Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 42 of 135
Found at i:10792410 original size:30 final size:30
Alignment explanation
Indices: 10792335--10792410 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
10792325 ATTTATTTTA
**
10792335 TTGTTAATTTTGTTA-TTATTTTAGAGGTAT
1 TTGTTAATTAGGTTACTT-TTTTAGAGGTAT
**
10792365 TTGTTAATTTTGTTACTTTTTTAGAGGTAT
1 TTGTTAATTAGGTTACTTTTTTAGAGGTAT
*
10792395 TTGTTTATTAGGTTAC
1 TTGTTAATTAGGTTAC
10792411 ATCTATCTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
30 40 0.95
31 2 0.05
ACGTcount: A:0.21, C:0.03, G:0.17, T:0.59
Consensus pattern (30 bp):
TTGTTAATTAGGTTACTTTTTTAGAGGTAT
Found at i:10792534 original size:11 final size:13
Alignment explanation
Indices: 10792511--10792549 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
10792501 ATACATTATA
10792511 TATATTCAAAAAT
1 TATATTCAAAAAT
10792524 TATA-T-AAAAAT
1 TATATTCAAAAAT
*
10792535 AATATTCAAAAAT
1 TATATTCAAAAAT
10792548 TA
1 TA
10792550 ATATGGGCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 9 0.41
12 2 0.09
13 11 0.50
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (13 bp):
TATATTCAAAAAT
Found at i:10792545 original size:13 final size:13
Alignment explanation
Indices: 10792512--10792553 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 13
10792502 TACATTATAT
*
10792512 ATATTCAAAAATT
1 ATATTCAAAAATA
10792525 ATA-T-AAAAATA
1 ATATTCAAAAATA
10792536 ATATTCAAAAATTA
1 ATATTCAAAAA-TA
10792550 ATAT
1 ATAT
10792554 GGGCGTGCCG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.36
12 2 0.08
13 8 0.32
14 6 0.24
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATTCAAAAATA
Found at i:10793629 original size:23 final size:22
Alignment explanation
Indices: 10793602--10793656 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
10793592 ATATTTGTCC
* *
10793602 ATTTTCAATAT-ATATTTATATT
1 ATTTTTAATATAATATTTA-ATA
*
10793624 ATTTTTAATTTAATATTTAATA
1 ATTTTTAATATAATATTTAATA
*
10793646 ATTTTAAATAT
1 ATTTTTAATAT
10793657 TTTTATTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTTTAATATAATATTTAATA
Found at i:10799961 original size:23 final size:24
Alignment explanation
Indices: 10799907--10799961 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
10799897 TTCGCGAACG
***
10799907 TAAACGAACATGTTTTTGAACGCA
1 TAAACGAACATGTTCACGAACGCA
*
10799931 TAAACGAACATGTTCACGAATGC-
1 TAAACGAACATGTTCACGAACGCA
10799954 TAAACGAA
1 TAAACGAA
10799962 TCGAGCCTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (24 bp):
TAAACGAACATGTTCACGAACGCA
Found at i:10807241 original size:6 final size:6
Alignment explanation
Indices: 10807230--10807268 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
10807220 TGATCAAAAT
* * *
10807230 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
10807269 TATGAATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:10808418 original size:19 final size:19
Alignment explanation
Indices: 10808394--10808433 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10808384 GAATATCATT
10808394 ATATTTGTAA-AAAATATAA
1 ATATTTGTAATAAAATA-AA
*
10808413 ATATTTTTAATAAAATAAA
1 ATATTTGTAATAAAATAAA
10808432 AT
1 AT
10808434 TTAAGTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (19 bp):
ATATTTGTAATAAAATAAA
Found at i:10814867 original size:10 final size:8
Alignment explanation
Indices: 10814845--10814878 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
10814835 TTAATTTTCC
10814845 TATAATAA
1 TATAATAA
10814853 TATAATATTA
1 TATAATA--A
10814863 TATAATAA
1 TATAATAA
10814871 TATAATAA
1 TATAATAA
10814879 AATAGTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 16 0.67
10 8 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TATAATAA
Found at i:10817261 original size:459 final size:460
Alignment explanation
Indices: 10816559--10817550 Score: 1108
Period size: 459 Copynumber: 2.1 Consensus size: 460
10816549 TGCATGAAAA
* * *
10816559 AAGAGTTTGGGATGTGCAAAGTGAGATTTCATTGCTATGGAACATGTGATTGAGTTACTCAAAGT
1 AAGAGTTT-GGATGTGCAAA-CGAGATTTCATTGCTATGAAAAATGTGATTGAGTTACTCAAAGT
* *
10816624 AGGAGTTTGCTATTATGAAGTAGGAATTCACATTACTCAGAAAAGGATTTCACTGCTTGGGTGGG
64 AGGAGTTTGCCATTATGAAGTAGG-A---ACATTA-TCAGAAAAGGATCTCACTGCTTGGGTGGG
* * * * ** * *
10816689 AGTAAGATATTGGGTTGGGTGGAGGAAGATTTTATTGCTATGGAATAGGAGTTCGAGTTTAGCAG
124 AG-AAGATATTAGGCTGGGTGGAAGAAGATTTTATTCCTATGGAATAAAAGTTCGAGTTTAACAA
* **
10816754 AGTAGGAGTTCGATTTATGTCATGTAAGATTTCACTAATAAAAAGGAGTTTGGGTTATA-AGGAG
188 AGTAGGAGTTCAAACTATGTCATGTAAGATTTCACTAATAAAAAGGAGTTTGGGTTATAGA-GAG
* * *
10816818 T-AGGATTTCACAATTGTGAAGTAGGAGTTGAAGATGCTTGGAGTAAGATTTAATTATTATGGAG
252 TCA-AATTTCACAATTGTGAAGTAGAAGTTGAAGATGCCTGGAGTAAGATTTAATTATTATGGAG
* * * * * *
10816882 TAGAAGTTTGCATTGTCCAG-AGTAAGATTTATGGAGTAAGAGTTTAGGTTGCACGAAGTAAGAT
316 CAGAAGTTTGCATT-TCCAGAAGTAAGATTTATGGAGCAAGAGCTAAGGCTGCACGAAGCAAGAT
* * * *
10816946 TTCATTATTATGGACCTAGAATTTGGGTTGCATGAAGCAAGAGTTTGAACTAGGCGAAGTAGAAT
380 TTCACTATTATGGACCTAAAATTTGGGTTGCATGAAGCAAGAGTTTGAACAAGACGAAGTAGAAT
*
10817011 ATCATTGTTATGAAGC
445 ATCATTGTTATAAAGC
*
10817027 AAGAGTTTGTGATGTGCAAACCGAGATTTCATTGCTATGAAAAATGTTG-TTGAGTTGCTCAAAG
1 AAGAGTTTG-GATGTGCAAA-CGAGATTTCATTGCTATGAAAAATG-TGATTGAGTTACTCAAAG
* * * * * * *
10817091 TAGGGGTTTGCCATTATTAAGTAGG-A-GTT-TGAGAAAA-GATCTCATTGTTTGGGTGGGA-AT
63 TAGGAGTTTGCCATTATGAAGTAGGAACATTATCAGAAAAGGATCTCACTGCTTGGGTGGGAGAA
*
10817151 GATAGCTTAGGCTGGGTGGAAGAAGATTTTATTCCTATGGAGTAAAAGTTCG-GTTATAACAAAG
128 GATA--TTAGGCTGGGTGGAAGAAGATTTTATTCCTATGGAATAAAAGTTCGAGTT-TAACAAAG
* * ** *
10817215 TAGGAGTTCAAACTATGTCGTGTAAGATTTCATTAATATGAAGGAGTTTGGGTTATGGAGAGTCA
190 TAGGAGTTCAAACTATGTCATGTAAGATTTCACTAATAAAAAGGAGTTTGGGTTATAGAGAGTCA
* * * * * *
10817280 AATTTTACCATTGTGGAGTAGAAGTTGAATATGCCTGGAGTAAGATTTATTTGTTATGGAGCAGA
255 AATTTCACAATTGTGAAGTAGAAGTTGAAGATGCCTGGAGTAAGATTTAATTATTATGGAGCAGA
* ** * * * *
10817345 AGTTTTCATTTCTTGAAGTAGGATTTATGGAGCAAGAGCTAAGGCTGCATGGAGCAATATTTCAC
320 AGTTTGCATTTCCAGAAGTAAGATTTATGGAGCAAGAGCTAAGGCTGCACGAAGCAAGATTTCAC
* * ** * *
10817410 TATTATGGACTTAAAATTTGGGTTGCATGAATCAAGAGTTTGGGCAAGACGAAGTAGGATCTCAT
385 TATTATGGACCTAAAATTTGGGTTGCATGAAGCAAGAGTTTGAACAAGACGAAGTAGAATATCAT
10817475 TGTTATAAAGC
450 TGTTATAAAGC
* * ** *
10817486 AAGTGTTTGGAATATGCCAAACGAGATTTCATTGCTAT-AGAGCATATGATTGAGTTA-TCAAAG
1 AAGAGTTTGG-ATGTG-CAAACGAGATTTCATTGCTATGA-AAAATGTGATTGAGTTACTCAAAG
10817549 TA
63 TA
10817551 CGAATTTATT
Statistics
Matches: 442, Mismatches: 70, Indels: 34
0.81 0.13 0.06
Matches are distributed among these distances:
457 5 0.01
458 18 0.04
459 324 0.73
460 13 0.03
462 2 0.00
463 1 0.00
467 1 0.00
468 76 0.17
469 2 0.00
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (460 bp):
AAGAGTTTGGATGTGCAAACGAGATTTCATTGCTATGAAAAATGTGATTGAGTTACTCAAAGTAG
GAGTTTGCCATTATGAAGTAGGAACATTATCAGAAAAGGATCTCACTGCTTGGGTGGGAGAAGAT
ATTAGGCTGGGTGGAAGAAGATTTTATTCCTATGGAATAAAAGTTCGAGTTTAACAAAGTAGGAG
TTCAAACTATGTCATGTAAGATTTCACTAATAAAAAGGAGTTTGGGTTATAGAGAGTCAAATTTC
ACAATTGTGAAGTAGAAGTTGAAGATGCCTGGAGTAAGATTTAATTATTATGGAGCAGAAGTTTG
CATTTCCAGAAGTAAGATTTATGGAGCAAGAGCTAAGGCTGCACGAAGCAAGATTTCACTATTAT
GGACCTAAAATTTGGGTTGCATGAAGCAAGAGTTTGAACAAGACGAAGTAGAATATCATTGTTAT
AAAGC
Found at i:10830673 original size:12 final size:12
Alignment explanation
Indices: 10830656--10830689 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10830646 TTGAGAGCAT
*
10830656 AAAATAAGAGAG
1 AAAATAAAAGAG
*
10830668 AAAATAAAATAG
1 AAAATAAAAGAG
10830680 AAAATAAAAG
1 AAAATAAAAG
10830690 CAAGATGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (12 bp):
AAAATAAAAGAG
Found at i:10840791 original size:21 final size:22
Alignment explanation
Indices: 10840767--10840807 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
10840757 GAAAAAGAAA
10840767 AAAGAAAAATGAGT-AGAAACG
1 AAAGAAAAATGAGTAAGAAACG
**
10840788 AAAGAATCATGAGTAAGAAA
1 AAAGAAAAATGAGTAAGAAA
10840808 ACATGTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.61, C:0.05, G:0.22, T:0.12
Consensus pattern (22 bp):
AAAGAAAAATGAGTAAGAAACG
Found at i:10848818 original size:18 final size:17
Alignment explanation
Indices: 10848787--10848829 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 17
10848777 AACCAAAACC
10848787 AAATAAAAAAT-AAATA
1 AAATAAAAAATAAAATA
10848803 AAATTAAAAAATTAAAATA
1 AAA-TAAAAAA-TAAAATA
10848822 AAATAAAA
1 AAATAAAA
10848830 TCGTATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.12
17 7 0.29
18 6 0.25
19 8 0.33
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATAAAAAATAAAATA
Found at i:10849173 original size:12 final size:12
Alignment explanation
Indices: 10849156--10849185 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10849146 TTAAGAGCAT
10849156 AAAATAAAAGAG
1 AAAATAAAAGAG
*
10849168 AAAATAAAATAG
1 AAAATAAAAGAG
10849180 AAAATA
1 AAAATA
10849186 CAAGCAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (12 bp):
AAAATAAAAGAG
Found at i:10861908 original size:17 final size:17
Alignment explanation
Indices: 10861858--10861933 Score: 68
Period size: 17 Copynumber: 4.5 Consensus size: 17
10861848 AATAAAGATA
*
10861858 TAAATTTAGTTTTAAA-T
1 TAAATTTA-TTATAAATT
* *
10861875 TAAATTTATTGTGAATT
1 TAAATTTATTATAAATT
10861892 TAAATTTGCA-TA-AAATT
1 TAAATTT--ATTATAAATT
*
10861909 TGAATTTATTATAAATT
1 TAAATTTATTATAAATT
10861926 TAAATTTA
1 TAAATTTA
10861934 AAATTAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
15 1 0.02
16 7 0.15
17 38 0.79
18 1 0.02
19 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (17 bp):
TAAATTTATTATAAATT
Found at i:10863721 original size:162 final size:162
Alignment explanation
Indices: 10863538--10863875 Score: 613
Period size: 162 Copynumber: 2.1 Consensus size: 162
10863528 ACTTTTCAAT
10863538 TTAGTCCTTTGACTATTTGACTGAACCAGAGACTGCCACGTGTCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTATTTGACTGAACCAGAGACTGCCACGTGTCACTTTTTGGCTTATTTATGTA
10863603 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
*
10863668 AATTTGCCCAAAAATTTTTCAAGATTTATAAA
131 AATTAGCCCAAAAATTTTTCAAGATTTATAAA
* * *
10863700 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTA
1 TTAGTCCTTTGACTATTTGACTGAACCAGAGACTGCCACGTGTCACTTTTTGGCTTATTTATGTA
10863765 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
* *
10863830 AATTAGCCCGAGAATTTTTCAAGATTTATAAA
131 AATTAGCCCAAAAATTTTTCAAGATTTATAAA
*
10863862 TTAGTCCTTCGACT
1 TTAGTCCTTTGACT
10863876 TCTGGGTACC
Statistics
Matches: 169, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 169 1.00
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.43
Consensus pattern (162 bp):
TTAGTCCTTTGACTATTTGACTGAACCAGAGACTGCCACGTGTCACTTTTTGGCTTATTTATGTA
TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
AATTAGCCCAAAAATTTTTCAAGATTTATAAA
Found at i:10863982 original size:29 final size:29
Alignment explanation
Indices: 10863949--10864215 Score: 175
Period size: 29 Copynumber: 9.2 Consensus size: 29
10863939 AGACTGTCTA
10863949 AAAATTACCATTTTACCCCTAAACTTTCC
1 AAAATTACCATTTTACCCCTAAACTTTCC
* ** *
10863978 AAAATT-CCATTTTTA-ACCTCGA-TTTCAA
1 AAAATTACCA-TTTTACCCCTAAACTTTC-C
10864006 AAAATTACCATTTTA-CCCTAAACTTTCC
1 AAAATTACCATTTTACCCCTAAACTTTCC
*
10864034 AAAATT-CCATTTTTAACCCC--GA-TTTCACC
1 AAAATTACCA-TTTT-ACCCCTAAACTTT--CC
*
10864063 AAAAATTGCCATTTTATCCCC-AAACTTTCC
1 -AAAATTACCATTTTA-CCCCTAAACTTTCC
* ** **
10864093 AAAATTTCGTTTTTAACCCC--AGTTTTACC
1 AAAATTACCATTTT-ACCCCTAAACTTT-CC
10864122 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATTACCATTTTACCCCTAAACTTTCC
* *
10864152 AAAATT-CCATTTTTAACCC--AAGTTTCATC
1 AAAATTACCA-TTTTACCCCTAAACTTTC--C
*
10864181 AAAAATTACCATTTTACCCCTGAACTTTCC
1 -AAAATTACCATTTTACCCCTAAACTTTCC
10864211 AAAAT
1 AAAAT
10864216 CCTATCTTTA
Statistics
Matches: 188, Mismatches: 24, Indels: 52
0.71 0.09 0.20
Matches are distributed among these distances:
27 16 0.09
28 40 0.21
29 64 0.34
30 48 0.26
31 11 0.06
32 9 0.05
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCTAAACTTTCC
Found at i:10864096 original size:59 final size:59
Alignment explanation
Indices: 10863948--10864302 Score: 456
Period size: 59 Copynumber: 6.1 Consensus size: 59
10863938 TAGACTGTCT
*
10863948 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA--
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
10864005 AAAAATTACCATTTTA-CCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * * *
10864063 AAAAATTGCCATTTTATCCCC-AAACTTTCCAAAATTTCGTTTTTAACCCC-AGTTTTACC
1 AAAAATTACCATTTTA-CCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCACC
* *
10864122 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAA-CCCAAGTTTCATC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCACC
* * *
10864181 AAAAATTACCATTTTACCCCTGAACTTTCCAAAA-TCCTATCTTTAACCCCGGTTAT-ACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCC-ATTTTTAACCCCGATT-TCACC
* ** * * *
