTC-ATTTCATTT
85360283 AAATTATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 16 0.53
22 6 0.20
23 8 0.27
ACGTcount: A:0.16, C:0.23, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTCATTTCATTTCCATTCTCA
Found at i:85360271 original size:6 final size:5
Alignment explanation
Indices: 85360226--85360282 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
85360216 CACTTTTTTT
* *
85360226 TTTCA TTTCA TTTTCA TTTCA TTTCG TTTCA TTTCCA TTCTCA TTCCTA
1 TTTCA TTTCA -TTTCA TTTCA TTTCA TTTCA TTT-CA TT-TCA TTTC-A
85360275 TTTCA TTT
1 TTTCA TTT
85360283 AAATTATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 26 0.59
6 17 0.39
7 1 0.02
ACGTcount: A:0.16, C:0.23, G:0.02, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:85360308 original size:15 final size:16
Alignment explanation
Indices: 85360290--85360324 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
85360280 TTTAAATTAT
85360290 ATTTTTTTC-AATTTA
1 ATTTTTTTCTAATTTA
*
85360305 ATTTTTTTCTAATTTC
1 ATTTTTTTCTAATTTA
85360321 ATTT
1 ATTT
85360325 ATATTATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTTTTCTAATTTA
Found at i:85360369 original size:49 final size:48
Alignment explanation
Indices: 85360299--85360427 Score: 188
Period size: 49 Copynumber: 2.7 Consensus size: 48
85360289 TATTTTTTTC
* * *
85360299 AATTTAATTTTTTTCTAATTTCATTTATATTATCTATTTTTCCATGCA
1 AATTTAATTTTTTTCTCATTTCATTTAAATTATCTATCTTTCCATGCA
*
85360347 AATTTAATTTTTTTTCTCATTTCATTTAAATCATCTATCTTTCCATGCA
1 AATTTAA-TTTTTTTCTCATTTCATTTAAATTATCTATCTTTCCATGCA
*
85360396 AATTAAATTTTTTTCTCAATTT-ATTTAAATTA
1 AATTTAATTTTTTTCTC-ATTTCATTTAAATTA
85360428 AATTTTTTTC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
48 26 0.36
49 47 0.64
ACGTcount: A:0.29, C:0.13, G:0.02, T:0.56
Consensus pattern (48 bp):
AATTTAATTTTTTTCTCATTTCATTTAAATTATCTATCTTTCCATGCA
Found at i:85360427 original size:27 final size:27
Alignment explanation
Indices: 85360395--85360735 Score: 221
Period size: 27 Copynumber: 13.2 Consensus size: 27
85360385 CTTTCCATGC
85360395 AAATTAAATTTTTTTCTCAATTT-ATTT
1 AAATTAAATTTTTTTCTC-ATTTCATTT
85360422 AAATTAAATTTTTTTCTCATTTCATTT
1 AAATTAAATTTTTTTCTCATTTCATTT
* *
85360449 AAATTTAATTTTTTTCTCATTTCTTTT
1 AAATTAAATTTTTTTCTCATTTCATTT
*
85360476 GAATT-AATTTTTTTC-C---TCATTT
1 AAATTAAATTTTTTTCTCATTTCATTT
* *
85360498 CAATTAAATTTATCTT-TC-TTTCAATTT
1 AAATTAAATTT-TTTTCTCATTTC-ATTT
*
85360525 TAA-TATAA-TTTTTTCTCAGTTT-ATTT
1 AAATTA-AATTTTTTTCTCA-TTTCATTT
85360551 AAATT-AATTTTTTTCCTCATTTCATTT
1 AAATTAAATTTTTTT-CTCATTTCATTT
* * * *
85360578 CAATT-TATCTTTCTT-TCA-AT--TTT
1 AAATTAAAT-TTTTTTCTCATTTCATTT
* * *
85360601 AATTTTAA-TTTTTTCTCATTTCTTTT
1 AAATTAAATTTTTTTCTCATTTCATTT
*
85360627 AAATTAAA-ATTTTTCTTCATTTCATTT
1 AAATTAAATTTTTTTC-TCATTTCATTT
* *
85360654 AAA-T---TTATCTT-TC-TTTCAATTT
1 AAATTAAATTTTTTTCTCATTTC-ATTT
* * *
85360676 TAATTCAAA-TTTTGTCTCATTTCTTTT
1 AAATT-AAATTTTTTTCTCATTTCATTT
*
85360703 AAATTAATTTTTTTTCCTCATTTCATTT
1 AAATTAAATTTTTTT-CTCATTTCATTT
85360731 AAATT
1 AAATT
85360736 TTTCTTTCTT
Statistics
Matches: 247, Mismatches: 34, Indels: 65
0.71 0.10 0.19
Matches are distributed among these distances:
21 4 0.02
22 22 0.09
23 15 0.06
24 9 0.04
25 7 0.03
26 61 0.25
27 101 0.41
28 28 0.11
ACGTcount: A:0.27, C:0.12, G:0.01, T:0.60
Consensus pattern (27 bp):
AAATTAAATTTTTTTCTCATTTCATTT
Found at i:85360497 original size:129 final size:129
Alignment explanation
Indices: 85360350--85360584 Score: 332
Period size: 129 Copynumber: 1.8 Consensus size: 129
85360340 CCATGCAAAT
* * *
85360350 TTAATTTTTTTTCTCATTTCATTTAAA-TCATCTATCTTTCCATGCAAAT-TAAATTTTTTTCTC
1 TTAATTTTTTTCCTCATTTCAATTAAATTCATCTATCTTTCAATGCAAATAT-AA-TTTTTTCTC
85360413 AATTTATTTAAATTAAATTTTTTT-CTCATTTCATTTAAATTTAATTTTTTTCTCATTTCTTTTG
64 AATTTATTTAAATT-AATTTTTTTCCTCATTTCATTTAAATTTAATTTTTTTCTCATTTCTTTTG
85360477 AA
128 AA
* * *** *
85360479 TTAATTTTTTTCCTCATTTCAATTAAATTTATCTTTCTTTCAATTTTAATATAATTTTTTCTCAG
1 TTAATTTTTTTCCTCATTTCAATTAAATTCATCTATCTTTCAATGCAAATATAATTTTTTCTCAA
*
85360544 TTTATTTAAATTAATTTTTTTCCTCATTTCATTTCAATTTA
66 TTTATTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTA
85360585 TCTTTCTTTC
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
128 9 0.10
129 65 0.70
130 18 0.19
131 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.01, T:0.59
Consensus pattern (129 bp):
TTAATTTTTTTCCTCATTTCAATTAAATTCATCTATCTTTCAATGCAAATATAATTTTTTCTCAA
TTTATTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTAATTTTTTTCTCATTTCTTTTGAA
Found at i:85360553 original size:151 final size:150
Alignment explanation
Indices: 85360418--85360767 Score: 397
Period size: 151 Copynumber: 2.3 Consensus size: 150
85360408 TTCTCAATTT
* *
85360418 ATTTAAATTAAATTT-TTTTCTCATTTC-A-TTTAAATTTAATTTTTTTCTCATTTCTTTTGAAT
1 ATTTAAATTAAATTTATCTT-TC-TTTCAATTTTAAATTTAA-TTTTTTCTCATTTCTTTTAAAT
**
85360480 TAATTTTTTTCCTCATTTCAATTAAATTTATCTTTCTTTCAATTTTAATATAATTTTTTCTCAGT
63 TAAAATTTTTCCTCATTTCAATTAAATTTATCTTTCTTTCAATTTTAATATAATTTTTTCTCAGT
*
85360545 TTATTTAAATTAATTTTTTTCCTC
128 TTATTTAAATT-ATTTTTCTCCTC
* * * *
85360569 ATTTCATTTCAATTTATCTTTCTTTCAATTTTAATTTTAATTTTTTCTCATTTCTTTTAAATTAA
1 ATTTAAATTAAATTTATCTTTCTTTCAATTTTAAATTTAATTTTTTCTCATTTCTTTTAAATTAA
* * *
85360634 AATTTTTCTTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAAT-TCAAATTTTGTCTCA-TT
66 AATTTTTCCTCATTTCAATTAAATTTATCTTTCTTTCAATTTTAATAT--AATTTTTTCTCAGTT
* *
85360697 TCTTTTAAATTAATTTTTTTTCCTC
129 T-ATTTAAATT-A-TTTTTCTCCTC
* * * * * *
85360722 ATTTCATTTAAATTTTTCTTTCTTTC-CTTGTAAATTTAAATTTTTC
1 ATTTAAATTAAATTTATCTTTCTTTCAATTTTAAATTTAATTTTTTC
85360768 CTCAATTCAC
Statistics
Matches: 174, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
150 5 0.03
151 84 0.48
152 50 0.29
153 35 0.20
ACGTcount: A:0.25, C:0.13, G:0.01, T:0.61
Consensus pattern (150 bp):
ATTTAAATTAAATTTATCTTTCTTTCAATTTTAAATTTAATTTTTTCTCATTTCTTTTAAATTAA
AATTTTTCCTCATTTCAATTAAATTTATCTTTCTTTCAATTTTAATATAATTTTTTCTCAGTTTA
TTTAAATTATTTTTCTCCTC
Found at i:85360631 original size:76 final size:76
Alignment explanation
Indices: 85360446--85360843 Score: 463
Period size: 76 Copynumber: 5.3 Consensus size: 76
85360436 TCTCATTTCA
* * *
85360446 TTTAAATTTAATTTTTTTCTCATTTCTTTTGAATTAATTTTTTTCCTCATTTCAATTAAATTTAT
1 TTTAATTTTAA-TTTTTTCTCATTTCTTTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTAT
85360511 CTTTCTTTCAAT
65 CTTTCTTTCAAT
* * *
85360523 TTTAA-TATAATTTTTTCTCAGTTT-ATTTAAATTAATTTTTTTCCTCATTTCATTTCAATTTAT
1 TTTAATTTTAATTTTTTCTCA-TTTCTTTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTAT
85360586 CTTTCTTTCAAT
65 CTTTCTTTCAAT
** *
85360598 TTTAATTTTAATTTTTTCTCATTTCTTTTAAATTAAAATTTTTCTTCATTTCATTTAAATTTATC
1 TTTAATTTTAATTTTTTCTCATTTCTTTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTATC
85360663 TTTCTTTCAAT
66 TTTCTTTCAAT
** * *
85360674 TTTAATTCAAATTTTGTCTCATTTCTTTTAAATTAATTTTTTTTCCTCATTTCATTTAAATTTTT
1 TTTAATTTTAATTTTTTCTCATTTCTTTTAAATTAA-TTTTTTTCCTCATTTCATTTAAATTTAT
*
85360739 CTTTCTTTC-CT
65 CTTTCTTTCAAT
* * * * ** *
85360750 TGTAAATTTAAATTTTTCCTCAATTCACTTATATT--TTTTTTT--TCATTTCATTTAAA-TTAT
1 T-TTAATTTTAATTTTTTCTCATTTCTTTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTAT
* *
85360810 CTATCTTTCCA-
65 CTTTCTTTCAAT
* *
85360821 TGTAATTTTCATTTTCTTCTCAT
1 TTTAATTTTAATTTT-TTCTCAT
85360844 ACCATTTATC
Statistics
Matches: 278, Mismatches: 36, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
70 10 0.04
71 17 0.06
72 14 0.05
74 7 0.03
75 65 0.23
76 102 0.37
77 63 0.23
ACGTcount: A:0.24, C:0.14, G:0.01, T:0.60
Consensus pattern (76 bp):
TTTAATTTTAATTTTTTCTCATTTCTTTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTATC
TTTCTTTCAAT
Found at i:85360632 original size:129 final size:128
Alignment explanation
Indices: 85360404--85360716 Score: 289
Period size: 129 Copynumber: 2.5 Consensus size: 128
85360394 CAAATTAAAT
*
85360404 TTTTTTCTCAATTTATTTAAATTAAATTTTTTTCTCATTTCATTTAAATTTAATTTTTTTCTCAT
1 TTTTTTCTCAATTTATTTAAATTAAATTTTTTTCTCATTTCATTTAAATTTAATTTTTTTCTAAT
* *
85360469 TTCTTTTGAATTAATTTTTTTCCTCATTTCAATT-AAATTTATCTTTCTTTCAATTTTAATATAA
66 TTCTATT--ATTAATTTTTTTCCTCATTTAAATTAAAATTTATCTTTCTTTCAATTTTAATATAA
* *
85360533 TTTTTTCTCAGTTTATTTAAATT-AATTTTTTTCCTCATTTCATTTCAATTT-ATCTTTCTTTC-
1 TTTTTTCTCAATTTATTTAAATTAAATTTTTTT-CTCATTTCATTTAAATTTAAT-TTT-TTTCT
* * * *
85360595 AATTT-TAATT-TTAATTTTTTCTCATTTCTTTTAAATTAAAATTTTTC-TTCATTTC-ATTTAA
63 AATTTCT-ATTATTAATTTTTT-TC--CTCATTTAAATTAAAATTTATCTTTC-TTTCAATTTTA
*
85360656 AT-TTA
123 ATATAA
* *
85360661 TCTTTCTT-TCAA--T-TTT-AATTCAAA-TTTTGTCTCATTTCTTTTAAA-TTAATTTTTTT
1 T-TTT-TTCTCAATTTATTTAAATT-AAATTTTTTTCTCATTTCATTTAAATTTAATTTTTTT
85360717 TCCTCATTTC
Statistics
Matches: 156, Mismatches: 14, Indels: 34
0.76 0.07 0.17
Matches are distributed among these distances:
123 3 0.02
124 5 0.03
125 19 0.12
126 18 0.12
127 5 0.03
128 15 0.10
129 73 0.47
130 18 0.12
ACGTcount: A:0.26, C:0.12, G:0.01, T:0.61
Consensus pattern (128 bp):
TTTTTTCTCAATTTATTTAAATTAAATTTTTTTCTCATTTCATTTAAATTTAATTTTTTTCTAAT
