Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold160
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: 5021213
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 92036 characters in sequence are not A, C, G, or T
File 17 of 30
Found at i:2671860 original size:97 final size:97
Alignment explanation
Indices: 2671741--2672005 Score: 406
Period size: 97 Copynumber: 2.7 Consensus size: 97
2671731 AAGTGCTCCA
* *
2671741 AATGATGATAATTTAGGTAAAAATAAGATTTAAATCATGACAAGTTTAAAAATAAGGTTGGAGTA
1 AATGATGATAATTTAGGCAAAAATAAGATTTAAATCATGACAAGTTTAAAAATGAGGTTGGAGTA
* *
2671806 TCCTCTC-AGAAGAATGGGGTTGGAGTGTCCCC
66 TCCCCTCGA-AAAAATGGGGTTGGAGTGTCCCC
* * * * *
2671838 GATGATGATAATTTAGGCAAAAATAAGATTTAAATTATGACAAGTTTAAAAACGAGGTTAGATTA
1 AATGATGATAATTTAGGCAAAAATAAGATTTAAATCATGACAAGTTTAAAAATGAGGTTGGAGTA
*
2671903 TCCCCTCGAAAAAATGGGGTTGGAGTGTCCTC
66 TCCCCTCGAAAAAATGGGGTTGGAGTGTCCCC
*
2671935 AATGATGATAATTTAGGCAAAAATAAGATTTAAATCATGACAAGTTTAAAAATGGGGTTGGAGTA
1 AATGATGATAATTTAGGCAAAAATAAGATTTAAATCATGACAAGTTTAAAAATGAGGTTGGAGTA
*
2672000 TTCCCT
66 TCCCCT
2672006 TAGGGCTATA
Statistics
Matches: 150, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
97 149 0.99
98 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (97 bp):
AATGATGATAATTTAGGCAAAAATAAGATTTAAATCATGACAAGTTTAAAAATGAGGTTGGAGTA
TCCCCTCGAAAAAATGGGGTTGGAGTGTCCCC
Found at i:2683673 original size:31 final size:31
Alignment explanation
Indices: 2683635--2683711 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
2683625 CTTTTGAAGG
2683635 CTAAGATAGAACCTCCCTATCTTTTCACAAA
1 CTAAGATAGAACCTCCCTATCTTTTCACAAA
* **
2683666 CTAAGATAGAATCTCCCTATCTTTTCACAGG
1 CTAAGATAGAACCTCCCTATCTTTTCACAAA
2683697 CTAAGATAGAACCTC
1 CTAAGATAGAACCTC
2683712 ACAATCACTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (31 bp):
CTAAGATAGAACCTCCCTATCTTTTCACAAA
Found at i:2684830 original size:20 final size:21
Alignment explanation
Indices: 2684793--2684844 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
2684783 ACAAGGTCCA
* *
2684793 GTATCGATACATTCACTT-AT
1 GTATCGATATATTAACTTGAT
* *
2684813 GTATTGATATATTAACTTGTT
1 GTATCGATATATTAACTTGAT
2684834 GTATCGATATA
1 GTATCGATATA
2684845 AATTATAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (21 bp):
GTATCGATATATTAACTTGAT
Found at i:2684946 original size:18 final size:19
Alignment explanation
Indices: 2684918--2684954 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
2684908 ATTATTTTAC
2684918 AATTAAAAAATTATTAAAT
1 AATTAAAAAATTATTAAAT
2684937 AATT-AAAAATTATTAAAT
1 AATTAAAAAATTATTAAAT
2684955 TATACATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTAAAAAATTATTAAAT
Found at i:2689353 original size:28 final size:28
Alignment explanation
Indices: 2689313--2689384 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
2689303 GGAATAAAGC
** *
2689313 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2689341 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2689369 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2689385 TCGATTATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2689442 original size:52 final size:52
Alignment explanation
Indices: 2689373--2689646 Score: 288
Period size: 52 Copynumber: 5.3 Consensus size: 52
2689363 AAATAACGAG
* *
2689373 GTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
* * * * *
2689425 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTAGTTTTGGAAATAAAATC-GGA
* *
2689478 -TTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
* * * * * * *
2689529 ATTGGAGTATCCCCGATTAAAGGAGAAATTGGT-GTTGTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT--ATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
* * * *
2689582 GTTGGAGTATCCCCGATTATGAAAAATCGATA-TTTT-GAGAATAAAGTCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGA-AATAAAATCGGA
2689633 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
2689647 TCAGAAATAA
Statistics
Matches: 183, Mismatches: 31, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
50 1 0.01
51 48 0.26
52 79 0.43
53 45 0.25
54 10 0.05
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
Found at i:2689505 original size:104 final size:105
Alignment explanation
Indices: 2689374--2689646 Score: 417
Period size: 104 Copynumber: 2.6 Consensus size: 105
2689364 AATAACGAGG
*
2689374 TTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
*
2689439 GATTAAAGGA-AAATTGGCGTTTTGAAAATAAAACCAGGA
66 GATTAAAGGAGAAATTGGCGTTGTGAAAATAAAACCAGGA
* *
2689478 TTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAATTGGAGTATCCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
* * *
2689543 GATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGGGG
66 GATTAAAGGAGAAATTGGCGTTGTGAAAATAAAACCAGGA
* * * *
2689583 TTGGAGTATCCCCGATTATGAAAAATCGATA-TTTT-GAGAATAAAGTCGGGGTTGGAGTATCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGA-AATAAAATCGGAGTTGGAGTATCCC
2689646 C
65 C
2689647 TCAGAAATAA
Statistics
Matches: 154, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
103 2 0.01
104 99 0.64
105 53 0.34
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (105 bp):
TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
GATTAAAGGAGAAATTGGCGTTGTGAAAATAAAACCAGGA
Found at i:2689692 original size:27 final size:27
Alignment explanation
Indices: 2689629--2689731 Score: 154
Period size: 27 Copynumber: 3.8 Consensus size: 27
2689619 AGAATAAAGT
* *
2689629 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATG-ATTAA
2689657 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATGATTAA
2689684 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATGATTAA
*
2689711 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2689732 TGTGAAGAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 52 0.73
28 19 0.27
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATGATTAA
Found at i:2689783 original size:55 final size:51
Alignment explanation
Indices: 2689715--2689846 Score: 133
Period size: 51 Copynumber: 2.5 Consensus size: 51
2689705 GATTAACGGG
* **
2689715 GTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTTGGAAA-TAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAATG---TTTT-GAAAGTAAAATCGGA
*
2689770 GTTGGAGTATCCCCGATTAT-AGAAAATTAATGTTTTGAAAGTAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAATGTTTTGAAAGTAAAATCGGA
* *
2689821 GTTGGAATATCCTCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
2689847 TTGAGCAACT
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
50 4 0.06
51 31 0.47
52 2 0.03
53 4 0.06
54 7 0.11
55 18 0.27
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAATGTTTTGAAAGTAAAATCGGA
Found at i:2692213 original size:13 final size:13
Alignment explanation
Indices: 2692195--2692220 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2692185 ACAAAGATCC
2692195 ATGTATCGATACA
1 ATGTATCGATACA
2692208 ATGTATCGATACA
1 ATGTATCGATACA
2692221 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2692216 original size:33 final size:33
Alignment explanation
Indices: 2692174--2692240 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2692164 AAAATTTCTA
***
2692174 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2692207 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2692240 A
1 A
2692241 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2692284 original size:19 final size:18
Alignment explanation
Indices: 2692260--2692327 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2692250 CAGTAGCTAA
2692260 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2692279 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2692294 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2692311 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2692328 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2692300 original size:13 final size:13
Alignment explanation
Indices: 2692282--2692306 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2692272 ACAATACTTA
2692282 TGTATCGATACAT
1 TGTATCGATACAT
2692295 TGTATCGATACA
1 TGTATCGATACA
2692307 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2692304 original size:32 final size:32
Alignment explanation
Indices: 2692263--2692325 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2692253 TAGCTAATTA
*
2692263 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2692295 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2692326 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2692407 original size:21 final size:21
Alignment explanation
Indices: 2692383--2692439 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2692373 CATTTGTAGG
2692383 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
2692404 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
2692425 ATGTATCGATACATT
1 ATGTATCGATACATT
2692440 TAAAATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:2693151 original size:55 final size:55
Alignment explanation
Indices: 2693056--2694208 Score: 1417
Period size: 55 Copynumber: 20.4 Consensus size: 55
2693046 ATAAAGTGTA
* * * * *
2693056 TCCTTCTCATTGAGGAGT-AAAAAGTGCCACCAA-CTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACCT-GTGTGGGCTTTAAAAGGTG
** * *
2693111 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
** * * * **
2693166 TCCTGCTCTTT-AGGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAATAAAAAGCA
1 TCCTGCTCTTTGA-GGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGTG
2693227 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
* * * * **
2693282 T-C-GTTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGTG
2693341 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
*
2693396 TCCTGCTCTTTGAGGACTAAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
2693451 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
* * * **
2693506 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGTG
2693567 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
2693622 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
* * * **
2693677 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTG-GTGGGCTTTGAAAATAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGTG
2693737 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
2693792 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
* * * * **
2693847 T-CT-TTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGTG
*
2693906 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTTTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
2693961 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
* * * **
2694016 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTG-GTGGGCTTTGAAAATAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGTG
* *
2694076 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
** * * *
2694131 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGACGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
2694186 TCCTGCTCTTTGAGGACT-AAAAA
1 TCCTGCTCTTTGAGGACTGAAAAA
2694209 GCGGCAGGAG
Statistics
Matches: 964, Mismatches: 88, Indels: 93
