Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 261 of 295
Found at i:89796235 original size:18 final size:19
Alignment explanation
Indices: 89796174--89796266 Score: 66
Period size: 19 Copynumber: 4.8 Consensus size: 19
89796164 ATGATAAAAA
*
89796174 ATAAAAAT-TAATAAAAATT
1 ATAAAAATATAA-AAATATT
* * *
89796193 ATACAAAT-TATTAAATCTT
1 ATAAAAATATA-AAAATATT
89796212 AATAAAAATATAAAAATATT
1 -ATAAAAATATAAAAATATT
* * *
89796232 -TAAAATTAGAAAAAAATT
1 ATAAAAATATAAAAATATT
89796250 ATAAAAATCATAAAAAT
1 ATAAAAAT-ATAAAAAT
89796267 TATAAAATTT
Statistics
Matches: 56, Mismatches: 13, Indels: 9
0.72 0.17 0.12
Matches are distributed among these distances:
18 15 0.27
19 20 0.36
20 19 0.34
21 2 0.04
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (19 bp):
ATAAAAATATAAAAATATT
Found at i:89796237 original size:29 final size:29
Alignment explanation
Indices: 89796181--89796257 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
89796171 AAAATAAAAA
*
89796181 TTAATAAAAATTATACAAATTATTAAATC
1 TTAATAAAAATTATAAAAATTATTAAATC
*
89796210 TTAATAAAAA-TATAAAAA-TATTTAAA-A
1 TTAATAAAAATTATAAAAATTA-TTAAATC
*
89796237 TTAGAAAAAAATTATAAAAAT
1 TTA-ATAAAAATTATAAAAAT
89796258 CATAAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
27 5 0.12
28 18 0.44
29 18 0.44
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (29 bp):
TTAATAAAAATTATAAAAATTATTAAATC
Found at i:89796265 original size:29 final size:28
Alignment explanation
Indices: 89796160--89796273 Score: 101
Period size: 29 Copynumber: 4.1 Consensus size: 28
89796150 ACATGTAATG
* *
89796160 AAAAATGATAAAAA-A-TAAAAATTAAT
1 AAAAATTATAAAAATATTAAAAATTAAA
* ** *
89796186 AAAAATTATACAAATTATTAAATCTTAAT
1 AAAAATTATA-AAAATATTAAAAATTAAA
*
89796215 AAAAA-TATAAAAATATTTAAAATTAGAA
1 AAAAATTATAAAAATATTAAAAATTA-AA
*
89796243 AAAAATTATAAAAATCA-TAAAAATTATA
1 AAAAATTATAAAAAT-ATTAAAAATTAAA
89796271 AAA
1 AAA
89796274 TTTTATGAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
26 9 0.13
27 15 0.21
28 15 0.21
29 31 0.44
30 1 0.01
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.29
Consensus pattern (28 bp):
AAAAATTATAAAAATATTAAAAATTAAA
Found at i:89796275 original size:8 final size:9
Alignment explanation
Indices: 89796160--89796273 Score: 83
Period size: 9 Copynumber: 12.4 Consensus size: 9
89796150 ACATGTAATG
*
89796160 AAAAATGAT
1 AAAAATTAT
89796169 AAAAA--AT
1 AAAAATTAT
89796176 AAAAATTAAT
1 AAAAATT-AT
89796186 AAAAATTAT
1 AAAAATTAT
*
89796195 ACAAATTATT
1 AAAAATTA-T
**
89796205 AAATCTTAAT
1 AAAAATT-AT
89796215 AAAAA-TAT
1 AAAAATTAT
89796223 AAAAA-TATT
1 AAAAATTA-T
* *
89796232 TAAAATTAGAA
1 AAAAATT--AT
89796243 AAAAATTAT
1 AAAAATTAT
*
89796252 AAAAATCAT
1 AAAAATTAT
89796261 AAAAATTAT
1 AAAAATTAT
89796270 AAAA
1 AAAA
89796274 TTTTATGAAG
Statistics
Matches: 84, Mismatches: 12, Indels: 18
0.74 0.11 0.16
Matches are distributed among these distances:
7 7 0.08
8 9 0.11
9 41 0.49
10 19 0.23
11 7 0.08
12 1 0.01
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:89796683 original size:4 final size:4
Alignment explanation
Indices: 89796674--89796755 Score: 128
Period size: 4 Copynumber: 20.0 Consensus size: 4
89796664 TTATAGTGAA
* *
89796674 TATG TATG TATG TATA TATG TATG TATG TATG TATG CATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
89796722 TATG TGCATG TATG TATG TATG TATG TATG TATG
1 TATG T--ATG TATG TATG TATG TATG TATG TATG
89796756 GACTTTAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
4 68 0.94
6 4 0.06
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:89798796 original size:48 final size:47
Alignment explanation
Indices: 89798683--89798848 Score: 185
Period size: 48 Copynumber: 3.5 Consensus size: 47
89798673 TATGTGTGCT
* *
89798683 AGTGTAAGACATGTCTGGGACATGCATCAGC-CACAG-CA-TGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTCA-AGATATTCA-AGCC
* * *
89798729 AGTGTAAGACATGTCTGGGACACGCATCGGCTTCAAGATATTTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-TCAAGATATTCAAGCC
** * *
89798777 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CTCAAGATATTCAAGCC
*
89798825 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
89798849 ACGTCAACTT
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
46 29 0.28
47 2 0.02
48 69 0.67
49 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTCAAGATATTCAAGCC
Found at i:89798967 original size:49 final size:49
Alignment explanation
Indices: 89798873--89798992 Score: 134
Period size: 49 Copynumber: 2.4 Consensus size: 49
89798863 TGTGTCAGTG
* * *
89798873 TAAGACCTATCTAGGACATGGCATCGGCACCGATAGATGATAGCCAATA
1 TAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATGAAAGCCAATA
* * * * *
89798922 TAAGACCTGTCTGGGACATGGCATCGGC-CTTGCTATATGAAAGCCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGGCAC-CGATAGATGAAAGCCAATA
*
89798971 TAAGACCATGTTTGGGACATGG
1 TAAGACC-TGTCTGGGACATGG
89798993 TGTCATCATT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 46 0.77
50 13 0.22
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
TAAGACCTGTCTGGGACATGGCATCGGCACCGATAGATGAAAGCCAATA
Found at i:89800962 original size:35 final size:34
Alignment explanation
Indices: 89800869--89800964 Score: 93
Period size: 35 Copynumber: 2.8 Consensus size: 34
89800859 CGCAAAAGGG
* * * *
89800869 TTTGCGCCCAGCACCAGTTGGATAAACTGAAGAA
1 TTTGTGCCCAGCACTAGTAGGATAAACTGAAAAA
* * * * *
89800903 TGTCTGCCCAACACTAGTAAGATAAATTGACAAAA
1 TTTGTGCCCAGCACTAGTAGGATAAACTGA-AAAA
*
89800938 TTTGTGCCCAGCACTAGTCGGATAAAC
1 TTTGTGCCCAGCACTAGTAGGATAAAC
89800965 GTGTAACAAC
Statistics
Matches: 46, Mismatches: 15, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
34 22 0.48
35 24 0.52
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (34 bp):
TTTGTGCCCAGCACTAGTAGGATAAACTGAAAAA
Found at i:89802542 original size:23 final size:23
Alignment explanation
Indices: 89802432--89802542 Score: 66
Period size: 23 Copynumber: 4.6 Consensus size: 23
89802422 TGGCTATCTA
89802432 GAGCTTCCCGTTACATGGCTCTTTGT
1 GAGCTTCCCGTT--ATGG-TCTTTGT
* **
89802458 GAGCTTCCCGATA-GGCTCTTCAT
1 GAGCTTCCCGTTATGG-TCTTTGT
** *
89802481 GAGCTTCTTGATATGGTTCTTTGT
1 GAGCTTCCCGTTATGG-TCTTTGT
*
89802505 GA-ATTACCCGATTATGG-CTTTGAT
1 GAGCTT-CCCG-TTATGGTCTTTG-T
89802529 GAGCTTCCCGTTAT
1 GAGCTTCCCGTTAT
89802543 ATAGCCCGAA
Statistics
Matches: 67, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
23 30 0.45
24 19 0.28
25 7 0.10
26 11 0.16
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (23 bp):
GAGCTTCCCGTTATGGTCTTTGT
Found at i:89810891 original size:23 final size:22
Alignment explanation
Indices: 89810865--89810910 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
89810855 TGTGATGACG
89810865 TTATCTT-ATAAATATGTATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
89810888 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
89810910 T
1 T
89810911 GGTTTGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:89823705 original size:9 final size:9
Alignment explanation
Indices: 89823678--89823724 Score: 60
Period size: 9 Copynumber: 5.0 Consensus size: 9
89823668 AAAGACACGC
89823678 TCTCTTT-T
1 TCTCTTTAT
89823686 TGCTCTCTTAT
1 T-CTCT-TTAT
89823697 TCTCTTTAT
1 TCTCTTTAT
89823706 TCTCTTTAT
1 TCTCTTTAT
89823715 TCTCTATTAT
1 TCTCT-TTAT
89823725 ATGTCTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.03
9 22 0.63
10 10 0.29
11 2 0.06
ACGTcount: A:0.11, C:0.23, G:0.02, T:0.64
Consensus pattern (9 bp):
TCTCTTTAT
Found at i:89826397 original size:48 final size:47
Alignment explanation
Indices: 89826321--89826446 Score: 137
Period size: 48 Copynumber: 2.7 Consensus size: 47
89826311 AGATGCTAAC
* * *
89826321 GCCATGTCCCAGACATTGTCTTACACTAGCTCACATGTCGAGGCCAAT
1 GCCATGT-CCAGACATGGTCTTACACTAGCTCACATCTCCAGGCCAAT
* * * * *
89826369 GCCATGTCCTAGACATGGTCTTAGACTAGCTCTCGTCTCCATGCCGAT
1 GCCATGTCC-AGACATGGTCTTACACTAGCTCACATCTCCAGGCCAAT
* *
89826417 GCCATGTCCAG-CATGGTCCTACACTGGCTC
1 GCCATGTCCAGACATGGTCTTACACTAGCTC
89826447 TCAATCAACG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 16 0.24
47 4 0.06
48 46 0.70
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.26
Consensus pattern (47 bp):
GCCATGTCCAGACATGGTCTTACACTAGCTCACATCTCCAGGCCAAT
Found at i:89826944 original size:21 final size:22
Alignment explanation
Indices: 89826904--89826944 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
89826894 TTCCAAATAA
* *
89826904 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
89826926 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
89826945 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:89828182 original size:15 final size:16
Alignment explanation
Indices: 89828155--89828184 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
89828145 AGATATTCCA
89828155 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
89828171 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
89828185 GGCAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:89834616 original size:47 final size:47
Alignment explanation
Indices: 89834538--89835039 Score: 779
Period size: 47 Copynumber: 10.6 Consensus size: 47
89834528 CCCTTCGGGA
* * * * * *
89834538 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89834585 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
89834632 CTCATCACATATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89834679 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89834726 CTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
89834777 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89834824 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89834871 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89834920 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
89834967 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
89835014 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
89835040 CACAATTATC
Statistics
Matches: 419, Mismatches: 30, Indels: 12
0.91 0.07 0.03
Matches are distributed among these distances:
47 328 0.78
49 47 0.11
51 44 0.11
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:89834930 original size:143 final size:143
Alignment explanation
Indices: 89834538--89835039 Score: 814
Period size: 143 Copynumber: 3.5 Consensus size: 143
89834528 CCCTTCGGGA
* * * * * * * *
89834538 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
89834601 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACG
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
89834666 TCGGCTATTAGGC
131 TCGGCTATTAGGC
*
89834679 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAT
* *
89834744 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
89834809 CATCGGCTATTAGGC
129 CATCGGCTATTAGGC
89834824 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
89834889 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* * *
89834954 TTGGCCATTCGGC
131 TCGGCTATTAGGC
89834967 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
89835032 A--TTCACAT
66 ACTTTCACAT
89835040 CACAATTATC
Statistics
Matches: 338, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
141 53 0.16
143 149 0.44
145 136 0.40