TTCTATTATTAATTTTTTTCCTCATTTAAATTAAAATTTATCTTTCTTTCAATTTTAATATAA
Found at i:85360670 original size:21 final size:22
Alignment explanation
Indices: 85360628--85360680 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
85360618 ATTTCTTTTA
* *
85360628 AATTAAAATTTTTCTTCATTTC
1 AATTTAAATTTATCTTCATTTC
85360650 -ATTTAAATTTATCTTTC-TTTC
1 AATTTAAATTTATC-TTCATTTC
*
85360671 AATTTTAATT
1 AATTTAAATT
85360681 CAAATTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTTAAATTTATCTTCATTTC
Found at i:85360675 original size:22 final size:23
Alignment explanation
Indices: 85360619--85360680 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 23
85360609 TTTTTTCTCA
* * * *
85360619 TTTCTTTTAAATTAAAATTTTTC
1 TTTCATTTCAATTTAAATTTATC
85360642 -TTCATTTC-ATTTAAATTTATC
1 TTTCATTTCAATTTAAATTTATC
*
85360663 TTTC-TTTCAATTTTAATT
1 TTTCATTTCAATTTAAATT
85360681 CAAATTTTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 15 0.47
22 17 0.53
ACGTcount: A:0.27, C:0.11, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTCATTTCAATTTAAATTTATC
Found at i:85360735 original size:49 final size:48
Alignment explanation
Indices: 85360418--85360740 Score: 158
Period size: 49 Copynumber: 6.4 Consensus size: 48
85360408 TTCTCAATTT
* *
85360418 ATTTAAATTAAATTTTTTTCTCATTTCATTTAAATTTAATTTTTTTCTCATTTC
1 ATTTAATTTAAA--TTTTTCTCATTTCATTTAAA-TTAATTTTTTT-TC--CTC
* * * * * *
85360472 TTTTGAA-TTAATTTTTTTCCTCATTTCAATTAAATTTATCTTTCTTT-C-A
1 ATTT-AATTTAA-ATTTTT-CTCATTTCATTTAAATTAAT-TTTTTTTCCTC
* *
85360521 ATTTTAATATAATTTTTTCTCAGTTT-ATTTAAATTAA-TTTTTTTCCTC
1 A-TTTAATTTAAATTTTTCTCA-TTTCATTTAAATTAATTTTTTTTCCTC
* * * * * *
85360569 ATTTCATTTCAATTTATCTTTC-TTTCAATTTTAATTTTAATTTTTTCTCATTTC
1 ATTTAATTTAAATTT-T-TCTCATTTC-A-TTTAA-ATTAATTTTTTTTC--CTC
* * * * *
85360623 TTTTAAATTAAAATTTTTCTTCATTTCATTTAAATTTATCTTTCTTT-C-A
1 ATTT-AATTTAAATTTTTC-TCATTTCATTTAAATTAAT-TTTTTTTCCTC
* *
85360672 ATTTTAATTCAAATTTTGTCTCATTTCTTTTAAATTAATTTTTTTTCCTC
1 A-TTTAATTTAAATTTT-TCTCATTTCATTTAAATTAATTTTTTTTCCTC
*
85360722 ATTTCATTTAAATTTTTCT
1 ATTTAATTTAAATTTTTCT
85360741 TTCTTTCCTT
Statistics
Matches: 203, Mismatches: 40, Indels: 58
0.67 0.13 0.19
Matches are distributed among these distances:
46 6 0.03
47 14 0.07
48 24 0.12
49 57 0.28
50 17 0.08
51 4 0.02
52 11 0.05
53 21 0.10
54 35 0.17
55 14 0.07
ACGTcount: A:0.26, C:0.13, G:0.01, T:0.61
Consensus pattern (48 bp):
ATTTAATTTAAATTTTTCTCATTTCATTTAAATTAATTTTTTTTCCTC
Found at i:85360850 original size:153 final size:149
Alignment explanation
Indices: 85360481--85360827 Score: 386
Period size: 153 Copynumber: 2.3 Consensus size: 149
85360471 CTTTTGAATT
* * * * *
85360481 AATT-TTTTTCCTCATTTCAATTAAATTTATCTTTCTTTCAATTTTAA-T-ATAATTTTTTCTCA
1 AATTATTTTTCTTCATTTCATTTAAATTTATCTATCTTTCAATTGTAATTCA-AATTTTCTCTCA
* * * *
85360543 GTTT-ATTTAAATTAATTTTTTTCCTCATTTCATTTCAATTTATCTTTCTTTCAATTTTAATTTT
65 -TTTCTTTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAATTTAAATTTA
* * **
85360607 AATTTTTTCTCATTTCTTTTA
129 AATTTTTCCTCAATTCACTTA
* * *
85360628 AATTAAAATTTTTCTTCATTTCATTTAAATTTATCTTTCTTTCAATTTTAATTCAAATTTTGTCT
1 AATT---ATTTTTCTTCATTTCATTTAAATTTATCTATCTTTCAATTGTAATTCAAATTTTCTCT
* *
85360693 CATTTCTTTTAAATTAATTTTTTTTCCTCATTTCATTTAAATTTTTCTTTCTTTC-CTTGTAAAT
63 CATTTCTTTTAAATTAA-TTTTTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAATT-TAAAT
85360757 TTAAATTTTTCCTCAATTCACTTA
126 TTAAATTTTTCCTCAATTCACTTA
* * *
85360781 TATT-TTTTTTTTCATTTCATTTAAA-TTATCTATCTTTCCA-TGTAATT
1 AATTATTTTTCTTCATTTCATTTAAATTTATCTATCTTTCAATTGTAATT
85360828 TTCATTTTCT
Statistics
Matches: 173, Mismatches: 18, Indels: 18
0.83 0.09 0.09
Matches are distributed among these distances:
147 10 0.06
148 13 0.08
149 20 0.12
151 44 0.25
152 24 0.14
153 62 0.36
ACGTcount: A:0.25, C:0.14, G:0.01, T:0.60
Consensus pattern (149 bp):
AATTATTTTTCTTCATTTCATTTAAATTTATCTATCTTTCAATTGTAATTCAAATTTTCTCTCAT
TTCTTTTAAATTAATTTTTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAATTTAAATTTAAA
TTTTTCCTCAATTCACTTA
Found at i:85364255 original size:116 final size:108
Alignment explanation
Indices: 85363988--85364589 Score: 644
Period size: 117 Copynumber: 5.4 Consensus size: 108
85363978 AGAATGAAAA
* * * *
85363988 ATTGGAACACGAAAAAATTCCTTAGTGCCGGCCATTAGAAGGCCAGAACCAAAATTTTTTTTTAC
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGACCATTAGAAGGCCAGAACC--AATTTTTTTTTAC
* *
85364053 TGGTCTGGTGCTGGCAATCAGTGTAGAAAAGT-AAAAAAATTTAA
64 TGGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAAATTTAC
* * *
85364097 ATTGGGACACGAAAAAAGTCCCTGGTGCCGGCCATTAGAAGGCCAAAACCAATTTTTTTTGAAAA
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGACCATTAGAAGGCCAGAACCAA-TTTTTTT-----
85364162 ATTACTGGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAAAAATTT-C
60 -TTACTGGTCTGGTGCTGGCCATCAGTGTAGAAAAGT--AAAAAAAATTTAC
* * *
85364213 ATTGGGAGACGAAAAAAGTCCCTAGTGCCGACCATTAAAAGGCCAAGAACGAATTTTTTTTAAAA
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGACCATTAGAAGGCC-AGAACCAA-TTTTTTT----
* * *
85364278 TTATTGGTTTGGTGCTGACCATCAGTGTAGAAAAGTAAAAAAAAAAATTTAC
60 TTACTGGTCTGGTGCTGGCCATCAGTGTAGAAAAGT---AAAAAAAATTTAC
* * * * *
85364330 ATTGGGACACGAAAAAAGTCCTTGGTGCCGACCATTAAAAGGCTAGAACCAAATTTTTTTTACTG
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGACCATTAGAAGGCCAGAACCAATTTTTTTTTACTG
* * * *
85364395 GTTTGGTG-TCGGCCATTAGTGTAGAAAAGTAAAAATAATTTGC
66 GTCTGGTGCT-GGCCATCAGTGTAGAAAAGTAAAAAAAATTTAC
* * * * * *
85364438 ATTGGGAAACAAAAAAAGTCCCTGGTGCC-AGCTATTAGAAGGCTAGAA-CAA-ATTTTTTTA-T
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGA-CCATTAGAAGGCCAGAACCAATTTTTTTTTACT
* * *
85364499 GGTCTGGTGTTGGCCATCAGTGTAGAAAAGT-AAAAAATTTTGC
65 GGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAAATTTAC
*
85364542 ATTGGGACACGAAAAAAGTCCCTAGTGCCGACCATTAGAAGGCTAGAA
1 ATTGGGACACGAAAAAAGTCCCTAGTGCCGACCATTAGAAGGCCAGAA
85364590 TAAAAAAAAT
Statistics
Matches: 435, Mismatches: 41, Indels: 39
0.84 0.08 0.08
Matches are distributed among these distances:
104 52 0.12
105 29 0.07
106 9 0.02
107 6 0.01
108 59 0.14
109 45 0.10
110 1 0.00
111 31 0.07
114 35 0.08
115 43 0.10
116 60 0.14
117 65 0.15
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (108 bp):
ATTGGGACACGAAAAAAGTCCCTAGTGCCGACCATTAGAAGGCCAGAACCAATTTTTTTTTACTG
GTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAAATTTAC
Found at i:85364581 original size:104 final size:106
Alignment explanation
Indices: 85364163--85364589 Score: 486
Period size: 104 Copynumber: 3.9 Consensus size: 106
85364153 TTTTGAAAAA
*
85364163 TTACTGGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAAAAATTT-CATTGGGAGACGAAA
1 TTACTGGTCTGGTGCTGGCCATCAGTGTAGAAAAGT--AAAAAAAATTTGCATTGGGACACGAAA
* *
85364227 AAAGTCCCTAGTGCCGACCATTAAAAGGCCAAGAACGAATTTTTTTT
64 AAAGTCCCTAGTGCCGACCATTAAAAGG-CTAGAAC-AA--ATTTTT
* * * *
85364274 AAAATTATTGGTTTGGTGCTGACCATCAGTGTAGAAAAGTAAAAAAAAAAATTTACATTGGGACA
1 ----TTACTGGTCTGGTGCTGGCCATCAGTGTAGAAAAGT---AAAAAAAATTTGCATTGGGACA
* *
85364339 CGAAAAAAGTCCTTGGTGCCGACCATTAAAAGGCTAGAACCAAATTTTTT
59 CGAAAAAAGTCCCTAGTGCCGACCATTAAAAGGCTAGAA-CAAA-TTTTT
* * * * *
85364389 TTACTGGTTTGGTG-TCGGCCATTAGTGTAGAAAAGTAAAAATAATTTGCATTGGGAAACAAAAA
1 TTACTGGTCTGGTGCT-GGCCATCAGTGTAGAAAAGTAAAAAAAATTTGCATTGGGACACGAAAA
* * *
85364453 AAGTCCCTGGTGCC-AGCTATTAGAAGGCTAGAACAAATTTTT
65 AAGTCCCTAGTGCCGA-CCATTAAAAGGCTAGAACAAATTTTT
* *
85364495 TTA-TGGTCTGGTGTTGGCCATCAGTGTAGAAAAGT-AAAAAATTTTGCATTGGGACACGAAAAA
1 TTACTGGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAAATTTGCATTGGGACACGAAAAA
*
85364558 AGTCCCTAGTGCCGACCATTAGAAGGCTAGAA
66 AGTCCCTAGTGCCGACCATTAAAAGGCTAGAA
85364590 TAAAAAAAAT
Statistics
Matches: 278, Mismatches: 26, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
104 52 0.19
105 29 0.10
106 9 0.03
107 5 0.02
108 52 0.19
110 1 0.00
111 31 0.11
115 38 0.14
116 20 0.07
117 41 0.15
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (106 bp):
TTACTGGTCTGGTGCTGGCCATCAGTGTAGAAAAGTAAAAAAAATTTGCATTGGGACACGAAAAA
AGTCCCTAGTGCCGACCATTAAAAGGCTAGAACAAATTTTT
Found at i:85369453 original size:74 final size:74
Alignment explanation
Indices: 85369332--85369480 Score: 289
Period size: 74 Copynumber: 2.0 Consensus size: 74
85369322 CCATAGTTAT
85369332 TTGTTGACTATCTGAAGAATAAACTAATAACAAAATGATAGTAAATCATAAAGAAAACAATGGTT
1 TTGTTGACTATCTGAAGAATAAACTAATAACAAAATGATAGTAAATCATAAAGAAAACAATGGTT
85369397 CAATCATGA
66 CAATCATGA
*
85369406 TTGTTGACTATCTGAAGAATAAACTAATAACAAAATGATAGTAAATCATATAGAAAACAATGGTT
1 TTGTTGACTATCTGAAGAATAAACTAATAACAAAATGATAGTAAATCATAAAGAAAACAATGGTT
85369471 CAATCATGA
66 CAATCATGA
85369480 T
1 T
85369481 CCTCTTACTT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.28
Consensus pattern (74 bp):
TTGTTGACTATCTGAAGAATAAACTAATAACAAAATGATAGTAAATCATAAAGAAAACAATGGTT
CAATCATGA
Found at i:85373156 original size:23 final size:24
Alignment explanation
Indices: 85373115--85373168 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
85373105 AAAAAAAAAT
*
85373115 CTATTGTTTTGTTATTGTTTTGCTG
1 CTATT-TTTTGTTACTGTTTTGCTG
*
85373140 CTATTTTTT-TTACTGTTTTGTTG
