Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 166 of 345
Found at i:56866159 original size:29 final size:29
Alignment explanation
Indices: 56866120--56866196 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
56866110 ATGATTTATG
*
56866120 AAAAGGATTCGGCCCAGTAACCGTTAAAC
1 AAAAGGCTTCGGCCCAGTAACCGTTAAAC
*
56866149 AAAAGGCTTCGGCCCAGTAACCGTTAAAT
1 AAAAGGCTTCGGCCCAGTAACCGTTAAAC
* *
56866178 GAAAGGCTTTGGCCCAGTA
1 AAAAGGCTTCGGCCCAGTA
56866197 TATGTCAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.19
Consensus pattern (29 bp):
AAAAGGCTTCGGCCCAGTAACCGTTAAAC
Found at i:56873274 original size:28 final size:29
Alignment explanation
Indices: 56873242--56873356 Score: 139
Period size: 29 Copynumber: 4.0 Consensus size: 29
56873232 TACCTGTATC
* *
56873242 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
56873270 TGGCCCATTAGGCCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCCAAATCACATT-CATA
*
56873299 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
56873328 T-GCCCTATTAGGCCC-AGTCACATTCATA
1 TGGCCC-ATTAGGCCCAAATCACATTCATA
56873356 T
1 T
56873357 TCATGCCCAC
Statistics
Matches: 78, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
28 32 0.41
29 44 0.56
30 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:56876309 original size:23 final size:23
Alignment explanation
Indices: 56876294--56876349 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
56876284 GCAGCGTAGC
56876294 TGCTAATAGTAACGCAGCAAAGT
1 TGCTAATAGTAACGCAGCAAAGT
56876317 TGCTAATAGTAACGCAGCAAAGT
1 TGCTAATAGTAACGCAGCAAAGT
56876340 TGCTAATAGT
1 TGCTAATAGT
56876350 GGTAAACGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (23 bp):
TGCTAATAGTAACGCAGCAAAGT
Found at i:56879188 original size:43 final size:43
Alignment explanation
Indices: 56879126--56879287 Score: 173
Period size: 43 Copynumber: 3.8 Consensus size: 43
56879116 ATACAATGTC
* * *
56879126 ATATCCCAGATATGGTCTTACATGTTATCACATATCGATGCCA
1 ATATCCCAGACATGGTCTTACATGTAATCACATATCAATGCCA
* * * *** * *
56879169 CTATCCCAGAAAAGGTCTTACACAAAATCATATAACAATGCCA
1 ATATCCCAGACATGGTCTTACATGTAATCACATATCAATGCCA
* *
56879212 ATGTCCCAGACATGGTCTTACATGTAATCA-AAATACAATGCCA
1 ATATCCCAGACATGGTCTTACATGTAATCACATAT-CAATGCCA
* *
56879255 ATGTCCCAGACATGGGCTTACATGTAATCACAT
1 ATATCCCAGACATGGTCTTACATGTAATCACAT
56879288 CTCGATAACC
Statistics
Matches: 96, Mismatches: 21, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
42 2 0.02
43 93 0.97
44 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.27
Consensus pattern (43 bp):
ATATCCCAGACATGGTCTTACATGTAATCACATATCAATGCCA
Found at i:56879717 original size:9 final size:9
Alignment explanation
Indices: 56879684--56879714 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
56879674 CCTATTTCAT
56879684 AAATACACA
1 AAATACACA
56879693 AAATACACA
1 AAATACACA
*
56879702 AAATTCACA
1 AAATACACA
56879711 AAAT
1 AAAT
56879715 TCAATAAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.65, C:0.19, G:0.00, T:0.16
Consensus pattern (9 bp):
AAATACACA
Found at i:56881600 original size:14 final size:14
Alignment explanation
Indices: 56881581--56881635 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
56881571 TTGTTTCATT
*
56881581 GAAAATGACTTCCG
1 GAAAATGACTTCTG
* *
56881595 GAAAATGATTTTTG
1 GAAAATGACTTCTG
*
56881609 GAAAATGATTTCTG
1 GAAAATGACTTCTG
56881623 GAAAATGACTTCT
1 GAAAATGACTTCT
56881636 TTTCTGGAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (14 bp):
GAAAATGACTTCTG
Found at i:56882122 original size:15 final size:15
Alignment explanation
Indices: 56882102--56882153 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
56882092 ACTACAAAAC
56882102 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
56882117 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
56882136 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
56882151 ATT
1 ATT
56882154 AATATTGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:56882253 original size:32 final size:35
Alignment explanation
Indices: 56882217--56882282 Score: 93
Period size: 32 Copynumber: 2.0 Consensus size: 35
56882207 TTAAATTTAC
*
56882217 TATTAAAATAA-AATTTAAATT-ATTA-AATAATT
1 TATTAAAATAATAAATTAAATTAATTATAATAATT
*
56882249 TATTAAAATAATAAATTATATTAATTATAATAAT
1 TATTAAAATAATAAATTAAATTAATTATAATAAT
56882283 AATTTACTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 11 0.38
33 8 0.28
34 4 0.14
35 6 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (35 bp):
TATTAAAATAATAAATTAAATTAATTATAATAATT
Found at i:56882474 original size:34 final size:34
Alignment explanation
Indices: 56882435--56882503 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
56882425 TTGGTTTAAG
56882435 TTAATTTTTATATAAAAGTAAAATTATCTATGGA
1 TTAATTTTTATATAAAAGTAAAATTATCTATGGA
56882469 TTAATTTTTATATAAAAGTAAAATTATCTATGGA
1 TTAATTTTTATATAAAAGTAAAATTATCTATGGA
56882503 T
1 T
56882504 GAGCTCTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (34 bp):
TTAATTTTTATATAAAAGTAAAATTATCTATGGA
Found at i:56883320 original size:14 final size:14
Alignment explanation
Indices: 56883301--56883328 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56883291 ATGCATCAAC
56883301 CCCTCAACACTCAT
1 CCCTCAACACTCAT
56883315 CCCTCAACACTCAT
1 CCCTCAACACTCAT
56883329 TTATCTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.50, G:0.00, T:0.21
Consensus pattern (14 bp):
CCCTCAACACTCAT
Found at i:56894669 original size:29 final size:29
Alignment explanation
Indices: 56894623--56894733 Score: 152
Period size: 29 Copynumber: 3.9 Consensus size: 29
56894613 ATGGTCATTT
*
56894623 GGCCCAA-TCTCATTCATATGGCCCATCA
1 GGCCCAATTCACATTCATATGGCCCATCA
*
56894651 GGCCCAATTCACATTCATATAGCCCATCA
1 GGCCCAATTCACATTCATATGGCCCATCA
* *
56894680 GGCCCAATTCATATTCATATGGCCCATTA
1 GGCCCAATTCACATTCATATGGCCCATCA
* * *
56894709 GGCCCAAATCACCTTTATATGGCCC
1 GGCCCAATTCACATTCATATGGCCC
56894734 GTTACGCCCA
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 7 0.10
29 66 0.90
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.26
Consensus pattern (29 bp):
GGCCCAATTCACATTCATATGGCCCATCA
Found at i:56894742 original size:29 final size:28
Alignment explanation
Indices: 56894638--56894756 Score: 103
Period size: 29 Copynumber: 4.1 Consensus size: 28
56894628 AATCTCATTC
* * * *
56894638 ATATGGCCCATCAGGCCCAATTCACATT
1 ATATGGCCCATTACGCCCAAATCACCTT
* * * * **
56894666 CATATAGCCCATCAGGCCCAATTCATATT
1 -ATATGGCCCATTACGCCCAAATCACCTT
*
56894695 CATATGGCCCATTAGGCCCAAATCACCTTT
1 -ATATGGCCCATTACGCCCAAATCACC-TT
*
56894725 ATATGGCCCGTTACGCCCAAATCACCTT
1 ATATGGCCCATTACGCCCAAATCACCTT
56894753 ATAT
1 ATAT
56894757 TCATGCTCAC
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
28 6 0.08
29 72 0.90
30 2 0.03
ACGTcount: A:0.29, C:0.32, G:0.13, T:0.27
Consensus pattern (28 bp):
ATATGGCCCATTACGCCCAAATCACCTT
Found at i:56900569 original size:93 final size:93
Alignment explanation
Indices: 56900456--56900627 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
56900446 CCCCCATAAG
* * *
56900456 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAGCTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56900521 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
56900549 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56900614 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
56900628 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:56900624 original size:46 final size:46
Alignment explanation
Indices: 56900449--56900624 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
56900439 CATGTAACCC
* * *
56900449 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
56900495 CCATAAGTGAGCTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
56900545 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56900588 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
56900625 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56902381 original size:6 final size:6
Alignment explanation
Indices: 56902337--56902406 Score: 81
Period size: 6 Copynumber: 11.8 Consensus size: 6
56902327 AATAAAGAAA
* * *
56902337 TTTTAT CTTTAT GTTTAT TTTT-T TTTT-T TTTTTT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
56902383 TATATAT TTTTAT TTTTAT TTTTA
1 T-TTTAT TTTTAT TTTTAT TTTTA
56902407 ATTACATTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
5 10 0.18
6 41 0.73
7 5 0.09
ACGTcount: A:0.16, C:0.01, G:0.01, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:56902382 original size:34 final size:33
Alignment explanation
Indices: 56902337--56902405 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
56902327 AATAAAGAAA
* * * *
56902337 TTTTATCTTTATGTTTATTTTTTTTTTTTTTTTT
1 TTTTATCTTTAT-TATATATTTTTATTTTTATTT
*
56902371 TTTTATTTTTATTATATATTTTTATTTTTATTT
1 TTTTATCTTTATTATATATTTTTATTTTTATTT
56902404 TT
1 TT
56902406 AATTACATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 19 0.63
34 11 0.37
ACGTcount: A:0.14, C:0.01, G:0.01, T:0.83
Consensus pattern (33 bp):
TTTTATCTTTATTATATATTTTTATTTTTATTT
Found at i:56902390 original size:13 final size:12
Alignment explanation
Indices: 56902352--56902417 Score: 55
Period size: 12 Copynumber: 5.6 Consensus size: 12
56902342 TCTTTATGTT
56902352 TATTTTT-TTT-
1 TATTTTTATTTA
* * *
56902362 TTTTTTTTTTTT
1 TATTTTTATTTA
56902374 TATTTTTATTATA
1 TATTTTTATT-TA
*
56902387 TATTTTTATTTT
1 TATTTTTATTTA
*
56902399 TATTTTTAATTA
1 TATTTTTATTTA
*
56902411 CATTTTT
1 TATTTTT
56902418 TTATATAAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
10 6 0.13
11 3 0.07
12 25 0.56
13 11 0.24
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (12 bp):
TATTTTTATTTA
Found at i:56902399 original size:26 final size:27
Alignment explanation
Indices: 56902363--56902421 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
56902353 ATTTTTTTTT
* *
56902363 TTTTTTTTTTTTATTTTT-ATTATATA
1 TTTTTATTTTTTATTTTTAATTACATA
*
56902389 TTTTTA-TTTTTATTTTTAATTACATT
1 TTTTTATTTTTTATTTTTAATTACATA
56902415 TTTTTAT
1 TTTTTAT
56902422 ATAAGTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (27 bp):
TTTTTATTTTTTATTTTTAATTACATA
Found at i:56911153 original size:41 final size:41
Alignment explanation
Indices: 56911047--56911168 Score: 131
Period size: 41 Copynumber: 3.0 Consensus size: 41
56911037 GTGCATTTAG
* * * **
56911047 GGGTATCGAAGTACAAATAGGGGAACGTATGTGCAATT-TG
1 GGGTACCGAAGTACAAATAGAGGCACGTATGTGCAATTCAA
* * *
56911087 GGGTACCGAACTAAAAACA-AGGGCACGTATGTGCAATTCAA
1 GGGTACCGAAGTACAAATAGA-GGCACGTATGTGCAATTCAA
* *
56911128 GGGTACTGAAGTACAAATAGAGGCACCTATGTGCAATTCAA
1 GGGTACCGAAGTACAAATAGAGGCACGTATGTGCAATTCAA
56911169 CACTACTCTT