10864240 AAAAATCACCATTTTACCCCCCGAACTTTCCAAAATTCAATTTTTAGCCCCGATTTCGCC
1 AAAAATTACCATTTTA-CCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
10864300 AAA
1 AAA
10864303 GTTTCCAAAA
Statistics
Matches: 263, Mismatches: 22, Indels: 23
0.85 0.07 0.07
Matches are distributed among these distances:
56 39 0.15
57 16 0.06
58 26 0.10
59 138 0.52
60 42 0.16
61 2 0.01
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.34
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:10864292 original size:29 final size:28
Alignment explanation
Indices: 10863949--10864292 Score: 160
Period size: 29 Copynumber: 11.8 Consensus size: 28
10863939 AGACTGTCTA
*
10863949 AAAATTACCA-TTTTACCCCTAAACTTTCC
1 AAAATT-CCATTTTTACCCC-GAACTTTCC
* *
10863978 AAAATTCCATTTTTAACCTCG-A-TTTCAA
1 AAAATTCCATTTTT-ACCCCGAACTTTC-C
**
10864006 AAAATTACCA-TTTTACCCTAAACTTTCC
1 AAAATT-CCATTTTTACCCCGAACTTTCC
10864034 AAAATTCCATTTTTAACCCCG-A-TTTCACC
1 AAAATTCCATTTTT-ACCCCGAACTTT--CC
*
10864063 AAAAATTGCCA-TTTTATCCCCAAACTTTCC
1 -AAAATT-CCATTTTTA-CCCCGAACTTTCC
* * **
10864093 AAAATTTCGTTTTTAACCCC-AGTTTTACC
1 AAAATTCCATTTTT-ACCCCGAACTTT-CC
*
10864122 AAAAATTACCA-TTTTACCCCTAAACTTTCC
1 -AAAATT-CCATTTTTACCCC-GAACTTTCC
* *
10864152 AAAATTCCATTTTTAACCC-AAGTTTCATC
1 AAAATTCCATTTTTACCCCGAACTTTC--C
10864181 AAAAATTACCA-TTTTACCCCTGAACTTTCC
1 -AAAATT-CCATTTTTACCCC-GAACTTTCC
* *
10864211 AAAA-TCCTATCTTTAACCCCG--GTTATACC
1 AAAATTCC-AT-TTTTACCCCGAACTT-T-CC
*
10864240 AAAAATCACCA-TTTTACCCCCCGAACTTTCC
1 -AAAAT-TCCATTTTTA--CCCCGAACTTTCC
*
10864271 AAAATTCAATTTTTAGCCCCGA
1 AAAATTCCATTTTTA-CCCCGA
10864293 TTTCGCCAAA
Statistics
Matches: 243, Mismatches: 30, Indels: 84
0.68 0.08 0.24
Matches are distributed among these distances:
27 23 0.09
28 37 0.15
29 79 0.33
30 70 0.29
31 20 0.08
32 12 0.05
33 2 0.01
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.34
Consensus pattern (28 bp):
AAAATTCCATTTTTACCCCGAACTTTCC
Found at i:10876395 original size:51 final size:50
Alignment explanation
Indices: 10876315--10876722 Score: 419
Period size: 51 Copynumber: 8.4 Consensus size: 50
10876305 AAGCCTTCGT
*
10876315 CCCTCTGAAATTGAAGTAAGAGTGAGAAGAAGGACCAACATTATTTTCCTA
1 CCCTCTGAAATTGAAGTAAGAGTG-GAAGAAAGACCAACATTATTTTCCTA
10876366 CCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTTCCTA
1 CCCTCTGAAATTGAAGTAAGAGT-GGAAGAAAGACCAACATTATTTTCCTA
* ** * * *
10876417 TCCTCTTGAAATTGAAGTAA-AGCCG--GATA-A-CAAGC-----CTTCGT-
1 CCCTC-TGAAATTGAAGTAAGAGTGGAAGAAAGACCAA-CATTATTTTCCTA
*
10876458 CCCTCTGAAATTGAAGTAAGAGTGAGAAGAAGGACCAACATTATTTTCCTA
1 CCCTCTGAAATTGAAGTAAGAGTG-GAAGAAAGACCAACATTATTTTCCTA
10876509 CCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTTCCTA
1 CCCTCTGAAATTGAAGTAAGAGT-GGAAGAAAGACCAACATTATTTTCCTA
* ** * * *
10876560 TCCTCTTGAAATTGAAGTAA-AGCCG--GATA-A-CAAGC-----CTTCGT-
1 CCCTC-TGAAATTGAAGTAAGAGTGGAAGAAAGACCAA-CATTATTTTCCTA
*
10876601 CCCTCTGAAATTGAAGTAAGAGTGAGAAGAAGGACCAACATTATTTTCCTA
1 CCCTCTGAAATTGAAGTAAGAGTG-GAAGAAAGACCAACATTATTTTCCTA
10876652 CCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTTCCTA
1 CCCTCTGAAATTGAAGTAAGAGT-GGAAGAAAGACCAACATTATTTTCCTA
*
10876703 TCCTCTTGAAATTGAAGTAA
1 CCCTC-TGAAATTGAAGTAA
10876723 AGCTGGATAA
Statistics
Matches: 295, Mismatches: 30, Indels: 63
0.76 0.08 0.16
Matches are distributed among these distances:
40 28 0.09
41 12 0.04
42 10 0.03
44 4 0.01
45 4 0.01
46 12 0.04
47 4 0.01
48 6 0.02
50 10 0.03
51 160 0.54
52 45 0.15
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (50 bp):
CCCTCTGAAATTGAAGTAAGAGTGGAAGAAAGACCAACATTATTTTCCTA
Found at i:10876471 original size:92 final size:92
Alignment explanation
Indices: 10876360--10876850 Score: 300
Period size: 92 Copynumber: 5.3 Consensus size: 92
10876350 CAACATTATT
10876360 TTCCTACCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTTCCTATCCTCTTG
1 TTCCT-CCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTTCCTATCCTCTTG
*
10876425 AAATTGAAGTAAAGCCGGATAACAAGCC
65 AAATTGAAGTAAAGCAGGATAACAAGCC
* * *
10876453 TTCGTCCCTCTGAAATTGAAGTAAGAGT-GAGAAGAAGGACCAACATTATTTTCCTACCCTC-TG
1 TTCCTCCCTCTGAAATTGAAGTAAGAGTAG-GAAGAAAGACCAACATTATTTTCCTATCCTCTTG
*
10876516 AAATTGAAGTAAGAGTAGGA-AGA-AAGACCAAC
65 AAATTGAAGTAA-AGCAGGATA-ACAAG--C--C
* ** ** *
10876548 ATTATTTTCCTATCCTCTTGAAATTGAAGTAA-AGCCGGATA-ACAAG--C--C-TT-CGTCCCT
1 ------TTCCT-CCCTC-TGAAATTGAAGTAAGAGTAGGA-AGA-AAGACCAACATTATTTTCCT
* **** * * * * **
10876605 CTGAAATTG-AAGTAAGAGTGAGAAGAAGGACCAACATTA-TT
56 ATCCTCTTGAAATTGA-AGT-A-AAGCAGGA-TAACA--AGCC
10876646 TTCCTACCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTTCCTATCCTCTTG
1 TTCCT-CCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTTCCTATCCTCTTG
*
10876711 AAATTGAAGTAAAGCTGGATAACAAGCC
65 AAATTGAAGTAAAGCAGGATAACAAGCC
* * * * * *
10876739 TTCGTCCCTCTGAAATTGAAGTGAGAGTAAGATG-AAG-CACAAGATCA-TTTCCTATCCTCTTG
1 TTCCTCCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGAC-CAACATTATTTTCCTATCCTCTTG
* ** *
10876801 AAATTGAAGTAGAGTTGGATAACAAGTC
65 AAATTGAAGTAAAGCAGGATAACAAGCC
**
10876829 TT--TATCTCTGAAATTGAAGTAA
1 TTCCTCCCTCTGAAATTGAAGTAA
10876851 AAGAAAGATC
Statistics
Matches: 307, Mismatches: 53, Indels: 81
0.70 0.12 0.18
Matches are distributed among these distances:
88 17 0.06
90 43 0.14
91 46 0.15
92 101 0.33
93 10 0.03
94 4 0.01
95 8 0.03
96 3 0.01
97 19 0.06
98 11 0.04
99 8 0.03
100 2 0.01
101 7 0.02
102 9 0.03
103 19 0.06
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (92 bp):
TTCCTCCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTTCCTATCCTCTTGA
AATTGAAGTAAAGCAGGATAACAAGCC
Found at i:10876481 original size:143 final size:143
Alignment explanation
Indices: 10876209--10876815 Score: 1048
Period size: 143 Copynumber: 4.3 Consensus size: 143
10876199 ATCAGATCAA
* * * *
10876209 ACCAACATCATTTTCGT-CCCTCTGAAATTGGAGTAAGAGTAGGAAG---GACCAACATCATTTT
1 ACCAACATTATTTTCCTACCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTT
10876270 CCTATCCTCTTGAAATTGAAGTAAAGCCGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAG
66 CCTATCCTCTTGAAATTGAAGTAAAGCCGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAG
10876335 AGTGAGAAGAAGG
131 AGTGAGAAGAAGG
10876348 ACCAACATTATTTTCCTACCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTT
1 ACCAACATTATTTTCCTACCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTT
10876413 CCTATCCTCTTGAAATTGAAGTAAAGCCGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAG
66 CCTATCCTCTTGAAATTGAAGTAAAGCCGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAG
10876478 AGTGAGAAGAAGG
131 AGTGAGAAGAAGG
10876491 ACCAACATTATTTTCCTACCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTT
1 ACCAACATTATTTTCCTACCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTT
10876556 CCTATCCTCTTGAAATTGAAGTAAAGCCGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAG
66 CCTATCCTCTTGAAATTGAAGTAAAGCCGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAG
10876621 AGTGAGAAGAAGG
131 AGTGAGAAGAAGG
10876634 ACCAACATTATTTTCCTACCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTT
1 ACCAACATTATTTTCCTACCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTT
* *
10876699 CCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTGAG
66 CCTATCCTCTTGAAATTGAAGTAAAGCCGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAG
* * *
10876764 AGTAAGATGAAGC
131 AGTGAGAAGAAGG
* * *
10876777 A-CAAGATCA-TTTCCTATCCTCTTGAAATTGAAGT-AGAGT
1 ACCAACATTATTTTCCTACCCTC-TGAAATTGAAGTAAGAGT
10876816 TGGATAACAA
Statistics
Matches: 451, Mismatches: 12, Indels: 8
0.96 0.03 0.02
Matches are distributed among these distances:
139 15 0.03
140 28 0.06
141 16 0.04
142 18 0.04
143 374 0.83
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (143 bp):
ACCAACATTATTTTCCTACCCTCTGAAATTGAAGTAAGAGTAGGAAGAAAGACCAACATTATTTT
CCTATCCTCTTGAAATTGAAGTAAAGCCGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGTAAG
AGTGAGAAGAAGG
Found at i:10876896 original size:76 final size:76
Alignment explanation
Indices: 10876778--10877236 Score: 771
Period size: 76 Copynumber: 6.1 Consensus size: 76
10876768 AGATGAAGCA
* *
10876778 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
*
10876843 TGAAGTAAAAG
66 TGAAGTAAGAG
* * *
10876854 AAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCT-AAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
10876918 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
10876929 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
10876994 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
10877005 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
10877070 TGAAGTAAGAG
66 TGAAGTAAGAG
10877081 CAAGATCATTTCCTATCCTCTTG-AATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
10877145 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * *
10877156 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTTTTTTTCTCTAAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
10877221 TGAA-TAAGAG
66 TGAAGTAAGAG
10877231 CAAGAT
1 CAAGAT
10877237 GAAGCCTCGA
Statistics
Matches: 368, Mismatches: 13, Indels: 5
0.95 0.03 0.01
Matches are distributed among these distances:
75 158 0.43
76 210 0.57
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (76 bp):
CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
TGAAGTAAGAG
Found at i:10877054 original size:151 final size:151
Alignment explanation
Indices: 10876778--10877236 Score: 796
Period size: 151 Copynumber: 3.0 Consensus size: 151
10876768 AGATGAAGCA
10876778 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
* * * * *
10876843 TGAAGTAAAAGAAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTT
66 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTT
10876908 ATCTCTAAATTGAAGTAAGAG
131 ATCTCTAAATTGAAGTAAGAG
10876929 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
10876994 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTT
66 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTT
*
10877059 ATCTCCGAAATTGAAGTAAGAG
131 ATCT-CTAAATTGAAGTAAGAG
* *
10877081 CAAGATCATTTCCTATCCTCTTG-AATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
*
10877145 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTTTTT
66 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTT
*
10877210 TTCTCTAAAATTGAA-TAAGAG
131 ATCTCT-AAATTGAAGTAAGAG
10877231 CAAGAT
1 CAAGAT
10877237 GAAGCCTCGA
Statistics
Matches: 295, Mismatches: 11, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
150 13 0.04
151 243 0.82
152 39 0.13
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (151 bp):
CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTT
ATCTCTAAATTGAAGTAAGAG
Found at i:10877056 original size:227 final size:226
Alignment explanation
Indices: 10876778--10877236 Score: 767
Period size: 227 Copynumber: 2.0 Consensus size: 226
10876768 AGATGAAGCA
* * *
10876778 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCCGAAAT
* *
10876843 TGAAGTAAAAGAAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTT
66 TGAAGTAAAAGAAAGATCATTTCCTATCCTCTTG-AATTGAAGTAAAGCTGGATAACAAGTCTTT
* *
10876908 ATCTCT-AAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGAT
130 ATCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGAT
*
10876972 AACAAGTCTTTATCTCTGAAATTGAAGTAAGAG
195 AACAAGTCTTTATCTCTAAAATTGAA-TAAGAG
*
10877005 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCCGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCCGAAAT
* *
10877070 TGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAATTGAAGTAAAGCTGGATAACAAGTCTTTA
66 TGAAGTAAAAGAAAGATCATTTCCTATCCTCTTGAATTGAAGTAAAGCTGGATAACAAGTCTTTA
10877135 TCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATA
131 TCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATA
* * *
10877200 TCAAGTTTTTTTCTCTAAAATTGAATAAGAG
196 ACAAGTCTTTATCTCTAAAATTGAATAAGAG
10877231 CAAGAT
1 CAAGAT
10877237 GAAGCCTCGA
Statistics
Matches: 217, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
226 46 0.21
227 171 0.79
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (226 bp):
CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCCGAAAT
TGAAGTAAAAGAAAGATCATTTCCTATCCTCTTGAATTGAAGTAAAGCTGGATAACAAGTCTTTA
TCTCTGAAATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATA
ACAAGTCTTTATCTCTAAAATTGAATAAGAG
Found at i:10877221 original size:38 final size:38
Alignment explanation
Indices: 10876950--10877224 Score: 135
Period size: 38 Copynumber: 7.3 Consensus size: 38
10876940 CCTATCCTCT
* * * * *
10876950 TGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTC
1 TGAAATTGAAGTAAAGCTGGATATCAAGTTTTTTTCTC
* * * *
10876988 TGAAATTGAAGTAAGAGC--AAGATC-A-TTTCCTATCCTC
1 TGAAATTGAAGTAA-AGCTGGATATCAAGTTT--TTTTCTC
* *
10877025 TTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTC
1 -TGAAATTGAAGTAAAGCTGGATATCAAGTTTTTTTCTC
* * * * *
