Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 164 of 318
Found at i:51873960 original size:30 final size:30
Alignment explanation
Indices: 51873904--51873962 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
51873894 ACTCAAACAA
* * *
51873904 TTTACTCTATTCGGTTCAAATGAATTTCAT
1 TTTACTCGATTCGATTCAAATAAATTTCAT
51873934 TTTACTCGATTCGATTCGAAA-AAATTTCA
1 TTTACTCGATTCGATTC-AAATAAATTTCA
51873963 AATCGAGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (30 bp):
TTTACTCGATTCGATTCAAATAAATTTCAT
Found at i:51874771 original size:22 final size:22
Alignment explanation
Indices: 51874746--51874792 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
51874736 TTGAAGAGGA
*
51874746 CTTGATTCATTGATTTCTCATG
1 CTTGATTCATTGATTTCGCATG
51874768 CTTGATTCATTGATTTCGCATG
1 CTTGATTCATTGATTTCGCATG
51874790 CTT
1 CTT
51874793 TATTGTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (22 bp):
CTTGATTCATTGATTTCGCATG
Found at i:51876167 original size:34 final size:34
Alignment explanation
Indices: 51876116--51876207 Score: 132
Period size: 34 Copynumber: 2.7 Consensus size: 34
51876106 CTCATCTTAG
**
51876116 TTAG-TAATTGAGTTGCTAGAATAAATGTTTATC
1 TTAGTTAATTGAGTTGCTAGAATAAATACTTATC
*
51876149 TTAGTTAATTGAGGTGCTAGAATAAATACTTATC
1 TTAGTTAATTGAGTTGCTAGAATAAATACTTATC
* *
51876183 TTAGTTAATTTAGTTGCTGGAATAA
1 TTAGTTAATTGAGTTGCTAGAATAA
51876208 TTTATTGTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 4 0.08
34 48 0.92
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (34 bp):
TTAGTTAATTGAGTTGCTAGAATAAATACTTATC
Found at i:51876231 original size:9 final size:9
Alignment explanation
Indices: 51876219--51876274 Score: 85
Period size: 9 Copynumber: 5.9 Consensus size: 9
51876209 TTATTGTTAC
51876219 ATGTGTTTA
1 ATGTGTTTA
51876228 ATGTGTTTA
1 ATGTGTTTA
51876237 ATGTGTGATTA
1 ATGTGT--TTA
51876248 ATGTGTTTA
1 ATGTGTTTA
51876257 ATGTGTTTTA
1 ATGTG-TTTA
51876267 ATGTGTTT
1 ATGTGTTT
51876275 GTTAAATGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
9 26 0.59
10 9 0.20
11 9 0.20
ACGTcount: A:0.21, C:0.00, G:0.23, T:0.55
Consensus pattern (9 bp):
ATGTGTTTA
Found at i:51876248 original size:20 final size:20
Alignment explanation
Indices: 51876220--51876274 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
51876210 TATTGTTACA
51876220 TGTGTTTAATGTGTTTAATG
1 TGTGTTTAATGTGTTTAATG
*
51876240 TGTGATTAATGTGTTTAATG
1 TGTGTTTAATGTGTTTAATG
51876260 TGT-TTTAATGTGTTT
1 TGTGTTTAATGTGTTT
51876275 GTTAAATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 11 0.33
20 22 0.67
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (20 bp):
TGTGTTTAATGTGTTTAATG
Found at i:51879412 original size:12 final size:12
Alignment explanation
Indices: 51879396--51879437 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
51879386 TAAAAAATCA
*
51879396 AAAGAAAAATAG
1 AAAGAAAAAAAG
*
51879408 CAAGAAAAAAAG
1 AAAGAAAAAAAG
*
51879420 AAAGAAAAAGA-
1 AAAGAAAAAAAG
51879431 AAAGAAA
1 AAAGAAA
51879438 CACGAGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (12 bp):
AAAGAAAAAAAG
Found at i:51892106 original size:16 final size:16
Alignment explanation
Indices: 51892087--51892117 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51892077 CAAGAAATAA
*
51892087 AATTAAATATACCTTC
1 AATTAAACATACCTTC
51892103 AATTAAACATACCTT
1 AATTAAACATACCTT
51892118 AGATTCTGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTAAACATACCTTC
Found at i:51893820 original size:9 final size:9
Alignment explanation
Indices: 51893808--51893869 Score: 79
Period size: 9 Copynumber: 6.6 Consensus size: 9
51893798 TTGTTACATA
51893808 TGTTTAATG
1 TGTTTAATG
51893817 TGTTTAATTTG
1 TGTTTAA--TG
*
51893828 TGATTAATG
1 TGTTTAATG
*
51893837 TGTTTAATA
1 TGTTTAATG
51893846 TGTTTAATG
1 TGTTTAATG
51893855 TGTTTTAATG
1 TG-TTTAATG
51893865 TGTTT
1 TGTTT
51893870 GTTAAATGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
9 29 0.63
10 9 0.20
11 8 0.17
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (9 bp):
TGTTTAATG
Found at i:51893836 original size:20 final size:18
Alignment explanation
Indices: 51893805--51893869 Score: 85
Period size: 20 Copynumber: 3.4 Consensus size: 18
51893795 TTATTGTTAC
51893805 ATATGTTTAATGTGTTTA
1 ATATGTTTAATGTGTTTA
*
51893823 ATTTGTGATTAATGTGTTTA
1 ATATGT--TTAATGTGTTTA
51893843 ATATGTTTAATGTGTTTTA
1 ATATGTTTAATGTG-TTTA
*
51893862 ATGTGTTT
1 ATATGTTT
51893870 GTTAAATGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 13 0.32
19 11 0.27
20 17 0.41
ACGTcount: A:0.25, C:0.00, G:0.18, T:0.57
Consensus pattern (18 bp):
ATATGTTTAATGTGTTTA
Found at i:51893844 original size:29 final size:28
Alignment explanation
Indices: 51893808--51893869 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 28
51893798 TTGTTACATA
* *
51893808 TGTTTAATGTGTTTAATTTGTGATTAATG
1 TGTTTAATATGTTTAATGTGT-ATTAATG
*
51893837 TGTTTAATATGTTTAATGTGTTTTAATG
1 TGTTTAATATGTTTAATGTGTATTAATG
51893865 TGTTT
1 TGTTT
51893870 GTTAAATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 11 0.37
29 19 0.63
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (28 bp):
TGTTTAATATGTTTAATGTGTATTAATG
Found at i:51900387 original size:94 final size:93
Alignment explanation
Indices: 51900209--51900393 Score: 253
Period size: 93 Copynumber: 2.0 Consensus size: 93
51900199 GATGTACCTA
* ** *
51900209 GCACTAGTCAGATAAACTGACAAAAGTTGCGCCTAGTGCTACTCGGATAACCGAAAAATATAATG
1 GCACTAGTCAGATAAACTGACAAAAGTTGCGCCCAGCACTACTCGAATAACCGAAAAATATAATG
51900274 GTGTGCCCAACACTAGTTAGATAAATGG
66 GTGTGCCCAACACTAGTTAGATAAATGG
* * * * * *
51900302 GCACTAGTCAGATAAATTGACTAAAGTTGCGCCCAGCATTAGTCGAATAAATCGACAAATATAAT
1 GCACTAGTCAGATAAACTGACAAAAGTTGCGCCCAGCACTACTCGAAT-AACCGAAAAATATAAT
* *
51900367 GGTGTGCCTAGCACTAGTTAGATAAAT
65 GGTGTGCCCAACACTAGTTAGATAAAT
51900394 TGAGGAAAGT
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
93 40 0.51
94 39 0.49
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (93 bp):
GCACTAGTCAGATAAACTGACAAAAGTTGCGCCCAGCACTACTCGAATAACCGAAAAATATAATG
GTGTGCCCAACACTAGTTAGATAAATGG
Found at i:51903539 original size:27 final size:27
Alignment explanation
Indices: 51903509--51903573 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
51903499 AGCCTATATC
*
51903509 AGAGGCAGCACTGGTGAAGCCTCTGTT
1 AGAGGCGGCACTGGTGAAGCCTCTGTT
51903536 AGAGGCGGCACTGGTGAAGCCTCTGTT
1 AGAGGCGGCACTGGTGAAGCCTCTGTT
51903563 AGAGGCGGCAC
1 AGAGGCGGCAC
51903574 CAGTTGTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.22, C:0.23, G:0.37, T:0.18
Consensus pattern (27 bp):
AGAGGCGGCACTGGTGAAGCCTCTGTT
Found at i:51903719 original size:16 final size:16
Alignment explanation
Indices: 51903690--51903723 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
51903680 GGGAGAAGAG
51903690 AAGAAAGAAAGAAAAA
1 AAGAAAGAAAGAAAAA
*
51903706 AAGAAAGAAGGAAAAA
1 AAGAAAGAAAGAAAAA
51903722 AA
1 AA
51903724 TTTTCCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (16 bp):
AAGAAAGAAAGAAAAA
Found at i:51908602 original size:40 final size:39
Alignment explanation
Indices: 51908547--51908762 Score: 317
Period size: 40 Copynumber: 5.5 Consensus size: 39
51908537 GGATGATAAC
51908547 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
*
51908587 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
51908626 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
51908665 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
51908705 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
51908745 CCGGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
51908763 TACTTGGCTT
Statistics
Matches: 164, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 55 0.34
40 109 0.66
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:51908678 original size:79 final size:80
Alignment explanation
Indices: 51908546--51908762 Score: 325
Period size: 79 Copynumber: 2.7 Consensus size: 80
51908536 TGGATGATAA
*
51908546 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-ATCCGGGCTAAGTCCCGAAGGCATTG
51908610 GTGCGAGTTACTAT-T
65 GTGCGAGTTACTATAT
*
51908625 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
51908690 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* * * * *
51908705 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
51908763 TACTTGGCTT
Statistics
Matches: 127, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
78 2 0.02
79 89 0.70
80 36 0.28
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTATAT
Found at i:51908758 original size:119 final size:119
Alignment explanation
Indices: 51908546--51908762 Score: 330
Period size: 119 Copynumber: 1.8 Consensus size: 119
51908536 TGGATGATAA
* *
51908546 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAATCGGGCTAAGTCCCGAAGGCATTCG
* * * *
51908611 TGCGAGTTACTATTTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66 AGCGAGTTACTATATCCGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTATAT
*
51908665 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTAT-ATCCGGGCTATGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAAT-CGGGCTAAGTCCCGAAGGCATTC
*
51908729 GAGCGAG-TAGCTATATCCGGTTAAATCCCGAAGG
65 GAGCGAGTTA-CTATATCCGGCTAAATCCCGAAGG
51908763 TACTTGGCTT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
118 4 0.05
119 84 0.95
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAATCGGGCTAAGTCCCGAAGGCATTCG
AGCGAGTTACTATATCCGGCTAAATCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:51913848 original size:151 final size:151
Alignment explanation
Indices: 51913594--51914889 Score: 2020
Period size: 150 Copynumber: 8.6 Consensus size: 151
51913584 ATTTATTCAG
*
51913594 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTA-TTTTTAAAATATATTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
* *
51913658 CGTATTTTACTTTTTATATTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTA
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
*
51913723 TATTAATTTAGTAAGTAACCC
131 TATTAATTTAGTAAATAACCC
* * * *
51913744 TAATTTTGACCTTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
*