0.84 0.08 0.08
Matches are distributed among these distances:
53 73 0.08
54 23 0.02
55 574 0.60
56 8 0.01
59 14 0.01
60 96 0.10
61 175 0.18
62 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTG
Found at i:2693391 original size:27 final size:27
Alignment explanation
Indices: 2693361--2693501 Score: 66
Period size: 27 Copynumber: 5.1 Consensus size: 27
2693351 TGAGGACTGA
2693361 AAAATGCCACCAACCTGTGTGGGCTTT
1 AAAATGCCACCAACCTGTGTGGGCTTT
* *** ** * * * **
2693388 AAAAGGTGTCCTGCTCTTTGAGGACTAA
1 AAAATGCCACCAAC-CTGTGTGGGCTTT
2693416 AAAATGCCACCAACCTGTGTGGGCTTT
1 AAAATGCCACCAACCTGTGTGGGCTTT
* *** ** * * * **
2693443 AAAAGGTGTCCTGCTCTTTGAGGACTGA
1 AAAATGCCACCAAC-CTGTGTGGGCTTT
2693471 AAAATGCCACCAACCTGTGTGGGCTTT
1 AAAATGCCACCAACCTGTGTGGGCTTT
2693498 AAAA
1 AAAA
2693502 GGTGTCCTGC
Statistics
Matches: 68, Mismatches: 44, Indels: 4
0.59 0.38 0.03
Matches are distributed among these distances:
27 36 0.53
28 32 0.47
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (27 bp):
AAAATGCCACCAACCTGTGTGGGCTTT
Found at i:2693617 original size:27 final size:27
Alignment explanation
Indices: 2693587--2693672 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
2693577 TGAGGACTGA
2693587 AAAATGCCACCAACCTGTGTGGGCTTT
1 AAAATGCCACCAACCTGTGTGGGCTTT
* *** ** * * * **
2693614 AAAAGGTGTCCTGCTCTTTGAGGACTGA
1 AAAATGCCACCAAC-CTGTGTGGGCTTT
2693642 AAAATGCCACCAACCTGTGTGGGCTTT
1 AAAATGCCACCAACCTGTGTGGGCTTT
2693669 AAAA
1 AAAA
2693673 GGTGTCCTGC
Statistics
Matches: 36, Mismatches: 22, Indels: 2
0.60 0.37 0.03
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (27 bp):
AAAATGCCACCAACCTGTGTGGGCTTT
Found at i:2693787 original size:27 final size:27
Alignment explanation
Indices: 2693757--2693842 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
2693747 TGAGGACTGA
2693757 AAAATGCCACCAACCTGTGTGGGCTTT
1 AAAATGCCACCAACCTGTGTGGGCTTT
* *** ** * * * **
2693784 AAAAGGTGTCCTGCTCTTTGAGGACTGA
1 AAAATGCCACCAAC-CTGTGTGGGCTTT
2693812 AAAATGCCACCAACCTGTGTGGGCTTT
1 AAAATGCCACCAACCTGTGTGGGCTTT
2693839 AAAA
1 AAAA
2693843 GGTGTCTTTC
Statistics
Matches: 36, Mismatches: 22, Indels: 2
0.60 0.37 0.03
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (27 bp):
AAAATGCCACCAACCTGTGTGGGCTTT
Found at i:2693826 original size:170 final size:171
Alignment explanation
Indices: 2693055--2694203 Score: 1808
Period size: 170 Copynumber: 6.8 Consensus size: 171
2693045 AATAAAGTGT
* * * * *
2693055 ATCCTTCTCATTGAGGAGT-AAAAAGTGCCACCAA-CTCGTGTGGGCTTTGAAAGGCGTCCTGCT
1 ATCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACCT-GTGTGGGCTTTAAAAGGTGTCCTGCT
** * *
2693118 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTT-AGGGA
64 CTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGA-GGA
* *
2693182 CT-GAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAATAAAAAGC
128 CTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
*
2693226 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGT-C-GTTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
* * * **
2693289 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGA
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGTGTCCTGCTCTTTGA
* * * *
2693354 GGACTGAAAAATGCCACCAACCTGTGTGGGC-TT-----TAAAAGGT
125 GGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
* *
2693395 GTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
2693460 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
2693525 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
131 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
2693566 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
2693631 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
2693696 GAAAATGCCACCAACTTG-GTGGGCTTTGAAAATAAAAAGC
131 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
2693736 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
*
2693801 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGT-CT-TTCTTTGAGGACTG
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
2693864 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
131 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
*
2693905 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTTTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
2693970 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
2694035 GAAAATGCCACCAACTTG-GTGGGCTTTGAAAATAAAAAGC
131 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
* *
2694075 ATCCTACTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAGAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
** * * *
2694140 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGACGTGTCCTGCTCTTTGAGGACT
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACT
2694204 AAAAAGCGGC
Statistics
Matches: 913, Mismatches: 44, Indels: 43
0.91 0.04 0.04
Matches are distributed among these distances:
165 48 0.05
166 2 0.00
168 31 0.03
169 232 0.25
170 285 0.31
171 263 0.29
172 7 0.01
174 2 0.00
175 39 0.04
176 4 0.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (171 bp):
ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGC
Found at i:2693943 original size:27 final size:27
Alignment explanation
Indices: 2693913--2693996 Score: 69
Period size: 27 Copynumber: 3.1 Consensus size: 27
2693903 GCATCCTGCT
2693913 CTTTGAGGACTGAAAAATGCCACCAAC
1 CTTTGAGGACTGAAAAATGCCACCAAC
* * ** * *** **
2693940 CTTTGTGGGCTTTAAAAGGTGTCCTGC
1 CTTTGAGGACTGAAAAATGCCACCAAC
2693967 TCTTTGAGGACTGAAAAATGCCACCAAC
1 -CTTTGAGGACTGAAAAATGCCACCAAC
2693995 CT
1 CT
2693997 GTGTGGGCTT
Statistics
Matches: 36, Mismatches: 20, Indels: 2
0.62 0.34 0.03
Matches are distributed among these distances:
27 19 0.53
28 17 0.47
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (27 bp):
CTTTGAGGACTGAAAAATGCCACCAAC
Found at i:2693962 original size:339 final size:341
Alignment explanation
Indices: 2693055--2694203 Score: 1813
Period size: 339 Copynumber: 3.4 Consensus size: 341
2693045 AATAAAGTGT
* * * * *
2693055 ATCCTTCTCATTGAGGAGT-AAAAAGTGCCACCAA-CTCGTGTGGGCTTTGAAAGGCGTCCTGCT
1 ATCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACCT-GTGTGGGCTTTAAAAGGTGTCCTGCT
** * *
2693118 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTT-AGGGA
64 CTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGA-GGA
* *
2693182 CT-GAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTG
128 CTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTG
* *
2693246 AAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGT-C-GTTCTTTGAGGACTGGAAAATGCCA
192 AAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCA
* * ** *
2693309 CCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAA
257 CCAACCTGTGTGGGC-TT-----TAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAA
* * *
2693374 CCTGTGTGGGC-TT-----TAAAAGGT
316 CTTG-GTGGGCTTTGAAAATAAAAAGC
* *
2693395 GTCCTGCTCTTTGAGGACTAAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
2693460 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
2693525 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTGAAAA
131 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTGAAAA
2693590 ATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAA
196 ATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAA
2693655 CCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGTGGGC
261 CCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGTGGGC
2693720 TTTGAAAATAAAAAGC
326 TTTGAAAATAAAAAGC
2693736 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
*
2693801 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGT-CT-TTCTTTGAGGACTG
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
2693864 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTGAAAA
131 GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTGAAAA
*
2693929 ATGCCACCAACCTTTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAA
196 ATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAA
2693994 CCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGTGGGC
261 CCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGTGGGC
2694059 TTTGAAAATAAAAAGC
326 TTTGAAAATAAAAAGC
* *
2694075 ATCCTACTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAGAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
** * * *
2694140 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGACGTGTCCTGCTCTTTGAGGACT
66 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACT
2694204 AAAAAGCGGC
Statistics
Matches: 761, Mismatches: 34, Indels: 27
0.93 0.04 0.03
Matches are distributed among these distances:
335 6 0.01
336 43 0.06
339 328 0.43
340 204 0.27
341 143 0.19
342 37 0.05
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (341 bp):
ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTG
GAAAATGCCACCAACTTGTGTGGGCTTTGAAAATAAAAAGCATCCTGCTCTTTGAGGACTGAAAA
ATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAA
CCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGTGGGC
TTTGAAAATAAAAAGC
Found at i:2693971 original size:28 final size:28
Alignment explanation
Indices: 2693940--2694027 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
2693930 TGCCACCAAC
2693940 CTTTGTGGGCTTTAAAAGGTGTCCTGCT
1 CTTTGTGGGCTTTAAAAGGTGTCCTGCT
* * ** * *** **
2693968 CTTTGAGGACTGAAAAATGCCACCAAC-
1 CTTTGTGGGCTTTAAAAGGTGTCCTGCT
*
2693995 CTGTGTGGGCTTTAAAAGGTGTCCTGCT
1 CTTTGTGGGCTTTAAAAGGTGTCCTGCT
2694023 CTTTG
1 CTTTG
2694028 AGGACTGGAA
Statistics
Matches: 37, Mismatches: 22, Indels: 2
0.61 0.36 0.03
Matches are distributed among these distances:
27 16 0.43
28 21 0.57
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (28 bp):
CTTTGTGGGCTTTAAAAGGTGTCCTGCT
Found at i:2695189 original size:1 final size:1
Alignment explanation
Indices: 2695185--2695237 Score: 61
Period size: 1 Copynumber: 53.0 Consensus size: 1
2695175 CTTTTCTCTC
* * * * *
2695185 TTTTTCTTTGTTTTGTTTTTTTTTGTTTTTTTTTTTTCTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2695238 GAAGAGAAGG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.04, G:0.06, T:0.91
Consensus pattern (1 bp):
T
Found at i:2695235 original size:15 final size:15
Alignment explanation
Indices: 2695169--2695236 Score: 75
Period size: 15 Copynumber: 4.4 Consensus size: 15
2695159 CTTAAGTAGG
* *
2695169 TTTTTTCTTTTCTCT
1 TTTTTTCTTTTTTTT
*
2695184 CTTTTTCTTTGTTTTGT
1 TTTTTTCTTT-TTTT-T
2695201 TTTTTT-TTGTTTTTT
1 TTTTTTCTT-TTTTTT
2695216 TTTTTTCTTTTTTTT
1 TTTTTTCTTTTTTTT
2695231 TTTTTT
1 TTTTTT
2695237 TGAAGAGAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
15 28 0.62
16 10 0.22
17 7 0.16
ACGTcount: A:0.00, C:0.09, G:0.04, T:0.87
Consensus pattern (15 bp):
TTTTTTCTTTTTTTT
Found at i:2707847 original size:28 final size:28
Alignment explanation
Indices: 2707807--2707878 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
2707797 GGAATAAAGC
** *
2707807 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2707835 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
2707863 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