10877064 CGAAATTGAAGTAAGAGC--AAGATC-A-TTTCCTATCCTC
1 TGAAATTGAAGTAA-AGCTGGATATCAAGTTT--TTTTCTC
* * *
10877101 TTG-AATTGAAGTAAAGCTGGATAACAAGTCTTTATCTC
1 -TGAAATTGAAGTAAAGCTGGATATCAAGTTTTTTTCTC
* * * *
10877139 TGAAATTGAAGTAAGAGC--AAGATC-A-TTTCCTATCCTC
1 TGAAATTGAAGTAA-AGCTGGATATCAAGTTT--TTTTCTC
10877176 TTGAAATTGAAGTAAAGCTGGATATCAAGTTTTTTTCTC
1 -TGAAATTGAAGTAAAGCTGGATATCAAGTTTTTTTCTC
*
10877215 TAAAATTGAA
1 TGAAATTGAA
10877225 TAAGAGCAAG
Statistics
Matches: 170, Mismatches: 42, Indels: 50
0.65 0.16 0.19
Matches are distributed among these distances:
35 6 0.04
36 6 0.04
37 41 0.24
38 82 0.48
39 26 0.15
40 4 0.02
41 5 0.03
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (38 bp):
TGAAATTGAAGTAAAGCTGGATATCAAGTTTTTTTCTC
Found at i:10877519 original size:17 final size:16
Alignment explanation
Indices: 10877497--10877586 Score: 54
Period size: 17 Copynumber: 5.3 Consensus size: 16
10877487 AATAAAGATA
10877497 TAAATTTAGTTTTAAAT
1 TAAATTTA-TTTTAAAT
* *
10877514 TAAATTTATTGTGAATT
1 TAAATTTATT-TTAAAT
*** *
10877531 TAAATTTGCATAAAATT
1 TAAATTTATTTTAAA-T
* *
10877548 TGAATTTATTATAAATT
1 TAAATTTATTTTAAA-T
*
10877565 TAAATTTAAATTTAAAT
1 TAAATTT-ATTTTAAAT
10877582 TAAAT
1 TAAAT
10877587 GTCCAAAACT
Statistics
Matches: 54, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
16 5 0.09
17 43 0.80
18 6 0.11
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (16 bp):
TAAATTTATTTTAAAT
Found at i:10877586 original size:5 final size:6
Alignment explanation
Indices: 10877497--10877586 Score: 50
Period size: 6 Copynumber: 15.8 Consensus size: 6
10877487 AATAAAGATA
** * **
10877497 TAAATT TAGTTT TAAA-T TAAATT T--ATT GTGAATT TAAATT TGCA-T
1 TAAATT TAAATT TAAATT TAAATT TAAATT -TAAATT TAAATT TAAATT
* *
10877542 AAAATT TGAATT T--ATT ATAAATT TAAATT TAAATT TAAA-T TAAAT
1 TAAATT TAAATT TAAATT -TAAATT TAAATT TAAATT TAAATT TAAAT
10877587 GTCCAAAACT
Statistics
Matches: 63, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
4 6 0.10
5 14 0.22
6 37 0.59
7 6 0.10
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (6 bp):
TAAATT
Found at i:10879308 original size:30 final size:28
Alignment explanation
Indices: 10879266--10879485 Score: 87
Period size: 29 Copynumber: 7.5 Consensus size: 28
10879256 TAAACTTTCC
10879266 AAAATTCCATTTTTAACCTCGATTTCAAA
1 AAAATTCCATTTTTAACCTCGATTTC-AA
* ** *
10879295 AAAATTACCA-TTTTACCCCTAAACTTTC-C
1 AAAATT-CCATTTTTA-ACCTCGA-TTTCAA
*
10879324 AAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTCCATTTTTAACCTCGATTTCA--A
* * * *
10879354 AAAATTGCCA-TTTTATCCCCAAACTTTC-C
1 AAAATT-CCATTTTTAACCTC-GA-TTTCAA
*
10879383 AAAATTCCATTTTTAACC-CCAGTTTCACCA
1 AAAATTCCATTTTTAACCTCGA-TTTCA--A
* **
10879413 AAAATTACCA-TTTTACCCCTAAACTTTC-A
1 AAAATT-CCATTTTTA-ACCTCGA-TTTCAA
*
10879442 AAAATTCCATTTTTAACC-CAAGTTTCATCA
1 AAAATTCCATTTTTAACCTCGA-TTTCA--A
10879472 AAAATTACCATTTT
1 AAAATT-CCATTTT
10879486 ACCCCTAAAC
Statistics
Matches: 146, Mismatches: 23, Indels: 42
0.69 0.11 0.20
Matches are distributed among these distances:
27 15 0.10
28 15 0.10
29 47 0.32
30 40 0.27
31 20 0.14
32 9 0.06
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAATTCCATTTTTAACCTCGATTTCAA
Found at i:10879386 original size:59 final size:59
Alignment explanation
Indices: 10879236--10879592 Score: 499
Period size: 59 Copynumber: 6.1 Consensus size: 59
10879226 TGGATTGTCT
* *
10879236 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA-A
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
10879294 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
*
10879353 AAAAATTGCCATTTTATCCCC-AAACTTTCCAAAATTCCATTTTTAACCCC-AGTTTCACC
1 AAAAATTACCATTTTA-CCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCACC
* * *
10879412 AAAAATTACCATTTTACCCCTAAACTTTCAAAAATTCCATTTTTAA-CCCAAGTTTCATC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCACC
* * *
10879471 AAAAATTACCATTTTACCCCTAAACTTTCCAAAA-TCCTATCTTTAACCCTGGTTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCC-ATTTTTAACCCCGATTTCACC
* ** * * *
10879530 AAAAATCACCATTTTACCCCCCGAACTTTCCAAAATTCAATTTTTAGCCCCGATTTCGCC
1 AAAAATTACCATTTTA-CCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
10879590 AAA
1 AAA
10879593 GTTTCCAAAA
Statistics
Matches: 269, Mismatches: 21, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
58 67 0.25
59 159 0.59
60 41 0.15
61 2 0.01
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:10879630 original size:38 final size:38
Alignment explanation
Indices: 10879556--10879630 Score: 87
Period size: 38 Copynumber: 2.0 Consensus size: 38
10879546 CCCCCCGAAC
* **
10879556 TTTCCAAAATTCAATTTTTAGCCCCGATTTCGCCAAAG
1 TTTCCAAAATTCAATTTTTAACCCCGATTTAACCAAAG
* ** *
10879594 TTTCCAAAATTCCATTTTTAACCTTGGTTTAACCAAA
1 TTTCCAAAATTCAATTTTTAACCCCGATTTAACCAAA
10879631 AATTACCATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (38 bp):
TTTCCAAAATTCAATTTTTAACCCCGATTTAACCAAAG
Found at i:10885070 original size:17 final size:17
Alignment explanation
Indices: 10885050--10885093 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
10885040 AATCTTGTTA
10885050 AGCTCGCAGTCTTAGTG
1 AGCTCGCAGTCTTAGTG
** *
10885067 AGCTCGCACACTTGGTG
1 AGCTCGCAGTCTTAGTG
*
10885084 AGCTTGCAGT
1 AGCTCGCAGT
10885094 TCACAGTTCG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (17 bp):
AGCTCGCAGTCTTAGTG
Found at i:10887264 original size:19 final size:19
Alignment explanation
Indices: 10887240--10887277 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10887230 GAAAGTTAAT
10887240 AACAAATTTGATTACGGTG
1 AACAAATTTGATTACGGTG
*
10887259 AACAAATTTGATTATGGTG
1 AACAAATTTGATTACGGTG
10887278 GGTGATAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (19 bp):
AACAAATTTGATTACGGTG
Found at i:10889734 original size:51 final size:50
Alignment explanation
Indices: 10889673--10889779 Score: 147
Period size: 43 Copynumber: 2.3 Consensus size: 50
10889663 GCTTATTCAC
*
10889673 AAACGCCGCTAAACTGCTAAAGAACATGATATTTAGCCGTGCTTTTCTCAT
1 AAACGCCGCTAAAC-GCTAAAGAACATGATATTTAGCCGCGCTTTTCTCAT
10889724 AAA---CGC----CGCTAAAGAACATGATATTTAGCCGCGCTTTTCTCAT
1 AAACGCCGCTAAACGCTAAAGAACATGATATTTAGCCGCGCTTTTCTCAT
10889767 AAACGCCGCTAAA
1 AAACGCCGCTAAA
10889780 GAACATGATC
Statistics
Matches: 48, Mismatches: 1, Indels: 15
0.75 0.02 0.23
Matches are distributed among these distances:
43 38 0.79
44 1 0.02
46 3 0.06
48 3 0.06
51 3 0.06
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (50 bp):
AAACGCCGCTAAACGCTAAAGAACATGATATTTAGCCGCGCTTTTCTCAT
Found at i:10889741 original size:43 final size:43
Alignment explanation
Indices: 10889688--10889989 Score: 264
Period size: 43 Copynumber: 7.1 Consensus size: 43
10889678 CCGCTAAACT
*
10889688 GCTAAAGAACATGATATTTAGCCGTGCTTTTCTCATAAACGCC
1 GCTAAAGAACATGATATTTAGCCGTGCTTTTCTCACAAACGCC
* *
10889731 GCTAAAGAACATGATATTTAGCCGCGCTTTTCTCATAAACGCC
1 GCTAAAGAACATGATATTTAGCCGTGCTTTTCTCACAAACGCC
* * *
10889774 GCTAAAGAACATGATCTTTAG-CGTCGCTTTTCCCACAAACCCC
1 GCTAAAGAACATGATATTTAGCCGT-GCTTTTCTCACAAACGCC
* * *
10889817 GCTAAAGAACATGATCTTTAGCGGTGCTTATTC-CACAAACACC
1 GCTAAAGAACATGATATTTAGCCGTGCTT-TTCTCACAAACGCC
* * * * * *
10889860 GCTAAAGACCATG--ATCTCGAC--GCTTTTCCCACAAACACC
1 GCTAAAGAACATGATATTTAGCCGTGCTTTTCTCACAAACGCC
* * * **
10889899 GCTAAAGAACATGATCTTTA-ACGACGCTTATTCT-ACAAATACC
1 GCTAAAGAACATGATATTTAGCCG-TGCTT-TTCTCACAAACGCC
* * *
10889942 GCTAAA-AACCATGATCTTTAG-CGACGCTTTTCCCACAAACGCC
1 GCTAAAGAA-CATGATATTTAGCCG-TGCTTTTCTCACAAACGCC
*
10889985 ACTAA
1 GCTAA
10889990 TATTAACAAA
Statistics
Matches: 222, Mismatches: 24, Indels: 26
0.82 0.09 0.10
Matches are distributed among these distances:
38 3 0.01
39 26 0.12
40 2 0.01
41 5 0.02
42 7 0.03
43 171 0.77
44 8 0.04
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (43 bp):
GCTAAAGAACATGATATTTAGCCGTGCTTTTCTCACAAACGCC
Found at i:10889837 original size:86 final size:87
Alignment explanation
Indices: 10889688--10889981 Score: 356
Period size: 86 Copynumber: 3.5 Consensus size: 87
10889678 CCGCTAAACT
* * * * * *
10889688 GCTAAAGAACATGATATTTAGCCG-TGCTTTTCTCATAAACGCCGCTAAAGAACATGATATTTAG
1 GCTAAAGAACATGATCTTTAG-CGACGCTTTTCCCACAAACACCGCTAAAGAACATGATCTTTAG
* *
10889752 CCGCGCTT-TTCTCATAAACGCC
65 CCGCGCTTATTCTCACAAACACC
* *
10889774 GCTAAAGAACATGATCTTTAGCGTCGCTTTTCCCACAAACCCCGCTAAAGAACATGATCTTTAGC
1 GCTAAAGAACATGATCTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGAACATGATCTTTAGC
* *
10889839 GGTGCTTATTC-CACAAACACC
66 CGCGCTTATTCTCACAAACACC
* *
10889860 GCTAAAGACCATGATC--T--CGACGCTTTTCCCACAAACACCGCTAAAGAACATGATCTTTA-A
1 GCTAAAGAACATGATCTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGAACATGATCTTTAGC
*
10889920 CGACGCTTATTCT-ACAAATACC
66 CG-CGCTTATTCTCACAAACACC
10889942 GCTAAA-AACCATGATCTTTAGCGACGCTTTTCCCACAAAC
1 GCTAAAGAA-CATGATCTTTAGCGACGCTTTTCCCACAAAC
10889982 GCCACTAATA
Statistics
Matches: 181, Mismatches: 18, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
81 2 0.01
82 69 0.38
84 2 0.01
85 2 0.01
86 103 0.57
87 3 0.02
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (87 bp):
GCTAAAGAACATGATCTTTAGCGACGCTTTTCCCACAAACACCGCTAAAGAACATGATCTTTAGC
CGCGCTTATTCTCACAAACACC
Found at i:10892934 original size:17 final size:19
Alignment explanation
Indices: 10892903--10892942 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
10892893 CATAAATAGC
10892903 AATATGATTTCTTTAA-AA
1 AATATGATTTCTTTAATAA
*
10892921 AATAT-ATTTTTTTAATAA
1 AATATGATTTCTTTAATAA
10892939 AATA
1 AATA
10892943 ACATTCACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
AATATGATTTCTTTAATAA
Found at i:10893398 original size:21 final size:23
Alignment explanation
Indices: 10893372--10893414 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
10893362 TATTTTGTAT
*
10893372 CAATTTAA-TCTCAAT-TTTAAA
1 CAATTTAACCCTCAATATTTAAA
10893393 CAATTTAACCCTCAATATTTAA
1 CAATTTAACCCTCAATATTTAA
10893415 TTTTATCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.40
Consensus pattern (23 bp):
CAATTTAACCCTCAATATTTAAA
Found at i:10894410 original size:41 final size:41
Alignment explanation
Indices: 10894365--10894756 Score: 466
Period size: 41 Copynumber: 9.6 Consensus size: 41
10894355 GCTTATGAGA
* * **
10894365 AAGCGCCACTATTGCTCTAACCTTTAGCGGCGCTTTTTCAT
1 AAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTTCCCAT
* * * **
10894406 AAGCGCCGCTATTGATCCGACCTTTAACGGCGCTTGGCCAT
1 AAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTTCCCAT
* **
10894447 AAGCGCCGCTATTGCTTTGACCTTTAGCGGCGCTTGGCCAT
1 AAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTTCCCAT
***
10894488 AAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTATAGGA-
1 AAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTT-TCCCAT
* ** *
10894529 AAGCGCCGCTATTGCTCCGACCTTTAGCAACGCTTTCCCAC
1 AAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTTCCCAT
* *
10894570 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGCTTTCTCAT
1 AAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTTCCCAT
* *
10894611 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGCTTGCCCAT
1 AAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTTCCCAT
* ***
10894652 AAGCGCCGCTATTGCTCTGACCTTTAGCGGCGTTTTTATAT
1 AAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTTCCCAT
* *
10894693 AAGCGCCGCTATTGCTCT-ACCTTTAGCGGCCCTTACCCAT
1 AAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTTCCCAT
* * *
10894733 AAGAGTCGCTATTGCT-TTACCTTT
1 AAGCGCCGCTATTGCTCTGACCTTT
10894757 TGCAGCGTTT
Statistics
Matches: 305, Mismatches: 43, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
39 1 0.00
40 38 0.12
41 265 0.87
42 1 0.00
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.29
Consensus pattern (41 bp):
AAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTTCCCAT
Found at i:10894603 original size:24 final size:24
Alignment explanation
Indices: 10894571--10894680 Score: 77
Period size: 24 Copynumber: 5.2 Consensus size: 24
10894561 CTTTCCCACA
10894571 AGCGCCGCTATTGCTCCGACCTTT
1 AGCGCCGCTATTGCTCCGACCTTT
* *
10894595 AGCGGCGCT-TT-CT-C-A---TA
1 AGCGCCGCTATTGCTCCGACCTTT
10894612 AGCGCCGCTATTGCTCCGACCTTT
1 AGCGCCGCTATTGCTCCGACCTTT
* *
10894636 AGCGGCGC--TTGC-CC-A---TA
1 AGCGCCGCTATTGCTCCGACCTTT
*
10894653 AGCGCCGCTATTGCTCTGACCTTT
1 AGCGCCGCTATTGCTCCGACCTTT
10894677 AGCG
1 AGCG
10894681 GCGTTTTTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 28
0.63 0.09 0.28
Matches are distributed among these distances:
17 17 0.27
18 2 0.03
19 6 0.10
20 4 0.06
21 5 0.08
22 6 0.10
23 2 0.03
24 21 0.33
ACGTcount: A:0.15, C:0.35, G:0.24, T:0.27
Consensus pattern (24 bp):
AGCGCCGCTATTGCTCCGACCTTT
Found at i:10899434 original size:67 final size:67
Alignment explanation
Indices: 10899306--10899467 Score: 180
Period size: 67 Copynumber: 2.4 Consensus size: 67
10899296 ACCTGATCTA
* * * * * *