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCTATTAGGC
Found at i:89841477 original size:22 final size:21
Alignment explanation
Indices: 89841451--89841495 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
89841441 GCCTCAAGCG
*
89841451 CCGTACGACCCCCTGCACGCCT
1 CCGTACG-CCACCTGCACGCCT
* *
89841473 CCGTATGCCACCTTCACGCCT
1 CCGTACGCCACCTGCACGCCT
89841494 CC
1 CC
89841496 ACGTCGCCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.13, C:0.53, G:0.16, T:0.18
Consensus pattern (21 bp):
CCGTACGCCACCTGCACGCCT
Found at i:89844559 original size:132 final size:132
Alignment explanation
Indices: 89844166--89844559 Score: 422
Period size: 131 Copynumber: 3.0 Consensus size: 132
89844156 TCACAATTAT
* * * *
89844166 TAAAAATCCC-TT-AAATGAAGGCGATATGCGATATTTGGTAATTCGCGGAATCA-TGCCCTAAC
1 TAAAAA-CCCTTTAAAACGAAGGCGATATTCGATGTTTGGTAATTCGAGGAAT-AGTGCCCTAAC
* * *
89844228 GTGCTGGGTTGCAATTTCCCGTTTGCTT-AAAATAATCAAATACCCCTTCAAAATTTCACTCATG
64 GTGCTGGGTTGCAATTTCCCGTTTG-TTCAAAATAATCGAATATCTCTTCAAAATTTCACTCATG
*
89844292 TCTTC
128 TTTTC
* * * * * * **
89844297 TAAAAATCCTTTAAAACGAAGGCAATACTCGGTGTTTGATAATTC-AGGAATCGTGCCCTAACAC
1 TAAAAACCCTTTAAAACGAAGGCGATATTCGATGTTTGGTAATTCGAGGAATAGTGCCCTAACGT
* ** * * * * *
89844361 GTTGGGTTGTGATTTCTCGTTTTTTCAAAACAATCGAAGAT-TCCTTCAAAATTTCACTCACGTT
66 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCT-CTTCAAAATTTCACTCATGTT
89844425 TTC
130 TTC
* * * * *
89844428 TAAAAACCCTTTAAAACGAAGGCGATATTCAATGTTTGGCAATTCGGGGAATAGTACCCTATCGT
1 TAAAAACCCTTTAAAACGAAGGCGATATTCGATGTTTGGTAATTCGAGGAATAGTGCCCTAACGT
* * *
89844493 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATTGAATATCTCTTCAGAATTTCACTCATATTT
66 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCTCTTCAAAATTTCACTCATGTTT
89844558 TC
131 TC
89844560 GAAGGTAAGG
Statistics
Matches: 208, Mismatches: 48, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
130 4 0.02
131 111 0.53
132 92 0.44
133 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (132 bp):
TAAAAACCCTTTAAAACGAAGGCGATATTCGATGTTTGGTAATTCGAGGAATAGTGCCCTAACGT
GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCTCTTCAAAATTTCACTCATGTTT
TC
Found at i:89857745 original size:39 final size:40
Alignment explanation
Indices: 89857644--89857865 Score: 267
Period size: 40 Copynumber: 5.6 Consensus size: 40
89857634 TCGAATGATG
* * *
89857644 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
89857683 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
89857724 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
89857763 TCCGGGCTAAG-CCCGAAGGAATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
89857802 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
89857841 AACCGGGCTATGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATT
89857866 GAACGAGTAG
Statistics
Matches: 161, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 74 0.46
40 77 0.48
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:89857821 original size:79 final size:80
Alignment explanation
Indices: 89857644--89857866 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 80
89857634 TCGAATGATG
* * * * *
89857644 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
* *
89857708 TGTGCGAGTTACTAAT
65 GGTGCGAGTTACTAAA
* *
89857724 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGAATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCATT
89857786 GGTGCGAGTTACTAAA
65 GGTGCGAGTTACTAAA
* * * *
89857802 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTG
89857867 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 35 0.28
79 59 0.48
80 30 0.24
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTG
GTGCGAGTTACTAAA
Found at i:89863798 original size:48 final size:47
Alignment explanation
Indices: 89863741--89863845 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 47
89863731 CCATATCTTG
* * * * *
89863741 GACATGGTCTTATACTAGCTCACATGTCGAGGTCGATGCCATGTCCCA
1 GACATGGTCTTACAATAGCTCACATCTCCAGGCCGATGCCATGT-CCA
* * *
89863789 GACATGGTCTTGCAATAGCTCTCATCTCCATGCCGATGCCATGTCCA
1 GACATGGTCTTACAATAGCTCACATCTCCAGGCCGATGCCATGTCCA
89863836 G-CATGGTCTT
1 GACATGGTCTT
89863846 GCATTTGCTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 9 0.18
47 4 0.08
48 36 0.73
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (47 bp):
GACATGGTCTTACAATAGCTCACATCTCCAGGCCGATGCCATGTCCA
Found at i:89869256 original size:15 final size:15
Alignment explanation
Indices: 89869238--89869267 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
89869228 TTTGTTGAGG
89869238 GATAAAAACAATATA
1 GATAAAAACAATATA
89869253 GATAAAAACAATATA
1 GATAAAAACAATATA
89869268 AATATTCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (15 bp):
GATAAAAACAATATA
Found at i:89869922 original size:14 final size:15
Alignment explanation
Indices: 89869903--89869936 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
89869893 TCTTTGACCC
89869903 AAAAAGAA-ACAAAG
1 AAAAAGAAGACAAAG
*
89869917 AAAAAGAAGACAAAT
1 AAAAAGAAGACAAAG
89869932 AAAAA
1 AAAAA
89869937 ATAAAGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.79, C:0.06, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAAAGAAGACAAAG
Found at i:89870301 original size:23 final size:23
Alignment explanation
Indices: 89870268--89870312 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
89870258 TCTTATTTCG
89870268 TTCCTTAATTTTCCTAACAATAC
1 TTCCTTAATTTTCCTAACAATAC
* *
89870291 TTCCTTGATTTTCCTAATAATA
1 TTCCTTAATTTTCCTAACAATA
89870313 GTCATAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCCTTAATTTTCCTAACAATAC
Found at i:89877020 original size:44 final size:44
Alignment explanation
Indices: 89876789--89877029 Score: 122
Period size: 44 Copynumber: 5.5 Consensus size: 44
89876779 AGTCTGCTTC
* * *
89876789 CTTGCTACCTCTGGAAGATAAGACTACAATCTTCAACCTGCTCT
1 CTTGCTACCTCAGAAAGATAAGACTACGATCTTCAACCTGCTCT
* * * * ** *
89876833 CTTGCTGCCTTAGAGAGATAAGGA-T--GGTGGCTAAAACCTGCTCC
1 CTTGCTACCTCAGAAAGATAA-GACTACGAT--CTTCAACCTGCTCT
* * * * * *
89876877 CTTACTACCTCGGGAAGATAAGA-TTCGCCATCTTCGAGCTGCT-T
1 CTTGCTACCTCAGAAAGATAAGACTACG--ATCTTCAACCTGCTCT
* ** * * **
89876921 C--GCTACTACTTAGGGAGATAAGATCTACAACCTT-AGTCTGCT-T
1 CTTGCTAC--CTCAGAAAGATAAGA-CTACGATCTTCAACCTGCTCT
89876964 CTTTGCTACCTCAGAAAGATAAGACTACGATCTTCAACCTGCTCT
1 C-TTGCTACCTCAGAAAGATAAGACTACGATCTTCAACCTGCTCT
*
89877009 CTTGCTACCTCAGAGAGATAA
1 CTTGCTACCTCAGAAAGATAA
89877030 AGCTGGTGGC
Statistics
Matches: 141, Mismatches: 40, Indels: 32
0.66 0.19 0.15
Matches are distributed among these distances:
42 5 0.04
43 18 0.13
44 97 0.69
45 13 0.09
46 7 0.05
47 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
CTTGCTACCTCAGAAAGATAAGACTACGATCTTCAACCTGCTCT
Found at i:89877049 original size:88 final size:88
Alignment explanation
Indices: 89876609--89877250 Score: 320
Period size: 88 Copynumber: 7.3 Consensus size: 88
89876599 ATCTTCAGTT
* * * * * * * *
89876609 TGCTTCCTTGCTACCTTAGGAAGATAAGACTTC-A-ATTCAGCCTGCTCCCTTGCTACCTCAGAG
1 TGCTCCCTTGCTACCTCAGAAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTTAGAG
*
89876672 AGATAAGGCTGGTGGCTAAAATC
66 AGATAAAGCTGGTGGCTAAAATC
* * * * * *
89876695 TGCTCCCTTGTTACCTCGGGAAGATAATA-TATGCCATCTTCAATCTGCTCTACTATTG-T---T
1 TGCTCCCTTGCTACCTCAGAAAGATAAGACTA--CGATCTTCAACCTGCTCT-C--TTGCTACCT
* * * *
89876755 TAGGGAGATAAGATCT--T--CATCATCAGTC
61 TAGAGAGATAA-AGCTGGTGGC-T-A-AAATC
* * * * *
89876783 TGCTTCCTTGCTACCTCTGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTGCCTTAGAG
1 TGCTCCCTTGCTACCTCAGAAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTTAGAG
* * *
89876848 AGATAAGGATGGTGGCTAAAACC
66 AGATAAAGCTGGTGGCTAAAATC
* * * * * *
89876871 TGCTCCCTTACTACCTCGGGAAGATAAGA-TTCGCCATCTTCGAGCTGCT-TC--GCTACTACTT
1 TGCTCCCTTGCTACCTCAGAAAGATAAGACTACG--ATCTTCAACCTGCTCTCTTGCTAC--CTT
* * ***** * *
89876932 AGGGAGATAAGATCTACAACCT-TAGTC
62 AGAGAGATAA-AGCTGGTGGCTAAAATC
* * *
89876959 TGCTTCTTTGCTACCTCAGAAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTCAGAG
1 TGCTCCCTTGCTACCTCAGAAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTTAGAG
89877024 AGATAAAGCTGGTGGCTAAAATC
66 AGATAAAGCTGGTGGCTAAAATC
* * * * ** * * *
89877047 TGCTCCCCTGTTAACTC-GAGAAGATAAGA-TTCGCCATCTTTGATCTGCTC-CACTACTA-CTT
1 TGCTCCCTTGCTACCTCAGA-AAGATAAGACTACG--ATCTTCAACCTGCTCTC-TTGCTACCTT
* * **** ** *
89877108 AGGGAGATAAGATCT-ACAACTTTAGTC
62 AGAGAGATAA-AGCTGGTGGCTAAAATC
* * * * *
89877135 TACTTCCTTACTACCTCAGGAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTCAGAG
1 TGCTCCCTTGCTACCTCAGAAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTTAGAG
*
89877200 AGATAAGGCTGGTGGCTAAAATC
66 AGATAAAGCTGGTGGCTAAAATC
*
89877223 TGCTCCCCTGCTACCTCA-AAGAGATAAG
1 TGCTCCCTTGCTACCTCAGAA-AGATAAG
89877251 GCTGGTGGCT
Statistics
Matches: 398, Mismatches: 117, Indels: 80
0.67 0.20 0.13
Matches are distributed among these distances:
84 3 0.01
85 3 0.01
86 30 0.08
87 63 0.16
88 230 0.58
89 57 0.14
90 7 0.02
91 2 0.01
92 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (88 bp):
TGCTCCCTTGCTACCTCAGAAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTTAGAG
AGATAAAGCTGGTGGCTAAAATC
Found at i:89877226 original size:44 final size:44
Alignment explanation
Indices: 89877178--89877293 Score: 189
Period size: 44 Copynumber: 2.6 Consensus size: 44
89877168 GATCTTCAAC
* *
89877178 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAAT
*
89877222 CTGCTCCCCTGCTACCTCAAAGAGATAAGGCTGGTGGCTAAAAT
1 CTGCTCCCCTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAAT
89877266 CTGCTCCCCTGCTACCTCAG-GAAGATAA
1 CTGCTCCCCTGCTACCTCAGAG-AGATAA
89877294 AATTCACCAT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
43 1 0.01
44 66 0.99
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (44 bp):
CTGCTCCCCTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAAT
Found at i:89877250 original size:176 final size:175
Alignment explanation
Indices: 89876326--89877239 Score: 1103
Period size: 176 Copynumber: 5.2 Consensus size: 175
89876316 CAACTTTAGG
** ** * * * *
89876326 GAGATAAGGCTGGTGGCTTCAATCTGCTCCTGTTACTACATTGGAAAGATAAGATTCGCCATCTT
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCC-CCTGCTACCTCGGGAAGATAAGATTCGCCATCTT
* * * *
89876391 CAATCTGTTCCACTAC-AGCTTAGGGAGAT---A---A-AA-TCTAGTCTGCCTCCTTGCTACCT
65 CGATCTGCTCCACTACTA-CTTAGGGAGATAAGATCTACAACTTTAGTCTGCTTCCTTGCTACCT
* * *
89876447 CAAGAAGATAAGACTATCATATTTAACCTGCTCTCTTGCTACCTCAGA
129 CAGGAAGATAAGACTA-CATCTTCAACCTGCTCTCTTGCTACCTCAGA
* * * *
89876495 GAGATAAGGCTGGTGGCTAAAATCTTCTCCCCTACTACCTCAGGAAGATAAGATTCGCCATTTTC
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATCTTC
* * * * * * *
89876560 GATCTGCCCCACTACTATCTCAGGGAGATGAGATATTCAATCTTCAGTTTGCTTCCTTGCTACCT
66 GATCTGCTCCACTACTA-CTTAGGGAGATAAGATCTACAA-CTTTAGTCTGCTTCCTTGCTACCT
* * * * *
89876625 TAGGAAGATAAGACTTCA-ATTCAGCCTGCTCCCTTGCTACCTCAGA
129 CAGGAAGATAAGACTACATCTTCAACCTGCTCTCTTGCTACCTCAGA
* * *
89876671 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCTTGTTACCTCGGGAAGATAATATAT-GCCATCTT
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGAT-TCGCCATCTT
* * * ** * * * *
89876735 CAATCTGCTCTACTATTGTTTAGGGAGATAAGATCTTCATCATCAGTCTGCTTCCTTGCTACCTC