2707879 TCGATTATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:2707936 original size:52 final size:52
Alignment explanation
Indices: 2707867--2708140 Score: 288
Period size: 52 Copynumber: 5.3 Consensus size: 52
2707857 AAATAACGAG
* *
2707867 GTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
* * * * *
2707919 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTAGTTTTGGAAATAAAATC-GGA
* *
2707972 -TTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
* * * * * * *
2708023 ATTGGAGTATCCCCGATTAAAGGAGAAATTGGT-GTTGTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT--ATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
* * * *
2708076 GTTGGAGTATCCCCGATTATGAAAAATCGATA-TTTT-GAGAATAAAGTCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGA-AATAAAATCGGA
2708127 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
2708141 TCAGAAATAA
Statistics
Matches: 183, Mismatches: 31, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
50 1 0.01
51 48 0.26
52 79 0.43
53 45 0.25
54 10 0.05
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
Found at i:2707999 original size:104 final size:105
Alignment explanation
Indices: 2707868--2708140 Score: 417
Period size: 104 Copynumber: 2.6 Consensus size: 105
2707858 AATAACGAGG
*
2707868 TTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
*
2707933 GATTAAAGGA-AAATTGGCGTTTTGAAAATAAAACCAGGA
66 GATTAAAGGAGAAATTGGCGTTGTGAAAATAAAACCAGGA
* *
2707972 TTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAATTGGAGTATCCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
* * *
2708037 GATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGGGG
66 GATTAAAGGAGAAATTGGCGTTGTGAAAATAAAACCAGGA
* * * *
2708077 TTGGAGTATCCCCGATTATGAAAAATCGATA-TTTT-GAGAATAAAGTCGGGGTTGGAGTATCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGA-AATAAAATCGGAGTTGGAGTATCCC
2708140 C
65 C
2708141 TCAGAAATAA
Statistics
Matches: 154, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
103 2 0.01
104 99 0.64
105 53 0.34
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (105 bp):
TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
GATTAAAGGAGAAATTGGCGTTGTGAAAATAAAACCAGGA
Found at i:2708186 original size:27 final size:27
Alignment explanation
Indices: 2708123--2708225 Score: 154
Period size: 27 Copynumber: 3.8 Consensus size: 27
2708113 AGAATAAAGT
* *
2708123 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATG-ATTAA
2708151 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATGATTAA
2708178 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATGATTAA
*
2708205 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
2708226 TGTGAAGAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 52 0.73
28 19 0.27
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATGATTAA
Found at i:2708277 original size:55 final size:51
Alignment explanation
Indices: 2708209--2708340 Score: 133
Period size: 51 Copynumber: 2.5 Consensus size: 51
2708199 GATTAACGGG
* **
2708209 GTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTTGGAAA-TAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAATG---TTTT-GAAAGTAAAATCGGA
*
2708264 GTTGGAGTATCCCCGATTAT-AGAAAATTAATGTTTTGAAAGTAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAATGTTTTGAAAGTAAAATCGGA
* *
2708315 GTTGGAATATCCTCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
2708341 TTGAGCAACT
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
50 4 0.06
51 31 0.47
52 2 0.03
53 4 0.06
54 7 0.11
55 18 0.27
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAATGTTTTGAAAGTAAAATCGGA
Found at i:2710708 original size:13 final size:13
Alignment explanation
Indices: 2710690--2710715 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2710680 ACAAAGATCC
2710690 ATGTATCGATACA
1 ATGTATCGATACA
2710703 ATGTATCGATACA
1 ATGTATCGATACA
2710716 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2710711 original size:33 final size:33
Alignment explanation
Indices: 2710669--2710735 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2710659 AAAATTTCTA
***
2710669 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
2710702 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
2710735 A
1 A
2710736 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:2710779 original size:19 final size:18
Alignment explanation
Indices: 2710755--2710822 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2710745 CAGTAGCTAA
2710755 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2710774 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2710789 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2710806 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2710823 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2710795 original size:13 final size:13
Alignment explanation
Indices: 2710777--2710801 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2710767 ACAATACTTA
2710777 TGTATCGATACAT
1 TGTATCGATACAT
2710790 TGTATCGATACA
1 TGTATCGATACA
2710802 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2710799 original size:32 final size:32
Alignment explanation
Indices: 2710758--2710820 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2710748 TAGCTAATTA
*
2710758 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2710790 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2710821 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2710902 original size:21 final size:21
Alignment explanation
Indices: 2710878--2710934 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2710868 CATTTGTAGG
2710878 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
2710899 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
2710920 ATGTATCGATACATT
1 ATGTATCGATACATT
2710935 TAAAATTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:2714712 original size:22 final size:23
Alignment explanation
Indices: 2714678--2714721 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2714668 ATATTAAAAT
2714678 ATAAATTATATATATAATATTTA
1 ATAAATTATATATATAATATTTA
* *
2714701 ATAATTTA-ATATATCATATTT
1 ATAAATTATATATATAATATTT
2714722 TAAATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATAAATTATATATATAATATTTA
Found at i:2714737 original size:35 final size:33
Alignment explanation
Indices: 2714696--2714784 Score: 89
Period size: 32 Copynumber: 2.7 Consensus size: 33
2714686 TATATATAAT
2714696 ATTTAATAATTTAATATATCATATTTTAAATAA-A
1 ATTTAATAATTTAA-ATATCATATTTTAAA-AATA
2714730 ATTTTAATATATTATAAA-AT-AT-TTTTAAAAATA
1 A-TTTAATA-ATT-TAAATATCATATTTTAAAAATA
*
2714763 ATATAATAA-TTAAATATCATAT
1 ATTTAATAATTTAAATATCATAT
2714785 ATTATATATT
Statistics
Matches: 47, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
29 4 0.09
30 3 0.06
31 3 0.06
32 9 0.19
33 9 0.19
34 3 0.06
35 9 0.19
36 4 0.09
37 3 0.06
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (33 bp):
ATTTAATAATTTAAATATCATATTTTAAAAATA
Found at i:2714797 original size:40 final size:40
Alignment explanation
Indices: 2714748--2714840 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
2714738 ATATTATAAA
* *
2714748 ATATTTTTAAAAATAATATA-ATAATTAAATATCATATATT
1 ATATATTTAAAAATAATATATATAATAAAATAT-ATATATT
* * *
2714788 ATATATTTAAAAATATTATATATTATAAAATATTTATATT
1 ATATATTTAAAAATAATATATATAATAAAATATATATATT
* *
2714828 TTATATATAAAAA
1 ATATATTTAAAAA
2714841 ATTTATTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 35 0.78
41 10 0.22
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (40 bp):
ATATATTTAAAAATAATATATATAATAAAATATATATATT
Found at i:2714805 original size:17 final size:18
Alignment explanation
Indices: 2714783--2714828 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
2714773 TAAATATCAT
2714783 ATATTATATATTTA-AAA
1 ATATTATATATTTATAAA
2714800 ATATTATATA-TTATAAA
1 ATATTATATATTTATAAA
2714817 ATATT-TATATTT
1 ATATTATATATTT
2714829 TATATATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.26
17 20 0.74
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATTATATATTTATAAA
Found at i:2714832 original size:23 final size:22
Alignment explanation
Indices: 2714800--2714850 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
2714790 ATATTTAAAA
*
2714800 ATATTATATATTATAAAATATTT
1 ATATTATATA-TATAAAAAATTT
*
2714823 ATATTTTATATATAAAAAATTT
1 ATATTATATATATAAAAAATTT
2714845 AT-TTAT
1 ATATTAT
2714851 TGATGTCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.12
22 13 0.52
23 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTATATATATAAAAAATTT
Found at i:2717114 original size:195 final size:187
Alignment explanation
Indices: 2716780--2717144 Score: 532
Period size: 195 Copynumber: 1.9 Consensus size: 187
2716770 CAACAAGACA
* * * **
2716780 AGATTTAATAGAATGATTCACAAAGTTACTCGGATGCAGCTAAAGCAAAATTATATTATCTGACG
1 AGATTTAATAAAATGATTCACAAAGTTACTCAGATGCAGCTAAAGCAAAATTATAATATCTGAAA
** * *
2716845 TTTAATAGATTTTCAAGGAAGTAAAAAAATAAGTTATTAAATGAAATTCAATAACATTTCAAGGA
66 TCCAATAGATTTTCAAGGAAGTAAAAAAAAAAGTTATTAAATGAAATTCAATAACATTTCAAGAA
*
2716910 GTTATTACATCTTTATCCCTTGCTCATTTCAAAAGAGCTTAATATGTGACGTCTAAT
131 GTTATTACATCTTTATCCATTGCTCATTTCAAAAGAGCTTAATATGTGACGTCTAAT
* *
2716967 AGATTTAATAAAATGATTCACAAAAGTTACTCAGATGCAGTTAAAGCAAAATTATAATATGTGAA
1 AGATTTAATAAAATGATTCAC-AAAGTTACTCAGATGCAGCTAAAGCAAAATTATAATATCTGAA
*
2717032 ATCCAATAGATTTTCAAGGAAGCTTTAAAAAAAAAAAAAAGTTATTAAATGCAATTCAATAACAT
65 ATCCAATAGATTTTCAAGGAAG---T----AAAAAAAAAAGTTATTAAATGAAATTCAATAACAT
*
2717097 TTCAAGAAGTTATTACATCTTTATCCATTGCTCATTTCAAAAGTGCTT
123 TTCAAGAAGTTATTACATCTTTATCCATTGCTCATTTCAAAAGAGCTT
2717145 GATGATCTCT
Statistics
Matches: 156, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
187 20 0.13
188 57 0.37
191 1 0.01
195 78 0.50
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.33
Consensus pattern (187 bp):
AGATTTAATAAAATGATTCACAAAGTTACTCAGATGCAGCTAAAGCAAAATTATAATATCTGAAA
TCCAATAGATTTTCAAGGAAGTAAAAAAAAAAGTTATTAAATGAAATTCAATAACATTTCAAGAA
GTTATTACATCTTTATCCATTGCTCATTTCAAAAGAGCTTAATATGTGACGTCTAAT
Found at i:2723988 original size:20 final size:20
Alignment explanation
Indices: 2723965--2724003 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2723955 TTAATAAAAT
2723965 AATATATAA-AATTATTAATA
1 AATATATAATAA-TATTAATA
*
2723985 AATATTTAATAATATTAAT
1 AATATATAATAATATTAAT
2724004 TAAAGTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATATATAATAATATTAATA
Found at i:2725302 original size:19 final size:20
Alignment explanation
Indices: 2725280--2725317 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
2725270 TAAATAAATT
2725280 AAATAAATA-TAAAATATTA
1 AAATAAATAGTAAAATATTA
* *
2725299 AAATATATAGTAAATTATT
1 AAATAAATAGTAAAATATT
2725318 TTCAATAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
AAATAAATAGTAAAATATTA
Found at i:2727384 original size:9 final size:9
Alignment explanation
Indices: 2727370--2727429 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
2727360 GTTTTTTATT
2727370 AAAAAAAAG
1 AAAAAAAAG
2727379 -AAAAAAAG
1 AAAAAAAAG
* *
2727387 GAAAAGAAG