10899306 CGAGCTCTCCTTTCAAGCTATGTCTGCGAGCTCGCTGTCTTTAAGTGACGTTTGCGAACCCCATC
1 CGAGCTCTCCTTGCGAGCTATGTCTACGAGCTCGCTATCTTCAAGTGACGTTCGCGAACCCCATC
*
10899371 TG
66 CG
* * * ** *
10899373 TGAGCTCTCCTTGCGAGCTATGTCTACGAGCTTGCTATCTTCGAGTGGTGTTCGCGGACCCCATC
1 CGAGCTCTCCTTGCGAGCTATGTCTACGAGCTCGCTATCTTCAAGTGACGTTCGCGAACCCCATC
10899438 CG
66 CG
* * *
10899440 CGAGCTCTCTTTGAGAGCTATCTCTACG
1 CGAGCTCTCCTTGCGAGCTATGTCTACG
10899468 TGCTATCTTG
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
67 78 1.00
ACGTcount: A:0.15, C:0.30, G:0.24, T:0.31
Consensus pattern (67 bp):
CGAGCTCTCCTTGCGAGCTATGTCTACGAGCTCGCTATCTTCAAGTGACGTTCGCGAACCCCATC
CG
Found at i:10902113 original size:40 final size:40
Alignment explanation
Indices: 10902055--10902149 Score: 145
Period size: 40 Copynumber: 2.4 Consensus size: 40
10902045 TGTTTTGTAA
** *
10902055 TTTTGTATTTTTTTTCTTTGAGTGAATGAAAGAGATAAAGC
1 TTTTG-ATTTTTAATCTTTGAGTGAATGAAAGAGATAAAAC
10902096 TTTTGATTTTTAATCTTTGAGTGAATGAAAGAGATAAAAC
1 TTTTGATTTTTAATCTTTGAGTGAATGAAAGAGATAAAAC
*
10902136 TTTTGAGTTTTAAT
1 TTTTGATTTTTAAT
10902150 GTTATGGTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 45 0.90
41 5 0.10
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46
Consensus pattern (40 bp):
TTTTGATTTTTAATCTTTGAGTGAATGAAAGAGATAAAAC
Found at i:10907298 original size:75 final size:75
Alignment explanation
Indices: 10907190--10907342 Score: 297
Period size: 75 Copynumber: 2.0 Consensus size: 75
10907180 TTCATTATTA
10907190 TTAATTCTAGCTTTTAAAACACATCCCCAATGATTTTGTGAAACATCTGTTTTCAAAATCAATTT
1 TTAATTCTAGCTTTTAAAACACATCCCCAATGATTTTGTGAAACATCTGTTTTCAAAATCAATTT
10907255 ATCACTTTGT
66 ATCACTTTGT
*
10907265 TTAATTCTAGCTTTTAAAACACATCCCCAATGATTTTGTGAGACATCTGTTTTCAAAATCAATTT
1 TTAATTCTAGCTTTTAAAACACATCCCCAATGATTTTGTGAAACATCTGTTTTCAAAATCAATTT
10907330 ATCACTTTGT
66 ATCACTTTGT
10907340 TTA
1 TTA
10907343 GGTAAAAAAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.42
Consensus pattern (75 bp):
TTAATTCTAGCTTTTAAAACACATCCCCAATGATTTTGTGAAACATCTGTTTTCAAAATCAATTT
ATCACTTTGT
Found at i:10909961 original size:24 final size:25
Alignment explanation
Indices: 10909934--10909982 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
10909924 CTTCAGGATT
10909934 TATTTC-CTCTTCTTCTTCAAATCA
1 TATTTCACTCTTCTTCTTCAAATCA
*
10909958 TATTTCTAATTCTTCTTCTTCAAAT
1 TATTTC--ACTCTTCTTCTTCAAAT
10909983 GTTTTGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
27 15 0.71
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTTCACTCTTCTTCTTCAAATCA
Found at i:10923207 original size:30 final size:30
Alignment explanation
Indices: 10923173--10923236 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
10923163 CTAAAATTTT
* *
10923173 TAAAAGTGACCAATTCAAAAATATAAA-AAC
1 TAAAAGTGACCAAAT-AAAAATACAAAGAAC
* *
10923203 TAAAATTGATCAAATAAAAATACAAAGAAC
1 TAAAAGTGACCAAATAAAAATACAAAGAAC
10923233 TAAA
1 TAAA
10923237 TCTACAACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.62, C:0.11, G:0.06, T:0.20
Consensus pattern (30 bp):
TAAAAGTGACCAAATAAAAATACAAAGAAC
Found at i:10929725 original size:78 final size:78
Alignment explanation
Indices: 10929632--10929783 Score: 304
Period size: 78 Copynumber: 1.9 Consensus size: 78
10929622 ATCCTTTTAA
10929632 ATTTCAAATACATATATATTTAGAATAAGTTATTTAAAATTCCAGTTTATTTTAAGAGTAAACTA
1 ATTTCAAATACATATATATTTAGAATAAGTTATTTAAAATTCCAGTTTATTTTAAGAGTAAACTA
10929697 TAAAAAAAAAGTC
66 TAAAAAAAAAGTC
10929710 ATTTCAAATACATATATATTTAGAATAAGTTATTTAAAATTCCAGTTTATTTTAAGAGTAAACTA
1 ATTTCAAATACATATATATTTAGAATAAGTTATTTAAAATTCCAGTTTATTTTAAGAGTAAACTA
10929775 TAAAAAAAA
66 TAAAAAAAA
10929784 GTTATTTTTA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (78 bp):
ATTTCAAATACATATATATTTAGAATAAGTTATTTAAAATTCCAGTTTATTTTAAGAGTAAACTA
TAAAAAAAAAGTC
Found at i:10929984 original size:18 final size:18
Alignment explanation
Indices: 10929961--10930003 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
10929951 AGAATAATTT
10929961 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
10929979 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
10929997 TTAATTA
1 TTAATTA
10930004 CAATTGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:10930591 original size:19 final size:17
Alignment explanation
Indices: 10930569--10930603 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
10930559 TGTAGACTAG
10930569 ATTTCTAAATTATTTTTAT
1 ATTTCT-AATT-TTTTTAT
10930588 ATTTCTAATTTTTTTA
1 ATTTCTAATTTTTTTA
10930604 CAATACCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTCTAATTTTTTTAT
Found at i:10931497 original size:8 final size:7
Alignment explanation
Indices: 10931466--10931495 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
10931456 TCAAAAATCA
10931466 GAAAATGG
1 GAAAA-GG
10931474 GAAAAGG
1 GAAAAGG
10931481 GAAAAGG
1 GAAAAGG
10931488 GAAAAGG
1 GAAAAGG
10931495 G
1 G
10931496 GAGCCTGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.43, T:0.03
Consensus pattern (7 bp):
GAAAAGG
Found at i:10936219 original size:27 final size:27
Alignment explanation
Indices: 10936152--10936221 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
10936142 AAAAGTTATA
10936152 ATATATAATT-TAAAAATATATAAAAAC
1 ATATA-AATTATAAAAATATATAAAAAC
* ** *
10936179 TTATAGTTTATAAAAATATATAAATAC
1 ATATAAATTATAAAAATATATAAAAAC
10936206 ATA-AAATTACTAAAAA
1 ATATAAATTA-TAAAAA
10936222 GCACATCTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (27 bp):
ATATAAATTATAAAAATATATAAAAAC
Found at i:10942997 original size:3 final size:3
Alignment explanation
Indices: 10942991--10943032 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
10942981 ATTGAGCAGC
10942991 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10943033 TAATTTTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10950557 original size:21 final size:22
Alignment explanation
Indices: 10950533--10950599 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 22
10950523 AAAAACGCAT
*
10950533 AAAAATAAC-ATCCAAACAAC-
1 AAAAATAACAATCAAAACAACA
* *
10950553 CAAAATAACAATCAAAACAGCA
1 AAAAATAACAATCAAAACAACA
*
10950575 AAAAATAATAAT-AGAAA-AACA
1 AAAAATAACAATCA-AAACAACA
10950596 AAAA
1 AAAA
10950600 TAGCAACAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 8 0.21
21 17 0.45
22 13 0.34
ACGTcount: A:0.70, C:0.16, G:0.03, T:0.10
Consensus pattern (22 bp):
AAAAATAACAATCAAAACAACA
Found at i:10950609 original size:12 final size:12
Alignment explanation
Indices: 10950592--10950625 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10950582 ATAATAGAAA
10950592 AACAAAAATAGC
1 AACAAAAATAGC
* *
10950604 AACAAAAACAGT
1 AACAAAAATAGC
10950616 AACAAAAATA
1 AACAAAAATA
10950626 ACAGCATCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.71, C:0.15, G:0.06, T:0.09
Consensus pattern (12 bp):
AACAAAAATAGC
Found at i:10951449 original size:19 final size:19
Alignment explanation
Indices: 10951418--10951466 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
10951408 TAAAATATAA
* *
10951418 ATTTTGAAATTTTTATAATT
1 ATTTTG-AATTTTAAAAATT
10951438 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
10951457 ATTTTGAATT
1 ATTTTGAATT
10951467 ATTTTGTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:10957240 original size:66 final size:66
Alignment explanation
Indices: 10957134--10957266 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
10957124 TTGATGTCCA
10957134 AACCTAGGGTCCTGTACTATTCTAGGAAGCATCTTGCTAAACCGGGTGGGATGCTTTAACAAGAG
1 AACCTAGGGTCCTGTACTATTCTAGGAAGCATCTTGCTAAACCGGGTGGGATGCTTTAACAAGAG
10957199 T
66 T
10957200 AACCTAGGGTCCTGTACTATTCTAGGAAGCATCTTGCTAAACCGGGTGGGATGCTTTAACAAGAG
1 AACCTAGGGTCCTGTACTATTCTAGGAAGCATCTTGCTAAACCGGGTGGGATGCTTTAACAAGAG
10957265 T
66 T
10957266 A
1 A
10957267 CCAAACCTTA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (66 bp):
AACCTAGGGTCCTGTACTATTCTAGGAAGCATCTTGCTAAACCGGGTGGGATGCTTTAACAAGAG
T
Found at i:10960398 original size:17 final size:17
Alignment explanation
Indices: 10960378--10960411 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10960368 TTCGTTTTAT
10960378 ATTCA-ATTCACATATCA
1 ATTCATATTCA-ATATCA
10960395 ATTCATATTCAATATCA
1 ATTCATATTCAATATCA
10960412 TAATTTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTCATATTCAATATCA
Found at i:10963067 original size:15 final size:15
Alignment explanation
Indices: 10963047--10963077 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10963037 TGATTTATTC
10963047 ATAAAAAAAAAAAAT
1 ATAAAAAAAAAAAAT
*
10963062 ATAAAAAACAAAAAT
1 ATAAAAAAAAAAAAT
10963077 A
1 A
10963078 GGGCCAAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (15 bp):
ATAAAAAAAAAAAAT
Found at i:10975593 original size:87 final size:88
Alignment explanation
Indices: 10975502--10975742 Score: 321
Period size: 87 Copynumber: 2.8 Consensus size: 88
10975492 TCCTTTTACG
*
10975502 GATTAAAGGTCCGATGAC-AAAATTCCTACATTTGTTGCGGATTTTCTATGGCATCGTGAGTTAT
1 GATTAAAGGTCCGATGACGAAAATTCCTGCATTTGTTGCGGATTTTCTATGGCATCGTGAGTTAT
10975566 CAAAATGGGCCTATGATAGTCGA
66 CAAAATGGGCCTATGATAGTCGA
* *
10975589 GATTAAAGGTCCGATGACGAAAA-TCTTGCATTTGTTGTGGATTTTCTATGGCATCGTGAGTTAT
1 GATTAAAGGTCCGATGACGAAAATTCCTGCATTTGTTGCGGATTTTCTATGGCATCGTGAGTTAT
* * *
10975653 TAAATTGGGCCTATGATGGTCGA
66 CAAAATGGGCCTATGATAGTCGA
* * * * * * *
10975676 GATGAAAGGTCCGATGTCGAAAGTTTCC-GC-TTTGTTGCGAATTCTCT-CGACATCGTGAGTTA
1 GATTAAAGGTCCGATGACGAAA-ATTCCTGCATTTGTTGCGGATTTTCTATGGCATCGTGAGTTA
10975738 TCAAA
65 TCAAA
10975743 TGTGAATTGA
Statistics
Matches: 135, Mismatches: 16, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
86 17 0.13
87 110 0.81
88 6 0.04
89 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (88 bp):
GATTAAAGGTCCGATGACGAAAATTCCTGCATTTGTTGCGGATTTTCTATGGCATCGTGAGTTAT
CAAAATGGGCCTATGATAGTCGA
Found at i:10982679 original size:87 final size:87
Alignment explanation
Indices: 10982588--10982772 Score: 264
Period size: 87 Copynumber: 2.1 Consensus size: 87
10982578 TCCTATTACG
* * * *
10982588 GATTAAAGGTCCGATGATGAAAATCTTGCATTTGTTTC-GAATTTTCTATGGCATCGTGAGTTAT
1 GATTAAAGGTCCGATAACGAAAATCCTGCATTTGTTACAG-ATTTTCTATGGCATCGTGAGTTAT
*
10982652 CAAATTGGGCCTGTGACGATCGA
65 CAAATTGGGCCTATGACGATCGA
* *
10982675 GATTAAAGGTCCGATAACGGAAATCCTGCATTTGTTACAGATTTTCTATGGCATCGTGAGTTATT
1 GATTAAAGGTCCGATAACGAAAATCCTGCATTTGTTACAGATTTTCTATGGCATCGTGAGTTATC
* *
10982740 AAATTGGGCCTATGATGGTCGA
66 AAATTGGGCCTATGACGATCGA
*
10982762 GATGAAAGGTC
1 GATTAAAGGTC
10982773 TGGTGTCGGA
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 86 0.99
88 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (87 bp):
GATTAAAGGTCCGATAACGAAAATCCTGCATTTGTTACAGATTTTCTATGGCATCGTGAGTTATC
AAATTGGGCCTATGACGATCGA
Found at i:10986677 original size:10 final size:10
Alignment explanation
Indices: 10986662--10986688 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
10986652 CAGCCCAAAG
10986662 AAAGAAAATA
1 AAAGAAAATA
10986672 AAAGAAAATA
1 AAAGAAAATA
10986682 AAAGAAA
1 AAAGAAA
10986689 GAAAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.07
Consensus pattern (10 bp):
AAAGAAAATA
Found at i:10986708 original size:14 final size:14
Alignment explanation
Indices: 10986672--10986698 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10986662 AAAGAAAATA
10986672 AAAGAAAATAAAAG
1 AAAGAAAATAAAAG
10986686 AAAGAAAATAAAA
1 AAAGAAAATAAAA
10986699 AGGAGAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.07
Consensus pattern (14 bp):
AAAGAAAATAAAAG
Found at i:10997102 original size:85 final size:85
Alignment explanation
Indices: 10996959--10997136 Score: 347
Period size: 85 Copynumber: 2.1 Consensus size: 85
10996949 ATCAGATCAT
*
10996959 TTGGAGGTCGTAGGATATTCTAATTCTGATTTTGTTGGGTGCCAAGATAGTAGGAAATCTACATC
1 TTGGAGGCCGTAGGATATTCTAATTCTGATTTTGTTGGGTGCCAAGATAGTAGGAAATCTACATC
10997024 AGGCTATATTTACCTTTTAC
66 AGGCTATATTTACCTTTTAC
10997044 TTGGAGGCCGTAGGATATTCTAATTCTGATTTTGTTGGGTGCCAAGATAGTAGGAAATCTACATC
1 TTGGAGGCCGTAGGATATTCTAATTCTGATTTTGTTGGGTGCCAAGATAGTAGGAAATCTACATC
10997109 AGGCTATATTTACCTTTTAC
66 AGGCTATATTTACCTTTTAC
10997129 TTGGAGGC
1 TTGGAGGC
10997137 GCTATATCTT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.37
Consensus pattern (85 bp):
TTGGAGGCCGTAGGATATTCTAATTCTGATTTTGTTGGGTGCCAAGATAGTAGGAAATCTACATC
AGGCTATATTTACCTTTTAC
Found at i:10997657 original size:42 final size:42
Alignment explanation
Indices: 10997611--10997739 Score: 258
Period size: 42 Copynumber: 3.1 Consensus size: 42
10997601 TGATCAGAAA
10997611 TGAAGTATTCAGTTTATTCACTCTGTTTTGTTATTGTGATAC
1 TGAAGTATTCAGTTTATTCACTCTGTTTTGTTATTGTGATAC
10997653 TGAAGTATTCAGTTTATTCACTCTGTTTTGTTATTGTGATAC
1 TGAAGTATTCAGTTTATTCACTCTGTTTTGTTATTGTGATAC
10997695 TGAAGTATTCAGTTTATTCACTCTGTTTTGTTATTGTGATAC
1 TGAAGTATTCAGTTTATTCACTCTGTTTTGTTATTGTGATAC
10997737 TGA
1 TGA
10997740 CCTCACTTAA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.22, C:0.12, G:0.17, T:0.50