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
40 31 0.47
41 34 0.52
42 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (41 bp):
GGGTACCGAAGTACAAATAGAGGCACGTATGTGCAATTCAA
Found at i:56924641 original size:40 final size:40
Alignment explanation
Indices: 56924597--56924902 Score: 359
Period size: 40 Copynumber: 7.7 Consensus size: 40
56924587 TTTGATGTGT
* * * * *
56924597 GTATCTGGGCTTAAAGACCCCCAAGCTTCGTGCTGGAATG
1 GTATCCGGGTTTAAAGACCCGCAGGCTTCATGCTGGAATG
* *
56924637 GTATCCGGGTTTAAAGACCCGCAGGCTAT-ATACTGGAATT
1 GTATCCGGGTTTAAAGACCCGCAGGCT-TCATGCTGGAATG
* * *
56924677 GTATCCGAGTTTAAAGACCCGCAGGCTTCGTGCTGGAATA
1 GTATCCGGGTTTAAAGACCCGCAGGCTTCATGCTGGAATG
* *
56924717 GTATCCGGGTTTAAAGACCCGCAGG-TTATATGCTGGAATT
1 GTATCCGGGTTTAAAGACCCGCAGGCTT-CATGCTGGAATG
* **
56924757 GTATCCGGGTTTAAAGACCCGTAGGCTTTGTGCTGGAATG
1 GTATCCGGGTTTAAAGACCCGCAGGCTTCATGCTGGAATG
* * *
56924797 GAATCCGAGTTTAAAGACCCGCAGGCTAT-ATGCTGGAATT
1 GTATCCGGGTTTAAAGACCCGCAGGCT-TCATGCTGGAATG
56924837 GTATCCGGGTTTAAAGACCCGCAGGCTTCATGCTGGAATG
1 GTATCCGGGTTTAAAGACCCGCAGGCTTCATGCTGGAATG
** * *
56924877 AAATCTGGG-TTAAAGACCCGTAGGCT
1 GTATCCGGGTTTAAAGACCCGCAGGCT
56924903 CGTGTTAGAA
Statistics
Matches: 230, Mismatches: 30, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
39 20 0.09
40 206 0.90
41 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GTATCCGGGTTTAAAGACCCGCAGGCTTCATGCTGGAATG
Found at i:56924729 original size:80 final size:80
Alignment explanation
Indices: 56924596--56924902 Score: 454
Period size: 80 Copynumber: 3.9 Consensus size: 80
56924586 ATTTGATGTG
* * * * *
56924596 TGTATCTGGGCTTAAAGACCCCCAAGCTTCGTGCTGGAATGGTATCCGGGTTTAAAGACCCGCAG
1 TGTATCCGGGTTTAAAGACCCGCAGGCTTCGTGCTGGAATGGAATCCGGGTTTAAAGACCCGCAG
*
56924661 GCTATATACTGGAAT
66 GCTATATGCTGGAAT
* * *
56924676 TGTATCCGAGTTTAAAGACCCGCAGGCTTCGTGCTGGAATAGTATCCGGGTTTAAAGACCCGCAG
1 TGTATCCGGGTTTAAAGACCCGCAGGCTTCGTGCTGGAATGGAATCCGGGTTTAAAGACCCGCAG
*
56924741 GTTATATGCTGGAAT
66 GCTATATGCTGGAAT
* * *
56924756 TGTATCCGGGTTTAAAGACCCGTAGGCTTTGTGCTGGAATGGAATCCGAGTTTAAAGACCCGCAG
1 TGTATCCGGGTTTAAAGACCCGCAGGCTTCGTGCTGGAATGGAATCCGGGTTTAAAGACCCGCAG
56924821 GCTATATGCTGGAAT
66 GCTATATGCTGGAAT
* * * *
56924836 TGTATCCGGGTTTAAAGACCCGCAGGCTTCATGCTGGAATGAAATCTGGG-TTAAAGACCCGTAG
1 TGTATCCGGGTTTAAAGACCCGCAGGCTTCGTGCTGGAATGGAATCCGGGTTTAAAGACCCGCAG
56924900 GCT
66 GCT
56924903 CGTGTTAGAA
Statistics
Matches: 205, Mismatches: 22, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
79 16 0.08
80 189 0.92
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TGTATCCGGGTTTAAAGACCCGCAGGCTTCGTGCTGGAATGGAATCCGGGTTTAAAGACCCGCAG
GCTATATGCTGGAAT
Found at i:56924810 original size:120 final size:120
Alignment explanation
Indices: 56924597--56924902 Score: 404
Period size: 120 Copynumber: 2.6 Consensus size: 120
56924587 TTTGATGTGT
* * * * * * *
56924597 GTATCTGGGCTTAAAGACCCCCAAGCTTCGTGCTGGAATGGTATCCGGGTTTAAAGACCCGCAGG
1 GTATCCGGGTTTAAAGACCCGCAGGCTTCATGCTGGAATTGTATCCGGGTTTAAAGACCCGTAGG
* * *
56924662 CTATATACTGGAATTGTATCCGAGTTTAAAGACCCGCAGGCT-TCGTGCTGGAATA
66 CTATATACTGGAATGGAATCCGAGTTTAAAGACCCGCAGGCTAT-ATGCTGGAATA
*
56924717 GTATCCGGGTTTAAAGACCCGCAGG-TTATATGCTGGAATTGTATCCGGGTTTAAAGACCCGTAG
1 GTATCCGGGTTTAAAGACCCGCAGGCTT-CATGCTGGAATTGTATCCGGGTTTAAAGACCCGTAG
* * * *
56924781 GCTTTGTGCTGGAATGGAATCCGAGTTTAAAGACCCGCAGGCTATATGCTGGAATT
65 GCTATATACTGGAATGGAATCCGAGTTTAAAGACCCGCAGGCTATATGCTGGAATA
* *
56924837 GTATCCGGGTTTAAAGACCCGCAGGCTTCATGCTGGAA-TGAAATCTGGG-TTAAAGACCCGTAG
1 GTATCCGGGTTTAAAGACCCGCAGGCTTCATGCTGGAATTG-TATCCGGGTTTAAAGACCCGTAG
56924900 GCT
65 GCT
56924903 CGTGTTAGAA
Statistics
Matches: 164, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
119 21 0.13
120 140 0.85
121 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
GTATCCGGGTTTAAAGACCCGCAGGCTTCATGCTGGAATTGTATCCGGGTTTAAAGACCCGTAGG
CTATATACTGGAATGGAATCCGAGTTTAAAGACCCGCAGGCTATATGCTGGAATA
Found at i:56935707 original size:103 final size:102
Alignment explanation
Indices: 56935521--56935719 Score: 256
Period size: 103 Copynumber: 1.9 Consensus size: 102
56935511 TTTAGTAAGT
* * *
56935521 TTTGTGAAAAATAAAATGCTATTTTGGTACCGTTTTTAAGATGGGGTATCGATATTTCAGAAAAA
1 TTTGTGAAAAATAAAATGCTATTTTGGTACCGCTTTTAAGAT-GGGTATCAATAATTCAGAAAAA
** *
56935586 ATCGATACTTTACCAAAAGTTAACGATACTTAATTGGG
65 ATCGATACTGGACCAAAAGGTAACGATACTTAATTGGG
* * * *
56935624 TTTGTGAAAAATATAATGCTATTTTGGTATCGCTTTTAAGAAT-GGTATCAATAATTCATAAAAT
1 TTTGTGAAAAATAAAATGCTATTTTGGTACCGCTTTTAAG-ATGGGTATCAATAATTCAGAAAAA
* *
56935688 ATCGATACTGGGCCAAAAAGGTATCGATACTT
65 ATCGATACTGGACC-AAAAGGTAACGATACTT
56935720 TTTGGCCTAA
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
102 28 0.34
103 52 0.63
104 2 0.02
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (102 bp):
TTTGTGAAAAATAAAATGCTATTTTGGTACCGCTTTTAAGATGGGTATCAATAATTCAGAAAAAA
TCGATACTGGACCAAAAGGTAACGATACTTAATTGGG
Found at i:56936908 original size:39 final size:39
Alignment explanation
Indices: 56936863--56936955 Score: 132
Period size: 39 Copynumber: 2.4 Consensus size: 39
56936853 CGTTTGAATG
*
56936863 AAAAACGCCGCTAAAGAAAGAGCATTAGCGGTGCTTTCT
1 AAAAACGCCGCTAAAGAAAGAGCATTAGCGGCGCTTTCT
** * *
56936902 AAAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTT
1 AAAAACGCCGCTAAAGAAAGAGCATTAGCGGCGCTTTCT
56936941 AGAAAACGCCGCTAA
1 A-AAAACGCCGCTAA
56936956 TGCTTCATCT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 35 0.73
40 13 0.27
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (39 bp):
AAAAACGCCGCTAAAGAAAGAGCATTAGCGGCGCTTTCT
Found at i:56937397 original size:14 final size:14
Alignment explanation
Indices: 56937363--56937411 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
56937353 ACAATTTTAA
*
56937363 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
56937377 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
*
56937392 GGTTTAAGGG-TTAG
1 GGTTT-AGGGATTAT
56937406 GGTTTA
1 GGTTTA
56937412 AGGTTTAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 1 0.03
14 13 0.42
15 17 0.55
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:56937412 original size:14 final size:14
Alignment explanation
Indices: 56937363--56937469 Score: 67
Period size: 14 Copynumber: 7.4 Consensus size: 14
56937353 ACAATTTTAA
* *
56937363 GGTTTATGGATTATG
1 GGTTTAAGGGTTA-G
*
56937378 GGTTT-AGGGATTAT
1 GGTTTAAGGG-TTAG
56937392 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
*
56937406 GGTTTAAGGTTTA-
1 GGTTTAAGGGTTAG
* *
56937419 GGTGCTAGGGGTTAG
1 GGT-TTAAGGGTTAG
*
56937434 GGGTTAAGAGGTTAGG
1 GGTTTAAG-GGTTA-G
*
56937450 GGTTCAA-GGTTCAG
1 GGTTTAAGGGTT-AG
56937464 GGTTTA
1 GGTTTA
56937470 TGTTTTAGGA
Statistics
Matches: 71, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
13 3 0.04
14 42 0.59
15 20 0.28
16 6 0.08
ACGTcount: A:0.21, C:0.03, G:0.40, T:0.36
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:56937635 original size:7 final size:7
Alignment explanation
Indices: 56937614--56937708 Score: 50
Period size: 7 Copynumber: 13.4 Consensus size: 7
56937604 TTAATTATCA
*
56937614 TTATAGT
1 TTATGGT
*
56937621 TTAGGGT
1 TTATGGT
56937628 TTATGGT
1 TTATGGT
*
56937635 TTAGGGT
1 TTATGGT
*
56937642 ATATGGT
1 TTATGGT
*
56937649 TTAAGGT
1 TTATGGT
**
56937656 TTAAAGT
1 TTATGGT
*
56937663 GTATGAGT
1 TTATG-GT
56937671 TACTAT--T
1 T--TATGGT
*
56937678 TTAAGGT
1 TTATGGT
* *
56937685 TTATAGA
1 TTATGGT
56937692 TTATGGT
1 TTATGGT
56937699 TTATGGT
1 TTATGGT
56937706 TTA
1 TTA
56937709 AGGGTTGGGG
Statistics
Matches: 64, Mismatches: 19, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
5 2 0.03
7 57 0.89
8 2 0.03
10 3 0.05
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:56937636 original size:14 final size:14
Alignment explanation
Indices: 56937614--56937658 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
56937604 TTAATTATCA
*
56937614 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
56937628 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
56937642 ATATGGTTTAAGGT
1 TTATGGTTTAGGGT
56937656 TTA
1 TTA
56937659 AAGTGTATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:56937720 original size:14 final size:15
Alignment explanation
Indices: 56937703--56937735 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
56937693 TATGGTTTAT
*
56937703 GGTTTAAGGGTT-GG
1 GGTTTAAGGCTTAGG
56937717 GGTTTAAGGCTTAGG
1 GGTTTAAGGCTTAGG
56937732 GGTT
1 GGTT
56937736 AGGGGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.15, C:0.03, G:0.45, T:0.36
Consensus pattern (15 bp):
GGTTTAAGGCTTAGG
Found at i:56937958 original size:8 final size:8
Alignment explanation
Indices: 56937939--56937980 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
56937929 ATATTAAATA
*
56937939 ATTTCAAA
1 ATTTCAAG
*
56937947 ATTTAAAG
1 ATTTCAAG
56937955 ATTTCAA-
1 ATTTCAAG
56937962 ATTTCAAG
1 ATTTCAAG
56937970 ATTTCAA-
1 ATTTCAAG
56937977 ATTT
1 ATTT
56937981 TATCTAATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
7 11 0.37
8 19 0.63
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (8 bp):
ATTTCAAG
Found at i:56937965 original size:15 final size:15
Alignment explanation
Indices: 56937939--56937980 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
56937929 ATATTAAATA
56937939 ATTTCAAAATTTAAAG
1 ATTTC-AAATTTAAAG
*
56937955 ATTTCAAATTTCAAG
1 ATTTCAAATTTAAAG
56937970 ATTTCAAATTT
1 ATTTCAAATTT
56937981 TATCTAATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (15 bp):
ATTTCAAATTTAAAG
Found at i:56938489 original size:27 final size:27
Alignment explanation
Indices: 56938403--56938526 Score: 141
Period size: 27 Copynumber: 4.8 Consensus size: 27
56938393 AAATCCCAAC
56938403 CCATC-TCTGCATCGCCG--GACCCGA
1 CCATCTTCTGCATCGCCGTCGACCCGA
*
56938427 CCATCTGCTGCATCGCCG--GACCCGA
1 CCATCTTCTGCATCGCCGTCGACCCGA
* **
56938452 CCATCTGCTGCATCGCCGTCGACTTGA
1 CCATCTTCTGCATCGCCGTCGACCCGA
* **
56938479 CCATCTTCTGCGTCGCCGTCGACTTGA
1 CCATCTTCTGCATCGCCGTCGACCCGA
*
56938506 CCATCTTCTGCGTCGCCGTCG
1 CCATCTTCTGCATCGCCGTCG
56938527 CACTGCTCTT
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
24 5 0.05
25 36 0.39
27 51 0.55
ACGTcount: A:0.13, C:0.41, G:0.23, T:0.23
Consensus pattern (27 bp):
CCATCTTCTGCATCGCCGTCGACCCGA
Found at i:56942986 original size:47 final size:47
Alignment explanation
Indices: 56942774--56943689 Score: 1200
Period size: 47 Copynumber: 19.2 Consensus size: 47
56942764 AGAGAGTATG
56942774 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA--TATA
*
56942823 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G--TGTATATA
*