1 CTATTTTTTGTTACTGTTTTGCTG
*
85373163 TTATTT
1 CTATTT
85373169 CACAATTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 17 0.65
24 4 0.15
25 5 0.19
ACGTcount: A:0.09, C:0.07, G:0.15, T:0.69
Consensus pattern (24 bp):
CTATTTTTTGTTACTGTTTTGCTG
Found at i:85373997 original size:23 final size:22
Alignment explanation
Indices: 85373971--85374013 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
85373961 AATTCTTATG
85373971 AATTTTAAACTTTAGATTTTTTT
1 AATTTTAAA-TTTAGATTTTTTT
* *
85373994 AATTTTTAATTTATATTTTT
1 AATTTTAAATTTAGATTTTT
85374014 AAAAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
AATTTTAAATTTAGATTTTTTT
Found at i:85382200 original size:19 final size:21
Alignment explanation
Indices: 85382166--85382206 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
85382156 ATTGGATGGA
85382166 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
*
85382187 TCAGCT-TT-CGAGCTTTTGT
1 TCAGCTCTTACGAGCTTCTGT
85382206 T
1 T
85382207 GGCATATTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 2 0.11
21 6 0.32
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:85386674 original size:43 final size:44
Alignment explanation
Indices: 85386613--85386707 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 44
85386603 AATGCCAACA
* * *
85386613 TCCCAGAC-GTGGTCTTACATGTAAT-TCAGTATCGAAGCCTCTG
1 TCCCAGACAGTGGTCTTACACGAAATCTCA-AATCGAAGCCTCTG
* *
85386656 TCCCAGACAG-GGTCTTACACGAAATCTCAAATCGAGGCCTGTG
1 TCCCAGACAGTGGTCTTACACGAAATCTCAAATCGAAGCCTCTG
85386699 TCCCAGACA
1 TCCCAGACA
85386708 CTGTATTGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
43 41 0.91
44 4 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (44 bp):
TCCCAGACAGTGGTCTTACACGAAATCTCAAATCGAAGCCTCTG
Found at i:85393784 original size:622 final size:622
Alignment explanation
Indices: 85392601--85393846 Score: 2438
Period size: 622 Copynumber: 2.0 Consensus size: 622
85392591 ACAAAAAATG
*
85392601 ATTTAGACTCTAATGAGTCTTCATTGAGACAGATAAAGTATGAGGACATTAAGGTAAGCAATGAA
1 ATTTAGACTCTAATGAGTCTTCACTGAGACAGATAAAGTATGAGGACATTAAGGTAAGCAATGAA
85392666 TTGAAATTAAAACCCTCTATTGAAGAACCTCCCAAATTGGAACTGAAGCAATTACCAAATCACCT
66 TTGAAATTAAAACCCTCTATTGAAGAACCTCCCAAATTGGAACTGAAGCAATTACCAAATCACCT
85392731 AGAGTATGTGTTTCTTGAAAACAATTAGACATTACCAGTGATTATTGCTTTAGATTTAAAGTCAA
131 AGAGTATGTGTTTCTTGAAAACAATTAGACATTACCAGTGATTATTGCTTTAGATTTAAAGTCAA
85392796 ATGAGAAAGATGAGTTATTGAAAGTGTTGAAGGAACATAAAAGAGCTATAGCCTGGAAGATTTCT
196 ATGAGAAAGATGAGTTATTGAAAGTGTTGAAGGAACATAAAAGAGCTATAGCCTGGAAGATTTCT
*
85392861 GACATTAGAGGGATCAATCCTTCTTTTAGCATATATAAAATTTTAATGGAGGCTGAATACAAACC
261 AACATTAGAGGGATCAATCCTTCTTTTAGCATATATAAAATTTTAATGGAGGCTGAATACAAACC
*
85392926 ATGTGTACAATCTCAAAAACGACTAAATCTTAACATAAATGAAGTCGTTAAGGCTGAGGTAATTA
326 ATGTGTACAATCTCAAAAACGACTAAATCCTAACATAAATGAAGTCGTTAAGGCTGAGGTAATTA
85392991 AACTTCTAGATGCTGGAGTTATTCATTCTATTTCTGATAGTACTTGGGTGAGTTCTGTGCAGGTT
391 AACTTCTAGATGCTGGAGTTATTCATTCTATTTCTGATAGTACTTGGGTGAGTTCTGTGCAGGTT
85393056 GTTCCTGAGAAGGGATACATGACTGTTGTAGCCAAAAAGCAGAACGAGTTGATTCCAACGAGAAT
456 GTTCCTGAGAAGGGATACATGACTGTTGTAGCCAAAAAGCAGAACGAGTTGATTCCAACGAGAAT
85393121 AGTCACAAGATGGAGAGTTTGTATTGACTATAGGAAGTTGAATGATGCCACGAGAAAAGATCATT
521 AGTCACAAGATGGAGAGTTTGTATTGACTATAGGAAGTTGAATGATGCCACGAGAAAAGATCATT
85393186 TTCCTCTACCATTCATAGATCAAATGTTGGAAAGATT
586 TTCCTCTACCATTCATAGATCAAATGTTGGAAAGATT
85393223 ATTTAGACTCTAATGAGTCTTCACTGAGACAGATAAAGTATGAGGACATTAAGGTAAGCAATGAA
1 ATTTAGACTCTAATGAGTCTTCACTGAGACAGATAAAGTATGAGGACATTAAGGTAAGCAATGAA
*
85393288 TTGAAATTAAAACCTTCTATTGAAGAACCTCCCAAATTGGAACTGAAGCAATTACCAAATCACCT
66 TTGAAATTAAAACCCTCTATTGAAGAACCTCCCAAATTGGAACTGAAGCAATTACCAAATCACCT
85393353 AGAGTATGTGTTTCTTGAAAACAATTAGACATTACCAGTGATTATTGCTTTAGATTTAAAGTCAA
131 AGAGTATGTGTTTCTTGAAAACAATTAGACATTACCAGTGATTATTGCTTTAGATTTAAAGTCAA
85393418 ATGAGAAAGATGAGTTATTGAAAGTGTTGAAGGAACATAAAAGAGCTATAGCCTGGAAGATTTCT
196 ATGAGAAAGATGAGTTATTGAAAGTGTTGAAGGAACATAAAAGAGCTATAGCCTGGAAGATTTCT
85393483 AACATTAGAGGGATCAATCCTTCTTTTAGCATATATAAAATTTTAATGGAGGCTGAATACAAACC
261 AACATTAGAGGGATCAATCCTTCTTTTAGCATATATAAAATTTTAATGGAGGCTGAATACAAACC
*
85393548 ATGTGTACAATCTCAAAAATGACTAAATCCTAACATAAATGAAGTCGTTAAGGCTGAGGTAATTA
326 ATGTGTACAATCTCAAAAACGACTAAATCCTAACATAAATGAAGTCGTTAAGGCTGAGGTAATTA
*
85393613 AACTTCTAGATGCTGGAGTTATTCATTCTATTTCTGATAGTACTTGGGTGAGTTCTGTGTAGGTT
391 AACTTCTAGATGCTGGAGTTATTCATTCTATTTCTGATAGTACTTGGGTGAGTTCTGTGCAGGTT
85393678 GTTCCTGAGAAGGGATACATGACTGTTGTAGCCAAAAAGCAGAACGAGTTGATTCCAACGAGAAT
456 GTTCCTGAGAAGGGATACATGACTGTTGTAGCCAAAAAGCAGAACGAGTTGATTCCAACGAGAAT
85393743 AGTCACAAGATGGAGAGTTTGTATTGACTATAGGAAGTTGAATGATGCCACGAGAAAAGATCATT
521 AGTCACAAGATGGAGAGTTTGTATTGACTATAGGAAGTTGAATGATGCCACGAGAAAAGATCATT
85393808 TTCCTCTACCATTCATAGATCAAATGTTGGAAAGATT
586 TTCCTCTACCATTCATAGATCAAATGTTGGAAAGATT
85393845 AT
1 AT
85393847 CTGGGCATAT
Statistics
Matches: 618, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
622 618 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (622 bp):
ATTTAGACTCTAATGAGTCTTCACTGAGACAGATAAAGTATGAGGACATTAAGGTAAGCAATGAA
TTGAAATTAAAACCCTCTATTGAAGAACCTCCCAAATTGGAACTGAAGCAATTACCAAATCACCT
AGAGTATGTGTTTCTTGAAAACAATTAGACATTACCAGTGATTATTGCTTTAGATTTAAAGTCAA
ATGAGAAAGATGAGTTATTGAAAGTGTTGAAGGAACATAAAAGAGCTATAGCCTGGAAGATTTCT
AACATTAGAGGGATCAATCCTTCTTTTAGCATATATAAAATTTTAATGGAGGCTGAATACAAACC
ATGTGTACAATCTCAAAAACGACTAAATCCTAACATAAATGAAGTCGTTAAGGCTGAGGTAATTA
AACTTCTAGATGCTGGAGTTATTCATTCTATTTCTGATAGTACTTGGGTGAGTTCTGTGCAGGTT
GTTCCTGAGAAGGGATACATGACTGTTGTAGCCAAAAAGCAGAACGAGTTGATTCCAACGAGAAT
AGTCACAAGATGGAGAGTTTGTATTGACTATAGGAAGTTGAATGATGCCACGAGAAAAGATCATT
TTCCTCTACCATTCATAGATCAAATGTTGGAAAGATT
Found at i:85396824 original size:5 final size:5
Alignment explanation
Indices: 85396814--85396893 Score: 56
Period size: 5 Copynumber: 15.0 Consensus size: 5
85396804 CCCTTTCCAT
* * *
85396814 TTTTA TTTTA TTTTA TTTTA TCCTTA TTATTA TTTTTC TTTCTT TCTTTA
1 TTTTA TTTTA TTTTA TTTTA T-TTTA TT-TTA -TTTTA TTT-TA T-TTTA
85396864 TTTTTA TTTTA TTATTA -TTT- TTTTA TTTTA
1 -TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA
85396894 AAGTATTATT
Statistics
Matches: 61, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
4 5 0.08
5 32 0.52
6 19 0.31
7 5 0.08
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:85396889 original size:11 final size:11
Alignment explanation
Indices: 85396814--85396890 Score: 52
Period size: 11 Copynumber: 6.9 Consensus size: 11
85396804 CCCTTTCCAT
85396814 TTTTATT-TTA
1 TTTTATTATTA
85396824 TTTTATT-TTA
1 TTTTATTATTA
*
85396834 TCCTTATTATTA
1 T-TTTATTATTA
* *
85396846 TTTT-TCTTTCTT
1 TTTTAT-TAT-TA
*
85396858 TCTTTATTTTTA
1 T-TTTATTATTA
85396870 TTTTATTATTA
1 TTTTATTATTA
*
85396881 TTTTTTTATT
1 TTTTATTATT
85396891 TTAAAGTATT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
10 12 0.22
11 27 0.50
12 8 0.15
13 6 0.11
14 1 0.02
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:85396892 original size:6 final size:6
Alignment explanation
Indices: 85396812--85396885 Score: 50
Period size: 6 Copynumber: 13.0 Consensus size: 6
85396802 TTCCCTTTCC
** * *
85396812 ATTTTT A-TTTT A-TTTT A-TTTT ATCCTT ATTATT ATTTTT CTTTCTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTT-TT
* *
85396858 -TCTTT ATTTTT A-TTTT ATTATT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
85396886 TTATTTTAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
5 22 0.41
6 30 0.56
7 2 0.04
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:85396902 original size:21 final size:19
Alignment explanation
Indices: 85396864--85396906 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
85396854 TCTTTCTTTA
*
85396864 TTTTTATTTTATTATTATT
1 TTTTTATTTTAGTATTATT
85396883 TTTTTATTTTAAAGTATTATT
1 TTTTTATTTT--AGTATTATT
85396904 TTT
1 TTT
85396907 ACTAATTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
21 11 0.52
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTATTTTAGTATTATT
Found at i:85396905 original size:19 final size:20
Alignment explanation
Indices: 85396861--85396907 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
85396851 CTTTCTTTCT
* *
85396861 TTATTTTTATTTTATTATTA
1 TTATTTTTATTTTATAAGTA
85396881 TT-TTTTTATTTTA-AAGTA
1 TTATTTTTATTTTATAAGTA
85396899 TTATTTTTA
1 TTATTTTTA
85396908 CTAATTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.21
19 17 0.71
20 2 0.08
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TTATTTTTATTTTATAAGTA
Found at i:85397145 original size:23 final size:22
Alignment explanation
Indices: 85397083--85397146 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
85397073 TTCACTATTG
*
85397083 TATTATTTAGGTTTATATTTGAT
1 TATTATTTA-GTTTATTTTTGAT
* * *
85397106 TATCACTTAGTTCTATTTTTGGT
1 TATTATTTAGTT-TATTTTTGAT
85397129 TATTATTATAGTTTATTT
1 TATTATT-TAGTTTATTT
85397147 GATATTTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 3 0.09
23 25 0.76
24 5 0.15
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (22 bp):
TATTATTTAGTTTATTTTTGAT
Found at i:85399436 original size:45 final size:45
Alignment explanation