Consensus pattern (42 bp):
TGAAGTATTCAGTTTATTCACTCTGTTTTGTTATTGTGATAC
Found at i:10998062 original size:6 final size:6
Alignment explanation
Indices: 10998025--10998061 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
10998015 TATATATATA
* *
10998025 TATGTG TATGTG TATGTG TATGTG TGTGTG TGTGTG T
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG T
10998062 GGTCCAAGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.11, C:0.00, G:0.38, T:0.51
Consensus pattern (6 bp):
TATGTG
Found at i:10999155 original size:5 final size:5
Alignment explanation
Indices: 10999145--10999169 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10999135 AATGTGAGTT
10999145 ATTAA ATTAA ATTAA ATTAA ATTAA
1 ATTAA ATTAA ATTAA ATTAA ATTAA
10999170 TTCATCATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTAA
Found at i:11000306 original size:23 final size:24
Alignment explanation
Indices: 11000280--11000335 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
11000270 CTAGGTCAAA
* *
11000280 TAATAAAAATATATAAA-AGAGTT
1 TAATAAAAACAAATAAATAGAGTT
**
11000303 TAATTGAAACAAATAAATAGAGTT
1 TAATAAAAACAAATAAATAGAGTT
11000327 TAACTAAAA
1 TAA-TAAAA
11000336 GATTATTTCT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 13 0.52
24 9 0.36
25 3 0.12
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.29
Consensus pattern (24 bp):
TAATAAAAACAAATAAATAGAGTT
Found at i:11002279 original size:24 final size:23
Alignment explanation
Indices: 11002251--11002304 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
11002241 CTAATAAGAT
11002251 TTTAACTCAAACAAATAAACAGAG
1 TTTAACTCAAACAAAT-AACAGAG
* *
11002275 TTTAATTGAAACAAATAACAGAG
1 TTTAACTCAAACAAATAACAGAG
11002298 TTTAACT
1 TTTAACT
11002305 AAAAGATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.50, C:0.13, G:0.09, T:0.28
Consensus pattern (23 bp):
TTTAACTCAAACAAATAACAGAG
Found at i:11004421 original size:22 final size:21
Alignment explanation
Indices: 11004394--11004448 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
11004384 AGCAATTCTA
11004394 TGCTCTCTGTTCAACACT-TTCG
1 TGCTCTCTGTT-AACACTGTT-G
*
11004416 TTCTCTCTGCTTAACACTGTTG
1 TGCTCTCTG-TTAACACTGTTG
11004438 TGCTCTCTGTT
1 TGCTCTCTGTT
11004449 TAGCATTACG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 2 0.07
22 23 0.79
23 4 0.14
ACGTcount: A:0.11, C:0.29, G:0.15, T:0.45
Consensus pattern (21 bp):
TGCTCTCTGTTAACACTGTTG
Found at i:11008971 original size:31 final size:31
Alignment explanation
Indices: 11008935--11008993 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
11008925 ATCCAATGAC
11008935 TTAAATAAAAACTTTCGAATAGTTTAATAAT
1 TTAAATAAAAACTTTCGAATAGTTTAATAAT
*
11008966 TTAAATGAAAACTTTCGAATAGTTTAAT
1 TTAAATAAAAACTTTCGAATAGTTTAAT
11008994 GACCAATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (31 bp):
TTAAATAAAAACTTTCGAATAGTTTAATAAT
Found at i:11019982 original size:17 final size:14
Alignment explanation
Indices: 11019942--11019984 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 14
11019932 ATCCTTTTAA
11019942 TATTTTAAAATAAT
1 TATTTTAAAATAAT
11019956 TATTTT-AAATACCAT
1 TATTTTAAAATA--AT
11019971 TATATTTAAAATAA
1 TAT-TTTAAAATAA
11019985 AAAATGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
13 5 0.20
14 6 0.24
15 6 0.24
16 3 0.12
17 5 0.20
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTTTAAAATAAT
Found at i:11022091 original size:27 final size:27
Alignment explanation
Indices: 11022061--11022116 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
11022051 TACCAAATTT
11022061 AATTTATTCCACGATTTAAATATTTCA
1 AATTTATTCCACGATTTAAATATTTCA
11022088 AATTTATTCCACGATTTAAATATTTCA
1 AATTTATTCCACGATTTAAATATTTCA
11022115 AA
1 AA
11022117 CATTCATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (27 bp):
AATTTATTCCACGATTTAAATATTTCA
Found at i:11023630 original size:72 final size:70
Alignment explanation
Indices: 11023508--11023645 Score: 240
Period size: 72 Copynumber: 1.9 Consensus size: 70
11023498 TAACATCCTG
*
11023508 AAATTTGGGGTTAGAAGAATTGAGGTTTGTTGGTTGAGTCAAGTGGATTCGATTAGATTCTTATA
1 AAATTTGGGGTTAGAAGAATTGAGGTTTGTTGGTTGAGTCAAGTGAATTCGATTAGATTCTTATA
11023573 ACTTA
66 ACTTA
*
11023578 AAATTTGGTGGGTTAGAAGAATTGAGGTTTGTTGGTTGAGTCGAGTGAATTCGATTAGATTCTTA
1 AAATTT-G-GGGTTAGAAGAATTGAGGTTTGTTGGTTGAGTCAAGTGAATTCGATTAGATTCTTA
11023643 TAA
64 TAA
11023646 TTTCTTTTTG
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
70 6 0.09
71 1 0.02
72 57 0.89
ACGTcount: A:0.28, C:0.05, G:0.28, T:0.38
Consensus pattern (70 bp):
AAATTTGGGGTTAGAAGAATTGAGGTTTGTTGGTTGAGTCAAGTGAATTCGATTAGATTCTTATA
ACTTA
Found at i:11025212 original size:6 final size:6
Alignment explanation
Indices: 11025203--11025264 Score: 74
Period size: 6 Copynumber: 10.7 Consensus size: 6
11025193 GTATTTAGGA
* * * *
11025203 TAAATT TAAATT TAAA-T TAAATT TAAACT TAAACT TAAACT TAAA-A
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
11025249 TAAATT TAAATT TAAA
1 TAAATT TAAATT TAAA
11025265 AACAAATTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
5 9 0.18
6 42 0.82
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (6 bp):
TAAATT
Found at i:11025215 original size:17 final size:17
Alignment explanation
Indices: 11025203--11025264 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
11025193 GTATTTAGGA
11025203 TAAATTTAAATTTAAA-T
1 TAAATTTAAA-TTAAATT
*
11025220 TAAATTTAAACTTAAACT
1 TAAATTTAAA-TTAAATT
* *
11025238 TAAACTTAAAATAAATT
1 TAAATTTAAATTAAATT
11025255 TAAATTTAAA
1 TAAATTTAAA
11025265 AACAAATTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 29 0.74
18 10 0.26
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTAAATT
Found at i:11025240 original size:29 final size:29
Alignment explanation
Indices: 11025203--11025264 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
11025193 GTATTTAGGA
* * *
11025203 TAAATTTAAATTTAAATTAAATTTAAACT
1 TAAACTTAAACTTAAAATAAATTTAAACT
*
11025232 TAAACTTAAACTTAAAATAAATTTAAATT
1 TAAACTTAAACTTAAAATAAATTTAAACT
11025261 TAAA
1 TAAA
11025265 AACAAATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (29 bp):
TAAACTTAAACTTAAAATAAATTTAAACT
Found at i:11025281 original size:18 final size:18
Alignment explanation
Indices: 11025239--11025281 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11025229 ACTTAAACTT
* *
11025239 AAACTT-AAAATAAATTT
1 AAACTTAAAAACAAATTC
*
11025256 AAATTTAAAAACAAATTC
1 AAACTTAAAAACAAATTC
11025274 AAACTTAA
1 AAACTTAA
11025282 GATAAATCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (18 bp):
AAACTTAAAAACAAATTC
Found at i:11025998 original size:209 final size:209
Alignment explanation
Indices: 11025588--11026258 Score: 1087
Period size: 209 Copynumber: 3.2 Consensus size: 209
11025578 TGGTTTGGTA
*
11025588 TCATTGATTTGGT-TTACTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCC
1 TCATTGATTTGGTCTT-CTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCC
* * * * * *
11025652 GTTTCTCTGTACCTCATCAGGAAGATGAATTTGG-CCGCTTCTCAGTATCTCATTAGGAAGCTAA
65 GCTTCTCTGTACCTCATCAGGAAGACGAATTTGGTCCACTTCTTAGTATCTCATCAAGAAGCTAA
11025716 CCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTC
130 CCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTC
11025781 ACTTTGAGCTTGGCT
195 ACTTTGAGCTTGGCT
*
11025796 TCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTTTTTCAATCCG
1 TCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCG
* *
11025861 CTTCTCTGTACCTCATTAGGAAGACGAATTTGGTCTACTTCTTAGTATCTCATCAAGAAGCTAAC
66 CTTCTCTGTACCTCATCAGGAAGACGAATTTGGTCCACTTCTTAGTATCTCATCAAGAAGCTAAC
* *
11025926 CATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGATGGGGTTCGAAGATTTGTTCA
131 CATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCA
11025991 CTTTGAGCTTGGCT
196 CTTTGAGCTTGGCT
*
11026005 TCATTGATTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTTGTTTCAATCCG
1 TCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCG
* *
11026070 CTTCTCTGTACCTCATCAAGAAGACGAATTTGGTCCACTTTTTAGTATCTCATC-AGAAAGCTAA
66 CTTCTCTGTACCTCATCAGGAAGACGAATTTGGTCCACTTCTTAGTATCTCATCAAG-AAGCTAA
*
11026134 CCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGGTTTGCTC
130 CCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTC
* **
11026199 ACTTTGAGCCTGATT
195 ACTTTGAGCTTGGCT
* * * * *
11026214 TCATCGAGTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACC
1 TCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACC
11026259 AGCTCATTAT
Statistics
Matches: 430, Mismatches: 30, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
208 92 0.21
209 338 0.79
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (209 bp):
TCATTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATCCG
CTTCTCTGTACCTCATCAGGAAGACGAATTTGGTCCACTTCTTAGTATCTCATCAAGAAGCTAAC
CATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCA
CTTTGAGCTTGGCT
Found at i:11034627 original size:28 final size:29
Alignment explanation
Indices: 11034556--11034835 Score: 182
Period size: 29 Copynumber: 9.6 Consensus size: 29
11034546 GCAGACGAGA
* * * *
11034556 TAAAAT-GTAATTTTTTGATACACGGGGG
1 TAAAATGGTAATTTTTGGAAACTCGAGGG
* *
11034584 TAAAACGATAATTTTT-GACAACTCGAGGG
1 TAAAATGGTAATTTTTGGA-AACTCGAGGG
*
11034613 TAAAAATGG-AATTTTTGGAAATTCGAGGG
1 T-AAAATGGTAATTTTTGGAAACTCGAGGG
* * *
11034642 TAAAATGGTAATTTTTGGAAATTTGGGGG
1 TAAAATGGTAATTTTTGGAAACTCGAGGG
* *
11034671 TAAAATGGTAATTTTT-GAAAGTTTGAGGG
1 TAAAATGGTAATTTTTGGAAA-CTCGAGGG
* * *
11034700 TCAAATAATGG-AATTTATGGAAATTCAAGGG
1 T--AA-AATGGTAATTTTTGGAAACTCGAGGG
* *
11034731 TAAAATGGTAATTTTTGGAAAGTTTGA-GG
1 TAAAATGGTAATTTTTGGAAA-CTCGAGGG
* * *
11034760 TCAAAAATGG-AATTTTTGGAAATTTGGGGG
1 T--AAAATGGTAATTTTTGGAAACTCGAGGG
** * *
11034790 TAAAAATGG-AATTTTTGGAAGTTCGATGA
1 T-AAAATGGTAATTTTTGGAAACTCGAGGG
11034819 TAAAAATGG-AATTTTTG
1 T-AAAATGGTAATTTTTG
11034836 AAAGTTTAGG
Statistics
Matches: 214, Mismatches: 23, Indels: 29
0.80 0.09 0.11
Matches are distributed among these distances:
28 23 0.11
29 135 0.63
30 25 0.12
31 22 0.10
32 9 0.04
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (29 bp):
TAAAATGGTAATTTTTGGAAACTCGAGGG
Found at i:11034695 original size:29 final size:31
Alignment explanation
Indices: 11034610--11034990 Score: 313
Period size: 29 Copynumber: 12.9 Consensus size: 31
11034600 GACAACTCGA
* *
11034610 GGGTAAAAATGG-AATTTTTGGAAA-TTCGA
1 GGGTAAAAATGGTAATTTTTGGAAAGTTTGG
11034639 GGGT-AAAATGGTAATTTTTGGAAA-TTTGG
1 GGGTAAAAATGGTAATTTTTGGAAAGTTTGG
*
11034668 GGGT-AAAATGGTAATTTTT-GAAAGTTTGA
1 GGGTAAAAATGGTAATTTTTGGAAAGTTTGG
* ***
11034697 GGGTCAAATAATGG-AATTTATGGAAA-TTCAA
1 GGGT-AAA-AATGGTAATTTTTGGAAAGTTTGG
11034728 GGGT-AAAATGGTAATTTTTGGAAAGTTT-G
1 GGGTAAAAATGGTAATTTTTGGAAAGTTTGG
*
11034757 AGGTCAAAAATGG-AATTTTTGGAAA-TTTGG
1 GGGT-AAAAATGGTAATTTTTGGAAAGTTTGG
* *
11034787 GGGTAAAAATGG-AATTTTTGG-AAGTTCGA
1 GGGTAAAAATGGTAATTTTTGGAAAGTTTGG
* * *
11034816 TGATAAAAATGG-AATTTTT-GAAAGTTTAG
1 GGGTAAAAATGGTAATTTTTGGAAAGTTTGG
* * *
11034845 GGGCAAAAAT-GTAATTTTTGAAAAGTTT-A
1 GGGTAAAAATGGTAATTTTTGGAAAGTTTGG
* * **
11034874 GGGTCAAAAT-GTAATTTTTGGGAAGTTTAA
1 GGGTAAAAATGGTAATTTTTGGAAAGTTTGG
* *
11034904 GGGTTAAAAT-GTAA-TTTTGGAAAGTTTAG
1 GGGTAAAAATGGTAATTTTTGGAAAGTTTGG
* * * *
11034933 GTGTCAAAAT-GTAATTTTTAGAAAGTTTAG
1 GGGTAAAAATGGTAATTTTTGGAAAGTTTGG
* * *
11034963 GGGTTAAAAT-GTAATTTTTAGACAGTTT
1 GGGTAAAAATGGTAATTTTTGGAAAGTTT
11034991 AAGGATCTTT
Statistics
Matches: 299, Mismatches: 36, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
28 20 0.07
29 170 0.57
30 78 0.26
31 22 0.07
32 9 0.03
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (31 bp):
GGGTAAAAATGGTAATTTTTGGAAAGTTTGG
Found at i:11034803 original size:59 final size:59
Alignment explanation
Indices: 11034610--11034990 Score: 379
Period size: 58 Copynumber: 6.5 Consensus size: 59
11034600 GACAACTCGA
* *
11034610 GGGTAAAAATGGAATTTTTGGAAA-TTCGAGGGT-AAAATGGTAATTTTTGGAAATTTGG
1 GGGTAAAAATGGAATTTTTGGAAAGTTTGAGGGTCAAAATGG-AATTTTTGGAAATTTAG
* * *
11034668 GGGT-AAAATGGTAATTTTT-GAAAGTTTGAGGGTCAAATAATGGAATTTATGGAAATTCAA
1 GGGTAAAAATGG-AATTTTTGGAAAGTTTGAGGGTC-AA-AATGGAATTTTTGGAAATTTAG
*
11034728 GGGT-AAAATGGTAATTTTTGGAAAGTTTGA-GGTCAAAAATGGAATTTTTGGAAATTTGG
1 GGGTAAAAATGG-AATTTTTGGAAAGTTTGAGGGTC-AAAATGGAATTTTTGGAAATTTAG
* * * *
11034787 GGGTAAAAATGGAATTTTTGG-AAGTTCGATGATAAAAATGGAATTTTT-GAAAGTTTAG
1 GGGTAAAAATGGAATTTTTGGAAAGTTTGAGGGTCAAAATGGAATTTTTGGAAA-TTTAG
* * * * * *
11034845 GGGCAAAAATGTAATTTTTGAAAAGTTT-AGGGTCAAAATGTAATTTTTGGGAAGTTTAA
1 GGGTAAAAATGGAATTTTTGGAAAGTTTGAGGGTCAAAATGGAATTTTT-GGAAATTTAG
* * * *
11034904 GGGTTAAAATGTAA-TTTTGGAAAGTTT-AGGTGTCAAAATGTAATTTTTAGAAAGTTTAG
1 GGGTAAAAATGGAATTTTTGGAAAGTTTGAGG-GTCAAAATGGAATTTTTGGAAA-TTTAG
* * * *
11034963 GGGTTAAAATGTAATTTTTAGACAGTTT
1 GGGTAAAAATGGAATTTTTGGAAAGTTT
11034991 AAGGATCTTT
Statistics