65 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACTTTAGTCTGCTTCCTTGCTACCTC
* * *
89876800 TGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTGCCTTAGA
130 AGGAAGATAAGACTAC-ATCTTCAACCTGCTCTCTTGCTACCTCAGA
* * * *
89876847 GAGATAAGGATGGTGGCTAAAACCTGCTCCCTTACTACCTCGGGAAGATAAGATTCGCCATCTTC
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATCTTC
* * * * *
89876912 GAGCTGCTTCGCTACTACTTAGGGAGATAAGATCTACAACCTTAGTCTGCTTCTTTGCTACCTCA
66 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACTTTAGTCTGCTTCCTTGCTACCTCA
*
89876977 GAAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTCAGA
131 GGAAGATAAGACTAC-ATCTTCAACCTGCTCTCTTGCTACCTCAGA
* * * * *
89877023 GAGATAAAGCTGGTGGCTAAAATCTGCTCCCCTGTTAACTCGAGAAGATAAGATTCGCCATCTTT
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATCTTC
* *
89877088 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACTTTAGTCTACTTCCTTACTACCTCA
66 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACTTTAGTCTGCTTCCTTGCTACCTCA
89877153 GGAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTCAGA
131 GGAAGATAAGACTAC-ATCTTCAACCTGCTCTCTTGCTACCTCAGA
89877199 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTC
1 GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTC
89877240 AAAGAGATAA
Statistics
Matches: 635, Mismatches: 96, Indels: 21
0.84 0.13 0.03
Matches are distributed among these distances:
168 40 0.06
169 38 0.06
172 1 0.00
174 36 0.06
175 19 0.03
176 466 0.73
177 3 0.00
178 32 0.05
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (175 bp):
GAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATCTTC
GATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACTTTAGTCTGCTTCCTTGCTACCTCA
GGAAGATAAGACTACATCTTCAACCTGCTCTCTTGCTACCTCAGA
Found at i:89877338 original size:352 final size:347
Alignment explanation
Indices: 89876371--89877339 Score: 1013
Period size: 352 Copynumber: 2.8 Consensus size: 347
89876361 CTACATTGGA
* *
89876371 AAGATAAGATTCGCCATCTTCAATCTGTTCCACTAC-AGCTTAGGGAGAT---A---A-AA-TCT
1 AAGATAAGATTCGCCATCTTCAATCTGCTCCACTACTA-CTTAGGGAGATAAGATCTACAACTTT
* * * *
89876427 AGTCTGCCTCCTTGCTACCTCAAGAAGATAAGACTATCATATTTAACCTGCTCTCTTGCTACCTC
65 AGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTA-CATCTTCAACCTGCTCTCTTGCTACCTC
* *
89876492 AGAGAGATAAGGCTGGTGGCTAAAATCTTCTCCCCTACTACCTCAGGAAGATAAGATTCGCCATT
129 AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTACTACCTCAGGAAGATAAGATTCGCCATC
* * *
89876557 TTCGATCTGC-CCCACTACTATCTCAGGGAGATGAGATATTCA-ATCTTC-AGTTTGCTTCCTTG
194 TTCGATCTGCTCCC-CTACTA-CTCAGGGAGAT-A-AAATTCACATCTTCGA-TCTGC-TCC--A
* * *
89876619 CTAC-CTTAGGAAGATAAGACTTCAATTCAGCCTGCTCCCTTGCTACCTCAGAGAGATAAGGCTG
251 CTACTCTTAGGAAGATAAGACTACAATTCAACCTGCTCCCTTGCTACCTCAGAGAGATAAAGCTG
* * *
89876683 GTGGCTAAAATCTGCTCCCTTGTTACCTCGGG
316 GTGGCTAAAATCTGCTCCCCTGTTAACTCGAG
* * * ** * * * *
89876715 AAGATAATATAT-GCCATCTTCAATCTGCTCTACTATTGTTTAGGGAGATAAGATCTTCATCATC
1 AAGATAAGAT-TCGCCATCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACTTT
* * *
89876779 AGTCTGCTTCCTTGCTACCTCTGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTGCCTT
65 AGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTAC-ATCTTCAACCTGCTCTCTTGCTACCTC
* * * *
89876844 AGAGAGATAAGGATGGTGGCTAAAACCTGCTCCCTTACTACCTCGGGAAGATAAGATTCGCCATC
129 AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTACTACCTCAGGAAGATAAGATTCGCCATC
* * * * * * * **
89876909 TTCGAGCTGCTTCGCTACTACTTAGGGAGATAAGA-TCTACAACCTTAG-TCTGCTTCTTTGCTA
194 TTCGATCTGCTCCCCTACTACTCAGGGAGATAAAATTC-AC-ATCTTCGATCTGC-TC--CACTA
* * * *
89876972 C-CTCAGAAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAAGCTGG
254 CTCTTAGGAAGATAAGACTAC-A-ATTCAACCTGCTCCCTTGCTACCTCAGAGAGATAAAGCTGG
89877036 TGGCTAAAATCTGCTCCCCTGTTAACTCGAG
317 TGGCTAAAATCTGCTCCCCTGTTAACTCGAG
**
89877067 AAGATAAGATTCGCCATCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACTTTA
1 AAGATAAGATTCGCCATCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACTTTA
* *
89877132 GTCTACTTCCTTACTACCTCAGGAAGATAAGACTACGATCTTCAACCTGCTCTCTTGCTACCTCA
66 GTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTAC-ATCTTCAACCTGCTCTCTTGCTACCTCA
* * ** ****
89877197 GAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCA-AAGAGATAAGGCT-GGTGGC
130 GAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTACTACCTCAGGA-AGATAAGATTCGCCATC
*** * *
89877260 TAAAATCTGCTCCCCTGCTACCTCAGGAAGATAAAATTCACCATCTTCGATCTGCTCCACTACTG
194 TTCGATCTGCTCCCCTACTA-CTCAGGGAGATAAAATTCA-CATCTTCGATCTGCTCCACTACT-
*
89877325 CTTAGGGAGATAAGA
256 CTTAGGAAGATAAGA
89877340 TCTGTGAATT
Statistics
Matches: 508, Mismatches: 89, Indels: 48
0.79 0.14 0.07
Matches are distributed among these distances:
344 40 0.08
345 1 0.00
347 1 0.00
348 2 0.00
349 3 0.01
350 33 0.06
351 34 0.07
352 385 0.76
353 9 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (347 bp):
AAGATAAGATTCGCCATCTTCAATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAACTTTA
GTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACATCTTCAACCTGCTCTCTTGCTACCTCAG
AGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTACTACCTCAGGAAGATAAGATTCGCCATCTT
CGATCTGCTCCCCTACTACTCAGGGAGATAAAATTCACATCTTCGATCTGCTCCACTACTCTTAG
GAAGATAAGACTACAATTCAACCTGCTCCCTTGCTACCTCAGAGAGATAAAGCTGGTGGCTAAAA
TCTGCTCCCCTGTTAACTCGAG
Found at i:89878609 original size:8 final size:8
Alignment explanation
Indices: 89878596--89878657 Score: 74
Period size: 8 Copynumber: 8.0 Consensus size: 8
89878586 TTTTTTTTGA
89878596 TTTATTTT
1 TTTATTTT
89878604 TTTATTTT
1 TTTATTTT
89878612 TTTA--TT
1 TTTATTTT
89878618 TTTATTTT
1 TTTATTTT
*
89878626 TTTACTTT
1 TTTATTTT
*
89878634 TTTACTTT
1 TTTATTTT
* *
89878642 TTGATTAT
1 TTTATTTT
89878650 TTTATTTT
1 TTTATTTT
89878658 ATTTTTGTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
6 6 0.13
8 40 0.87
ACGTcount: A:0.15, C:0.03, G:0.02, T:0.81
Consensus pattern (8 bp):
TTTATTTT
Found at i:89878611 original size:22 final size:22
Alignment explanation
Indices: 89878585--89878657 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
89878575 TTCTTTCTTC
*
89878585 TTTTTTTTTGATTTATTTTTTTA
1 TTTTTTTAT-ATTTATTTTTTTA
*
89878608 TTTTTTTATTTTTATTTTTTTA
1 TTTTTTTATATTTATTTTTTTA
* * *
89878630 CTTTTTTACTTTTTGATTATTTTA
1 TTTTTTTA-TATTT-ATTTTTTTA
89878654 TTTT
1 TTTT
89878658 ATTTTTGTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
22 19 0.44
23 13 0.30
24 11 0.26
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (22 bp):
TTTTTTTATATTTATTTTTTTA
Found at i:89883640 original size:112 final size:112
Alignment explanation
Indices: 89883458--89883686 Score: 332
Period size: 112 Copynumber: 2.0 Consensus size: 112
89883448 CGGCCATGTG
* * * *
89883458 ACACGGTCGTATGAAGCACACGGCCTGGACACACGAGAGTGCCCTAGGCCGTGTGATAATTGGAG
1 ACACGGTCGTATGAAGCACACGACCTGGACACACAAGAGTGCCCTAGGCCGTGTGAAAACTGGAG
* *
89883523 CTAATTTTTCAAATTTTAAATAAGTCAGGGAGCCACACGGGTAAAGC
66 CTAATTTTTCAAATTTTAAATAAGTCAGGAAGCCACACGGGCAAAGC
* ** **
89883570 ACACGGTCGTGTGAAGCACGTGACCTGGACACACAAGAGTTTCCTAGGCCGTGTGAAAACTGGAG
1 ACACGGTCGTATGAAGCACACGACCTGGACACACAAGAGTGCCCTAGGCCGTGTGAAAACTGGAG
* * *
89883635 CTAATTTTTCAAATTTTAAATAAGTTAGGAAGCCAGACGGGCAAGGC
66 CTAATTTTTCAAATTTTAAATAAGTCAGGAAGCCACACGGGCAAAGC
89883682 ACACG
1 ACACG
89883687 ACCGTGTGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
112 103 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (112 bp):
ACACGGTCGTATGAAGCACACGACCTGGACACACAAGAGTGCCCTAGGCCGTGTGAAAACTGGAG
CTAATTTTTCAAATTTTAAATAAGTCAGGAAGCCACACGGGCAAAGC
Found at i:89898856 original size:46 final size:45
Alignment explanation
Indices: 89898789--89898955 Score: 185
Period size: 46 Copynumber: 3.6 Consensus size: 45
89898779 CAAGCTACCA
*
89898789 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCATAAG
* * * * * *
89898835 TGAACTCGGACTAAACTCAACGAGTTCGGATGCCTAG-TTACAATTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCAT-CCA-TAAG
* *
89898882 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCATAAG
89898928 TGAACTCGGACTCAACTCAACGAGTTCG
1 TGAACTCGGACTCAACTCAACGAGTTCG
89898956 AATGCTCAAC
Statistics
Matches: 98, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
45 3 0.03
46 59 0.60
47 32 0.33
48 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCATCCATAAG
Found at i:89898949 original size:93 final size:93
Alignment explanation
Indices: 89898790--89898960 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
89898780 AAGCTACCAT
* *
89898790 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTAAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTAAACTCAA
*
89898855 CGAGTTCGGATGCCTAGTTACAATTCAC
66 CGAGTTCGAATGCCTAGTTACAATTCAC
* *
89898883 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTAAACTCAA
89898948 CGAGTTCGAATGC
66 CGAGTTCGAATGC
89898961 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTAAACTCAA
CGAGTTCGAATGCCTAGTTACAATTCAC
Found at i:89898976 original size:46 final size:46
Alignment explanation
Indices: 89898789--89898976 Score: 120
Period size: 46 Copynumber: 4.1 Consensus size: 46
89898779 CAAGCTACCA
* *** * *
89898789 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACCATCC-T-AG
* * * *
89898835 TGAACTCGGACTAAACTCAACGAGTTCGGATGC-CTAGTTACAATTC-A-
1 TGAACTCGGACTCAACTCAACGAGTTCGAATGCTC-A---ACCATCCTAG
* * * * *
89898882 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAG
1 TGAACTCGGACTCAACTCAACGAGTTC-GA-ATGCTCAACCATCCTAG
89898928 TGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACCATCCTAG
89898974 TGA
1 TGA
89898977 CATGTCACTT
Statistics
Matches: 110, Mismatches: 19, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
44 9 0.08
45 4 0.04
46 62 0.56
47 25 0.23
48 2 0.02
49 4 0.04
50 1 0.01
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGAATGCTCAACCATCCTAG
Found at i:89906399 original size:46 final size:45
Alignment explanation
Indices: 89906332--89906505 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
89906322 TGTAACCCGC
* *
89906332 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
* * * *
89906378 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCAT
* * * * *
89906424 ACAATTCA-CGAACTCGGACTCAAATCAACGAGTTCGGACATTCGCAT
1 -CCA-TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
89906471 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
89906506 AATGCTCAAC
Statistics
Matches: 102, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
45 3 0.03
46 64 0.63
47 31 0.30
48 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCAT
Found at i:89906452 original size:93 final size:93
Alignment explanation
Indices: 89906340--89906510 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
89906330 GCCCATAAGT
* * * *
89906340 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
89906405 TGAGTTCGGATGCCTAGTTACAATTCAC
66 CGAGTTCGAATGCCTAGTTACAATTCAC
*
89906433 GAACTCGGACTCAAATCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
89906498 CGAGTTCGAATGC
66 CGAGTTCGAATGC
89906511 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACAATTCAC
Found at i:89910894 original size:14 final size:13
Alignment explanation
Indices: 89910873--89910905 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