Indices: 85399346--85399476 Score: 176
Period size: 45 Copynumber: 3.0 Consensus size: 45
85399336 CCGAATTTAT
* ** *
85399346 TCACCGGCATT-TTGCCTGCTAGGCT-TGAGGCCCGAAAAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
85399389 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
85399434 TCACCAGCATTATAGCCTGCTAGGCTCCAAGGCCCGAATAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATA
85399477 CTGTACAACA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
43 10 0.13
44 13 0.17
45 53 0.70
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:85403202 original size:45 final size:45
Alignment explanation
Indices: 85403112--85403242 Score: 176
Period size: 45 Copynumber: 3.0 Consensus size: 45
85403102 CCGAATTTAT
* ** *
85403112 TCACCGGCATT-TTGCCTGCTAGGCT-TGAGGCCCGAAAAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
85403155 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATGTC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
* *
85403200 TCACCAGCATTATAGCCTGCTAGGCTCCAAGGCCCGAATAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATA
85403243 CTGTACAACA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
43 10 0.13
44 13 0.17
45 53 0.70
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:85404233 original size:5 final size:5
Alignment explanation
Indices: 85404225--85404252 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
85404215 TTGTTTTCTT
85404225 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
85404253 CTCTTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:85412688 original size:57 final size:58
Alignment explanation
Indices: 85412608--85412726 Score: 190
Period size: 57 Copynumber: 2.1 Consensus size: 58
85412598 TGGTTCATAT
85412608 TAAAATAATGTTAATTTTATAGGAATTTAAATTTTTATGGAAAA-ACAAAAATTGATGA
1 TAAAATAATGTTAATTTTATAGGAATTTAAATTTTTATGGAAAACA-AAAAATTGATGA
* *
85412666 TAAAATAATTTTCA-TTTATAGGAATTTAAATTTTTATGGAAAACAAAAAATTGATGA
1 TAAAATAATGTTAATTTTATAGGAATTTAAATTTTTATGGAAAACAAAAAATTGATGA
85412723 -AAAA
1 TAAAA
85412727 GTAAAATCAC
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
56 4 0.07
57 41 0.71
58 13 0.22
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.37
Consensus pattern (58 bp):
TAAAATAATGTTAATTTTATAGGAATTTAAATTTTTATGGAAAACAAAAAATTGATGA
Found at i:85412849 original size:17 final size:17
Alignment explanation
Indices: 85412823--85412865 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
85412813 AAAAATTATC
*
85412823 AAATAGAATTGATTTCAA
1 AAATA-AATTAATTTCAA
* *
85412841 AATTAAATTAATTTGAA
1 AAATAAATTAATTTCAA
85412858 AAATAAAT
1 AAATAAAT
85412866 AAAAATATGT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (17 bp):
AAATAAATTAATTTCAA
Found at i:85414201 original size:13 final size:13
Alignment explanation
Indices: 85414183--85414209 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
85414173 GCTCGGTAGG
85414183 GACACGCCCGTGT
1 GACACGCCCGTGT
85414196 GACACGCCCGTGT
1 GACACGCCCGTGT
85414209 G
1 G
85414210 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:85416437 original size:34 final size:34
Alignment explanation
Indices: 85416399--85416474 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
85416389 TTAGCCCCTC
* *
85416399 TTTCAGTAGCAGTAGTAGTTTGGGCCTGAGCCCA
1 TTTCAGTAACAGTAGTAGTCTGGGCCTGAGCCCA
* * * *
85416433 TTTCAGTAACAGTGGTAGTCTGTGCCTTAGCCTA
1 TTTCAGTAACAGTAGTAGTCTGGGCCTGAGCCCA
85416467 TTTCAGTA
1 TTTCAGTA
85416475 CAATATGCAC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (34 bp):
TTTCAGTAACAGTAGTAGTCTGGGCCTGAGCCCA
Found at i:85417323 original size:17 final size:18
Alignment explanation
Indices: 85417283--85417323 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
85417273 CTATGGTCAA
*
85417283 CCAAAACCTCTCATTAGT
1 CCAAAACCTCTCATTAAT
*
85417301 CTAAAACC-CTCATTAAT
1 CCAAAACCTCTCATTAAT
85417318 CCAAAA
1 CCAAAA
85417324 ACATAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.41, C:0.32, G:0.02, T:0.24
Consensus pattern (18 bp):
CCAAAACCTCTCATTAAT
Found at i:85423662 original size:21 final size:20
Alignment explanation
Indices: 85423628--85423666 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
85423618 GAGTATTTTT
85423628 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
* *
85423649 ATGTTTGATTATAGTTAT
1 ATGTTTAATGATAGTTAT
85423667 ACAAGTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:85424287 original size:48 final size:48
Alignment explanation
Indices: 85424214--85424355 Score: 212
Period size: 48 Copynumber: 3.0 Consensus size: 48
85424204 GTCATTAGGG
* *
85424214 GATACATTAAGTTGGCTTCGGGCCATGACATTGGCACTTCGGGTGCAA
1 GATACATTAATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCAA
* **
85424262 GTTACATTAATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGTGA
1 GATACATTAATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCAA
* * *
85424310 GATACATTGATTTGGCTTCGGGCCATGATATTGGTACTTAGGGTGC
1 GATACATTAATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGC
85424356 GAGACTCCCA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (48 bp):
GATACATTAATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCAA
Found at i:85426039 original size:43 final size:43
Alignment explanation
Indices: 85425991--85426146 Score: 179
Period size: 43 Copynumber: 3.6 Consensus size: 43
85425981 TATTGAGATG
* * *
85425991 TGATTACATGTAAGACCATGTCTGGGACATTTGAATTGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
* * *
85426034 TGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTATAA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
* * * * *
85426077 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TA
* *
85426120 TGATAACATGTAAGACCATATCTGGGA
1 TGATTACATGTAAGACCATGTCTGGGA
85426147 TATGGCACTG
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 2 0.02
43 93 0.98
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTA
Found at i:85441302 original size:47 final size:47
Alignment explanation
Indices: 85441229--85441322 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
85441219 ACAACCAAAG
85441229 ACGTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATA
1 ACGTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATA
*
85441276 ACGTATGGCATCATCAGAAACGCCATTGATTTTAAATGTATCGCATA
1 ACGTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATA
85441323 GTTCCAAGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (47 bp):
ACGTATGGCATCATCAGAAACACCATTGATTTTAAATGTATCGCATA
Found at i:85447270 original size:21 final size:20
Alignment explanation
Indices: 85447246--85447284 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
85447236 GAGTATTTTT
85447246 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
85447267 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
85447285 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:85447902 original size:48 final size:48
Alignment explanation
Indices: 85447829--85447971 Score: 205
Period size: 48 Copynumber: 3.0 Consensus size: 48
85447819 CATTAGGGGA
* * * **
85447829 TACATTGAGTTGGCTTCGGGCCATGATATTGGCACTTTGGGTGTGAGT
1 TACATTGAGTTGGCTTCAGGTCATGATATTGGCACTTAGGGTGCAAGT
** *
85447877 TACATTGAGTTGGCTTTTGGTCATGATATTGGCACTTCGGGTGCAAGT
1 TACATTGAGTTGGCTTCAGGTCATGATATTGGCACTTAGGGTGCAAGT
*
85447925 TACATTGATTTGGCTTCAGGTCATGATATTGGCACTTAGGGTGCAAG
1 TACATTGAGTTGGCTTCAGGTCATGATATTGGCACTTAGGGTGCAAG
85447972 ACTCTCAAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.36
Consensus pattern (48 bp):
TACATTGAGTTGGCTTCAGGTCATGATATTGGCACTTAGGGTGCAAGT
Found at i:85460801 original size:35 final size:35
Alignment explanation
Indices: 85460762--85460832 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
85460752 AAAATGAATG
85460762 TTGTAAAAATCTTAGTTTTGAGGTTTTTGAATCTT
1 TTGTAAAAATCTTAGTTTTGAGGTTTTTGAATCTT
* *
85460797 TTGTAAAAATCTTGGTTTTGAGGTTTTTGTATCTT
1 TTGTAAAAATCTTAGTTTTGAGGTTTTTGAATCTT
85460832 T
1 T
85460833 CATAGAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.23, C:0.06, G:0.18, T:0.54
Consensus pattern (35 bp):
TTGTAAAAATCTTAGTTTTGAGGTTTTTGAATCTT
Found at i:85467050 original size:30 final size:30
Alignment explanation
Indices: 85467015--85467149 Score: 166
Period size: 30 Copynumber: 4.5 Consensus size: 30
85467005 ACACCCATGA
*
85467015 GCTGACCAACACCAGGATTGCTGATGTGTT
1 GCTGACCAACACCAGGATAGCTGATGTGTT
* * *
85467045 GCTGACCAACTCCGGGATAGCTAAT-TAGTT
1 GCTGACCAACACCAGGATAGCTGATGT-GTT
* *
85467075 GCTGACCAACACCAGGATTGTTGATGTGTT
1 GCTGACCAACACCAGGATAGCTGATGTGTT
* * *
85467105 GCTGACCAACTCCGGGATAGCTGATGAGTT
1 GCTGACCAACACCAGGATAGCTGATGTGTT
85467135 GCTGACCAAC-CCAGG
1 GCTGACCAACACCAGG
85467150 GTTATTGAGG
Statistics
Matches: 88, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
29 5 0.06
30 82 0.93
31 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (30 bp):
GCTGACCAACACCAGGATAGCTGATGTGTT
Found at i:85467086 original size:60 final size:60
Alignment explanation
Indices: 85467015--85467149 Score: 236
Period size: 60 Copynumber: 2.3 Consensus size: 60
85467005 ACACCCATGA
*