Matches: 277, Mismatches: 31, Indels: 28
0.82 0.09 0.08
Matches are distributed among these distances:
57 15 0.05
58 96 0.35
59 89 0.32
60 62 0.22
61 15 0.05
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (59 bp):
GGGTAAAAATGGAATTTTTGGAAAGTTTGAGGGTCAAAATGGAATTTTTGGAAATTTAG
Found at i:11036753 original size:6 final size:6
Alignment explanation
Indices: 11036744--11036798 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
11036734 GTATTTAGGA
* *
11036744 TAAATT TAAATT TAAA-T TAAATT TAAACT TAAACT TAAA-- TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
11036789 TAAATT TAAA
1 TAAATT TAAA
11036799 AACAAATTCA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
4 4 0.09
5 5 0.11
6 36 0.80
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (6 bp):
TAAATT
Found at i:11036756 original size:17 final size:17
Alignment explanation
Indices: 11036744--11036794 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
11036734 GTATTTAGGA
11036744 TAAATTTAAATTTAAAT
1 TAAATTTAAATTTAAAT
*
11036761 TAAATTTAAACTTAAACT
1 TAAATTTAAATTTAAA-T
11036779 TAAA--TAAATTTAAAT
1 TAAATTTAAATTTAAAT
11036794 T
1 T
11036795 TAAAAACAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 2 0.06
16 9 0.29
17 15 0.48
18 5 0.16
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATTTAAATTTAAAT
Found at i:11036805 original size:22 final size:22
Alignment explanation
Indices: 11036761--11036805 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11036751 AAATTTAAAT
***
11036761 TAAATTTAAACTTAAACTTAAA
1 TAAATTTAAACTTAAAAACAAA
*
11036783 TAAATTTAAATTTAAAAACAAA
1 TAAATTTAAACTTAAAAACAAA
11036805 T
1 T
11036806 TCAAACTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAATTTAAACTTAAAAACAAA
Found at i:11044541 original size:19 final size:19
Alignment explanation
Indices: 11044517--11044557 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
11044507 CTACTAAGGA
**
11044517 AATAATATCTTTTAATTAG
1 AATAATATCTCCTAATTAG
11044536 AATAATATCTCCTAATTAG
1 AATAATATCTCCTAATTAG
11044555 AAT
1 AAT
11044558 CTCTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (19 bp):
AATAATATCTCCTAATTAG
Found at i:11055938 original size:59 final size:60
Alignment explanation
Indices: 11055852--11055986 Score: 173
Period size: 59 Copynumber: 2.2 Consensus size: 60
11055842 TTTTTGACCT
* * * * *
11055852 AATTTGATACCTAAACTTGATACTTTTTTCTAATTTGGTACTTAAAC-TTTTTTGGATTC
1 AATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTAGATTC
* * *
11055911 AATTTGGTACCTGAACTTGACATTTTTTCCTAATTTGGTACCTAAGCTTTTTTTTAGATTC
1 AATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCTAAAC-TTTTTTTAGATTC
*
11055972 AATTTAGTACCTAAA
1 AATTTGGTACCTAAA
11055987 TTTATTAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 40 0.62
61 24 0.38
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (60 bp):
AATTTGGTACCTAAACTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTAGATTC
Found at i:11057301 original size:13 final size:14
Alignment explanation
Indices: 11057283--11057324 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
11057273 AAATCTTAAC
*
11057283 ATATAGTGTACAT-
1 ATATAGTATACATA
11057296 ATATAGTATACATA
1 ATATAGTATACATA
11057310 ATATAG-ATATCATA
1 ATATAGTATA-CATA
11057324 A
1 A
11057325 GTTTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (14 bp):
ATATAGTATACATA
Found at i:11059315 original size:26 final size:27
Alignment explanation
Indices: 11059284--11059432 Score: 90
Period size: 32 Copynumber: 5.2 Consensus size: 27
11059274 AATTTTAATG
11059284 ATTATTATTAAATATAATTTAATAAAA
1 ATTATTATTAAATATAATTTAATAAAA
* *
11059311 A-TATTAATT-AATTTAATTATATTTTAACATA
1 ATTATT-ATTAAATATAATT-TA--ATAA-A-A
11059342 ATTATTATTAAATATAATTTAATAAAATA
1 ATTATTATTAAATATAATTTAAT-AAA-A
* * * *
11059371 ATATATAATTTAATAATATTTTTAAT-ATA
1 AT-TATTATTAAAT-ATA-ATTTAATAAAA
*
11059400 ATTATTATTAAAATATGAA-TTAGTAAAA
1 ATTATTATT-AAATAT-AATTTAATAAAA
11059428 ATTAT
1 ATTAT
11059433 AATATATAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
26 12 0.13
27 10 0.11
28 15 0.16
29 16 0.17
30 13 0.14
31 10 0.11
32 18 0.19
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
ATTATTATTAAATATAATTTAATAAAA
Found at i:11059353 original size:58 final size:59
Alignment explanation
Indices: 11059284--11059438 Score: 201
Period size: 58 Copynumber: 2.6 Consensus size: 59
11059274 AATTTTAATG
* *
11059284 ATTATTATTAAATATAATTTAATAAAAATATTA-ATTAATTTAATTATA-TTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATA-TAATTTAATAATATTTTTAACATA
*
11059342 ATTATTATTAAATATAATTTAAT-AAAATAATATATAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTTTTAACATA
* *
11059400 ATTATTATTAAAATATGAA-TTAGTAAAAATTATAATATA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAAT-ATATA
11059439 TAATATTAGA
Statistics
Matches: 86, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
57 20 0.23
58 42 0.49
59 10 0.12
60 9 0.10
61 5 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTTTTAACATA
Found at i:11059360 original size:32 final size:29
Alignment explanation
Indices: 11059284--11059429 Score: 92
Period size: 29 Copynumber: 5.0 Consensus size: 29
11059274 AATTTTAATG
11059284 ATTATTATTAAATATAATT-TAATAAA-A
1 ATTATTATTAAATATAATTATAATAAATA
* *
11059311 A-TATTAATT-AATTTAATTATATTTTAACATA
1 ATTATT-ATTAAATATAATTATA--ATAA-ATA
11059342 ATTATTATTAAATATAATT-TAATAAAATA
1 ATTATTATTAAATATAATTATAAT-AAATA
* * * *
11059371 ATATATAATTTAATAATATTTTTAAT--ATA
1 AT-TATTATTAAAT-ATAATTATAATAAATA
11059400 ATTATTATTAAAATATGAATTAGTAA-AAAT
1 ATTATTATT-AAATAT-AATTA-TAATAAAT
11059430 TATAATATAT
Statistics
Matches: 91, Mismatches: 11, Indels: 30
0.69 0.08 0.23
Matches are distributed among these distances:
26 12 0.13
27 6 0.07
28 8 0.09
29 20 0.22
30 15 0.16
31 14 0.15
32 16 0.18
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
ATTATTATTAAATATAATTATAATAAATA
Found at i:11059431 original size:25 final size:24
Alignment explanation
Indices: 11059403--11059453 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
11059393 TAATATAATT
*
11059403 ATTATTAAAATATGA-ATTAGTAAAA
1 ATTA-TAAAATATAATATTAG-AAAA
*
11059428 ATTATAATATATAATATTAGAAAA
1 ATTATAAAATATAATATTAGAAAA
11059452 AT
1 AT
11059454 AATATATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (24 bp):
ATTATAAAATATAATATTAGAAAA
Found at i:11075082 original size:8 final size:7
Alignment explanation
Indices: 11075079--11075132 Score: 58
Period size: 8 Copynumber: 7.6 Consensus size: 7
11075069 AAAAAAAGAC
11075079 AAAAAAGG
1 AAAAAA-G
11075087 AAAAAAG
1 AAAAAAG
11075094 AGAAAAAG
1 A-AAAAAG
*
11075102 -AAAAGG
1 AAAAAAG
11075108 AAAAAAG
1 AAAAAAG
11075115 AAGAAAAG
1 AA-AAAAG
11075123 -AAAAAG
1 AAAAAAG
11075129 AAAA
1 AAAA
11075133 GGGTAGGTCG
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 10 0.25
7 13 0.32
8 17 0.43
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:11075092 original size:21 final size:21
Alignment explanation
Indices: 11075079--11075132 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
11075069 AAAAAAAGAC
11075079 AAAAAAGGAAAAAAGAGAAAA
1 AAAAAAGGAAAAAAGAGAAAA
*
11075100 AGAAAAGGAAAAAAGAAGAAAA
1 AAAAAAGGAAAAAAG-AGAAAA
*
11075122 GAAAAA-GAAAA
1 AAAAAAGGAAAA
11075133 GGGTAGGTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 19 0.66
22 10 0.34
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAAAAGGAAAAAAGAGAAAA
Found at i:11075111 original size:27 final size:27
Alignment explanation
Indices: 11075079--11075134 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
11075069 AAAAAAAGAC
11075079 AAAAAAGGAAAAAAGAGAAAAAGAAAAGG
1 AAAAAA-GAAAAAA-AGAAAAAGAAAAGG
*
11075108 AAAAAAGAAGAAAAGAAAAAGAAAAGG
1 AAAAAAGAAAAAAAGAAAAAGAAAAGG
11075135 GTAGGTCGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 14 0.54
28 6 0.23
29 6 0.23
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (27 bp):
AAAAAAGAAAAAAAGAAAAAGAAAAGG
Found at i:11076143 original size:50 final size:50
Alignment explanation
Indices: 11076058--11076233 Score: 221
Period size: 50 Copynumber: 3.5 Consensus size: 50
11076048 ATCTTTTACC
* * *
11076058 CCTAAAGCTG-GGAGGTGTAGATTGAAACTGCAATGGCAAATCTCATACA
1 CCTAAAGCTGTAGAGGAGCAGATTGAAACTGCAATGGCAAATCTCATACA
* * *
11076107 CCTAAAGCTGTGGAGGTGCAGATTGAAA-TCGAAATGGCAAATCTCATACA
1 CCTAAAGCTGTAGAGGAGCAGATTGAAACT-GCAATGGCAAATCTCATACA
* * * * *
11076157 CCTAAAGCTATAGAGGAGCAGAATGAAGCTGCAATGACAAATCTCATTCA
1 CCTAAAGCTGTAGAGGAGCAGATTGAAACTGCAATGGCAAATCTCATACA
*
11076207 CCTAAAGCTGTAGAGGAGAAGATTGAA
1 CCTAAAGCTGTAGAGGAGCAGATTGAA
11076234 GTCACAAGGA
Statistics
Matches: 111, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
49 11 0.10
50 99 0.89
51 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.21
Consensus pattern (50 bp):
CCTAAAGCTGTAGAGGAGCAGATTGAAACTGCAATGGCAAATCTCATACA
Found at i:11076250 original size:50 final size:51
Alignment explanation
Indices: 11076094--11076255 Score: 181
Period size: 50 Copynumber: 3.2 Consensus size: 51
11076084 ACTGCAATGG
* * *
11076094 CAAATCTCATACACCTAAAGCTGTGGAGGTGCAGATTGAAATCGA-AATGG-
1 CAAATCTCATACACCTAAAGCTGTAGAGGAGCAGATTGAAGTCGACAA-GGA
* * *
11076144 CAAATCTCATACACCTAAAGCTATAGAGGAGCAGAATGAAG-CTG-CAATGA
1 CAAATCTCATACACCTAAAGCTGTAGAGGAGCAGATTGAAGTC-GACAAGGA
* *
11076194 CAAATCTCATTCACCTAAAGCTGTAGAGGAGAAGATTGAAGTC-ACAAGGA
1 CAAATCTCATACACCTAAAGCTGTAGAGGAGCAGATTGAAGTCGACAAGGA
* *
11076244 CGAATCTTATAC
1 CAAATCTCATAC
11076256 TCTTGAAGCT
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
49 2 0.02
50 90 0.97
51 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (51 bp):
CAAATCTCATACACCTAAAGCTGTAGAGGAGCAGATTGAAGTCGACAAGGA
Found at i:11076432 original size:80 final size:80
Alignment explanation
Indices: 11076288--11076698 Score: 610
Period size: 80 Copynumber: 5.2 Consensus size: 80
11076278 AGTTACAACC
* * * * * *
11076288 TCCAATCTTTTACCCTAAC-CAAGGGAAAGATTGAAGACCATCCGAACTTTTACCCTGATTATGG
1 TCCAATCTTTTACTCTAACTAAAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGG
11076352 GGCAGATTGAAGAAA
66 GGCAGATTGAAGAAA
* * *
11076367 TCCAGTCTTTTACTCTAACTAGAGGGCAAGATTGAAGACCATCTGATCTTTTACCCCGATCATGG
1 TCCAATCTTTTACTCTAACTAAAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGG
11076432 GGCAGATTGAAGAAA
66 GGCAGATTGAAGAAA
* * * * *
11076447 TCCAATCTTTTACT-TAACTAGAGGGTAAGATTGAAGACCATTCGATTTTTTACCTCGATCATGG
1 TCCAATCTTTTACTCTAACTAAAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGG
*
11076511 GACAGATTGAAGAAA
66 GGCAGATTGAAGAAA
* * * *
11076526 TCCAATCATTTACTCTAACTAAAGGGTAAGATTGAAGGCCATCCAATCTTTTACCCCGATCATGG
1 TCCAATCTTTTACTCTAACTAAAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGG
*
11076591 GGCAGATTGAAAAAA
66 GGCAGATTGAAGAAA
* *
11076606 TCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCATCCAATCTTTTACCCCGATCATGG
1 TCCAATCTTTTACTCTAACTAAAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGG
11076671 GGCAGATTGAAGAAA
66 GGCAGATTGAAGAAA
11076686 TCCAATCTTTTAC
1 TCCAATCTTTTAC
11076699 CCCGATTATG
Statistics
Matches: 300, Mismatches: 30, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
79 89 0.30
80 211 0.70
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (80 bp):
TCCAATCTTTTACTCTAACTAAAGGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATGG
GGCAGATTGAAGAAA
Found at i:11076523 original size:119 final size:121
Alignment explanation
Indices: 11076288--11076859 Score: 497
Period size: 119 Copynumber: 4.8 Consensus size: 121
11076278 AGTTACAACC
** * * ** * ** *
11076288 TCCAATCTTTTACCCTAACCAAGGGAAAGATTGAAGACCATCCGAA-CTTTTACCCTGATTATGG
1 TCCAATCTTTTACCCCGATCATGGGGCAGATTGAAGA-AATCC-AATCTTTTACCCCAACTATGG
* * * *
11076352 GG-CAGATTGAAGA-AATCCAGTCTTTTACTCTAACTAGAGGGCAAGATTGAAGACCA
64 GGTAAGATTGAAGACAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCA
** **
11076408 TCTGATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTA-CTTAACTA-GAGG
1 TCCAATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCCAACTATG-GG
* * * * * * * *
11076471 GTAAGATTGAAGACCATTCGATTTTTTA-CCTCGA-TCATGGG-ACAGATTGAAGA-AA
65 GTAAGATTGAAGACAATCCAATCTTTTACCCT-AACTAAAGGGCA-AGATTGAAGACCA
* * ** * * ** ** *
11076526 TCCAATCATTTACTCTAACTAAAGGGTAAGATTGAAGGCCATCCAATCTTTTACCCCGA-TCATG
1 TCCAATCTTTTACCCCGA-TCATGGGGCAGATTGAA-GAAATCCAATCTTTTACCCCAACT-ATG
* *
11076590 GGG-CAGATTGAA-AAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCA
63 GGGTAAGATTGAAGACAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCA
* *
11076647 TCCAATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCCGATTATGGGG
1 TCCAATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCCAACTATGGGG
*
11076712 T-AGATTGAAG-CAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTAAAGACCA
66 TAAGATTGAAGACAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCA
** * ** **
11076766 TCCAATCTTTTACTTCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCTTAACTAAAGGG
1 TCCAATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCCAACTATGGGG
* * * *
11076831 CAAGATTAAAGACCATCCGATCTTTTACC
66 TAAGATTGAAGACAATCCAATCTTTTACC
11076860 TCGATCATGG
Statistics
Matches: 358, Mismatches: 74, Indels: 39
0.76 0.16 0.08
Matches are distributed among these distances:
117 1 0.00
118 24 0.07
119 193 0.54
120 102 0.28
121 37 0.10
122 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (121 bp):
TCCAATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCCAACTATGGGG
TAAGATTGAAGACAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCA
Found at i:11076577 original size:159 final size:158
Alignment explanation
Indices: 11076288--11076739 Score: 613
Period size: 159 Copynumber: 2.8 Consensus size: 158
11076278 AGTTACAACC
* * *
11076288 TCCAATCTTTTACCCTAACCAAGGGAAAGATTGAAGACCATCCGAACTTTTACCCTGATTATGGG
1 TCCAATCTTTTACCCTAACTAAGGGAAAGATTGAAGACCATCCGATCTTTTACCC-GATCATGGG
* * * * **
11076353 GCAGATTGAAGAAATCCAGTCTTTTACTCTAACTAGAGGGCAAGATTGAAGACCATCTGATCTTT
65 GCAGATTGAAGAAATCCAATCTTTTACTCTAACTAAAGGGTAAGATTGAAGGCCATCCAATCTTT
*
11076418 TACCCCGATCATGGGGCAGATTGAAGAAA
130 TACCCCGATCATGGGGCAGATTGAAAAAA
* * * *
11076447 TCCAATCTTTTA-CTTAACTAGAGGGTAAGATTGAAGACCATTCGATTTTTTACCTCGATCATGG
1 TCCAATCTTTTACCCTAACTA-AGGGAAAGATTGAAGACCATCCGATCTTTTACC-CGATCATGG
* *
11076511 GACAGATTGAAGAAATCCAATCATTTACTCTAACTAAAGGGTAAGATTGAAGGCCATCCAATCTT
64 GGCAGATTGAAGAAATCCAATCTTTTACTCTAACTAAAGGGTAAGATTGAAGGCCATCCAATCTT
11076576 TTACCCCGATCATGGGGCAGATTGAAAAAA
129 TTACCCCGATCATGGGGCAGATTGAAAAAA
* *
11076606 TCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCATCCAATCTTTTACCCCGATCATGG
1 TCCAATCTTTTACCCTAACT-AAGGGAAAGATTGAAGACCATCCGATCTTTTA-CCCGATCATGG
* ** * ** *
11076671 GGCAGATTGAAGAAATCCAATCTTTTACCCCGATTATGGGGT-AGATTGAA-GCAATCCAATCTT
64 GGCAGATTGAAGAAATCCAATCTTTTACTCTAACTAAAGGGTAAGATTGAAGGCCATCCAATCTT
11076734 TTACCC
129 TTACCC
11076740 TAACTAAAGG
Statistics
Matches: 258, Mismatches: 30, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
158 24 0.09
159 154 0.60
160 77 0.30
161 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.28
Consensus pattern (158 bp):
TCCAATCTTTTACCCTAACTAAGGGAAAGATTGAAGACCATCCGATCTTTTACCCGATCATGGGG
CAGATTGAAGAAATCCAATCTTTTACTCTAACTAAAGGGTAAGATTGAAGGCCATCCAATCTTTT
ACCCCGATCATGGGGCAGATTGAAAAAA
Found at i:11076769 original size:80 final size:80
Alignment explanation
Indices: 11076629--11076983 Score: 428
Period size: 80 Copynumber: 4.4 Consensus size: 80
11076619 CCTAACTAAA
* ** ** * *
11076629 GGGCAAGATTGAAGACCATCCAATCTTTTACCCCGA-TCATGGGGC-AGATTGAAGA-AATCCAA
1 GGGC-AGATTGAAGA-AATCCAATCTTTTACCCTAACT-AAAGGGCAAGATTAAAGACCATCCAA
*
11076691 TCTTTTACCCCGATTATG
63 TCTTTTACCCCGATCATG
* *
11076709 GGGTAGATTGAAGCAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTAAAGACCATCCAATCT
1 GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTAAAGACCATCCAATCT
**
11076774 TTTACTTCGATCATG
66 TTTACCCCGATCATG
* * *
11076789 GGGCAGATTGAAGAAATCTAATCTTTTACCTTAACTAAAGGGCAAGATTAAAGACCATCCGATCT
1 GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTAAAGACCATCCAATCT
*
11076854 TTTACCTCGATCATG
66 TTTACCCCGATCATG
* * * * * *
11076869 GGGCAGATTAAAGAAATCCAATCTTTTACCTTAACTAGAGGGCAAGATTGAAGACCATCTAATGT
1 GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTAAAGACCATCCAATCT
*
11076934 TTTACTCCGATCATG
66 TTTACCCCGATCATG
* *
11076949 GGGTAGATTGAAGTAATCCAATCTTTTACCTCTAA
1 GGGCAGATTGAAGAAATCCAATCTTTTACC-CTAA
11076984 ATTTATAAAG
Statistics
Matches: 240, Mismatches: 31, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
78 22 0.09
79 19 0.08
80 196 0.82
81 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (80 bp):
GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTAAAGACCATCCAATCT
TTTACCCCGATCATG
Found at i:11076788 original size:279 final size:278
Alignment explanation
Indices: 11076412--11076978 Score: 859
Period size: 279 Copynumber: 2.0 Consensus size: 278
11076402 AGACCATCTG
* * *
11076412 ATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACTTAACTAGAGGGTAAGA
1 ATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCTAACTAAAGGGCAAGA
* * * *
11076477 TTGAAGACCATTCGATTTTTTACCTCGATCATGGGACAGATTGAAGAAATCCAATCATTTA-CTC
66 TTAAAGACCATCCAATCTTTTACCTCGATCATGGGACAGATTGAAGAAATCCAATCATTTACCT-
* * *
11076541 TAACTAAAGGGTAAGATTGAAGGCCATCCAATCTTTTACCCCGATCATGGGGCAGATTGAAA-AA
130 TAACTAAAGGGCAAGATTAAAGACCATCCAATCTTTTACCCCGATCATGGGGCAGATT-AAAGAA
11076605 ATCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCATCCAATCTTTTACCCCGATCATG
194 ATCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCATCCAATCTTTTACCCCGATCATG
11076670 GGGCAGATTGAAGAAATCCA
259 GGGCAGATTGAAGAAATCCA
* * *
11076690 ATCTTTTACCCCGATTATGGGGTAGATTGAAGCAATCCAATCTTTTACCCTAACTAAAGGGCAAG
1 ATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTA-CCTAACTAAAGGGCAAG
* * * *
11076755 ATTAAAGACCATCCAATCTTTTACTTCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCT
65 ATTAAAGACCATCCAATCTTTTACCTCGATCATGGGACAGATTGAAGAAATCCAATCATTTACCT
* *
11076820 TAACTAAAGGGCAAGATTAAAGACCATCCGATCTTTTACCTCGATCATGGGGCAGATTAAAGAAA
130 TAACTAAAGGGCAAGATTAAAGACCATCCAATCTTTTACCCCGATCATGGGGCAGATTAAAGAAA
* * * * *
11076885 TCCAATCTTTTACCTTAACTAGAGGGCAAGATTGAAGACCATCTAATGTTTTACTCCGATCATGG
195 TCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCATCCAATCTTTTACCCCGATCATGG
* *
11076950 GGTAGATTGAAGTAATCCA
260 GGCAGATTGAAGAAATCCA
11076969 ATCTTTTACC
1 ATCTTTTACC
11076979 TCTAAATTTA
Statistics
Matches: 260, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
278 47 0.18
279 211 0.81
280 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (278 bp):
ATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCTAACTAAAGGGCAAGA
TTAAAGACCATCCAATCTTTTACCTCGATCATGGGACAGATTGAAGAAATCCAATCATTTACCTT
AACTAAAGGGCAAGATTAAAGACCATCCAATCTTTTACCCCGATCATGGGGCAGATTAAAGAAAT
CCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCATCCAATCTTTTACCCCGATCATGGG
GCAGATTGAAGAAATCCA
Found at i:11076801 original size:239 final size:239
Alignment explanation
Indices: 11076288--11076779 Score: 620
Period size: 239 Copynumber: 2.1 Consensus size: 239
11076278 AGTTACAACC
* * * * * * *
11076288 TCCAATCTTTTACCCTAAC-CAAGGGAAAGATTGAAGACCATCCGAA-CTTTTACCCTGATTATG
1 TCCAATCATTTACTCTAACTAAAGGGGAAGATTGAAGGCCATCC-AATCTTTTACCCCGATCATG
* * * * **
11076351 GGGCAGATTGAAGAAATCCAGTCTTTTACTCTAACTAGAGGGCAAGATTGAAGACCATCTGATCT
65 GGGCAGATTGAAAAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCATCCAATCT
**
11076416 TTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACTTAACTAGAGGGTAAGATTGA
130 TTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCAACTAGAGGGTAAGATTGA
* * * * * * * *
11076481 AGACCATTCGATTTTTTACCTCGATCATGGGACAGATTGAAGAAA
195 AGACAATCCAATCTTTTACCTCAATAAAGGGACAGATTAAAGAAA
*
11076526 TCCAATCATTTACTCTAACTAAAGGGTAAGATTGAAGGCCATCCAATCTTTTACCCCGATCATGG
1 TCCAATCATTTACTCTAACTAAAGGGGAAGATTGAAGGCCATCCAATCTTTTACCCCGATCATGG
11076591 GGCAGATTGAAAAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCATCCAATCTT
66 GGCAGATTGAAAAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCATCCAATCTT
* *
11076656 TTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCCGATTATG-GGGT-AGATTG
131 TTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTA-CCCAACTA-GAGGGTAAGATTG
*
11076719 AAG-CAATCCAATCTTTTACC-CTAACTAAAGGG-CAAGATTAAAGACCA
194 AAGACAATCCAATCTTTTACCTC-AA-TAAAGGGAC-AGATTAAAGA-AA
*
11076766 TCCAATCTTTTACT
1 TCCAATCATTTACT
11076780 TCGATCATGG
Statistics
Matches: 219, Mismatches: 27, Indels: 14
0.84 0.10 0.05
Matches are distributed among these distances:
237 1 0.00
238 34 0.16
239 161 0.74
240 22 0.10
241 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (239 bp):
TCCAATCATTTACTCTAACTAAAGGGGAAGATTGAAGGCCATCCAATCTTTTACCCCGATCATGG
GGCAGATTGAAAAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCATCCAATCTT
TTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCAACTAGAGGGTAAGATTGAA
GACAATCCAATCTTTTACCTCAATAAAGGGACAGATTAAAGAAA
Found at i:11076977 original size:199 final size:198
Alignment explanation
Indices: 11076509--11076921 Score: 594
Period size: 199 Copynumber: 2.1 Consensus size: 198
11076499 CCTCGATCAT
* * * * * *
11076509 GGGACAGATTGAAGAAATCCAATCATTTACTCTAACTAAAGGGTAAGATTGAAGGCCATCCAATC
1 GGGA-AGATTGAAGCAATCCAATCTTTTACCCTAACTAAAGGGCAAGATT-AAAGACATCCAATC
11076574 TTTTACCCCGATCATGGGGCAGATTGAAAAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATT
64 TTTTACCCCGATCATGGGGCAGATTGAAAAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATT
* * *
11076639 GAAGACCATCCAATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCCGA
129 AAAGACCATCCAATCTTTTACCCCGATCATGGGGCAGATTAAAGAAATCCAATCTTTTACCCCAA
*
11076704 TTATG
194 CTATG
*
11076709 GGGTAGATTGAAGCAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTAAAGACCATCCAATCT
1 GGGAAGATTGAAGCAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTAAAGA-CATCCAATCT
** * * *
11076774 TTTACTTCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCTTAACTAAAGGGCAAGATTA
65 TTTACCCCGATCATGGGGCAGATTGAAAAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTA
* * **
11076839 AAGACCATCCGATCTTTTACCTCGATCATGGGGCAGATTAAAGAAATCCAATCTTTTACCTTAAC
130 AAGACCATCCAATCTTTTACCCCGATCATGGGGCAGATTAAAGAAATCCAATCTTTTACCCCAAC
11076904 TA-G
195 TATG
11076907 AGGGCAAGATTGAAG
1 -GGG-AAGATTGAAG
11076922 ACCATCTAAT
Statistics
Matches: 189, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
198 4 0.02
199 173 0.92
200 12 0.06
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (198 bp):
GGGAAGATTGAAGCAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTAAAGACATCCAATCTT
TTACCCCGATCATGGGGCAGATTGAAAAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTAA
AGACCATCCAATCTTTTACCCCGATCATGGGGCAGATTAAAGAAATCCAATCTTTTACCCCAACT
ATG
Found at i:11079031 original size:19 final size:19
Alignment explanation
Indices: 11079009--11079046 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
11078999 TTATATCGAG
11079009 TAAAAA-ATTAAAATGATTA
1 TAAAAATATTAAAAT-ATTA
*
11079028 TAAAAATTTTAAAATATTA
1 TAAAAATATTAAAATATTA
11079047 AATATAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
TAAAAATATTAAAATATTA
Found at i:11079047 original size:28 final size:27
Alignment explanation
Indices: 11079009--11079064 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
11078999 TTATATCGAG
*
11079009 TAAAAAATTAAA-ATGATTATAAAAATTT
1 TAAAAAATTAAATAT-A-AATAAAAATTT
*
11079037 TAAAATATTAAATATAAATAAAAATTT
1 TAAAAAATTAAATATAAATAAAAATTT
11079064 T
1 T
11079065 CAATAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.44
28 12 0.48
29 2 0.08
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (27 bp):
TAAAAAATTAAATATAAATAAAAATTT
Found at i:11079049 original size:27 final size:28
Alignment explanation
Indices: 11079009--11079064 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
11078999 TTATATCGAG
*
11079009 TAAAAAATTAAAATGAT-TATAAAAATTT
1 TAAAAAATTAAAAT-ATAAATAAAAATTT
*
11079037 TAAAATATT-AAATATAAATAAAAATTT
1 TAAAAAATTAAAATATAAATAAAAATTT
11079064 T
1 T
11079065 CAATAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.08
27 15 0.60
28 8 0.32
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (28 bp):
TAAAAAATTAAAATATAAATAAAAATTT
Found at i:11079416 original size:19 final size:21
Alignment explanation
Indices: 11079377--11079418 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
11079367 TTATAATATT
11079377 AAAAATAAAAATAAATGTATAA
1 AAAAATAAAAAT-AATGTATAA
11079399 AAAAATAAAAAT-AT-TATAA
1 AAAAATAAAAATAATGTATAA
11079418 A
1 A
11079419 TACAAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
22 12 0.60
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAAATAAAAATAATGTATAA
Found at i:11081945 original size:28 final size:28
Alignment explanation
Indices: 11081898--11082280 Score: 368
Period size: 28 Copynumber: 13.7 Consensus size: 28
11081888 TAGTTCTTAC
*
11081898 GGACTCTTTCTTGAAAGATAGTCCATGT
1 GGACTCTTGCTTGAAAGATAGTCCATGT
* *
11081926 GGATTCTTGCTT-AAACGATAGTCGATGT
1 GGACTCTTGCTTGAAA-GATAGTCCATGT
*
11081954 GGACTCTTGCTTG-AAGAATAGTCCATGC
1 GGACTCTTGCTTGAAAG-ATAGTCCATGT
* * *
11081982 GGACTCTTGCTTGAAAGATAGCCCGTAT
1 GGACTCTTGCTTGAAAGATAGTCCATGT
* * *
11082010 AGACTCTTGCTTGTAAGATAATCCATGT
1 GGACTCTTGCTTGAAAGATAGTCCATGT
* *
11082038 TGACTCTTGCTCG-AAGAATAGTCTC-TGT
1 GGACTCTTGCTTGAAAG-ATAGTC-CATGT
* *
11082066 AGACACTTGCTTGAAAGATAGTCCATGT
1 GGACTCTTGCTTGAAAGATAGTCCATGT
* * *
11082094 GGACTCTTACTTGAAAGATAATCCATGC
1 GGACTCTTGCTTGAAAGATAGTCCATGT
* ** *
11082122 AGACTCTTTTTTGTAAGATAGTCCATGCT
1 GGACTCTTGCTTGAAAGATAGTCCATG-T
*
11082151 -GATTCTTGCTTG-AAGAATAGTCCAT-T
1 GGACTCTTGCTTGAAAG-ATAGTCCATGT
* *
11082177 CGAACTCTTGCTTGAAAGATAGTCCATGC
1 -GGACTCTTGCTTGAAAGATAGTCCATGT
* *
11082206 GGACACTTGCTTG-AAGAATAGTCCATGC