56942874 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATGTATATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG----TGTATATA
* *
56942925 TGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
* *
56942972 TGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGT-T-TATG
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
*
56943017 TGTGATAAGGCCTAATAGCCGAGGTGATGAATGTGAAAGTGTATGTATATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G--TGTATATA
*
56943068 TGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTATATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G--TGTATATA
* *
56943119 TGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATG
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
*
56943164 TGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
* *
56943211 TGTAATAAGGCCTAATTGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
* * * *
56943258 --AGATAAGG-CTAATGGCCGATGCGATGAATGTGAAAGTGTAT-TG
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
* *
56943301 TGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
*
56943348 TGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
* * * *
56943395 TGTAATAAGGCCTAATGGCCGAGGTGATGAATGTGAAAGTATATATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
*
56943442 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATGTATATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG----TGTATATA
*
56943493 TGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
* *
56943540 TGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
56943587 TGTGATAAGGCCTAATGGCCGATGTAATAAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * * * * *
56943634 TGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
56943681 TGTGATAAG
1 TGTGATAAG
56943690 TCCCGAAAGG
Statistics
Matches: 791, Mismatches: 54, Indels: 46
0.89 0.06 0.05
Matches are distributed among these distances:
43 1 0.00
44 31 0.04
45 96 0.12
46 31 0.04
47 363 0.46
49 40 0.05
50 1 0.00
51 224 0.28
53 4 0.01
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:56943103 original size:194 final size:195
Alignment explanation
Indices: 56942770--56943634 Score: 1372
Period size: 194 Copynumber: 4.5 Consensus size: 195
56942760 GCCAAGAGAG
*
56942770 TATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCC
1 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA--TATATGTGATAAGGCC
56942835 TAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTG
64 TAATGGCCGATGTGATGAATGTGAAAGTGTAT-TATATATGTGATAAGGCCTAATGGCCGATGTG
56942900 ATGAATGTGAAAGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
128 ATGAATGTGAAAGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
56942965 GTA
193 GTA
*
56942968 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGT-T-TATGTGTGATAAGGCCTA
1 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
* * * *
56943031 ATAGCCGAGGTGATGAATGTGAAAGTGTATGTATATATGTAATAAGGCCTAATAGCCGATGTGAT
66 ATGGCCGATGTGATGAATGTGAAAGTGTAT-TATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
56943096 GAATGTGAAAGTGTATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-
130 GAATGTGAAAGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
56943160 -
195 A
*
56943160 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTA
1 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
* *
56943225 ATTGCCGATGTGATGAATGTGAAAGTGTA-TATA-A---GATAAGG-CTAATGGCCGATGCGATG
66 ATGGCCGATGTGATGAATGTGAAAGTGTATTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
56943284 AATGTGAAAG----TGTAT-TGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
131 AATGTGAAAGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
*
56943344 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTA
1 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
*
56943409 ATGGCCGAGGTGATGAATGTGAAA--GTA-TATATATGTGATAAGGCCTAATGGCCGATGTGATG
66 ATGGCCGATGTGATGAATGTGAAAGTGTATTATATATGTGATAAGGCCTAATGGCCGATGTGATG
56943471 AATGTGAAAGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
131 AATGTGAAAGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* * * *
56943536 TATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
* *
56943601 ATGGCCGATGTAATAAATGTGAAAGTGTA-TATAT
66 ATGGCCGATGTGATGAATGTGAAAGTGTATTATAT
56943635 GTGACAGGGC
Statistics
Matches: 620, Mismatches: 31, Indels: 36
0.90 0.05 0.05
Matches are distributed among these distances:
182 47 0.08
183 6 0.01
184 87 0.14
186 7 0.01
187 53 0.09
188 6 0.01
191 6 0.01
192 171 0.28
193 1 0.00
194 192 0.31
197 1 0.00
198 43 0.07
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.30
Consensus pattern (195 bp):
TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
ATGGCCGATGTGATGAATGTGAAAGTGTATTATATATGTGATAAGGCCTAATGGCCGATGTGATG
AATGTGAAAGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
Found at i:56943673 original size:192 final size:192
Alignment explanation
Indices: 56942770--56943638 Score: 1357
Period size: 192 Copynumber: 4.5 Consensus size: 192
56942760 GCCAAGAGAG
*
56942770 TATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCC
1 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA--TATATGTGATAAGGCC
56942835 TAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTG
64 TAATGGCCGATGTGATGAATGTGAAA--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTG
56942900 ATGAATGTGAAAGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
125 ATGAATGTGAAAGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGT
56942965 GTA
190 GTA
*
56942968 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGT-T-TATGTGTGATAAGGCCTA
1 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
* * * *
56943031 ATAGCCGAGGTGATGAATGTGAAAGTGTATGTATATATGTAATAAGGCCTAATAGCCGATGTGAT
66 ATGGCCGATGTGATGAATGTGAAA--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
56943096 GAATGTGAAAGTGTATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-
127 GAATGTGAAAGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
56943160 -
192 A
*
56943160 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTA
1 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
* * *
56943225 ATTGCCGATGTGATGAATGTGAAAGTGTATATA--AGATAAGG-CTAATGGCCGATGCGATGAAT
66 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * *
56943287 GTGAAAG----TGTAT-TGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTA
131 GTGAAAGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
*
56943344 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTA
1 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
* *
56943409 ATGGCCGAGGTGATGAATGTGAAAGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
66 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
56943474 GTGAAAGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
131 GTGAAAGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
* * * *
56943536 TATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
* *
56943601 ATGGCCGATGTAATAAATGTGAAAGTGTATATATGTGA
66 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56943639 CAGGGCCGAG
Statistics
Matches: 624, Mismatches: 35, Indels: 30
0.91 0.05 0.04
Matches are distributed among these distances:
182 40 0.06
183 5 0.01
184 95 0.15
186 7 0.01
187 53 0.08
188 6 0.01
190 8 0.01
191 5 0.01
192 181 0.29
193 1 0.00
194 179 0.29
197 1 0.00
198 43 0.07
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (192 bp):
TATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
GTGAAAGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA
Found at i:56943861 original size:36 final size:37
Alignment explanation
Indices: 56943806--56943883 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
56943796 CCGAGCTCTA
* * *
56943806 AAGACCCGATGACTACGTGTGGGGATTTTGTCC-GGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
56943842 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56943879 AAGAC
1 AAGAC
56943884 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 29 0.78
37 8 0.22
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56945765 original size:36 final size:39
Alignment explanation
Indices: 56945718--56945805 Score: 119
Period size: 43 Copynumber: 2.2 Consensus size: 39
56945708 GATGGTTTCA
56945718 GCACTAAGTGT-GG-TAAGTGTTCA-GGTTGTGAGATTG
1 GCACTAAGTGTGGGATAAGTGTTCACGGTTGTGAGATTG
56945754 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGT--GGG--ATAAGTGTTCACGGTTGTGAGATTG
56945797 GCACTAAGT
1 GCACTAAGT
56945806 CACGGTTGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
36 11 0.24
39 2 0.04
42 10 0.22
43 22 0.49
ACGTcount: A:0.24, C:0.12, G:0.34, T:0.30
Consensus pattern (39 bp):
GCACTAAGTGTGGGATAAGTGTTCACGGTTGTGAGATTG
Found at i:56945804 original size:28 final size:28
Alignment explanation
Indices: 56945768--56945832 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 28
56945758 TAAGTGTGCG
*
56945768 GGCAATAAGTGTTCACGGTTGTGAGATT
1 GGCACTAAGTGTTCACGGTTGTGAGATT
56945796 GGCACTAA--G-TCACGGTTGTGAGATT
1 GGCACTAAGTGTTCACGGTTGTGAGATT
56945821 GGCACTAAGTGT
1 GGCACTAAGTGT
56945833 GCGGGCAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 24 0.73
26 1 0.03
27 1 0.03
28 7 0.21
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTTCACGGTTGTGAGATT
Found at i:56945808 original size:25 final size:25
Alignment explanation
Indices: 56945780--56945830 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
56945770 CAATAAGTGT
56945780 TCACGGTTGTGAGATTGGCACTAAG
1 TCACGGTTGTGAGATTGGCACTAAG
56945805 TCACGGTTGTGAGATTGGCACTAAG
1 TCACGGTTGTGAGATTGGCACTAAG
56945830 T
1 T
56945831 GTGCGGGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (25 bp):
TCACGGTTGTGAGATTGGCACTAAG
Found at i:56945850 original size:68 final size:68
Alignment explanation
Indices: 56945741--56945873 Score: 266
Period size: 68 Copynumber: 2.0 Consensus size: 68
56945731 TAAGTGTTCA
56945741 GGTTGTGAGATTGGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGT
1 GGTTGTGAGATTGGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGT
56945806 CAC
66 CAC
56945809 GGTTGTGAGATTGGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGT
1 GGTTGTGAGATTGGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGT
56945874 GTGCGGGCTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.29
Consensus pattern (68 bp):
GGTTGTGAGATTGGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGT
CAC
Found at i:56945898 original size:29 final size:29
Alignment explanation
Indices: 56945863--56945936 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
56945853 GTTGTGAGAT
* *
56945863 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
56945892 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