85467015 GCTGACCAACACCAGGATTGCTGATGTGTTGCTGACCAACTCCGGGATAGCTAATTAGTT
1 GCTGACCAACACCAGGATTGCTGATGTGTTGCTGACCAACTCCGGGATAGCTAATGAGTT
* *
85467075 GCTGACCAACACCAGGATTGTTGATGTGTTGCTGACCAACTCCGGGATAGCTGATGAGTT
1 GCTGACCAACACCAGGATTGCTGATGTGTTGCTGACCAACTCCGGGATAGCTAATGAGTT
85467135 GCTGACCAAC-CCAGG
1 GCTGACCAACACCAGG
85467150 GTTATTGAGG
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
59 5 0.07
60 67 0.93
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (60 bp):
GCTGACCAACACCAGGATTGCTGATGTGTTGCTGACCAACTCCGGGATAGCTAATGAGTT
Found at i:85467988 original size:11 final size:12
Alignment explanation
Indices: 85467966--85467997 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
85467956 AAAGTATAAA
85467966 TCAATATG-AAT
1 TCAATATGTAAT
85467977 TCAA-ATGTAAT
1 TCAATATGTAAT
85467988 TCAATATGTA
1 TCAATATGTA
85467998 TTGGAGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.16
11 11 0.58
12 5 0.26
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (12 bp):
TCAATATGTAAT
Found at i:85475105 original size:41 final size:41
Alignment explanation
Indices: 85475060--85475192 Score: 142
Period size: 41 Copynumber: 3.2 Consensus size: 41
85475050 ACAAAGGCTA
* * *
85475060 CTAGGCTTAAGGCCTAATTTCA-TACACTGACACGAAGTCTG
1 CTAGGCTCAAGGCCTAA-TTCATTACACCGACACGAAGCCTG
* *
85475101 CTAGGCTCAAAGCCTAATTCATTACACCGACATGAAGCCTG
1 CTAGGCTCAAGGCCTAATTCATTACACCGACACGAAGCCTG
* * * * **
85475142 CTTGGCTCAAGGCCTAAATCGTTACACCAACATAAAGCCTG
1 CTAGGCTCAAGGCCTAATTCATTACACCGACACGAAGCCTG
*
85475183 CTAGGTTCAA
1 CTAGGCTCAA
85475193 AACCTGATAC
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 4 0.05
41 74 0.95
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (41 bp):
CTAGGCTCAAGGCCTAATTCATTACACCGACACGAAGCCTG
Found at i:85476495 original size:21 final size:20
Alignment explanation
Indices: 85476471--85476522 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
85476461 CCATAACATG
*
85476471 AAATTTGGATTAAATTGAGTA
1 AAATTTGGATTAAAAT-AGTA
* * *
85476492 AAATATGAATTAAAATAGTT
1 AAATTTGGATTAAAATAGTA
85476512 AAATTT-GATTA
1 AAATTTGGATTA
85476523 TATAGATCAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 4 0.16
20 8 0.32
21 13 0.52
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.38
Consensus pattern (20 bp):
AAATTTGGATTAAAATAGTA
Found at i:85483173 original size:10 final size:10
Alignment explanation
Indices: 85483158--85483187 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
85483148 CTCTATTCTC
85483158 TTGTTATTTA
1 TTGTTATTTA
85483168 TTGTTATTTA
1 TTGTTATTTA
85483178 TTGTTTATTT
1 TTG-TTATTT
85483188 GAATGTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 13 0.68
11 6 0.32
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (10 bp):
TTGTTATTTA
Found at i:85486086 original size:29 final size:29
Alignment explanation
Indices: 85486058--85486159 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
85486048 CCTCCGAGCT
** * * *
85486058 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
85486087 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
85486116 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
85486145 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
85486160 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:85493948 original size:29 final size:29
Alignment explanation
Indices: 85493920--85494021 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
85493910 CCTCCGAGCT
** * * *
85493920 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
85493949 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
85493978 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
85494007 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
85494022 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:85495731 original size:16 final size:14
Alignment explanation
Indices: 85495704--85495738 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
85495694 TTAAACTTAC
85495704 TTTTTTTTATTTTA
1 TTTTTTTTATTTTA
85495718 TTTTTCTTTAATTTTA
1 TTTTT-TTT-ATTTTA
85495734 TTTTT
1 TTTTT
85495739 ACTACATCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 3 0.16
16 11 0.58
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTTATTTTA
Found at i:85497716 original size:25 final size:25
Alignment explanation
Indices: 85497682--85497733 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
85497672 TCCGCACACT
85497682 TAGTGCCATCTCAAATAACCGAGAC
1 TAGTGCCATCTCAAATAACCGAGAC
*
85497707 TAGTGCCATCTCAAATAACTGAGAC
1 TAGTGCCATCTCAAATAACCGAGAC
85497732 TA
1 TA
85497734 AGTCAGTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (25 bp):
TAGTGCCATCTCAAATAACCGAGAC
Found at i:85497812 original size:30 final size:29
Alignment explanation
Indices: 85497766--85497832 Score: 125
Period size: 30 Copynumber: 2.3 Consensus size: 29
85497756 CCTCAAGTAA
85497766 CCAAAGCTAGTTAAATCGCACACTTAGTG
1 CCAAAGCTAGTTAAATCGCACACTTAGTG
85497795 CCAAAGCTAGTTTAAATCGCACACTTAGTG
1 CCAAAGCTAG-TTAAATCGCACACTTAGTG
85497825 CCAAAGCT
1 CCAAAGCT
85497833 TCTGATTCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 10 0.27
30 27 0.73
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.24
Consensus pattern (29 bp):
CCAAAGCTAGTTAAATCGCACACTTAGTG
Found at i:85504257 original size:23 final size:23
Alignment explanation
Indices: 85504229--85504288 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
85504219 ACATGATAAA
*
85504229 TAAAAATAAAAATAAAAACAAAAG
1 TAAAAATAAAAAGAAAAAC-AAAG
*
85504253 -AAAAAGAAAAAGAAAAACAAAG
1 TAAAAATAAAAAGAAAAACAAAG
*
85504275 TGAAAATAAAAAGA
1 TAAAAATAAAAAGA
85504289 CTCAAAAGTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 4 0.13
23 27 0.87
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.08
Consensus pattern (23 bp):
TAAAAATAAAAAGAAAAACAAAG
Found at i:85505800 original size:30 final size:30
Alignment explanation
Indices: 85505745--85505875 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
85505735 ATAGTGAATC
*
85505745 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
85505774 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
85505804 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
85505832 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
85505862 CGCACACTTAGTGC
1 CGCACACTTAGTGC
85505876 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:85505855 original size:58 final size:58
Alignment explanation
Indices: 85505744--85505875 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
85505734 TATAGTGAAT
* * * * *
85505744 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
85505803 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
85505861 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
85505876 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:85513755 original size:27 final size:29
Alignment explanation
Indices: 85513670--85513796 Score: 136
Period size: 29 Copynumber: 4.5 Consensus size: 29
85513660 ATAGTGAATC
* *
85513670 CGCACACTTAGTGCTATATATTTC-AGCT
1 CGCACACTTAGTGCTATATAATTCAAACT
****
85513698 CGCACACTTAGTGCTATATAATTTTCGCT
1 CGCACACTTAGTGCTATATAATTCAAACT
85513727 CGCACACTTAGTGCTATA-AA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * *
85513754 CGCACACTTAGTGCTGTACAATTTTAAAC-
1 CGCACACTTAGTGCTATATAA-TTCAAACT
85513783 CGCACACTTAGTGC
1 CGCACACTTAGTGC
85513797 CATCTTGTCA
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
27 20 0.23
28 26 0.30
29 35 0.41
30 5 0.06
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:85513777 original size:56 final size:57
Alignment explanation
Indices: 85513669--85513796 Score: 163
Period size: 56 Copynumber: 2.3 Consensus size: 57
85513659 AATAGTGAAT
* * * **
85513669 CCGCACACTTAGTGCTATATATTTCAGCTCGCACACTTAGTGCTATATAATTTT-CG
1 CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAA
*
85513725 CTCGCACACTTAGTGCTATA-A-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAA
1 C-CGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAA
85513782 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
85513797 CATCTTGTCA
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
55 2 0.03
56 42 0.67
57 19 0.30
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAA
Found at i:85515208 original size:4 final size:4
Alignment explanation
Indices: 85515199--85515226 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
85515189 GCACAAAAGT
85515199 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA
85515227 GAAAGAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:85515852 original size:12 final size:12
Alignment explanation
Indices: 85515835--85515861 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
85515825 ATGTGTCGAC
85515835 TACTATTACTGT
1 TACTATTACTGT
85515847 TACTATTACTGT
1 TACTATTACTGT
85515859 TAC
1 TAC
85515862 CGATTCGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (12 bp):
TACTATTACTGT
Found at i:85515900 original size:51 final size:50
Alignment explanation
Indices: 85515818--85515959 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 50
85515808 TTACTGATCA
* * *
