Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 49 of 182
Found at i:16960033 original size:11 final size:11
Alignment explanation
Indices: 16960009--16960043 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
16959999 GTTACATGAC
16960009 TGACGTGGCAA
1 TGACGTGGCAA
* *
16960020 TGATGTGGCGA
1 TGACGTGGCAA
16960031 TGACGTGGCAA
1 TGACGTGGCAA
16960042 TG
1 TG
16960044 TGGTTGGAGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.23, C:0.14, G:0.40, T:0.23
Consensus pattern (11 bp):
TGACGTGGCAA
Found at i:16960128 original size:21 final size:21
Alignment explanation
Indices: 16960091--16960130 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16960081 TTTTCAATGC
*
16960091 ATTTGGGCTTGGGTATTTGAG
1 ATTTGGGCTTGGATATTTGAG
*
16960112 ATTTGGGCTTGTATATTTG
1 ATTTGGGCTTGGATATTTG
16960131 GGTATTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.33, T:0.47
Consensus pattern (21 bp):
ATTTGGGCTTGGATATTTGAG
Found at i:16960273 original size:2 final size:2
Alignment explanation
Indices: 16960266--16960298 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
16960256 GAGCTTCTCC
16960266 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16960299 ATAAAGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16962090 original size:29 final size:29
Alignment explanation
Indices: 16962057--16962148 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
16962047 TTAAGACTAG
16962057 AATTTTAAATTTTAAAAATATAAAAATTA
1 AATTTTAAATTTTAAAAATATAAAAATTA
* ** * *
16962086 AATTTGACTAATTCAAAAAATATAATAACTA
1 AATTTTA--AATTTTAAAAATATAAAAATTA
* *
16962117 AA-TTT-AATTTAATTAAAATATAGAAATTA
1 AATTTTAAATTT--TAAAAATATAAAAATTA
16962146 AAT
1 AAT
16962149 CCATAATTTA
Statistics
Matches: 46, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
27 4 0.09
29 20 0.43
30 2 0.04
31 20 0.43
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (29 bp):
AATTTTAAATTTTAAAAATATAAAAATTA
Found at i:16967268 original size:20 final size:20
Alignment explanation
Indices: 16967245--16967282 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16967235 TTTAAAACTA
*
16967245 AATTAAAACCTCATTAATGG
1 AATTAAAACCTAATTAATGG
16967265 AATTAAAACCTAATTAAT
1 AATTAAAACCTAATTAAT
16967283 TAGTAATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (20 bp):
AATTAAAACCTAATTAATGG
Found at i:16977790 original size:11 final size:9
Alignment explanation
Indices: 16977749--16977799 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
16977739 TTATAGATTC
*
16977749 AAAAAATAT
1 AAAAATTAT
16977758 AAAAATTAT
1 AAAAATTAT
*
16977767 -AATATTATT
1 AAAAATTA-T
16977776 AAAAATATAT
1 AAAAAT-TAT
16977786 AAAAATTAT
1 AAAAATTAT
16977795 AAAAA
1 AAAAA
16977800 AAAACTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
8 6 0.17
9 17 0.47
10 11 0.31
11 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:16978110 original size:20 final size:20
Alignment explanation
Indices: 16978087--16978125 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16978077 TTTTAAAACT
*
16978087 AAATTAAAACCTCATTAATG
1 AAATTAAAACCTAATTAATG
16978107 AAATTAAAACCTAATTAAT
1 AAATTAAAACCTAATTAAT
16978126 TAGTAATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.31
Consensus pattern (20 bp):
AAATTAAAACCTAATTAATG
Found at i:16993921 original size:39 final size:39
Alignment explanation
Indices: 16993866--16993954 Score: 142
Period size: 39 Copynumber: 2.3 Consensus size: 39
16993856 CTTTATTTGG
*
16993866 TATTCGAATTTTAAAATTTTGGTCTCCACCAAGCGGTAAC
1 TATTC-AATTTTAAAATTTTGGTCTCCACCAAACGGTAAC
*
16993906 TATTCAATTTTAAAATTTTGGTCTCCACCAAATGGTAAC
1 TATTCAATTTTAAAATTTTGGTCTCCACCAAACGGTAAC
*
16993945 TATTAAATTT
1 TATTCAATTT
16993955 ATTGAGTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 41 0.89
40 5 0.11
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (39 bp):
TATTCAATTTTAAAATTTTGGTCTCCACCAAACGGTAAC
Found at i:16999386 original size:293 final size:294
Alignment explanation
Indices: 16998836--16999399 Score: 932
Period size: 293 Copynumber: 1.9 Consensus size: 294
16998826 TCTACCGCTG
*
16998836 ACCTCTCCTTTATCAGCGATAAACAACCATCCACTCCTCATACTCCTCATTTTAAACCCGATTTT
1 ACCTCTCCTTTATCAGCGATAAACAACCATCCACTCCTCATACTCCTCATTTTAAACCCCATTTT
* *
16998901 AAACATTTTTAGCATTTGTCTCTGCCAAAATTACAATCTGAAATAGGAGCATTGTTGCTAGTTTC
66 AAACATTTTTACCATTTGTCTCTGCCAAAATTACAATCTGAAACAGGAGCATTGTTGCTAGTTTC
*
16998966 ATCTAACTCCTTCTCCACAACCATATGAAGATAGGCATCCCTCACATGGCCATAGCGTCCACACC
131 ATCTAACTCCTTCTCCACAACCATATGAAGACAGGCATCCCTCACATGGCCATAGCGTCCACACC
* * *
16999031 CAAAGCAATTGATGGAAGAGATTCATACTCTACCCTATGCACTCTGTTTGTAATCCGAATTCTAG
196 CAAAGCAATTAATGGAAGAGATTCATACTCTACCCTATGCACTCTATTTGCAATCCGAATTCTAG
16999096 AGACCAAAGGACAGGCATCTTTTTTTTACCGTTA
261 AGACCAAAGGACAGGCATCTTTTTTTTACCGTTA
* ** * *
16999130 ACCTCTCCTTTGTTGGCGATCAACAACCATCCACTCCTCATACTCCTCATTTTCAACCCCATTTT
1 ACCTCTCCTTTATCAGCGATAAACAACCATCCACTCCTCATACTCCTCATTTTAAACCCCATTTT
*
16999195 GAACATTTTTACCATTTGTCTCTGCC-AAATTACAATCTGAAACAGGAGCATTGTTGCTAGTTTC
66 AAACATTTTTACCATTTGTCTCTGCCAAAATTACAATCTGAAACAGGAGCATTGTTGCTAGTTTC
* * * * * *
16999259 ATTTAACTCCTTCTCCACAACCTTATGAGGACAGGTATCTCTTACATGGCCATAGCGTCCACACC
131 ATCTAACTCCTTCTCCACAACCATATGAAGACAGGCATCCCTCACATGGCCATAGCGTCCACACC
* *
16999324 CAAAGCAATTAATGGAAGAGATTCATACTCTACCCTATTCACTCTATTTGCAATCTGAATTCTAG
196 CAAAGCAATTAATGGAAGAGATTCATACTCTACCCTATGCACTCTATTTGCAATCCGAATTCTAG
16999389 AGACCAAAGGA
261 AGACCAAAGGA
16999400 TTAGCTAAAT
Statistics
Matches: 249, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
293 166 0.67
294 83 0.33
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (294 bp):
ACCTCTCCTTTATCAGCGATAAACAACCATCCACTCCTCATACTCCTCATTTTAAACCCCATTTT
AAACATTTTTACCATTTGTCTCTGCCAAAATTACAATCTGAAACAGGAGCATTGTTGCTAGTTTC
ATCTAACTCCTTCTCCACAACCATATGAAGACAGGCATCCCTCACATGGCCATAGCGTCCACACC
CAAAGCAATTAATGGAAGAGATTCATACTCTACCCTATGCACTCTATTTGCAATCCGAATTCTAG
AGACCAAAGGACAGGCATCTTTTTTTTACCGTTA
Found at i:17001369 original size:59 final size:58
Alignment explanation
Indices: 17001288--17001659 Score: 351
Period size: 59 Copynumber: 6.3 Consensus size: 58
17001278 ATTTTTGACT
* * *
17001288 TTCGGGGTAAAATGGTAA-TTTTGGTAAAATTAGGGTTAAAATTAGAATTTTGGAAAG
1 TTCGGGGTAAAATGATAATTTTTGGTGAAATTAGGGTTAAAAATAGAATTTTGGAAAG
* * * *
17001345 TTCGGGGTTTAAAAT-ATACTTTTTGGTGAAA-TCGATGTTCAAAAT-GAAATTTTGGAAAG
1 TTCGGGG--TAAAATGATAATTTTTGGTGAAATTAG-GGTTAAAAATAG-AATTTTGGAAAG
* * * *
17001404 TTCGAGCGTAAAATGGTAATTTTTGGTAAAATTAGGGTTAAAAATGGAATTTTGGAAAG
1 TTCG-GGGTAAAATGATAATTTTTGGTGAAATTAGGGTTAAAAATAGAATTTTGGAAAG
* * *
17001463 TTCGGGGGTAAAATGATAATTTTTGGTGAAA-TCGAGGTTAAAAATGGAATTTTTGAAAG
1 TTC-GGGGTAAAATGATAATTTTTGGTGAAATTAG-GGTTAAAAATAGAATTTTGGAAAG
* ** * *
17001522 TTCAGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGTAAAG
1 TTC-GGGGTAAAATGATAATTTTTGGTGAAATTAGGGTTAAAAATAGAATTTTGGAAAG
* * ** ** *
17001581 TTTAGGGGTTAAATGATAATTTTTGGTTTTAATCGGGGTTAAAAATAAAATTTTGGAAAG
1 -TTCGGGGTAAAATGATAATTTTTGG-TGAAATTAGGGTTAAAAATAGAATTTTGGAAAG
*
17001641 TTTGAGGGTCAAAAT-ATAA
1 TTCG-GGGT-AAAATGATAA
17001660 CTTCTGAATA
Statistics
Matches: 264, Mismatches: 35, Indels: 29
0.80 0.11 0.09
Matches are distributed among these distances:
57 7 0.03
58 13 0.05
59 195 0.74
60 45 0.17
61 4 0.02
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.35
Consensus pattern (58 bp):
TTCGGGGTAAAATGATAATTTTTGGTGAAATTAGGGTTAAAAATAGAATTTTGGAAAG
Found at i:17001439 original size:118 final size:118
Alignment explanation
Indices: 17001294--17001642 Score: 472
Period size: 118 Copynumber: 3.0 Consensus size: 118
17001284 GACTTTCGGG
* *
17001294 GTAAAATGGTAA-TTTTGGTAAAATTAGGGTTAAAATTAGAATTTTGGAAAGTTCGGGGTTTAAA
1 GTAAAATGGTAATTTTTGGTAAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTCGGGG-TTAAA
* * *
17001358 AT-ATACTTTTTGGTGAAATCGATGTTCAAAATGAAATTTTGGAAAGTTC-GAGC
65 ATGATAATTTTTGGTGAAATCGAGGTTAAAAATGAAATTTTGGAAAGTTCAG-GC
*
17001411 GTAAAATGGTAATTTTTGGTAAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAA
1 GTAAAATGGTAATTTTTGGTAAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGTTAAAA
* * *
17001476 TGATAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTTGAAAGTTCAGGG
66 TGATAATTTTTGGTGAAATCGAGGTTAAAAATGAAATTTTGGAAAGTTCAGGC
* ** * *
17001529 GTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGTAAAGTTTAGGGGTT-AA
1 GTAAAATGGTAATTTTTGGTAAAATTAGGGTTAAAAATGGAATTTTGGAAAG-TTCGGGGTTAAA
** * *
17001593 ATGATAATTTTTGGTTTTAATCGGGGTTAAAAATAAAATTTTGGAAAGTT
65 ATGATAATTTTTGG-TGAAATCGAGGTTAAAAATGAAATTTTGGAAAGTT
17001643 TGAGGGTCAA
Statistics
Matches: 206, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
117 18 0.09
118 151 0.73
119 37 0.18
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (118 bp):
GTAAAATGGTAATTTTTGGTAAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGTTAAAA
TGATAATTTTTGGTGAAATCGAGGTTAAAAATGAAATTTTGGAAAGTTCAGGC
Found at i:17014928 original size:30 final size:29
Alignment explanation
Indices: 17014829--17015168 Score: 163
Period size: 29 Copynumber: 11.7 Consensus size: 29
17014819 TTTGACTTTC
* *
17014829 GGGTGTAAAATGGTAATTTTGGTGAAATCG
1 GGGT-TAAAATTGAAATTTTGGTGAAATCG
17014859 GGGTTAAAATTGAAATTTT-G-GAAAGTTCG
1 GGGTTAAAATTGAAATTTTGGTGAAA--TCG
* **
17014888 AGGGTCAAAATAT-ACTTTTTGGTGAAATCG
1 -GGGTTAAAAT-TGAAATTTTGGTGAAATCG
* *
17014918 GGGTTAAAAATGGAATTTT-G-GAAAGTTCG
1 GGGTTAAAATTGAAATTTTGGTGAAA--TCG
* * * *
17014947 GGGGTAAAATGGTAACTTTTGGTGAAAT-A
1 GGGTTAAAATTG-AAATTTTGGTGAAATCG
*
17014976 GGGTTAAAA-TGAAATTTT-G-GAAAGTTTG
1 GGGTTAAAATTGAAATTTTGGTGAAA--TCG
17015004 GGG-TAAAA-TGATAATTTTTGGTGAAATCG
1 GGGTTAAAATTGA-AA-TTTTGGTGAAATCG
* * *
17015033 GGGTTAAAAATGGAATTTT-G-GAAAGTTCAA
1 GGGTTAAAATTGAAATTTTGGTGAAA--TC-G
* * **
17015063 GGG-TAAAATGGTAATTTTGGTGAAATTA
1 GGGTTAAAATTGAAATTTTGGTGAAATCG
* *
17015091 GGGTTAAAAATGGAATTTT-G-GAAAGTTCG
1 GGGTTAAAATTGAAATTTTGGTGAAA--TCG
* * * *
17015120 GGGGTAAAATGGTAATTTTTGGTGAAATCA
1 GGGTTAAAATTG-AAATTTTGGTGAAATCG
* *
17015150 GGGTTAAAAATGGAATTTT
1 GGGTTAAAATTGAAATTTT
17015169 AGAAAGTTCG
Statistics
Matches: 235, Mismatches: 43, Indels: 65
0.69 0.13 0.19
Matches are distributed among these distances:
25 4 0.02
26 1 0.00
27 31 0.13
28 15 0.06
29 103 0.44
30 55 0.23
31 14 0.06
32 12 0.05
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.33
Consensus pattern (29 bp):
GGGTTAAAATTGAAATTTTGGTGAAATCG
Found at i:17015081 original size:58 final size:59
Alignment explanation
Indices: 17014826--17015189 Score: 515
Period size: 59 Copynumber: 6.2 Consensus size: 59
17014816 ATTTTTGACT
* * * *
17014826 TTCGGGTGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAATTGAAATTTTGGAAAG
1 TTCGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAG
* * * *
17014884 TTCGAGGGTCAAAAT-ATACTTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAG
1 TTCGGGGGT-AAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAG
* *
17014943 TTCGGGGGTAAAATGGTAACTTTTGGTGAAAT-AGGGTT-AAAATGAAATTTTGGAAAG
1 TTCGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAG
* * *
17015000 TT-TGGGGTAAAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAG
1 TTCGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAG
** *
17015058 TTCAAGGGTAAAATGGTAA-TTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAG
1 TTCGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAG
*
17015116 TTCGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAGAAAG
1 TTCGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAG
17015175 TTCGGGGGTCAAAAT
1 TTCGGGGGT-AAAAT
17015190 ATAACTTCTG
Statistics
Matches: 272, Mismatches: 26, Indels: 14
0.87 0.08 0.04
Matches are distributed among these distances:
56 26 0.10
57 25 0.09
58 93 0.34
59 123 0.45
60 5 0.02
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.33
Consensus pattern (59 bp):
TTCGGGGGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAG
Found at i:17015188 original size:29 final size:29
Alignment explanation
Indices: 17014917--17015189 Score: 173
Period size: 29 Copynumber: 9.4 Consensus size: 29
17014907 TGGTGAAATC
*
17014917 GGGGTTAAAAATGGAATTTTGGAAAGTTCG
1 GGGG-TAAAAATGGAATTTTGGAAAGTTCA
17014947 GGGGT-AAAATGGTAACTTTTGGTGAAA--T-A
1 GGGGTAAAAATGG-AA-TTTT-G-GAAAGTTCA
* * *
17014976 -GGGTTAAAATGAAATTTTGGAAAGTT-T
1 GGGGTAAAAATGGAATTTTGGAAAGTTCA
*
17015003 GGGGT-AAAATGATAATTTTTGGTGAAA--TC-
1 GGGGTAAAAATG-GAA-TTTT-G-GAAAGTTCA
17015032 GGGGTTAAAAATGGAATTTTGGAAAGTTCA
1 GGGG-TAAAAATGGAATTTTGGAAAGTTCA
*
17015062 AGGGT-AAAATGGTAATTTTGGTGAAA-TT-A
1 GGGGTAAAAATGG-AATTTT-G-GAAAGTTCA
* *
17015091 GGGTTAAAAATGGAATTTTGGAAAGTTCG
1 GGGGTAAAAATGGAATTTTGGAAAGTTCA
17015120 GGGGT-AAAATGGTAATTTTTGGTGAAA--TCA
1 GGGGTAAAAATGG-AA-TTTT-G-GAAAGTTCA
* * *
17015150 GGGTTAAAAATGGAATTTTAGAAAGTTCG
1 GGGGTAAAAATGGAATTTTGGAAAGTTCA
*
17015179 GGGGTCAAAAT
1 GGGGTAAAAAT
17015190 ATAACTTCTG
Statistics
Matches: 196, Mismatches: 16, Indels: 63
0.71 0.06 0.23
Matches are distributed among these distances:
25 4 0.02
26 1 0.01
27 23 0.12
28 37 0.19
29 62 0.32
30 38 0.19
31 23 0.12
32 8 0.04
ACGTcount: A:0.36, C:0.03, G:0.30, T:0.32
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTGGAAAGTTCA
Found at i:17023162 original size:19 final size:20
Alignment explanation
Indices: 17023134--17023206 Score: 66
Period size: 19 Copynumber: 3.8 Consensus size: 20
17023124 ATTATTTTTT
*
17023134 AATATTTAAAAAT-TTAAAA