1 GGACTCTTGCTTGAAAG-ATAGTCCATGT
* * *
11082234 GAACTCTTGGTTGAAAGATAGTCCATGA
1 GGACTCTTGCTTGAAAGATAGTCCATGT
*
11082262 AGACTCTTGCTTGAAAGAT
1 GGACTCTTGCTTGAAAGAT
11082281 TCATGGATAA
Statistics
Matches: 291, Mismatches: 48, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
26 1 0.00
27 14 0.05
28 263 0.90
29 13 0.04
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (28 bp):
GGACTCTTGCTTGAAAGATAGTCCATGT
Found at i:11082043 original size:84 final size:84
Alignment explanation
Indices: 11081897--11082280 Score: 411
Period size: 84 Copynumber: 4.6 Consensus size: 84
11081887 TTAGTTCTTA
* * * * * * *
11081897 CGGACTCTTTCTTGAAAGATAGTCCATGTGGATTCTTGCTT-AAACGATAGTCGATGTGGACTCT
1 CGGACTCTTGCTTGAAAGATAGTCCATATAGACTCTTGCTTGAAA-GATAATCCATGCGGACTCT
11081961 TGCTTGAAGAATAGTCCATG
65 TGCTTGAAGAATAGTCCATG
* * * **
11081981 CGGACTCTTGCTTGAAAGATAGCCCGTATAGACTCTTGCTTGTAAGATAATCCATGTTGACTCTT
1 CGGACTCTTGCTTGAAAGATAGTCCATATAGACTCTTGCTTGAAAGATAATCCATGCGGACTCTT
*
11082046 GCTCGAAGAATAGTCTC-TG
66 GCTTGAAGAATAGTC-CATG
** * * * * *
11082065 TAGACACTTGCTTGAAAGATAGTCCATGTGGACTCTTACTTGAAAGATAATCCATGCAGACTCTT
1 CGGACTCTTGCTTGAAAGATAGTCCATATAGACTCTTGCTTGAAAGATAATCCATGCGGACTCTT
**
11082130 TTTTGTAAG-ATAGTCCATG
66 GCTTG-AAGAATAGTCCATG
* * * * *
11082149 CTGATTCTTGCTTG-AAGAATAGTCCAT-TCGAACTCTTGCTTGAAAGATAGTCCATGCGGACAC
1 CGGACTCTTGCTTGAAAG-ATAGTCCATATAG-ACTCTTGCTTGAAAGATAATCCATGCGGACTC
11082212 TTGCTTGAAGAATAGTCCATG
64 TTGCTTGAAGAATAGTCCATG
* *
11082233 CGAACTCTTGGTTGAAAGATAGTCCATGA-AGACTCTTGCTTGAAAGAT
1 CGGACTCTTGCTTGAAAGATAGTCCAT-ATAGACTCTTGCTTGAAAGAT
11082281 TCATGGATAA
Statistics
Matches: 249, Mismatches: 41, Indels: 20
0.80 0.13 0.06
Matches are distributed among these distances:
83 9 0.04
84 230 0.92
85 10 0.04
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (84 bp):
CGGACTCTTGCTTGAAAGATAGTCCATATAGACTCTTGCTTGAAAGATAATCCATGCGGACTCTT
GCTTGAAGAATAGTCCATG
Found at i:11082454 original size:37 final size:37
Alignment explanation
Indices: 11082413--11082554 Score: 144
Period size: 37 Copynumber: 3.8 Consensus size: 37
11082403 CCTTCAACGA
11082413 ACCGTCATAACTTGAAACATAAGGACAAGTCCAACAG
1 ACCGTCATAACTTGAAACATAAGGACAAGTCCAACAG
* * * * *
11082450 ACCGTCATAACTTGGAACATGAGGA-AAATTCAAGCGG
1 ACCGTCATAACTTGAAACATAAGGACAAGTCCAA-CAG
* * * *
11082487 ACCGTTATAACTTGGAACATGAGGACAAGTCCAACTG
1 ACCGTCATAACTTGAAACATAAGGACAAGTCCAACAG
* * *
11082524 ACTGCCATAACTTGAATCATGAA-GACAAGTC
1 ACCGTCATAACTTGAAACAT-AAGGACAAGTC
11082555 TAGTGGACTG
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
36 6 0.07
37 74 0.85
38 7 0.08
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (37 bp):
ACCGTCATAACTTGAAACATAAGGACAAGTCCAACAG
Found at i:11082570 original size:37 final size:36
Alignment explanation
Indices: 11082413--11082574 Score: 132
Period size: 37 Copynumber: 4.4 Consensus size: 36
11082403 CCTTCAACGA
*
11082413 ACCGTCATAACTTGAAACAT-AAGGACAAGTCCAA-CAG
1 ACCGTCATAACTTG-AACATGAA-GACAAGT-CAAGCGG
* * *
11082450 ACCGTCATAACTTGGAACATGAGGAAAATTCAAGCGG
1 ACCGTCATAACTT-GAACATGAAGACAAGTCAAGCGG
* * *
11082487 ACCGTTATAACTTGGAACATGAGGACAAGTCCAA-CTG
1 ACCGTCATAACTT-GAACATGAAGACAAGT-CAAGCGG
* * * *
11082524 ACTGCCATAACTTGAATCATGAAGACAAGTCTAGTGG
1 ACCGTCATAACTTGAA-CATGAAGACAAGTCAAGCGG
*
11082561 ACTGTCATAACTTG
1 ACCGTCATAACTTG
11082575 TGTATGCCCA
Statistics
Matches: 103, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
36 8 0.08
37 90 0.87
38 5 0.05
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (36 bp):
ACCGTCATAACTTGAACATGAAGACAAGTCAAGCGG
Found at i:11082571 original size:74 final size:74
Alignment explanation
Indices: 11082413--11082574 Score: 200
Period size: 74 Copynumber: 2.2 Consensus size: 74
11082403 CCTTCAACGA
* *
11082413 ACCGTCATAACTTGAAACATAAGGACAAGTCCAACAGACCGTCATAACTTGGAACATGAGGAAAA
1 ACCGTCATAACTTGAAACATAAGGACAAGTCCAACAGACCGCCATAACTTGGAACATGAAGAAAA
*
11082478 TTCAAGCGG
66 GTCAAGCGG
* * * * * *
11082487 ACCGTTATAACTTGGAACATGAGGACAAGTCCAACTGACTGCCATAACTT-GAATCATGAAGACA
1 ACCGTCATAACTTGAAACATAAGGACAAGTCCAACAGACCGCCATAACTTGGAA-CATGAAGAAA
* *
11082551 AGTCTAGTGG
65 AGTCAAGCGG
*
11082561 ACTGTCATAACTTG
1 ACCGTCATAACTTG
11082575 TGTATGCCCA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
73 3 0.04
74 71 0.96
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (74 bp):
ACCGTCATAACTTGAAACATAAGGACAAGTCCAACAGACCGCCATAACTTGGAACATGAAGAAAA
GTCAAGCGG
Found at i:11085020 original size:16 final size:18
Alignment explanation
Indices: 11084994--11085029 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
11084984 TTTCATAATT
11084994 ATTTCTAAAAAAA-AAAA
1 ATTTCTAAAAAAATAAAA
11085011 ATTT-TAAAAAAATAAAA
1 ATTTCTAAAAAAATAAAA
11085028 AT
1 AT
11085030 AATCAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
ATTTCTAAAAAAATAAAA
Found at i:11085125 original size:20 final size:21
Alignment explanation
Indices: 11085100--11085139 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11085090 TATTTTCACG
11085100 ATTTTAAAT-ATAAAATATTT
1 ATTTTAAATCATAAAATATTT
*
11085120 ATTTTATATCATAAAATATT
1 ATTTTAAATCATAAAATATT
11085140 AAAATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTTAAATCATAAAATATTT
Found at i:11085522 original size:99 final size:99
Alignment explanation
Indices: 11085351--11085548 Score: 396
Period size: 99 Copynumber: 2.0 Consensus size: 99
11085341 AGACTAACCA
11085351 TACCGTACGGATGCATACCGTTATCCACTATTCACACCCAAGTCCAAGTACCATTGCTGACCAGA
1 TACCGTACGGATGCATACCGTTATCCACTATTCACACCCAAGTCCAAGTACCATTGCTGACCAGA
11085416 AGCCAAATAAAGAGATGAAATGCAATTGTCTGAC
66 AGCCAAATAAAGAGATGAAATGCAATTGTCTGAC
11085450 TACCGTACGGATGCATACCGTTATCCACTATTCACACCCAAGTCCAAGTACCATTGCTGACCAGA
1 TACCGTACGGATGCATACCGTTATCCACTATTCACACCCAAGTCCAAGTACCATTGCTGACCAGA
11085515 AGCCAAATAAAGAGATGAAATGCAATTGTCTGAC
66 AGCCAAATAAAGAGATGAAATGCAATTGTCTGAC
11085549 CTATAAATCG
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (99 bp):
TACCGTACGGATGCATACCGTTATCCACTATTCACACCCAAGTCCAAGTACCATTGCTGACCAGA
AGCCAAATAAAGAGATGAAATGCAATTGTCTGAC
Found at i:11088991 original size:24 final size:24
Alignment explanation
Indices: 11088960--11089023 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
11088950 TAAAGTGTAC
11088960 ATAATAAAATTAAAATGTA-TTAAA
1 ATAATAAAATTAAAATGTAGTT-AA
*
11088984 ATAATAAAA-TAAAACTTTAGTTAA
1 ATAATAAAATTAAAA-TGTAGTTAA
* *
11089008 ATGATAAATTTAAAAT
1 ATAATAAAATTAAAAT
11089024 TTTGCTAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 5 0.15
24 22 0.65
25 7 0.21
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (24 bp):
ATAATAAAATTAAAATGTAGTTAA
Found at i:11089422 original size:22 final size:22
Alignment explanation
Indices: 11089387--11089445 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
11089377 TAAAAATACT
* *
11089387 AAAATTTTTATTTAATCAT-TTA
1 AAAATTATAATTTAAT-ATCTTA
* *
11089409 AAAATTATATTTTACTATCTTA
1 AAAATTATAATTTAATATCTTA
11089431 AAAATTATAATTTAA
1 AAAATTATAATTTAA
11089446 GTTCGGTCTC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATTATAATTTAATATCTTA
Found at i:11091402 original size:29 final size:30
Alignment explanation
Indices: 11091314--11091565 Score: 296
Period size: 30 Copynumber: 8.4 Consensus size: 30
11091304 ATTTTCTTTA
* * * **
11091314 AAAATCACATTTTGACCCTTTAAGTGCTCC
1 AAAATCACATTTTCACCCTTAAACTTTTCC
* *
11091344 AAAATTACATTTTGACCCCTT-AACTTTTCC
1 AAAATCACATTTTCA-CCCTTAAACTTTTCC
11091374 AAAATCACATTTTCACCC-TAAACTTTTCC
1 AAAATCACATTTTCACCCTTAAACTTTTCC
* * * *
11091403 AAAATTACATTTTGACCCATAAATTTTTCCC
1 AAAATCACATTTTCACCCTTAAACTTTT-CC
*
11091434 AAAATCACATTTTTACCCTTAAACTTTT-C
1 AAAATCACATTTTCACCCTTAAACTTTTCC
* *
11091463 AAAATCATATTTTCACCC-TAAAATTTTCC
1 AAAATCACATTTTCACCCTTAAACTTTTCC
* *
11091492 AAAATTACATTTTCACCCCTAAACTTTTCC
1 AAAATCACATTTTCACCCTTAAACTTTTCC
11091522 AAAATCACATTTTCACCCTTAAAACTTTTCC
1 AAAATCACATTTTCACCCTT-AAACTTTTCC
*
11091553 AAAATTACATTTT
1 AAAATCACATTTT
11091566 GACCTCAAAA
Statistics
Matches: 193, Mismatches: 22, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
28 9 0.05
29 62 0.32
30 69 0.36
31 53 0.27
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.38
Consensus pattern (30 bp):
AAAATCACATTTTCACCCTTAAACTTTTCC
Found at i:11091414 original size:89 final size:89
Alignment explanation
Indices: 11091314--11091596 Score: 338
Period size: 89 Copynumber: 3.1 Consensus size: 89
11091304 ATTTTCTTTA
* * * * ** * *
11091314 AAAATCACATTTTGACCCTTTAAGTGCTCCAAAATTACATTTTGACCCCTT-AACTTTTCCAAAA
1 AAAATTACATTTTGACCCATAAACTTTTCCAAAATCACATTTTCA-CCCTTAAACTTTTCCAAAA
*
11091378 TCACATTTTCACCCTAAACTTTTCC
65 TCACATTTTCACCCTAAAATTTTCC
* *
11091403 AAAATTACATTTTGACCCATAAATTTTTCCCAAAATCACATTTTTACCCTTAAACTTTT-CAAAA
1 AAAATTACATTTTGACCCATAAACTTTT-CCAAAATCACATTTTCACCCTTAAACTTTTCCAAAA
*
11091467 TCATATTTTCACCCTAAAATTTTCC
65 TCACATTTTCACCCTAAAATTTTCC
* *
11091492 AAAATTACATTTTCACCCCTAAACTTTTCCAAAATCACATTTTCACCCTTAAAACTTTTCCAAAA
1 AAAATTACATTTTGACCCATAAACTTTTCCAAAATCACATTTTCACCCTT-AAACTTTTCCAAAA
* * *
11091557 TTACATTTTGA-CCTCAAAATTCTCC
65 TCACATTTTCACCCT-AAAATTTTCC
11091582 AAAATTTACCATTTT
1 AAAA-TTA-CATTTT
11091597 TCGCCCGAAC
Statistics
Matches: 169, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
88 21 0.12
89 91 0.54
90 48 0.28
91 3 0.02
92 6 0.04
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (89 bp):
AAAATTACATTTTGACCCATAAACTTTTCCAAAATCACATTTTCACCCTTAAACTTTTCCAAAAT
CACATTTTCACCCTAAAATTTTCC
Found at i:11091595 original size:31 final size:29
Alignment explanation
Indices: 11091341--11091596 Score: 205
Period size: 29 Copynumber: 8.6 Consensus size: 29
11091331 CTTTAAGTGC
* * * *
11091341 TCCAAAATTACATTTTGACCCCTTAACTTT
1 TCCAAAATTACATTTTCACCTC-AAAATTT
* *
11091371 TCCAAAATCACATTTTCACC-CTAAACTTT
1 TCCAAAATTACATTTTCACCTC-AAAATTT
*
11091400 TCCAAAATTACATTTTGACC-CATAAATTTT
1 TCCAAAATTACATTTTCACCTCA-AAA-TTT
* * * *
11091430 TCCCAAAATCACATTTTTACCCTTAAACTTT
1 T-CCAAAATTACATTTTCA-CCTCAAAATTT
* *
11091461 T-CAAAATCATATTTTCACC-CTAAAATTT
1 TCCAAAATTACATTTTCACCTC-AAAATTT
* *
11091489 TCCAAAATTACATTTTCACCCCTAAACTTT
1 TCCAAAATTACATTTTCACCTC-AAAATTT
* *
11091519 TCCAAAATCACATTTTCACCCTTAAAACTTT
1 TCCAAAATTACATTTTCA-CCTCAAAA-TTT
* *
11091550 TCCAAAATTACATTTTGACCTCAAAATTC
1 TCCAAAATTACATTTTCACCTCAAAATTT
11091579 TCCAAAATTTACCATTTT
1 TCCAAAA-TTA-CATTTT
11091597 TCGCCCGAAC
Statistics
Matches: 189, Mismatches: 25, Indels: 23
0.80 0.11 0.10
Matches are distributed among these distances:
28 10 0.05
29 68 0.36
30 60 0.32
31 46 0.24
32 4 0.02
33 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.01, T:0.38
Consensus pattern (29 bp):
TCCAAAATTACATTTTCACCTCAAAATTT
Found at i:11097285 original size:259 final size:258
Alignment explanation
Indices: 11096819--11097320 Score: 959
Period size: 259 Copynumber: 1.9 Consensus size: 258
11096809 GCACCACATC
11096819 AAAAAAAAGAAGAGTGAATGAGGCATTGAAGGTGACCAATAAGAACATCGAAAGGATTAGCAGAG
1 AAAAAAAAGAAGAGTGAATGAGGCATTGAAGGTGACCAATAAGAACATCGAAAGGATTAGCAGAG
11096884 ACCTACAAAGGCTCGACATGAGAAATCACCATTTTTCTTCAAGGCTTATCGGGCTTCTATTAGAA
66 ACCTACAAAGGCTCGACATGAGAAATCACCATTTTTCTTCAAGGCTTATCGGGCTTCTATTAGAA
11096949 CATCCACCGGGGCAATACCTTTCTCACTAGAATGAAAGTCGTCCTACCTATTGAAGTCAAGTTTC
131 CATCCACCGGGGCAATACCTTTCTCACTAGAATGAAAGTCGTCCTACCTATTGAAGTCAAGTTTC
**
11097014 TTTCTTTCTAGATTTTGTTAGAGCTGAGGAAGAAGAATGGATCCAATCTAGAGACCACAATAA
196 TTTCCCTCTAGATTTTGTTAGAGCTGAGGAAGAAGAATGGATCCAATCTAGAGACCACAATAA
11097077 AAAAAAGAAGAAGAGTGAATGAGGCATTGAAGGTGACCAATAAGAACATCGAAAGGATTAGCAGA
1 AAAAAA-AAGAAGAGTGAATGAGGCATTGAAGGTGACCAATAAGAACATCGAAAGGATTAGCAGA
*
11097142 GACCTACAAAGGCTCGACATGAGAAATCACCATTTTTCTTCAAGGCTTATTGGGCTTCTATTAGA
65 GACCTACAAAGGCTCGACATGAGAAATCACCATTTTTCTTCAAGGCTTATCGGGCTTCTATTAGA
*
11097207 ACATCCACTGGGGCAATACCTTTCTCACTAGAATGAAAGTCGTCCTACCTATTGAAGTCAAGTTT
130 ACATCCACCGGGGCAATACCTTTCTCACTAGAATGAAAGTCGTCCTACCTATTGAAGTCAAGTTT
11097272 CTTTCCCTCTAGATTTTGTTAGAGCTGAGGAAGAAGAATGGATCCAATC
195 CTTTCCCTCTAGATTTTGTTAGAGCTGAGGAAGAAGAATGGATCCAATC
11097321 CAGATGCAGT
Statistics
Matches: 239, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
258 6 0.03
259 233 0.97
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (258 bp):
AAAAAAAAGAAGAGTGAATGAGGCATTGAAGGTGACCAATAAGAACATCGAAAGGATTAGCAGAG
ACCTACAAAGGCTCGACATGAGAAATCACCATTTTTCTTCAAGGCTTATCGGGCTTCTATTAGAA
CATCCACCGGGGCAATACCTTTCTCACTAGAATGAAAGTCGTCCTACCTATTGAAGTCAAGTTTC
TTTCCCTCTAGATTTTGTTAGAGCTGAGGAAGAAGAATGGATCCAATCTAGAGACCACAATAA
Found at i:11097589 original size:11 final size:11
Alignment explanation
Indices: 11097573--11097604 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
11097563 AAATTCGATG
*
11097573 AAGAAAAATAA
1 AAGAAAAAAAA
11097584 AAGAAAAAAAA
1 AAGAAAAAAAA
11097595 AAGAAAAAAA
1 AAGAAAAAAA
11097605 TGAAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (11 bp):
AAGAAAAAAAA
Done.