56945921 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56945937 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:56946433 original size:40 final size:40
Alignment explanation
Indices: 56946329--56946558 Score: 294
Period size: 40 Copynumber: 5.9 Consensus size: 40
56946319 GAGTTACTAA
56946329 ATCCGGGCTAAGTCCCG-AGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
56946368 AT-CGGGCTAAGT-CC---GAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
56946403 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
56946443 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * * * *
56946483 ATCCGTGCTAA-ACCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
56946522 GTCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
56946559 CGTGTATTCG
Statistics
Matches: 170, Mismatches: 15, Indels: 11
0.87 0.08 0.06
Matches are distributed among these distances:
35 23 0.14
36 10 0.06
37 4 0.02
38 10 0.06
39 34 0.20
40 89 0.52
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:56946539 original size:119 final size:114
Alignment explanation
Indices: 56946329--56946558 Score: 289
Period size: 119 Copynumber: 2.0 Consensus size: 114
56946319 GAGTTACTAA
* **
56946329 ATCCGGGCTAAGTCCCGAGAGCATTCATGCTAGTGATGTATCGGGCTAAGTCCGAGCATTCATGC
1 ATCCGGGCTAAGTCCCGAGAGCATTCATGCTAGTGATATATCGGGCTAAACCCGAGCATTCATGC
* *
56946394 TAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
66 TAGTGATATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATGT
* * *
56946443 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAACCCGAAGAGCATT
1 ATCCGGGCTAAGTCCCG-AGAGCATTCATGCTAGTGATATAT-CGGGCTAAACCC---GAGCATT
* * * * * *
56946508 CGTGCTGGTGTTATGTCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
61 CATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGA
56946559 CGTGTATTCG
Statistics
Matches: 97, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
114 16 0.16
115 22 0.23
116 9 0.09
119 50 0.52
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (114 bp):
ATCCGGGCTAAGTCCCGAGAGCATTCATGCTAGTGATATATCGGGCTAAACCCGAGCATTCATGC
TAGTGATATATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATGT
Found at i:56946541 original size:79 final size:80
Alignment explanation
Indices: 56946250--56946558 Score: 278
Period size: 79 Copynumber: 4.0 Consensus size: 80
56946240 TTGAATGATG
* ** * * * *
56946250 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGACGCGAAG-GCA
1 TCCGGGCTAAGACCCGAAGAGCATTCATGCT-AGTGA-TATATCCGGGCTAAGTCCCGAAGAGCA
** * * *
56946312 TTGGTGCGAGTTACTAAA
64 TTCATGCTAGTGA-TATA
* *
56946330 TCCGGGCTAAGTCCCG-AGAGCATTCATGCTAGTGATGTAT-CGGGCTAAGT-CC---GAGCATT
1 TCCGGGCTAAGACCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
*
56946389 CATGCTAGTGATGTA
66 CATGCTAGTGATATA
* * *
56946404 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGACCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
*
56946469 CGTGCTAGTGATATA
66 CATGCTAGTGATATA
* * * * * * *
56946484 TCCGTGCTAA-ACCCGAAGAGCATTCGTGCTGGTGTTATGTCCGGGCTAGGTCCCGAAGAGCAAT
1 TCCGGGCTAAGACCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
*
56946548 CATGCTGGTGA
66 CATGCTAGTGA
56946559 CGTGTATTCG
Statistics
Matches: 193, Mismatches: 27, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
74 19 0.10
75 36 0.19
76 10 0.05
77 3 0.02
78 8 0.04
79 59 0.31
80 52 0.27
81 6 0.03
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGACCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
CATGCTAGTGATATA
Found at i:56948424 original size:144 final size:143
Alignment explanation
Indices: 56948162--56948503 Score: 469
Period size: 144 Copynumber: 2.4 Consensus size: 143
56948152 TTCCTTTTTG
*
56948162 TGTGATAAGGCCTAATAGGACGATGTGATGAATGTGAAA-TGTATATATGTGAT-AGGCCTAATA
1 TGTGATAAGGCCTAATA-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATA
56948225 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGCGATGTGATGAATG
65 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGCGATGTGATGAATG
56948290 TGAAAGTATATGTATA
130 TGAAAGTATA--TATA
*
56948306 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
*
56948371 CCGATG-GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAAT-GGC-CGATGTGATGAAT
66 CCGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATAGCCGCGATGTGATGAAT
*
56948433 GTGAAAGTGTATATA
129 GTGAAAGTATATATA
* * * * * * * * * * *
56948448 TGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAAAGTGCATAAATGTGATAAG
1 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
56948504 TCCCGAAGGC
Statistics
Matches: 179, Mismatches: 15, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
142 49 0.27
143 20 0.11
144 67 0.37
145 18 0.10
146 25 0.14
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (143 bp):
TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGCGATGTGATGAATGT
GAAAGTATATATA
Found at i:56948438 original size:95 final size:96
Alignment explanation
Indices: 56948162--56948452 Score: 475
Period size: 95 Copynumber: 3.1 Consensus size: 96
56948152 TTCCTTTTTG
*
56948162 TGTGATAAGGCCTAATAGGACGATGTGATGAATGTGAAA--TGTATATATGTGAT-AGGCCTAAT
1 TGTGATAAGGCCTAATAGGCCGATGTGATGAATGTGAAAGTTGTATATATGTGATAAGGCCTAAT
56948224 AGCCGATGTGATGAATGTGAAAGTGTATATA
66 AGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
56948255 TGTGATAAGGCCTAATAGCCGCGATGTGATGAATGTGAAAGTATATGTATATGTGATAAGGCCTA
1 TGTGATAAGGCCTAATAGGC-CGATGTGATGAATGTGAAAGT-TGTATATATGTGATAAGGCCTA
56948320 ATAGCCGATGTGATGAATGTGAAAGTGTATATA
64 ATAGCCGATGTGATGAATGTGAAAGTGTATATA
56948353 TGTGATAAGGCCTAAT-GGCCGATG-GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAA
1 TGTGATAAGGCCTAATAGGCCGATGTGATGAATGTGAAAGT-TGTATATATGTGATAAGGCCTAA
*
56948416 TGGCCGATGTGATGAATGTGAAAGTGTATATA
65 TAGCCGATGTGATGAATGTGAAAGTGTATATA
56948448 TGTGA
1 TGTGA
56948453 CAGGGCCGAG
Statistics
Matches: 184, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
93 18 0.10
94 19 0.10
95 72 0.39
96 5 0.03
97 14 0.08
98 56 0.30
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
TGTGATAAGGCCTAATAGGCCGATGTGATGAATGTGAAAGTTGTATATATGTGATAAGGCCTAAT
AGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:56948467 original size:47 final size:47
Alignment explanation
Indices: 56948162--56948503 Score: 465
Period size: 47 Copynumber: 7.2 Consensus size: 47
56948152 TTCCTTTTTG
*
56948162 TGTGATAAGGCCTAATAGGACGATGTGATGAATGTGAAA-TGTATATA
1 TGTGATAAGGCCTAAT-GGCCGATGTGATGAATGTGAAAGTGTATATA
*
56948209 TGTGAT-AGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
56948255 TGTGATAAGGCCTAATAGCCGCGATGTGATGAATGTGAAAGTATATGTATA
1 TGTGATAAGGCCTAAT-GGC-CGATGTGATGAATGTGAAAGTGTA--TATA
*
56948306 TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
56948353 TGTGATAAGGCCTAATGGCCGATG-GATGAATGTGAAAGTGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATA
56948401 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * * * *
56948448 TGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
56948495 TGTGATAAG
1 TGTGATAAG
56948504 TCCCGAAGGC
Statistics
Matches: 265, Mismatches: 21, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
45 20 0.08
46 36 0.14
47 95 0.36
48 34 0.13
49 59 0.22
50 1 0.00
51 20 0.08
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:56948467 original size:95 final size:95
Alignment explanation
Indices: 56948162--56948503 Score: 469
Period size: 95 Copynumber: 3.6 Consensus size: 95
56948152 TTCCTTTTTG
*
56948162 TGTGATAAGGCCTAATAGGACGATGTGATGAATGTGAAA--TGTATATATGTGAT-AGGCCTAAT
1 TGTGATAAGGCCTAAT-GGCCGATGTGATGAATGTGAAAGTTGTATATATGTGATAAGGCCTAAT
56948224 AGCCGATGTGATGAATGTGAAAGTGTATATA
65 AGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
56948255 TGTGATAAGGCCTAATAGCCGCGATGTGATGAATGTGAAAGTATATGTATATGTGATAAGGCCTA
1 TGTGATAAGGCCTAAT-GGC-CGATGTGATGAATGTGAAAGT-TGTATATATGTGATAAGGCCTA
56948320 ATAGCCGATGTGATGAATGTGAAAGTGTATATA
63 ATAGCCGATGTGATGAATGTGAAAGTGTATATA
56948353 TGTGATAAGGCCTAATGGCCGATG-GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT-TGTATATATGTGATAAGGCCTAAT
*
56948417 GGCCGATGTGATGAATGTGAAAGTGTATATA
65 AGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * * * *
56948448 TGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAAAG-TGCATAAATGTGATAAG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTTGTATATATGTGATAAG
56948504 TCCCGAAGGC
Statistics
Matches: 224, Mismatches: 19, Indels: 11
0.88 0.07 0.04
Matches are distributed among these distances:
93 18 0.08
94 34 0.15
95 85 0.38
96 17 0.08
97 14 0.06
98 56 0.25
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (95 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTTGTATATATGTGATAAGGCCTAATA
GCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:56948676 original size:37 final size:37
Alignment explanation
Indices: 56948620--56948698 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
56948610 CCGAGCTCTA
* * *
56948620 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
56948657 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56948694 AAGAC
1 AAGAC
56948699 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56950624 original size:48 final size:42
Alignment explanation
Indices: 56950553--56950671 Score: 145
Period size: 43 Copynumber: 2.7 Consensus size: 42
56950543 GCGGAAATAA
56950553 GTGTCACGG-T-TGAGATTGGCACTAAGTGCGGGCAATAAGTGT
1 GTGTCACGGTTGTGAGATTGGCACTAAGTGCGGGCAATAA--GT
56950595 GGTTGAGTCACGGTTGTGAGATTGGCACTAAGTGTGCGGGCAATAAGT
1 -G-T--GTCACGGTTGTGAGATTGGCACTAA--GTGCGGGCAATAAGT
56950643 GT-TCACGGTTGTGAGATTGGCACTAAGTG
1 GTGTCACGGTTGTGAGATTGGCACTAAGTG
56950672 TGCGGGCTTG
Statistics
Matches: 69, Mismatches: 0, Indels: 16
0.81 0.00 0.19
Matches are distributed among these distances:
41 3 0.04
43 25 0.36
44 1 0.01
46 8 0.12
47 2 0.03
48 17 0.25
50 13 0.19
ACGTcount: A:0.23, C:0.13, G:0.36, T:0.28
Consensus pattern (42 bp):
GTGTCACGGTTGTGAGATTGGCACTAAGTGCGGGCAATAAGT
Found at i:56950695 original size:29 final size:29
Alignment explanation
Indices: 56950660--56950733 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
56950650 GTTGTGAGAT
* *
56950660 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
56950689 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
56950718 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56950734 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:56951133 original size:35 final size:36
Alignment explanation
Indices: 56951093--56951265 Score: 108
Period size: 38 Copynumber: 4.6 Consensus size: 36
56951083 CGCTAAGACC
56951093 GAAGCATTGTGCGAGT-A-ATCCGGGCTAAGTCCCGA
1 GAAGCATT-TGCGAGTGATATCCGGGCTAAGTCCCGA
*
56951128 GAAGCATTTGCTAGTGATGTATCCGGGCTAAGTCCCGA