51913809 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTAA
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
*
51913874 TATTAATTTATTAAATAACCC
131 TATTAATTTAGTAAATAACCC
* * * *
51913895 TTATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGAATTTTGTTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
*
51913960 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAATGTTTTTTA
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTT-
*
51914025 ATATTAATTTAGTAAATAATCC
130 ATATTAATTTAGTAAATAACCC
***
51914047 TGATTTTGGCCCTTTGTTTGTATTTTTAAAA-TTTAAAATTTTTATTTTTTAAAATATACTATTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGA-TTTTATTTTTTAAAATATACTATTT
* * * *
51914111 TCATATTTTATCTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTTAGTATTTTTT
65 TCGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-GTTTTT
*
51914176 TATATTAAATTAGTAAATAACCC
129 TATATTAATTTAGTAAATAACCC
** * *
51914199 TGA-TTTGGCAATTTGTTTGTATTTTTAAAATTTCCGGATTTTGTTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
* *
51914263 CATATTTTA-TTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTTAGT-TTTTTTA
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
51914326 TATTAATTTAGTAAATAACCC
131 TATTAATTTAGTAAATAACCC
51914347 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
* *
51914412 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAAT-TTTTTAA
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
51914476 TATTAATTTAGTAAATAACCC
131 TATTAATTTAGTAAATAACCC
* * *
51914497 TTATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGAATTCTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
* * * *
51914562 TGTATTTTATCTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTTACTGTTTTTTA
66 CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
*
51914627 TATTAAATTAGTAAATAACCC
131 TATTAATTTAGTAAATAACCC
* **
51914648 T-AATTTGGCCCTTTGTTTGTATTTTTAAAATTTT-TTA-TTT-TTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
* * * *
51914709 CGTATTTTATTTTTTTTTATTATTTTAGTACATAATGTTTTAAATGTATTATTTCAGTATTTTTT
66 CGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-GTTTTT
* *
51914774 TATATTAATTTAGTAAGTAACTC
129 TATATTAATTTAGTAAATAACCC
*
51914797 TGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
1 TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
51914862 CGTATTTTA-TTTTTATATTATTTTAGTA
66 CGTATTTTATTTTTTATATTATTTTAGTA
51914890 AAAAACCAGC
Statistics
Matches: 1058, Mismatches: 74, Indels: 27
0.91 0.06 0.02
Matches are distributed among these distances:
147 29 0.03
148 76 0.07
149 92 0.09
150 336 0.32
151 332 0.31
152 157 0.15
153 36 0.03
ACGTcount: A:0.28, C:0.07, G:0.08, T:0.57
Consensus pattern (151 bp):
TGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTTT
CGTATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTA
TATTAATTTAGTAAATAACCC
Found at i:51914110 original size:23 final size:23
Alignment explanation
Indices: 51914069--51914120 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
51914059 TTTGTTTGTA
* *
51914069 TTTTTAAAATTTAAAATTTTTAT
1 TTTTTAAAATATAAAATTTTCAT
**
51914092 TTTTTAAAATATACTATTTTCAT
1 TTTTTAAAATATAAAATTTTCAT
*
51914115 ATTTTA
1 TTTTTA
51914121 TCTTTTATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTTAAAATATAAAATTTTCAT
Found at i:51914706 original size:20 final size:20
Alignment explanation
Indices: 51914669--51914708 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
51914659 TTTGTTTGTA
* **
51914669 TTTTTAAAATTTTTTATTTT
1 TTTTTAAAATATACTATTTT
51914689 TTTTTAAAATATACTATTTT
1 TTTTTAAAATATACTATTTT
51914709 CGTATTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTAAAATATACTATTTT
Found at i:51914954 original size:17 final size:16
Alignment explanation
Indices: 51914923--51914963 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
51914913 TCAAAAAAAA
51914923 TATTTTTTTCATATTT
1 TATTTTTTTCATATTT
*
51914939 TATTTCTTTTCGTATTT
1 TATTT-TTTTCATATTT
51914956 TATTTTTT
1 TATTTTTT
51914964 CATTAAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (16 bp):
TATTTTTTTCATATTT
Found at i:51914990 original size:15 final size:15
Alignment explanation
Indices: 51914934--51914995 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
51914924 ATTTTTTTCA
*
51914934 TATTTTATTTCTTTTCG
1 TATTTTA-TT-TTTTAG
*
51914951 TATTTTATTTTTTCAT
1 TATTTTATTTTTT-AG
***
51914967 TAAGATATTTTTTAG
1 TATTTTATTTTTTAG
51914982 TATTTTATTTTTTA
1 TATTTTATTTTTTA
51914996 TACTATTTCT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
15 16 0.46
16 12 0.34
17 7 0.20
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (15 bp):
TATTTTATTTTTTAG
Found at i:51914993 original size:16 final size:16
Alignment explanation
Indices: 51914923--51914994 Score: 58
Period size: 16 Copynumber: 4.5 Consensus size: 16
51914913 TCAAAAAAAA
51914923 TATTTTTTTCA-TATTT
1 TATTTTTTT-AGTATTT
*
51914939 TATTTCTTTTCGTATTT
1 TATTT-TTTTAGTATTT
* * ***
51914956 TATTTTTTCATTAAGA
1 TATTTTTTTAGTATTT
51914972 TA-TTTTTTAGTATTT
1 TATTTTTTTAGTATTT
51914987 TATTTTTT
1 TATTTTTT
51914995 ATACTATTTC
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
15 10 0.24
16 17 0.41
17 14 0.34
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.71
Consensus pattern (16 bp):
TATTTTTTTAGTATTT
Found at i:51915481 original size:3 final size:3
Alignment explanation
Indices: 51915475--51915523 Score: 57
Period size: 3 Copynumber: 16.3 Consensus size: 3
51915465 CCTCCTCCTC
*
51915475 CTT CTT CTT CTT CTT C-T CTT CTT CCTT -TT CTT CTT CTC CTT CATT
1 CTT CTT CTT CTT CTT CTT CTT CTT -CTT CTT CTT CTT CTT CTT C-TT
51915520 CTT C
1 CTT C
51915524 CCGAAATGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 4 0.10
3 30 0.75
4 6 0.15
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (3 bp):
CTT
Found at i:51915507 original size:26 final size:25
Alignment explanation
Indices: 51915473--51915524 Score: 72
Period size: 23 Copynumber: 2.1 Consensus size: 25
51915463 CGCCTCCTCC
*
51915473 TCCTTCTTCTTCTTCTTC-TC-TTCT
1 TCCTT-TTCTTCTTCTCCTTCATTCT
51915497 TCCTTTTCTTCTTCTCCTTCATTCT
1 TCCTTTTCTTCTTCTCCTTCATTCT
51915522 TCC
1 TCC
51915525 CGAAATGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 11 0.44
24 7 0.28
25 7 0.28
ACGTcount: A:0.02, C:0.38, G:0.00, T:0.60
Consensus pattern (25 bp):
TCCTTTTCTTCTTCTCCTTCATTCT
Found at i:51915655 original size:27 final size:28
Alignment explanation
Indices: 51915625--51915679 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
51915615 CTGCCAATGG
* *
51915625 CACCATCAGTGCTGCCTGTGGCA-GGCC
1 CACCACCAGTGCTGCCTGCGGCATGGCC
51915652 CACCACCAGTGCTGCCTGCGGCATGGCC
1 CACCACCAGTGCTGCCTGCGGCATGGCC
51915680 TTTGCCTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.15, C:0.40, G:0.29, T:0.16
Consensus pattern (28 bp):
CACCACCAGTGCTGCCTGCGGCATGGCC
Found at i:51919061 original size:18 final size:18
Alignment explanation
Indices: 51919035--51919074 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
51919025 TACTTTCATT
* *
51919035 TATATATGTAAATATATC
1 TATACATGTAAATATATA
*
51919053 TATACATGTAACTATATA
1 TATACATGTAAATATATA
51919071 TATA
1 TATA
51919075 TCTATTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (18 bp):
TATACATGTAAATATATA
Found at i:51920410 original size:131 final size:129
Alignment explanation
Indices: 51920226--51920547 Score: 403
Period size: 131 Copynumber: 2.4 Consensus size: 129
51920216 TTCACAATTA
*
51920226 TTTAAGAATTCTTTAAAACGAAGGTGATATTCGATATTTGGCAATTCGTGGAATCGTGCCCTAAA
1 TTTAAAAATTCTTT-AAACGAAGGTGATATTCGATATTTGGCAATTCG-GGAATCGTGCCCTAAA
* * * *
51920291 GTGTTGGGTTGCAATTTCTCGTTTGCTCAAAATAGTCGAAGGTCCCTTTAGAATTTTAGC-CATG
64 GTGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAAGGTCCCTTTAGAATTTCA-CTCATG
51920355 TCT
128 T-T
* * * **
51920358 TTTAAAAATTCTTTAAACGAAGGCGATGTTCAATATTTGGCAATTCGCGGAATCGTGCCCTATCG
1 TTTAAAAATTCTTTAAACGAAGGTGATATTCGATATTTGGCAATTCG-GGAATCGTGCCCTAAAG
* * * *
51920423 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATTAAAGGTCCCTTTTGAATTTCACTTATGTT
65 TGCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAAGGTCCCTTTAGAATTTCACTCATGTT
* * * *
51920488 TTCTAAAAACTCTTCAAAACGAAGGTAATATTCGATGTTTGGCAATTCAGGGAATCGTGC
1 TT-TAAAAATTCTT-TAAACGAAGGTGATATTCGATATTTGGCAATTC-GGGAATCGTGC
51920548 TGGGTTGCGA
Statistics
Matches: 164, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
130 4 0.02
131 109 0.66
132 50 0.30
133 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (129 bp):
TTTAAAAATTCTTTAAACGAAGGTGATATTCGATATTTGGCAATTCGGGAATCGTGCCCTAAAGT
GCTGGGTTGCAATTTCTCGTTTGCTCAAAATAATCAAAGGTCCCTTTAGAATTTCACTCATGTT
Found at i:51932373 original size:79 final size:79
Alignment explanation
Indices: 51932285--51932707 Score: 246
Period size: 79 Copynumber: 5.1 Consensus size: 79
51932275 GGAGTAGCCT
*
51932285 GAAGATTGCAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACGAGCCTTAACCCCCTAAGTAG
1 GAAGATTGCAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACCAGCCTTAACCCCCTAAGTAG
51932350 TAGGGCAACAGGCC
66 TAGGGCAACAGGCC
* * * * * * * *
51932364 GAAGATTGCAAAATCTTGTCTTCCTGGAGTTGA-AATGAAGTAGATGTAAACCA-CCATCCTATC
1 GAAGATTGC-AGATCTCGTC-TCC---AGTGGAGCA-G-A-TCGAAGAAAACCAGCC-T--TAAC
* * * *
51932427 TCCCTAAAGTTGTAGTGG-AATAGGCT
55 CCCCT-AAGTAGTAG-GGCAACAGGCC
* * *
51932453 GAAGATTACAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACGAGTCTTAACCCCCTAAGTAG
1 GAAGATTGCAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACCAGCCTTAACCCCCTAAGTAG
*
51932518 TAGGGCAACAGGTC
66 TAGGGCAACAGGCC
* * * ** ** * *
51932532 GAATATTGCAAAATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAG-CTACCATCC-TATC
1 GAAGATTGC-AGATCTCGTC-TCC---AG-T---G-G-AGCAGATCGAAGAAAACCAGCCTTAAC
* * ** * *
51932595 TCCCTAAAGTTGTA-GTAAAGTAGGCT
55 CCCCT-AAGTAGTAGGGCAA-CAGGCC
* * *
51932621 GAAGATTGCAGATCTCGTCTCCAGTGGAGAAGATCGAAGAAAACAAGCCTTAACCCTCTAAGTAG
1 GAAGATTGCAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACCAGCCTTAACCCCCTAAGTAG
*
51932686 TAGGGCAACAAGCC
66 TAGGGCAACAGGCC
51932700 GAAGATTG
1 GAAGATTG
51932708 TAAGATCTTG
Statistics
Matches: 245, Mismatches: 67, Indels: 64