1 AAAAAAAAG
**
2727396 GGAAAAAAG
1 AAAAAAAAG
**
2727405 GTAAAAAAG
1 AAAAAAAAG
*
2727414 AAAGAAAAG
1 AAAAAAAAG
2727423 AAAAAAA
1 AAAAAAA
2727430 CTCGTACTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
8 8 0.19
9 34 0.81
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:2727421 original size:18 final size:16
Alignment explanation
Indices: 2727372--2727428 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 16
2727362 TTTTTATTAA
2727372 AAAAAAGAAAAAAAGG
1 AAAAAAGAAAAAAAGG
*
2727388 AAAAGAAGGGAAAAAAGG
1 AAAA-AA-GAAAAAAAGG
2727406 TAAAAAAGAAAGAAAA-G
1 -AAAAAAGAAA-AAAAGG
2727423 AAAAAA
1 AAAAAA
2727429 ACTCGTACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 10 0.29
17 6 0.17
18 15 0.43
19 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (16 bp):
AAAAAAGAAAAAAAGG
Found at i:2729470 original size:20 final size:20
Alignment explanation
Indices: 2729447--2729492 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
2729437 TTTAAAATTT
*
2729447 ATATAATATAAA-TTATATTA
1 ATATAATA-AAATTTATATAA
*
2729467 ATATATTAAAATTTATATAA
1 ATATAATAAAATTTATATAA
2729487 ATATAA
1 ATATAA
2729493 AATATTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATAATAAAATTTATATAA
Found at i:2729476 original size:34 final size:35
Alignment explanation
Indices: 2729432--2729502 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 35
2729422 ATGATACATA
* *
2729432 AATATTTTAAAATTTATAT-AATATAAATTATATT
1 AATATATTAAAATTTATATAAATATAAAATATATT
*
2729466 AATATATTAAAATTTATATAAATATAAAATATTTT
1 AATATATTAAAATTTATATAAATATAAAATATATT
2729501 AA
1 AA
2729503 CTTTTCAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 18 0.55
35 15 0.45
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (35 bp):
AATATATTAAAATTTATATAAATATAAAATATATT
Found at i:2729907 original size:17 final size:18
Alignment explanation
Indices: 2729885--2729918 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2729875 TAAAAATTAA
2729885 ATATATTCATA-CTAAAT
1 ATATATTCATATCTAAAT
*
2729902 ATATATTTATATCTAAA
1 ATATATTCATATCTAAA
2729919 ACGTATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTCATATCTAAAT
Found at i:2730814 original size:26 final size:26
Alignment explanation
Indices: 2730778--2730831 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
2730768 CTAGTCGAGA
2730778 GAGAGTGTTCGGAAGGCAAAAAGGAT
1 GAGAGTGTTCGGAAGGCAAAAAGGAT
2730804 GAGAGTGTTCGGAAGGCAAAAAGGAT
1 GAGAGTGTTCGGAAGGCAAAAAGGAT
2730830 GA
1 GA
2730832 AAAAAAATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.39, T:0.15
Consensus pattern (26 bp):
GAGAGTGTTCGGAAGGCAAAAAGGAT
Found at i:2730952 original size:21 final size:19
Alignment explanation
Indices: 2730926--2730979 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
2730916 TTCAATAATT
2730926 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAA-AGT-AA
* **
2730947 TGTATCGATACATAAGTGT
1 TGTATCGATACAAAAGTAA
2730966 TGTATCGATACAAA
1 TGTATCGATACAAA
2730980 GCAACCTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (19 bp):
TGTATCGATACAAAAGTAA
Found at i:2739234 original size:78 final size:79
Alignment explanation
Indices: 2739126--2739650 Score: 271
Period size: 79 Copynumber: 6.7 Consensus size: 79
2739116 ACCATCGGGG
* * * *
2739126 ATACTCTAACCTTGCTATTTCTGAGGGGACACTCCAACCCTGATTTTATTTCTAAAACACCAATT
1 ATACTCTAACCTCGTTATTTTTGAGAGGACACTCCAACCC-GATTTTATTTCTAAAACACCAATT
*
2739191 TTTT-ACTATC-GAA
65 TTTTCACCATCAGAA
* * * *
2739204 ATACTCTAACCTCATTATTTTTGAGAGGACACTCCAATCCCGATTTTGTTAT-TAAAATACTAAT
1 ATACTCTAACCTCGTTATTTTTGAGAGGACACTCCAA-CCCGATTTTATT-TCTAAAACACCAAT
*
2739268 TTTTTCACCATCAGGGA
64 TTTTTCACCATCA-GAA
* ** * * * * *
2739285 A-ACTCCAATCC-CGTTATTTTTGAGAAAACACTTCAACCCTGGTTTTATTTTTAAAATATCAAT
1 ATACTCTAA-CCTCGTTATTTTTGAGAGGACACTCCAACCC-GATTTTATTTCTAAAACACCAAT
*
2739348 TTTTT-ACCATCAGAG
64 TTTTTCACCATCAGAA
* * * * * * **
2739363 ATACTCTAACC-CTGTTATTTCT-AGGGGATACTCCAACCACGGTCTTATTCCTAAAACACTGAT
1 ATACTCTAACCTC-GTTATTTTTGAGAGGACACTCCAACC-CGATTTTATTTCTAAAACACCAAT
* * **
2739426 TTTTTCACTATTAGGG
64 TTTTTCACCATCAGAA
* * * * * * * **
2739442 ATACTCCAATCTCGTTATTTTTAAGA-GATACTCAAACCCCAATTTTATTTCTAAAATACTGA-T
1 ATACTCTAACCTCGTTATTTTTGAGAGGACACTCCAA-CCCGATTTTATTTCTAAAACACCAATT
*
2739505 TTTTCA-C-T---AT
65 TTTTCACCATCAGAA
* * * * * * *
2739515 ATACTCCAA-CTCCGTTATTTCTGAG-GGAATACTCCAACCCCAATTTTATTACCAAAACGCCAA
1 ATACTCTAACCT-CGTTATTTTTGAGAGG-ACACTCCAA-CCCGATTTTATTTCTAAAACACCAA
* **
2739578 -TTTTTCATCATCAGGG
63 TTTTTTCACCATCAGAA
* * * * *
2739594 ATACTCCAACC-CTGTTATTTTGGA-AGGGATACTCCAACCCTATTTTTATCTCTAAAA
1 ATACTCTAACCTC-GTTATTTTTGAGA-GGACACTCCAACCCGA-TTTTATTTCTAAAA
2739651 TATTAGATTT
Statistics
Matches: 351, Mismatches: 68, Indels: 55
0.74 0.14 0.12
Matches are distributed among these distances:
72 2 0.01
73 21 0.06
74 35 0.10
75 1 0.00
76 2 0.01
78 104 0.30
79 124 0.35
80 57 0.16
81 5 0.01
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.36
Consensus pattern (79 bp):
ATACTCTAACCTCGTTATTTTTGAGAGGACACTCCAACCCGATTTTATTTCTAAAACACCAATTT
TTTCACCATCAGAA
Found at i:2739324 original size:158 final size:157
Alignment explanation
Indices: 2739154--2739497 Score: 372
Period size: 158 Copynumber: 2.2 Consensus size: 157
2739144 TTCTGAGGGG
* *
2739154 ACACTCCAACCCTGATTTTATTTCTAAAACACCAATTTTTTACTATC-GAAATACTCTAA-CCTC
1 ACACTTCAACCCTGATTTTATTTCTAAAACACCAATTTTTTACCATCAGAAATACTCTAACCCT-
* * * * *
2739217 ATTATTTTTGAGAGGACACTCCAATCC-CGATTTTGTTATTAAAATACTAATTTTTTCACCATCA
65 ATTATTTCT-AGAGGACACTCCAA-CCACGATCTTATTACTAAAACACTAATTTTTTCACCATCA
*
2739281 GGGAAACTCCAATCCCGTTATTTTTGAGAAA
128 GGGAAACTCCAATCCCGTTATTTTTAAG-AA
* * * * * *
2739312 ACACTTCAACCCTGGTTTTATTTTTAAAATATCAATTTTTTACCATCAGAGATACTCTAACCCTG
1 ACACTTCAACCCTGATTTTATTTCTAAAACACCAATTTTTTACCATCAGAAATACTCTAACCCTA
* * * * * * *
2739377 TTATTTCTAGGGGATACTCCAACCACGGTCTTATTCCTAAAACACTGATTTTTTCACTATTAGGG
66 TTATTTCTAGAGGACACTCCAACCACGATCTTATTACTAAAACACTAATTTTTTCACCATCAGGG
* * *
2739442 ATACTCCAATCTCGTTATTTTTAAGAG
131 AAACTCCAATCCCGTTATTTTTAAGAA
* **
2739469 ATAC-TCAAACCCCAATTTTATTTCTAAAA
1 ACACTTC-AACCCTGATTTTATTTCTAAAA
2739498 TACTGATTTT
Statistics
Matches: 153, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
156 2 0.01
157 24 0.16
158 106 0.69
159 18 0.12
160 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.37
Consensus pattern (157 bp):
ACACTTCAACCCTGATTTTATTTCTAAAACACCAATTTTTTACCATCAGAAATACTCTAACCCTA
TTATTTCTAGAGGACACTCCAACCACGATCTTATTACTAAAACACTAATTTTTTCACCATCAGGG
AAACTCCAATCCCGTTATTTTTAAGAA
Found at i:2739581 original size:74 final size:73
Alignment explanation
Indices: 2739442--2739584 Score: 171
Period size: 74 Copynumber: 1.9 Consensus size: 73
2739432 ACTATTAGGG
* * * * **
2739442 ATACTCCAATCTCGTTATTTTTAAGAGATACTCAAACCCCAATTTTATTTCTAAAATACTGATTT
1 ATACTCCAATCTCGTTATTTCTAAGAGATACTCAAACCCCAATTTTATTACCAAAACACCAATTT
2739507 TTCACTAT
66 TTCACTAT
* * * *
2739515 ATACTCCAA-CTCCGTTATTTCTGAGGGAATACTCCAACCCCAATTTTATTACCAAAACGCCAAT
1 ATACTCCAATCT-CGTTATTTCTAAGAG-ATACTCAAACCCCAATTTTATTACCAAAACACCAAT
2739579 TTTTCA
64 TTTTCA
2739585 TCATCAGGGA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
72 2 0.03
73 21 0.36
74 35 0.60
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.36
Consensus pattern (73 bp):
ATACTCCAATCTCGTTATTTCTAAGAGATACTCAAACCCCAATTTTATTACCAAAACACCAATTT
TTCACTAT
Found at i:2744766 original size:36 final size:36
Alignment explanation
Indices: 2744719--2744791 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
2744709 TCTCGCTACC
2744719 TAGGATCTAAGACCATGGCTAAGATTGGTTATGTAG
1 TAGGATCTAAGACCATGGCTAAGATTGGTTATGTAG
2744755 TAGGATCTAAGACCATGGCTAAGATTGGTTATGTAG
1 TAGGATCTAAGACCATGGCTAAGATTGGTTATGTAG
2744791 T
1 T
2744792 GAAACGTGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (36 bp):
TAGGATCTAAGACCATGGCTAAGATTGGTTATGTAG
Found at i:2746144 original size:19 final size:20
Alignment explanation
Indices: 2746103--2746152 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
2746093 CACCCAGATA
*
2746103 TATCGATACATGTTGCTTAG
1 TATCGATACATGTTGCATAG
2746123 TATCGATACATGTT-CATAG
1 TATCGATACATGTTGCATAG
*
2746142 TATCAATACAT
1 TATCGATACAT
2746153 AGTGAATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (20 bp):
TATCGATACATGTTGCATAG
Found at i:2746428 original size:13 final size:13
Alignment explanation
Indices: 2746410--2746435 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2746400 AACCCTTGTA
2746410 TGTATCGATACAT
1 TGTATCGATACAT
2746423 TGTATCGATACAT
1 TGTATCGATACAT
2746436 GATCATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2746444 original size:19 final size:20
Alignment explanation
Indices: 2746419--2746476 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
2746409 ATGTATCGAT
2746419 ACATTGTATCGATACATGA-
1 ACATTGTATCGATACATGAC
* * *
2746438 TCATTGTATCAATAC-TTAC
1 ACATTGTATCGATACATGAC
2746457 ACAATTGTATCGATACATGA
1 AC-ATTGTATCGATACATGA
2746477 AACTGGTAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
18 2 0.07
19 14 0.47
20 12 0.40
21 2 0.07
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (20 bp):
ACATTGTATCGATACATGAC
Found at i:2748509 original size:79 final size:77
Alignment explanation
Indices: 2748326--2748557 Score: 250
Period size: 79 Copynumber: 2.9 Consensus size: 77
2748316 ATATTTCCCG
* * * *
2748326 ATGAGAAATTTAATATTTTGGAGATAATAACGGGGTTAGAGTATCCCCTTGAAAATAACGGGGTT
1 ATGAGAAA-TCAATATTTTGGAAATAA-ATCGGGGTTGGAGTATCCCCTTG-AAATAACGGGGTT
**
2748391 GGAGTATCCCCGGTT
63 GGAGTATCCCCAATT
* * * * * *
2748406 GTGAAAAATCGATGA-TTAGAAAATAGAATCGGGATTGGAGTATCCCCTTAGAAATAACGGGGTT
1 ATGAGAAATCAAT-ATTTTGGAAATA-AATCGGGGTTGGAGTATCCCCTT-GAAATAACGGGGTT
2748470 GGAGTATCCCCAATT
63 GGAGTATCCCCAATT
* **
2748485 ATGAGAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATCCCCTCGGAGGTAACGGGGTTG
1 ATGAGAAATCAATATTTTGGAAATAAA-TCGGGGTTGGAGTATCCCCT-TGAAATAACGGGGTTG
2748550 GAGTATCC
64 GAGTATCC
2748558 TCGATTGTAA
Statistics
Matches: 125, Mismatches: 21, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
78 3 0.02
79 113 0.90
80 9 0.07
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (77 bp):
ATGAGAAATCAATATTTTGGAAATAAATCGGGGTTGGAGTATCCCCTTGAAATAACGGGGTTGGA
GTATCCCCAATT
Found at i:2751047 original size:13 final size:13
Alignment explanation
Indices: 2751029--2751054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2751019 CAAAGAATAG
2751029 ATGTATCGATACA
1 ATGTATCGATACA
2751042 ATGTATCGATACA
1 ATGTATCGATACA
2751055 TATAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2751116 original size:13 final size:13
Alignment explanation
Indices: 2751098--2751149 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
2751088 AGCTTCCTAA
2751098 CGATACATTGTAT
1 CGATACATTGTAT
2751111 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
2751130 CGATACATTGTAT
1 CGATACATTGTAT
2751143 CGATACA
1 CGATACA
2751150 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:2751130 original size:19 final size:18
Alignment explanation
Indices: 2751106--2751168 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