1 AATATATAAAAATATTAAAA
*
17023153 AATATAT-AAATTATTAAATA
1 AATATATAAAAATATTAAA-A
*
17023173 AAT-TATTAAAACTATT-AAA
1 AATATA-TAAAAATATTAAAA
17023192 AATATAT-AAAATATT
1 AATATATAAAAATATT
17023207 TTGGGGTGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
18 11 0.24
19 18 0.40
20 9 0.20
21 7 0.16
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (20 bp):
AATATATAAAAATATTAAAA
Found at i:17023175 original size:12 final size:12
Alignment explanation
Indices: 17023158--17023182 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17023148 TAAAAAATAT
17023158 ATAAATTATTAA
1 ATAAATTATTAA
17023170 ATAAATTATTAA
1 ATAAATTATTAA
17023182 A
1 A
17023183 ACTATTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAATTATTAA
Found at i:17023968 original size:13 final size:14
Alignment explanation
Indices: 17023950--17023978 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17023940 TTTAAAAAAA
17023950 TTTAAAA-TTATTT
1 TTTAAAATTTATTT
17023963 TTTAAAATTTATTT
1 TTTAAAATTTATTT
17023977 TT
1 TT
17023979 AGTAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTAAAATTTATTT
Found at i:17026290 original size:16 final size:16
Alignment explanation
Indices: 17026269--17026316 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
17026259 AAATATTTAT
17026269 AATTTCCTTTAATTAA
1 AATTTCCTTTAATTAA
*
17026285 AATTTCGTTTAATT-A
1 AATTTCCTTTAATTAA
* *
17026300 CATTTACTTTAATTAA
1 AATTTCCTTTAATTAA
17026316 A
1 A
17026317 TTATCTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (16 bp):
AATTTCCTTTAATTAA
Found at i:17026310 original size:15 final size:14
Alignment explanation
Indices: 17026269--17026324 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 14
17026259 AAATATTTAT
17026269 AATTTCCTTTAATTAA
1 AATTT-CTTTAATT-A
17026285 AATTTCGTTTAATTA
1 AATTTC-TTTAATTA
*
17026300 CATTTACTTTAATTA
1 AATTT-CTTTAATTA
17026315 AATTATCTTT
1 AATT-TCTTT
17026325 TAAAGTTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
15 21 0.60
16 14 0.40
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.54
Consensus pattern (14 bp):
AATTTCTTTAATTA
Found at i:17026840 original size:20 final size:20
Alignment explanation
Indices: 17026817--17026865 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
17026807 AGGAGTTGAT
* *
17026817 AAGAAGATGGAGTGGGGAAG
1 AAGAAGAAGAAGTGGGGAAG
*
17026837 AAGATGAAGAAGTGGGGAAG
1 AAGAAGAAGAAGTGGGGAAG
17026857 -AGAAGAAGA
1 AAGAAGAAGA
17026866 GAGAACGTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.47, C:0.00, G:0.45, T:0.08
Consensus pattern (20 bp):
AAGAAGAAGAAGTGGGGAAG
Found at i:17027065 original size:8 final size:8
Alignment explanation
Indices: 17027052--17027077 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
17027042 TTGAGTCCAA
17027052 TTTTTAAT
1 TTTTTAAT
17027060 TTTTTAAT
1 TTTTTAAT
17027068 TTTTTAAT
1 TTTTTAAT
17027076 TT
1 TT
17027078 ACTTTAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTAAT
Found at i:17027095 original size:17 final size:17
Alignment explanation
Indices: 17027073--17027162 Score: 83
Period size: 17 Copynumber: 5.2 Consensus size: 17
17027063 TTAATTTTTT
* *
17027073 AATTTACTTTAAGTTTG
1 AATTTACTTTAAATTTA
17027090 AATTTA-TTCTAAATTTA
1 AATTTACTT-TAAATTTA
* * * *
17027107 AATTTATTTTTTAGTCTA
1 AATTTA-CTTTAAATTTA
17027125 AATTTACTTTAAATTTA
1 AATTTACTTTAAATTTA
* *
17027142 AATTTATTTTAAATTAA
1 AATTTACTTTAAATTTA
17027159 AATT
1 AATT
17027163 AAAATGTGTC
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
16 2 0.03
17 44 0.75
18 11 0.19
19 2 0.03
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.54
Consensus pattern (17 bp):
AATTTACTTTAAATTTA
Found at i:17029185 original size:29 final size:30
Alignment explanation
Indices: 17029142--17029253 Score: 97
Period size: 29 Copynumber: 3.8 Consensus size: 30
17029132 AAAGGTCCCT
* *
17029142 AAACTGTCAAAAAATTACATTTTTACCCCC
1 AAACTTTCCAAAAATTACATTTTTACCCCC
* * *
17029172 AAACTTTCC-AAAATTCCA-TTTTAACCCT
1 AAACTTTCCAAAAATTACATTTTTACCCCC
** **
17029200 AATTTTTCCAAAAATTACATTTTTACCCTT
1 AAACTTTCCAAAAATTACATTTTTACCCCC
*
17029230 AAA-TCTCCAAAAATT-CAATTTTTA
1 AAACTTTCCAAAAATTAC-ATTTTTA
17029254 ACCTCGAAAC
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
28 16 0.24
29 34 0.51
30 17 0.25
ACGTcount: A:0.38, C:0.23, G:0.01, T:0.38
Consensus pattern (30 bp):
AAACTTTCCAAAAATTACATTTTTACCCCC
Found at i:17029356 original size:117 final size:118
Alignment explanation
Indices: 17029205--17029515 Score: 323
Period size: 117 Copynumber: 2.7 Consensus size: 118
17029195 ACCCTAATTT
** * * * *
17029205 TTCCAAAAATTA-CATTTTTACCCTTAAATCTCCAAAAATTCAATTTTTAACCTCGAAACTTTTG
1 TTCCAAAAATTACCA-TTTTACCCTTGGATGTCCAAAAATTCAATTTTTGACCTCCAAACTTTTA
* * **
17029269 AAAATTACCATTTAATCCC-GAATAT-CC-AAAAATTCCATATTTGACCTTGAAAC
65 AAAATTACCATTTAA-CCCTGAAT-TGCCTAAAAACTCCATATTTAACCCCGAAAC
* * *
17029322 TTTCAAAAATTACCATTTTACCCTCGGATGTCCAAAAATTCCATTTTTGA-CTCCAAA-TTTTAA
1 TTCCAAAAATTACCATTTTACCCTTGGATGTCCAAAAATTCAATTTTTGACCTCCAAACTTTT-A
* * * * *
17029385 AAAATTACCATTTTACCCTTAATTGCCTAAAAACTCTATTTTTAACCCCGAACC
65 AAAATTACCATTTAACCCTGAATTGCCTAAAAACTCCATATTTAACCCCGAAAC
* * *
17029439 TTCCAAAAATTACCATTTTACCCTTGGATGTCTAAAAATT-ATATTTTTGACC-CTAAACCTTTC
1 TTCCAAAAATTACCATTTTACCCTTGGATGTCCAAAAATTCA-ATTTTTGACCTCCAAA-CTTTT
17029502 AAAAATTACCATTT
64 AAAAATTACCATTT
17029516 TACACTCGAG
Statistics
Matches: 161, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
115 8 0.05
116 25 0.16
117 108 0.67
118 17 0.11
119 3 0.02
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (118 bp):
TTCCAAAAATTACCATTTTACCCTTGGATGTCCAAAAATTCAATTTTTGACCTCCAAACTTTTAA
AAATTACCATTTAACCCTGAATTGCCTAAAAACTCCATATTTAACCCCGAAAC
Found at i:17029531 original size:59 final size:58
Alignment explanation
Indices: 17029181--17029534 Score: 252
Period size: 59 Copynumber: 6.1 Consensus size: 58
17029171 CAAACTTTCC
* * ** *** * *
17029181 AAAATTCCA-TTTTAACCCTAATTTTTCCAAAAATTA-CATTTTTACCCTTAAATCTCCA
1 AAAATTCTATTTTTGACCCTAAACTTT-CAAAAATTACCA-TTTTACCCTCGGATGTCTA
* * * ** * * * * *
17029239 AAAATTCAATTTTTAACCTCGAAACTTTTGAAAATTACCATTTAATCC-CGAATATCCA
1 AAAATTCTATTTTTGACC-CTAAACTTTCAAAAATTACCATTTTACCCTCGGATGTCTA
* * * *
17029297 AAAATTCCATATTTGACCTTGAAACTTTCAAAAATTACCATTTTACCCTCGGATGTCCA
1 AAAATTCTATTTTTGACCCT-AAACTTTCAAAAATTACCATTTTACCCTCGGATGTCTA
* * * ** *
17029356 AAAATTCCATTTTTGACTCC-AAATTTTAAAAAATTACCATTTTACCCT-TAATTGCCTA
1 AAAATTCTATTTTTGAC-CCTAAACTTTCAAAAATTACCATTTTACCCTCGGA-TGTCTA
* * * * * *
17029414 AAAACTCTATTTTTAACCCCGAACCTTCCAAAAATTACCATTTTACCCTTGGATGTCTA
1 AAAATTCTATTTTTGA-CCCTAAACTTTCAAAAATTACCATTTTACCCTCGGATGTCTA
* *
17029473 AAAATTATATTTTTGACCCTAAACCTTTCAAAAATTACCATTTTACACTCGAGA-GTCTA
1 AAAATTCTATTTTTGACCCTAAA-CTTTCAAAAATTACCATTTTACCCTCG-GATGTCTA
17029532 AAA
1 AAA
17029535 TTAATGTTTT
Statistics
Matches: 236, Mismatches: 48, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
57 1 0.00
58 103 0.44
59 120 0.51
60 12 0.05
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.36
Consensus pattern (58 bp):
AAAATTCTATTTTTGACCCTAAACTTTCAAAAATTACCATTTTACCCTCGGATGTCTA
Found at i:17034564 original size:16 final size:16
Alignment explanation
Indices: 17034541--17034580 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
17034531 TAAACAAAGA
17034541 AAAAGAAAAA-AAAAC
1 AAAAGAAAAAGAAAAC
*
17034556 AAGAAGAAAAAGAAAAG
1 AA-AAGAAAAAGAAAAC
17034573 AAAAGAAA
1 AAAAGAAA
17034581 TAATAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 14 0.64
17 6 0.27
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAGAAAAC
Found at i:17034925 original size:45 final size:45
Alignment explanation
Indices: 17034874--17034964 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
17034864 TTTGTTCACC
* *
17034874 TTAGGTTGTGCAACTTTTGACCAATACATGTCTTTTTTAATCCTT
1 TTAGGTTGTGCAACTTTTGACCAATACATGTCATTTTTAACCCTT
*
17034919 TTAGGTTTTGCAACTTTTGACCAATACATGTCATTTTTAACCCTT
1 TTAGGTTGTGCAACTTTTGACCAATACATGTCATTTTTAACCCTT
17034964 T
1 T
17034965 GTGAGCTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (45 bp):
TTAGGTTGTGCAACTTTTGACCAATACATGTCATTTTTAACCCTT
Found at i:17035349 original size:31 final size:30
Alignment explanation
Indices: 17035298--17035356 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
17035288 AATTTATTTT
* *
17035298 AAAATTAAGTTTATTTTAAATTTAAATTGA
1 AAAATTAAATTTATTATAAATTTAAATTGA
*
17035328 AAAATTTAAATTTATTATAAATTTGAATT
1 AAAA-TTAAATTTATTATAAATTTAAATT
17035357 TAAGATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (30 bp):
AAAATTAAATTTATTATAAATTTAAATTGA
Found at i:17035351 original size:17 final size:17
Alignment explanation
Indices: 17035281--17035372 Score: 82
Period size: 17 Copynumber: 5.6 Consensus size: 17
17035271 GGGCCCAATA
*
17035281 AAATTTAAATTTATTTT
1 AAATTTAAATTTATTAT
* * *
17035298 AAAATTAAGTTTATTTT
1 AAATTTAAATTTATTAT
*
17035315 AAATTTAAATTGA--A-
1 AAATTTAAATTTATTAT
17035329 AAATTTAAATTTATTAT
1 AAATTTAAATTTATTAT
* **
17035346 AAATTTGAATTTAAGAT
1 AAATTTAAATTTATTAT
*
17035363 ATATTTAAAT
1 AAATTTAAAT
17035373 AATGTCCAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
14 12 0.20
16 1 0.02
17 47 0.78
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
AAATTTAAATTTATTAT
Found at i:17035369 original size:48 final size:48
Alignment explanation
Indices: 17035280--17035372 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
17035270 CGGGCCCAAT
* ***
17035280 AAAATTTAAATTTATTTTAAAATTAAGTTTATTTTAAATTTAAATTGA
1 AAAATTTAAATTTATTATAAAATTAAGTTTAAGATAAATTTAAATTGA
* *
17035328 AAAATTTAAATTTATTATAAATTTGAA-TTTAAGATATATTTAAAT
1 AAAATTTAAATTTATTATAAAATT-AAGTTTAAGATAAATTTAAAT
17035373 AATGTCCAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 36 0.95
49 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.48
Consensus pattern (48 bp):
AAAATTTAAATTTATTATAAAATTAAGTTTAAGATAAATTTAAATTGA
Found at i:17036157 original size:18 final size:18
Alignment explanation
Indices: 17036136--17036170 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17036126 ATTTTATTAA
17036136 TAATATTTATCAAATAAT
1 TAATATTTATCAAATAAT
*
17036154 TAATATTTATTAAATAA
1 TAATATTTATCAAATAA
17036171 ATAAAAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATATTTATCAAATAAT
Found at i:17037274 original size:30 final size:29
Alignment explanation
Indices: 17037240--17037390 Score: 121
Period size: 30 Copynumber: 5.1 Consensus size: 29
17037230 AAAAATCACA
*
17037240 TTTTACCCCCCGAACTTCCTAAAATTCCAT
1 TTTTA-CCCCCGAACTTCCAAAAATTCCAT
*** *
17037270 TTTTAACCCTAAAACTTCCAAAAATTACAT
1 TTTT-ACCCCCGAACTTCCAAAAATTCCAT
* * *
17037300 TATTA-CCCCAAACTTCTAAAAATTCCAT
1 TTTTACCCCCGAACTTCCAAAAATTCCAT
** *
17037328 TTTTGA-CTTCGAAACTTACAAAAATTACCA-
1 TTTT-ACCCCCG-AACTTCCAAAAATT-CCAT
17037358 TTTTACCCCC-AGACTTCCAAAAATTCCAT
1 TTTTACCCCCGA-ACTTCCAAAAATTCCAT
17037387 TTTT
1 TTTT
17037391 GATCCCAATT
Statistics
Matches: 95, Mismatches: 19, Indels: 15
0.74 0.15 0.12
Matches are distributed among these distances:
28 26 0.27
29 21 0.22
30 44 0.46
31 4 0.04
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (29 bp):
TTTTACCCCCGAACTTCCAAAAATTCCAT
Found at i:17037323 original size:58 final size:58
Alignment explanation
Indices: 17037221--17037390 Score: 184
Period size: 58 Copynumber: 2.9 Consensus size: 58
17037211 AGAGGTCTTT
* * *
17037221 AAACTATCTAAAAATCACATTTTACCCCCCGAACTTCCT-AAAATTCCATTTTTAACC-CTA
1 AAACT-TCCAAAAATTACATTTTA-CCCCCAAACTT-CTAAAAATTCCATTTTTAACCTC-A
* * *
17037281 AAACTTCCAAAAATTACATTATTA-CCCCAAACTTCTAAAAATTCCATTTTTGACTTCG
1 AAACTTCCAAAAATTACATT-TTACCCCCAAACTTCTAAAAATTCCATTTTTAACCTCA
* * *
17037339 AAACTTACAAAAATTACCATTTTACCCCCAGACTTCCAAAAATTCCATTTTT
1 AAACTTCCAAAAATTA-CATTTTACCCCCAAACTTCTAAAAATTCCATTTTT
17037391 GATCCCAATT
Statistics
Matches: 96, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
57 2 0.02
58 43 0.45
59 43 0.45
60 8 0.08
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.33
Consensus pattern (58 bp):
AAACTTCCAAAAATTACATTTTACCCCCAAACTTCTAAAAATTCCATTTTTAACCTCA
Found at i:17037389 original size:59 final size:58
Alignment explanation
Indices: 17037230--17037392 Score: 195
Period size: 59 Copynumber: 2.8 Consensus size: 58
17037220 TAAACTATCT
* * * * *
17037230 AAAAATCACATTTTACCCCCCGAACTTCCTAAAATTCCATTTTTAACCCTAAAACTTCC
1 AAAAATTACATTTTACCCCCAG-ACTTCCAAAAATTCCATTTTTGACCCTAAAACTTAC
* * * *
17037289 AAAAATTACATTATTA-CCCCAAACTTCTAAAAATTCCATTTTTGA-CTTCGAAACTTAC
1 AAAAATTACATT-TTACCCCCAGACTTCCAAAAATTCCATTTTTGACCCT-AAAACTTAC
17037347 AAAAATTACCATTTTACCCCCAGACTTCCAAAAATTCCATTTTTGA
1 AAAAATTA-CATTTTACCCCCAGACTTCCAAAAATTCCATTTTTGA
17037393 TCCCAATTTT
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
57 2 0.02
58 38 0.43
59 46 0.52
60 3 0.03
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (58 bp):
AAAAATTACATTTTACCCCCAGACTTCCAAAAATTCCATTTTTGACCCTAAAACTTAC
Found at i:17039326 original size:48 final size:48
Alignment explanation
Indices: 17039249--17039877 Score: 534
Period size: 48 Copynumber: 12.9 Consensus size: 48
17039239 CATGAAGGGG
* * * * * *
17039249 AAGGGAAAGATTTAAGCTGCACCGCCGGATCTAGTACCGCGAAGACAC
1 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGAAGACAC
*
17039297 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCGCGAAGACAC
1 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGAAGACAC
* *
17039345 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCGCGAAGGCAC
1 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGAAGACAC
* * * *
17039393 AAGAGAAAGATCTAAGCCGCAACGGCAGATCCAATACCACGAAGACAC
1 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGAAGACAC
* * * * * * *
17039441 AAGGGAAAGATTTAAGCCGTAGCGATGGATCCAATGCCACGAAGACAT
1 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGAAGACAC
* * * *
17039489 AAGGGAAAGATCTAAGCCGCAACGGCGAATCTAGTACCACGAAGAAACATG
1 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGAAG--ACA-C
* * * *
17039540 AAGGGAAAGATCTAAGTCGCAACGGA-AGATCCATTACCACGAAGTCAC
1 AAGGGAAAGATCTAAGCCGCAAC-GACGGATCCAGTACCACGAAGACAC
* * * * * * * *
17039588 AGAGGGAAAGGTTTAAGTCGCAACGGC-GAACCTTGTACCTC-AGAGACATA
1 A-AGGGAAAGATCTAAGCCGCAACGACGGATCC-AGTACCACGA-AGACA-C
* * * *
17039638 AAGGGAAAGATTTAAGCTGCAACGACGAATCCAGTACCACGAAGAAACATG
1 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGAAG--ACA-C
** *
17039689 AAGGGAAAGATCTAAGCCGCAACGGTGGACCCAGTACCACGAAGACAC
1 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGAAGACAC
* * * *
17039737 AAGGGAAAGATTTAAGCCGCAAC-AGCGAATCCAGTATCACGAGGACAC
1 AAGGGAAAGATCTAAGCCGCAACGA-CGGATCCAGTACCACGAAGACAC
* * * * * * * *
17039785 AGAGGGAAAG-GCTTAAGTCGTAACGGC-GAACCTTGTACCTC-AGAGACATA
1 A-AGGGAAAGATC-TAAGCCGCAACGACGGATCC-AGTACCACGA-AGACA-C
* * *
17039835 AAGGGAAAGATTTAAGTCGCAACGACGAATCCAGTACCACGAA
1 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGAA
17039878 TATTTGAAGG
Statistics
Matches: 467, Mismatches: 91, Indels: 45
0.77 0.15 0.07
Matches are distributed among these distances:
48 258 0.55
49 117 0.25
50 13 0.03
51 78 0.17
52 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.13
Consensus pattern (48 bp):
AAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGAAGACAC
Found at i:17039394 original size:96 final size:97
Alignment explanation
Indices: 17039177--17039877 Score: 648
Period size: 96 Copynumber: 7.1 Consensus size: 97
17039167 ACAGGTCACT
* * *
17039177 AGTACCGCGAAGACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAACACAT
1 AGTACCACGAAGACA-CAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACAT
* * * * *
17039242 GAAGGGGAAGGGAAAGATTTAAGCTGCACCGCCGGATCT
65 ------CAAGGGAAAGATTTAAGCCGCAACGACGGATCC
* * *
17039281 AGTACCGCGAAGACACAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCGCGAAGACA-C
1 AGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACATC
*
17039345 AAGGGAAAGATCTAAGCCGCAACGACGGATCC
66 AAGGGAAAGATTTAAGCCGCAACGACGGATCC
* * * * *
17039377 AGTACCGCGAAGGCACAAGAGAAAGATCTAAGCCGCAACGGCAGATCCAATACCACGAAGACA-C
1 AGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACATC
* * *
17039441 AAGGGAAAGATTTAAGCCGTAGCGATGGATCC
66 AAGGGAAAGATTTAAGCCGCAACGACGGATCC
* * * * *
17039473 AATGCCACGAAGACATAAGGGAAAGATCTAAGCCGCAACGGCGAATCTAGTACCACGAAGAAACA
1 AGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAG--ACA
* * * *
17039538 TGAAGGGAAAGATCTAAGTCGCAACGGA-AGATCC
64 TCAAGGGAAAGATTTAAGCCGCAAC-GACGGATCC
* * * * * * * *
17039572 ATTACCACGAAGTCACAGAGGGAAAGGTTTAAGTCGCAACGGC-GAACCTTGTACCTC-AGAGAC
1 AGTACCACGAAGACACA-AGGGAAAGATCTAAGCCGCAACGGCGGATCC-AGTACCACGA-AGAC
* * *
17039635 ATAAAGGGAAAGATTTAAGCTGCAACGACGAATCC
63 ATCAAGGGAAAGATTTAAGCCGCAACGACGGATCC
* * *
17039670 AGTACCACGAAGAAACATGAAGGGAAAGATCTAAGCCGCAACGGTGGACCCAGTACCACGAAGAC
1 AGTACCACGAAG--ACA-CAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGAC
*
17039735 A-CAAGGGAAAGATTTAAGCCGCAAC-AGCGAATCC
63 ATCAAGGGAAAGATTTAAGCCGCAACGA-CGGATCC
* * * * * * * *
17039769 AGTATCACGAGGACACAGAGGGAAAG-GCTTAAGTCGTAACGGC-GAACCTTGTACCTC-AGAGA
1 AGTACCACGAAGACACA-AGGGAAAGATC-TAAGCCGCAACGGCGGATCC-AGTACCACGA-AGA
* * *
17039831 CATAAAGGGAAAGATTTAAGTCGCAACGACGAATCC
62 CATCAAGGGAAAGATTTAAGCCGCAACGACGGATCC
17039867 AGTACCACGAA
1 AGTACCACGAA
17039878 TATTTGAAGG
Statistics
Matches: 497, Mismatches: 80, Indels: 46
0.80 0.13 0.07
Matches are distributed among these distances:
96 170 0.34
97 35 0.07
98 81 0.16
99 80 0.16
100 66 0.13
101 6 0.01
103 44 0.09
104 15 0.03
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.13
Consensus pattern (97 bp):
AGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACATC
AAGGGAAAGATTTAAGCCGCAACGACGGATCC
Found at i:17039457 original size:144 final size:146
Alignment explanation
Indices: 17039177--17039794 Score: 627
Period size: 144 Copynumber: 4.2 Consensus size: 146
17039167 ACAGGTCACT
* * * * *
17039177 AGTACCGCGAAGACATGAAGGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAA-CACA
1 AGTACCACGAAGACA-CAAGGGAAAGATCTAAGCCGCAACGACGAATCCAGTACCACGAAGAACA
* * * * * * *
17039241 TGAAGGGGAAGGGAAAGATTTAAGCTGCACCGCCGGATCTAGTACCGCGAAGACACAAGGGAAAG
65 TGAA---G-A--GAAAGATCTAAGCCGCAACGGCAGATCCAGTACCACGAAGACACAAGGGAAAG
*
17039306 ATCTAAGCCGCAACGACGGATCC
124 ATTTAAGCCGCAACGACGGATCC
* * * *
17039329 AGTACCGCGAAGACACAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCGCGAAG-GCA-
1 AGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGACGAATCCAGTACCACGAAGAACAT
* *
17039392 CAAGAGAAAGATCTAAGCCGCAACGGCAGATCCAATACCACGAAGACACAAGGGAAAGATTTAAG
66 GAAGAGAAAGATCTAAGCCGCAACGGCAGATCCAGTACCACGAAGACACAAGGGAAAGATTTAAG
* * *
17039457 CCGTAGCGATGGATCC
131 CCGCAACGACGGATCC
* * * * *
17039473 AATGCCACGAAGACATAAGGGAAAGATCTAAGCCGCAACGGCGAATCTAGTACCACGAAGAAACA
1 AGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGACGAATCCAGTACCACGAAG-AACA
* * * * * *
17039538 TGAAGGGAAAGATCTAAGTCGCAACGGAAGATCCATTACCACGAAGTCACAGAGGGAAAGGTTTA
65 TGAAGAGAAAGATCTAAGCCGCAACGGCAGATCCAGTACCACGAAGACACA-AGGGAAAGATTTA
* * *
17039603 AGTCGCAACGGC-GAACC
129 AGCCGCAACGACGGATCC
* * * * *
17039620 TTGTACCTC-AGAGACATAAAGGGAAAGATTTAAGCTGCAACGACGAATCCAGTACCACGAAGAA
1 -AGTACCACGA-AGACA-CAAGGGAAAGATCTAAGCCGCAACGACGAATCCAGTACCACGAAG-A
* ** *
17039684 ACATGAAGGGAAAGATCTAAGCCGCAACGGTGGACCCAGTACCACGAAGACACAAGGGAAAGATT
62 ACATGAAGAGAAAGATCTAAGCCGCAACGGCAGATCCAGTACCACGAAGACACAAGGGAAAGATT
*
17039749 TAAGCCGCAAC-AGCGAATCC
127 TAAGCCGCAACGA-CGGATCC
* *
17039769 AGTATCACGAGGACACAGAGGGAAAG
1 AGTACCACGAAGACACA-AGGGAAAG
17039795 GCTTAAGTCG
Statistics
Matches: 390, Mismatches: 64, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
144 116 0.30
146 3 0.01
147 51 0.13
148 66 0.17
149 94 0.24
150 2 0.01
151 43 0.11
152 15 0.04
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.12
Consensus pattern (146 bp):
AGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGACGAATCCAGTACCACGAAGAACAT
GAAGAGAAAGATCTAAGCCGCAACGGCAGATCCAGTACCACGAAGACACAAGGGAAAGATTTAAG
CCGCAACGACGGATCC
Found at i:17039680 original size:197 final size:194
Alignment explanation
Indices: 17039249--17039877 Score: 734
Period size: 197 Copynumber: 3.2 Consensus size: 194
17039239 CATGAAGGGG
* * * * * *
17039249 AAGGGAAAGATTTAAGCTGCACCGCCGGATCTAGTACCGCGAAGACACAAGGGAAAGATCTAAGC
1 AAGGGAAAGATTTAAGCTGCAACGACGAATCCAGTACCACGAAGACATAAGGGAAAGATCTAAGC
* * *
17039314 CGCAACGACGGATCCAGTACCGCGAAGACACAAGGGAAAGATCTAAGCCGCAAC-GACGGATCCA
66 CGCAACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGGA-AGATCCA
* * * * * * * ** *
17039378 GTACCGCGAAGGCACA-AGAGAAAGATCTAAGCCGCAACGGCAGATCC-AATACCAC-GAAGACA
130 GTACCACGAAGACACAGAGGGAAAGGTTTAAGTCGCAACGGC-GAACCTTGTACCTCAG-AGACA
*
17039440 -C
193 TA
* * * * * * *
17039441 AAGGGAAAGATTTAAGCCGTAGCGATGGATCCAATGCCACGAAGACATAAGGGAAAGATCTAAGC
1 AAGGGAAAGATTTAAGCTGCAACGACGAATCCAGTACCACGAAGACATAAGGGAAAGATCTAAGC
* * * *
17039506 CGCAACGGCGAATCTAGTACCACGAAGAAACATGAAGGGAAAGATCTAAGTCGCAACGGAAGATC
66 CGCAACGGCGGATCCAGTACCACGAAG--ACA-CAAGGGAAAGATCTAAGCCGCAACGGAAGATC
* *
17039571 CATTACCACGAAGTCACAGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAGACA
128 CAGTACCACGAAGACACAGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAGACA
17039636 TA
193 TA
17039638 AAGGGAAAGATTTAAGCTGCAACGACGAATCCAGTACCACGAAGAAACATGAAGGGAAAGATCTA
1 AAGGGAAAGATTTAAGCTGCAACGACGAATCCAGTACCACGAAG--ACAT-AAGGGAAAGATCTA
* * *
17039703 AGCCGCAACGGTGGACCCAGTACCACGAAGACACAAGGGAAAGATTTAAGCCGCAACAGCG-A-A
63 AGCCGCAACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCAAC-G-GAAGA
* * * *
17039766 TCCAGTATCACGAGGACACAGAGGGAAAGGCTTAAGTCGTAACGGCGAACCTTGTACCTCAGAGA
126 TCCAGTACCACGAAGACACAGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAGA
17039831 CATA
191 CATA
17039835 AAGGGAAAGATTTAAG-TCGCAACGACGAATCCAGTACCACGAA
1 AAGGGAAAGATTTAAGCT-GCAACGACGAATCCAGTACCACGAA
17039878 TATTTGAAGG
Statistics
Matches: 374, Mismatches: 49, Indels: 23
0.84 0.11 0.05
Matches are distributed among these distances:
192 78 0.21
194 3 0.01
195 45 0.12
196 34 0.09
197 164 0.44
198 5 0.01
199 5 0.01
200 40 0.11
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.13
Consensus pattern (194 bp):
AAGGGAAAGATTTAAGCTGCAACGACGAATCCAGTACCACGAAGACATAAGGGAAAGATCTAAGC
CGCAACGGCGGATCCAGTACCACGAAGACACAAGGGAAAGATCTAAGCCGCAACGGAAGATCCAG
TACCACGAAGACACAGAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAGAGACATA
Found at i:17039941 original size:98 final size:97
Alignment explanation
Indices: 17039345--17039931 Score: 401
Period size: 98 Copynumber: 6.0 Consensus size: 97
17039335 GCGAAGACAC
* * * * ** * * *
17039345 AAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCGCGAAGGCACA-AGAGAAAGATCTAAG
1 AAGGGAAAGATTTAAGTCGCAACGACGAATCCAGTACCACG-AGATACAGAGGGAAAGGTTTAAG
* * ** * *
17039409 CCGCAACGGCAGATCC-AATACCAC-GAAGACA-C
65 TCGCAACGGC-GAACCTCGTACCTCAGAA-ACATA
* * * * * * * * * * *
17039441 AAGGGAAAGATTTAAGCCGTAGCGATGGATCCAATGCCACGA-AGACATAAGGGAAAGATCTAAG
1 AAGGGAAAGATTTAAGTCGCAACGACGAATCCAGTACCACGAGATACA-GAGGGAAAGGTTTAAG
* * * * *
17039505 CCGCAACGGCGAATCTAGTACCACGAAGAAACATG
65 TCGCAACGGCGAACCTCGTACCTC--AGAAACATA
* * *
17039540 AAGGGAAAGATCTAAGTCGCAACGGAAG-ATCCATTACCACGA-AGTCACAGAGGGAAAGGTTTA
1 AAGGGAAAGATTTAAGTCGCAAC-GACGAATCCAGTACCACGAGA-T-ACAGAGGGAAAGGTTTA
* *
17039603 AGTCGCAACGGCGAACCTTGTACCTCAGAGACATA
63 AGTCGCAACGGCGAACCTCGTACCTCAGAAACATA
* * *
17039638 AAGGGAAAGATTTAAG-CTGCAACGACGAATCCAGTACCACGAAGAAACATGAAGGGAAAGATCT
1 AAGGGAAAGATTTAAGTC-GCAACGACGAATCCAGTACCACG-AGATACA-G-AGGGAAAGGTTT
* * * * *
17039702 AAGCCGCAACGGTGGACC-CAGTACCAC-GAAGACA-C
62 AAGTCGCAACGGCGAACCTC-GTACCTCAGAA-ACATA
* * * *
17039737 AAGGGAAAGATTTAAGCCGCAAC-AGCGAATCCAGTATCACGAGGACACAGAGGGAAAGGCTTAA
1 AAGGGAAAGATTTAAGTCGCAACGA-CGAATCCAGTACCACGA-GATACAGAGGGAAAGGTTTAA
* * *
17039801 GTCGTAACGGCGAACCTTGTACCTCAGAGACATA
64 GTCGCAACGGCGAACCTCGTACCTCAGAAACATA
**
17039835 AAGGGAAAGATTTAAGTCGCAACGACGAATCCAGTACCACGA-ATATTTGAAGGGAAAGGTTTAA
1 AAGGGAAAGATTTAAGTCGCAACGACGAATCCAGTACCACGAGATA-CAG-AGGGAAAGGTTTAA
* *
17039899 GTCGCAATGGCGAACC-CGATACCTTAGAAACAT
64 GTCGCAACGGCGAACCTCG-TACCTCAGAAACAT
17039932 GACGAGAAAG
Statistics
Matches: 395, Mismatches: 68, Indels: 54
0.76 0.13 0.10
Matches are distributed among these distances:
94 3 0.01
95 4 0.01
96 67 0.17
97 38 0.10
98 127 0.32
99 81 0.21
100 72 0.18
101 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.14
Consensus pattern (97 bp):
AAGGGAAAGATTTAAGTCGCAACGACGAATCCAGTACCACGAGATACAGAGGGAAAGGTTTAAGT
CGCAACGGCGAACCTCGTACCTCAGAAACATA
Found at i:17040190 original size:101 final size:100
Alignment explanation
Indices: 17040015--17040218 Score: 300
Period size: 101 Copynumber: 2.0 Consensus size: 100
17040005 GCAAGTCTTT
* * * * *
17040015 GCAAGTCTTTATCTTTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTTAACGTCAATTCCTATCC
1 GCAAGTCTTTATCTCTCTGAAGTTACAGTAAGAGCAAGATGAAGCTTAAACATCAAATCCTATCC
*
17040080 TCTTGAAGTTGCAGTAAAGTTGGATTAAAAACAATA
66 TCTTGAAGTTGCAGCAAAGTTGGATT-AAAACAATA
* * *
17040116 GCAAGTCTTTATCTCTCTGAAGTTATAGTAAGAGCAAGATGAAGCTTAAACATCAAATCTTATCT
1 GCAAGTCTTTATCTCTCTGAAGTTACAGTAAGAGCAAGATGAAGCTTAAACATCAAATCCTATCC
* *
17040181 TCTTGAAGTTGCAGCGAAGTTGGATTAAAACTATA
66 TCTTGAAGTTGCAGCAAAGTTGGATTAAAACAATA
17040216 GCA
1 GCA
17040219 GCGGATCTCA
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 11 0.12
101 81 0.88
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (100 bp):
GCAAGTCTTTATCTCTCTGAAGTTACAGTAAGAGCAAGATGAAGCTTAAACATCAAATCCTATCC
TCTTGAAGTTGCAGCAAAGTTGGATTAAAACAATA
Found at i:17040416 original size:78 final size:78
Alignment explanation
Indices: 17040306--17040458 Score: 182
Period size: 78 Copynumber: 2.0 Consensus size: 78
17040296 GGCAAAATGC
** * * * *
17040306 AGCCATTCGATCTTTTACCTTGAACATGGGGTAAATCATCGCCAACCGATCTCTTACCCTGAG-T
1 AGCCATTCGATCTTTTACCCCGAACATAGGGTAAATCATCACCAACCAATCTCTTACCCCGAGCT
17040370 CTGGGGCAGATTAA
66 -TGGGGCAGATTAA
* * * * * *
17040384 AGCCATTTGATCTTTTACCCCGAGCTTAGGGTATATTATCATCAACCAATCTCTTACCCCGAGCT
1 AGCCATTCGATCTTTTACCCCGAACATAGGGTAAATCATCACCAACCAATCTCTTACCCCGAGCT
17040449 TGGGGCAGAT
66 TGGGGCAGAT
17040459 CATTGTCAAC
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
78 61 0.98
79 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (78 bp):
AGCCATTCGATCTTTTACCCCGAACATAGGGTAAATCATCACCAACCAATCTCTTACCCCGAGCT
TGGGGCAGATTAA
Found at i:17040441 original size:39 final size:40
Alignment explanation
Indices: 17040393--17040565 Score: 160
Period size: 39 Copynumber: 4.5 Consensus size: 40
17040383 AAGCCATTTG
* * * *
17040393 ATCTTTTACCCCGAGCTTAG-GGTATATTATCATCAACCA
1 ATCTCTTACCCCGAGCTTAGAGGCAGATCATCATCAACCA
* **
17040432 ATCTCTTACCCCGAGCTT-GGGGCAGATCATTGTCAACCA
1 ATCTCTTACCCCGAGCTTAGAGGCAGATCATCATCAACCA
* * * **
17040471 ATCTCTTA-CCTGAGC-TAGAGGCAGATTA-CAGCCATTCA
1 ATCTCTTACCCCGAGCTTAGAGGCAGATCATCA-TCAACCA