0.65 0.18 0.17
Matches are distributed among these distances:
78 11 0.04
79 53 0.22
80 33 0.13
81 6 0.02
82 10 0.04
83 4 0.02
84 16 0.07
85 5 0.02
86 10 0.04
87 6 0.02
88 34 0.14
89 45 0.18
90 12 0.05
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (79 bp):
GAAGATTGCAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACCAGCCTTAACCCCCTAAGTAG
TAGGGCAACAGGCC
Found at i:51932732 original size:168 final size:168
Alignment explanation
Indices: 51932207--51932750 Score: 795
Period size: 168 Copynumber: 3.2 Consensus size: 168
51932197 AAAGACGGTG
* * * * *
51932207 AATCTAGTCTTCATGAGGTTGCAGTGAAACAGATTCAAGCCACCATCCTATCTCCCTAAAGTTGT
1 AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGT
* *
51932272 AGTGGAGTAGCCTGAAGATTGCAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACGAGCCTTA
66 AGTGAAGTAGGCTGAAGATTGCAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACGAGCCTTA
51932337 ACCCCCTAAGTAGTAGGGCAACAGGCCGAAGATTGCAA
131 ACCCCCTAAGTAGTAGGGCAACAGGCCGAAGATTGCAA
* * * * * *
51932375 AATCTTGTCTTCCTGGAGTTGAAATGAAGTAGATGTAAACCACCATCCTATCTCCCTAAAGTTGT
1 AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGT
* *
51932440 AGTGGAA-TAGGCTGAAGATTACAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACGAGTCTT
66 AGT-GAAGTAGGCTGAAGATTGCAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACGAGCCTT
* *
51932504 AACCCCCTAAGTAGTAGGGCAACAGGTCGAATATTGCAA
130 AACCCCCTAAGTAGTAGGGCAACAGGCCGAAGATTGCAA
*
51932543 AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCTACCATCCTATCTCCCTAAAGTTGT
1 AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGT
* * *
51932608 AGTAAAGTAGGCTGAAGATTGCAGATCTCGTCTCCAGTGGAGAAGATCGAAGAAAACAAGCCTTA
66 AGTGAAGTAGGCTGAAGATTGCAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACGAGCCTTA
* * *
51932673 ACCCTCTAAGTAGTAGGGCAACAAGCCGAAGATTGTAA
131 ACCCCCTAAGTAGTAGGGCAACAGGCCGAAGATTGCAA
* * * * *
51932711 GATCTTG-CCTCTCTGAAGTTGCAGTGGAGCATATTGAAGC
1 AATCTTGTCTTC-CTGAAGTTGCAGTGAAGCAGATTTAAGC
51932751 TACTTGAAGA
Statistics
Matches: 334, Mismatches: 39, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
167 5 0.01
168 327 0.98
169 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (168 bp):
AATCTTGTCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGT
AGTGAAGTAGGCTGAAGATTGCAGATCTCGTCTCCAGTGGAGCAGATCGAAGAAAACGAGCCTTA
ACCCCCTAAGTAGTAGGGCAACAGGCCGAAGATTGCAA
Found at i:51934239 original size:18 final size:18
Alignment explanation
Indices: 51934213--51934252 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
51934203 TACTTTCATT
* *
51934213 TATATATGTAAATATATC
1 TATACATGTAAATATATA
*
51934231 TATACATGTAACTATATA
1 TATACATGTAAATATATA
51934249 TATA
1 TATA
51934253 TCTATTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (18 bp):
TATACATGTAAATATATA
Found at i:51935753 original size:132 final size:131
Alignment explanation
Indices: 51935413--51935791 Score: 485
Period size: 131 Copynumber: 2.9 Consensus size: 131
51935403 TAAGAATTCT
* * * *
51935413 TTAAAACGAAGGCGATATTCGATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGC
1 TTAAAACAAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGTTGGGTTGC
* * * *
51935478 AATTTCTCGTTTGCTCAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCATGTCTTTTAAAAATT
66 AATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCACTCATGTCTTTTAAAAACT
51935543 C
131 C
* * *
51935544 TTTAAACAAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGTTGGGTTGC
1 TTAAAACAAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGTTGGGTTGC
* * *
51935609 AATTTCTCGTTTGTTCAAAATAATCAAAGGTCCCTTTTGAATTTCACTTATGT-TTTCTAAAAAC
66 AATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCACTCATGTCTTT-TAAAAAC
51935673 TC
130 TC
* * * * *
51935675 TTCAAAACTAAGGTAATATTCGATGTTTGGCAATTCAG-GGAATCGTGCCTTATCGTGCTGGGTT
1 TT-AAAACAAAGGCAATATTCGATATTTGGCAATTC-GCGGAATCGTGCCCTATCGTGTTGGGTT
* * * * *
51935739 GCGATTTC-CTGTTTGTCCAAAATGATCGAAGATTCCTTTAGAATTTCACTCAT
64 GCAATTTCTC-GTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCACTCAT
51935792 ACTCTCTAAA
Statistics
Matches: 216, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
130 3 0.01
131 118 0.55
132 94 0.44
133 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (131 bp):
TTAAAACAAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCGTGTTGGGTTGC
AATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCACTCATGTCTTTTAAAAACT
C
Found at i:51936619 original size:10 final size:9
Alignment explanation
Indices: 51936606--51936720 Score: 56
Period size: 9 Copynumber: 12.3 Consensus size: 9
51936596 TTTTGATGCA
51936606 TTTTATAATT
1 TTTTATAA-T
*
51936616 TTTTATGAT
1 TTTTATAAT
*
51936625 TTTTATAAA
1 TTTTATAAT
* **
51936634 TATTACCAT
1 TTTTATAAT
51936643 TTTTAT-AT
1 TTTTATAAT
51936651 TTTT-TAAT
1 TTTTATAAT
*
51936659 TCTTAAATATAT
1 T-TT-TATA-AT
51936671 TTTTAT-AT
1 TTTTATAAT
*
51936679 TTTTATTAAA
1 TTTTA-TAAT
* *
51936689 ATTTATATTT
1 TTTTATA-AT
*
51936699 TTTTATAAC
1 TTTTATAAT
51936708 TTTTATTAAT
1 TTTTA-TAAT
51936718 TTT
1 TTT
51936721 CATTTTTTAT
Statistics
Matches: 77, Mismatches: 19, Indels: 18
0.68 0.17 0.16
Matches are distributed among these distances:
7 1 0.01
8 16 0.21
9 27 0.35
10 26 0.34
11 4 0.05
12 3 0.04
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTATAAT
Found at i:51936737 original size:26 final size:27
Alignment explanation
Indices: 51936607--51936739 Score: 73
Period size: 27 Copynumber: 4.8 Consensus size: 27
51936597 TTTGATGCAT
*
51936607 TTTATAATTTTTTATGATTTTTA-TAAA
1 TTTATATTTTTTTAT-ATTTTTATTAAA
* *
51936634 TATTACCA--TTTTTATA-TTTT-TTAAT
1 T-TTA-TATTTTTTTATATTTTTATTAAA
*
51936659 TCTTAAATATATTTTTATATTTTTATTAAAA
1 T-TT--ATATTTTTTTATATTTTTATT-AAA
*
51936690 TTTATATTTTTTTATAACTTTTATT-AA
1 TTTATATTTTTTTAT-ATTTTTATTAAA
*
51936717 TTT-TCATTTTTTATATGTTTTTA
1 TTTAT-ATTTTTT-TATATTTTTA
51936740 CCACATGTAA
Statistics
Matches: 84, Mismatches: 9, Indels: 26
0.71 0.08 0.22
Matches are distributed among these distances:
25 10 0.12
26 3 0.04
27 26 0.31
28 25 0.30
29 13 0.15
30 4 0.05
31 3 0.04
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTATATTTTTTTATATTTTTATTAAA
Found at i:51937047 original size:9 final size:9
Alignment explanation
Indices: 51937033--51937058 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
51937023 CCTAATTCAA
51937033 CCAATCCAT
1 CCAATCCAT
51937042 CCAATCCAT
1 CCAATCCAT
51937051 CCAATCCA
1 CCAATCCA
51937059 ATCAACAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.46, G:0.00, T:0.19
Consensus pattern (9 bp):
CCAATCCAT
Found at i:51937646 original size:19 final size:20
Alignment explanation
Indices: 51937605--51937649 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
51937595 TAAACCTAGA
* *
51937605 AAAAAATTAATAATATCATT
1 AAAAAATTAATAAAATCAAT
*
51937625 AAAAAA-TAATAAAATGAAT
1 AAAAAATTAATAAAATCAAT
51937644 AAAAAA
1 AAAAAA
51937650 ATATTATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (20 bp):
AAAAAATTAATAAAATCAAT
Found at i:51941388 original size:30 final size:32
Alignment explanation
Indices: 51941321--51941389 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 32
51941311 GTTAATTTCA
* *
51941321 TTTTTCTAATATTATTTAATATTTTTATTTTAG
1 TTTTT-TAATATTAATTAATATTTTTATTCTAG
51941354 -TTTTTAAT-TTAATTAATATTTTT-TTCTAG
1 TTTTTTAATATTAATTAATATTTTTATTCTAG
51941383 TTTTTTA
1 TTTTTTA
51941390 TAACAGTTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 5 0.15
30 20 0.61
31 4 0.12
32 4 0.12
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (32 bp):
TTTTTTAATATTAATTAATATTTTTATTCTAG
Found at i:51942941 original size:18 final size:18
Alignment explanation
Indices: 51942918--51942954 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
51942908 TTATACAATG
* *
51942918 TGCGTATCTTAACCTTTA
1 TGCGTATCCTAACCCTTA
51942936 TGCGTATCCTAACCCTTA
1 TGCGTATCCTAACCCTTA
51942954 T
1 T
51942955 ATATATATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.41
Consensus pattern (18 bp):
TGCGTATCCTAACCCTTA
Found at i:51947612 original size:29 final size:28
Alignment explanation
Indices: 51947562--51947617 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
51947552 ATTTCTCTCA
51947562 AAATATTATTGTTTTAATTTTATATTTTG
1 AAATATTATTGTTTTAATTTTAT-TTTTG
51947591 AAAT-TTATTTGTTTTCAA-TTTATTTTT
1 AAATATTA-TTGTTTT-AATTTTATTTTT
51947618 ATAATGACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 7 0.28
29 16 0.64
30 2 0.08
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (28 bp):
AAATATTATTGTTTTAATTTTATTTTTG
Found at i:51951443 original size:32 final size:32
Alignment explanation
Indices: 51951405--51951469 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
51951395 TGGCAACTTG
*
51951405 ATATGAAATGTGTAAGACTATGGTTGAAAGAT
1 ATATGAAATGTGTAAGACCATGGTTGAAAGAT
51951437 ATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 ATATGAAATGTGTAAGACCATGGTTGAAAGAT
51951469 A
1 A
51951470 CCATGGCAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.29
Consensus pattern (32 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGAT
Found at i:51951488 original size:78 final size:78
Alignment explanation
Indices: 51951359--51951515 Score: 278
Period size: 78 Copynumber: 2.0 Consensus size: 78
51951349 GTGCTCTCTG
* ** *
51951359 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACTTGATATGAAATGTGTAAGACT
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACC
51951424 ATGGTTGAAAGAT
66 ATGGTTGAAAGAT
51951437 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACC
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACC
51951502 ATGGTTGAAAGAT
66 ATGGTTGAAAGAT
51951515 A
1 A
51951516 CCATGGCAAC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.40, C:0.10, G:0.24, T:0.26
Consensus pattern (78 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACC
ATGGTTGAAAGAT
Found at i:51951503 original size:46 final size:46
Alignment explanation
Indices: 51951439--51951620 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
51951429 TGAAAGATAT
** * *
51951439 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