1 GAAGCATTTGCGAGTGA--TATCCGGGCTAAGTCCCGA
*
56951166 -AGAGCATTCATGCTAGTGATGTATCC-GGCTAAGT-CCGA
1 GA-AGCATT--TGCGAGTGA--TATCCGGGCTAAGTCCCGA
* *
56951204 -AGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGA
1 GA-AGCATT--TGCGAGTGA--TATCCGGGCTAAGTCCCGA
*
56951244 -AGAGCATTCGTGCTAGTGATAT
1 GA-AGCATT--TGCGAGTGATAT
56951266 ATCCGTGCTA
Statistics
Matches: 127, Mismatches: 2, Indels: 15
0.88 0.01 0.10
Matches are distributed among these distances:
34 6 0.05
35 9 0.07
37 1 0.01
38 57 0.45
39 16 0.13
40 38 0.30
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (36 bp):
GAAGCATTTGCGAGTGATATCCGGGCTAAGTCCCGA
Found at i:56951191 original size:40 final size:40
Alignment explanation
Indices: 56951110--56951341 Score: 296
Period size: 40 Copynumber: 5.9 Consensus size: 40
56951100 TGTGCGAGTA
56951110 ATCCGGGCTAAGTCCCG-AGAAGCATT--TGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAG-AGCATTCATGCTAGTGATGT
56951148 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
56951188 ATCC-GGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
56951226 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* ** * * * *
56951266 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
56951306 GTCCGGGCT-AGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
56951342 CGTGTATTCG
Statistics
Matches: 174, Mismatches: 15, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
38 53 0.30
39 40 0.23
40 81 0.47
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:56951219 original size:78 final size:77
Alignment explanation
Indices: 56951110--56951341 Score: 281
Period size: 78 Copynumber: 3.0 Consensus size: 77
56951100 TGTGCGAGTA
56951110 ATCCGGGCTAAGTCCCG-AGAAGCATT-TGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
1 ATCC-GGCTAAGT-CCGAAG-AGCATTCTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
*
56951173 TCATGCTAGTGATGT
63 TCATGCTAGTGATAT
*
56951188 ATCCGGCTAAGTCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTC
1 ATCCGGCTAAGTCCGAAGAGCATTC-TGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTC
*
56951253 GTGCTAGTGATAT
65 ATGCTAGTGATAT
** * * * * *
56951266 ATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATGTCCGGGCT-AGTCCCGAAGAGCAA
1 ATCCG-GCT-AAGTCCGAAGAGCATTC-TGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCAT
*
56951330 TCATGCTGGTGA
63 TCATGCTAGTGA
56951342 CGTGTATTCG
Statistics
Matches: 135, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
76 9 0.07
77 10 0.07
78 58 0.43
79 26 0.19
80 32 0.24
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (77 bp):
ATCCGGCTAAGTCCGAAGAGCATTCTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCA
TGCTAGTGATAT
Found at i:56954743 original size:47 final size:47
Alignment explanation
Indices: 56954521--56955211 Score: 977
Period size: 47 Copynumber: 14.4 Consensus size: 47
56954511 CAGCCAAGAG
*
56954521 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
56954568 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
56954617 AGTGTATGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
56954668 AGTATATGTATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AG----TGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
56954719 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
56954766 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
56954813 AGTGTATGTTTATGTGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTG--ATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
56954864 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
56954911 AGTGTATATGTGTGATAAGGCCTAATAGCCGACGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * *
56954958 AGTGTATATATGTAATAAGGCCTAATGGCCGAGGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
56955005 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
56955052 AGTGTATATATGTGATAAGGCCTAATGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
56955099 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTAATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * * *
56955146 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
56955193 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
56955212 TCCCGAAAGG
Statistics
Matches: 599, Mismatches: 33, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
47 413 0.69
49 53 0.09
51 129 0.22
53 4 0.01
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:56955386 original size:37 final size:37
Alignment explanation
Indices: 56955330--56955408 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
56955320 CCGAGCTCTA
* * *
56955330 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGAT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
* *
56955367 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
56955404 AAGAC
1 AAGAC
56955409 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGAT
Found at i:56957180 original size:15 final size:16
Alignment explanation
Indices: 56957160--56957190 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
56957150 GTTTTTGTCT
56957160 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
56957175 TATATATGATCTAAAA
1 TATATATGATCTAAAA
56957191 GCAAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:56958006 original size:19 final size:19
Alignment explanation
Indices: 56957960--56958000 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
56957950 ATGTATTAAA
56957960 TTACATATTGAATCAATGT
1 TTACATATTGAATCAATGT
56957979 TTACATATTGAATCAATGT
1 TTACATATTGAATCAATGT
56957998 TTA
1 TTA
56958001 TGTATTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (19 bp):
TTACATATTGAATCAATGT
Found at i:56958241 original size:43 final size:43
Alignment explanation
Indices: 56958186--56958292 Score: 169
Period size: 43 Copynumber: 2.5 Consensus size: 43
56958176 AAGGTTAAGA
56958186 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
1 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
**** *
56958229 TTTTAGCGGCGTTTGCAAAAAAAGCGCCGCTAAAGGTCATGGT
1 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
56958272 TTTTAGCGGCGTTTGTGGGAA
1 TTTTAGCGGCGTTTGTGGGAA
56958293 TTAAATGTCA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (43 bp):
TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGAT
Found at i:56958450 original size:94 final size:94
Alignment explanation
Indices: 56958289--56958600 Score: 570
Period size: 94 Copynumber: 3.3 Consensus size: 94
56958279 GGCGTTTGTG
*
56958289 GGAATTAAATGTCACTTTGTGTGCAGATTTTATATGCTATTTCAATTAAGTAAATTGCCTTATTA
1 GGAATTAAATGTCACTTTGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTGCCTTATTA
56958354 TAATGAGTTAACATTGGCACTATGTGTAC
66 TAATGAGTTAACATTGGCACTATGTGTAC
*
56958383 GGAATTAAATGTCACTTTGCGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTGCCTTATTA
1 GGAATTAAATGTCACTTTGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTGCCTTATTA
56958448 TAATGAGTTAACATTGGCACTATGTGTAC
66 TAATGAGTTAACATTGGCACTATGTGTAC
*
56958477 AGAATTAAATGTCACTTTGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTGCCTTATTA
1 GGAATTAAATGTCACTTTGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTGCCTTATTA
*
56958542 TAATGAGTTAACATTGGCACTATGTGTGC
66 TAATGAGTTAACATTGGCACTATGTGTAC
* *
56958571 GGAATTAAATGGCACTATGTGTGCAGATTT
1 GGAATTAAATGTCACTTTGTGTGCAGATTT
56958601 GAATGTCGAT
Statistics
Matches: 210, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 210 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (94 bp):
GGAATTAAATGTCACTTTGTGTGCAGATTTTATATGCTATTTGAATTAAGTAAATTGCCTTATTA
TAATGAGTTAACATTGGCACTATGTGTAC
Found at i:56966363 original size:94 final size:94
Alignment explanation
Indices: 56966157--56966530 Score: 689
Period size: 94 Copynumber: 4.0 Consensus size: 94
56966147 AATGTGACCG
* *
56966157 TATATGCTATTTGAATTAAGTAAGTTGCCATATTATAATGAGTTAACATTGGCACTATGT-TGC-
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
56966220 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
56966249 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
56966314 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
56966343 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
*
56966408 GAATTAAATGTCACTTTGTGTGTAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
56966437 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
* *
56966502 GAATTAAATGGCACTATGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
56966531 GAATGTCGAT
Statistics
Matches: 274, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
92 58 0.21
93 3 0.01
94 213 0.78
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.40
Consensus pattern (94 bp):
TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
GAATTAAATGTCACTTTGTGTGCAGATTT
Found at i:56966535 original size:24 final size:24
Alignment explanation
Indices: 56966486--56966596 Score: 77
Period size: 24 Copynumber: 4.6 Consensus size: 24
56966476 GAGTTAACAT
* * *
56966486 TGGCACTATGTGTGCGGAATTAAA
1 TGGCACTATGTGTGCAGATTTGAA
56966510 TGGCACTATGTGTGCAGATTTGAA
1 TGGCACTATGTGTGCAGATTTGAA
* * * * *
56966534 TGTCGA-TGCATGAGTGAAAATTT-CA
1 TGGC-ACT--ATGTGTGCAGATTTGAA
*
56966559 -GGCACTATGTGTGCAG-TTTAGTA
1 TGGCACTATGTGTGCAGATTT-GAA
56966582 TGGCACTATGTGTGC
1 TGGCACTATGTGTGC
56966597 GAGCTTAATT
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
21 3 0.04
22 7 0.10
23 2 0.03
24 42 0.63
25 2 0.03
26 11 0.16
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCAGATTTGAA
Found at i:56966611 original size:24 final size:25
Alignment explanation
Indices: 56966560--56966622 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
56966550 AAAATTTCAG
* * *
56966560 GCACTATGTGTGC-AGTTTAGTATG
1 GCACTATGTGTGCGAGCTTAATATA
56966584 GCACTATGTGTGCGAGCTTAAT-TA
1 GCACTATGTGTGCGAGCTTAATATA
56966608 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
56966623 ATTTAGTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
24 29 0.83
25 6 0.17
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (25 bp):
GCACTATGTGTGCGAGCTTAATATA
Found at i:56973255 original size:22 final size:23
Alignment explanation
Indices: 56973222--56973270 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
56973212 ATCAACATGA
56973222 AACACAAGCTTACATCATACACC
1 AACACAAGCTTACATCATACACC
*
56973245 AACA-AAGCTTACATCATATACC
1 AACACAAGCTTACATCATACACC
56973267 AACA
1 AACA
56973271 TTTGCTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.47, C:0.31, G:0.04, T:0.18
Consensus pattern (23 bp):
AACACAAGCTTACATCATACACC
Found at i:56975607 original size:42 final size:42
Alignment explanation
Indices: 56975481--56975615 Score: 121
Period size: 42 Copynumber: 3.1 Consensus size: 42