89910863 GGAATATCAA
89910873 AACAAGAATTAAG
1 AACAAGAATTAAG
89910886 AACACAGAATTAAG
1 AACA-AGAATTAAG
89910900 AACAAG
1 AACAAG
89910906 TCAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.61, C:0.12, G:0.15, T:0.12
Consensus pattern (13 bp):
AACAAGAATTAAG
Found at i:89915457 original size:55 final size:55
Alignment explanation
Indices: 89915381--89915513 Score: 140
Period size: 55 Copynumber: 2.4 Consensus size: 55
89915371 ATAGTCTCAC
* * *** *
89915381 GCCCGTGTTAATCTAACAGGTTCGACCACGGTTGCTTGGCACGGGCGTGTCGCAA
1 GCCCGTGTTAATTTGACAGGTTCGACCACGGTTGCAAAGCACGAGCGTGTCGCAA
* * * * *
89915436 GCCCGTGTTAATTTGATAGGTTTGGCCACGGTTTCAAAGCACGAGCGTGTCGCAC
1 GCCCGTGTTAATTTGACAGGTTCGACCACGGTTGCAAAGCACGAGCGTGTCGCAA
* **
89915491 GCCAGTGTTGTTTTGACAGGTTC
1 GCCCGTGTTAATTTGACAGGTTC
89915514 ACCCAGGCCA
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.28
Consensus pattern (55 bp):
GCCCGTGTTAATTTGACAGGTTCGACCACGGTTGCAAAGCACGAGCGTGTCGCAA
Found at i:89917328 original size:47 final size:49
Alignment explanation
Indices: 89917206--89917384 Score: 214
Period size: 47 Copynumber: 3.8 Consensus size: 49
89917196 TGTAACCCGC
* * *
89917206 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GC-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
*
89917252 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG-C-AGTTCACAT
* *
89917302 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
*
89917346 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
89917385 TTCAACCATC
Statistics
Matches: 115, Mismatches: 7, Indels: 19
0.82 0.05 0.13
Matches are distributed among these distances:
43 3 0.03
44 5 0.04
45 1 0.01
46 37 0.32
47 58 0.50
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
Found at i:89917374 original size:94 final size:93
Alignment explanation
Indices: 89917214--89917384 Score: 297
Period size: 94 Copynumber: 1.8 Consensus size: 93
89917204 GCCCATAAGT
* *
89917214 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
89917279 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
89917307 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTCA
89917372 ACGAGTTCGGATG
65 ACGAGTTCGGATG
89917385 TTCAACCATC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 28 0.38
94 45 0.62
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:89917809 original size:30 final size:30
Alignment explanation
Indices: 89917775--89917834 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
89917765 CCTTAATACG
89917775 AACTTTTGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTTGCAAAATTACAC-TTTTGCCCCTA
*
89917805 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
89917835 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTGCCCCTA
Found at i:89922348 original size:47 final size:47
Alignment explanation
Indices: 89922297--89922473 Score: 222
Period size: 47 Copynumber: 3.8 Consensus size: 47
89922287 TGGTTGAACA
89922297 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
* * *
89922344 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--ATG
*
89922389 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
*
89922437 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89922474 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 8, Indels: 19
0.81 0.06 0.14
Matches are distributed among these distances:
43 2 0.02
44 5 0.04
45 3 0.03
46 36 0.32
47 58 0.51
48 4 0.04
50 5 0.04
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
Found at i:89926593 original size:23 final size:22
Alignment explanation
Indices: 89926567--89926612 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
89926557 TGTGATGACG
89926567 TTATCTT-ATAAATATGTATGAAT
1 TTATCTTGA-AAATATGT-TGAAT
89926590 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGTTGAAT
89926612 T
1 T
89926613 GATTTGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 15 0.68
24 1 0.05
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATCTTGAAAATATGTTGAAT
Found at i:89959278 original size:19 final size:19
Alignment explanation
Indices: 89959254--89959290 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
89959244 TATGACGGCT
89959254 CCCTCCTATCTTCTTATCA
1 CCCTCCTATCTTCTTATCA
89959273 CCCTCCTATCTTCTTATC
1 CCCTCCTATCTTCTTATC
89959291 GTTGTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (19 bp):
CCCTCCTATCTTCTTATCA
Found at i:89960444 original size:25 final size:25
Alignment explanation
Indices: 89960410--89960461 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
89960400 AGTTGATTCG
89960410 AAGAAATGATCTAAAAACTTAAATT
1 AAGAAATGATCTAAAAACTTAAATT
89960435 AAGAAATGATCTAAAAACTTAAATT
1 AAGAAATGATCTAAAAACTTAAATT
89960460 AA
1 AA
89960462 TTTAACTAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.27
Consensus pattern (25 bp):
AAGAAATGATCTAAAAACTTAAATT
Found at i:89971030 original size:6 final size:6
Alignment explanation
Indices: 89971019--89971091 Score: 62
Period size: 6 Copynumber: 12.3 Consensus size: 6
89971009 GAAGTCTCTC
* * * *
89971019 AAATAA AAATAA AAAT-- -AATAA AAATAA AAATAA AAGTAC AACTGA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
89971064 AAATAA AAATAA ATAAAAA CAAATAA AA
1 AAATAA AAATAA A-AATAA -AAATAA AA
89971092 TGAAAATAGA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
3 3 0.06
6 41 0.77
7 8 0.15
8 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:89971040 original size:15 final size:15
Alignment explanation
Indices: 89971020--89971051 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
89971010 AAGTCTCTCA
89971020 AATAAAAATAAAAAT
1 AATAAAAATAAAAAT
89971035 AATAAAAATAAAAAT
1 AATAAAAATAAAAAT
89971050 AA
1 AA
89971052 AAGTACAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AATAAAAATAAAAAT
Found at i:89973255 original size:11 final size:11
Alignment explanation
Indices: 89973241--89973270 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
89973231 AACATTATAC
*
89973241 AATAATTAAAT
1 AATAATAAAAT
89973252 AATAATAAAAT
1 AATAATAAAAT
89973263 AATAATAA
1 AATAATAA
89973271 TAACAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:89973286 original size:17 final size:18
Alignment explanation
Indices: 89973241--89973278 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
89973231 AACATTATAC
*
89973241 AATAATTAAATAATAATAA
1 AATAA-TAAATAATAACAA
89973260 AATAAT-AATAATAACAA
1 AATAATAAATAATAACAA
89973277 AA
1 AA
89973279 AGTAAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 12 0.67
18 1 0.06
19 5 0.28
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AATAATAAATAATAACAA
Found at i:89976068 original size:19 final size:19
Alignment explanation
Indices: 89976044--89976121 Score: 115
Period size: 19 Copynumber: 4.1 Consensus size: 19
89976034 ATCTTTAAGA
89976044 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
89976063 ATATGCAATCTTAGATATG
1 ATATGCAATCTTAGATATG
*
89976082 ATA--CACTCTTAGATATG
1 ATATGCAATCTTAGATATG
89976099 ATATGCAATCTTAAAGATATG
1 ATATGCAATCTT--AGATATG
89976120 AT
1 AT
89976122 CTTGTAATCT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 28 0.53
21 9 0.17
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
ATATGCAATCTTAGATATG
Found at i:89976073 original size:36 final size:36
Alignment explanation
Indices: 89976033--89976119 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 36
89976023 ATGGAAATAT
89976033 AATCTTTAAGAATATGCAATCTTAGATATGATATGC
1 AATCTTTAAGAATATGCAATCTTAGATATGATATGC
* *
89976069 AATC-TT-AGATATGATACACTCTTAGATATGATATGC
1 AATCTTTAAGA-AT-ATGCAATCTTAGATATGATATGC
*
89976105 AATCTTAAAG-ATATG
1 AATCTTTAAGAATATG
89976120 ATCTTGTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
34 3 0.07
35 6 0.14
36 31 0.72
37 1 0.02
38 2 0.05
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (36 bp):
AATCTTTAAGAATATGCAATCTTAGATATGATATGC
Found at i:89981821 original size:44 final size:43
Alignment explanation
Indices: 89981627--89982100 Score: 322
Period size: 44 Copynumber: 10.8 Consensus size: 43
89981617 GAAACAAGAT
* * *
89981627 TTGGCATCCCTGTGTTTATAGGAAAC-AGATCAAAGATAGAAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGCAGA
* * * **
89981670 TCT-G-ATACTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTCAGCA
1 T-TGGCAT-C-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAG-A
* * * **
89981716 -TGGCATCCCTATGTTTATAAGGAACAAGTTGAAGATTTCAGCA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAG-A
*
89981759 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
* * *
89981801 TTTTGCATCCCTATGTTTATAGGGAAGAA-TCGAAGATAGCAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
* * * * * * **
89981844 TCTGACATTCCTGTGCTTACAGCGAAGC-AGATCAAAGATTTCAGCA
1 T-TGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGCAG-A
*
89981890 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
* *
89981932 TTTGGCATCGCTGTGTTTATAGGGAACAAATCGAAGATAGCAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
* * ** * * **
89981976 TTTGACATTCCTGTACTTACAGCGAA-ATAGATCGAAGATTTCAGCA
1 -TTGGCATCCCTGTGTTTATAGGGAACA-AG-TCGAAGATAGCAG-A
*
89982022 -TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
* * * * *
89982064 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA
1 -TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGA
89982101 CATAGCTGAT
Statistics
Matches: 337, Mismatches: 70, Indels: 47
0.74 0.15 0.10
Matches are distributed among these distances:
42 6 0.02
43 107 0.32
44 182 0.54
45 37 0.11
46 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (43 bp):
TTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGCAGA
Found at i:89981921 original size:174 final size:175
Alignment explanation
Indices: 89981623--89981979 Score: 538
Period size: 174 Copynumber: 2.0 Consensus size: 175
89981613 CAGAGAAACA
* *
89981623 AGATTTGGCATCCCTGTGTTTATAGGAAACAGATCAAAGATAGAAGATCTGATACTCCTGTGCTT
1 AGATTTGGCATCCCTATGTTTATAGGAAACAGATCAAAGATAGAAGATCTGACACTCCTGTGCTT
* *
89981688 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTATGTTTATAAGGAACAAGTTGAAGATT
66 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAAGGAACAAGTTGAAGATA
* * *
89981753 TCAGCA-TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
131 GCAG-ATTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
* * * * * *
89981798 AGATTTTGCATCCCTATGTTTATAGGGAAGA-ATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTATGTTTATAGGAAACAGATCAAAGATAGAAGATCTGACACTCCTGTGCTT
* *
89981862 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAAGGAACAAGTTGAAGATA
*
89981927 GCAGATTTGGCATCGCTGTGTTTATAGGGAACAAATCGAAGATAGC
131 GCAGA-TTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
89981973 AGATTTG
1 AGATTTG
89981980 ACATTCCTGT
Statistics
Matches: 163, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
173 1 0.01
174 93 0.57
175 69 0.42
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (175 bp):
AGATTTGGCATCCCTATGTTTATAGGAAACAGATCAAAGATAGAAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCAAAGATTTCAGCATGGCATCCCTATGTTTATAAGGAACAAGTTGAAGATA
GCAGATTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
Found at i:89982039 original size:132 final size:131
Alignment explanation