2751096 AACGATACAT
2751106 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
2751125 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
2751138 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
2751157 TGTATCGATACA
1 TGTATCGATACA
2751169 TTTACCGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:2751139 original size:32 final size:32
Alignment explanation
Indices: 2751098--2751170 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
2751088 AGCTTCCTAA
2751098 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
2751130 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
2751162 CGATACATT
1 CGATACATT
2751171 TACCGAATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:2752093 original size:55 final size:55
Alignment explanation
Indices: 2752009--2752362 Score: 462
Period size: 55 Copynumber: 6.3 Consensus size: 55
2751999 ATAAAGTGTA
* * ** * *
2752009 TCCTGCTTTTTGAGGACTAAAATATGCCACCAACTCGTGTAGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
2752064 TCCTGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAACGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
2752119 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* *
2752174 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
2752229 TCCTGCTCTTTGGGGACAGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* *
2752290 TCCTGATCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
2752345 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
2752363 AAAAAGCGGA
Statistics
Matches: 265, Mismatches: 23, Indels: 22
0.85 0.07 0.07
Matches are distributed among these distances:
54 6 0.02
55 200 0.75
56 10 0.04
59 2 0.01
60 2 0.01
61 45 0.17
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:2753350 original size:14 final size:13
Alignment explanation
Indices: 2753331--2753405 Score: 60
Period size: 15 Copynumber: 5.2 Consensus size: 13
2753321 AAGCAGATTC
2753331 TTCTTTTTTCTTTT
1 TTCTTTTTT-TTTT
2753345 TTCTTTGTTTTTTT
1 TTCTTT-TTTTTTT
*
2753359 TTGTTCGTTTTTTTT
1 TTCTT--TTTTTTTT
*
2753374 GTTGTTTTTTATTTT
1 -TTCTTTTTT-TTTT
2753389 TTGCTTTTGTTTTTT
1 TT-CTTTT-TTTTTT
2753404 TT
1 TT
2753406 TTTAGAAAAG
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
14 20 0.38
15 24 0.46
16 8 0.15
ACGTcount: A:0.01, C:0.07, G:0.09, T:0.83
Consensus pattern (13 bp):
TTCTTTTTTTTTT
Found at i:2753359 original size:13 final size:12
Alignment explanation
Indices: 2753341--2753408 Score: 57
Period size: 14 Copynumber: 5.2 Consensus size: 12
2753331 TTCTTTTTTC
*
2753341 TTTTTTCTTTGT
1 TTTTTTTTTTGT
2753353 TTTTTTTTGTTCGT
1 TTTTTTTT-TT-GT
*
2753367 TTTTTTTGTTGTT
1 TTTTTTTTTTG-T
2753380 TTTTATTTTTTGCT
1 TTTT-TTTTTTG-T
2753394 TTTGTTTTTTT-T
1 TTT-TTTTTTTGT
2753406 TTT
1 TTT
2753409 AGAAAAGAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
12 12 0.26
13 9 0.19
14 25 0.53
15 1 0.02
ACGTcount: A:0.01, C:0.04, G:0.10, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTTGT
Found at i:2753369 original size:23 final size:21
Alignment explanation
Indices: 2753334--2753406 Score: 74
Period size: 23 Copynumber: 3.3 Consensus size: 21
2753324 CAGATTCTTC
*
2753334 TTTTTTCTTTTTTCTTTGTTT
1 TTTTTTATTTTTTCTTTGTTT
* * *
2753355 TTTTTTGTTCGTTTTTTTTGTTG
1 TTTTTTATT--TTTTCTTTGTTT
2753378 TTTTTTATTTTTTGCTTTTGTTT
1 TTTTTTATTTTTT-C-TTTGTTT
2753401 TTTTTT
1 TTTTTT
2753407 TTAGAAAAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
21 12 0.29
23 30 0.71
ACGTcount: A:0.01, C:0.05, G:0.10, T:0.84
Consensus pattern (21 bp):
TTTTTTATTTTTTCTTTGTTT
Found at i:2765079 original size:79 final size:78
Alignment explanation
Indices: 2764941--2765157 Score: 231
Period size: 79 Copynumber: 2.7 Consensus size: 78
2764931 GAGATAATAA
** * *
2764941 CGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGA
1 CGGGGTTGGAGTATCCCCTTG-AAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAAT-A
*
2765006 -TTAGAAAATAGAA-T
64 TTTAGAAAATA-AAGC
* *
2765020 CGGGATTGGAGTATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTT-GAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
* *
2765085 TTTGGAAATAAAGC
65 TTAGAAAATAAAGC
* ** * * * *
2765099 CGGGGTTGGAGTATCCCCTCGGAGGTAACAGGGTTGGAGTATCCTCGATTGTGAAAAAT
1 CGGGGTTGGAGTATCCCCT-TGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAAT
2765158 TGGTGTTTTT
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
78 3 0.03
79 112 0.97
80 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTTGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATT
TAGAAAATAAAGC
Found at i:2765220 original size:52 final size:53
Alignment explanation
Indices: 2765131--2765263 Score: 173
Period size: 52 Copynumber: 2.6 Consensus size: 53
2765121 AGGTAACAGG
* ** *
2765131 GTTGGAGTATCCTCGATT-GTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTTGAAAATAAAATCGGA
* *
2765183 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTTGAAAATAAAATCGGA
* *
2765235 GTTGGTGTATCCCCGATT-ATGAAAAATTG
1 GTTGGAGTATCCCCGATTAAAGAAAAATTG
2765264 AGAAACTTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
51 9 0.13
52 51 0.72
53 11 0.15
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTAAAGAAAAATTGGTGTTTTTGAAAATAAAATCGGA
Found at i:2767634 original size:13 final size:13
Alignment explanation
Indices: 2767616--2767641 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2767606 CAAAGAATAG
2767616 ATGTATCGATACA
1 ATGTATCGATACA
2767629 ATGTATCGATACA
1 ATGTATCGATACA
2767642 CATAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2767748 original size:31 final size:32
Alignment explanation
Indices: 2767685--2767756 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
2767675 AGCTTCCTAG
*
2767685 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGAGACAAAACTTATGTAT
*
2767717 CGATACATTGTATCGAGACAACAC-TATGTAT
1 CGATACATTGTATCGAGACAAAACTTATGTAT
2767748 CGATACATT
1 CGATACATT
2767757 TACCGAATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 16 0.42
32 22 0.58
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGAGACAAAACTTATGTAT
Found at i:2767839 original size:21 final size:21
Alignment explanation
Indices: 2767813--2767896 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
2767803 GTTGGGACCT
*
2767813 TGTATCGATATATTTGCATAA
1 TGTATCGATACATTTGCATAA
* * *
2767834 TGTATCAATACA-TTCCACAAA
1 TGTATCGATACATTTGCA-TAA
*
2767855 TGTATCGATACATTCTACA-AA
1 TGTATCGATACATT-TGCATAA
* *
2767876 TGTATCGATATATTTGGATAA
1 TGTATCGATACATTTGCATAA
2767897 AAATGTGATT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
20 6 0.12
21 40 0.80
22 1 0.02
23 3 0.06
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (21 bp):
TGTATCGATACATTTGCATAA
Found at i:2772340 original size:18 final size:17
Alignment explanation
Indices: 2772314--2772366 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
2772304 TTTTAAAAAT
2772314 ATTTTATATTTATATAA
1 ATTTTATATTTATATAA
2772331 ATTTTAATATATTA-AT-A
1 ATTTT-ATAT-TTATATAA
2772348 A-TTTATA-TTATATAA
1 ATTTTATATTTATATAA
2772363 ATTT
1 ATTT
2772367 AAAAATATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
13 3 0.10
14 2 0.06
15 5 0.16
16 5 0.16
17 7 0.23
18 6 0.19
19 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATATTTATATAA
Found at i:2772362 original size:32 final size:33
Alignment explanation
Indices: 2772311--2772375 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
2772301 AGATTTTAAA
* * *
2772311 AATATTTTATATTTATATAAATTTTAATATATT
1 AATAATTTATATTTATATAAATTTAAAAATATT
2772344 AATAATTTATA-TTATATAAATTTAAAAATATT
1 AATAATTTATATTTATATAAATTTAAAAATATT
2772376 CATGTATTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 19 0.66
33 10 0.34
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
AATAATTTATATTTATATAAATTTAAAAATATT
Found at i:2772365 original size:15 final size:15
Alignment explanation
Indices: 2772316--2772367 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
2772306 TTAAAAATAT
2772316 TTTATATTTATATAAA
1 TTTATA-TTATATAAA
*
2772332 TTT-TAATATATTAATAA
1 TTTATATTATA-T-A-AA
2772349 TTTATATTATATAAA
1 TTTATATTATATAAA
2772364 TTTA
1 TTTA
2772368 AAAATATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.13
15 9 0.30
16 5 0.17
17 6 0.20
18 6 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTATATTATATAAA
Found at i:2785025 original size:21 final size:21
Alignment explanation
Indices: 2784999--2785052 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
2784989 TTGTTTTTAA
2784999 ATATATTAATTTTAATATTAT
1 ATATATTAATTTTAATATTAT
*** *
2785020 ATATATTAAACGTAATTTTAT
1 ATATATTAATTTTAATATTAT
2785041 ATAT-TTAATTTT
1 ATATATTAATTTT
2785053 TTAATTTATT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATATATTAATTTTAATATTAT
Found at i:2786111 original size:193 final size:193
Alignment explanation
Indices: 2785671--2786250 Score: 914
Period size: 193 Copynumber: 3.0 Consensus size: 193
2785661 TATACAATTT
*
2785671 TTTGACATAAATACTAATATTTATTATGGATTTGTTTTCAAAATTTTTTTCATATATTATAAAAA
1 TTTGACATAAATACTAATATTTATTAGGGATTT-TTTTCAAAATTTTTTTCATATATTATAAAAA
* * * *
2785736 TAATTCATTAAATTCAACGTATAATATTAATTTAACCAATTAA-TTT-TCTCATTTATCGTCATT
65 TAATTCATTGAATTCAATGTATAATATTAATTTAACCAATTAATTTTATCTCATTCATCTTCATT
* *
2785799 CATTATGTGTAATATAATATATTAA-TTTATCTCAGCATCATTCATTAAATTTAATATAATATA
130 CATTGTGTGTAATATAATATATTAATTTTATCTCAGCCTCATTCATTAAATTTAATATAATATA
* *
2785862 TTTGACATAAATACTAATATTTATTATGAGTTTTTTTTCAAAATTTTTTTCATATATTATAAAAA
1 TTTGACATAAATACTAATATTTATTA-GGGATTTTTTTCAAAATTTTTTTCATATATTATAAAAA
*
2785927 TAATTCATTGAATTAAATGTATAATATTAATTTAACCAATTAATTTTATCTCATTCATCTTCATT
65 TAATTCATTGAATTCAATGTATAATATTAATTTAACCAATTAATTTTATCTCATTCATCTTCATT
*
2785992 CATTGTGTGTAATATAATATATTAATTTTATCTTAGCCTCATTCATTAAATTTAATATAATATA
130 CATTGTGTGTAATATAATATATTAATTTTATCTCAGCCTCATTCATTAAATTTAATATAATATA
* ***
2786056 TTTGACATAAATACTAATATTTATTAGGGGTTTTTTTCAAAAAAATTTTCATATATTATAAAAAT
1 TTTGACATAAATACTAATATTTATTAGGGATTTTTTTCAAAATTTTTTTCATATATTATAAAAAT
* * * *
2786121 AATTCATTGAATTCAATGTATAATATTAATTTAATCATTTAATTTTATCACATTCATTTTCATTC
66 AATTCATTGAATTCAATGTATAATATTAATTTAACCAATTAATTTTATCTCATTCATCTTCATTC
* * * *
2786186 ATTGTGTGTAATATAATATATTAATCTTATCTCAACCTCATTTATTGAATTTAATATAATATA
131 ATTGTGTGTAATATAATATATTAATTTTATCTCAGCCTCATTCATTAAATTTAATATAATATA
2786249 TT
1 TT
2786251 AATTTCGTTC
Statistics
Matches: 359, Mismatches: 26, Indels: 6
0.92 0.07 0.02
Matches are distributed among these distances:
191 97 0.27
192 7 0.02
193 193 0.54
194 62 0.17
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.47
Consensus pattern (193 bp):
TTTGACATAAATACTAATATTTATTAGGGATTTTTTTCAAAATTTTTTTCATATATTATAAAAAT
AATTCATTGAATTCAATGTATAATATTAATTTAACCAATTAATTTTATCTCATTCATCTTCATTC
ATTGTGTGTAATATAATATATTAATTTTATCTCAGCCTCATTCATTAAATTTAATATAATATA
Found at i:2786332 original size:86 final size:89
Alignment explanation
Indices: 2786233--2786417 Score: 250
Period size: 89 Copynumber: 2.1 Consensus size: 89
2786223 TCATTTATTG
* * * * *
2786233 AATTTAATATAATATATTAATTTCGTTCA-T-TATTT-TTTAATTACATTTTAATTCTTTTTAGT