56975471 TAAGATGCCA
* * **
56975481 ATGCCATATCCCAGATATGGTCTTACATGGGATCACACGTATCG
1 ATGCCATGTCCCAGACATGGTCTTACATGAAATCACA--TATCG
* ** *
56975525 ATGCCGATAG-CCTAG-CTATGGTCTTACATGATGTCTCATATCG
1 ATGCC-AT-GTCCCAGAC-ATGGTCTTACATGAAATCACATATCG
* *
56975568 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATTG
1 ATGCCATGTCCCAGACATGGTCTTACATGAAATCACATATCG
56975610 ATGCCA
1 ATGCCA
56975616 ATGCCATATC
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
41 1 0.01
42 33 0.45
43 11 0.15
44 5 0.07
45 23 0.32
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAAATCACATATCG
Found at i:56975698 original size:48 final size:48
Alignment explanation
Indices: 56975568--56975703 Score: 182
Period size: 48 Copynumber: 2.8 Consensus size: 48
56975558 TCTCATATCG
* * * *
56975568 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATTGATGCCA
1 ATGCCATGTCCAAGACATGGTCTTACATGAGATCTCATATTGATGCCA
* *
56975616 ATGCCATATCCAAGATATGGTCTTACATGAGATCTCATATTGATGCCA
1 ATGCCATGTCCAAGACATGGTCTTACATGAGATCTCATATTGATGCCA
* * * *
56975664 ATGCCATGTACTAGACATGGTCTTACTTGGGATCTCATAT
1 ATGCCATGTCCAAGACATGGTCTTACATGAGATCTCATAT
56975704 AACCCTAATG
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (48 bp):
ATGCCATGTCCAAGACATGGTCTTACATGAGATCTCATATTGATGCCA
Found at i:56981985 original size:21 final size:21
Alignment explanation
Indices: 56981961--56982002 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
56981951 TTTATGGACC
56981961 TATAATCACAAGGTCGTCACA
1 TATAATCACAAGGTCGTCACA
56981982 TATAATCACAAGGTCGTCACA
1 TATAATCACAAGGTCGTCACA
56982003 AAATCATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (21 bp):
TATAATCACAAGGTCGTCACA
Found at i:56982375 original size:48 final size:48
Alignment explanation
Indices: 56982210--56982426 Score: 170
Period size: 48 Copynumber: 4.7 Consensus size: 48
56982200 CACATAGTAA
* *
56982210 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAGATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACACGAGATCAC--ATATC
* * *
56982260 GATG-C--TG--ATAGCCCAGCTATGGTCTTACACGATG-TCTCATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACACGA-GATCACATATC
* *
56982303 GATGCC-ATG-----TCCCAGACATGGTCTTACACGAAATCACATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACACGAGATCACATATC
* * * *
56982345 GATGCCAATGCCATATCCCATATATGGTCTTACATGGGATCTCATATC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACACGAGATCACATATC
** * * * *
56982393 GATTTCAATGCCATGTCCTAGACATCGTCTTACA
1 GATGCCAATGCCATATCCCAGATATGGTCTTACA
56982427 TAGGATCTCA
Statistics
Matches: 134, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
42 33 0.25
43 12 0.09
44 1 0.01
45 26 0.19
46 1 0.01
47 2 0.01
48 54 0.40
49 1 0.01
50 4 0.03
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACACGAGATCACATATC
Found at i:56985475 original size:15 final size:16
Alignment explanation
Indices: 56985455--56985491 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
56985445 ACATTGTATC
*
56985455 ATATCAAATTCA-CAT
1 ATATCAAATACATCAT
56985470 ATATCAAATACATCAT
1 ATATCAAATACATCAT
56985486 AT-TCAA
1 ATATCAA
56985492 CATTTCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (16 bp):
ATATCAAATACATCAT
Found at i:56985740 original size:24 final size:24
Alignment explanation
Indices: 56985672--56985740 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 24
56985662 AGCTCCTCCT
* *
56985672 GAGCTGATGAACAGTAAGCTCTATT
1 GAGCTGA-AAACAGTAAGCTCTATC
**
56985697 GAGCTG-AAATGGTAAGCTCTATC
1 GAGCTGAAAACAGTAAGCTCTATC
56985720 GAGCTGAAAACAGTAAGCTCT
1 GAGCTGAAAACAGTAAGCTCT
56985741 TACGAGTTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 19 0.51
24 12 0.32
25 6 0.16
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (24 bp):
GAGCTGAAAACAGTAAGCTCTATC
Found at i:56989207 original size:300 final size:296
Alignment explanation
Indices: 56988540--56989439 Score: 1353
Period size: 300 Copynumber: 3.0 Consensus size: 296
56988530 TATTTTATGT
56988540 TTTAACCATTTTCATTTTAATTATTTAATTAAAAATAAATTATTTAATGTTAGAAAACCACACCA
1 TTTAACCATTTTCATTTTAATTATTTAATTAAAAATAAATTATTTAATGTTAGAAAACCACACCA
**
56988605 ACCATCCACCCATCCACCATTATAGAATTATGGCATAATTACCAATTTGAACCTTAATCACTTAT
66 ACTGTCCACCCATCCACCATTATAGAATTATGGCATAATTACCAATTTGAACCTTAATCACTTAT
* * * *
56988670 TAATTAAGCCATTTAGTTACTAAAAATCAATTTTGATTAATTTTTATAGTTTTTTCGATTTAGTC
131 TAATTAAGCCATTTAGTTACTAAAAATCAATATTGATTAATTTTTACAGTTTTTTAGAATTAGTC
* * *
56988735 CTTTTTT-CATAATTAATCATCCAAACACTAAATTTTTTCGAATCAATTTTAATTCACCTATATA
196 CTTTTTTCCATAATTAATCATCCAAACACTAAATTTTTT-GACT-AACTTCAATTCACCTATATA
* * *
56988799 TCAGTTCTGTACATATTTTATTAAATACTTATGGACTCGG
259 TCAGTTC-GTAAATATTTTATTAAATATTTACGG-CTCGG
*
56988839 TTTAACCATTTTCATTTTAATTATTTAATTAAAAATAAATTATTTAATGTTAGAAAACCATACCA
1 TTTAACCATTTTCATTTTAATTATTTAATTAAAAATAAATTATTTAATGTTAGAAAACCACACCA
*
56988904 ACTGTCCACCCATCCACCATTATAGAATTATGGCATAATTATCAATTTGAACCTTAATCACTTAT
66 ACTGTCCACCCATCCACCATTATAGAATTATGGCATAATTACCAATTTGAACCTTAATCACTTAT
* *
56988969 TAATTAAGCCGTTTAGTTACTAAAAATCAATATTGATTAATTTTTACAG-TTTTTATGAATTAAT
131 TAATTAAGCCATTTAGTTACTAAAAATCAATATTGATTAATTTTTACAGTTTTTTA-GAATTAGT
* * *
56989033 CCTTTTTTCCATTATGAATCATCCAAACACTAAACTTTTTTGAGCTAACTTCACTTCACCTATAT
195 CCTTTTTTCCATAATTAATCATCCAAACACTAAA-TTTTTTGA-CTAACTTCAATTCACCTATAT
56989098 ATCAGTTCAGTAAATATTTTATTAAATATTTACAGGCTCGG
258 ATCAGTTC-GTAAATATTTTATTAAATATTTAC-GGCTCGG
* *
56989139 TTTATCCATTTTCATTTTAATTATTTAATTAAAAATAAATTATTTAATGTTAGAAAACCACGCCA
1 TTTAACCATTTTCATTTTAATTATTTAATTAAAAATAAATTATTTAATGTTAGAAAACCACACCA
* *
56989204 ACTGTCCACCCGTCCACCATTATAGAATTATGGTATAATTACCAATTTGAACCTTAATCACTTAT
66 ACTGTCCACCCATCCACCATTATAGAATTATGGCATAATTACCAATTTGAACCTTAATCACTTAT
* * * *
56989269 TAATTAAGCCACTTAGTTACTAAAAATCAATACTGATTAATTTTTACAATTTTTTACAATTTAGT
131 TAATTAAGCCATTTAGTTACTAAAAATCAATATTGATTAATTTTTACAGTTTTTTAGAA-TTAGT
* * *
56989334 -CATTTTTCCATAATTAATCATCCAAACACTAAATTTTTTTGAACCAACTTCAAATCACCTATAT
195 CCTTTTTTCCATAATTAATCATCCAAACACTAAA-TTTTTTG-ACTAACTTCAATTCACCTATAT
*
56989398 ATTAGTTTCGTAAATA--TT-TTAAATATTTACGAGCTCGG
258 ATCAG-TTCGTAAATATTTTATTAAATATTTACG-GCTCGG
56989436 TTTA
1 TTTA
56989440 TAGAAACGAG
Statistics
Matches: 551, Mismatches: 40, Indels: 22
0.90 0.07 0.04
Matches are distributed among these distances:
296 1 0.00
297 22 0.04
298 7 0.01
299 186 0.34
300 312 0.57
301 23 0.04
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.41
Consensus pattern (296 bp):
TTTAACCATTTTCATTTTAATTATTTAATTAAAAATAAATTATTTAATGTTAGAAAACCACACCA
ACTGTCCACCCATCCACCATTATAGAATTATGGCATAATTACCAATTTGAACCTTAATCACTTAT
TAATTAAGCCATTTAGTTACTAAAAATCAATATTGATTAATTTTTACAGTTTTTTAGAATTAGTC
CTTTTTTCCATAATTAATCATCCAAACACTAAATTTTTTGACTAACTTCAATTCACCTATATATC
AGTTCGTAAATATTTTATTAAATATTTACGGCTCGG
Found at i:56995255 original size:40 final size:40
Alignment explanation
Indices: 56995150--56995311 Score: 213
Period size: 40 Copynumber: 4.1 Consensus size: 40
56995140 CGGATGATAA
* *
56995150 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
56995190 CCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
56995229 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
56995269 CCGGGCTAAATCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
56995309 CCG
1 CCG
56995312 ACTAAATTCC
Statistics
Matches: 108, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
39 35 0.32
40 73 0.68
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:56995324 original size:79 final size:79
Alignment explanation
Indices: 56995155--56995326 Score: 188
Period size: 79 Copynumber: 2.2 Consensus size: 79
56995145 GATAACCGGG
* * * * *
56995155 CTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCAGGCTAAGCCCGAAGGCATTTGTGCGAG
1 CTAAATCCCGAAGGCATTTGTGCGAGTGACTAATACCAGGCTAAGCCCGAAGGCATTTGAGCAAG
* *
56995220 TTACTATATCTGGG
66 TTACTATATCTCGA
* * * *
56995234 CTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAATCCCGAAGGCATTTGAGCA
1 CTAAATCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCAGGCT-AAGCCCGAAGGCATTTGAGCA
56995298 AG-TAGCTATATC-CGA
64 AGTTA-CTATATCTCGA
*
56995313 CTAAATTCCGAAGG
1 CTAAATCCCGAAGG
56995327 TACTTGGTTT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
78 2 0.03
79 50 0.63
80 27 0.34
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (79 bp):
CTAAATCCCGAAGGCATTTGTGCGAGTGACTAATACCAGGCTAAGCCCGAAGGCATTTGAGCAAG
TTACTATATCTCGA
Found at i:57003112 original size:40 final size:40
Alignment explanation
Indices: 57003007--57003252 Score: 376
Period size: 40 Copynumber: 6.2 Consensus size: 40
57002997 CGGATGATAA
* *
57003007 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
57003047 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57003086 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57003126 CC-GGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57003165 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
57003205 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
57003245 CC-GGCTAA
1 CCGGGCTAA
57003253 ATTCCAAAGG
Statistics
Matches: 192, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
39 80 0.42
40 112 0.58
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57003142 original size:79 final size:80
Alignment explanation
Indices: 57003007--57003252 Score: 385
Period size: 79 Copynumber: 3.1 Consensus size: 80
57002997 CGGATGATAA
* * *
57003007 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATTT
57003070 GTGCGAGTTACTATAT
65 GTGCGAGTTACTATAT
*
57003086 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC-GGCTAAGTCTCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
57003150 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
57003165 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* *
57003230 AGCAAG-TAGCTATAT
66 TGCGAGTTA-CTATAT
57003245 CC-GGCTAA
1 CCGGGCTAA
57003253 ATTCCAAAGG
Statistics
Matches: 156, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
78 7 0.04
79 115 0.74
80 34 0.22
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:57010204 original size:28 final size:27
Alignment explanation
Indices: 57010107--57010208 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 27
57010097 AGCATGGCTG
* * *
57010107 CCAG-AACAGATATTGTGACAAAGTCA
1 CCAGAAACAGATATTGTGGCAGAGCCA
* *
57010133 CCAGATACAGATATTGTGGCAGAGCAA
1 CCAGAAACAGATATTGTGGCAGAGCCA
57010160 CCAG-AACAGATATTTGTGGCAGAGCCA
1 CCAGAAACAGATA-TTGTGGCAGAGCCA
*
57010187 TCAGAAACAGATATTTGTGGCA
1 CCAGAAACAGATA-TTGTGGCA
57010209 TAGAAGATCA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 11 0.17
27 37 0.57
28 17 0.26
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (27 bp):
CCAGAAACAGATATTGTGGCAGAGCCA