* *
17040509 ATCTCTTACCCCGAGCTT-GAAGCAGATCACCATCAACCA
1 ATCTCTTACCCCGAGCTTAGAGGCAGATCATCATCAACCA
*
17040548 ATCTCCTACCCCGAGCTT
1 ATCTCTTACCCCGAGCTT
17040566 GGGGCACATT
Statistics
Matches: 107, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
37 1 0.01
38 28 0.26
39 75 0.70
40 3 0.03
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (40 bp):
ATCTCTTACCCCGAGCTTAGAGGCAGATCATCATCAACCA
Found at i:17040525 original size:116 final size:117
Alignment explanation
Indices: 17040348--17040571 Score: 301
Period size: 116 Copynumber: 1.9 Consensus size: 117
17040338 AAATCATCGC
* * ** *
17040348 CAACCGATCTCTTACCCTGAGTCTGGGGCAGATTAAAGCCATTTGATCTTTTACCCCGAGCTT-A
1 CAACCAATCTCTTACCCTGAGTCTGAGGCAGATTAAAGCCATTCAATCTCTTACCCCGAGCTTGA
* * * * * *
17040412 GGGTATATTATCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGATCATTGT
66 -AGCAGATCACCATCAACCAATCTCCTACCCCGAGCTTGGGGCAGATCATTGT
*
17040465 CAACCAATCTCTTA-CCTGAG-CTAGAGGCAGATTACAGCCATTCAATCTCTTACCCCGAGCTTG
1 CAACCAATCTCTTACCCTGAGTCT-GAGGCAGATTAAAGCCATTCAATCTCTTACCCCGAGCTTG
17040528 AAGCAGATCACCATCAACCAATCTCCTACCCCGAGCTTGGGGCA
65 AAGCAGATCACCATCAACCAATCTCCTACCCCGAGCTTGGGGCA
17040572 CATTGTAGTT
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
115 2 0.02
116 77 0.83
117 14 0.15
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (117 bp):
CAACCAATCTCTTACCCTGAGTCTGAGGCAGATTAAAGCCATTCAATCTCTTACCCCGAGCTTGA
AGCAGATCACCATCAACCAATCTCCTACCCCGAGCTTGGGGCAGATCATTGT
Found at i:17041007 original size:17 final size:17
Alignment explanation
Indices: 17040985--17041074 Score: 83
Period size: 17 Copynumber: 5.2 Consensus size: 17
17040975 TTAATTTTTT
* *
17040985 AATTTACTTTAAGTTTG
1 AATTTACTTTAAATTTA
17041002 AATTTA-TTCTAAATTTA
1 AATTTACTT-TAAATTTA
* * * *
17041019 AATTCATTTTTGAGTTTA
1 AATTTA-CTTTAAATTTA
17041037 AATTTACTTTAAATTTA
1 AATTTACTTTAAATTTA
* *
17041054 AATTTATTTTAAATTAA
1 AATTTACTTTAAATTTA
17041071 AATT
1 AATT
17041075 AAAAAGCATC
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
16 2 0.03
17 44 0.75
18 11 0.19
19 2 0.03
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (17 bp):
AATTTACTTTAAATTTA
Found at i:17041035 original size:35 final size:35
Alignment explanation
Indices: 17040996--17041063 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
17040986 ATTTACTTTA
*
17040996 AGTTTGAATTTA-TTCTAAATTTAAATTCATTTTTG
1 AGTTTAAATTTACTT-TAAATTTAAATTCATTTTTG
*
17041031 AGTTTAAATTTACTTTAAATTTAAATTTATTTT
1 AGTTTAAATTTACTTTAAATTTAAATTCATTTT
17041064 AAATTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 28 0.93
36 2 0.07
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (35 bp):
AGTTTAAATTTACTTTAAATTTAAATTCATTTTTG
Found at i:17041856 original size:15 final size:15
Alignment explanation
Indices: 17041836--17041868 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
17041826 TAAATATATT
*
17041836 TAATAATTTTATTAA
1 TAATAATATTATTAA
17041851 TAATAATATTATTAA
1 TAATAATATTATTAA
17041866 TAA
1 TAA
17041869 ATAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATAATATTATTAA
Found at i:17043100 original size:29 final size:29
Alignment explanation
Indices: 17043067--17043250 Score: 148
Period size: 29 Copynumber: 6.3 Consensus size: 29
17043057 AAAACATTAT
17043067 ATTTTTACCCCCAAACTTTCCAAAATT-CC
1 ATTTTTACCCCCAAA-TTTCCAAAATTACC
** **
17043096 ATTTTTGACCCTGATTTTTCCAAAATTTACC
1 ATTTTT-ACCCCCAAATTTCCAAAA-TTACC
* *
17043127 A-TTTTACCCCTAAATATCCAAAAATT-CC
1 ATTTTTACCCCCAAATTTCC-AAAATTACC
* * *
17043155 ATTTTTAACCTCAAAACTTCCAAAATTTACC
1 ATTTTT-ACCCCCAAATTTCCAAAA-TTACC
*
17043186 A-TTTTACCCCCAAATGTCCAAAAATT-CC
1 ATTTTTACCCCCAAATTTCC-AAAATTACC
* *
17043214 ATTTTGA-CCTCAAATTTCCAAAATTACC
1 ATTTTTACCCCCAAATTTCCAAAATTACC
17043242 A-TTTTACCC
1 ATTTTTACCC
17043251 TCGAATGCTT
Statistics
Matches: 122, Mismatches: 21, Indels: 25
0.73 0.12 0.15
Matches are distributed among these distances:
27 10 0.08
28 21 0.17
29 50 0.41
30 35 0.29
31 6 0.05
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (29 bp):
ATTTTTACCCCCAAATTTCCAAAATTACC
Found at i:17043325 original size:29 final size:29
Alignment explanation
Indices: 17043114--17043382 Score: 177
Period size: 29 Copynumber: 9.2 Consensus size: 29
17043104 CCCTGATTTT
* * *
17043114 TCCAAAATTTACCATTTTACCC-CTAAATA
1 TCCAAAAATTACCATTTTACCCTC-GAATG
* *
17043143 TCCAAAAATT-CCATTTTTAACCTCAAAACT-
1 TCCAAAAATTACCA-TTTTACCCTC-GAA-TG
* * *
17043173 TCCAAAATTTACCATTTTACCCCCAAATG
1 TCCAAAAATTACCATTTTACCCTCGAATG
* *
17043202 TCCAAAAATT-CCATTTTGA-CCTCAAATT
1 TCCAAAAATTACCATTTT-ACCCTCGAATG
17043230 TCC-AAAATTACCATTTTACCCTCGAATG
1 TCCAAAAATTACCATTTTACCCTCGAATG
* * * *
17043258 -CTTAAAAACT-CTATTTTTAACCTCGAACCT-
1 TC-CAAAAATTACCA-TTTTACCCTCGAA--TG
*
17043288 TCCAAAAATTACCATTTTACCCTTGAATG
1 TCCAAAAATTACCATTTTACCCTCGAATG
*
17043317 TCTAAAAATT-CCATTTTTGACCCT-GAACCT-
1 TCCAAAAATTACCA-TTTT-ACCCTCGAA--TG
17043347 TCCAAAAATTACCATTTTACCCTCGAGA-G
1 TCCAAAAATTACCATTTTACCCTCGA-ATG
17043376 TCCAAAA
1 TCCAAAA
17043383 TTATTGTTTA
Statistics
Matches: 194, Mismatches: 22, Indels: 48
0.73 0.08 0.18
Matches are distributed among these distances:
27 8 0.04
28 41 0.21
29 74 0.38
30 58 0.30
31 13 0.07
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.33
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTACCCTCGAATG
Found at i:17043369 original size:59 final size:59
Alignment explanation
Indices: 17043069--17043370 Score: 296
Period size: 59 Copynumber: 5.2 Consensus size: 59
17043059 AACATTATAT
* * * *** *
17043069 TTTTACCCCCAAACTTTCC-AAAATTCCATTTTTGACCCTGATTTTTCCAAAATTTACCA
1 TTTTACCCTCAAA-TGTCCAAAAATTCCATTTTTGAACCTGAAACTTCCAAAAATTACCA
* * *
17043128 TTTTACCC-CTAAATATCCAAAAATTCCATTTTT-AACCTCAAAACTTCCAAAATTTACCA
1 TTTTACCCTC-AAATGTCCAAAAATTCCATTTTTGAACCT-GAAACTTCCAAAAATTACCA
* * *
17043187 TTTTACCCCCAAATGTCCAAAAATTCCA-TTTTG-ACCTCAAATTTCC-AAAATTACCA
1 TTTTACCCTCAAATGTCCAAAAATTCCATTTTTGAACCTGAAACTTCCAAAAATTACCA
* * * * *
17043243 TTTTACCCTCGAATG-CTTAAAAACTCTATTTTT-AACCTCGAACCTTCCAAAAATTACCA
1 TTTTACCCTCAAATGTC-CAAAAATTCCATTTTTGAACCT-GAAACTTCCAAAAATTACCA
** * * *
17043302 TTTTACCCTTGAATGTCTAAAAATTCCATTTTTGACCCTGAACCTTCCAAAAATTACCA
1 TTTTACCCTCAAATGTCCAAAAATTCCATTTTTGAACCTGAAACTTCCAAAAATTACCA
17043361 TTTTACCCTC
1 TTTTACCCTC
17043371 GAGAGTCCAA
Statistics
Matches: 208, Mismatches: 23, Indels: 24
0.82 0.09 0.09
Matches are distributed among these distances:
55 1 0.00
56 30 0.14
57 15 0.07
58 23 0.11
59 133 0.64
60 6 0.03
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (59 bp):
TTTTACCCTCAAATGTCCAAAAATTCCATTTTTGAACCTGAAACTTCCAAAAATTACCA
Found at i:17047164 original size:12 final size:12
Alignment explanation
Indices: 17047143--17047174 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
17047133 GCAGAAACCA
*
17047143 AAAAGCAAAAGC
1 AAAAGTAAAAGC
17047155 AAAAGTAAAAGC
1 AAAAGTAAAAGC
17047167 AAAAGTAA
1 AAAAGTAA
17047175 TCATCTGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.09, G:0.16, T:0.06
Consensus pattern (12 bp):
AAAAGTAAAAGC
Found at i:17052181 original size:19 final size:19
Alignment explanation
Indices: 17052134--17052171 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
17052124 ATGTAAAAGC
17052134 TGTAATTTTTTACATTTAA
1 TGTAATTTTTTACATTTAA
17052153 TGTAATTTTTTACATTTAA
1 TGTAATTTTTTACATTTAA
17052172 CTTCTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (19 bp):
TGTAATTTTTTACATTTAA
Found at i:17054493 original size:6 final size:6
Alignment explanation
Indices: 17054482--17054560 Score: 86
Period size: 6 Copynumber: 13.2 Consensus size: 6
17054472 GTAACTAGTG
* * * * **
17054482 CACCAT CACCAT CACCAT CGCGAT CACGAT CACCGT CACCAT CACGGT
1 CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT CACCAT
* *
17054530 CACGAT CACCAT CATCAT CACCAT CACCAT C
1 CACCAT CACCAT CACCAT CACCAT CACCAT C
17054561 TCCTTCATCT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 61 1.00
ACGTcount: A:0.29, C:0.44, G:0.09, T:0.18
Consensus pattern (6 bp):
CACCAT
Found at i:17054520 original size:24 final size:24
Alignment explanation
Indices: 17054486--17054556 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
17054476 CTAGTGCACC
*
17054486 ATCACCATCACCATCGCGATCACG
1 ATCACCATCACCATCACGATCACG
* *
17054510 ATCACCGTCACCATCACGGTCACG
1 ATCACCATCACCATCACGATCACG
* *
17054534 ATCACCATCATCATCACCATCAC
1 ATCACCATCACCATCACGATCAC
17054557 CATCTCCTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.30, C:0.42, G:0.10, T:0.18
Consensus pattern (24 bp):
ATCACCATCACCATCACGATCACG
Found at i:17056471 original size:16 final size:18
Alignment explanation
Indices: 17056447--17056480 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
17056437 ATTTAATTTT
17056447 ATATAAATTTTTA-ATAA
1 ATATAAATTTTTACATAA
17056464 ATAT-AATTTTTACATAA
1 ATATAAATTTTTACATAA
17056481 TTTTTTACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATAAATTTTTACATAA
Found at i:17061274 original size:19 final size:19
Alignment explanation
Indices: 17061238--17061274 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17061228 ACCAAAAGTT
* *
17061238 TTTGAAGCTTTTACTTTTA
1 TTTGAAGCTTGTAATTTTA
17061257 TTTGAAGCTTGTAATTTT
1 TTTGAAGCTTGTAATTTT
17061275 CGTCTTGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.08, G:0.14, T:0.57
Consensus pattern (19 bp):
TTTGAAGCTTGTAATTTTA
Found at i:17074027 original size:58 final size:56
Alignment explanation
Indices: 17073965--17074113 Score: 149
Period size: 56 Copynumber: 2.6 Consensus size: 56
17073955 AGCTTAGGTA
** *
17073965 AAATTAGGAAAAAATACCAAGTTCGGGTACCAAATTGGGTCCAAAAAGTTTAG-ATACC
1 AAATTAGGAAAAAATACCAAGTTCAAGTACCAAATTAGGT-CAAAAA-TTT-GCATACC
* ** *
17074023 AAATTAGGAAAAATTGTCAAGTTCAAGTACCAAGTTAGGTCAAAAATTTGCATACC
1 AAATTAGGAAAAAATACCAAGTTCAAGTACCAAATTAGGTCAAAAATTTGCATACC
* ** *
17074079 AAATTA-AAAAAAAGTGTCAAGTTCAAGTACTAAAT
1 AAATTAGGAAAAAA-TACCAAGTTCAAGTACCAAAT
17074114 GTTATATTAA
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
55 6 0.08
56 33 0.42
57 6 0.08
58 33 0.42
ACGTcount: A:0.46, C:0.13, G:0.16, T:0.25
Consensus pattern (56 bp):
AAATTAGGAAAAAATACCAAGTTCAAGTACCAAATTAGGTCAAAAATTTGCATACC
Found at i:17074097 original size:56 final size:58
Alignment explanation
Indices: 17073982--17074113 Score: 162
Period size: 56 Copynumber: 2.3 Consensus size: 58
17073972 GAAAAAATAC
** * ** *
17073982 CAAGTTCGGGTACCAAATTGGGTCCAAAAAGTTTAGATACCAAATTAGGAAAAATTGT
1 CAAGTTCAAGTACCAAATTAGGTCCAAAAAGTTTAGATACCAAATTAAAAAAAAGTGT
*
17074040 CAAGTTCAAGTACCAAGTTAGGT-CAAAAA-TTT-GCATACCAAATTAAAAAAAAGTGT
1 CAAGTTCAAGTACCAAATTAGGTCCAAAAAGTTTAG-ATACCAAATTAAAAAAAAGTGT
*
17074096 CAAGTTCAAGTACTAAAT
1 CAAGTTCAAGTACCAAAT
17074114 GTTATATTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
55 1 0.02
56 38 0.59
57 6 0.09
58 19 0.30
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (58 bp):
CAAGTTCAAGTACCAAATTAGGTCCAAAAAGTTTAGATACCAAATTAAAAAAAAGTGT
Found at i:17075695 original size:3 final size:3
Alignment explanation
Indices: 17075687--17075711 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
17075677 TAGACTTCAT
17075687 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
17075712 AGTGTGTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:17076899 original size:16 final size:16
Alignment explanation
Indices: 17076875--17076905 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17076865 ATCACGTAGG
17076875 ATTAATTATTTTTTTT
1 ATTAATTATTTTTTTT
*
17076891 ATTATTTATTTTTTT
1 ATTAATTATTTTTTT
17076906 AAAAATAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTAATTATTTTTTTT
Found at i:17081901 original size:21 final size:23
Alignment explanation
Indices: 17081861--17081902 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
17081851 AAAAAAACCT
*
17081861 AGTATAAGAAAATATATTTTCAA
1 AGTAAAAGAAAATATATTTTCAA
17081884 AGTAAAAG-AAAT-TATTTTC
1 AGTAAAAGAAAATATATTTTC
17081903 TCTTTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.36
Consensus pattern (23 bp):
AGTAAAAGAAAATATATTTTCAA
Found at i:17082737 original size:20 final size:18
Alignment explanation
Indices: 17082698--17082733 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17082688 CTACCAAAAA
17082698 TAAAATATATATTTAAAT
1 TAAAATATATATTTAAAT
*
17082716 TAAACTATATATTTAAAT
1 TAAAATATATATTTAAAT
17082734 ATTATATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAATATATATTTAAAT
Found at i:17083046 original size:22 final size:23
Alignment explanation
Indices: 17082998--17083046 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
17082988 GGTACCACCA
** *
17082998 AAAAAAAAGAAATTTAAATTTTT
1 AAAAAAAAGAAATTTAAATCATG
*
17083021 AAAAAATA-AAATTTAAATCATG
1 AAAAAAAAGAAATTTAAATCATG
17083043 AAAA
1 AAAA
17083047 GAGAAAATCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (23 bp):
AAAAAAAAGAAATTTAAATCATG
Found at i:17085889 original size:6 final size:6
Alignment explanation
Indices: 17085878--17085902 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
17085868 TTTGACTTCT
17085878 TCTTGC TCTTGC TCTTGC TCTTGC T
1 TCTTGC TCTTGC TCTTGC TCTTGC T
17085903 TGGAGCTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.16, T:0.52
Consensus pattern (6 bp):
TCTTGC
Found at i:17088048 original size:31 final size:31
Alignment explanation
Indices: 17088012--17088072 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
17088002 CAATTCGATC