51951485 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
51951531 AGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
51951577 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
51951621 TCAAAGATAA
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 122 0.99
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:51951922 original size:16 final size:17
Alignment explanation
Indices: 51951901--51951933 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51951891 ATGGTGGAGC
51951901 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
51951917 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
51951934 TACTTAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:51955203 original size:17 final size:17
Alignment explanation
Indices: 51955138--51955208 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
51955128 TAGTATTTAT
51955138 TTGTTATTTCATTTATTA
1 TTGTTATTTCA-TTATTA
**
51955156 TTCCT-TTTCATTATT-
1 TTGTTATTTCATTATTA
* * *
51955171 TTATTTTTGTCCTTATTA
1 TTGTTATT-TCATTATTA
51955189 TTGTTATTTCATTATATA
1 TTGTTATTTCATTAT-TA
51955207 TT
1 TT
51955209 TATTTATTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
15 3 0.07
16 7 0.17
17 18 0.44
18 13 0.32
ACGTcount: A:0.20, C:0.10, G:0.04, T:0.66
Consensus pattern (17 bp):
TTGTTATTTCATTATTA
Found at i:51960028 original size:7 final size:7
Alignment explanation
Indices: 51960016--51960041 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
51960006 AAATGTTATA
51960016 AACAATC
1 AACAATC
51960023 AACAATC
1 AACAATC
51960030 AACAATC
1 AACAATC
51960037 AACAA
1 AACAA
51960042 AAAGTCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.27, G:0.00, T:0.12
Consensus pattern (7 bp):
AACAATC
Found at i:51960196 original size:11 final size:11
Alignment explanation
Indices: 51960180--51960215 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
51960170 CTAGAGCATC
51960180 CCTTGAAGTTT
1 CCTTGAAGTTT
*
51960191 CCTTGAAGGTT
1 CCTTGAAGTTT
*
51960202 CTTTGAAGTTT
1 CCTTGAAGTTT
51960213 CCT
1 CCT
51960216 AGCATAGGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.44
Consensus pattern (11 bp):
CCTTGAAGTTT
Found at i:51961041 original size:18 final size:18
Alignment explanation
Indices: 51961001--51961043 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
51960991 ATGCCGAAAA
*
51961001 TACTT-AGACATATTAAT
1 TACTTAAGACACATTAAT
51961018 TAACTTAAGACACATTAAT
1 T-ACTTAAGACACATTAAT
51961037 TACTTAA
1 TACTTAA
51961044 ACTAATCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (18 bp):
TACTTAAGACACATTAAT
Found at i:51963832 original size:48 final size:48
Alignment explanation
Indices: 51963761--51963857 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
51963751 ATATAATACC
51963761 AGAGAAAAATCACTATGAAATACCCAATTATAACAACCGCATTAAGAT
1 AGAGAAAAATCACTATGAAATACCCAATTATAACAACCGCATTAAGAT
51963809 AGAGAAAAATCA-TAATGAAATACCCAATTATAACAACCGCATTAAGAT
1 AGAGAAAAATCACT-ATGAAATACCCAATTATAACAACCGCATTAAGAT
51963857 A
1 A
51963858 TCTTTGCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 1 0.02
48 47 0.98
ACGTcount: A:0.52, C:0.18, G:0.10, T:0.21
Consensus pattern (48 bp):
AGAGAAAAATCACTATGAAATACCCAATTATAACAACCGCATTAAGAT
Found at i:51968842 original size:15 final size:15
Alignment explanation
Indices: 51968822--51968885 Score: 69
Period size: 15 Copynumber: 4.3 Consensus size: 15
51968812 TTGGAGTAAC
51968822 AAAAAAAAA-TC-AA
1 AAAAAAAAATTCAAA
51968835 AAAAAAAAATTCGAAA
1 AAAAAAAAATTC-AAA
*** *
51968851 AAAAATTGATTCAGA
1 AAAAAAAAATTCAAA
51968866 AAAAAAAAATTCAAA
1 AAAAAAAAATTCAAA
51968881 AAAAA
1 AAAAA
51968886 TCGAAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
13 9 0.22
14 2 0.05
15 18 0.45
16 11 0.28
ACGTcount: A:0.75, C:0.06, G:0.05, T:0.14
Consensus pattern (15 bp):
AAAAAAAAATTCAAA
Found at i:51968903 original size:11 final size:11
Alignment explanation
Indices: 51968889--51968974 Score: 57
Period size: 11 Copynumber: 7.2 Consensus size: 11
51968879 AAAAAAATCG
51968889 AAAAAAAGGAA
1 AAAAAAAGGAA
51968900 AAAAAAAGTGACA
1 AAAAAAAG-GA-A
*
51968913 AAAAAAATCGAGTTA
1 AAAAAAA--G-G-AA
51968928 AAAAAAA-GAA
1 AAAAAAAGGAA
*
51968938 AAAAAAAGTAA
1 AAAAAAAGGAA
* *
51968949 AAGAAAAGAACA
1 AAAAAAAGGA-A
51968961 AAAAAAAGTGAA
1 AAAAAAAG-GAA
51968973 AA
1 AA
51968975 GTATTGTGAG
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
10 8 0.14
11 19 0.32
12 13 0.22
13 9 0.15
15 10 0.17
ACGTcount: A:0.76, C:0.03, G:0.14, T:0.07
Consensus pattern (11 bp):
AAAAAAAGGAA
Found at i:51968916 original size:24 final size:24
Alignment explanation
Indices: 51968889--51968974 Score: 63
Period size: 24 Copynumber: 3.6 Consensus size: 24
51968879 AAAAAAATCG
51968889 AAAAAAAG-GAAAAAAAAAGTGACA
1 AAAAAAAGAGAAAAAAAAAG-GACA
*
51968913 AAAAAAATCGAGTTAAAAAAAA-GA-A
1 AAAAAAA--GAG-AAAAAAAAAGGACA
* * *
51968938 AAAAAAAG-TAAAAGAAAAGAACA
1 AAAAAAAGAGAAAAAAAAAGGACA
*
51968961 AAAAAAAGTGAAAA
1 AAAAAAAGAGAAAA
51968975 GTATTGTGAG
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
21 7 0.14
22 1 0.02
23 10 0.20
24 11 0.22
25 8 0.16
26 3 0.06
27 1 0.02
28 8 0.16
ACGTcount: A:0.76, C:0.03, G:0.14, T:0.07
Consensus pattern (24 bp):
AAAAAAAGAGAAAAAAAAAGGACA
Found at i:51969898 original size:15 final size:16
Alignment explanation
Indices: 51969878--51969909 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
51969868 AGAAAATGAA
51969878 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
51969893 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
51969909 A
1 A
51969910 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:51970024 original size:17 final size:18
Alignment explanation
Indices: 51969992--51970025 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51969982 AAAAGAGAGT
*
51969992 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
51970010 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
51970026 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:51980341 original size:21 final size:21
Alignment explanation
Indices: 51980317--51980359 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
51980307 ACTGGGTGGA
* * *
51980317 TAAGCTTTTACGAGCTTTTGT
1 TAAGCTCTTACAAGCTTCTGT
51980338 TAAGCTCTTACAAGCTTCTGT
1 TAAGCTCTTACAAGCTTCTGT
51980359 T
1 T
51980360 GGCATATTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (21 bp):
TAAGCTCTTACAAGCTTCTGT
Found at i:51980653 original size:30 final size:30
Alignment explanation
Indices: 51980619--51980675 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
51980609 TTTGATAAGC
*
51980619 TTTTGTTTAACCTGTCGAACTTACTAAACT
1 TTTTGTTTAACCTGTCAAACTTACTAAACT
*
51980649 TTTTGTTTAAGCTGTCAAACTTACTAA
1 TTTTGTTTAACCTGTCAAACTTACTAA
51980676 GCTTCATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.44
Consensus pattern (30 bp):
TTTTGTTTAACCTGTCAAACTTACTAAACT
Found at i:51981370 original size:21 final size:20
Alignment explanation
Indices: 51981342--51981380 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
51981332 GCATGTGTTT
*
51981342 TGAAGTTTCTTGTTAGATTA
1 TGAAGTTTCTTGATAGATTA
*
51981362 TGAATGTTTGTTGATAGAT
1 TGAA-GTTTCTTGATAGAT
51981381 ATACAAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.49
Consensus pattern (20 bp):
TGAAGTTTCTTGATAGATTA
Found at i:51997018 original size:27 final size:26
Alignment explanation
Indices: 51996974--51997025 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
51996964 CTCGCTACAA
*
51996974 TCTAGTGGCCTCGCCACATATATCTGT
1 TCTAGTGACCTCGCCACA-ATATCTGT
* *
51997001 TCTAGTGACTTCGTCACAATATCTG
1 TCTAGTGACCTCGCCACAATATCTG
51997026 GCAACCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (26 bp):
TCTAGTGACCTCGCCACAATATCTGT
Found at i:51997076 original size:67 final size:67
Alignment explanation
Indices: 51996955--51997101 Score: 226
Period size: 67 Copynumber: 2.2 Consensus size: 67
51996945 GAGGAAGCAT
*
51996955 TCTGGCAGCCTCGCTACAATCTAGTGGCCTCGCCACATATATCTGTTCTAGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTACAATCTAGTGGCCTAGCCACATATATCTGTTCTAGTGACTTCGTCACAA
51997020 TA
66 TA
* * *
51997022 TCTGGCAACCTCGCTACAATCTGGTGGCCTAGCCACA-ATATCTGGATT-TGGTGACTTCGTCAC
1 TCTGGCAGCCTCGCTACAATCTAGTGGCCTAGCCACATATATCT-G-TTCTAGTGACTTCGTCAC
51997085 AATA
64 AATA
51997089 TCTGGCAGCCTCG
1 TCTGGCAGCCTCG
51997102 TTGCAATTTC
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
66 6 0.08
67 65 0.89
68 2 0.03
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTACAATCTAGTGGCCTAGCCACATATATCTGTTCTAGTGACTTCGTCACAA
TA
Found at i:52004475 original size:27 final size:26
Alignment explanation
Indices: 52004423--52004481 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
52004413 CCACATATAT
*
52004423 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
52004449 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
52004476 ATATCT
1 ATATCT
52004482 AGCAGCTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.36
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:52008422 original size:40 final size:40
Alignment explanation
Indices: 52008338--52008521 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
52008328 TTGAATGCTG
* * * *
52008338 TCCGGGATAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
52008377 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
52008418 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
52008458 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
52008498 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
52008522 GTATGAGTTT
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 110 0.90
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:52008478 original size:80 final size:81
Alignment explanation
Indices: 52008338--52008518 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
52008328 TTGAATGCTG
* * *
52008338 TCCGGGATAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCAAAGGCATT
* *
52008402 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
52008418 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCAAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCAAAGGC
52008479 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
52008498 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
52008519 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCAAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:52015169 original size:40 final size:40
Alignment explanation
Indices: 52015085--52015268 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
52015075 TTGAATGCTG
* * * *
52015085 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
52015124 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
52015165 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
52015205 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
*
52015245 TCCGGGTTAAGTCTCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
52015269 GTATGAGTTA
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 112 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:52015222 original size:80 final size:81
Alignment explanation
Indices: 52015085--52015265 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
52015075 TTGAATGCTG
* *
52015085 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
52015149 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
52015165 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
52015226 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
*
52015245 TCCGGGTTAAGTCTCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
52015266 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:52015289 original size:39 final size:38
Alignment explanation
Indices: 52015086--52015305 Score: 165
Period size: 40 Copynumber: 5.6 Consensus size: 38
52015076 TGAATGCTGT
* * * * *
52015086 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTA-AA
** * *
52015126 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAATT
1 CCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
52015166 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAA-A
*
52015206 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACT-AAA
* **
52015245 TCCGGGTTAAGTCTCGAAGGCATTGTATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
* *
52015285 CCGGGCTATGTCCCGAAGGCA
1 CCGGGTTAAGTCCCGAAGGCA
52015306 CTTGAACGAG
Statistics
Matches: 149, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
39 32 0.21
40 109 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:52017691 original size:26 final size:25
Alignment explanation
Indices: 52017606--52017701 Score: 92
Period size: 24 Copynumber: 3.9 Consensus size: 25
52017596 TCTAAGCTAT
*
52017606 GAAT-AGTATGCTC-TATCGAGCTG-
1 GAATCAGTAAGCTCTTA-CGAGCTGA
* * *
52017629 GAAACAGTAAGCTCTGACGAGTTGA
1 GAATCAGTAAGCTCTTACGAGCTGA
52017654 GAAT-AGTAAGCTCTTACGAGCTGA
1 GAATCAGTAAGCTCTTACGAGCTGA
* *
52017678 TATATCAGTAAGCTCATACGAGCT
1 GA-ATCAGTAAGCTCTTACGAGCT
52017702 ACAGTGAGTC
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.05
24 33 0.56
25 6 0.10
26 17 0.29
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (25 bp):
GAATCAGTAAGCTCTTACGAGCTGA
Found at i:52019165 original size:17 final size:17
Alignment explanation
Indices: 52019140--52019179 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
52019130 TCAACTTTTG
*
52019140 AAAGAGATATTATATAC
1 AAAGGGATATTATATAC
52019157 AAAGGGATATTATATAC
1 AAAGGGATATTATATAC
52019174 AAAGGG
1 AAAGGG
52019180 TCTTATCTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.20, T:0.25
Consensus pattern (17 bp):
AAAGGGATATTATATAC
Found at i:52026627 original size:26 final size:26
Alignment explanation
Indices: 52026598--52026731 Score: 259
Period size: 26 Copynumber: 5.2 Consensus size: 26
52026588 TGATACAAAT
52026598 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
52026624 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52026650 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52026676 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52026702 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
52026728 TGAT
1 TGAT
52026732 GGGAATTTCA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:52030820 original size:43 final size:44
Alignment explanation
Indices: 52030710--52030822 Score: 149
Period size: 43 Copynumber: 2.6 Consensus size: 44
52030700 GACGCCACTA
* * * * *
52030710 TCCCGGACAGGGTCTTACACGAAATC-ATATAACAATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCAAAATAACAATGCCAACG
52030753 TCCCAGACATGGTCTTACACGTAATCAAAAT-ACAATGCCAACG
1 TCCCAGACATGGTCTTACACGTAATCAAAATAACAATGCCAACG
* *
52030796 TCCTAGACATGGTCTTACATGTAATCA
1 TCCCAGACATGGTCTTACACGTAATCA
52030823 CATCTCGATA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 59 0.95
44 3 0.05
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGTAATCAAAATAACAATGCCAACG
Found at i:52033456 original size:54 final size:54
Alignment explanation
Indices: 52033288--52033456 Score: 205
Period size: 55 Copynumber: 3.1 Consensus size: 54
52033278 CATTGCCTGT
* *
52033288 TATCCTTGCCTTAT-GAACTTACCATTGCCATGCCTTGGCATGGTCTTACATGG
1 TATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGG
* * * ** * * * *
52033341 GATCTTTGCCTTATAGTAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGA
1 TATCCTTGCCTTATA-AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGG
* *
52033396 TTTCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGG
1 TATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGG
52033450 TATCCTT
1 TATCCTT
52033457 AAACCCTAAT
Statistics
Matches: 92, Mismatches: 22, Indels: 3
0.79 0.19 0.03
Matches are distributed among these distances:
53 12 0.13
54 37 0.40
55 43 0.47
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (54 bp):
TATCCTTGCCTTATAAAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGG
Found at i:52034367 original size:20 final size:20
Alignment explanation
Indices: 52034342--52034381 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
52034332 CCCTTCATTA
52034342 AAACTTTAGTTATTTTTATC
1 AAACTTTAGTTATTTTTATC
52034362 AAACTTTAGTTATTTTTATC
1 AAACTTTAGTTATTTTTATC
52034382 TATGTATGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.05, T:0.55
Consensus pattern (20 bp):
AAACTTTAGTTATTTTTATC
Found at i:52035537 original size:40 final size:41
Alignment explanation
Indices: 52035491--52035578 Score: 124
Period size: 41 Copynumber: 2.2 Consensus size: 41
52035481 TGTTTGCAAT
* *
52035491 AAAACGCC-AAAAAAATTGAGCAATAGCGGCGTTTTTGGTC
1 AAAACGCCGAAAAAAACTGAGCAATAGCAGCGTTTTTGGTC
**
52035531 AAAACGCCGCTAAAAACTGAGCAATAGCAGCGTTTTTGGTC
1 AAAACGCCGAAAAAAACTGAGCAATAGCAGCGTTTTTGGTC
*
52035572 CAAACGC
1 AAAACGC
52035579 TGCTATAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 8 0.19
41 34 0.81
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (41 bp):
AAAACGCCGAAAAAAACTGAGCAATAGCAGCGTTTTTGGTC
Found at i:52035552 original size:41 final size:41
Alignment explanation
Indices: 52035501--52035583 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
52035491 AAAACGCCAA
* *
52035501 AAAAATTGAGCAATAGCGGCGTTTTTGGTCAAAACGCCGCT
1 AAAAACTGAGCAATAGCAGCGTTTTTGGTCAAAACGCCGCT
* *
52035542 AAAAACTGAGCAATAGCAGCGTTTTTGGTCCAAACGCTGCT
1 AAAAACTGAGCAATAGCAGCGTTTTTGGTCAAAACGCCGCT
52035583 A
1 A
52035584 TAGATCGAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (41 bp):
AAAAACTGAGCAATAGCAGCGTTTTTGGTCAAAACGCCGCT
Found at i:52035750 original size:123 final size:123
Alignment explanation
Indices: 52035580--52035804 Score: 308
Period size: 123 Copynumber: 1.8 Consensus size: 123
52035570 TCCAAACGCT
* * * *
52035580 GCTATAGATCGAGGTTTTAGCGACGCTTCTAGAAAACCGCTGCTATAGGTCGAGGTTTTAGTGGC
1 GCTATAGATCGAGGTTTTAGCGACGCTTCTAGAAAACCGCCGCTATAGGTCAAGCTTTTAGCGGC
* * *
52035645 -GTTTCTGGAAAAACGCCGCTATAGGTCGAGGTTTTAGTGGCGCTTCTAGAAAAACGTC
66 ACTTT-TGGAAAAACACCGCTATAGATCGAGGTTTTAGTGGCGCTTCTAGAAAAACGTC
* * * * * *
52035703 GCTATAGGTCGAGGTTTTAGCGGCGCTTTTGGAGAAGCGCCGCTATAGGTCAAGCTTTTAGCGGC
1 GCTATAGATCGAGGTTTTAGCGACGCTTCTAGAAAACCGCCGCTATAGGTCAAGCTTTTAGCGGC
*
52035768 ACTTTTGGAGAAACACCGCTATAGATCGAGGTTTTAG
66 ACTTTTGGAAAAACACCGCTATAGATCGAGGTTTTAG
52035805 CAGTGCTTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
123 84 0.97
124 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (123 bp):
GCTATAGATCGAGGTTTTAGCGACGCTTCTAGAAAACCGCCGCTATAGGTCAAGCTTTTAGCGGC
ACTTTTGGAAAAACACCGCTATAGATCGAGGTTTTAGTGGCGCTTCTAGAAAAACGTC
Found at i:52035814 original size:41 final size:41
Alignment explanation
Indices: 52035573--52035826 Score: 278
Period size: 41 Copynumber: 6.2 Consensus size: 41
52035563 TTTTTGGTCC
* * * * *
52035573 AAACGCTGCTATAGATCGAGGTTTTAGCGACGCTTCTAGAA
1 AAACGCCGCTATAGGTCGAGGTTTTAGCGGCGCTTTTGGAA
* * *
52035614 AACCGCTGCTATAGGTCGAGGTTTTAGTGGCG-TTTCTGGAA
1 AAACGCCGCTATAGGTCGAGGTTTTAGCGGCGCTTT-TGGAA
* * *
52035655 AAACGCCGCTATAGGTCGAGGTTTTAGTGGCGCTTCTAGAA
1 AAACGCCGCTATAGGTCGAGGTTTTAGCGGCGCTTTTGGAA
* *
52035696 AAACGTCGCTATAGGTCGAGGTTTTAGCGGCGCTTTTGGAG
1 AAACGCCGCTATAGGTCGAGGTTTTAGCGGCGCTTTTGGAA
* * * * *
52035737 AAGCGCCGCTATAGGTCAAGCTTTTAGCGGCACTTTTGGAG
1 AAACGCCGCTATAGGTCGAGGTTTTAGCGGCGCTTTTGGAA
* * * *
52035778 AAACACCGCTATAGATCGAGGTTTTAGCAGTGCTTTT-GAA
1 AAACGCCGCTATAGGTCGAGGTTTTAGCGGCGCTTTTGGAA
*
52035818 AAACACCGC
1 AAACGCCGC
52035827 AGAAAATATA
Statistics
Matches: 182, Mismatches: 29, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
40 13 0.07
41 167 0.92
42 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (41 bp):
AAACGCCGCTATAGGTCGAGGTTTTAGCGGCGCTTTTGGAA
Found at i:52036044 original size:7 final size:7
Alignment explanation
Indices: 52036034--52036123 Score: 56
Period size: 7 Copynumber: 12.6 Consensus size: 7
52036024 GAGTTACTAT
52036034 TTTAAGG
1 TTTAAGG
*
52036041 TTTATGG
1 TTTAAGG
*
52036048 GTTATAGG
1 TTTA-AGG
*
52036056 TTTAGGG
1 TTTAAGG
* *
52036063 TTTATGA
1 TTTAAGG
*
52036070 TTTATGG
1 TTTAAGG
52036077 TTTAAGG
1 TTTAAGG
* *
52036084 GTTAGGG
1 TTTAAGG
52036091 TTTAAGG
1 TTTAAGG
*
52036098 -TTAGGGG
1 TTTA-AGG
52036105 TTTAAGGG
1 TTTAA-GG
*
52036113 TTTAGGG
1 TTTAAGG
52036120 TTTA
1 TTTA
52036124 TGGGTTATAT
Statistics
Matches: 63, Mismatches: 16, Indels: 8