Indices: 89981746--89982100 Score: 577
Period size: 132 Copynumber: 2.7 Consensus size: 131
89981736 GGAACAAGTT
*
89981746 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTTGCATCC
1 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCAT-C
* * * *
89981811 CTATGTTTATAGGGAA-GAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGCAGA
65 CTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTACTTACAGCGAAACAGA
89981875 TC
130 TC
*
89981877 AAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCG
1 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATC-
* *
89981942 CTGTGTTTATAGGGAACAAATCGAAGATAGCAGATTTGACATTCCTGTACTTACAGCGAAATAGA
65 CTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTACTTACAGCGAAACAGA
89982007 TC
130 TC
89982009 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
1 GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
* * *
89982074 TTGTGCTTACAAGGAACAAATCGAAGA
66 -TGTGTTTATAGGGAACAAATCGAAGA
89982101 CATAGCTGAT
Statistics
Matches: 209, Mismatches: 12, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
130 1 0.00
131 77 0.37
132 131 0.63
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (131 bp):
GAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
TGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACATTCCTGTACTTACAGCGAAACAGAT
C
Found at i:89983214 original size:206 final size:206
Alignment explanation
Indices: 89982062--89983199 Score: 1821
Period size: 206 Copynumber: 5.5 Consensus size: 206
89982052 GAAGATAGCA
*
89982062 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACG-GTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
89982126 TACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTTTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * *
89982191 CGTCTCCATAGTCGATGGAGAGCAGACACATAGTAGATCTGGCCTTCATATGCTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGCTTATACTGAAGC
89982256 AGATCCAAGGT
196 AGATCCAAGGT
*
89982267 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACG-GTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * *
89982331 TACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTATATTTTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* *
89982396 CGTCTCCATAGTCGACGGAGAGCAGACACATAGTAGATCTGGCCTTCATATGCTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGCTTATACTGAAGC
89982461 AGATCCAAGGT
196 AGATCCAAGGT
89982472 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * * *
89982537 TATGATGAAGCAAGTCTAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAATTGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * *
89982602 CGTCTCCATATTCGACGAAGAGTAGACACATAGCAGATCTGGCCTTCATATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGCTTATACTGAAGC
89982667 AGATCCAAGGT
196 AGATCCAAGGT
89982678 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * *
89982743 TACGATGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATTGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* ** * * *
89982808 CGTCTTCATATTCGACGGAGAGCAGACACATAGCAGATCTAACGTTCAGATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGCTTATACTGAAGC
*
89982873 AGATCCAAGAT
196 AGATCCAAGGT
*
89982884 GATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
89982949 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
** * ** * * * *
89983014 CGTCTCCATATTCGACAAAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTAGACTGAAGT
131 CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGCTTATACTGAAGC
* *
89983079 AGATTCAAGAT
196 AGATCCAAGGT
* * * * * * **
89983090 GGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTAATTTGGTTTTTGCGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
89983155 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCA
89983200 AAAAATAGAT
Statistics
Matches: 884, Mismatches: 48, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
205 264 0.30
206 620 0.70
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (206 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
CGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTGGCCTTCATATGCTTATACTGAAGC
AGATCCAAGGT
Found at i:89983626 original size:19 final size:20
Alignment explanation
Indices: 89983602--89983643 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
89983592 ATCTTTAAGA
*
89983602 ATATGCAATCTT-AGATATG
1 ATATGCAATATTAAGATATG
89983621 ATATGCAATATTGAAGATATG
1 ATATGCAATATT-AAGATATG
89983642 AT
1 AT
89983644 CTTGTAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
21 9 0.45
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (20 bp):
ATATGCAATATTAAGATATG
Found at i:89985515 original size:99 final size:99
Alignment explanation
Indices: 89985344--89985541 Score: 396
Period size: 99 Copynumber: 2.0 Consensus size: 99
89985334 CCTTCAATTC
89985344 CCTTTAAGAGTTCTTGGGTTTTCTTTATGTTTTGTTATCATTATTCTTTTGAGATGTTTTCTTTC
1 CCTTTAAGAGTTCTTGGGTTTTCTTTATGTTTTGTTATCATTATTCTTTTGAGATGTTTTCTTTC
89985409 ATAAATATGAACTAAACCTCCTAAATACCTAAGG
66 ATAAATATGAACTAAACCTCCTAAATACCTAAGG
89985443 CCTTTAAGAGTTCTTGGGTTTTCTTTATGTTTTGTTATCATTATTCTTTTGAGATGTTTTCTTTC
1 CCTTTAAGAGTTCTTGGGTTTTCTTTATGTTTTGTTATCATTATTCTTTTGAGATGTTTTCTTTC
89985508 ATAAATATGAACTAAACCTCCTAAATACCTAAGG
66 ATAAATATGAACTAAACCTCCTAAATACCTAAGG
89985542 GGAATGAAAC
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.46
Consensus pattern (99 bp):
CCTTTAAGAGTTCTTGGGTTTTCTTTATGTTTTGTTATCATTATTCTTTTGAGATGTTTTCTTTC
ATAAATATGAACTAAACCTCCTAAATACCTAAGG
Found at i:89985585 original size:99 final size:97
Alignment explanation
Indices: 89985365--89985565 Score: 215
Period size: 99 Copynumber: 2.0 Consensus size: 97
89985355 TCTTGGGTTT
* * *
89985365 TCTTTATGTTTTGTTATCATTATTCTTTTGAGATGTTTTCTTTCATAAATATGAACTAAACCTCC
1 TCTTTATGTATTATTATAATTATTCTTTTGAGATGTTTTCTTTCATAAATATGAACTAAACCTCC
** *** ** * **
89985430 TAAATACCTAAGGCCTTTAAGAGTTCTTGGGTTT
66 TAAATACCTAAGG-C-GGAAGAAACCTAAGATGA
* * *
89985464 TCTTTATGTTTTGTTATCATTATTCTTTTGAGATGTTTTCTTTCATAAATATGAACTAAACCTCC
1 TCTTTATGTATTATTATAATTATTCTTTTGAGATGTTTTCTTTCATAAATATGAACTAAACCTCC
89985529 TAAATACCTAAGG-GGAATGAAACCTAAGATAGA
66 TAAATACCTAAGGCGGAA-GAAACCTAAGAT-GA
89985562 TCTT
1 TCTT
89985566 GTTATTATTA
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
96 2 0.02
97 6 0.07
98 4 0.04
99 78 0.87
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (97 bp):
TCTTTATGTATTATTATAATTATTCTTTTGAGATGTTTTCTTTCATAAATATGAACTAAACCTCC
TAAATACCTAAGGCGGAAGAAACCTAAGATGA
Found at i:89988278 original size:40 final size:40
Alignment explanation
Indices: 89988205--89988280 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
89988195 ACACACCATG
* * *
89988205 TGGGGATAAAATAGACCTACCCAGCCCTGCACACCAACTA
1 TGGGGATAAAATAGACCCACCCAACCCTACACACCAACTA
*
89988245 TGGGGATAAAATCA-ACCCATCCAACCCTACACACCA
1 TGGGGATAAAAT-AGACCCACCCAACCCTACACACCA
89988281 TATGGTACCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 30 0.97
41 1 0.03
ACGTcount: A:0.37, C:0.34, G:0.14, T:0.14
Consensus pattern (40 bp):
TGGGGATAAAATAGACCCACCCAACCCTACACACCAACTA
Found at i:89993258 original size:24 final size:24
Alignment explanation
Indices: 89993220--89993355 Score: 163
Period size: 24 Copynumber: 5.8 Consensus size: 24
89993210 GCTCTTCATA
*
89993220 AGCTGATAACAGTAAGCTCTATTG
1 AGCTGAAAACAGTAAGCTCTATTG
*
89993244 AGCTGAAAACGGTAAGCTCTATTG
1 AGCTGAAAACAGTAAGCTCTATTG
*
89993268 AGCTGAAAACGGTAAGCTCTATTG
1 AGCTGAAAACAGTAAGCTCTATTG
* *
89993292 AGCTAAAAACAGTAAGCTCTATTA
1 AGCTGAAAACAGTAAGCTCTATTG
* * *
89993316 AGTTG--AACAGTAAGCT-TTTCTA
1 AGCTGAAAACAGTAAGCTCTAT-TG
89993338 AGCTG-AAACAGTAAGCTC
1 AGCTGAAAACAGTAAGCTC
89993356 ATACAAGCTA
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
21 2 0.02
22 17 0.17
23 11 0.11
24 70 0.70
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (24 bp):
AGCTGAAAACAGTAAGCTCTATTG
Found at i:89993363 original size:23 final size:22
Alignment explanation
Indices: 89993204--89993364 Score: 81
Period size: 24 Copynumber: 6.8 Consensus size: 22
89993194 AAGACATGGC
*
89993204 CAGTAAGCTCTTCATAAGCTGATAA
1 CAGTAAGCTC-T-ACAAGCTGA-AA
**
89993229 CAGTAAGCTCTATTGAGCTGAAAA
1 CAGTAAGCTCTA-CAAGCTG-AAA
* **
89993253 CGGTAAGCTCTATTGAGCTGAAAA
1 CAGTAAGCTCTA-CAAGCTG-AAA
* ** *
89993277 CGGTAAGCTCTATTGAGCTAAAAA
1 CAGTAAGCTCTA-CAAGCT-GAAA
* *
89993301 CAGTAAGCTCTATTAAGTTG-AA
1 CAGTAAGCTCTA-CAAGCTGAAA
* *
89993323 CAGTAAGCTTTTCTAAGCTGAAA
1 CAGTAAGCTCTAC-AAGCTGAAA
89993346 CAGTAAGCTCATACAAGCT
1 CAGTAAGCTC-TACAAGCT
89993365 ATGGTAAGTC
Statistics
Matches: 117, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
22 17 0.15
23 17 0.15
24 72 0.62
25 11 0.09
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (22 bp):
CAGTAAGCTCTACAAGCTGAAA
Found at i:90002617 original size:7 final size:7
Alignment explanation
Indices: 90002600--90002718 Score: 75
Period size: 7 Copynumber: 16.4 Consensus size: 7
90002590 GGCAACCCAA
90002600 TTTTTAT
1 TTTTTAT
90002607 TTTTT-T
1 TTTTTAT
90002613 ATTTTTAT
1 -TTTTTAT
90002621 TTTATTAT
1 TTT-TTAT
*
90002629 TTATTAT
1 TTTTTAT
*
90002636 TTATTAT
1 TTTTTAT
*
90002643 TTATTAT
1 TTTTTAT
*
90002650 TTATTAT
1 TTTTTAT
*
90002657 TTATTAT
1 TTTTTAT
*
90002664 TTATTAT
1 TTTTTAT
90002671 TTTGTT-T
1 TTT-TTAT
*
90002678 TGTTTTGT
1 T-TTTTAT
90002686 TTTGTT-T
1 TTT-TTAT
90002693 TGTTTTAT
1 T-TTTTAT
90002701 TTTATT-T
1 TTT-TTAT
90002708 TATTTTAT
1 T-TTTTAT
90002716 TTT
1 TTT
90002719 ATTTATTAAT
Statistics
Matches: 98, Mismatches: 2, Indels: 24
0.79 0.02 0.19
Matches are distributed among these distances:
6 1 0.01
7 72 0.73
8 25 0.26
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (7 bp):
TTTTTAT
Found at i:90002618 original size:14 final size:15
Alignment explanation
Indices: 90002599--90002735 Score: 97
Period size: 15 Copynumber: 8.7 Consensus size: 15
90002589 AGGCAACCCA
90002599 ATTTTTATTTT-TTT
1 ATTTTTATTTTATTT
90002613 ATTTTTATTTTA-TT
1 ATTTTTATTTTATTT
90002627 ATTTATTATTTATTATTT
1 ATTT-TTA-TT-TTATTT
90002645 ATTATTTATTATT-TATT
1 ATT-TTTATT-TTAT-TT
*
90002662 ATTTATTATTTTGTTT
1 ATTT-TTATTTTATTT
* *
90002678 -TGTTTTGTTTTGTTT
1 AT-TTTTATTTTATTT
90002693 -TGTTTTATTTTATTT
1 AT-TTTTATTTTATTT
90002708 -TATTTTATTTTATTT
1 AT-TTTTATTTTATTT
90002723 ATTAATTTATTTT
1 ATT--TTTATTTT
90002736 GTTTGGATAT
Statistics
Matches: 106, Mismatches: 4, Indels: 23
0.80 0.03 0.17
Matches are distributed among these distances:
14 17 0.16
15 42 0.40
16 11 0.10
17 27 0.25
18 8 0.08
19 1 0.01
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.77
Consensus pattern (15 bp):
ATTTTTATTTTATTT
Found at i:90002637 original size:21 final size:21
Alignment explanation
Indices: 90002602--90002672 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
90002592 CAACCCAATT
90002602 TTTATT-TTT-TTATTT-TTA
1 TTTATTATTTATTATTTATTA
90002620 TTTTATTATTTATTATTTATTA
1 -TTTATTATTTATTATTTATTA
90002642 TTTATTATTTATTATTTATTA
1 TTTATTATTTATTATTTATTA
90002663 TTTATTATTT
1 TTTATTATTT
90002673 TGTTTTGTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
19 6 0.12
20 3 0.06
21 37 0.76
22 3 0.06
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTATTATTTATTATTTATTA
Found at i:90002683 original size:10 final size:10