1 AATTTAATATAATATATTAATTTCATTCATTGTATTTCTTTAATTACATTTCAACTCTTTGTAAT
*
2786295 AGAATTTAAATAGTTTAATTACTA
66 AGAATTTAAATAGTTAAATTACTA
* * *
2786319 AATTTAATATAATATATTAATTTTATTCATTGTTTTTCTTTAATTTCATTTCAACTCTTTGTAAT
1 AATTTAATATAATATATTAATTTCATTCATTGTATTTCTTTAATTACATTTCAACTCTTTGTAAT
2786384 AGAATTTAAATAGTTAAATTACTA
66 AGAATTTAAATAGTTAAATTACTA
2786408 ATATATTAAT
1 A-AT-TTAAT
2786418 TTTATCTTAA
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
86 27 0.32
87 1 0.01
88 4 0.05
89 46 0.54
90 2 0.02
91 5 0.06
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.52
Consensus pattern (89 bp):
AATTTAATATAATATATTAATTTCATTCATTGTATTTCTTTAATTACATTTCAACTCTTTGTAAT
AGAATTTAAATAGTTAAATTACTA
Found at i:2786484 original size:52 final size:54
Alignment explanation
Indices: 2786418--2786528 Score: 154
Period size: 57 Copynumber: 2.0 Consensus size: 54
2786408 ATATATTAAT
* *
2786418 TTTATCTTAATC-T-TATAATATAATATATTAATTTCATTCATTGCTTTTTGAA
1 TTTATCTCAATCTTATATAATATAATATATTAATTTCATTCATTACTTTTTGAA
*
2786470 TTTATCTCAGTCTTATAATATAATATAATATATTAATTTCATTCATTACTTTTTGAA
1 TTTATCTCAATC-T-T-ATATAATATAATATATTAATTTCATTCATTACTTTTTGAA
2786527 TT
1 TT
2786529 ACGTTTTAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
52 10 0.20
55 1 0.02
57 40 0.78
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (54 bp):
TTTATCTCAATCTTATATAATATAATATATTAATTTCATTCATTACTTTTTGAA
Found at i:2786933 original size:56 final size:50
Alignment explanation
Indices: 2786833--2786959 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 50
2786823 AATTAATAAA
** *
2786833 AATATAATATAAAAATTATTACCAACTAATATTTTCTCATTCATTGAATTAAAATTT
1 AATATAATATATTAATT-TTAACAACTAATATTTTCTCATTCATTG--TT----TTT
2786890 AATATAATATATTAATTTTAACAA-TAA-ATTTTATCTCATTCATTGTTTTT
1 AATATAATATATTAATTTTAACAACTAATA-TTT-TCTCATTCATTGTTTTT
2786940 AATATAATATATTAATTTTA
1 AATATAATATATTAATTTTA
2786960 TCTCAATCTA
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
50 23 0.35
54 3 0.05
55 6 0.09
56 18 0.28
57 15 0.23
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (50 bp):
AATATAATATATTAATTTTAACAACTAATATTTTCTCATTCATTGTTTTT
Found at i:2788324 original size:23 final size:22
Alignment explanation
Indices: 2788282--2788368 Score: 104
Period size: 22 Copynumber: 3.9 Consensus size: 22
2788272 AATATAAATT
*
2788282 TAAACTTAAA-CCCATTTAAACC
1 TAAAC-TAAAGCCCATCTAAACC
*
2788304 TAAAGTAAAAGCCCATCTAAACC
1 TAAACT-AAAGCCCATCTAAACC
*
2788327 TAAACTCAAGCCCATCTAAACC
1 TAAACTAAAGCCCATCTAAACC
* *
2788349 TAAACTCAAGCTCATCTAAA
1 TAAACTAAAGCCCATCTAAA
2788369 TCGAAAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
21 1 0.02
22 41 0.71
23 16 0.28
ACGTcount: A:0.45, C:0.29, G:0.05, T:0.22
Consensus pattern (22 bp):
TAAACTAAAGCCCATCTAAACC
Found at i:2788815 original size:37 final size:34
Alignment explanation
Indices: 2788761--2788828 Score: 109
Period size: 37 Copynumber: 1.9 Consensus size: 34
2788751 CCTTACAACA
2788761 CTATCTTTTAAAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTAAAGGCTAAGATAG-AACCTCTCTCT
2788796 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTT-AAAGGCTAAGATAGAACCTCTC
2788829 AATCACTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
35 5 0.16
36 12 0.39
37 14 0.45
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.34
Consensus pattern (34 bp):
CTATCTTTTAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2789328 original size:26 final size:22
Alignment explanation
Indices: 2789269--2789311 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2789259 TTAAATAGTG
2789269 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
2789291 TGAACAGTGATGTATCGATAC
1 TGAACAGTGATGTATCGATAC
2789312 TGTGATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (22 bp):
TGAACAGTGATGTATCGATACA
Found at i:2789394 original size:22 final size:22
Alignment explanation
Indices: 2789368--2789436 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
2789358 ATGTACAGTG
*
2789368 ATGAACAGTGATGTATCGATAT
1 ATGAACAGTGATGTATCGATAC
*
2789390 ATGAACAGTGATGTATTGATAC
1 ATGAACAGTGATGTATCGATAC
*
2789412 ATGAACAGTGATTTTATCGATAC
1 ATGAACAGTGA-TGTATCGATAC
2789435 AT
1 AT
2789437 AGATAGTGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 31 0.74
23 11 0.26
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.33
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:2789594 original size:13 final size:13
Alignment explanation
Indices: 2789576--2789600 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2789566 CTGCCAGTTT
2789576 ATGTATCGATACA
1 ATGTATCGATACA
2789589 ATGTATCGATAC
1 ATGTATCGATAC
2789601 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2790917 original size:16 final size:17
Alignment explanation
Indices: 2790889--2790931 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2790879 TGATAGTAAT
2790889 TAAAAATAATTTTAT-AG
1 TAAAAA-AATTTTATGAG
* *
2790906 TTAAAAAATTTTTTGAG
1 TAAAAAAATTTTATGAG
2790923 TAAAAAAAT
1 TAAAAAAAT
2790932 AAAAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (17 bp):
TAAAAAAATTTTATGAG
Found at i:2794562 original size:52 final size:52
Alignment explanation
Indices: 2794409--2794542 Score: 223
Period size: 52 Copynumber: 2.6 Consensus size: 52
2794399 AGTCCCGAAA
*
2794409 TATGAAAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATC
1 TATGCAAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATC
** *
2794461 TGGGCAAATTTGCCTGTATGTATCGATACATTTCATAGTATATCGATACATC
1 TATGCAAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATC
*
2794513 TATGCAAATTTGCCTGCATGTATCGATACA
1 TATGCAAATTTGCCTGTATGTATCGATACA
2794543 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (52 bp):
TATGCAAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATC
Found at i:2794569 original size:13 final size:13
Alignment explanation
Indices: 2794551--2794575 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2794541 CAAAGATCAG
2794551 TGTATCGATACAA
1 TGTATCGATACAA
2794564 TGTATCGATACA
1 TGTATCGATACA
2794576 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2794665 original size:13 final size:13
Alignment explanation
Indices: 2794647--2794671 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2794637 ACAAAGCTTA
2794647 TGTATCGATACAT
1 TGTATCGATACAT
2794660 TGTATCGATACA
1 TGTATCGATACA
2794672 AATCGTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2794750 original size:21 final size:21
Alignment explanation
Indices: 2794709--2794750 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2794699 GTTGGGACCT
* *
2794709 TGTATCGATACATTTTAACAA
1 TGTAGCGATACATTTGAACAA
*
2794730 TGTAGCGATACATTTGGACAA
1 TGTAGCGATACATTTGAACAA
2794751 AAATGTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (21 bp):
TGTAGCGATACATTTGAACAA
Found at i:2795092 original size:17 final size:18
Alignment explanation
Indices: 2795060--2795093 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2795050 TGTATATTCA
*
2795060 TGTTGTATTTATGTTTTT
1 TGTTGTATTCATGTTTTT
2795078 TGTTGTA-TCATGTTTT
1 TGTTGTATTCATGTTTT
2795094 AATTATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.12, C:0.03, G:0.18, T:0.68
Consensus pattern (18 bp):
TGTTGTATTCATGTTTTT
Found at i:2795099 original size:28 final size:29
Alignment explanation
Indices: 2795057--2795112 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
2795047 TATTGTATAT
*
2795057 TCATGTTGTATTTATGTTT-TT-TGTTGTA
1 TCATGTTGTAATTAT-TTTGTTATGTTGTA
*
2795085 TCATGTTTTAATTATTTTGTTATGTTGT
1 TCATGTTGTAATTATTTTGTTATGTTGT
2795113 GTTTGAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 3 0.12
28 15 0.62
29 6 0.25
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (29 bp):
TCATGTTGTAATTATTTTGTTATGTTGTA
Found at i:2796807 original size:78 final size:78
Alignment explanation
Indices: 2796669--2796864 Score: 252
Period size: 78 Copynumber: 2.5 Consensus size: 78
2796659 ACAACGGGGC
* * * * * *
2796669 TGGAGTATCCTCGATTATGGAAAAGC-AGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCTCT
1 TGGAGTATCCCCGATTAT-GAAAATCGA-TGATTTGAAAATAAAATCGAGGTTGGAGTATCCCCT
2796733 CGAAAATAACAGGGT
64 CGAAAATAACAGGGT
*
2796748 TGGAGTATCCCCGATTATAGAAAATCGAT-ATTTGAAAATAAAATCGAGTTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTAT-GAAAATCGATGATTTGAAAATAAAATCGAGGTTGGAGTATCCCCTC
*
2796812 GAAAATAACTGGGT
65 GAAAATAACAGGGT
*
2796826 TGGAGTATCCCCGATTATGAAAAATCGATGCTTTAGAAA
1 TGGAGTATCCCCGATTATG-AAAATCGATGATTT-GAAA
2796865 TAAGGCAGGA
Statistics
Matches: 103, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
77 1 0.01
78 70 0.68
79 27 0.26
80 5 0.05
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (78 bp):
TGGAGTATCCCCGATTATGAAAATCGATGATTTGAAAATAAAATCGAGGTTGGAGTATCCCCTCG
AAAATAACAGGGT
Found at i:2796887 original size:51 final size:51
Alignment explanation
Indices: 2796824--2796939 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 51
2796814 AAATAACTGG
* * *
2796824 GTTGGAGTATCCCCGATTATGAAAAATCGATGCTTTAGAAATAAGGCAGGA
1 GTTGGAGTATCCCCGATTATGAAAAATCAATACTTTAGAAATAAAGCAGGA
* * * * ** *
2796875 GTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGTTGGG
1 GTTGGAGTATCCCCGATTATGAAAAATCAATACTTTAGAAATAAAGCAGGA
2796926 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
2796940 TTAGAAATAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATCAATACTTTAGAAATAAAGCAGGA
Found at i:2796978 original size:130 final size:128
Alignment explanation
Indices: 2796742--2796978 Score: 343
Period size: 130 Copynumber: 1.8 Consensus size: 128
2796732 TCGAAAATAA
* *
2796742 CAGGGTTGGAGTATCCCCGATTATAGAAAATCGATATTTGAAAATAAAATCGAGTTTGGAGTATC
1 CAGGGTTGGAGTATCCCCGATTATAGAAAATCAATATTTGAAAATAAAATCGAGGTTGGAGTATC
* *
2796807 CCCTCGAAAATAACTGGGTTGGAGTATCCCCGATTATGAAAAATCGATGCTTTAGAAATAAGG
66 CCCTAGAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATGCTTTAGAAATAAGG
* * * * *
2796870 CAGGAGTTGGAGTATCCCCGATTGT-GAGAAATCAATATTTTGGAAATAAAGTTGGGGTTGGAGT
1 CAGG-GTTGGAGTATCCCCGATTATAGA-AAATCAATA-TTTGAAAATAAAATCGAGGTTGGAGT
2796934 ATCCCCTTAG-AAATAACAGGGTTGGAGTATCCCCGATTATGAAAA
63 ATCCCC-TAGAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAA
2796979 CTTGATATTT
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
128 6 0.06
129 27 0.28
130 61 0.64
131 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (128 bp):
CAGGGTTGGAGTATCCCCGATTATAGAAAATCAATATTTGAAAATAAAATCGAGGTTGGAGTATC
CCCTAGAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATGCTTTAGAAATAAGG
Found at i:2796996 original size:130 final size:126
Alignment explanation
Indices: 2796734--2797017 Score: 331
Period size: 130 Copynumber: 2.2 Consensus size: 126
2796724 GTATCCTCTC
* *
2796734 GAAAATAACAGGGTTGGAGTATCCCCGATTATAGAAAATCGATATTTGAAAATAAAATCGAGTTT
1 GAAAATAACAGGGTTGGAGTATCCCCGATTATAGAAAATCAATATTTGAAAATAAAATCGAGGTT
* * *
2796799 GGAGTATCCCCTCGAAAATAACTGGGTTGGAGTATCCCCGATTATGAAAAATCGATGCTTT
66 GGAGTATCCCCTAGAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATACTTT
* * * *
2796860 -AGAAATAAGGCAGGAGTTGGAGTATCCCCGATTGT-GAGAAATCAATATTTTGGAAATAAAGTT
1 GA-AAATAA--CAGG-GTTGGAGTATCCCCGATTATAGA-AAATCAATA-TTTGAAAATAAAATC