85515818 AGCAC-TTATGTGTCGACTACTATTACTGTTACTATTACTGTTACCGATTC
1 AGCACTTTGTGTGTTGAATACTATTACTGTTACTATTACTG-TACCGATTC
*
85515868 -GACACTTTGTGTGTTGAATACTATTACCGTTACTATTA---TA--GATTC
1 AG-CACTTTGTGTGTTGAATACTATTACTGTTACTATTACTGTACCGATTC
* * *
85515913 AGTACTTTGTGTGTTGAATACTGTTACTGTTACTGTTACTGCTACCG
1 AGCACTTTGTGTGTTGAATACTATTACTGTTACTATTACTG-TACCG
85515960 TTACTGATTA
Statistics
Matches: 75, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
45 37 0.49
46 1 0.01
47 2 0.03
49 3 0.04
50 3 0.04
51 29 0.39
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (50 bp):
AGCACTTTGTGTGTTGAATACTATTACTGTTACTATTACTGTACCGATTC
Found at i:85515942 original size:6 final size:6
Alignment explanation
Indices: 85515931--85515971 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
85515921 GTGTGTTGAA
* *
85515931 TACTGT TACTGT TACTGT TACTGC TACCGT TACTGAT TACT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACT
85515972 ATTTAGGTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.44
Consensus pattern (6 bp):
TACTGT
Found at i:85522616 original size:48 final size:47
Alignment explanation
Indices: 85522508--85522676 Score: 216
Period size: 48 Copynumber: 3.6 Consensus size: 47
85522498 TGATATGTGT
* * * *
85522508 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCAC-A-TTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT-AAA
* * *
85522554 GCCAGTGTAAGACATGTCTGGGATATGCATCTGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATA-AA
*
85522602 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATATAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATA-AA
*
85522650 GCTAGTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
85522677 GCGTCAGCTT
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
46 32 0.30
47 2 0.02
48 72 0.68
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAA
Found at i:85522784 original size:49 final size:49
Alignment explanation
Indices: 85522731--85522824 Score: 125
Period size: 49 Copynumber: 1.9 Consensus size: 49
85522721 ACATTGACAC
* *
85522731 CGATAGATGAGAGCCAGTGTAAAACCTATCTGGGACACAGCATCGGCCT
1 CGATAGATGAAAGCCAGTGTAAAACCTACCTGGGACACAGCATCGGCCT
* * * * *
85522780 CGATATATGAAAGTCAGTGTAAGACCTGCCTGGGACATAGCATCG
1 CGATAGATGAAAGCCAGTGTAAAACCTACCTGGGACACAGCATCG
85522825 ACTTTGATGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (49 bp):
CGATAGATGAAAGCCAGTGTAAAACCTACCTGGGACACAGCATCGGCCT
Found at i:85525607 original size:46 final size:46
Alignment explanation
Indices: 85525557--85525681 Score: 214
Period size: 46 Copynumber: 2.7 Consensus size: 46
85525547 GGTTGAGCAT
*
85525557 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
85525603 CCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
85525649 CCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
85525682 GGGGCGCGTT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:85525943 original size:19 final size:20
Alignment explanation
Indices: 85525906--85525943 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
85525896 ATAAGGTGGT
85525906 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
85525926 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
85525944 TGATGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:85532903 original size:40 final size:39
Alignment explanation
Indices: 85532743--85532905 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
85532733 TGTGTATGAA
*
85532743 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
*
85532782 TGTGCGAGTTGTGATGTCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
85532821 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
85532860 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
85532900 TGTGCG
1 TGTGCG
85532906 GGTTACCATA
Statistics
Matches: 112, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 95 0.85
40 17 0.15
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:85532921 original size:40 final size:40
Alignment explanation
Indices: 85532760--85532941 Score: 154
Period size: 39 Copynumber: 4.6 Consensus size: 40
85532750 ATTGTGATAT
* *** **
85532760 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* * * ** *
85532799 CCGGGCTAAG-CCCGAAGGCAATGGTGCGAGCTATGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *** *
85532838 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
85532877 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
* *
85532917 CCGGGCTATGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
85532942 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 80 0.64
40 45 0.36
ACGTcount: A:0.21, C:0.23, G:0.34, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCATAA
Found at i:85544112 original size:46 final size:46
Alignment explanation
Indices: 85543988--85544151 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 46
85543978 GCCATTTCCA
* * * *
85543988 TGTCCCAGATATGGTCTTACACTA--ACACATCTCGTAGCCGATGCA
1 TGTCCCAGACATGGTCTTACACTAGCACTCGTCTCG-AGCCGATGCT
* *
85544033 TGTCCCAGACAT-GTCTTACACTGGCTTA-T-GTCTCGAGGCCGAAGCT
1 TGTCCCAGACATGGTCTTACACTAGC--ACTCGTCTCGA-GCCGATGCT
*
85544079 TGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAATGCCGATG-T
1 TGTCCCAGACATGGTCTTACACTAGCACTCGTCTCGA-GCCGATGCT
*
85544124 CGTGCCTCAGACATGGTCTTACACTAGC
1 TGT-CC-CAGACATGGTCTTACACTAGC
85544152 TCTCAAAATG
Statistics
Matches: 98, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
44 11 0.11
45 16 0.16
46 50 0.51
47 7 0.07
48 14 0.14
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
TGTCCCAGACATGGTCTTACACTAGCACTCGTCTCGAGCCGATGCT
Found at i:85551641 original size:44 final size:45
Alignment explanation
Indices: 85551575--85551686 Score: 120
Period size: 46 Copynumber: 2.5 Consensus size: 45
85551565 TCATTTTCAT
* *
85551575 GTCCCAAACATGGTCTTACACTGAC-ACATCTCGTA-GCCGATGCAG
1 GTCCCAGACAT-GTCTTACACTGACTACATCTCG-AGGCCGAAGCAG
* * **
85551620 GTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGAAGCTT
1 GTCCCAGACATGTCTTACACTGAC-TACATCTCGAGGCCGAAGCAG
*
85551666 GTCCCAGACAAGTCTTACACT
1 GTCCCAGACATGTCTTACACT
85551687 AGCACTCGTC
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
44 12 0.21
45 11 0.19
46 34 0.60
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (45 bp):
GTCCCAGACATGTCTTACACTGACTACATCTCGAGGCCGAAGCAG
Found at i:85552553 original size:49 final size:49
Alignment explanation
Indices: 85552499--85552593 Score: 181
Period size: 49 Copynumber: 1.9 Consensus size: 49
85552489 TTAAAAATGT
85552499 AAAAATCATCAAGAAAAACTATCAAAATCACTTACTTGTAAGGATTTTA
1 AAAAATCATCAAGAAAAACTATCAAAATCACTTACTTGTAAGGATTTTA
*
85552548 AAAAATCATCAAGAAAAACTATCAAAATCACTTACTTGTGAGGATT
1 AAAAATCATCAAGAAAAACTATCAAAATCACTTACTTGTAAGGATT
85552594 ACAAGTTGCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.48, C:0.15, G:0.09, T:0.27
Consensus pattern (49 bp):
AAAAATCATCAAGAAAAACTATCAAAATCACTTACTTGTAAGGATTTTA
Found at i:85554407 original size:24 final size:24
Alignment explanation
Indices: 85554380--85554436 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
85554370 GATTACTAAT
85554380 TTCAACTCGTAAGAGCTTACCGAC
1 TTCAACTCGTAAGAGCTTACCGAC
* * * *
85554404 TTCAGCTCGTGAGAGTTTACCGAT
1 TTCAACTCGTAAGAGCTTACCGAC
85554428 TCTCAACTC
1 T-TCAACTC
85554437 ATATGATCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (24 bp):
TTCAACTCGTAAGAGCTTACCGAC
Found at i:85555635 original size:15 final size:16
Alignment explanation
Indices: 85555615--85555644 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85555605 TGATGCTTTG
85555615 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
85555630 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
85555645 ATCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:85559908 original size:13 final size:14
Alignment explanation
Indices: 85559887--85559919 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
85559877 TTTATTAATG
85559887 AAATATATTAAA-AT
1 AAAT-TATTAAATAT
85559901 AAATTATTAAATAT
1 AAATTATTAAATAT
85559915 AAATT
1 AAATT
85559920 TATATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTATTAAATAT
Found at i:85572937 original size:19 final size:21
Alignment explanation
Indices: 85572896--85572944 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 21
85572886 AATCATTTCT
85572896 TTATTTATTATTTTGAATTTTTA
1 TTATTTATTA-TTTGAA-TTTTA
85572919 TTATTTATTA-TTGAA-TTTA
1 TTATTTATTATTTGAATTTTA
85572938 TTATTTA
1 TTATTTA
85572945 ATTTTTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 11 0.42
21 5 0.19
23 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
TTATTTATTATTTGAATTTTA
Found at i:85572938 original size:12 final size:12
Alignment explanation
Indices: 85572903--85572948 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
85572893 TCTTTATTTA
85572903 TTATT-TTGAAT
1 TTATTATTGAAT
85572914 TT-TTATT--AT
1 TTATTATTGAAT
85572923 TTATTATTGAAT
1 TTATTATTGAAT
*
85572935 TTATTATTTAAT
1 TTATTATTGAAT
85572947 TT
1 TT
85572949 TTTCTTCTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 4 0.13
10 7 0.23
11 4 0.13
12 15 0.50
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (12 bp):