Alignment explanation
Indices: 90002667--90002722 Score: 76
Period size: 10 Copynumber: 5.6 Consensus size: 10
90002657 TTATTATTTA
90002667 TTATTTTGTT
1 TTATTTTGTT
*
90002677 TTGTTTTGTT
1 TTATTTTGTT
*
90002687 TTGTTTTGTT
1 TTATTTTGTT
*
90002697 TTATTTTATT
1 TTATTTTGTT
*
90002707 TTATTTTATT
1 TTATTTTGTT
90002717 TTATTT
1 TTATTT
90002723 ATTAATTTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 43 1.00
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (10 bp):
TTATTTTGTT
Found at i:90002734 original size:4 final size:5
Alignment explanation
Indices: 90002601--90002722 Score: 69
Period size: 5 Copynumber: 24.6 Consensus size: 5
90002591 GCAACCCAAT
*
90002601 TTTTA -TTT- TTTTA TTTTTA TTTTA TTATT- TATTA -TTTA TTATT-
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TT-TTA TTTTA TTTTA TT-TTA
* * * * * *
90002644 TATTA -TTTA TTATTTA TTATT- TATTA TTTTG TTTTG TTTTG TTTTG
1 TTTTA TTTTA -T-TTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA
*
90002690 TTTTG TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
90002723 ATTAATTTAT
Statistics
Matches: 96, Mismatches: 8, Indels: 26
0.74 0.06 0.20
Matches are distributed among these distances:
4 18 0.19
5 62 0.65
6 12 0.12
7 4 0.04
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:90004594 original size:12 final size:12
Alignment explanation
Indices: 90004577--90004610 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
90004567 TTTAAAGAAA
*
90004577 TAATAATGATAT
1 TAATAATAATAT
90004589 TAATAATAATAT
1 TAATAATAATAT
90004601 TAAT-ATAATA
1 TAATAATAATA
90004611 ATAAATGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:90012586 original size:17 final size:16
Alignment explanation
Indices: 90012555--90012593 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
90012545 AATTTATATA
90012555 TATAATAAAATAATTG
1 TATAATAAAATAATTG
*
90012571 TATAATATATATAATTG
1 TATAATA-AAATAATTG
90012588 TATAAT
1 TATAAT
90012594 GGTATGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (16 bp):
TATAATAAAATAATTG
Found at i:90012768 original size:10 final size:10
Alignment explanation
Indices: 90012735--90012789 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
90012725 ATTTGTGAAA
90012735 AATAATATAT
1 AATAATATAT
* *
90012745 AGTAA-ACAAT
1 AATAATA-TAT
90012755 AATAATATAT
1 AATAATATAT
90012765 AATAATATAAT
1 AATAATAT-AT
*
90012776 TATAATATAT
1 AATAATATAT
90012786 AATA
1 AATA
90012790 CAAAGATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
9 1 0.03
10 25 0.69
11 10 0.28
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
AATAATATAT
Found at i:90012774 original size:18 final size:18
Alignment explanation
Indices: 90012753--90012803 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
90012743 ATAGTAAACA
90012753 ATAATAATATATAATAAT
1 ATAATAATATATAATAAT
*
90012771 ATAATTATA-ATATATAAT
1 ATAATAATATATA-ATAAT
*
90012789 ACAA-AGATATATAAT
1 ATAATA-ATATATAAT
90012804 CATTACGGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 3 0.11
18 21 0.78
19 3 0.11
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (18 bp):
ATAATAATATATAATAAT
Found at i:90015183 original size:11 final size:11
Alignment explanation
Indices: 90015167--90015195 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
90015157 ATTGGTGTCA
90015167 GCCATAAGGGT
1 GCCATAAGGGT
90015178 GCCATAAGGGT
1 GCCATAAGGGT
90015189 GCCATAA
1 GCCATAA
90015196 CCCCCGGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.31, T:0.17
Consensus pattern (11 bp):
GCCATAAGGGT
Found at i:90019766 original size:29 final size:30
Alignment explanation
Indices: 90019719--90019775 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
90019709 GGAAAGAAAA
* *
90019719 TTTATATTTTCCATCTTTCTATTTTTTCCC
1 TTTATATTTTCCATATTTCTAATTTTTCCC
*
90019749 TTTA-ATTTTTCATATTTCTAATTTTTC
1 TTTATATTTTCCATATTTCTAATTTTTC
90019776 ATTCCTAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.65
Consensus pattern (30 bp):
TTTATATTTTCCATATTTCTAATTTTTCCC
Found at i:90020542 original size:18 final size:21
Alignment explanation
Indices: 90020493--90020548 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 21
90020483 GGTTAACATG
*
90020493 ATAATAAGTATAATAAAATAAA
1 ATAATAA-CATAATAAAATAAA
*
90020515 ATAATTACATAA-AAAAT-AA
1 ATAATAACATAATAAAATAAA
90020534 ATAA-AACATAGATAA
1 ATAATAACATA-ATAA
90020549 TATTTGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.17
19 7 0.24
20 7 0.24
21 4 0.14
22 6 0.21
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (21 bp):
ATAATAACATAATAAAATAAA
Found at i:90033015 original size:31 final size:32
Alignment explanation
Indices: 90032975--90033041 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
90032965 AAAATTTAAA
* *
90032975 AATTTAAAAAATACAAAAATAAAAATTGACC-
1 AATTCAAAAAATACAAAAATAAAAATTCACCG
* *
90033006 AATTCAAAAAATATAAAAATTAAAATTCACCG
1 AATTCAAAAAATACAAAAATAAAAATTCACCG
90033038 AATT
1 AATT
90033042 AAAGTATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.61, C:0.10, G:0.03, T:0.25
Consensus pattern (32 bp):
AATTCAAAAAATACAAAAATAAAAATTCACCG
Found at i:90033032 original size:23 final size:24
Alignment explanation
Indices: 90032989--90033034 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
90032979 TAAAAAATAC
*
90032989 AAAAATAAAAATTGACCAATTCAA
1 AAAAATAAAAATTGACAAATTCAA
90033013 AAAATATAAAAATT-A-AAATTCA
1 AAAA-ATAAAAATTGACAAATTCA
90033035 CCGAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAAATAAAAATTGACAAATTCAA
Found at i:90035130 original size:382 final size:383
Alignment explanation
Indices: 90034421--90035188 Score: 1031
Period size: 382 Copynumber: 2.0 Consensus size: 383
90034411 CTACTCGTAA
* * * * *
90034421 CTAAGTATCATTCCCATTCAAAGTATGTTACACAATCATTTTCGAGTCCCACACGAGCTTATGGA
1 CTAAGTACCATTCCCATTAAAAGTATGTTACACAATCATTTTCAAGTCCCACACGAGCTTACGAA
** * * **
90034486 AGCTCTTTTGCTAACTCGGGCATGAATTAGGACCAAATTATAATGTTCTAAAAATTCCGGGTTGA
66 AGCTCTTTTGCTAACTCGAACATGAATTAGGACCAAATTATAAAGTTCTAAAAATTCCAGGCCGA
* *
90034551 CATCGCGACTTCATAATTTCCTTGATGCAACCACATCAACTCAGTGAGTTAGGTTGCAACATCAA
131 CATCACGACTTCATAATTTCCTTGATGCAACCACATCAACTCAGTGAGTTACGTTGCAACATCAA
* * *
90034616 GCCTTTCAACATCGCGACACCACTTACTGTCGGACGAAGTTGCGAAGTCAAAATTTCTTGGTTGC
196 ACCTCTCAACATCGCAACACCACTTACTGTCGGACGAAGTTGCGAAGTCAAAATTTCTTGGTTGC
* * * * *
90034681 AATGTTGCCCCTATTTTTTACAAAATACACTTTTTTTTGTACCTATTCAATAATTTCCAACCAAA
261 AACGTTGCCCATATTCTTGACAAAATACACTTTTTTTTGTACCTATTCAATAATTTCCAAACAAA
90034746 TCATATGTTCACATTCAATC-ATTTACCAATCCTACCTATGCCAAATCATGACAAAAC
326 TCATATGTTCACATTCAATCAATTTACCAATCCTACCTATGCCAAATCATGACAAAAC
* *
90034803 CTAAGTACCATTCCTATTAAAAGTATGTTACACAATCA-TTTCTAAGTCCCACATGAGCTTACGA
1 CTAAGTACCATTCCCATTAAAAGTATGTTACACAATCATTTTC-AAGTCCCACACGAGCTTACGA
* * *
90034867 AAGCTCTTTTGCTAACTTGAACATGAATTAGGACCAAATTATAAAGTTTTAAAAATTTCAGGCCG
65 AAGCTCTTTTGCTAACTCGAACATGAATTAGGACCAAATTATAAAGTTCTAAAAATTCCAGGCCG
* * * * *
90034932 ACGTCACGACTTCATAATTT-CTTTATCGCGACCACGTCAACTCAGTGAGTTACGTTGCAACGTC
130 ACATCACGACTTCATAATTTCCTTGAT-GCAACCACATCAACTCAGTGAGTTACGTTGCAACATC
* * ** * * * ***
90034996 AAATCTCTCCACATCGCAACGTCACTTATTGTCGGATGAAGTTGCGATGTTGGAATTTCTTGGTT
194 AAACCTCTCAACATCGCAACACCACTTACTGTCGGACGAAGTTGCGAAGTCAAAATTTCTTGGTT
* * **
90035061 GCAACGTTGCCCATGTTCTTGGCAAAATACA-TTTTCTTTTGTACCTATTCAATAATTTTGAAAC
259 GCAACGTTGCCCATATTCTTGACAAAATACACTTTT-TTTTGTACCTATTCAATAATTTCCAAAC
* * ** *
90035125 AAATCATATGTTTATATTCAATCAATTTACCAATTTTACCTATGCCAGATCATGACAAAAC
323 AAATCATATGTTCACATTCAATCAATTTACCAATCCTACCTATGCCAAATCATGACAAAAC
90035186 CTA
1 CTA
90035189 TTATAGCAAG
Statistics
Matches: 332, Mismatches: 50, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
381 13 0.04
382 282 0.85
383 37 0.11
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.33
Consensus pattern (383 bp):
CTAAGTACCATTCCCATTAAAAGTATGTTACACAATCATTTTCAAGTCCCACACGAGCTTACGAA
AGCTCTTTTGCTAACTCGAACATGAATTAGGACCAAATTATAAAGTTCTAAAAATTCCAGGCCGA
CATCACGACTTCATAATTTCCTTGATGCAACCACATCAACTCAGTGAGTTACGTTGCAACATCAA
ACCTCTCAACATCGCAACACCACTTACTGTCGGACGAAGTTGCGAAGTCAAAATTTCTTGGTTGC
AACGTTGCCCATATTCTTGACAAAATACACTTTTTTTTGTACCTATTCAATAATTTCCAAACAAA
TCATATGTTCACATTCAATCAATTTACCAATCCTACCTATGCCAAATCATGACAAAAC
Found at i:90039936 original size:20 final size:21
Alignment explanation
Indices: 90039897--90039936 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
90039887 GTTATAATGA
*
90039897 CCACACGGGTGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
90039918 CCACATGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
90039937 GTTTCAAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.35, G:0.30, T:0.25
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:90044155 original size:24 final size:23
Alignment explanation
Indices: 90044128--90044200 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 23
90044118 CATTTTCCTA
90044128 TTTTTATTTTTTGTTTATTATTAT
1 TTTTTATTTTTT-TTTATTATTAT
* ** *
90044152 TTTTTATTAATTCATTCTTATTAT
1 TTTTTATT-TTTTTTTATTATTAT
*
90044176 TTTTTATTTTATTTTATT-TTAT
1 TTTTTATTTTTTTTTATTATTAT
90044198 TTT
1 TTT
90044201 GTATCTTATT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 7 0.18
23 5 0.13
24 25 0.64
25 2 0.05
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (23 bp):
TTTTTATTTTTTTTTATTATTAT
Found at i:90044160 original size:10 final size:11
Alignment explanation
Indices: 90044145--90044200 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
90044135 TTTTTGTTTA
90044145 TTATTATT-TT
1 TTATTATTATT
90044155 TTATTAATTCATT
1 TTATT-ATT-ATT
90044168 CTTATTATT-TT
1 -TTATTATTATT
90044179 TTATT-TTATT
1 TTATTATTATT
90044189 TTATT-TTATT
1 TTATTATTATT
90044199 TT
1 TT
90044201 GTATCTTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
9 2 0.05
10 24 0.59
11 5 0.12
13 5 0.12
14 5 0.12
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (11 bp):
TTATTATTATT
Found at i:90045962 original size:6 final size:6
Alignment explanation
Indices: 90045946--90046007 Score: 65
Period size: 6 Copynumber: 10.5 Consensus size: 6
90045936 ATTTATTTTC
* * *
90045946 TTTTA- TTTTAT TTTTAT CTTTAT TTTTAG TTTTAT TTCTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
90045993 GTTTT-T TGTTAT TTT
1 -TTTTAT TTTTAT TTT
90046008 CTTAGACTTC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
5 8 0.17
6 34 0.74
7 4 0.09
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:90045969 original size:12 final size:11
Alignment explanation
Indices: 90045937--90046007 Score: 65
Period size: 12 Copynumber: 6.2 Consensus size: 11
90045927 ATTGAGTCCA
*
90045937 TTTATTTT-CT
1 TTTATTTTATT
90045947 TTTATTTTATT
1 TTTATTTTATT
90045958 TTTATCTTTATT
1 TTTAT-TTTATT
90045970 TTTAGTTTTATT
1 TTTA-TTTTATT
*
90045982 TCTATTTTTATGT
1 TTTA-TTTTAT-T
90045995 TTT-TTGTTATT
1 TTTATT-TTATT
90046006 TT
1 TT
90046008 CTTAGACTTC
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
10 8 0.15
11 11 0.21
12 29 0.56
13 4 0.08
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.77
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:90045972 original size:18 final size:17
Alignment explanation
Indices: 90045937--90046007 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 17