* * * *
2796923 GGGGTTGGAGTATCCCCTTAG-AAATAACAGGGTTGGAGTATCCCCGATTATGAAAACTTGATAT
60 GAGGTTGGAGTATCCCC-TAGAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATAC
2796987 TTT
124 TTT
*
2796990 GAAAATAAAACCGAGGTTGGAGTATCCC
1 GAAAAT--AACAG-GGTTGGAGTATCCC
2797018 TTCGGAAATA
Statistics
Matches: 133, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
125 1 0.01
126 6 0.05
128 6 0.05
129 27 0.20
130 87 0.65
131 4 0.03
132 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (126 bp):
GAAAATAACAGGGTTGGAGTATCCCCGATTATAGAAAATCAATATTTGAAAATAAAATCGAGGTT
GGAGTATCCCCTAGAAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATCGATACTTT
Found at i:2797069 original size:79 final size:79
Alignment explanation
Indices: 2796858--2797078 Score: 264
Period size: 79 Copynumber: 2.8 Consensus size: 79
2796848 AATCGATGCT
* ** ***
2796858 TTAGAAATAAGGCAGGAGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGTT
1 TTAGAAATAA--CAGG-GTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTGGAAATAAAACC
*
2796923 GGGGTTGGAGTATCCCC
63 GAGGTTGGAGTATCCCC
* * *
2796940 TTAGAAATAACAGGGTTGGAGTATCCCCGATTATGAAAACTTGATATTTTGAAAATAAAACCGAG
1 TTAGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTGGAAATAAAACCGAG
2797005 GTTGGAGTAT-CCC
66 GTTGGAGTATCCCC
* * * * *
2797018 TTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTGGAAATAAAA
1 TT-AGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTGGAAATAAAA
2797079 ACATAAATGA
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
78 5 0.04
79 101 0.84
80 4 0.03
82 10 0.08
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (79 bp):
TTAGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTGGAAATAAAACCGAG
GTTGGAGTATCCCC
Found at i:2799492 original size:13 final size:13
Alignment explanation
Indices: 2799474--2799498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2799464 GTAAACCTAG
2799474 AATGTATCGATAT
1 AATGTATCGATAT
2799487 AATGTATCGATA
1 AATGTATCGATA
2799499 CAATCAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:2799510 original size:20 final size:20
Alignment explanation
Indices: 2799487--2799561 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
2799477 GTATCGATAT
* *
2799487 AATGTATCGATACAATCAAT
1 AATGTATCGATACAATAAAC
* *
2799507 AATGTATTGATACAATGAAC
1 AATGTATCGATACAATAAAC
2799527 AATGTATCGATACAATAAAC
1 AATGTATCGATACAATAAAC
2799547 AATGTATCGATACAA
1 AATGTATCGATACAA
2799562 ATTGTGAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATAAAC
Found at i:2816130 original size:16 final size:16
Alignment explanation
Indices: 2816111--2816141 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2816101 GCAAAAGTTC
*
2816111 AAAATGAAAAAAGAAA
1 AAAATAAAAAAAGAAA
2816127 AAAATAAAAAAAGAA
1 AAAATAAAAAAAGAA
2816142 CAACAAGGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (16 bp):
AAAATAAAAAAAGAAA
Found at i:2817521 original size:32 final size:32
Alignment explanation
Indices: 2817485--2817545 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
2817475 TTCATAAGTA
2817485 TTTGCACTCACGAGCA-TTCTTATTCATGTGCC
1 TTTGCACTCACGAGCATTTC-TATTCATGTGCC
* *
2817517 TTTGCACTCATGTGCATTTCTATTCATGT
1 TTTGCACTCACGAGCATTTCTATTCATGT
2817546 CTTTTCATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 23 0.88
33 3 0.12
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.43
Consensus pattern (32 bp):
TTTGCACTCACGAGCATTTCTATTCATGTGCC
Found at i:2817543 original size:16 final size:17
Alignment explanation
Indices: 2817505--2817545 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
2817495 CGAGCATTCT
*
2817505 TATTCATGTGCCTTTGC
1 TATTCATGTGCATTTGC
*
2817522 -ACTCATGTGCATTT-C
1 TATTCATGTGCATTTGC
2817537 TATTCATGT
1 TATTCATGT
2817546 CTTTTCATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.95
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (17 bp):
TATTCATGTGCATTTGC
Found at i:2817636 original size:32 final size:32
Alignment explanation
Indices: 2817595--2817673 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
2817585 CAGTCACATT
* *
2817595 CATTCTTATTTATGTGCC-TTCGCACTTT-TAAG
1 CATTCTTATTCATGT-CCATTCGCA-TTTACAAG
2817627 CATTCTTATTCATGTCCATTCGCATTTACAAG
1 CATTCTTATTCATGTCCATTCGCATTTACAAG
* *
2817659 CATTCATACTCATGT
1 CATTCTTATTCATGT
2817674 GTAATCGCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 5 0.12
32 36 0.88
ACGTcount: A:0.23, C:0.24, G:0.10, T:0.43
Consensus pattern (32 bp):
CATTCTTATTCATGTCCATTCGCATTTACAAG
Found at i:2817856 original size:16 final size:16
Alignment explanation
Indices: 2817835--2817919 Score: 64
Period size: 16 Copynumber: 5.3 Consensus size: 16
2817825 TTATTCTTTC
2817835 CATTCATATGCATTCT
1 CATTCATATGCATTCT
*
2817851 CATTCATAAGCATT-T
1 CATTCATATGCATTCT
** *
2817866 GCATTCACGTGTATTCT
1 -CATTCATATGCATTCT
* * * * *
2817883 TATTGACATGCCTTCA
1 CATTCATATGCATTCT
*
2817899 CATTTATATGCATTCT
1 CATTCATATGCATTCT
2817915 CATTC
1 CATTC
2817920 CTGTCCTTTC
Statistics
Matches: 50, Mismatches: 17, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
15 1 0.02
16 48 0.96
17 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.09, T:0.42
Consensus pattern (16 bp):
CATTCATATGCATTCT
Found at i:2818474 original size:35 final size:34
Alignment explanation
Indices: 2818406--2818474 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
2818396 TAAAAACTCC
** * *
2818406 CAAAGCCTTTCTTGTAGATACTTATCATACATTT
1 CAAAGCCTTTCTTAAAGACACTTATCAAACATTT
*
2818440 CAAAGCCTTTCTTAAAGACATTCTATCAAACATTT
1 CAAAGCCTTTCTTAAAGACACT-TATCAAACATTT
2818475 TAGAACTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (34 bp):
CAAAGCCTTTCTTAAAGACACTTATCAAACATTT
Found at i:2818856 original size:51 final size:52
Alignment explanation
Indices: 2818787--2819754 Score: 788
Period size: 51 Copynumber: 18.9 Consensus size: 52
2818777 AAAACTAGTT
*
2818787 GGCACCTATATAGGGAGGTCAAGCCCTATAGAATCCAAGTCCACACTAG-TA
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCCAAGTCCACACTAGCTA
* * *
2818838 GGCACCTATATAGGGAGGTCAAGCCCTATA-AAACCTAAAGTCCACACTAGTTA
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCC--AAGTCCACACTAGCTA
* * **
2818891 -GCACTTGTATATGGAGGTTGAGCCCTATAGAA-CCTAAAGTCCACACTAGCTA
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCC--AAGTCCACACTAGCTA
* * * *
2818943 -GCACCTGTATATGGATGTCAA-CTCTATAGAATCCACGTCCACACTAGCT-
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCCAAGTCCACACTAGCTA
* ** * * * * *
2818992 GGCACCTGCATAAAGAGGTCAAGCCTTAGAGAATCCAACTCCAAACTA-CTT
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCCAAGTCCACACTAGCTA
2819043 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCCAAGTCCACACTAGC-A
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCCAAGTCCACACTAGCTA
* * *
2819094 GGCACCTATATAGGGAGGTCAAGCCCTATA-AAACCTAAAGTCCACACTAG-TT
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCC--AAGTCCACACTAGCTA
* * * * * * *
2819146 GGCACTTGTATATGGAGGTTAAGCCGTATAGAACCCACGTCCACACTGGCT-
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCCAAGTCCACACTAGCTA
* * * * *
2819197 GGCACTTGCATAGAGAGGTCAAGCCCTATAGAATTCAAGTCCACATTAGCTA
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCCAAGTCCACACTAGCTA
* ** * *
2819249 -GCATCTGTATAAAGAGGTCAAGCCCTATAGAA-CCTAAAGTCCATATTAGCT-
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCC--AAGTCCACACTAGCTA
* * * * *
2819300 GGCACCTATATAGGGAGGACAAGCCCTATAGAAAT-CAAGTCTACAGTAGGT-
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAG-AATCCAAGTCCACACTAGCTA
* ** *** * * *
2819351 GACATTTGTATAAAAAGGTTAAGCCCTATAGAA-CCTGAAGTCCACATTAACT-
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCC--AAGTCCACACTAGCTA
* * * ** *
2819403 GACATCTGTATAAGGAGGTCAAGCAATATAGAATCCAAGTCCACACTTAGTTA
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCCAAGTCCACAC-TAGCTA
* * *
2819456 -GCACTTGTATAGAGAGGTCAAGCCCTATAGAATCTAAAGTCCACACTAGCT-
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATC-CAAGTCCACACTAGCTA
** * * * *
2819507 GGCATTTGTATAGAGAGGTCAAGCCCTATAAAATCTAAGTCCACACTAACTA
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCCAAGTCCACACTAGCTA
* * * *
2819559 -GCACCTGCATAAGGAGGTCAAGCCCTATAAAATCTAAGTCCACACTAGCT-
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCCAAGTCCACACTAGCTA
* * * ** * *
2819609 TGCACCTGTATAGGGAGGTCAAGCTCTATACAGCCCAAAGTCTACATTAGCTA
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCC-AAGTCCACACTAGCTA
* * * * *
2819662 -GCACCTATATAGAGAGGT----CCCTATAGAATCTAAGTCCACACTCGTTA
1 GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCCAAGTCCACACTAGCTA
* * * *
2819709 -GCACCTTTATAAGGAGGTCACAAACCCTATAGAACCCAAGTCCACA
1 GGCACCTGTATAGGGAGGT--CAAGCCCTATAGAATCCAAGTCCACA
2819755 ATAGTTGGTG
Statistics
Matches: 746, Mismatches: 133, Indels: 74
0.78 0.14 0.08
Matches are distributed among these distances:
47 27 0.04
48 8 0.01
50 45 0.06
51 336 0.45
52 287 0.38
53 43 0.06
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (52 bp):
GGCACCTGTATAGGGAGGTCAAGCCCTATAGAATCCAAGTCCACACTAGCTA
Found at i:2818970 original size:103 final size:102
Alignment explanation
Indices: 2818780--2819754 Score: 814
Period size: 103 Copynumber: 9.5 Consensus size: 102
2818770 AAAAAAAAAA
* *
2818780 ACTAGTTGGCACCTATATAGGGAGGTCAAGCCCTATAGAATCC-AAGTCCACACTAG-TAGGCAC
1 ACTAGCTGGCACCTGTATAGGGAGGTCAAGCCCTATAGAA-CCTAAGTCCACACTAGCTA-GCAC
* * *
2818843 CTATATAGGGAGGTCAAGCCCTATAAAACCTAAAGTCCAC
64 CTGTATAAGGAGGTCAAGCCCTATAGAACCT-AAGTCCAC
* * * * **
2818883 ACTAGTTAGCACTTGTATATGGAGGTTGAGCCCTATAGAACCTAAAGTCCACACTAGCTAGCACC
1 ACTAGCTGGCACCTGTATAGGGAGGTCAAGCCCTATAGAACCT-AAGTCCACACTAGCTAGCACC
* * * *
2818948 TGTATATGGATGTCAA-CTCTATAGAATCC-ACGTCCAC
65 TGTATAAGGAGGTCAAGCCCTATAGAA-CCTAAGTCCAC
* ** * * * * *
2818985 ACTAGCTGGCACCTGCATAAAGAGGTCAAGCCTTAGAGAATCC-AACTCCAAACTA-CTTGGCAC
1 ACTAGCTGGCACCTGTATAGGGAGGTCAAGCCCTATAGAA-CCTAAGTCCACACTAGC-TAGCAC
*
2819048 CTGTATAGGGAGGTCAAGCCCTATAGAATCC-AAGTCCAC
64 CTGTATAAGGAGGTCAAGCCCTATAGAA-CCTAAGTCCAC
* * * * * *
2819087 ACTAGCAGGCACCTATATAGGGAGGTCAAGCCCTATAAAACCTAAAGTCCACACTAGTTGGCACT
1 ACTAGCTGGCACCTGTATAGGGAGGTCAAGCCCTATAGAACCT-AAGTCCACACTAGCTAGCACC
* * * * *
2819152 TGTATATGGAGGTTAAGCCGTATAGAACCCACGTCCAC
65 TGTATAAGGAGGTCAAGCCCTATAGAACCTAAGTCCAC
* * * * * * *
2819190 ACTGGCTGGCACTTGCATAGAGAGGTCAAGCCCTATAGAA-TTCAAGTCCACATTAGCTAGCATC
1 ACTAGCTGGCACCTGTATAGGGAGGTCAAGCCCTATAGAACCT-AAGTCCACACTAGCTAGCACC
* *
2819254 TGTATAAAGAGGTCAAGCCCTATAGAACCTAAAGTCCAT
65 TGTATAAGGAGGTCAAGCCCTATAGAACCT-AAGTCCAC
* * * * * * * *
2819293 ATTAGCTGGCACCTATATAGGGAGGACAAGCCCTATAGAA-ATCAAGTCTACAGTAGGT-GACAT
1 ACTAGCTGGCACCTGTATAGGGAGGTCAAGCCCTATAGAACCT-AAGTCCACACTAGCTAG-CAC
* ** *
2819356 TTGTATAAAAAGGTTAAGCCCTATAGAACCTGAAGTCCAC
64 CTGTATAAGGAGGTCAAGCCCTATAGAACCT-AAGTCCAC
* * * * * ** *
2819396 ATTAACTGACATCTGTATAAGGAGGTCAAGCAATATAGAATCC-AAGTCCACACTTAGTTAGCAC
1 ACTAGCTGGCACCTGTATAGGGAGGTCAAGCCCTATAGAA-CCTAAGTCCACAC-TAGCTAGCAC
* *
2819460 TTGTAT-AGAGAGGTCAAGCCCTATAGAATCTAAAGTCCAC
64 CTGTATAAG-GAGGTCAAGCCCTATAGAACCT-AAGTCCAC