Found at i:57021613 original size:80 final size:80
Alignment explanation
Indices: 57021502--57021682 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
57021492 CTCATTCAAT
* * *
57021502 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
57021565 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
57021581 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
57021645 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
57021662 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
57021683 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:57021642 original size:40 final size:40
Alignment explanation
Indices: 57021499--57021682 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
57021489 TAACTCATTC
* *
57021499 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
57021539 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
57021579 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
57021619 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
57021660 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
57021683 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:57029363 original size:39 final size:40
Alignment explanation
Indices: 57029286--57029432 Score: 120
Period size: 40 Copynumber: 3.7 Consensus size: 40
57029276 TAGCTCCTCG
* * *
57029286 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
* *
57029326 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** * * * *
57029365 CACGAATGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCG
1 TTC-AATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
** *
57029405 CACAAAGGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
57029433 ATTAATAACT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 27 0.29
40 65 0.71
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATAGAAACTCA
Found at i:57029443 original size:80 final size:80
Alignment explanation
Indices: 57029332--57029512 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
57029322 CTCATTCAAT
* * *
57029332 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
57029395 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
57029411 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
57029475 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
57029492 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
57029513 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:57029472 original size:40 final size:40
Alignment explanation
Indices: 57029329--57029512 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
57029319 TAACTCATTC
* *
57029329 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
57029369 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
57029409 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
57029449 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
57029490 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
57029513 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:57036413 original size:27 final size:27
Alignment explanation
Indices: 57036383--57036560 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
57036373 ATATTGAGCC
* * * *
57036383 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
57036410 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
57036437 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAGTCA-AAT
** * *
57036465 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
57036492 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
57036519 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
57036546 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57036561 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:57036522 original size:82 final size:81
Alignment explanation
Indices: 57036404--57036559 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
57036394 TGCTATATAA
* * * *
57036404 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
57036469 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
57036486 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
57036550 CACTTAGTGC
65 CACTTAGTGC
57036560 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:57044493 original size:27 final size:27
Alignment explanation
Indices: 57044463--57044640 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
57044453 ATATTGAGCC
* *
57044463 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
57044490 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
57044517 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
57044545 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
57044572 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
57044599 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
57044626 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57044641 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:57044602 original size:82 final size:81
Alignment explanation
Indices: 57044484--57044639 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
57044474 TGCTATATAA
* * * *
57044484 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
57044549 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
57044566 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATTGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
57044630 CACTTAGTGC
65 CACTTAGTGC
57044640 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 16 0.25
82 48 0.75
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:57047105 original size:53 final size:54
Alignment explanation
Indices: 57047017--57047124 Score: 191
Period size: 53 Copynumber: 2.0 Consensus size: 54
57047007 GTGATAAGGT
*
57047017 ATTTCTAAAAGTATCCCCGTGGAGGAAGGTTCTTAGATTCAGTAAAAAGGGTAA
1 ATTTCTAAAAGTATCCCCATGGAGGAAGGTTCTTAGATTCAGTAAAAAGGGTAA
*
57047071 ATTTCTAAAAGTAT-CCCATGGAGGAAGGTTCTTAGATTCGGTAAAAAGGGTAA
1 ATTTCTAAAAGTATCCCCATGGAGGAAGGTTCTTAGATTCAGTAAAAAGGGTAA
57047124 A
1 A
57047125 CTGAGTCCGC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
53 38 0.73
54 14 0.27
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (54 bp):
ATTTCTAAAAGTATCCCCATGGAGGAAGGTTCTTAGATTCAGTAAAAAGGGTAA
Found at i:57048666 original size:115 final size:115
Alignment explanation
Indices: 57048464--57048694 Score: 437
Period size: 115 Copynumber: 2.0 Consensus size: 115
57048454 TTAGATCAAG
57048464 AGAAATGTGATTCGGGTCTTGATCGGGATAAGAACAAAGTTTACAAGGATTAAGCTCATCTTCAT
1 AGAAATGTGATTCGGGTCTTGATCGGGATAAGAACAAAGTTTACAAGGATTAAGCTCATCTTCAT
57048529 CATTTTGTATCGAGGTAAGTACATATGTGAATAATGTGTTATTAAAGCTT
66 CATTTTGTATCGAGGTAAGTACATATGTGAATAATGTGTTATTAAAGCTT
*
57048579 AGAAATGTGATTCGGGTCTTGATCGAGG-TAAGAACAAAGTTTACGAGGATTAAGCTCATCTTCA
1 AGAAATGTGATTCGGGTCTTGATCG-GGATAAGAACAAAGTTTACAAGGATTAAGCTCATCTTCA
57048643 TCATTTTGTATCGAGGTAAGTACATATGTGAATAATGTGTTATTAAAGCTT
65 TCATTTTGTATCGAGGTAAGTACATATGTGAATAATGTGTTATTAAAGCTT
57048694 A
1 A
57048695 CTTTGGAATA
Statistics
Matches: 114, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
115 112 0.98
116 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (115 bp):
AGAAATGTGATTCGGGTCTTGATCGGGATAAGAACAAAGTTTACAAGGATTAAGCTCATCTTCAT
CATTTTGTATCGAGGTAAGTACATATGTGAATAATGTGTTATTAAAGCTT
Found at i:57055091 original size:104 final size:104
Alignment explanation
Indices: 57054969--57055192 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
57054959 AATGGATATC
57054969 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
57055034 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
57055073 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
57055138 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
57055177 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
57055193 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:57055554 original size:29 final size:29
Alignment explanation
Indices: 57055521--57055584 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
57055511 TAATCCACCA
57055521 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
57055550 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
57055580 CCCAA
1 CCCAA
57055585 GCTCGAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:57055558 original size:30 final size:30
Alignment explanation
Indices: 57055528--57055584 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
57055518 CCACCCAACT
57055528 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
57055557 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
57055585 GCTCGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:57058448 original size:93 final size:93
Alignment explanation
Indices: 57058336--57058507 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
57058326 CGCCCATAAG
*
57058336 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
57058400 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
57058429 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57058494 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57058508 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57058502 original size:46 final size:46
Alignment explanation
Indices: 57058329--57058504 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
57058319 TGTAACCCGC
* *
57058329 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
57058375 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
57058425 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57058468 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57058505 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57061261 original size:24 final size:24
Alignment explanation
Indices: 57061162--57061262 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
57061152 AAGTTTGTCA
*
57061162 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
57061186 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
57061210 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
57061234 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
57061258 GGAGA
1 GGAGA
57061263 ATAGTGTTGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.33, C:0.02, G:0.41, T:0.25
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:57062658 original size:27 final size:26
Alignment explanation
Indices: 57062615--57062726 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
57062605 AGGAAGCGTC
*
57062615 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
57062642 CTGGTGGCTCTGTCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
57062669 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
57062697 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
57062723 CTGG
1 CTGG