90045927 ATTGAGTCCA
*
90045937 TTTA-TTTTCTTTTA-T
1 TTTATTTTTATTTTATT
90045952 TTTATTTTTATCTTTATT
1 TTTATTTTTAT-TTTATT
*
90045970 TTTAGTTTTATTTCTATT
1 TTTATTTTTATTT-TATT
90045988 TTTATGTTTT-TTGTTATT
1 TTTAT-TTTTATT-TTATT
90046006 TT
1 TT
90046008 CTTAGACTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
15 4 0.09
16 5 0.11
17 6 0.13
18 27 0.57
19 5 0.11
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.77
Consensus pattern (17 bp):
TTTATTTTTATTTTATT
Found at i:90047000 original size:13 final size:13
Alignment explanation
Indices: 90046982--90047006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90046972 TGTTCTCAAA
90046982 AAAAATGAAAAAG
1 AAAAATGAAAAAG
90046995 AAAAATGAAAAA
1 AAAAATGAAAAA
90047007 ATATATATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (13 bp):
AAAAATGAAAAAG
Found at i:90047883 original size:30 final size:30
Alignment explanation
Indices: 90047847--90047929 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 30
90047837 CTAGGCATTT
* *
90047847 CCATACGGGCTGGTCACGCGCCCGTGTGAG
1 CCATACGGGCTGGACACACGCCCGTGTGAG
* * * * *
90047877 CCATACGAGTTGGGCATACACCCGTGTGAG
1 CCATACGGGCTGGACACACGCCCGTGTGAG
*
90047907 CCACACGGGCTGGACACACGCCC
1 CCATACGGGCTGGACACACGCCC
90047930 ATATGCCAGC
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.19, C:0.35, G:0.31, T:0.14
Consensus pattern (30 bp):
CCATACGGGCTGGACACACGCCCGTGTGAG
Found at i:90054698 original size:22 final size:22
Alignment explanation
Indices: 90054656--90054707 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
90054646 AAATTTTTAA
* *
90054656 ATTTAAAAAATAGAGATACTAT
1 ATTTAAAAAATAGAAAGACTAT
*
90054678 ATTTATAAAAATA-AAAGACTAA
1 ATTTA-AAAAATAGAAAGACTAT
90054700 ATTCTAAA
1 ATT-TAAA
90054708 TATACAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (22 bp):
ATTTAAAAAATAGAAAGACTAT
Found at i:90054842 original size:28 final size:28
Alignment explanation
Indices: 90054802--90054855 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
90054792 AAGGGAAAAA
*
90054802 AATAAAGGGTTTAACCTTGTCACAACAC
1 AATAAAGGGTTTAACCTTATCACAACAC
90054830 AATAAAGGGTTTAACCTTATCACAAC
1 AATAAAGGGTTTAACCTTATCACAAC
90054856 TCAAGCACGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (28 bp):
AATAAAGGGTTTAACCTTATCACAACAC
Found at i:90058350 original size:19 final size:19
Alignment explanation
Indices: 90058308--90058347 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
90058298 TCACTCCCCC
90058308 CTTCTCTTCTTTCACCTTT
1 CTTCTCTTCTTTCACCTTT
90058327 CTTCTC-TCTTT-ACCCTTT
1 CTTCTCTTCTTTCA-CCTTT
90058345 CTT
1 CTT
90058348 TCTGCCGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.05
18 13 0.65
19 6 0.30
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.57
Consensus pattern (19 bp):
CTTCTCTTCTTTCACCTTT
Found at i:90059591 original size:38 final size:38
Alignment explanation
Indices: 90059540--90059620 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
90059530 TTGGAAAAGA
90059540 TGGCATGGGAGTATATAGTGTTGTTGAAATATTGGCTT
1 TGGCATGGGAGTATATAGTGTTGTTGAAATATTGGCTT
90059578 TGGCATGGGAGTATATAGTGTTGTTGAAATATTGGCTT
1 TGGCATGGGAGTATATAGTGTTGTTGAAATATTGGCTT
*
90059616 AGGCA
1 TGGCA
90059621 ACTAATATGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.25, C:0.06, G:0.32, T:0.37
Consensus pattern (38 bp):
TGGCATGGGAGTATATAGTGTTGTTGAAATATTGGCTT
Found at i:90064239 original size:17 final size:18
Alignment explanation
Indices: 90064207--90064251 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
90064197 AAATTATAAT
*
90064207 ATTAATTTTGAGATTTT-
1 ATTAATTTTTAGATTTTA
* *
90064224 TTTAATTTTTATATTTTA
1 ATTAATTTTTAGATTTTA
90064242 ATTAATTTTT
1 ATTAATTTTT
90064252 CATTAATCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (18 bp):
ATTAATTTTTAGATTTTA
Found at i:90074250 original size:25 final size:25
Alignment explanation
Indices: 90074222--90074271 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
90074212 CTCAAAGCTC
90074222 TTTTTAATTA-AATTATTTTCTTTAT
1 TTTTTAATTAGAATTATTTT-TTTAT
*
90074247 TTTTTAATTAGTATTATTTTTTTAT
1 TTTTTAATTAGAATTATTTTTTTAT
90074272 AATTTCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (25 bp):
TTTTTAATTAGAATTATTTTTTTAT
Found at i:90079783 original size:125 final size:125
Alignment explanation
Indices: 90079524--90079921 Score: 512
Period size: 126 Copynumber: 3.2 Consensus size: 125
90079514 TAAGGCCAAA
* * *
90079524 CAGGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTTAGTAATTTTGCTGACAATGC
1 CAGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGC
* * * *
90079589 ATCCTGCATAAAGTATTTTTTTACACTATTTTTTCAGAATCATCTTCTTAAAATTATTTTTT
66 ATCCTGCTTAAAGCA-TTTTTTACACTATTTTTTCAGAACCATCTTCTCAAAATTA-TTTTT
* * * * **
90079651 TATGAACTACTATAGAAAAAGATCGTCCATGTGGGAGCTTTTTTCAGTAA-TTTGCTGACAGCGC
1 CAGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGC
* *
90079715 ATCCTGCTTGAAGCATTTTTTAAACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTCT
66 ATCCTGCTTAAAGCATTTTTTACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTT-T
* * *
90079776 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAATAC
1 CAGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGC
* * * * *
90079841 ATCCTACTTTAAGCATTTTTTACATTATCTTTTT-AGAACCGTCTTTTCAAAATTAATTTTT
66 ATCCTGCTTAAAGCATTTTTTACACTAT-TTTTTCAGAACCATCTTCTCAAAATT-ATTTTT
* *
90079902 CTGAAACTACTATAGAAAAA
1 CAGGAACTACTATAGAAAAA
90079922 AACAAAATCC
Statistics
Matches: 234, Mismatches: 33, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
124 4 0.02
125 82 0.35
126 95 0.41
127 53 0.23
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (125 bp):
CAGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGC
ATCCTGCTTAAAGCATTTTTTACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTT
Found at i:90080036 original size:33 final size:35
Alignment explanation
Indices: 90079994--90080076 Score: 109
Period size: 35 Copynumber: 2.4 Consensus size: 35
90079984 TAAAAAAAAA
*
90079994 CTAAACCCTAATTTAATT-AT-TTTTTAAAAAACT
1 CTAAACCCTAATTTAATTAATATTTTGAAAAAACT
*
90080027 CTAAGCCCTAATTTAATTAATATTTTGAAAAAAC-
1 CTAAACCCTAATTTAATTAATATTTTGAAAAAACT
90080061 CTTAAACCCTGAATTT
1 C-TAAACCCT-AATTT
90080077 TTTTTAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
33 17 0.40
34 3 0.07
35 18 0.42
36 5 0.12
ACGTcount: A:0.41, C:0.17, G:0.04, T:0.39
Consensus pattern (35 bp):
CTAAACCCTAATTTAATTAATATTTTGAAAAAACT
Found at i:90080059 original size:36 final size:33
Alignment explanation
Indices: 90079982--90080076 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 33
90079972 CACAAAACTA
**
90079982 TTTAAAAAAAAACTAAACCCTAATTTAATTATT
1 TTTAAAAAAACTCTAAACCCTAATTTAATTATT
* *
90080015 TTTTAAAAAACTCTAAGCCCTAATTTAATTAATAT
1 TTTAAAAAAACTCTAAACCCTAATTTAATT-AT-T
*
90080050 TTTGAAAAAAC-CTTAAACCCTGAATTT
1 TTTAAAAAAACTC-TAAACCCT-AATTT
90080077 TTTTTAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
33 26 0.50
34 3 0.06
35 18 0.35
36 5 0.10
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (33 bp):
TTTAAAAAAACTCTAAACCCTAATTTAATTATT
Found at i:90080085 original size:28 final size:27
Alignment explanation
Indices: 90080049--90080118 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 27
90080039 TTAATTAATA
* *
90080049 TTTTGAAAAAACCTTAAACCCTGAATTT
1 TTTTTAAAAAACCTTAAACCCTCAA-TT
**
90080077 TTTTTAAAAATTTCTTAAACCCTCAATT
1 TTTTTAAAAA-ACCTTAAACCCTCAATT
*
90080105 ATTTTAACAAAACC
1 TTTTTAA-AAAACC
90080119 CTAGCACTAC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
28 18 0.55
29 15 0.45
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.39
Consensus pattern (27 bp):
TTTTTAAAAAACCTTAAACCCTCAATT
Found at i:90081120 original size:23 final size:23
Alignment explanation
Indices: 90081076--90081120 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
90081066 TGTGCTCGAC
90081076 TGGTATGTATATAGTTGATTGAG
1 TGGTATGTATATAGTTGATTGAG
* *
90081099 TGGTTTGTGATATA-TTGGTTGA
1 TGGTATGT-ATATAGTTGATTGA
90081121 ATGAATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (23 bp):
TGGTATGTATATAGTTGATTGAG
Found at i:90084170 original size:46 final size:46
Alignment explanation
Indices: 90084118--90084431 Score: 423
Period size: 46 Copynumber: 6.8 Consensus size: 46
90084108 AGTGTGCTCT
* *
90084118 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
90084164 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
90084210 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
90084256 GTGATATGAAATGAATAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
90084302 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
90084348 ATGACGGGAAAATGAATAACACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * **
90084395 ATGACA-GAAAACGAGTAAAACCATAATTGAAAGATAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
90084432 TATGACATCA
Statistics
Matches: 245, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 204 0.83
47 41 0.17
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:90089627 original size:28 final size:29
Alignment explanation
Indices: 90089598--90089653 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
90089588 AAATATATAT
* *
90089598 TTTTA-TTATAT-AATTACATAATTATTA
1 TTTTATTTATATAAATAAAATAATTATTA
90089625 TTTTATTTATATAAATAAAATAATTATTA
1 TTTTATTTATATAAATAAAATAATTATTA
90089654 ATTAAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 5 0.20
28 6 0.24
29 14 0.56
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (29 bp):
TTTTATTTATATAAATAAAATAATTATTA
Found at i:90094978 original size:37 final size:39
Alignment explanation
Indices: 90094902--90094979 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 39
90094892 TAGAGACTGG
90094902 AACATCCACTAATTAAAAATTAAGGTCTTCTATAATTGAT
1 AACATCCACTAATTAAAAATTAAGG-CTTCTATAATTGAT
*
90094942 AACATCCACTAA-TAAAAGTCTAA-G-TTCTATAATTGAT
1 AACATCCACTAATTAAAAAT-TAAGGCTTCTATAATTGAT
90094979 A
1 A
90094980 CCTTGCATGG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
37 14 0.39
39 7 0.19
40 15 0.42
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (39 bp):
AACATCCACTAATTAAAAATTAAGGCTTCTATAATTGAT
Found at i:90096346 original size:40 final size:40
Alignment explanation
Indices: 90096291--90096372 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
90096281 AGATATAACC
90096291 CAGATAAGATAAGCATTAACTTATATATACAAGTAAAATT
1 CAGATAAGATAAGCATTAACTTATATATACAAGTAAAATT
90096331 CAGATAAGATAAGCATTAACTTATATATACAAGTAAAATT
1 CAGATAAGATAAGCATTAACTTATATATACAAGTAAAATT
90096371 CA
1 CA
90096373 AGAACATGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.29
Consensus pattern (40 bp):
CAGATAAGATAAGCATTAACTTATATATACAAGTAAAATT
Found at i:90102494 original size:6 final size:6
Alignment explanation
Indices: 90102483--90102529 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
90102473 CAACAAAAAC
*
90102483 TTAATT TTAA-T TTATTT TTATATTT TCTAATT TTAATT TTAATT TTA
1 TTAATT TTAATT TTAATT TTA-A-TT T-TAATT TTAATT TTAATT TTA
90102530 TTATACACGT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
5 4 0.11
6 22 0.63
7 3 0.09
8 4 0.11
9 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:90111708 original size:42 final size:42
Alignment explanation