*
17088012 ACTGAACCATTCGAAA-GTTTTCATTTAAGTA
1 ACTGAACCATTC-AAATGTTTTCATTAAAGTA
* *
17088043 ACTGAACTATTCAAATGTTTTTATTAAAGT
1 ACTGAACCATTCAAATGTTTTCATTAAAGT
17088073 TATTGGATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (31 bp):
ACTGAACCATTCAAATGTTTTCATTAAAGTA
Found at i:17091436 original size:21 final size:21
Alignment explanation
Indices: 17091412--17091461 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
17091402 TTATACAATT
17091412 ATATTATTT-ATATATTTAAAA
1 ATATTATTTAATATA-TTAAAA
**
17091433 ATATTAACTAATATATTAAAA
1 ATATTATTTAATATATTAAAA
*
17091454 AAATTATT
1 ATATTATT
17091462 ATTATGAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATTATTTAATATATTAAAA
Found at i:17099876 original size:24 final size:24
Alignment explanation
Indices: 17099830--17099876 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
17099820 TTGTGAGAAT
****
17099830 TAGATGACTGTGTAGGTTTCTATG
1 TAGATGACTGTGTAGAAAACTATG
17099854 TAGATGACTGTGTAGAAAACTAT
1 TAGATGACTGTGTAGAAAACTAT
17099877 TCAGGTGACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.09, G:0.26, T:0.36
Consensus pattern (24 bp):
TAGATGACTGTGTAGAAAACTATG
Found at i:17103120 original size:31 final size:31
Alignment explanation
Indices: 17103085--17103191 Score: 112
Period size: 31 Copynumber: 3.5 Consensus size: 31
17103075 TCGATACTTG
17103085 AACTTGACACTTTTTCCTAATTTGGTACCTA
1 AACTTGACACTTTTTCCTAATTTGGTACCTA
*** * *
17103116 AACTT--TTTTTTTTGGCTAATTTGATA-CTCA
1 AACTTGACACTTTTT-CCTAATTTGGTACCT-A
*
17103146 AACTTGACACTGTTTCCTAATTTGGTACCTA
1 AACTTGACACTTTTTCCTAATTTGGTACCTA
*
17103177 AACTTAACACTTTTT
1 AACTTGACACTTTTT
17103192 TTTAAGTTAG
Statistics
Matches: 58, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
29 7 0.12
30 16 0.28
31 29 0.50
32 6 0.10
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.45
Consensus pattern (31 bp):
AACTTGACACTTTTTCCTAATTTGGTACCTA
Found at i:17103515 original size:29 final size:29
Alignment explanation
Indices: 17103417--17103520 Score: 88
Period size: 29 Copynumber: 3.5 Consensus size: 29
17103407 ATTTAATAAA
* * *
17103417 TTTATGTACCAAATTGAATCTAAAAAAAG
1 TTTAGGTACCAAATTGAGTCAAAAAAAAG
* *
17103446 CTTAGGTACCAAATT-AG-GAAAAAATGCCAAG
1 TTTAGGTACCAAATTGAGTCAAAAAA----AAG
*
17103477 TTT-GGATACCAAATTGAGTCCAAAAAAAG
1 TTTAGG-TACCAAATTGAGTCAAAAAAAAG
17103506 TTTAGGTACCAAATT
1 TTTAGGTACCAAATT
17103521 AAGAAAAAGT
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
27 5 0.08
28 1 0.02
29 28 0.47
30 4 0.07
31 14 0.24
32 2 0.03
33 5 0.08
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (29 bp):
TTTAGGTACCAAATTGAGTCAAAAAAAAG
Found at i:17103547 original size:31 final size:31
Alignment explanation
Indices: 17103512--17103668 Score: 100
Period size: 31 Copynumber: 5.3 Consensus size: 31
17103502 AAAGTTTAGG
*
17103512 TACCAAATTAAGAAAAAGTGTCAAGTTCAAA
1 TACCAAATTAGGAAAAAGTGTCAAGTTCAAA
* **
17103543 TACCAAATTGGGTCAAAAA-----AAGTTCAGG
1 TACCAAATTAGG--AAAAAGTGTCAAGTTCAAA
**
17103571 TATTAAATTAGGAAAAAGTGTCAAGTTCAAA
1 TACCAAATTAGGAAAAAGTGTCAAGTTCAAA
* **
17103602 TACCAAATTGGGTCAAAAA-----AAGTTCAGG
1 TACCAAATTAGG--AAAAAGTGTCAAGTTCAAA
** *
17103630 TATTAAATTAGGAAAAAGTGTCATGTTCAAA
1 TACCAAATTAGGAAAAAGTGTCAAGTTCAAA
17103661 TACCAAAT
1 TACCAAAT
17103669 ATTATATTAA
Statistics
Matches: 90, Mismatches: 22, Indels: 28
0.64 0.16 0.20
Matches are distributed among these distances:
26 10 0.11
28 32 0.36
31 38 0.42
33 10 0.11
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.25
Consensus pattern (31 bp):
TACCAAATTAGGAAAAAGTGTCAAGTTCAAA
Found at i:17103572 original size:59 final size:59
Alignment explanation
Indices: 17103423--17103668 Score: 323
Period size: 59 Copynumber: 4.1 Consensus size: 59
17103413 TAAATTTATG
* * * ***
17103423 TACCAAATTGAATCTAAAAAAAGCTT-AGGTACCAAATTAGGAAAAAATGCCAAGTTTGGA
1 TACCAAATTGAGTC-AAAAAAAG-TTCAGGTACCAAATTAGGAAAAAGTGTCAAGTTCAAA
* *
17103483 TACCAAATTGAGTCCAAAAAAAGTTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAAA
1 TACCAAATTGAGT-CAAAAAAAGTTCAGGTACCAAATTAGGAAAAAGTGTCAAGTTCAAA
* **
17103543 TACCAAATTGGGTCAAAAAAAGTTCAGGTATTAAATTAGGAAAAAGTGTCAAGTTCAAA
1 TACCAAATTGAGTCAAAAAAAGTTCAGGTACCAAATTAGGAAAAAGTGTCAAGTTCAAA
* ** *
17103602 TACCAAATTGGGTCAAAAAAAGTTCAGGTATTAAATTAGGAAAAAGTGTCATGTTCAAA
1 TACCAAATTGAGTCAAAAAAAGTTCAGGTACCAAATTAGGAAAAAGTGTCAAGTTCAAA
17103661 TACCAAAT
1 TACCAAAT
17103669 ATTATATTAA
Statistics
Matches: 171, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
59 110 0.64
60 60 0.35
61 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (59 bp):
TACCAAATTGAGTCAAAAAAAGTTCAGGTACCAAATTAGGAAAAAGTGTCAAGTTCAAA
Found at i:17103578 original size:28 final size:28
Alignment explanation
Indices: 17103547--17103638 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
17103537 TTCAAATACC
17103547 AAATTGGGTCAAAAAAAGTTCAGGTATT
1 AAATTGGGTCAAAAAAAGTTCAGGTATT
* ** **
17103575 AAATTAGG--AAAAAGTGTCAAGTTCAAATACC
1 AAATTGGGTCAAAAA-----AAGTTCAGGTATT
17103606 AAATTGGGTCAAAAAAAGTTCAGGTATT
1 AAATTGGGTCAAAAAAAGTTCAGGTATT
17103634 AAATT
1 AAATT
17103639 AGGAAAAAGT
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
26 5 0.11
28 21 0.45
31 16 0.34
33 5 0.11
ACGTcount: A:0.46, C:0.09, G:0.18, T:0.27
Consensus pattern (28 bp):
AAATTGGGTCAAAAAAAGTTCAGGTATT
Found at i:17103710 original size:4 final size:4
Alignment explanation
Indices: 17103701--17103733 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
17103691 TACATCATGT
17103701 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
17103734 GATGAAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:17106403 original size:3 final size:3
Alignment explanation
Indices: 17106395--17106440 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
17106385 AAGCTAGGGA
*
17106395 AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
17106441 CTGTTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:17116597 original size:118 final size:119
Alignment explanation
Indices: 17116414--17116687 Score: 462
Period size: 118 Copynumber: 2.3 Consensus size: 119
17116404 GACTATAGTA
* * * *
17116414 TAAATTGCACCTTCCGTTAATTAGTACTTTAACTACCATCAAGCTGCAGCTAAAATTTTATGGAT
1 TAAATTGCACCTTTCGTTAATTAGTACTTTAACTACCATCAAGCTACAGCTAAAATTCTACGGAT
*
17116479 ACATAGCATACCATTTAAAGCTTGATCTATGTTCTTGACTATA-TTATCACTCG
66 AAATAGCATACCATTTAAAGCTTGATCTATGTTCTTGACTATATTTATCACTCG
*
17116532 TAAATTGCACCTTTCGTTAATTAGTACTTTAACTACCATCAAGCTACAGCTAAGATTCTACGGAT
1 TAAATTGCACCTTTCGTTAATTAGTACTTTAACTACCATCAAGCTACAGCTAAAATTCTACGGAT
*
17116597 AAATAGCATACCATTTAAAGCTTGATCTATGTTCTTGACTATATTTATCACTTG
66 AAATAGCATACCATTTAAAGCTTGATCTATGTTCTTGACTATATTTATCACTCG
17116651 TAAATTGCACC-TTCTGTTAATTAGTACTTTAACTACC
1 TAAATTGCACCTTTC-GTTAATTAGTACTTTAACTACC
17116688 GCTAAGATTC
Statistics
Matches: 147, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
118 105 0.71
119 42 0.29
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (119 bp):
TAAATTGCACCTTTCGTTAATTAGTACTTTAACTACCATCAAGCTACAGCTAAAATTCTACGGAT
AAATAGCATACCATTTAAAGCTTGATCTATGTTCTTGACTATATTTATCACTCG
Found at i:17117815 original size:16 final size:16
Alignment explanation
Indices: 17117772--17117813 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
17117762 TTTTTAAACG
17117772 TATTTTTGAAATAAAAA
1 TATTTTT-AAATAAAAA
*
17117789 TATTATTAAAT-AAAA
1 TATTTTTAAATAAAAA
17117804 TATTTTTAAA
1 TATTTTTAAA
17117814 ATTTTCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 4 0.17
17 6 0.26
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
TATTTTTAAATAAAAA
Found at i:17120699 original size:12 final size:12
Alignment explanation
Indices: 17120684--17120716 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
17120674 TCTTTTTACT
17120684 TTTTTAAAAATA
1 TTTTTAAAAATA
17120696 -TTTTATAAAATA
1 TTTTTA-AAAATA
17120708 TTTTTAAAA
1 TTTTTAAAA
17120717 GTAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.26
12 9 0.47
13 5 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTTAAAAATA
Found at i:17121049 original size:22 final size:22
Alignment explanation
Indices: 17121021--17121063 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
17121011 ACATTTTAAC
17121021 AGATTTAATGAATAAATTCAAG
1 AGATTTAATGAATAAATTCAAG
17121043 AGATTTAATGAATAAATTCAA
1 AGATTTAATGAATAAATTCAA
17121064 TGTTTCAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.33
Consensus pattern (22 bp):
AGATTTAATGAATAAATTCAAG
Found at i:17121616 original size:25 final size:27
Alignment explanation
Indices: 17121557--17121608 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
17121547 GGAGTAAGAG
*
17121557 AATTTTTAATAATTTTAATTAATATTT
1 AATTTTAAATAATTTTAATTAATATTT
17121584 AATTTTAAATAA-TTT-ATTAATATTT
1 AATTTTAAATAATTTTAATTAATATTT
17121609 GTCTTTAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 10 0.42
26 3 0.12
27 11 0.46
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
AATTTTAAATAATTTTAATTAATATTT
Found at i:17123059 original size:15 final size:15
Alignment explanation
Indices: 17123039--17123067 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17123029 CCTGTAAATT
17123039 CAAATCCAACCAATG
1 CAAATCCAACCAATG
17123054 CAAATCCAACCAAT
1 CAAATCCAACCAAT
17123068 AACTTCAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.34, G:0.03, T:0.14
Consensus pattern (15 bp):
CAAATCCAACCAATG
Found at i:17123297 original size:21 final size:21
Alignment explanation
Indices: 17123273--17123315 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
17123263 CTGCTTCTTT
17123273 CGCTAGCCTCGCTGCTGCCTC
1 CGCTAGCCTCGCTGCTGCCTC
*
17123294 CGCTTGCCTCGCTGCTGCCTC
1 CGCTAGCCTCGCTGCTGCCTC
17123315 C
1 C
17123316 ACTTTAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.49, G:0.23, T:0.26
Consensus pattern (21 bp):
CGCTAGCCTCGCTGCTGCCTC
Found at i:17123312 original size:11 final size:11
Alignment explanation
Indices: 17123278--17123314 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
17123268 TCTTTCGCTA
17123278 GCCTCGCTGCT
1 GCCTCGCTGCT
17123289 GCCTC-C-GCTT
1 GCCTCGCTGC-T
17123299 GCCTCGCTGCT
1 GCCTCGCTGCT
17123310 GCCTC
1 GCCTC
17123315 CACTTTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 2 0.09
10 7 0.30
11 12 0.52
12 2 0.09
ACGTcount: A:0.00, C:0.49, G:0.24, T:0.27
Consensus pattern (11 bp):
GCCTCGCTGCT
Found at i:17123447 original size:65 final size:66
Alignment explanation
Indices: 17123301--17123457 Score: 226
Period size: 65 Copynumber: 2.4 Consensus size: 66
17123291 CTCCGCTTGC
* * * *
17123301 CTCGCTGCTGCCTCCACTTTAAGTTGTAGGTGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTC
1 CTCGCTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTC
17123366 T
66 T
* * * * *
17123367 CTCACTGCAACCTCCTCTTTAAGTTTTAGATGGAGTTCATCATA-TTTTTTTGAGCCTCTGCTTT
1 CTCGCTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTC
17123431 T
66 T
17123432 CTCGCTGCAGCCTCCTCTTTAAGTTG
1 CTCGCTGCAGCCTCCTCTTTAAGTTG
17123458 AGCAATTTGC
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
65 42 0.53
66 37 0.47
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.43
Consensus pattern (66 bp):
CTCGCTGCAGCCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTC
T
Found at i:17129366 original size:69 final size:69
Alignment explanation
Indices: 17129285--17129464 Score: 220
Period size: 68 Copynumber: 2.6 Consensus size: 69
17129275 TAAACTAAAT
*
17129285 AATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATAA-ATA
1 AATTAAATATTTG-ATTGTTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATAACACA
17129349 TTTGG
65 TTTGG
* * * *
17129354 AATTAAATATTTGGATTG-TTTTAATAATAAAATATTTAATTAAATGTATTTAAATAATAACACA
1 AATTAAATATTT-GATTGTTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATAACACA
**
17129418 TTTTT
65 TTTGG
* * *
17129423 AATTAAATATTTCGGTTGTTTTTAATAAATAATTAATTAAAT
1 AATTAAATATTT-GATTGTTTTTAATAATTAAAT-ATTAAAT
17129465 ATTTAAATAA
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
68 38 0.40
69 37 0.39
70 13 0.14
71 6 0.06
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (69 bp):
AATTAAATATTTGATTGTTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATAACACAT
TTGG
Found at i:17129395 original size:68 final size:67
Alignment explanation
Indices: 17129285--17129475 Score: 230
Period size: 69 Copynumber: 2.8 Consensus size: 67
17129275 TAAACTAAAT
* * *
17129285 AATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATAA-ATA
1 AATTAAATATTTGGATTG-TTTTAATAA-TAAATATTTAATTAAATAT-ATTAAATAATAACACA
17129349 TTTGG
63 TTTGG
*
17129354 AATTAAATATTTGGATTGTTTTAATAATAAAATATTTAATTAAATGTATTTAAATAATAACACAT
1 AATTAAATATTTGGATTGTTTTAATAAT-AAATATTTAATTAAATATA-TTAAATAATAACACAT
**
17129419 TTTT
64 TTGG
*
17129423 AATTAAATATTTCGG-TTGTTTT--TAATAAATAATTAATTAAATAT-TTAAATAAT
1 AATTAAATATTT-GGATTGTTTTAATAATAAATATTTAATTAAATATATTAAATAAT
17129476 TGGATTGTTT
Statistics
Matches: 110, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
64 9 0.08
66 16 0.15
67 6 0.05
68 36 0.33
69 41 0.37
70 2 0.02
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.46
Consensus pattern (67 bp):
AATTAAATATTTGGATTGTTTTAATAATAAATATTTAATTAAATATATTAAATAATAACACATTT
GG
Found at i:17129434 original size:30 final size:29
Alignment explanation
Indices: 17129376--17129434 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
17129366 GGATTGTTTT
17129376 AATAATAAAATATTTAATTAAATGTATTTA