0.72 0.18 0.09
Matches are distributed among these distances:
6 3 0.05
7 46 0.73
8 14 0.22
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.44
Consensus pattern (7 bp):
TTTAAGG
Found at i:52036051 original size:22 final size:22
Alignment explanation
Indices: 52036010--52036083 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
52036000 TACGGTTTAG
* *
52036010 GGTTTAAGATTTAAGAGTTACTA
1 GGTTTAAGGTTTATGAGTTA-TA
* *
52036033 -TTTTAAGGTTTATGGGTTATA
1 GGTTTAAGGTTTATGAGTTATA
* *
52036054 GGTTTAGGGTTTATGATTTAT-
1 GGTTTAAGGTTTATGAGTTATA
52036075 GGTTTAAGG
1 GGTTTAAGG
52036084 GTTAGGGTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 10 0.24
22 31 0.76
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (22 bp):
GGTTTAAGGTTTATGAGTTATA
Found at i:52036073 original size:14 final size:14
Alignment explanation
Indices: 52036034--52036123 Score: 94
Period size: 14 Copynumber: 6.3 Consensus size: 14
52036024 GAGTTACTAT
52036034 TTTAAGGTTTATGGG
1 TTTAAGGTTTA-GGG
52036049 -TTATAGGTTTAGGG
1 TTTA-AGGTTTAGGG
* * *
52036063 TTTATGATTTATGG
1 TTTAAGGTTTAGGG
*
52036077 TTTAAGGGTTAGGG
1 TTTAAGGTTTAGGG
52036091 TTTAAGG-TTAGGGG
1 TTTAAGGTTTA-GGG
52036105 TTTAAGGGTTTAGGG
1 TTTAA-GGTTTAGGG
52036120 TTTA
1 TTTA
52036124 TGGGTTATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
13 3 0.05
14 38 0.60
15 19 0.30
16 3 0.05
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.44
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:52036115 original size:8 final size:8
Alignment explanation
Indices: 52036075--52036129 Score: 57
Period size: 8 Copynumber: 7.5 Consensus size: 8
52036065 TATGATTTAT
52036075 GGTTTAAG
1 GGTTTAAG
52036083 GG-TT-AG
1 GGTTTAAG
52036089 GGTTTAA-
1 GGTTTAAG
*
52036096 GG-TTAGG
1 GGTTTAAG
52036103 GGTTTAAG
1 GGTTTAAG
52036111 GGTTT-AG
1 GGTTTAAG
*
52036118 GGTTTATG
1 GGTTTAAG
52036126 GGTT
1 GGTT
52036130 ATATTCCATG
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
6 7 0.18
7 15 0.38
8 17 0.44
ACGTcount: A:0.18, C:0.00, G:0.42, T:0.40
Consensus pattern (8 bp):
GGTTTAAG
Found at i:52039357 original size:3 final size:3
Alignment explanation
Indices: 52039349--52039380 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
52039339 ATTGGTAACA
52039349 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
52039381 ATGTTAAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:52041358 original size:24 final size:22
Alignment explanation
Indices: 52041331--52041374 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
52041321 AATTTCAAAA
52041331 ATAAAACATAATATAATATTTATC
1 ATAAAA-ATAA-ATAATATTTATC
*
52041355 ATAAAAATAAATATTATTTA
1 ATAAAAATAAATAATATTTA
52041375 ATAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAAAATAAATAATATTTATC
Found at i:52042387 original size:27 final size:24
Alignment explanation
Indices: 52042357--52042420 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 24
52042347 TCGTGGCGTA
52042357 GCCACTAATGTCAGAATGCGTGGCAAG
1 GCCACTAATGT-AGAAT--GTGGCAAG
*
52042384 GCCACTAGAACGGTAGAATGTGGCAAG
1 GCCACT--AA-TGTAGAATGTGGCAAG
52042411 GCCACTAATG
1 GCCACTAATG
52042421 CAGTACATCC
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
24 1 0.03
25 2 0.06
27 20 0.62
29 7 0.22
30 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.17
Consensus pattern (24 bp):
GCCACTAATGTAGAATGTGGCAAG
Found at i:52049999 original size:49 final size:50
Alignment explanation
Indices: 52049817--52050014 Score: 227
Period size: 49 Copynumber: 3.9 Consensus size: 50
52049807 ATCTATTGTG
* * *
52049817 AGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * * **
52049868 CGATCACGTGTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATG-TGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* *
52049919 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * **
52049969 -GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCATACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
52050015 GCTTTGGCTA
Statistics
Matches: 123, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 40 0.33
50 35 0.28
51 16 0.13
52 32 0.26
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:52050032 original size:102 final size:102
Alignment explanation
Indices: 52049825--52050032 Score: 251
Period size: 102 Copynumber: 2.0 Consensus size: 102
52049815 TGAGGTCGCA
*
52049825 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATGTTGTAGTACTAA
** * * *
52049890 GTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
66 GTGCAGGCTACTACGCATACCAGATGCTTAGGTCAAG
* * * * *
52049927 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-TT-GGTCGCATG-TGTAGTACTAT
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATGTTGTAGTACTAA
* *
52049989 GTGCAGGCTACTATGCATACCAGATAGCTTTGGCTACAAG
66 GTGCAGGCTACTACGCATACCAGAT-GCTTAGG-T-CAAG
52050029 TGTG
1 TGTG
52050033 AAAATATGTG
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
99 31 0.34
100 11 0.12
101 3 0.03
102 45 0.50
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (102 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATGTTGTAGTACTAA
GTGCAGGCTACTACGCATACCAGATGCTTAGGTCAAG
Found at i:52061854 original size:69 final size:69
Alignment explanation
Indices: 52061768--52061904 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 69
52061758 AAAGCTTTTC
52061768 TGACACTTTTCAGACCATTCAAATTTCACATCTTTCTGAAA-CAATTTCGTCAACGAAGTAGCAA
1 TGACACTTTTCAGACCATTCAAATTTCACATCTTTCT-AAAGCAATTTCGTCAACGAAGTAGCAA
52061832 TCATT
65 TCATT
* *
52061837 TGACACTTTTCAGACCATTCAAATTTTACATCTTTCTAAAGCAATTTCGTCAACTAAGTAGCAAT
1 TGACACTTTTCAGACCATTCAAATTTCACATCTTTCTAAAGCAATTTCGTCAACGAAGTAGCAAT
52061902 CAT
66 CAT
52061905 GGAAAAGCCT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
68 3 0.05
69 62 0.95
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (69 bp):
TGACACTTTTCAGACCATTCAAATTTCACATCTTTCTAAAGCAATTTCGTCAACGAAGTAGCAAT
CATT
Found at i:52064465 original size:27 final size:27
Alignment explanation
Indices: 52064435--52064612 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
52064425 ATATCGAGTC
* * * *
52064435 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
52064462 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52064489 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
52064517 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
52064544 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
52064571 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
52064598 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
52064613 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:52064574 original size:82 final size:81
Alignment explanation
Indices: 52064456--52064611 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
52064446 TGCTATATAA
*
52064456 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
52064521 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
52064538 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
52064602 CACTTAGTGC
65 CACTTAGTGC
52064612 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:52070742 original size:40 final size:40
Alignment explanation
Indices: 52070690--52070883 Score: 307
Period size: 40 Copynumber: 4.8 Consensus size: 40
52070680 ATTACCACAA
* * ** *
52070690 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
52070730 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
52070770 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
52070810 GCACAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
52070850 GCGCAAATGTCTTCGGGTCTTAGCCCGGATATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
52070884 TCAAATGCTC
Statistics
Matches: 143, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:52074314 original size:40 final size:40
Alignment explanation
Indices: 52074138--52074360 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
52074128 TCCTCGTTCA
* * * *
52074138 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
52074177 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGGACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
52074217 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
52074257 AATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
52074297 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
52074337 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
52074361 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 36 0.23
40 114 0.72
41 8 0.05
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:52081850 original size:40 final size:40
Alignment explanation
Indices: 52081798--52081991 Score: 316
Period size: 40 Copynumber: 4.8 Consensus size: 40
52081788 ATTACCACAA
* * ** *
52081798 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
52081838 GTACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
52081878 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
52081918 ACACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
52081958 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
52081992 TCAAATGCTC
Statistics
Matches: 143, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:52094155 original size:24 final size:23
Alignment explanation
Indices: 52094103--52094164 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
52094093 CTAAGCTGAT
* *
52094103 GAACAGTAAGCTCTATCGAGCTG
1 GAACAGTAAGCTCTATCAAGATG
52094126 GAAACAGTAAGCTCTGA-CAAGATG
1 G-AACAGTAAGCTCT-ATCAAGATG
*
52094150 AGAACAATAAGCTCT
1 -GAACAGTAAGCTCT
52094165 TACGTGCTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 1 0.03
24 30 0.91
25 2 0.06
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (23 bp):
GAACAGTAAGCTCTATCAAGATG
Found at i:52098013 original size:80 final size:80
Alignment explanation
Indices: 52097909--52098133 Score: 269
Period size: 80 Copynumber: 2.8 Consensus size: 80
52097899 GCTCCTCGTT
* *
52097909 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
52097974 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * * *
52097989 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCTG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCG
* *
52098052 GAATTAGTATCTCGTA
65 GAATTAGTAACTCGCA
* * * * *
52098068 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCC
52098131 GGA
64 GGA
52098134 CATCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 4 0.03
79 51 0.42
80 65 0.53
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:52098049 original size:119 final size:120
Alignment explanation
Indices: 52097911--52098133 Score: 276
Period size: 119 Copynumber: 1.9 Consensus size: 120
52097901 TCCTCGTTCA
*
52097911 AATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACCCG
1 AATGCCTTCGGGACATAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
52097973 GATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
63 GATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
52098031 AATGCCTTCGGG-CTTAGCCTGGAATTAGTATCTCGTACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACATAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* * *
52098095 ATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
66 ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
52098134 CATCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
118 5 0.06
119 62 0.70
120 21 0.24
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:52098133 original size:40 final size:40
Alignment explanation
Indices: 52097909--52098133 Score: 230
Period size: 40 Copynumber: 5.7 Consensus size: 40
52097899 GCTCCTCGTT
* * *
52097909 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
52097949 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
* *
52097989 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
* * *
52098029 CCAATGCCTTCGGG-CTTAGCCTGGA-ATTAGTA-TCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
52098068 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
52098109 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52098134 CATCATTCAA
Statistics
Matches: 158, Mismatches: 17, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
38 3 0.02
39 27 0.17
40 114 0.72
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:52105890 original size:40 final size:40
Alignment explanation
Indices: 52105846--52106069 Score: 228
Period size: 40 Copynumber: 5.6 Consensus size: 40
52105836 GCTCCTCGTT
*
52105846 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* *
52105886 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
* *
52105926 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
* *
52105966 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
* * * * * *
52106005 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCA
52106046 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
52106070 ACATCATTCA
Statistics
Matches: 158, Mismatches: 16, Indels: 20
0.81 0.08 0.10
Matches are distributed among these distances:
38 3 0.02
39 28 0.18
40 112 0.71
41 14 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:52105950 original size:80 final size:80
Alignment explanation
Indices: 52105846--52106070 Score: 278
Period size: 80 Copynumber: 2.8 Consensus size: 80
52105836 GCTCCTCGTT
* *
52105846 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
52105911 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * *
52105926 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCG
*
52105989 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * * * *
52106005 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCC
52106068 GGA
64 GGA
52106071 CATCATTCAA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
78 4 0.03
79 52 0.42
80 66 0.53
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:52105987 original size:119 final size:120
Alignment explanation
Indices: 52105848--52106070 Score: 285
Period size: 119 Copynumber: 1.9 Consensus size: 120
52105838 TCCTCGTTCA
* *
52105848 AATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACCCG
1 AATGCCTTCGGGACATAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACCCA
* *
52105910 GATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
63 GATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* **
52105968 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCAGAT
1 AATGCCTTCGGGACATAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCAGAT
* * *
52106032 ATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
66 ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
52106071 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
118 5 0.06
119 63 0.71
120 21 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCAGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:52106054 original size:79 final size:79
Alignment explanation
Indices: 52105846--52106070 Score: 247
Period size: 79 Copynumber: 2.8 Consensus size: 79
52105836 GCTCCTCGTT
* * * * * * *
52105846 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGG
*
52105911 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * * *
52105926 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
*
52105990 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
** * *
52106005 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCAGATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
52106069 GA
64 GA
52106071 CATCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
78 3 0.02
79 59 0.48
80 59 0.48
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCAGATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:52114433 original size:22 final size:22
Alignment explanation
Indices: 52114408--52114471 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
52114398 TGGTTATAAA
* * *
52114408 CCATAATCATGATGGCATAGAG
1 CCATAATCAGGATGGCACAAAG
*
52114430 CCATAATCAGGATGACACAAAG
1 CCATAATCAGGATGGCACAAAG
52114452 CCATAATCAGGATGGCACAA
1 CCATAATCAGGATGGCACAA
52114472 GGCTATTGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (22 bp):
CCATAATCAGGATGGCACAAAG
Found at i:52114561 original size:27 final size:27
Alignment explanation
Indices: 52114520--52114621 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 27
52114510 CAGCGACGAC
* * * *
52114520 AATATAATCGGCACATAGCCACGGGTA
1 AATATGATTGGCACAAAGCCACAGGTA
* * * * *
52114547 AATATGATTGACACAGAGTCATTA-ATA
1 AATATGATTGGCACAAAGCCA-CAGGTA
* *
52114574 AATATGATAGGCACACAGCCACAGGTA
1 AATATGATTGGCACAAAGCCACAGGTA
52114601 AATATGATTGGCACAAAGCCA
1 AATATGATTGGCACAAAGCCA
52114622 TAATCAAGAT
Statistics
Matches: 57, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
26 1 0.02
27 56 0.98
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.21
Consensus pattern (27 bp):
AATATGATTGGCACAAAGCCACAGGTA
Found at i:52114830 original size:50 final size:50
Alignment explanation
Indices: 52114698--52114830 Score: 176
Period size: 50 Copynumber: 2.7 Consensus size: 50
52114688 GCCATCTGTC
* * * *
52114698 GATCCACAGTCGTCTCGTGCGACACGTGCGACATTAACAGATCAATACTG
1 GATCCACAATCGTCTCGTGCGACCCGTGCAACCTTAACAGATCAATACTG
* * *
52114748 GATCCAAAATCATCTCGTACGACCCGTGCAACCTTAACAGATCAATACTG
1 GATCCACAATCGTCTCGTGCGACCCGTGCAACCTTAACAGATCAATACTG
* * *
52114798 TATCCACAATCGTCTTGTGCAACCCGTGCAACC
1 GATCCACAATCGTCTCGTGCGACCCGTGCAACC
52114831 CTATCAGAAC
Statistics
Matches: 70, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (50 bp):
GATCCACAATCGTCTCGTGCGACCCGTGCAACCTTAACAGATCAATACTG
Found at i:52115102 original size:26 final size:27
Alignment explanation
Indices: 52115079--52115180 Score: 127
Period size: 26 Copynumber: 3.9 Consensus size: 27
52115069 TCATTTTTCC
* *
52115079 CTACAGGGGTATTTCAGTAATTTTACA
1 CTACAAGGGTATTTCAATAATTTTACA
52115106 C-ACAAGGGTATTTCAATAATTTTACA
1 CTACAAGGGTATTTCAATAATTTTACA
*** *
52115132 CTACAAGGGTATTTTGGTAATTGTA-A
1 CTACAAGGGTATTTCAATAATTTTACA
*
52115158 CTACAATGGTATTTCAATAATTT
1 CTACAAGGGTATTTCAATAATTT
52115181 CACAAATTGG
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
26 43 0.68
27 20 0.32
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (27 bp):
CTACAAGGGTATTTCAATAATTTTACA
Found at i:52115136 original size:53 final size:53
Alignment explanation
Indices: 52115079--52115180 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 53
52115069 TCATTTTTCC
* *
52115079 CTACAGGGGTATTTCAGTAATTTTACAC-ACAAGGGTATTTCAATAATTTTACA
1 CTACAAGGGTATTTCAGTAATTGTA-ACTACAAGGGTATTTCAATAATTTTACA
** *
52115132 CTACAAGGGTATTTTGGTAATTGTAACTACAATGGTATTTCAATAATTT
1 CTACAAGGGTATTTCAGTAATTGTAACTACAAGGGTATTTCAATAATTT
52115181 CACAAATTGG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 2 0.05
53 41 0.95
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (53 bp):
CTACAAGGGTATTTCAGTAATTGTAACTACAAGGGTATTTCAATAATTTTACA
Found at i:52119863 original size:27 final size:27
Alignment explanation
Indices: 52119762--52119863 Score: 123
Period size: 27 Copynumber: 3.8 Consensus size: 27
52119752 TGCCCTACTG
* * * *
52119762 GGGTATTTCGATAATTTTACATTACAA
1 GGGTATTTTGGTAATTTCACACTACAA
* *
52119789 GGGTATTCTGGTAATTTTACACTACAA
1 GGGTATTTTGGTAATTTCACACTACAA
* *
52119816 GGGTATTTTGGTAATTACACACTACAC
1 GGGTATTTTGGTAATTTCACACTACAA
*
52119843 GGGTATTTTAGTAATTTCACA
1 GGGTATTTTGGTAATTTCACA
52119864 AATTGGGGGT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTCACACTACAA
Found at i:52135727 original size:21 final size:21
Alignment explanation
Indices: 52135701--52135752 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
52135691 AATTCCTCCT
*
52135701 TGGTTGCTCCGGCCGGAGTTG
1 TGGTTGCTCCGGCCAGAGTTG
*
52135722 TGGTTGCTTCGGCCAGAGTTG
1 TGGTTGCTCCGGCCAGAGTTG
52135743 TGGTTGCTCC
1 TGGTTGCTCC
52135753 AGTTGTGGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.06, C:0.23, G:0.38, T:0.33
Consensus pattern (21 bp):
TGGTTGCTCCGGCCAGAGTTG
Found at i:52136094 original size:21 final size:22
Alignment explanation
Indices: 52136061--52136108 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
52136051 TTTTCATTGA
**
52136061 AAACCCTTCTTAAAAT-AAAAG
1 AAACCCTAATTAAAATAAAAAG
**
52136082 AAACCCTAATTAACTTAAAAAG
1 AAACCCTAATTAAAATAAAAAG
52136104 AAACC
1 AAACC
52136109 TTTCAGTTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.54, C:0.21, G:0.04, T:0.21