Indices: 90111649--90111735 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
90111639 GAAAAGTAAA
90111649 AATGTGTTTGGATGGTGGGATGAAATATCAACACTAATTTGG
1 AATGTGTTTGGATGGTGGGATGAAATATCAACACTAATTTGG
90111691 AATGTGTTTGGATGGTGGGATGAAATATCAACACTAATTTGG
1 AATGTGTTTGGATGGTGGGATGAAATATCAACACTAATTTGG
90111733 AAT
1 AAT
90111736 TATGTATATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.32, C:0.07, G:0.28, T:0.33
Consensus pattern (42 bp):
AATGTGTTTGGATGGTGGGATGAAATATCAACACTAATTTGG
Found at i:90115971 original size:29 final size:29
Alignment explanation
Indices: 90115916--90115971 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
90115906 AATATTATTT
* * *
90115916 ATTTTACAATTTTTTAAATAATTCTAAGA
1 ATTTTACAATATTTTAAAAAATACTAAGA
90115945 ATTTT-CAATATTTTAAAAAATAACTAA
1 ATTTTACAATATTTTAAAAAAT-ACTAA
90115972 TTGTTGATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (29 bp):
ATTTTACAATATTTTAAAAAATACTAAGA
Found at i:90132509 original size:29 final size:24
Alignment explanation
Indices: 90132447--90132496 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
90132437 TTCGTTTGTA
90132447 ATTTTTCACCTAAAAAACAAAACC
1 ATTTTTCACCTAAAAAACAAAACC
90132471 ATTTTTCACCTAAAAAACAAAACC
1 ATTTTTCACCTAAAAAACAAAACC
90132495 AT
1 AT
90132497 CTCTTATGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (24 bp):
ATTTTTCACCTAAAAAACAAAACC
Found at i:90134738 original size:22 final size:22
Alignment explanation
Indices: 90134710--90134755 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
90134700 TAATGTGTTA
*
90134710 AACTCACGATAAACAAGAGCAT
1 AACTCACAATAAACAAGAGCAT
90134732 AACTCACAATAAACAAGAGCAT
1 AACTCACAATAAACAAGAGCAT
90134754 AA
1 AA
90134756 AATCTGTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.54, C:0.22, G:0.11, T:0.13
Consensus pattern (22 bp):
AACTCACAATAAACAAGAGCAT
Found at i:90136583 original size:43 final size:43
Alignment explanation
Indices: 90136519--90136768 Score: 302
Period size: 43 Copynumber: 5.8 Consensus size: 43
90136509 TTTGAGAAAG
* * * *
90136519 CGCCGCTAAAAAATGCGACCTTTAGCGGTTCTTTTCACACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGTGCTTTTCACACAAA
* *
90136562 CGCCGTTAAAGGACGTGACCTTTAGCGGTGCTTTTCACACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGTGCTTTTCACACAAA
* * *
90136605 CGCCGCTAAAGAACATGACCTTTAGCAGTGCCTTTCACACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGTGCTTTTCACACAAA
* * * ** *
90136648 TGCTGCTAAAGAACGTGACGTTTAGCGGCACTTTTCATACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGTGCTTTTCACACAAA
* * *
90136691 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCTCAAAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGTGCTTTTCACACAAA
* * * *
90136734 TGCCGTTAAAGAACATGACCTTTAGCGATGCTTTT
1 CGCCGCTAAAGAACGTGACCTTTAGCGGTGCTTTT
90136769 ATGACCTTTA
Statistics
Matches: 175, Mismatches: 32, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 175 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (43 bp):
CGCCGCTAAAGAACGTGACCTTTAGCGGTGCTTTTCACACAAA
Found at i:90137633 original size:13 final size:14
Alignment explanation
Indices: 90137606--90137634 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
90137596 ACTAACGACA
90137606 AATTAAACAATTAT
1 AATTAAACAATTAT
90137620 AATTAAAC-ATTAT
1 AATTAAACAATTAT
90137633 AA
1 AA
90137635 ACATTTAAAA
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:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:90141323 original size:15 final size:15
Alignment explanation
Indices: 90141281--90141323 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
90141271 TACTTACTAT
* *
90141281 AAAATAAATAAATTT
1 AAAATAAATAACTTA
*
90141296 AAAATTAAT-ACTTA
1 AAAATAAATAACTTA
90141310 AAAATAAATAACTT
1 AAAATAAATAACTT
90141324 GAATTATAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAATAACTTA
Found at i:90145508 original size:9 final size:9
Alignment explanation
Indices: 90145494--90145563 Score: 67
Period size: 9 Copynumber: 8.1 Consensus size: 9
90145484 TATTTATGTA
90145494 TTATGTAAG
1 TTATGTAAG
90145503 TTATGTAAG
1 TTATGTAAG
* *
90145512 TTGTGTGAG
1 TTATGTAAG
90145521 TTATGTAAG
1 TTATGTAAG
90145530 TTATG--A-
1 TTATGTAAG
*
90145536 TATATATAAG
1 T-TATGTAAG
*
90145546 TTAT-TGAG
1 TTATGTAAG
90145554 TTATGTAAG
1 TTATGTAAG
90145563 T
1 T
90145564 CATGATATGA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
6 1 0.02
7 4 0.08
8 7 0.14
9 36 0.73
10 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:90145548 original size:43 final size:43
Alignment explanation
Indices: 90145499--90145586 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
90145489 ATGTATTATG
* * * *
90145499 TAAGTTATGTAAGTTGTGTGAGTTATG-TAAGTTATGATATATA
1 TAAGTTAT-TAAGTTATGTAAGTCATGATAAGATATGATATATA
* *
90145542 TAAGTTATTGAGTTATGTAAGTCATGATATGATATGATATATA
1 TAAGTTATTAAGTTATGTAAGTCATGATAAGATATGATATATA
90145585 TA
1 TA
90145587 GGTCAAGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 14 0.37
43 24 0.63
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.43
Consensus pattern (43 bp):
TAAGTTATTAAGTTATGTAAGTCATGATAAGATATGATATATA
Found at i:90145559 original size:33 final size:35
Alignment explanation
Indices: 90145508--90145576 Score: 106
Period size: 33 Copynumber: 2.0 Consensus size: 35
90145498 GTAAGTTATG
* *
90145508 TAAGTTGTGTGAGTTATGTAAGTTATGATAT-ATA
1 TAAGTTATGTGAGTTATGTAAGTCATGATATGATA
90145542 TAAGTTAT-TGAGTTATGTAAGTCATGATATGATA
1 TAAGTTATGTGAGTTATGTAAGTCATGATATGATA
90145576 T
1 T
90145577 GATATATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 21 0.66
34 11 0.34
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.43
Consensus pattern (35 bp):
TAAGTTATGTGAGTTATGTAAGTCATGATATGATA
Found at i:90149563 original size:28 final size:28
Alignment explanation
Indices: 90149523--90149593 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
90149513 AATGTATCAT
90149523 ACACT-AGATGCCATACCAGATACCTT-GC
1 ACACTAAG-TGCCATACCAGATA-CTTCGC
* *
90149551 ACACTAAGTGCCATCCCTGATACTTCGC
1 ACACTAAGTGCCATACCAGATACTTCGC
**
90149579 ACGTTAAGTGCCATA
1 ACACTAAGTGCCATA
90149594 TATAATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 3 0.08
28 31 0.86
29 2 0.06
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.24
Consensus pattern (28 bp):
ACACTAAGTGCCATACCAGATACTTCGC
Found at i:90152999 original size:14 final size:15
Alignment explanation
Indices: 90152950--90152999 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
90152940 TAAACGTTAT
*
90152950 TGAATTTGAATGTGTA
1 TGAATTT-AATATGTA
* *
90152966 TGATTTTTATATGT-
1 TGAATTTAATATGTA
90152980 TGAATTTAAT-TGTA
1 TGAATTTAATATGTA
90152994 TGAATT
1 TGAATT
90153000 CCTATGGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 3 0.11
14 14 0.50
15 5 0.18
16 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (15 bp):
TGAATTTAATATGTA
Found at i:90153198 original size:41 final size:42
Alignment explanation
Indices: 90153102--90153210 Score: 150
Period size: 41 Copynumber: 2.6 Consensus size: 42
90153092 TGACAGTGGT
*
90153102 ATATCAGGCTTATTGCCTAGCAGGTTTTGATGCCGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
*
90153144 ATATCAGGCTTATTGCCTAGCAGGCTTT-ATGCTGGTGTATTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTA-TG
* * *
90153186 A-ATCAGGTTTATTACTTAGCAGGCT
1 ATATCAGGCTTATTGCCTAGCAGGCT
90153211 CTGTGCCAGT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
41 31 0.51
42 30 0.49
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.37
Consensus pattern (42 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
Found at i:90160779 original size:14 final size:15
Alignment explanation
Indices: 90160730--90160779 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
90160720 TAAACGTTAT
*
90160730 TGAATTTGAATGTGTA
1 TGAATTT-AATATGTA
* *
90160746 TGATTTTTATATGT-
1 TGAATTTAATATGTA
90160760 TGAATTTAAT-TGTA
1 TGAATTTAATATGTA
90160774 TGAATT
1 TGAATT
90160780 CCTATGGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 3 0.11
14 14 0.50
15 5 0.18
16 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (15 bp):
TGAATTTAATATGTA
Found at i:90160928 original size:42 final size:42
Alignment explanation
Indices: 90160881--90160990 Score: 202
Period size: 42 Copynumber: 2.6 Consensus size: 42
90160871 TAACAGTGAT
90160881 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
*
90160923 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
*
90160965 ATATTAGGCTTATTGCCTAGCAGGCT
1 ATATCAGGCTTATTGCCTAGCAGGCT
90160991 CTGTGCCAGT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (42 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
Found at i:90162849 original size:7 final size:7
Alignment explanation
Indices: 90162839--90162900 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
90162829 GTTTTTAGAA
90162839 TTTAAGG
1 TTTAAGG
90162846 TTTAAGG
1 TTTAAGG
90162853 TTTAAGTG
1 TTTAAG-G
90162861 TTT-AGG
1 TTTAAGG
**
90162867 TTTTTAAAA
1 --TTTAAGG
*
90162876 TTTAGGG
1 TTTAAGG
*
90162883 TTTAATG
1 TTTAAGG
90162890 TTTAAGG
1 TTTAAGG
90162897 TTTA
1 TTTA
90162901 GGGGATTAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
6 1 0.02
7 34 0.79
8 7 0.16
9 1 0.02
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (7 bp):
TTTAAGG
Found at i:90162870 original size:37 final size:36
Alignment explanation
Indices: 90162829--90162902 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 36
90162819 TAGGGTATAT
*
90162829 GTTTTTAGAATTTAAGGTTTAAGGTTTAAGTGTTTAG
1 GTTTTTAAAATTTAAGGTTTAAGGTTTAAG-GTTTAG
* *
90162866 GTTTTTAAAATTTAGGGTTTAATGTTTAAGGTTTAG
1 GTTTTTAAAATTTAAGGTTTAAGGTTTAAGGTTTAG
90162902 G
1 G
90162903 GGATTAGAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 7 0.21
37 27 0.79
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (36 bp):
GTTTTTAAAATTTAAGGTTTAAGGTTTAAGGTTTAG
Found at i:90163229 original size:29 final size:29
Alignment explanation
Indices: 90163194--90163255 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
90163184 TTTTTGCGGC
* *
90163194 GTTTGGACCAGAAACGCCGCTATTGCTCA
1 GTTTGGACCAAAAACGCCGCAATTGCTCA
*
90163223 GTTTGGACCAAAAACGCCGCAATTGCTTA
1 GTTTGGACCAAAAACGCCGCAATTGCTCA
90163252 GTTT
1 GTTT
90163256 TTAACGGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (29 bp):
GTTTGGACCAAAAACGCCGCAATTGCTCA
Found at i:90163380 original size:41 final size:41
Alignment explanation
Indices: 90163223--90163380 Score: 210
Period size: 41 Copynumber: 3.9 Consensus size: 41
90163213 CTATTGCTCA
* * * *
90163223 GTTTGGACCAAAAACGCCGCAATTGCTTAGTTTTTAACGGT
1 GTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTAGCGGC
* *
90163264 GTTTGTACCAAAAACGCCGCTATTGCAT-AGTTTTTAGTGGC
1 GTTTGGACCAAAAACGCCGCTATTGC-TCAGTTTTTAGCGGC
* * *
90163305 GTTTGTACCAAAATCGCCGCTATTACTCAGTTTTTAGCGGC
1 GTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTAGCGGC
*
90163346 GTTTGGACCAAAAACGCCGCTATTGCTCATTTTTT
1 GTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTT
90163381 GTGTTTGCGG
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 1 0.01
41 101 0.98
42 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (41 bp):
GTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTAGCGGC
Done.