1 AATAATAAAATATTTAATTAAA-GTATTTA
*
17129406 AATAATAACACATTTTTAATTAAA-TATTT
1 AATAATAA-A-ATATTTAATTAAAGTATTT
17129435 CGGTTGTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 13 0.50
31 1 0.04
32 12 0.46
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (29 bp):
AATAATAAAATATTTAATTAAAGTATTTA
Found at i:17129442 original size:188 final size:182
Alignment explanation
Indices: 17129202--17129562 Score: 467
Period size: 188 Copynumber: 2.0 Consensus size: 182
17129192 TTATTTTTAA
* * * *
17129202 TAATTAAATATAATTAAGTAATTAAATATTTTGAAATAAGTATTTGGGTTGTTTTTAATAAATAA
1 TAATTAAATATAATTAAATAATTAAACATTTTGAAATAAATATTTCGGTTGTTTTTAATAAATAA
* *
17129267 CTAATTATTAAACTAAATAATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATTAAATA
66 -T--TAATTAAA-T--AT--TTAAATAATTGAATTGTTTTTAATAATTAAATATTAAATTAAATA
17129332 TAATTAAATAA-TAAATATTTGGAATTAAATATTTGGATTG-TTTTAATAATAAAATATT
123 TAATTAAATAATTAAATATTTGGAATTAAATATTTGGATTGTTTTTAATAATAAAATATT
* * * *
17129390 TAATTAAATGTATTTAAATAA-TAACACATTTTTAATTAAATATTTCGGTTGTTTTTAATAAATA
1 TAATTAAATATAATTAAATAATTAA-ACATTTTGAAATAAATATTTCGGTTGTTTTTAATAAATA
* * *
17129454 ATTAATTAAATATTTAAATAATTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAA
65 ATTAATTAAATATTTAAATAATTGAATTGTTTTTAATAATTAAATATTAAATTAAATATAATTAA
* * * *
17129519 GTAATTAAATATTTTGAATTAAGTATTTGGGTTGTTTTTAATAA
130 ATAATTAAATATTTGGAATTAAATATTTGGATTGTTTTTAATAA
17129563 ATAACTAATT
Statistics
Matches: 153, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
180 51 0.33
181 26 0.17
182 11 0.07
184 1 0.01
185 7 0.05
187 4 0.03
188 53 0.35
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.47
Consensus pattern (182 bp):
TAATTAAATATAATTAAATAATTAAACATTTTGAAATAAATATTTCGGTTGTTTTTAATAAATAA
TTAATTAAATATTTAAATAATTGAATTGTTTTTAATAATTAAATATTAAATTAAATATAATTAAA
TAATTAAATATTTGGAATTAAATATTTGGATTGTTTTTAATAATAAAATATT
Found at i:17129488 original size:112 final size:111
Alignment explanation
Indices: 17129356--17129711 Score: 394
Period size: 120 Copynumber: 3.1 Consensus size: 111
17129346 ATATTTGGAA
* * * * *
17129356 TTAAATATTTGGATTG-TTTTAATAATAAAATATTTAATTAAATGTATTTAAATAATAACACATT
1 TTAAATAATTGGATTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAATAATAA-ATATT
*
17129420 TTTAATTAAATATTTCGGTTGTTTTTAATAAATAATTAATTAAA-TAT
65 TTGAATTAAATATTT-GGTTGTTTTTAATAAATAATTAATTAAACTAT
* *
17129467 TTAAATAATTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAAGTAATTAAATATT
1 TTAAATAATTGGATTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAATAA-TAAATATT
* *
17129532 TTGAATTAAGTATTTGGGTTGTTTTTAATAAATAACTAATTATTAAACTAAAT
65 TTGAATTAAATATTT-GGTTGTTTTTAATAAATAA-T--TAATTAAACT--AT
* * * *
17129585 AATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATTATATA
1 --TTAAATAATTGGATTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAATAA-TAAATA
* *
17129650 TTTTGAATTAAATATTTGGATT-TTTTAATAATTAAATATTTAATTAAATGTAT
63 TTTTGAATTAAATATTTGG-TTGTTTT--TAA-TAAATAATTAATTAAA-CTAT
17129703 TTAAATAAT
1 TTAAATAAT
17129712 AACATATTTT
Statistics
Matches: 208, Mismatches: 22, Indels: 25
0.82 0.09 0.10
Matches are distributed among these distances:
111 15 0.07
112 70 0.34
113 4 0.02
115 7 0.03
116 9 0.04
118 4 0.02
119 13 0.06
120 76 0.37
121 4 0.02
122 6 0.03
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.48
Consensus pattern (111 bp):
TTAAATAATTGGATTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAATAATAAATATTT
TGAATTAAATATTTGGTTGTTTTTAATAAATAATTAATTAAACTAT
Found at i:17129637 original size:180 final size:174
Alignment explanation
Indices: 17129280--17129819 Score: 479
Period size: 180 Copynumber: 3.0 Consensus size: 174
17129270 ATTATTAAAC
* *
17129280 TAAATAATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATA
1 TAAATAATTAAATATTTGGATTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAATAATA
* * * * **
17129345 AATATTTGGAATTAAATATTTGGATTG-TTTTAATAATAAAATATTTAATTAAATGTAT-TTAAA
66 AATATTTTGAATTAAATATTTGGGTTGTTTTTAATAA-ATAATAATT-ATTAAATAAATATTAAA
*** * *** ** *
17129408 TAATAACACATT-TTTAATTAAATATTTCGGTTGTTTTTAATAAATAATTAAT
129 T-ATTTGA-ATTGTTT--TT-AATAATTAAATT-TAATTAA-ATATAATTAAT
* * * *
17129460 TAAATATTTAAATAATTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAAGTAATT
1 TAAATAATTAAATATTTGGATTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAATAA-T
*
17129525 AAATATTTTGAATTAAGTATTTGGGTTGTTTTTAATAAATAACTAATTATTAAACTAAATAATTA
65 AAATATTTTGAATTAAATATTTGGGTTGTTTTTAATAAATAA-TAATTATTAAA-TAAAT-ATTA
17129590 AATATTTGAATTGTTTTTAATAATTAAATATTAAATTAAATATAATTAAATAAT
127 AATATTTGAATTGTTTTTAATAATTAAAT-TT-AATTAAATATAA-T---TAAT
* *
17129644 TATATATTTTGAATTAAATATTTGGA-T-TTTTTAATAATTAAATATTTAATTAAATGTATTTAA
1 TA-A-A---T-AATTAAATATTTGGATTGTTTTTAATAATTAAATATTTAATTAAATATAATTAA
* * *
17129707 ATAATAACATATTTTTAATTAAATATTTCGGTTGTTTTTAATAAATAAT--TAATTAAAT--AT-
60 ATAATAA-ATATTTTGAATTAAATATTTGGGTTGTTTTTAATAAATAATAATTATTAAATAAATA
* *
17129767 TTAAATATTTGGATTGTTTTTAATTATTAAATCCTTTAATTAAATATAATTAA
124 TTAAATATTTGAATTGTTTTTAATAATTAAA---TTTAATTAAATATAATTAA
17129820 CTAATAAAAT
Statistics
Matches: 302, Mismatches: 35, Indels: 49
0.78 0.09 0.13
Matches are distributed among these distances:
177 3 0.01
180 100 0.33
181 55 0.18
182 23 0.08
183 7 0.02
184 13 0.04
185 8 0.03
186 1 0.00
187 4 0.01
188 73 0.24
189 2 0.01
190 13 0.04
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (174 bp):
TAAATAATTAAATATTTGGATTGTTTTTAATAATTAAATATTTAATTAAATATAATTAAATAATA
AATATTTTGAATTAAATATTTGGGTTGTTTTTAATAAATAATAATTATTAAATAAATATTAAATA
TTTGAATTGTTTTTAATAATTAAATTTAATTAAATATAATTAAT
Found at i:17129683 original size:68 final size:69
Alignment explanation
Indices: 17129585--17129764 Score: 236
Period size: 68 Copynumber: 2.6 Consensus size: 69
17129575 TAAACTAAAT
* * *
17129585 AATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATTATATA
1 AATTAAATATTTGGA-TGTTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATAACATA
17129650 TTTTG
65 TTTTG
* * *
17129655 AATTAAATATTTGGAT-TTTTTAATAATTAAATATTTAATTAAATGTATTTAAATAATAACATAT
1 AATTAAATATTTGGATGTTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATAACATAT
*
17129719 TTTT
66 TTTG
* * *
17129723 AATTAAATATTTCGGTTGTTTTTAATAAATAATTAATTAAAT
1 AATTAAATATTT-GGATGTTTTTAATAATTAAAT-ATTAAAT
17129765 ATTTAAATAT
Statistics
Matches: 96, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
68 58 0.60
69 4 0.04
70 28 0.29
71 6 0.06
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (69 bp):
AATTAAATATTTGGATGTTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATAACATAT
TTTG
Found at i:17129725 original size:300 final size:302
Alignment explanation
Indices: 17129202--17129945 Score: 1222
Period size: 300 Copynumber: 2.5 Consensus size: 302
17129192 TTATTTTTAA
*
17129202 TAATTAAATATAATTAAGTAATTAAATATTTTGAAATAAGTATTTGGGTTGTTTTTAATAAATAA
1 TAATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTTGTTTTTAATAAATAA
17129267 CTAATTATTAAACTAAATAATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATTAAATA
66 CTAATTATTAAACTAAATAATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATTAAATA
17129332 TAATTAAATAA-TAAATATTTGGAATTAAATATTTGGATTGTTTTAATAATAAAATATTTAATTA
131 TAATTAAATAATTAAATATTTGGAATTAAATATTTGGATTGTTTTAATAATAAAATATTTAATTA
17129396 AATGTATTTAAATAATAACACATTTTTAATTAAATATTTCGGTTGTTTTTAATAAATAATTAATT
196 AATGTATTTAAATAATAACACATTTTTAATTAAATATTTCGGTTGTTTTTAATAAATAATTAATT
17129461 AAATATTTAAATAATTGGATTGTTTTTAATTATTAAAT-ATT
261 AAATATTTAAATAATTGGATTGTTTTTAATTATTAAATCATT
17129502 TAATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTTGTTTTTAATAAATAA
1 TAATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTTGTTTTTAATAAATAA
17129567 CTAATTATTAAACTAAATAATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATTAAATA
66 CTAATTATTAAACTAAATAATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATTAAATA
* * *
17129632 TAATTAAATAATTATATATTTTGAATTAAATATTTGGATT-TTTTAATAATTAAATATTTAATTA
131 TAATTAAATAATTAAATATTTGGAATTAAATATTTGGATTGTTTTAATAATAAAATATTTAATTA
*
17129696 AATGTATTTAAATAATAACATATTTTTAATTAAATATTTCGGTTGTTTTTAATAAATAATTAATT
196 AATGTATTTAAATAATAACACATTTTTAATTAAATATTTCGGTTGTTTTTAATAAATAATTAATT
* *
17129761 AAATATTTAAATATTTGGATTGTTTTTAATTATTAAATCCTT
261 AAATATTTAAATAATTGGATTGTTTTTAATTATTAAATCATT
* * * * *
17129803 TAATTAAATATAATTAACTAATAAAATATTTTTAATTAAATATTTGGGTTATTTTTAAT-AAT--
1 TAATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTTGTTTTTAATAAATAA
* ** * * * *
17129865 -TATTTATT----TATTTATTTAAATATTTGAATTGTTTTTAATTATTAAATATTTAATTATATA
66 CTAATTATTAAACTAAATAATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATTAAATA
* *
17129925 TAACTAAATAATAAAATATTT
131 TAATTAAATAATTAAATATTT
17129946 AATTATATAT
Statistics
Matches: 420, Mismatches: 22, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
293 64 0.15
297 7 0.02
300 267 0.64
301 82 0.20
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (302 bp):
TAATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTTGTTTTTAATAAATAA
CTAATTATTAAACTAAATAATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATTAAATA
TAATTAAATAATTAAATATTTGGAATTAAATATTTGGATTGTTTTAATAATAAAATATTTAATTA
AATGTATTTAAATAATAACACATTTTTAATTAAATATTTCGGTTGTTTTTAATAAATAATTAATT
AAATATTTAAATAATTGGATTGTTTTTAATTATTAAATCATT
Found at i:17129730 original size:112 final size:112
Alignment explanation
Indices: 17129378--17130048 Score: 345
Period size: 112 Copynumber: 6.0 Consensus size: 112
17129368 ATTGTTTTAA
* * * * * * *
17129378 TAATAAAATATTTAATTAAATGTATTTAAATAATAACACATTTTTAATTAAATATTTCGGTTG-T
1 TAATTAAATATTTAATTAAATATAATTAAATAATTA-ATATTTTGAATTAAATATTTCGGATGTT
* * *
17129442 TTT--TAA-TAAATAATTAATTAAATAT--TTAAATAATTGGATTGTTTT
65 TTTAATAATTAAATAATTAATTAAATATAATTAAATAA-T-AAATATTTT
* * * *
17129487 TAATTATTAAATATTTAATTAAATATAATTAAGTAATTAAATATTTTGAATTAAGTATTTGGGTT
1 T-A--ATTAAATATTTAATTAAATATAATTAAATAATT-AATATTTTGAATTAAATATTTCGGAT
* * * * *
17129552 GTTTTTAATAAATAACTAATT-ATTAAACTAAATAATTAAATATTTGAATTGTTTTT
62 GTTTTTAATAATTAAATAATTAATTAAA-T--ATAATTAAATA-AT-AAAT-ATTTT
*
17129608 AATAATTAAATATTAAATTAAATATAATTAAATAATTATATATTTTGAATTAAATATTT-GGAT-
1 --TAATTAAATATTTAATTAAATATAATTAAATAATTA-ATATTTTGAATTAAATATTTCGGATG
* * *
17129671 TTTTTAATAATTAAATATTTAATTAAATGTATTTAAATAATAACATATTTT
63 TTTTTAATAATTAAATAATTAATTAAATATAATTAAATAATAA-ATATTTT
** *** * ** *
17129722 TAATTAAATATTTCGGTTGTTTTTAA-TAAATAATTAAT-TAAAT-ATTTAAATATTT-GGATTG
1 TAATTAAATATTT-AATTAAATATAATTAAATAATTAATAT-TTTGAATTAAATATTTCGGA-TG
* ** *
17129783 TTTTTAATTATTAAATCCTTTAATTAAATATAATTAACTAATAAAATATTTT
63 TTTTTAATAATTAAAT-AATTAATTAAATATAATTAAATAAT-AAATATTTT
** ** * * * * * *
17129835 TAATTAAATATTTGGGTTATTTTTAA-T-AATTATTTAT-TTATTTATTTAAATATTT-GAATTG
1 TAATTAAATATTT-AATTAAATATAATTAAATAATTAATATT-TTGAATTAAATATTTCGGA-TG
* * * * *
17129896 TTTTTAATTATTAAATATTTAATTATATATAACTAAATAATAAA-ATATT
63 TTTTTAATAATTAAATAATTAATTAAATATAATTAAATAATAAATATTTT
* * * * * * * * *
17129945 TAATT--ATATATAACT-AA-ATAATAAAATATTTAATTATATAT-AACTAAATA-TTGGGTTAT
1 TAATTAAATATTTAATTAAATATAATTAAATAATTAA-TAT-TTTGAATTAAATATTTCGGATGT
*
17130004 TTTTAATAATTAAAT-A-TAATT-AA-ATAATTAACTAATTAAATATTT
64 TTTTAATAATTAAATAATTAATTAAATATAATTAAATAA-TAAATATTT
17130049 GAATTTTTTT
Statistics
Matches: 451, Mismatches: 75, Indels: 76
0.75 0.12 0.13
Matches are distributed among these distances:
103 10 0.02
104 5 0.01
105 11 0.02
107 25 0.06
108 14 0.03
109 3 0.01
110 26 0.06
111 7 0.02
112 118 0.26
113 97 0.22
114 8 0.02
115 11 0.02
116 18 0.04
118 20 0.04
119 10 0.02
120 62 0.14
121 4 0.01
122 1 0.00
123 1 0.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (112 bp):
TAATTAAATATTTAATTAAATATAATTAAATAATTAATATTTTGAATTAAATATTTCGGATGTTT
TTAATAATTAAATAATTAATTAAATATAATTAAATAATAAATATTTT
Found at i:17129842 original size:113 final size:112
Alignment explanation
Indices: 17129657--17129945 Score: 411
Period size: 113 Copynumber: 2.6 Consensus size: 112
17129647 ATATTTTGAA
* * * *
17129657 TTAAATATTTGGA-T-TTTTTAATAATTAAATATTTAATTAAATGTATTTAAATAATAACATATT
1 TTAAATATTTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAAATAATAAAATATT
*
17129720 TTTAATTAAATATTTCGGTTGTTTTTAATAAATAATTAATTAAATAT
66 TTTAATTAAATATTTCGGTTATTTTTAATAAATAATTAATTAAATAT
* *
17129767 TTAAATATTTGGATTGTTTTTAATTATTAAATCCTTTAATTAAATATAATTAACTAATAAAATAT
1 TTAAATATTTGGATTGTTTTTAATTATTAAAT-ATTTAATTAAATATAATTAAATAATAAAATAT
* * * * **
17129832 TTTTAATTAAATATTTGGGTTATTTTTAATAATTATTTATTTATTTAT
65 TTTTAATTAAATATTTCGGTTATTTTTAATAAATAATTAATTAAATAT
* * *
17129880 TTAAATATTTGAATTGTTTTTAATTATTAAATATTTAATTATATATAACTAAATAATAAAATATT
1 TTAAATATTTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAAATAATAAAATATT
17129945 T
66 T
17129946 AATTATATAT
Statistics
Matches: 158, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
110 13 0.08
111 1 0.01
112 45 0.28
113 99 0.63
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (112 bp):
TTAAATATTTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAAATAATAAAATATT
TTTAATTAAATATTTCGGTTATTTTTAATAAATAATTAATTAAATAT
Found at i:17129915 original size:42 final size:42
Alignment explanation
Indices: 17129816--17129921 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
17129806 TTAAATATAA
* * **
17129816 TTAACTAATAAAATA-TT-TTTAATTAAATATTTGGGTTATTT
1 TTAA-TAATTAAATATTTATTTATTTAAATATTTGAATTATTT
** *
17129857 TTAATAATTATTTATTTATTTATTTAAATATTTGAATTGTTT