Consensus pattern (22 bp):
AAACCCTAATTAAAATAAAAAG
Found at i:52137146 original size:28 final size:29
Alignment explanation
Indices: 52137114--52137228 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
52137104 TACCTGTATC
* *
52137114 TGGCCCATTAAGCCC-AATCATATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* *
52137142 TGGCCCATTAGGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* *
52137171 TGGCCTATTAGGCCCAAATCTCATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * *
52137200 AGGCCCGTTAGGCCC-AATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
52137228 T
1 T
52137229 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 25 0.35
29 47 0.65
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:52137168 original size:57 final size:57
Alignment explanation
Indices: 52137105--52137220 Score: 155
Period size: 57 Copynumber: 2.0 Consensus size: 57
52137095 AATTTCACAT
* *
52137105 ACCTGTATCTGGCCCATTAAGCCC-AATCAT-ATTTATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATC-TCATTTATAAGGCCCATTAGGCCC-AATC
* * *
52137162 ACCTGTATATGGCCTATTAGGCCCAAATCTCATTTATAAGGCCCGTTAGGCCCAATC
1 ACCTGTATATGGCCCATTAAGCCCAAATCTCATTTATAAGGCCCATTAGGCCCAATC
52137219 AC
1 AC
52137221 ATTCATATTC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
57 28 0.54
58 24 0.46
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (57 bp):
ACCTGTATATGGCCCATTAAGCCCAAATCTCATTTATAAGGCCCATTAGGCCCAATC
Found at i:52137453 original size:8 final size:8
Alignment explanation
Indices: 52137440--52137482 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
52137430 ATAGCCAAAC
52137440 TTTCGGCT
1 TTTCGGCT
*
52137448 TTTCGGCA
1 TTTCGGCT
*
52137456 TTTCAGCT
1 TTTCGGCT
52137464 TTTCGGCAT
1 TTTCGGC-T
52137473 TTT-GGCT
1 TTTCGGCT
52137480 TTT
1 TTT
52137483 GCCGATACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 4 0.13
8 22 0.73
9 4 0.13
ACGTcount: A:0.07, C:0.21, G:0.21, T:0.51
Consensus pattern (8 bp):
TTTCGGCT
Found at i:52137480 original size:16 final size:16
Alignment explanation
Indices: 52137440--52137482 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
52137430 ATAGCCAAAC
52137440 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
*
52137456 TTTCAGCTTTTCGGCA
1 TTTCGGCTTTTCGGCA
*
52137472 TTTTGGCTTTT
1 TTTCGGCTTTT
52137483 GCCGATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.07, C:0.21, G:0.21, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCGGCA
Found at i:52144117 original size:29 final size:28
Alignment explanation
Indices: 52144060--52144145 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
52144050 TACCTGTATC
* *
52144060 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
52144088 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
52144117 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
52144145 T
1 T
52144146 TCATGCTCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 26 0.51
29 25 0.49
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:52146195 original size:7 final size:7
Alignment explanation
Indices: 52146185--52146216 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
52146175 TTATATACAT
52146185 AATACTA
1 AATACTA
52146192 AATACTA
1 AATACTA
52146199 AATACTA
1 AATACTA
*
52146206 AGTACTA
1 AATACTA
52146213 AATA
1 AATA
52146217 TGAAACGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:52154729 original size:43 final size:42
Alignment explanation
Indices: 52154655--52154760 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 42
52154645 GATTATGTGT
** * * *
52154655 AAGACCATATTTGGGATATGGCATTGGTATGAGACTT-CGTGG
1 AAGACCATAGCTGGGATATGGCATCGATATGAGA-TTACATGG
* *
52154697 AAGACCATAGCTGGGCTATTGGCATCGATATGAGATTACATGT
1 AAGACCATAGCTGGGATA-TGGCATCGATATGAGATTACATGG
**
52154740 AAGACCATATTTGGGATATGG
1 AAGACCATAGCTGGGATATGG
52154761 AATTGGTATA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 20 0.38
43 32 0.62
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.29
Consensus pattern (42 bp):
AAGACCATAGCTGGGATATGGCATCGATATGAGATTACATGG
Found at i:52172693 original size:35 final size:36
Alignment explanation
Indices: 52172652--52172740 Score: 153
Period size: 35 Copynumber: 2.5 Consensus size: 36
52172642 TGAGTTTATA
52172652 AGTATGTTTGTGGTTGATATTGAAATGGTACA-TTT
1 AGTATGTTTGTGGTTGATATTGAAATGGTACATTTT
52172687 AGTATGTTTGTGGTTGATATTGAAATGGTACATTTT
1 AGTATGTTTGTGGTTGATATTGAAATGGTACATTTT
* *
52172723 AGTCTGGTTGTGGTTGAT
1 AGTATGTTTGTGGTTGAT
52172741 TTGGATGCCT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
35 32 0.63
36 19 0.37
ACGTcount: A:0.22, C:0.03, G:0.28, T:0.46
Consensus pattern (36 bp):
AGTATGTTTGTGGTTGATATTGAAATGGTACATTTT
Found at i:52189450 original size:40 final size:40
Alignment explanation
Indices: 52189256--52189477 Score: 297
Period size: 40 Copynumber: 5.6 Consensus size: 40
52189246 TATTCGGATG
* * *
52189256 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAATGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* **
52189296 A-ATTCTAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
52189336 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
52189376 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
52189416 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
52189456 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
52189478 TACTTGGTTG
Statistics
Matches: 162, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 17 0.10
40 144 0.89
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:52193632 original size:43 final size:43
Alignment explanation
Indices: 52193582--52193695 Score: 167
Period size: 43 Copynumber: 2.7 Consensus size: 43
52193572 TAATACATTA
*
52193582 GCATCGATATGTGAATACGAGTAAGACCTTCTCTGGGACAGTG
1 GCATCGATATGTGAATACGAGTAAGACCCTCTCTGGGACAGTG
* * *
52193625 GCGTCGATATGTGACTACGAGTAAGACCCTGTCTGGGACAGTG
1 GCATCGATATGTGAATACGAGTAAGACCCTCTCTGGGACAGTG
*
52193668 GCATCGATATGTGATTAC-ATGTAAGACC
1 GCATCGATATGTGAATACGA-GTAAGACC
52193696 ACATCAGGGA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.02
43 63 0.98
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (43 bp):
GCATCGATATGTGAATACGAGTAAGACCCTCTCTGGGACAGTG
Found at i:52198105 original size:27 final size:27
Alignment explanation
Indices: 52198075--52198166 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
52198065 ATTACCAAAG
* *
52198075 TACCCCCGATTTATAAAATTACCGTTC
1 TACCCTCGATTTATAAAATTACCGTTT
* ** *
52198102 TACCATCGATTTATGGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCGTTT
*
52198129 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCGTTT
52198156 TACCCTCGATT
1 TACCCTCGATT
52198167 GTGAAATTAC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCGTTT
Found at i:52198228 original size:27 final size:27
Alignment explanation
Indices: 52198198--52198297 Score: 110
Period size: 27 Copynumber: 3.7 Consensus size: 27
52198188 AATAGGGTAG
52198198 AATTACCAAAACACCCCTAGTTTGTAA
1 AATTACCAAAACACCCCTAGTTTGTAA
* * * * *
52198225 AATTACCAAAATACCACTGGCTTGTGA
1 AATTACCAAAACACCCCTAGTTTGTAA
* * * *
52198252 AATTACCGAAACATCCTTAATTTGTAA
1 AATTACCAAAACACCCCTAGTTTGTAA
*
52198279 AATTACCAAAATACCCCTA
1 AATTACCAAAACACCCCTA
52198298 ATTTACAAAA
Statistics
Matches: 55, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (27 bp):
AATTACCAAAACACCCCTAGTTTGTAA
Found at i:52198237 original size:54 final size:54
Alignment explanation
Indices: 52198165--52198295 Score: 126
Period size: 54 Copynumber: 2.4 Consensus size: 54
52198155 TTACCCTCGA
* ** *
52198165 TTGTGAAATTACTGAAATACCCCAATAGG-GT-AGAATTACCAAAACACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCAAT-GGTGTGA-AATTACCAAAACACCCCTAAT
* * * *
52198219 TTGTAAAATTACCAAAATA--CCACTGGCTTGTGAAATTACCGAAACATCCTTAAT
1 TTGTAAAATTACCAAAATACCCCAATGG--TGTGAAATTACCAAAACACCCCTAAT
52198273 TTGTAAAATTACCAAAATACCCC
1 TTGTAAAATTACCAAAATACCCC
52198296 TAATTTACAA
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
51 2 0.03
52 4 0.06
54 54 0.86
55 1 0.02
56 2 0.03
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (54 bp):
TTGTAAAATTACCAAAATACCCCAATGGTGTGAAATTACCAAAACACCCCTAAT
Found at i:52198299 original size:27 final size:27
Alignment explanation
Indices: 52198198--52198310 Score: 109
Period size: 27 Copynumber: 4.2 Consensus size: 27
52198188 AATAGGGTAG
*
52198198 AATTACCAAAACACCCCTAGTTTGTAA
1 AATTACCAAAACACCCCTAATTTGTAA
* * *** *
52198225 AATTACCAAAATACCACTGGCTTGTGA
1 AATTACCAAAACACCCCTAATTTGTAA
* * *
52198252 AATTACCGAAACATCCTTAATTTGTAA
1 AATTACCAAAACACCCCTAATTTGTAA
* **
52198279 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAACACCCCTAATTTGTAA
52198306 AATTA
1 AATTA
52198311 AAGAAATATT
Statistics
Matches: 66, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.28
Consensus pattern (27 bp):
AATTACCAAAACACCCCTAATTTGTAA
Found at i:52198309 original size:54 final size:54
Alignment explanation
Indices: 52198198--52198348 Score: 131
Period size: 54 Copynumber: 2.8 Consensus size: 54
52198188 AATAGGGTAG
* * * * * ** ***
52198198 AATTACCAAAACACCCCTAGTTTGTAAAATTACCAAAATACCACTGGCTTGTGA
1 AATTACCGAAACATCCTTAATTTGTAAAATTACCAAAATACCCCTAACTTACAA
*
52198252 AATTACCGAAACATCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAA
1 AATTACCGAAACATCCTTAATTTGTAAAATTACCAAAATACCCCTAACTTACAA
** * * * * * *
52198306 AATTAAAGAAATATTCTTGATTTGTAGATTTACCAAAACACCC
1 AATTACCGAAACATCCTTAATTTGTAAAATTACCAAAATACCC
52198349 TTGTAGGACG
Statistics
Matches: 78, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (54 bp):
AATTACCGAAACATCCTTAATTTGTAAAATTACCAAAATACCCCTAACTTACAA
Found at i:52198423 original size:27 final size:27
Alignment explanation
Indices: 52198369--52198446 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
52198359 AAAAGACTAA
* * *
52198369 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAATGATCGT
*
52198396 AA-AGCCCCTGTAGGGTAAAGTGATCGT
1 AATA-CCCCTGTAGGGTAAAATGATCGT
* *
52198423 AATACCCTTGTATGGTAAAATGAT
1 AATACCCCTGTAGGGTAAAATGAT
52198447 GAATACGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAATGATCGT
Done.