** * * * *
2819500 ACTAGCTGGCATTTGTATAGAGAGGTCAAGCCCTATAAAATCTAAGTCCACACTAACTAGCACCT
1 ACTAGCTGGCACCTGTATAGGGAGGTCAAGCCCTATAGAACCTAAGTCCACACTAGCTAGCACCT
* * *
2819565 GCATAAGGAGGTCAAGCCCTATAAAATCTAAGTCCAC
66 GTATAAGGAGGTCAAGCCCTATAGAACCTAAGTCCAC
* * * * * * *
2819602 ACTAGCTTGCACCTGTATAGGGAGGTCAAGCTCTATACAGCCCAAAGTCTACATTAGCTAGCACC
1 ACTAGCTGGCACCTGTATAGGGAGGTCAAGCCCTATAGA-ACCTAAGTCCACACTAGCTAGCACC
* *
2819667 TATAT-AGAGAGGT----CCCTATAGAATCTAAGTCCAC
65 TGTATAAG-GAGGTCAAGCCCTATAGAACCTAAGTCCAC
* * * * * * *
2819701 ACTCGTTAGCACCTTTATAAGGAGGTCACAAACCCTATAGAACCCAAGTCCACA
1 ACTAGCTGGCACCTGTATAGGGAGGT--CAAGCCCTATAGAACCTAAGTCCACA
2819755 ATAGTTGGTG
Statistics
Matches: 707, Mismatches: 141, Indels: 51
0.79 0.16 0.06
Matches are distributed among these distances:
99 41 0.06
100 11 0.02
101 42 0.06
102 178 0.25
103 317 0.45
104 115 0.16
105 3 0.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (102 bp):
ACTAGCTGGCACCTGTATAGGGAGGTCAAGCCCTATAGAACCTAAGTCCACACTAGCTAGCACCT
GTATAAGGAGGTCAAGCCCTATAGAACCTAAGTCCAC
Found at i:2819137 original size:154 final size:152
Alignment explanation
Indices: 2818788--2819754 Score: 832
Period size: 154 Copynumber: 6.3 Consensus size: 152
2818778 AAACTAGTTG
* * * *
2818788 GCACCTATATAGGGAGGTCAAGCCCTATAGAATCCAAGTCCACACTAG-TAGGCACCTATATAGG
1 GCACCTGTATAAGGAGGTCAAGCCCTATAGAAACCAAGTCCACACTAGCT-GGCACCTGTATAGG
* * * **
2818852 GAGGTCAAGCCCTATA-AAACCTAAAGTCCACACTAGTTAGCACTTGTATATG-GAGGTTGAGCC
65 GAGGTCAAGCCCTATAGAATCC--AAGTCCACACTA-CTGGCACTTGTATA-GAGAGGTCAAGCC
2818915 CTATAGAA-CCTAAAGTCCACACTAGCTA
126 CTATAGAATCC--AAGTCCACACTAGCTA
* * * * * * **
2818943 GCACCTGTATATGGATGTCAA-CTCTATAGAATCCACGTCCACACTAGCTGGCACCTGCATAAAG
1 GCACCTGTATAAGGAGGTCAAGCCCTATAGAAACCAAGTCCACACTAGCTGGCACCTGTATAGGG
* * * * * *
2819007 AGGTCAAGCCTTAGAGAATCCAACTCCAAACTACTTGGCACCTGTATAGGGAGGTCAAGCCCTAT
66 AGGTCAAGCCCTATAGAATCCAAGTCCACACTAC-TGGCACTTGTATAGAGAGGTCAAGCCCTAT
2819072 AGAATCCAAGTCCACACTAGC-A
130 AGAATCCAAGTCCACACTAGCTA
* * * *
2819094 GGCACCTATATAGGGAGGTCAAGCCCTATA-AAACCTAAAGTCCACACTAGTTGGCACTTGTATA
1 -GCACCTGTATAAGGAGGTCAAGCCCTATAGAAACC--AAGTCCACACTAGCTGGCACCTGTATA
* * * * * * *
2819158 TGGAGGTTAAGCCGTATAGAACCCACGTCCACACTGGCTGGCACTTGCATAGAGAGGTCAAGCCC
63 GGGAGGTCAAGCCCTATAGAATCCAAGTCCACACT-ACTGGCACTTGTATAGAGAGGTCAAGCCC
* *
2819223 TATAGAATTCAAGTCCACATTAGCTA
127 TATAGAATCCAAGTCCACACTAGCTA
* * * * *
2819249 GCATCTGTATAAAGAGGTCAAGCCCTATAG-AACCTAAAGTCCATATTAGCTGGCACCTATATAG
1 GCACCTGTATAAGGAGGTCAAGCCCTATAGAAACC--AAGTCCACACTAGCTGGCACCTGTATAG
* * * * * * * * *
2819313 GGAGGACAAGCCCTATAGAAAT-CAAGTCTACAGTAGGTGACATTTGTATAAAAAGGTTAAGCCC
64 GGAGGTCAAGCCCTATAG-AATCCAAGTCCACACTA-CTGGCACTTGTATAGAGAGGTCAAGCCC
* *
2819377 TATAGAA-CCTGAAGTCCACATTAACT-
127 TATAGAATCC--AAGTCCACACTAGCTA
* ** * * * *
2819403 GACATCTGTATAAGGAGGTCAAGCAATATAGAATCCAAGTCCACACTTAGTTAGCACTTGTATAG
1 G-CACCTGTATAAGGAGGTCAAGCCCTATAGAAACCAAGTCCACAC-TAGCTGGCACCTGTATAG
* * *
2819468 AGAGGTCAAGCCCTATAGAATCTAAAGTCCACACTAGCTGGCATTTGTATAGAGAGGTCAAGCCC
64 GGAGGTCAAGCCCTATAGAATC-CAAGTCCACACTA-CTGGCACTTGTATAGAGAGGTCAAGCCC
* * *
2819533 TATAAAATCTAAGTCCACACTAACTA
127 TATAGAATCCAAGTCCACACTAGCTA
* * *
2819559 GCACCTGCATAAGGAGGTCAAGCCCTATA-AAATCTAAGTCCACACTAGCTTGCACCTGTATAGG
1 GCACCTGTATAAGGAGGTCAAGCCCTATAGAAA-CCAAGTCCACACTAGCTGGCACCTGTATAGG
* * ** * * * * *
2819623 GAGGTCAAGCTCTATACAGCCCAAAGTCTACATTAGCTAGCACCTATATAGAGAGGT----CCCT
65 GAGGTCAAGCCCTATAGAATCC-AAGTCCACACTA-CTGGCACTTGTATAGAGAGGTCAAGCCCT
* * *
2819684 ATAGAATCTAAGTCCACACTCGTTA
128 ATAGAATCCAAGTCCACACTAGCTA
* * *
2819709 GCACCTTTATAAGGAGGTCACAAACCCTATAGAACCCAAGTCCACA
1 GCACCTGTATAAGGAGGT--CAAGCCCTATAGAAACCAAGTCCACA
2819755 ATAGTTGGTG
Statistics
Matches: 661, Mismatches: 123, Indels: 59
0.78 0.15 0.07
Matches are distributed among these distances:
150 41 0.06
151 1 0.00
152 57 0.09
153 47 0.07
154 324 0.49
155 146 0.22
156 44 0.07
157 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (152 bp):
GCACCTGTATAAGGAGGTCAAGCCCTATAGAAACCAAGTCCACACTAGCTGGCACCTGTATAGGG
AGGTCAAGCCCTATAGAATCCAAGTCCACACTACTGGCACTTGTATAGAGAGGTCAAGCCCTATA
GAATCCAAGTCCACACTAGCTA
Found at i:2822494 original size:20 final size:20
Alignment explanation
Indices: 2822457--2822503 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
2822447 CTAAACGCTC
*
2822457 TTAAAAA-ATTAGTTTTAA-
1 TTAAAAATAATAGTTTTAAT
2822475 TTAAAAATAATAGATTTTAAT
1 TTAAAAATAATAG-TTTTAAT
2822496 TTAAAAAT
1 TTAAAAAT
2822504 GATTTTTACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 7 0.28
19 4 0.16
20 6 0.24
21 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (20 bp):
TTAAAAATAATAGTTTTAAT
Found at i:2825851 original size:8 final size:8
Alignment explanation
Indices: 2825840--2825883 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
2825830 TCTTGTTCTC
2825840 TTTTTTGT
1 TTTTTTGT
2825848 TTTTTTGT
1 TTTTTTGT
*
2825856 TTGTTT-T
1 TTTTTTGT
*
2825863 TTATTTGT
1 TTTTTTGT
*
2825871 TTTTTTCT
1 TTTTTTGT
2825879 TTTTT
1 TTTTT
2825884 ATCTTTTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.86
Consensus pattern (8 bp):
TTTTTTGT
Found at i:2825858 original size:12 final size:12
Alignment explanation
Indices: 2825843--2825876 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
2825833 TGTTCTCTTT
*
2825843 TTTGTTTTTTTG
1 TTTGTTTTTTTA
2825855 TTTG-TTTTTTA
1 TTTGTTTTTTTA
2825866 TTTGTTTTTTT
1 TTTGTTTTTTT
2825877 CTTTTTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (12 bp):
TTTGTTTTTTTA
Found at i:2825864 original size:19 final size:19
Alignment explanation
Indices: 2825838--2825885 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
2825828 GTTCTTGTTC
*
2825838 TCTTTTTTGTTT-TTTTGTT
1 TCTTTTTTATTTGTTTT-TT
*
2825857 TGTTTTTTATTTGTTTTTT
1 TCTTTTTTATTTGTTTTTT
2825876 TCTTTTTTAT
1 TCTTTTTTAT
2825886 CTTTTTGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.04, C:0.04, G:0.08, T:0.83
Consensus pattern (19 bp):
TCTTTTTTATTTGTTTTTT
Found at i:2829386 original size:19 final size:18
Alignment explanation
Indices: 2829358--2829420 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
2829348 ATTTTCAGAA
*
2829358 TGTATTGATACATAAGTGT
1 TGTATCGATACATAAGT-T
2829377 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
2829390 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
2829409 TGTATCGATACA
1 TGTATCGATACA
2829421 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
15 2 0.05
17 2 0.05
19 22 0.59
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:2829395 original size:13 final size:13
Alignment explanation
Indices: 2829377--2829434 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
2829367 ACATAAGTGT
2829377 TGTATCGATACAA
1 TGTATCGATACAA
2829390 TGTATCGATACATAA
1 TGTATCGATAC--AA
2829405 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
*
2829422 TGTATCGCTACAA
1 TGTATCGATACAA
2829435 AGCTACTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2829400 original size:32 final size:32
Alignment explanation
Indices: 2829356--2829433 Score: 129
Period size: 32 Copynumber: 2.4 Consensus size: 32
2829346 ACATTTTCAG
*
2829356 AATGTATTGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
2829388 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
2829420 AATGTATCGCTACA
1 AATGTATCGATACA
2829434 AAGCTACTGC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:2843419 original size:1 final size:1
Alignment explanation
Indices: 2843413--2843528 Score: 70
Period size: 1 Copynumber: 116.0 Consensus size: 1
2843403 CGTCCTCCGC
* * * * * * * * * *
2843413 AAAAAAAAAAGAAGAAGAAGAAAAAAGAAAAAAAAGAAAAAAAAATAAACAAACAAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * * * * * *
2843478 AAAACAAAAAAAAACAAAAAACAAACAAAACAGAAAAAAAACAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2843529 GGTCCGGATG
Statistics
Matches: 79, Mismatches: 36, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.84, C:0.09, G:0.06, T:0.01
Consensus pattern (1 bp):
A
Found at i:2843445 original size:9 final size:9
Alignment explanation
Indices: 2843413--2843529 Score: 80
Period size: 9 Copynumber: 13.0 Consensus size: 9
2843403 CGTCCTCCGC
2843413 AAAAAAAA-
1 AAAAAAAAG
* *
2843421 AAGAAGAAG
1 AAAAAAAAG
2843430 AAGAAAAAAG
1 AA-AAAAAAG
2843440 AAAAAAAAG
1 AAAAAAAAG
2843449 AAAAAAAA-
1 AAAAAAAAG
* *
2843457 ATAAACAAAC
1 A-AAAAAAAG
*
2843467 AAAAAAAAC
1 AAAAAAAAG
*
2843476 AAAAAACA-
1 AAAAAAAAG
*
2843484 AAAAAAAAC
1 AAAAAAAAG
2843493 AAAAAACAA-
1 AAAAAA-AAG
* *
2843502 ACAAAACAG
1 AAAAAAAAG
*
2843511 AAAAAAAAC
1 AAAAAAAAG
2843520 AACAAAAAAG
1 AA-AAAAAAG
2843530 GTCCGGATGA
Statistics
Matches: 87, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
8 15 0.17
9 56 0.64
10 16 0.18
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.01
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:2843474 original size:37 final size:37
Alignment explanation
Indices: 2843433--2843528 Score: 117
Period size: 37 Copynumber: 2.6 Consensus size: 37
2843423 GAAGAAGAAG
* *
2843433 AAAAAAGAAAAAA-AAGAAAAAAA-AATAAACAAACAA
1 AAAAAACAAAAAACAA-AAAAAAACAAAAAACAAACAA
2843469 AAAAAACAAAAAACAAAAAAAAACAAAAAACAAACAA
1 AAAAAACAAAAAACAAAAAAAAACAAAAAACAAACAA
* *
2843506 AACAGAA-AAAAAACAACAAAAAA
1 AA-AAAACAAAAAACAAAAAAAAA
2843529 GGTCCGGATG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
36 19 0.36
37 31 0.58
38 3 0.06
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.01
Consensus pattern (37 bp):
AAAAAACAAAAAACAAAAAAAAACAAAAAACAAACAA
Found at i:2843507 original size:27 final size:25
Alignment explanation
Indices: 2843412--2843528 Score: 110
Period size: 27 Copynumber: 4.4 Consensus size: 25
2843402 GCGTCCTCCG
* *
2843412 CAAAAAAAAAAGAAGAAGAAGAAAAAA
1 CAAAAAAAAAA-AA-AACAAAAAAAAA
*
2843439 GAAAAAAAAGAAAAAA-AAATAAACAAA
1 CAAAAAAAA-AAAAAACAAA-AAA-AAA
2843466 CAAAAAAAACAAAAAACAAAAAAAAA
1 CAAAAAAAA-AAAAAACAAAAAAAAA
*
2843492 CAAAAAACAAACAAAACAGAAAAAAAA
1 CAAAAAA-AAAAAAAACA-AAAAAAAA
*
2843519 CAACAAAAAA
1 CAAAAAAAAA
2843529 GGTCCGGATG
Statistics
Matches: 78, Mismatches: 6, Indels: 13
0.80 0.06 0.13
Matches are distributed among these distances:
25 2 0.03
26 25 0.32
27 46 0.59
28 5 0.06
ACGTcount: A:0.84, C:0.09, G:0.06, T:0.01
Consensus pattern (25 bp):
CAAAAAAAAAAAAAACAAAAAAAAA
Found at i:2844993 original size:28 final size:28
Alignment explanation
Indices: 2844953--2845091 Score: 138
Period size: 28 Copynumber: 4.9 Consensus size: 28
2844943 CCTCACCCTG
2844953 TCAAAAGCCCACAAGTCAGTGGCAACCT
1 TCAAAAGCCCACAAGTCAGTGGCAACCT
*
2844981 TCAAAAGCCCACAAGTCAGTGGCACCCTTTT
1 TCAAAAGCCCACAAGTCAGTGGCAACC---T
* * * *
2845012 TC-GAAGCCCATAAGTCAGTGGCATCTTT
1 TCAAAAGCCCACAAGTCAGTGGCAAC-CT
*
2845040 TCCAAAGCCCACAAG-CTAGTGGCAACCT
1 TCAAAAGCCCACAAGTC-AGTGGCAACCT
* * *
2845068 TCAAAAGTCCACAACTCCGTGGCA
1 TCAAAAGCCCACAAGTCAGTGGCA
2845092 CATTTTTTCT
Statistics
Matches: 91, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
28 49 0.54
29 19 0.21
30 20 0.22
31 3 0.03
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.19
Consensus pattern (28 bp):
TCAAAAGCCCACAAGTCAGTGGCAACCT
Done.