1 TTAATAATTAAATATTTATTTATTTAAATATTTGAATTATTT
* *
17129899 TTAATTATTAAATATTTAATTAT
1 TTAATAATTAAATATTTATTTAT
17129922 ATATAACTAA
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
40 7 0.13
41 6 0.12
42 39 0.75
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.57
Consensus pattern (42 bp):
TTAATAATTAAATATTTATTTATTTAAATATTTGAATTATTT
Found at i:17129915 original size:181 final size:179
Alignment explanation
Indices: 17129467--17129886 Score: 472
Period size: 188 Copynumber: 2.3 Consensus size: 179
17129457 AATTAAATAT
* * * * *
17129467 TTAAATAATTGGATTGTTTTTAATTATTAAATATTTAATTAAATATAATTAAGTAATTAA-ATAT
1 TTAAATATTTGGA-T-TTTTT-ATAATTAAATATTTAATTAAATGTATTTAAATAA-TAACATAT
* * * *
17129531 TTTGAATTAAGTATTTGGGTTGTTTTTAATAAATAACTAATTATTAAACTAAATAATTAAATATT
62 TTTTAATTAAATATTTCGGTTGTTTTTAAT--A-AA-T-A--ATT-AATTAAATAATTAAATATT
* *
17129596 TGAATTGTTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATTATATATTTTGAA
119 TGAATTGTTTTTAATAATTAAATATTAAATTAAATATAATTAAATAATAAAATATTTTGAA
17129657 TTAAATATTTGGATTTTTTAATAATTAAATATTTAATTAAATGTATTTAAATAATAACATATTTT
1 TTAAATATTTGGATTTTTT-ATAATTAAATATTTAATTAAATGTATTTAAATAATAACATATTTT
* *
17129722 TAATTAAATATTTCGGTTGTTTTTAATAAATAATTAATTAAATATTTAAATATTTGGATTGTTTT
65 TAATTAAATATTTCGGTTGTTTTTAATAAATAATTAATTAAATAATTAAATATTTGAATTGTTTT
* * * * *
17129787 TAATTATTAAATCCTTTAATTAAATATAATTAACTAATAAAATATTTTTAA
130 TAATAATTAAAT-ATTAAATTAAATATAATTAAATAATAAAATATTTTGAA
* * * *
17129838 TTAAATATTTGGGTTATTTT-TAA-TAATTATTT-ATT-TATTTATTTAAATA
1 TTAAATATTTGGATT-TTTTATAATTAAATATTTAATTAAATGTATTTAAATA
17129887 TTTGAATTGT
Statistics
Matches: 205, Mismatches: 22, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
177 12 0.06
178 3 0.01
179 8 0.04
180 41 0.20
181 49 0.24
182 4 0.02
183 1 0.00
184 1 0.00
185 2 0.01
186 1 0.00
187 3 0.01
188 67 0.33
189 1 0.00
190 12 0.06
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (179 bp):
TTAAATATTTGGATTTTTTATAATTAAATATTTAATTAAATGTATTTAAATAATAACATATTTTT
AATTAAATATTTCGGTTGTTTTTAATAAATAATTAATTAAATAATTAAATATTTGAATTGTTTTT
AATAATTAAATATTAAATTAAATATAATTAAATAATAAAATATTTTGAA
Found at i:17129932 original size:22 final size:21
Alignment explanation
Indices: 17129907--17129996 Score: 64
Period size: 20 Copynumber: 4.4 Consensus size: 21
17129897 TTTTAATTAT
17129907 TAAATATTTAATTATATATAA
1 TAAATATTTAATTATATATAA
* * *
17129928 CTAAATA-ATAA-AATATTTAA
1 -TAAATATTTAATTATATATAA
* * *
17129948 T-TATATATAACTA-A-ATAA
1 TAAATATTTAATTATATATAA
17129966 TAAAATATTTAATTATATATAA
1 T-AAATATTTAATTATATATAA
17129988 CTAAATATT
1 -TAAATATT
17129997 GGGTTATTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
18 7 0.13
19 6 0.12
20 17 0.33
21 4 0.08
22 17 0.33
23 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATATTTAATTATATATAA
Found at i:17129935 original size:181 final size:181
Alignment explanation
Indices: 17129563--17129936 Score: 406
Period size: 181 Copynumber: 2.1 Consensus size: 181
17129553 TTTTTAATAA
*
17129563 ATAACT-AATTATTAAACTAAATAATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATT
1 ATAACTAAATAATTAAACTAAATAATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATT
* *
17129627 AAATATAATTAAATAATTATATATTTTGAATTAAATATTTGGATTTTTTAATAATTAAATATTTA
66 AAATATAATTAAATAATAAAATATTTTGAATTAAATATTTGGATTTTTT-ATAATTAAATATTTA
** * *
17129692 ATTAAATGTATTTAAATAATAACATATTTTTAATTAAATATTTCGGTTGTTT
130 ATTAAATGTATTTAAATAATAACATATTTTTAATTAAATATTTCAATTATAT
* * * * * * *
17129744 TTAA-TAAATAATT-AATTAAATATTTAAATATTTGGATTGTTTTTAATTATTAAATCCTTTAAT
1 ATAACTAAATAATTAAACTAAATAATTAAATATTTGAATTGTTTTTAATAATTAAAT-ATTAAAT
* * * *
17129807 TAAATATAATTAACTAATAAAATATTTTTAATTAAATATTTGGGTTATTTT-TAA-TAATTATTT
65 TAAATATAATTAAATAATAAAATATTTTGAATTAAATATTTGGATT-TTTTATAATTAAATATTT
* * * * *
17129870 -ATT-TATTTATTTAAATATTTGAA-TTGTTTTTAATTATTAAATATTT-AATTATAT
129 AATTAAATGTATTTAAATA-AT-AACATATTTTT-A--ATTAAATATTTCAATTATAT
17129924 ATAACTAAATAAT
1 ATAACTAAATAAT
17129937 AAAATATTTA
Statistics
Matches: 160, Mismatches: 24, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
177 12 0.08
178 10 0.06
179 11 0.07
180 49 0.31
181 74 0.46
182 4 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (181 bp):
ATAACTAAATAATTAAACTAAATAATTAAATATTTGAATTGTTTTTAATAATTAAATATTAAATT
AAATATAATTAAATAATAAAATATTTTGAATTAAATATTTGGATTTTTTATAATTAAATATTTAA
TTAAATGTATTTAAATAATAACATATTTTTAATTAAATATTTCAATTATAT
Found at i:17130005 original size:30 final size:30
Alignment explanation
Indices: 17129908--17129994 Score: 174
Period size: 30 Copynumber: 2.9 Consensus size: 30
17129898 TTTAATTATT
17129908 AAATATTTAATTATATATAACTAAATAATA
1 AAATATTTAATTATATATAACTAAATAATA
17129938 AAATATTTAATTATATATAACTAAATAATA
1 AAATATTTAATTATATATAACTAAATAATA
17129968 AAATATTTAATTATATATAACTAAATA
1 AAATATTTAATTATATATAACTAAATA
17129995 TTGGGTTATT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (30 bp):
AAATATTTAATTATATATAACTAAATAATA
Found at i:17130019 original size:8 final size:8
Alignment explanation
Indices: 17130008--17130083 Score: 53
Period size: 8 Copynumber: 9.1 Consensus size: 8
17129998 GGTTATTTTT
17130008 AATAATTAA
1 AATAATT-A
17130017 ATATAATTA
1 A-ATAATTA
17130026 AATAATTA
1 AATAATTA
*
17130034 ACTAATTA
1 AATAATTA
*
17130042 AATATTTGA
1 AATAATT-A
* ** *
17130051 ATTTTTTT
1 AATAATTA
17130059 AATAATTA
1 AATAATTA
*
17130067 AATTATTA
1 AATAATTA
*
17130075 AATATTTA
1 AATAATTA
17130083 A
1 A
17130084 TTAGTAATAA
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
8 37 0.71
9 9 0.17
10 6 0.12
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (8 bp):
AATAATTA
Found at i:17130066 original size:33 final size:30
Alignment explanation
Indices: 17130006--17130116 Score: 97
Period size: 33 Copynumber: 3.7 Consensus size: 30
17129996 TGGGTTATTT
17130006 TTAA-TAATTAAATA--TAATTA--AATAA
1 TTAACTAATTAAATATTTAATTAGTAATAA
**
17130031 TTAACTAATTAAATATTTGAATTTTTTTAATAA
1 TTAACTAATTAAATATTT-AA--TTAGTAATAA
* *
17130064 TTAAATTATTAAATATTTAATTAGTAATAA
1 TTAACTAATTAAATATTTAATTAGTAATAA
* *
17130094 TTAACTAATGAAATTTGTTAATT
1 TTAACTAATTAAATAT-TTAATT
17130117 TTAATTTGAA
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
25 4 0.06
26 10 0.15
28 1 0.01
29 2 0.03
30 20 0.29
31 8 0.12
32 2 0.03
33 21 0.31
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.47
Consensus pattern (30 bp):
TTAACTAATTAAATATTTAATTAGTAATAA
Found at i:17133023 original size:41 final size:41
Alignment explanation
Indices: 17132977--17133055 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
17132967 ATTTATTATT
*
17132977 TGACTTTTAGCGGCGCTTTTACATAAGCGCCGCTAATGATC
1 TGACTTTTAACGGCGCTTTTACATAAGCGCCGCTAATGATC
*
17133018 TGACTTTTAACGGCGCTTTTTCATAAGCGCCGCTAATG
1 TGACTTTTAACGGCGCTTTTACATAAGCGCCGCTAATG
17133056 CTCTTTTCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (41 bp):
TGACTTTTAACGGCGCTTTTACATAAGCGCCGCTAATGATC
Found at i:17134507 original size:41 final size:40
Alignment explanation
Indices: 17134462--17134806 Score: 404
Period size: 41 Copynumber: 8.4 Consensus size: 40
17134452 GCTTATGGGA
* **
17134462 AAGCGCCGCTATTGCTCCGGGCTTTAGCGGCGCTTTCCTAT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTTCC-AT
* * *
17134503 AAGCGCCGCTATTGCTCCGGCCTTTAGCGGTGCTTTCCTAT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTTCC-AT
* *
17134544 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGCTTCCCGAT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTTCC-AT
* *
17134585 AAGCGCCGCTGTTACTCCGACCTTTAGCGGCGCTTGCACAT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTTC-CAT
**
17134626 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCCTGCCCAT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCG-CTTTCCAT
* **
17134667 AAGCGCCGCTGTTGCTCCGACCTTTAGCAGCGCTTATGGGA-
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTT-T-CCAT
* * *
17134708 AAGCGCCGCTGTTGCTCCGACATTTAGCGGCACTTTACCGT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTT-CCAT
* * *
17134749 AAGTGCCGCTGTTGCTTCGCCCTTTAGCGGCGCTTTTCCAT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGC-TTTCCAT
*
17134790 AAGCGCCGCTATTGCTC
1 AAGCGCCGCTGTTGCTC
17134807 TACCTTTTGC
Statistics
Matches: 265, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
40 3 0.01
41 254 0.96
42 8 0.03
ACGTcount: A:0.14, C:0.33, G:0.26, T:0.27
Consensus pattern (40 bp):
AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTTCCAT
Found at i:17136536 original size:30 final size:28
Alignment explanation
Indices: 17136465--17136591 Score: 76
Period size: 30 Copynumber: 4.3 Consensus size: 28
17136455 AGAGTTTCGA
* * *
17136465 AAAATTCGGGATGAAAATGTAATTTTTG
1 AAAATTTGGGATCAAAATGAAATTTTTG
*
17136493 AGGAATTTGGGGATCAAAATTGAAATTTTTGG
1 A-AAATTT-GGGATCAAAA-TGAAATTTTT-G
* * * *
17136525 AAAATTTGGGATTTAAAATAGAACTCTTAG
1 AAAATTTGGGA-TCAAAAT-GAAATTTTTG
* *
17136555 AAAATTTGAGG-TCGAAAATGTAACTTTTG
1 AAAATTTG-GGATC-AAAATGAAATTTTTG
*
17136584 GAAATTTG
1 AAAATTTG
17136592 AGGGTAAAAT
Statistics
Matches: 75, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
28 1 0.01
29 17 0.23
30 28 0.37
31 27 0.36
32 2 0.03
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.35
Consensus pattern (28 bp):
AAAATTTGGGATCAAAATGAAATTTTTG
Found at i:17136606 original size:29 final size:30
Alignment explanation
Indices: 17136478--17136818 Score: 151
Period size: 30 Copynumber: 11.5 Consensus size: 30
17136468 ATTCGGGATG
*
17136478 AAAAT-GTAATTTTTGAGGAATTTG-GGGATC
1 AAAATGGTAATTTTTG-GAAATTTGAGGG-TC
* * * *
17136508 AAAATTGAAATTTTTGGAAAATTTG-GGATTT
1 AAAATGGTAATTTTTGG-AAATTTGAGG-GTC
* * * *
17136539 AAAATAG-AACTCTTAGAAAATTTGA-GGTC
1 AAAATGGTAA-TTTTTGGAAATTTGAGGGTC
*
17136568 GAAAAT-GTAACTTTTGGAAATTTGAGGGT-
1 -AAAATGGTAATTTTTGGAAATTTGAGGGTC
* * *
17136597 AAAATGGTAA-TTTTGTAAAAGTTCAGGGTC
1 AAAATGGTAATTTTTG-GAAATTTGAGGGTC
** *
17136627 AAAATGGTAATTTTTGGATGTTTGGGGGT-
1 AAAATGGTAATTTTTGGAAATTTGAGGGTC
* *
17136656 AAAATGGTAATTTTTGG--ATGTTCAGGGGTA
1 AAAATGGTAATTTTTGGAAAT-TTGA-GGGTC
*
17136686 AAAAT-GTAA-TTTTGGAAAAGTTT-AAGGTC
1 AAAATGGTAATTTTTGG-AAA-TTTGAGGGTC
* ** *
17136715 AAAATGATAATTTTTGGATGTTTGAGGGTA
1 AAAATGGTAATTTTTGGAAATTTGAGGGTC
* * *
17136745 AAAAT-GCAA-TTTTGAAAAAGTTTGAGGGTT
1 AAAATGGTAATTTTTG-GAAA-TTTGAGGGTC
* * * * *
17136775 AGAAT-ATGATTTTTGAGAAGTTCGAGGGTC
1 AAAATGGTAATTTTTG-GAAATTTGAGGGTC
17136805 AAAAT-GTAATTTTT
1 AAAATGGTAATTTTT
17136819 ATGAAGTTCG
Statistics
Matches: 236, Mismatches: 50, Indels: 50
0.70 0.15 0.15
Matches are distributed among these distances:
27 1 0.00
28 23 0.10
29 66 0.28
30 95 0.40
31 50 0.21
32 1 0.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGAAATTTGAGGGTC
Found at i:17136633 original size:30 final size:28
Alignment explanation
Indices: 17136592--17136729 Score: 98
Period size: 29 Copynumber: 4.7 Consensus size: 28
17136582 TGGAAATTTG
17136592 AGGGTAAAATGGTAATTTTGTAAAAGTTC
1 AGGGTAAAATGGTAATTTT-TAAAAGTTC
** * *
17136621 AGGGTCAAAATGGTAATTTTTGGATGTTTG
1 AGGGT-AAAATGGTAATTTTTAAAAG-TTC
* ** *
17136651 GGGGTAAAATGGTAATTTTTGGATGTTC
1 AGGGTAAAATGGTAATTTTTAAAAGTTC
* *
17136679 AGGGGTAAAAAT-GTAATTTTGGAAAAGTTT
1 A-GGGT-AAAATGGTAATTTT-TAAAAGTTC
* *
17136709 AAGGTCAAAATGATAATTTTT
1 AGGGT-AAAATGGTAATTTTT
17136730 GGATGTTTGA
Statistics
Matches: 87, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
28 2 0.02
29 48 0.55
30 37 0.43
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (28 bp):
AGGGTAAAATGGTAATTTTTAAAAGTTC
Found at i:17136642 original size:59 final size:57
Alignment explanation
Indices: 17136564--17136817 Score: 167
Period size: 59 Copynumber: 4.3 Consensus size: 57
17136554 GAAAATTTGA
17136564 GGTCGAAAATGTAACTTTTGGAAATTTGAGGGTAAAATGGTAATTTTGTAAAAGTTCA-G
1 GGTC-AAAATGTAA-TTTTGGAAATTTGAGGGTAAAATGGTAATTTT-TAAAAGTTCAGG
** * ** *
17136623 GGTCAAAATGGTAATTTTTGGATGTTTGGGGGTAAAATGGTAATTTTTGGATGTTCAGG
1 GGTCAAAAT-GTAA-TTTTGGAAATTTGAGGGTAAAATGGTAATTTTTAAAAGTTCAGG
* * * ** * *
17136682 GGTAAAAATGTAATTTTGGAAAAGTTT-AAGGTCAAAATGATAATTTTTGGATGTT-TGAG
1 GGTCAAAATGTAATTTTGG-AAA-TTTGAGGGT-AAAATGGTAATTTTTAAAAGTTCAG-G
* * * * * * *
17136741 GGTAAAAATGCAATTTTGAAAAAGTTTGAGGGTTAGAAT-ATGATTTTTGAGAAGTTC-GAG
1 GGTCAAAATGTAATTTTG-GAAA-TTTGAGGG-TAAAATGGTAATTTTT-AAAAGTTCAG-G
17136801 GGTCAAAATGTAATTTT
1 GGTCAAAATGTAATTTT
17136818 TATGAAGTTC
Statistics
Matches: 161, Mismatches: 23, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
57 6 0.04
58 21 0.13
59 103 0.64
60 30 0.19
61 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (57 bp):
GGTCAAAATGTAATTTTGGAAATTTGAGGGTAAAATGGTAATTTTTAAAAGTTCAGG
Found at i:17136749 original size:30 final size:29
Alignment explanation
Indices: 17136569--17136849 Score: 180
Period size: 30 Copynumber: 9.5 Consensus size: 29
17136559 TTTGAGGTCG
* *
17136569 AAAATGTAACTTTTGGAAATTTGAGGGT-
1 AAAATGTAATTTTTGGAAGTTTGAGGGTA
** * *
17136597 AAAATGGTAATTTTGTAAAAG-TTCAGGGTC
1 AAAAT-GTAATTTT-TGGAAGTTTGAGGGTA
* *
17136627 AAAATGGTAATTTTTGGATGTTTGGGGGT-
1 AAAAT-GTAATTTTTGGAAGTTTGAGGGTA
* *
17136656 AAAATGGTAATTTTTGGATG-TTCAGGGGTA
1 AAAAT-GTAATTTTTGGAAGTTTGA-GGGTA
* *
17136686 AAAATGTAA-TTTTGGAAAAGTTT-AAGGTC
1 AAAATGTAATTTTTGG--AAGTTTGAGGGTA
*
17136715 AAAATGATAATTTTTGGATGTTTGAGGGTA
1 AAAATG-TAATTTTTGGAAGTTTGAGGGTA
* * *
17136745 AAAATGCAA-TTTTGAAAAAGTTTGAGGGTT
1 AAAATGTAATTTTTG--GAAGTTTGAGGGTA
* * * * *
17136775 AGAATATGATTTTTGAGAAGTTCGAGGGTC