TTATTATTGAAT
Found at i:85573876 original size:40 final size:40
Alignment explanation
Indices: 85573830--85573907 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
85573820 TGTGAATATA
85573830 TTGTTTCCAATGTCATTCAACCTTCTATTGTTCATGGATG
1 TTGTTTCCAATGTCATTCAACCTTCTATTGTTCATGGATG
85573870 TTGTTTCCAATGTCATTCAACCTTCTATTGTTCATGGA
1 TTGTTTCCAATGTCATTCAACCTTCTATTGTTCATGGA
85573908 CTTGTCAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.45
Consensus pattern (40 bp):
TTGTTTCCAATGTCATTCAACCTTCTATTGTTCATGGATG
Found at i:85574359 original size:30 final size:30
Alignment explanation
Indices: 85574325--85574385 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
85574315 AAGTTTATAG
*
85574325 TAATAGTGCGAACTATGATAATAGTAATAA
1 TAATAGTGAGAACTATGATAATAGTAATAA
*
85574355 TAATAGTGAGAACTATGATAATAGTGATAA
1 TAATAGTGAGAACTATGATAATAGTAATAA
85574385 T
1 T
85574386 GAACTTTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.46, C:0.05, G:0.18, T:0.31
Consensus pattern (30 bp):
TAATAGTGAGAACTATGATAATAGTAATAA
Found at i:85574381 original size:18 final size:18
Alignment explanation
Indices: 85574325--85574381 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
85574315 AAGTTTATAG
*
85574325 TAATAGTGCGAACTATGA
1 TAATAGTGAGAACTATGA
85574343 TAATAGT---AA-TA--A
1 TAATAGTGAGAACTATGA
85574355 TAATAGTGAGAACTATGA
1 TAATAGTGAGAACTATGA
85574373 TAATAGTGA
1 TAATAGTGA
85574382 TAATGAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
12 8 0.24
14 2 0.06
15 4 0.12
16 2 0.06
18 17 0.52
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (18 bp):
TAATAGTGAGAACTATGA
Found at i:85576861 original size:29 final size:30
Alignment explanation
Indices: 85576806--85576863 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
85576796 TACACGGGCA
** *
85576806 GACACACGGGCTTGTGTCTTGGCCATGTGT
1 GACACACGGGCTTGTCCCATGGCCATGTGT
*
85576836 GACACAC-GGCTTGTCCCATGGGCATGTG
1 GACACACGGGCTTGTCCCATGGCCATGTG
85576864 GTCCGGCCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.16, C:0.26, G:0.33, T:0.26
Consensus pattern (30 bp):
GACACACGGGCTTGTCCCATGGCCATGTGT
Found at i:85582580 original size:65 final size:65
Alignment explanation
Indices: 85582476--85582669 Score: 289
Period size: 65 Copynumber: 3.0 Consensus size: 65
85582466 GAATCTCGAG
* *** * *
85582476 TGTTCATTATTTTCCAATCTTGTTCTTCACCAGTGCTTGAAGTATTTGGCACTAGTCTATAGCAT
1 TGTTCATTATTTTTCTGCCTTGTTCTTCACTAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCAT
* *
85582541 TGTTCATTTTTTTTCTGCCTTGTTCTTCACTAATGCTTGAAGTAGTTGGCACTAGTCTATAGCAT
1 TGTTCATTATTTTTCTGCCTTGTTCTTCACTAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCAT
* * *
85582606 TGTTTATTATTTTTCTGCCTTGTTCTTCACTGGTGCTTGAAGTAGTTGGCACTAATCTATAGCA
1 TGTTCATTATTTTTCTGCCTTGTTCTTCACTAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCA
85582670 CTGCTTGTTT
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 116 1.00
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.45
Consensus pattern (65 bp):
TGTTCATTATTTTTCTGCCTTGTTCTTCACTAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCAT
Found at i:85587299 original size:39 final size:40
Alignment explanation
Indices: 85587247--85587334 Score: 117
Period size: 39 Copynumber: 2.2 Consensus size: 40
85587237 AAAATTTATA
* * *
85587247 TTTAATACAATAAAATATTTATTATATCTAT-TTATGT-TT
1 TTTAATATAATAAAACATTTATTATATCTATGGTA-GTATT
*
85587286 TTTAATATAATAAAACATTTATTATATTTATGGTAGTATT
1 TTTAATATAATAAAACATTTATTATATCTATGGTAGTATT
85587326 TTTAATATA
1 TTTAATATA
85587335 CATACTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 30 0.70
40 13 0.30
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (40 bp):
TTTAATATAATAAAACATTTATTATATCTATGGTAGTATT
Found at i:85587451 original size:12 final size:11
Alignment explanation
Indices: 85587430--85587459 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
85587420 AAAATTAATT
85587430 TTAAATAAAAA
1 TTAAATAAAAA
85587441 TTAATATAAAAA
1 TTAA-ATAAAAA
85587453 TTAAATA
1 TTAAATA
85587460 TGGGCGAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TTAAATAAAAA
Found at i:85588715 original size:11 final size:11
Alignment explanation
Indices: 85588699--85588732 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
85588689 CGCATCTAGT
85588699 TTTGTTCTTGA
1 TTTGTTCTTGA
85588710 TTTGTTCTTGA
1 TTTGTTCTTGA
*
85588721 TTTATTCTTGA
1 TTTGTTCTTGA
85588732 T
1 T
85588733 GATTTGACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.12, C:0.09, G:0.15, T:0.65
Consensus pattern (11 bp):
TTTGTTCTTGA
Found at i:85594713 original size:7 final size:6
Alignment explanation
Indices: 85594692--85594725 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
85594682 GTAGCTTTCC
85594692 CTTTTT CTTTTT CTTTTCT CTTTTT -TTTTT CTTT
1 CTTTTT CTTTTT CTTTT-T CTTTTT CTTTTT CTTT
85594726 CCCTGCTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:85600877 original size:16 final size:16
Alignment explanation
Indices: 85600852--85600886 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
85600842 CAAAAATATT
85600852 AAATAATTTTTTGAGA
1 AAATAATTTTTTGAGA
*
85600868 AAATAGTTTTTTGAGA
1 AAATAATTTTTTGAGA
85600884 AAA
1 AAA
85600887 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (16 bp):
AAATAATTTTTTGAGA
Found at i:85601091 original size:23 final size:23
Alignment explanation
Indices: 85601063--85601111 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
85601053 TAAAAATAAT
**
85601063 TTTAAATTC-TTGTTATTTATTAA
1 TTTAAATTCATT-TTACATATTAA
85601086 TTTAAATTCATTTTACATATTAA
1 TTTAAATTCATTTTACATATTAA
85601109 TTT
1 TTT
85601112 CTTTTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTAAATTCATTTTACATATTAA
Found at i:85602422 original size:86 final size:86
Alignment explanation
Indices: 85602277--85602448 Score: 344
Period size: 86 Copynumber: 2.0 Consensus size: 86
85602267 AGGTTAAAGT
85602277 GAATGGAAGCTGTGCACCAGGTAGGAAACCGGAAAAGATGAGGTGAGTCCATCGGACTGCTTAAG
1 GAATGGAAGCTGTGCACCAGGTAGGAAACCGGAAAAGATGAGGTGAGTCCATCGGACTGCTTAAG
85602342 TACCAAACTCCCTTCGGATCC
66 TACCAAACTCCCTTCGGATCC
85602363 GAATGGAAGCTGTGCACCAGGTAGGAAACCGGAAAAGATGAGGTGAGTCCATCGGACTGCTTAAG
1 GAATGGAAGCTGTGCACCAGGTAGGAAACCGGAAAAGATGAGGTGAGTCCATCGGACTGCTTAAG
85602428 TACCAAACTCCCTTCGGATCC
66 TACCAAACTCCCTTCGGATCC
85602449 AATCCTAGAC
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (86 bp):
GAATGGAAGCTGTGCACCAGGTAGGAAACCGGAAAAGATGAGGTGAGTCCATCGGACTGCTTAAG
TACCAAACTCCCTTCGGATCC
Found at i:85603189 original size:27 final size:27
Alignment explanation
Indices: 85603141--85603299 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
85603131 GCGAGGCTGC
* *
85603141 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
85603168 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
85603194 CAGATATATGTGGCAGAGCCATCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
85603221 CAGATAATCGTGGCATAACCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
85603248 CAGATATATGGGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
85603275 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
85603300 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 96 0.86
28 5 0.05
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:85603243 original size:54 final size:54
Alignment explanation
Indices: 85603159--85603299 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 54
85603149 GTGACGAAGT
* *
85603159 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGGGGCAGAGC
* * *
85603213 CATCAGATCAGATAATCGTGGCATAACCACCAGAACAGATATATGGGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGGGGCAGAGC
85603267 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
85603300 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 5 0.06
54 73 0.94
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGGGGCAGAGC
Found at i:85604964 original size:26 final size:26
Alignment explanation
Indices: 85604908--85605012 Score: 178
Period size: 26 Copynumber: 4.1 Consensus size: 26
85604898 ATGAAATTCC
*
85604908 TATCAT-GAGCATTTACCTAA-CCAT
1 TATCATGGAACATTTACCTAACCCAT
85604932 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
*
85604958 TATCATGAAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
85604984 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
85605010 TAT
1 TAT
85605013 AAATTTGTAT
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
24 6 0.08
25 13 0.17
26 57 0.75
ACGTcount: A:0.35, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:85610283 original size:27 final size:28
Alignment explanation
Indices: 85610241--85610379 Score: 168
Period size: 27 Copynumber: 5.2 Consensus size: 28
85610231 GTGACGAAGT
85610241 CACCAGATACAG--ATATTGT-GCAGAGC
1 CACCAGA-ACAGATATATTGTGGCAGAGC
85610267 CACCAGAACAGATATA-TGTGGCAGAGC
1 CACCAGAACAGATATATTGTGGCAGAGC
* * *
85610294 CACCAGATCAGATA-ATCGTGGCATAGC
1 CACCAGAACAGATATATTGTGGCAGAGC
85610321 CACCAGAACAGATATA-TG-GGCAGAGC
1 CACCAGAACAGATATATTGTGGCAGAGC
* *
85610347 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATATTGTGGCAGAGC
85610374 CACCAG
1 CACCAG
85610380 GACGCTTCTC
Statistics
Matches: 98, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
25 5 0.05
26 33 0.34
27 59 0.60
28 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (28 bp):
CACCAGAACAGATATATTGTGGCAGAGC
Found at i:85610300 original size:53 final size:53
Alignment explanation
Indices: 85610241--85610379 Score: 228
Period size: 53 Copynumber: 2.6 Consensus size: 53
85610231 GTGACGAAGT
*
85610241 CACCAGATACAGAT-ATTGT-GCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATG-GGCAGAGC
*
85610294 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGGGCAGAGC
85610347 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
85610380 GACGCTTCTC
Statistics
Matches: 81, Mismatches: 3, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
52 5 0.06
53 52 0.64
54 24 0.30
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (53 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGGGCAGAGC
Found at i:85612022 original size:26 final size:26
Alignment explanation
Indices: 85611992--85612099 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
85611982 TGAAATTCCC
85611992 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
85612018 ATCATGGAACATTTACTTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
85612044 ATCATGAAACATTTACTTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
85612070 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
85612096 ATCA
1 ATCA
85612100 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:85613410 original size:20 final size:21
Alignment explanation
Indices: 85613374--85613416 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
85613364 ATATATATAT
* *
85613374 ATATATATTTGTGAATTTTAA
1 ATATATATATGTGAATTTGAA
85613395 ATATATATAT-TGAATTTGAA
1 ATATATATATGTGAATTTGAA
85613415 AT
1 AT
85613417 TCATGTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (21 bp):
ATATATATATGTGAATTTGAA
Found at i:85619488 original size:16 final size:15
Alignment explanation
Indices: 85619462--85619495 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
85619452 TGTGGAATCC
*
85619462 TTTCTAAAAATAGTT
1 TTTCTAAAAATAATT
85619477 TTTCTGAAAAATAATT
1 TTTCT-AAAAATAATT
85619493 TTT
1 TTT
85619496 TAAGGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (15 bp):
TTTCTAAAAATAATT
Found at i:85620915 original size:23 final size:23
Alignment explanation
Indices: 85620889--85620937 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
85620879 GATTTTAAAC
*
85620889 AAATACTCAT-TTTTATATTATGA
1 AAATACTCATATTTTATACTAT-A
*
85620912 AAATATTCATATTTTATACTATA
1 AAATACTCATATTTTATACTATA
85620935 AAA
1 AAA
85620938 CATTTAATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (23 bp):
AAATACTCATATTTTATACTATA
Found at i:85625413 original size:23 final size:23
Alignment explanation
Indices: 85625373--85625416 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
85625363 AGAACTTTTA
*
85625373 ATCGGGAGGATCACAAAGAGCCT
1 ATCGGGAAGATCACAAAGAGCCT
* *
85625396 ATCGGGAAGCTCATAAAGAGC
1 ATCGGGAAGATCACAAAGAGC
85625417 TATGTAACGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.20, G:0.30, T:0.14
Consensus pattern (23 bp):
ATCGGGAAGATCACAAAGAGCCT
Found at i:85626280 original size:28 final size:28
Alignment explanation
Indices: 85626240--85626296 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
85626230 GAAAATTCAC
85626240 TTCACAAAAGTTGTTTATCTATCAACAA
1 TTCACAAAAGTTGTTTATCTATCAACAA
85626268 TTCACAAAAGTTGTTTATCTATCAACAA
1 TTCACAAAAGTTGTTTATCTATCAACAA
85626296 T
1 T
85626297 CTTTCAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.37
Consensus pattern (28 bp):
TTCACAAAAGTTGTTTATCTATCAACAA
Found at i:85633218 original size:23 final size:23
Alignment explanation
Indices: 85633177--85633220 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
85633167 AGAACTTTGA
**
85633177 ATCGGGAAGCTCATGAAGAGCAT
1 ATCGGGAAGCTCACAAAGAGCAT
85633200 ATCGGGAAGCTCACAAAGAGC
1 ATCGGGAAGCTCACAAAGAGC
85633221 CATGTAACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.30, T:0.14
Consensus pattern (23 bp):
ATCGGGAAGCTCACAAAGAGCAT
Found at i:85633334 original size:75 final size:73
Alignment explanation
Indices: 85633194--85633334 Score: 158
Period size: 75 Copynumber: 1.9 Consensus size: 73
85633184 AGCTCATGAA
* * * * * *
85633194 GAGCATATCGGGAAGCTCACAAAGAGCCATGTAACAGGAAGCTCCGGGTAGCCATATATTGGGAA
1 GAGCATATCGGGAAGCTCACAAAGAGCAATGTAACAGGAAGCTCCAGGAAGCAATATAATCGGAA
85633259 TTTCAAGC
66 TTTCAAGC
* * * *
85633267 GAGCACTATTGGGAAGCTCACAAAGAGCTAATTTAACAGGAAGCT-TATGAAGACAATATAATCG
1 GAGCA-TATCGGGAAGCTCACAAAGAGC-AATGTAACAGGAAGCTCCAGGAAG-CAATATAATCG
85633331 GAAT
63 GAAT
85633335 GCTTATAAGA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
73 5 0.09
74 24 0.44
75 26 0.47
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (73 bp):
GAGCATATCGGGAAGCTCACAAAGAGCAATGTAACAGGAAGCTCCAGGAAGCAATATAATCGGAA
TTTCAAGC
Found at i:85641314 original size:21 final size:21
Alignment explanation
Indices: 85641288--85641331 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
85641278 AGGCCTAAAA
85641288 AAACCAAGTGCATA-GAAGGTT
1 AAACCAAGTGCATAGGAA-GTT
85641309 AAACCAAGTGCATAGGAAGTT
1 AAACCAAGTGCATAGGAAGTT
85641330 AA
1 AA
85641332 GTATTTTAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.18
Consensus pattern (21 bp):
AAACCAAGTGCATAGGAAGTT
Found at i:85641523 original size:68 final size:67
Alignment explanation
Indices: 85641381--85641581 Score: 165
Period size: 68 Copynumber: 3.0 Consensus size: 67
85641371 TTAAGAAGCC
* * * * **
85641381 AAGTTCTTGAGAAAG-TTAAATAATTTAAGAAGTACGCA-ACCTTGGAAGGTTGAGAGCTTTGAA
1 AAGTTCTTGA-AAAGATTAAATACTTTAAAAAGTATG-AGA-CTTAGAAGGTCAAGAGCTTTGAA
* **
85641444 ATTTT
63 AATAA
** * *
85641449 GGGTTCTTGAAAAGGTTAAGTACTTTAAAAAGTACATGAG-CTTAGAAGGTCAAGAGCTTTGAAA
1 AAGTTCTTGAAAAGATTAAATACTTTAAAAAGT--ATGAGACTTAGAAGGTCAAGAGCTTTGAAA
85641513 ATAA
64 ATAA
* * * **
85641517 AAGTTCTTGAGATGATTAAATACTTTAAAGAGTATGAGACCTTAGAAGGTCAAGATTTTTGAAAA
1 AAGTTCTTGAAAAGATTAAATACTTTAAAAAGTATGAGA-CTTAGAAGGTCAAGAGCTTTGAAAA
85641582 GGAGGGTGCT
Statistics
Matches: 106, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
66 5 0.05
67 4 0.04
68 94 0.89
69 1 0.01
70 2 0.02
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (67 bp):
AAGTTCTTGAAAAGATTAAATACTTTAAAAAGTATGAGACTTAGAAGGTCAAGAGCTTTGAAAAT
AA
Found at i:85641594 original size:68 final size:67
Alignment explanation
Indices: 85641464--85641618 Score: 152
Period size: 68 Copynumber: 2.3 Consensus size: 67
85641454 CTTGAAAAGG
* * *
85641464 TTAAGTACTTTAAAAAGTACATGAGCTTAGAAGGTCAAGAGCTTTGAAAATAAAAGTTCTTGA-G
1 TTAAATACTTTAAAAAGTA-ATGAGCTTAGAAGGTCAAGAGCTTTGAAAAGAAAAGTGCTTGAGG
85641528 ATGA
65 A-GA
* ** * **
85641532 TTAAATACTTTAAAGAGT-ATGAGACCTTAGAAGGTCAAGATTTTTGAAAAGGAGGGTGCTTGAG
1 TTAAATACTTTAAAAAGTAATGAG--CTTAGAAGGTCAAGAGCTTTGAAAAGAAAAGTGCTTGAG
*
85641596 GAGG
64 GAGA
* *
85641600 CTAAATACTTTAAGAAGTA
1 TTAAATACTTTAAAAAGTA
85641619 CGCAACCTTG
Statistics
Matches: 70, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
66 5 0.07
68 63 0.90
69 2 0.03
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (67 bp):
TTAAATACTTTAAAAAGTAATGAGCTTAGAAGGTCAAGAGCTTTGAAAAGAAAAGTGCTTGAGGA
GA
Found at i:85641627 original size:68 final size:64
Alignment explanation
Indices: 85641533--85641726 Score: 151
Period size: 68 Copynumber: 2.8 Consensus size: 64
85641523 TTGAGATGAT
* * *
85641533 TAAATACTTTAAAGAGTATG-AGACCTTAGAAGGTCAAGATTTTTGAAAAG-GAGGGTGCTTGAG
1 TAAATACTTTAAA-AGTACGCA-ACCTT-GAAGGTCAAGA--TTTGAAAAGCGA-AGTGCTTAAG
85641596 -GAGGC
60 AG-GGC
* * *
85641601 TAAATACTTTAAGAAGTACGCAACCTTGAAAGGCTGAAAGATTTGAAAAGCTAAGTTCTTAAGAG
1 TAAATACTTTAA-AAGTACGCAACCTTG-AAGG-T-CAAGATTTGAAAAGCGAAGTGCTTAAGAG
85641666 GGC
62 GGC
* * *
85641669 TAAGTACTTTAATAAGTACGCAACCTTTGAAGGTCAAAAGCTTTGAAAAGCTAAGTGC
1 TAAATACTTTAA-AAGTACGCAACC-TTGAAGGTC--AAGATTTGAAAAGCGAAGTGC
85641727 CTGGAAGGTA
Statistics
Matches: 105, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
67 2 0.02
68 91 0.87
69 8 0.08
70 4 0.04
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (64 bp):
TAAATACTTTAAAAGTACGCAACCTTGAAGGTCAAGATTTGAAAAGCGAAGTGCTTAAGAGGGC
Found at i:85641854 original size:67 final size:68
Alignment explanation
Indices: 85641747--85641889 Score: 157
Period size: 67 Copynumber: 2.1 Consensus size: 68
85641737 AAGAGTTCTA
** * ** *
85641747 AAAAGCTAAGTGCTGAAGAAGGCTAAGTATTTTAAAAAGTATGTGACCA-TGGAAGGTTGAGAGC
1 AAAAGCTAAGTGCTGAAGAAGGCTAAGTACATTAAAAAGTACGTGA-CATTGGAAGGCCGAGAGA
85641811 TTT-
65 TTTG
* ** *
85641814 AAAAGCTAAGTGCTTAAGAATTCTCAA-TACATTAAGAAGTACGTGACATTGGAAGGCCGAGAGA
1 AAAAGCTAAGTGCTGAAGAAGGCT-AAGTACATTAAAAAGTACGTGACATTGGAAGGCCGAGAGA
85641878 TTTG
65 TTTG
85641882 AAAAGCTA
1 AAAAGCTA
85641890 TTCTTTCATA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
66 2 0.03
67 51 0.81
68 10 0.16
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.25
Consensus pattern (68 bp):
AAAAGCTAAGTGCTGAAGAAGGCTAAGTACATTAAAAAGTACGTGACATTGGAAGGCCGAGAGAT
TTG
Done.