1 AAAATGTAATTTTTG-GAAGTTTGAGGGTA
* * *
17136805 AAAATGTAATTTTTATGAAGTTCGAAGGTTA
1 AAAATGTAATTTTT-GGAAGTTTG-AGGGTA
17136836 AAAATGTAATTTTT
1 AAAATGTAATTTTT
17136850 AAATAAAATA
Statistics
Matches: 201, Mismatches: 35, Indels: 31
0.75 0.13 0.12
Matches are distributed among these distances:
28 18 0.09
29 61 0.30
30 91 0.45
31 31 0.15
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTTGAGGGTA
Found at i:17136817 original size:60 final size:59
Alignment explanation
Indices: 17136656--17136817 Score: 193
Period size: 59 Copynumber: 2.7 Consensus size: 59
17136646 GTTTGGGGGT
* *
17136656 AAAATGGTAATTTTTGGATGTTC-AGGGGTAAAAATGTAATTTTGGAAAAGTTTAAGGTC
1 AAAATGATAATTTTTGGATGTTCGA-GGGTAAAAATGTAATTTTGAAAAAGTTTAAGGTC
* * * *
17136715 AAAATGATAATTTTTGGATGTTTGAGGGTAAAAATGCAATTTTGAAAAAGTTTGAGGGTT
1 AAAATGATAATTTTTGGATGTTCGAGGGTAAAAATGTAATTTTGAAAAAGTTT-AAGGTC
* * * *
17136775 AGAAT-ATGATTTTTGAGAAGTTCGAGGGTCAAAATGTAATTTT
1 AAAATGATAATTTTTG-GATGTTCGAGGGTAAAAATGTAATTTT
17136818 TATGAAGTTC
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
59 56 0.64
60 32 0.36
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (59 bp):
AAAATGATAATTTTTGGATGTTCGAGGGTAAAAATGTAATTTTGAAAAAGTTTAAGGTC
Found at i:17136826 original size:60 final size:59
Alignment explanation
Indices: 17136665--17136835 Score: 157
Period size: 59 Copynumber: 2.9 Consensus size: 59
17136655 TAAAATGGTA
* * * * * * *
17136665 ATTTTTGGATGTTC-AGGGGTAAAAATGTAATTTTGGAAAAGTT-TAAGGTCAAAATGATA
1 ATTTTTGGAAGTTCGA-GGGTAAAAATGCAATTTTGAAAAAGTTCGAAGGTTAGAAT-ATG
* * * *
17136724 ATTTTTGGATGTTTGAGGGTAAAAATGCAATTTTGAAAAAGTTTGAGGGTTAGAATATG
1 ATTTTTGGAAGTTCGAGGGTAAAAATGCAATTTTGAAAAAGTTCGAAGGTTAGAATATG
* * * **
17136783 ATTTTTGAGAAGTTCGAGGGTCAAAATGTAATTTTTATGAAGTTCGAAGGTTA
1 ATTTTTG-GAAGTTCGAGGGTAAAAATGCAATTTTGAAAAAGTTCGAAGGTTA
17136836 AAAATGTAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
59 47 0.51
60 45 0.49
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (59 bp):
ATTTTTGGAAGTTCGAGGGTAAAAATGCAATTTTGAAAAAGTTCGAAGGTTAGAATATG
Found at i:17138499 original size:11 final size:11
Alignment explanation
Indices: 17138485--17138558 Score: 68
Period size: 11 Copynumber: 7.0 Consensus size: 11
17138475 ATTATTAATT
17138485 TAAATTTAAAA
1 TAAATTTAAAA
17138496 TAAATTT-AAA
1 TAAATTTAAAA
17138506 T---TTTAAAA
1 TAAATTTAAAA
*
17138514 TAAATTTAAACT
1 TAAATTTAAA-A
* *
17138526 TAAA-ATAAATT
1 TAAATTTAAA-A
17138537 TAAATTTAAAA
1 TAAATTTAAAA
17138548 TAAATTTAAAA
1 TAAATTTAAAA
17138559 ATGGGTTTAG
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
7 3 0.06
8 4 0.08
10 4 0.08
11 33 0.63
12 8 0.15
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:17138503 original size:17 final size:17
Alignment explanation
Indices: 17138481--17138557 Score: 136
Period size: 17 Copynumber: 4.5 Consensus size: 17
17138471 GGACATTATT
17138481 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
17138498 AATTTAAATTTTAAAATA
1 AATTTAAA-TTTAAAATA
*
17138516 AATTTAAACTTAAAATA
1 AATTTAAATTTAAAATA
17138533 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
17138550 AATTTAAA
1 AATTTAAA
17138558 AATGGGTTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
17 40 0.70
18 17 0.30
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:17138510 original size:7 final size:6
Alignment explanation
Indices: 17138481--17138557 Score: 72
Period size: 6 Copynumber: 13.3 Consensus size: 6
17138471 GGACATTATT
* * *
17138481 AATTTA AATTTA AA-ATA AATTTA AATTTTA AA-ATA AATTTA AACTTA
1 AATTTA AATTTA AATTTA AATTTA AA-TTTA AATTTA AATTTA AATTTA
* *
17138528 AA-ATA AATTTA AATTTA AA-ATA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AA
17138558 AATGGGTTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
5 16 0.28
6 35 0.61
7 6 0.11
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (6 bp):
AATTTA
Found at i:17138520 original size:35 final size:34
Alignment explanation
Indices: 17138481--17138557 Score: 136
Period size: 35 Copynumber: 2.2 Consensus size: 34
17138471 GGACATTATT
*
17138481 AATTTAAATTTAAAATAAATTTAAATTTTAAAATA
1 AATTTAAACTTAAAATAAATTTAAA-TTTAAAATA
17138516 AATTTAAACTTAAAATAAATTTAAATTTAAAATA
1 AATTTAAACTTAAAATAAATTTAAATTTAAAATA
17138550 AATTTAAA
1 AATTTAAA
17138558 AATGGGTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 17 0.41
35 24 0.59
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (34 bp):
AATTTAAACTTAAAATAAATTTAAATTTAAAATA
Found at i:17139078 original size:39 final size:39
Alignment explanation
Indices: 17139035--17139841 Score: 565
Period size: 39 Copynumber: 20.7 Consensus size: 39
17139025 GATGGTTGCA
** * *
17139035 ATCTGCCCTTAGCTCGAGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTG
* * * * * * **
17139074 ATCTGCCCCAATCTCGGGGTAAAAGATCGAATGGTTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTG
* * *
17139113 ATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTG
* * * * * ***
17139152 ATCTACCCCAAGCTCAGGGTAAAAGATCGAATGACT-ACA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGA-TGGTG
* *
17139191 ATCTGCCCTAAGCTCGAGGTAAGAGATTGGATGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTG
** * * * * * *
17139230 ATCTGCCCCAAGCTTAGGGTAAAAGATCGAATGGTTGTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTG
* *
17139269 ATCTACCCCAAGCTCGGGGTAAGAGATTGAATGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTG
* * * * * * *
17139308 ATCTGCCCTAAACTCGGGGTAAAAGATCGAATGGCT-GTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGAT-GATGGTG
* *
17139347 ATCTGCCCCAAACTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTG
* * * *
17139386 ATCTGCCCCAAGCTTGAGGTAAAAGATCGGATGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTG
* * * * * *
17139425 ATCTACCCCAAGCTCGGGGTAAAAGATCGAAT-A-GTTACA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGT--G
* * *
17139464 ATCTGCCTCAAACTCGGGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTG
* * * * **
17139503 ATCT-ACCTAGGCTCGGGGTAAAAGATCAGATGATGGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTG
* * *
17139541 ATCTGCCTCAAGCTCGGGGTAAGAGATCGGATG--GCTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTG
* * * *
17139578 CAATTTTCCCCAAGCTCGAGGTAAGAGATTGGCTGATGGTG
1 --ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTG
* * * * **
17139619 ATCTGCCCCAAGCTCAGGGTAAAAGATCGAATGACT-GCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGA-TGGTG
* * *
17139658 ATCTGCCTC-AGACTCGGCGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAAG-CTCGGGGTAAGAGATTGGATGATGGTG
** * * * * * *
17139697 ATCTGTTCTAGGCTCGGGGTAAAAGATCGAATGACT-GTA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGA-TGGTG
* *
17139736 ATCTGCCCCAAGCTCGGGGGTAAGAGATTGGCTAATGGTG
1 ATCTGCCCCAAGCTC-GGGGTAAGAGATTGGATGATGGTG
* * **
17139776 ATCTGCCCCAGGCTCGGGGTAAAAGATCAGATGACT-GTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGA-TGGTG
* * * *
17139815 ATTTGCCCCATGATCGAGGTAAGAGAT
1 ATCTGCCCCAAGCTCGGGGTAAGAGAT
17139842 CGAAATCTTC
Statistics
Matches: 576, Mismatches: 171, Indels: 42
0.73 0.22 0.05
Matches are distributed among these distances:
37 5 0.01
38 36 0.06
39 492 0.85
40 38 0.07
41 5 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTG
Found at i:17139155 original size:78 final size:78
Alignment explanation
Indices: 17139031--17139841 Score: 808
Period size: 78 Copynumber: 10.4 Consensus size: 78
17139021 ATTGGATGGT
** * *
17139031 TGCAATCTGCCCTTAGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAATCTCGGGGTAA
1 TGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAA
**
17139096 AAGATCGAATGGT
66 AAGATCGAATGAC
* * * * *
17139109 TGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGTGATCTACCCCAAGCTCAGGGTAA
1 TGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAA
17139174 AAGATCGAATGAC
66 AAGATCGAATGAC
* * * * **
17139187 TACAATCTGCCCTAAGCTCGAGGTAAGAGATTGGATGATGGTGATCTGCCCCAAGCTTAGGGTAA
1 TGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAA
**
17139252 AAGATCGAATGGT
66 AAGATCGAATGAC
* * ** * *
17139265 TGTAATCTACCCCAAGCTCGGGGTAAGAGATTGAATGATGGTGATCTGCCCTAAACTCGGGGTAA
1 TGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAA
*
17139330 AAGATCGAATGGC
66 AAGATCGAATGAC
* * * *
17139343 TGTAATCTGCCCCAAACTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTTGAGGTAA
1 TGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAA
*
17139408 AAGATCGGATGA-
66 AAGATCGAATGAC
** * * * ** * * * *
17139420 TGGTGATCTACCCCAAGCTCGGGGTAAAAGATCGAAT-A-GTTACAATCTGCCTCAAACTCGGGG
1 T-GCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGT--GATCTGCCCCAAGCTCGGGG
* * **
17139483 TAAGAGATTGGCTGA-
63 TAAAAGATCGAATGAC
** * * * * ** * *
17139498 TGGTGATCT-ACCTAGGCTCGGGGTAAAAGATCAGATGATGGTGATCTGCCTCAAGCTCGGGGTA
1 T-GCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTA
* * *
17139562 AGAGATCGGATGGC
65 AAAGATCGAATGAC
* * * *
17139576 TGCAATTTTCCCCAAGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCAGGGTAA
1 TGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAA
17139641 AAGATCGAATGAC
66 AAGATCGAATGAC
* * ** * *
17139654 TGCAATCTGCCTC-AGACTCGGCGTAAGAGATTGGCTGATGGTGATCTGTTCTAGGCTCGGGGTA
1 TGCAATCTGCCCCAAG-CTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTA
17139718 AAAGATCGAATGAC
65 AAAGATCGAATGAC
* * *
17139732 TGTAATCTGCCCCAAGCTCGGGGGTAAGAGATTGGCTAATGGTGATCTGCCCCAGGCTCGGGGTA
1 TGCAATCTGCCCCAAGCTC-GGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTA
17139797 AAAGATC-AGATGAC
65 AAAGATCGA-ATGAC
** * * * *
17139811 TGTGATTTGCCCCATGATCGAGGTAAGAGAT
1 TGCAATCTGCCCCAAGCTCGGGGTAAGAGAT
17139842 CGAAATCTTC
Statistics
Matches: 619, Mismatches: 103, Indels: 22
0.83 0.14 0.03
Matches are distributed among these distances:
76 2 0.00
77 60 0.10
78 486 0.79
79 71 0.11
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (78 bp):
TGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAA
AAGATCGAATGAC
Found at i:17141225 original size:10 final size:10
Alignment explanation
Indices: 17141212--17141280 Score: 65
Period size: 10 Copynumber: 7.0 Consensus size: 10
17141202 TTTTCTCATT
17141212 TTTTTTCTTC
1 TTTTTTCTTC
17141222 TTTTTTCTT-
1 TTTTTTCTTC
*
17141231 TTTTTATTTTGC
1 TTTTT-TCTT-C
17141243 -TTTTTCTTC
1 TTTTTTCTTC
17141252 TTTTTTCTT-
1 TTTTTTCTTC
*
17141261 TCTTTTCTT-
1 TTTTTTCTTC
17141270 TTTCTTTCTTC
1 TTT-TTTCTTC
17141281 ATTGAATCTG
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
9 16 0.33
10 29 0.59
11 4 0.08
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:17141232 original size:15 final size:16
Alignment explanation
Indices: 17141210--17141280 Score: 57
Period size: 15 Copynumber: 4.8 Consensus size: 16
17141200 CCTTTTCTCA
17141210 TTTT-TTTTCTTCT-T
1 TTTTCTTTTCTTCTAT
17141224 TTTTCTTTT-TT-TAT
1 TTTTCTTTTCTTCTAT
*
17141238 TTTGCTTTTTCTTCT-T
1 TTTTC-TTTTCTTCTAT
* *
17141254 TTTTC-TTTCTTTTCT
1 TTTTCTTTTCTTCTAT
17141269 TTTTC-TTTCTTC
1 TTTTCTTTTCTTC
17141281 ATTGAATCTG
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
13 1 0.02
14 18 0.38
15 20 0.43
16 7 0.15
17 1 0.02
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (16 bp):
TTTTCTTTTCTTCTAT
Found at i:17141249 original size:30 final size:31
Alignment explanation
Indices: 17141213--17141276 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
17141203 TTTCTCATTT
17141213 TTTTTCTTCTTTTTTCTTT-TTTTATTTTGC
1 TTTTTCTTCTTTTTTCTTTCTTTTATTTTGC
* *
17141243 TTTTTCTTCTTTTTTCTTTCTTTTCTTTTTC
1 TTTTTCTTCTTTTTTCTTTCTTTTATTTTGC
17141274 TTT
1 TTT
17141277 CTTCATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 19 0.61
31 12 0.39
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (31 bp):
TTTTTCTTCTTTTTTCTTTCTTTTATTTTGC
Found at i:17141257 original size:11 final size:10
Alignment explanation
Indices: 17141210--17141276 Score: 64
Period size: 11 Copynumber: 6.2 Consensus size: 10
17141200 CCTTTTCTCA
17141210 TTTTTTTTCT
1 TTTTTTTTCT
*
17141220 TCTTTTTTCT
1 TTTTTTTTCT
17141230 TTTTTTATT-T
1 TTTTTT-TTCT
17141240 TGCTTTTTCTTCT
1 T--TTTTT-TTCT
17141253 TTTTTCTTTCT
1 TTTTT-TTTCT
17141264 TTTCTTTTTCT
1 TTT-TTTTTCT
17141275 TT
1 TT
17141277 CTTCATTGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
10 16 0.33
11 20 0.42
12 10 0.21
13 2 0.04
ACGTcount: A:0.01, C:0.15, G:0.01, T:0.82
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:17142555 original size:6 final size:6
Alignment explanation
Indices: 17142533--17142597 Score: 60
Period size: 6 Copynumber: 10.5 Consensus size: 6
17142523 GTTTAAGTTG
* * * *
17142533 ATTTAA ATTTAT TTTTAA ATTTAA ATTTAT CTTGTGAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATT-T-AA ATTTAA ATTTAA
17142583 A-TTAGA ATTTAA ATT
1 ATTTA-A ATTTAA ATT
17142598 GATATTAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
5 3 0.06
6 36 0.77
7 5 0.11
8 3 0.06
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:17142574 original size:20 final size:18
Alignment explanation
Indices: 17142533--17142581 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 18
17142523 GTTTAAGTTG
*
17142533 ATTTAAATTTATTTTTAA
1 ATTTAAATTTATTTTGAA
17142551 ATTTAAATTTATCTTGTGAA
1 ATTTAAATTTAT-TT-TGAA
17142571 ATTTAAATTTA
1 ATTTAAATTTA
17142582 AATTAGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 12 0.43
19 2 0.07
20 14 0.50
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (18 bp):
ATTTAAATTTATTTTGAA
Done.