57062727 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.09
27 50 0.68
28 17 0.23
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:57062719 original size:54 final size:54
Alignment explanation
Indices: 57062615--57062726 Score: 181
Period size: 54 Copynumber: 2.1 Consensus size: 54
57062605 AGGAAGCGTC
*
57062615 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGTCACATATATCTGTT
* *
57062669 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGTCACATATATCTGTT
57062723 CTGG
1 CTGG
57062727 CAGCCATGCT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 35 0.65
55 19 0.35
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGTCACATATATCTGTT
Found at i:57069853 original size:42 final size:43
Alignment explanation
Indices: 57069753--57069855 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 43
57069743 CAATGCCGAC
** **
57069753 GTCCCAGATGTGGTCTTACATATAATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACATATAATTCAATATCGATGCCAAT
* *
57069796 GTCCCATACAGGGTCTTACATGA-AA-TCAGATA-CGATGCCAAT
1 GTCCCAGACATGGTCTTACAT-ATAATTCA-ATATCGATGCCAAT
*
57069838 GTCCTAGACATGGTCTTA
1 GTCCCAGACATGGTCTTA
57069856 TACGTAAATA
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
42 26 0.53
43 22 0.45
44 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATATAATTCAATATCGATGCCAAT
Found at i:57079284 original size:26 final size:25
Alignment explanation
Indices: 57079240--57079292 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
57079230 TTAATATGTG
* *
57079240 TTTAATGTGTCTAGCTTAGGACATAA
1 TTTAATGTGTCTAACTTAGAACA-AA
*
57079266 TTTAATGTGTCTAATTTAGAACAAA
1 TTTAATGTGTCTAACTTAGAACAAA
57079291 TT
1 TT
57079293 CATTAGCAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (25 bp):
TTTAATGTGTCTAACTTAGAACAAA
Found at i:57080092 original size:12 final size:11
Alignment explanation
Indices: 57080066--57080114 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
57080056 TTTTCATGCT
57080066 AGGAAACTTCA
1 AGGAAACTTCA
*
57080077 AGGAAGCTTGCA
1 AGGAAACTT-CA
57080089 AGG--ACGTTCA
1 AGGAAAC-TTCA
57080099 A-GAAACTTCA
1 AGGAAACTTCA
57080109 AGGAAA
1 AGGAAA
57080115 TTTCCAGCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
9 1 0.03
10 9 0.29
11 16 0.52
12 5 0.16
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.16
Consensus pattern (11 bp):
AGGAAACTTCA
Found at i:57080098 original size:22 final size:20
Alignment explanation
Indices: 57080073--57080112 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
57080063 GCTAGGAAAC
*
57080073 TTCAAGGAAGCTTGCAAGGACG
1 TTCAA-GAAACTT-CAAGGACG
57080095 TTCAAGAAACTTCAAGGA
1 TTCAAGAAACTTCAAGGA
57080113 AATTTCCAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (20 bp):
TTCAAGAAACTTCAAGGACG
Found at i:57080860 original size:10 final size:10
Alignment explanation
Indices: 57080845--57080873 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
57080835 CGTATTTGTA
57080845 AAAAAAATTC
1 AAAAAAATTC
57080855 AAAAAAATTC
1 AAAAAAATTC
57080865 AAAAAAATT
1 AAAAAAATT
57080874 TTGTGAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:57084047 original size:26 final size:25
Alignment explanation
Indices: 57084003--57084055 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
57083993 TTAATATGTG
*
57084003 TTTAATGTGTCTATCTTAGGACATAA
1 TTTAATGTGTCTATCTTAGAACA-AA
57084029 TTTAATGTGTCTAAT-TTAGAACAAA
1 TTTAATGTGTCT-ATCTTAGAACAAA
57084054 TT
1 TT
57084056 AATTAGCTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 4 0.16
26 19 0.76
27 2 0.08
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.43
Consensus pattern (25 bp):
TTTAATGTGTCTATCTTAGAACAAA
Found at i:57084808 original size:22 final size:20
Alignment explanation
Indices: 57084783--57084822 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
57084773 GCTAGGAAAC
*
57084783 TTCAAGGAAGCTTGCAAGGATG
1 TTCAA-GAAACTT-CAAGGATG
57084805 TTCAAGAAACTTCAAGGA
1 TTCAAGAAACTTCAAGGA
57084823 AATTTCCAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (20 bp):
TTCAAGAAACTTCAAGGATG
Found at i:57085861 original size:6 final size:6
Alignment explanation
Indices: 57085850--57085874 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57085840 GCCCTTGTGC
57085850 ATACTG ATACTG ATACTG ATACTG A
1 ATACTG ATACTG ATACTG ATACTG A
57085875 AAGGTGCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (6 bp):
ATACTG
Found at i:57086086 original size:14 final size:14
Alignment explanation
Indices: 57086054--57086087 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
57086044 GTTTTTGGAC
57086054 TTTTATGATTTATA
1 TTTTATGATTTATA
* *
57086068 ATTTATGATTTATG
1 TTTTATGATTTATA
57086082 TTTTAT
1 TTTTAT
57086088 TTACCGTGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (14 bp):
TTTTATGATTTATA
Found at i:57089092 original size:20 final size:20
Alignment explanation
Indices: 57089067--57089112 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
57089057 AGCCCTTGAA
57089067 GAACCCTTGAATTTGCATTC
1 GAACCCTTGAATTTGCATTC
57089087 GAACCCTTGAATTTGCATTC
1 GAACCCTTGAATTTGCATTC
*
57089107 AAACCC
1 GAACCC
57089113 CTCCACTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (20 bp):
GAACCCTTGAATTTGCATTC
Found at i:57100330 original size:32 final size:32
Alignment explanation
Indices: 57100289--57100349 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
57100279 TTATTGATGT
57100289 TTAGTGAGTGATCAAACATATAACACATATGA
1 TTAGTGAGTGATCAAACATATAACACATATGA
57100321 TTAGTGAGTGATCAAACATATAACACATA
1 TTAGTGAGTGATCAAACATATAACACATA
57100350 AACACATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (32 bp):
TTAGTGAGTGATCAAACATATAACACATATGA
Found at i:57111404 original size:25 final size:26
Alignment explanation
Indices: 57111376--57111436 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
57111366 AATAAATTAC
57111376 TATACTTTTCATG-GAATTTAATTTT
1 TATACTTTTCATGAGAATTTAATTTT
*
57111401 TATA-TTTT-TTGAAGAATTTAATTTT
1 TATACTTTTCATG-AGAATTTAATTTT
* *
57111426 TTTACTCTTCA
1 TATACTTTTCA
57111437 CATCTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
23 2 0.07
24 4 0.14
25 19 0.68
26 3 0.11
ACGTcount: A:0.28, C:0.08, G:0.07, T:0.57
Consensus pattern (26 bp):
TATACTTTTCATGAGAATTTAATTTT
Found at i:57111603 original size:13 final size:13
Alignment explanation
Indices: 57111567--57111610 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
57111557 AGTTTAATAA
57111567 AAAATATTAATAATT
1 AAAAT-TTAA-AATT
57111582 -AAATTTAAAATT
1 AAAATTTAAAATT
*
57111594 AAAATTTAAAAAT
1 AAAATTTAAAATT
57111607 AAAA
1 AAAA
57111611 AATAAAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 4 0.15
13 19 0.70
14 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAAATTTAAAATT
Found at i:57111628 original size:8 final size:7
Alignment explanation
Indices: 57111601--57111626 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
57111591 ATTAAAATTT
57111601 AAAAATA
1 AAAAATA
57111608 AAAAATA
1 AAAAATA
57111615 AAAAATA
1 AAAAATA
57111622 AAAAA
1 AAAAA
57111627 ATTAAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:57114556 original size:21 final size:21
Alignment explanation
Indices: 57114522--57114577 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
57114512 ATGCAGGACA
* *
57114522 GACACGCCCATGTGGTCAAGG
1 GACACACCCGTGTGGTCAAGG
57114543 GACACACCCGTGTGGTCAAGG
1 GACACACCCGTGTGGTCAAGG
57114564 GACACACCCGTGTG
1 GACACACCCGTGTG
57114578 ACCATAGGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.32, T:0.14
Consensus pattern (21 bp):
GACACACCCGTGTGGTCAAGG
Found at i:57116674 original size:19 final size:19
Alignment explanation
Indices: 57116636--57116683 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
57116626 TTTTTATCAT
*
57116636 TTATCATTTA--TCAGGCA
1 TTATCATTTATTTCAAGCA
57116653 TTATCATTTATTTCAAGCA
1 TTATCATTTATTTCAAGCA
57116672 TTATCATTTATT
1 TTATCATTTATT
57116684 AGGCTTTGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 10 0.36
19 18 0.64
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (19 bp):
TTATCATTTATTTCAAGCA
Found at i:57122006 original size:22 final size:22
Alignment explanation
Indices: 57121981--57122027 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
57121971 GTGATTTGTC
57121981 ATGGGTGATTATAATCTATGTT
1 ATGGGTGATTATAATCTATGTT
57122003 ATGGGTGATTATAATCTATGTT
1 ATGGGTGATTATAATCTATGTT
57122025 ATG
1 ATG
57122028 TCTTTGTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.23, T:0.45
Consensus pattern (22 bp):
ATGGGTGATTATAATCTATGTT
Found at i:57131341 original size:34 final size:34
Alignment explanation
Indices: 57131302--57131370 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
57131292 AGAGATACGG
57131302 AACTCCAAATTAAGATCTGATAATTTTTCCAGAA
1 AACTCCAAATTAAGATCTGATAATTTTTCCAGAA
57131336 AACTCCAAATTAAGATCTGATAATTTTTCCAGAA
1 AACTCCAAATTAAGATCTGATAATTTTTCCAGAA
57131370 A
1 A
57131371 CTAGACTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (34 bp):
AACTCCAAATTAAGATCTGATAATTTTTCCAGAA
Found at i:57131867 original size:16 final size:15
Alignment explanation
Indices: 57131841--57131871 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
57131831 AACTGTTTTA
57131841 TTACAAATTTCACTT
1 TTACAAATTTCACTT
57131856 TTACATAATTTCACTT
1 TTACA-AATTTCACTT
57131872 ACTCCATTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.48
Consensus pattern (15 bp):
TTACAAATTTCACTT
Found at i:57132194 original size:50 final size:50
Alignment explanation
Indices: 57132070--57132309 Score: 248
Period size: 50 Copynumber: 4.8 Consensus size: 50
57132060 AACCGAAGCT
* * * * *
57132070 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* **
57132119 ATCTGGTACACGCAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * * **
57132169 ATCTGATACACGTAATAGCCTGCACTTAGTATTACACACGTGACCGAAGTT
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CC
* * * *
57132220 GTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACC
* * * *
57132272 ATCTTAAACACATGGTAGCCTGCACATAGTACTACACA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACA
57132310 TGTGTTCTCA
Statistics
Matches: 156, Mismatches: 31, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 40 0.26
50 46 0.29
51 38 0.24
52 30 0.19
53 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (50 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:57136877 original size:47 final size:48
Alignment explanation
Indices: 57136808--57136934 Score: 172
Period size: 47 Copynumber: 2.7 Consensus size: 48
57136798 GTAAGGTGCT
* * *
57136808 GATGCCGTTTCCTAGACATGGTCTTATACTGGCTCAT-ATCTCA-AGTC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCT-ATCATCTCATAGTC
* *
57136855 GATGCCATGTCCTAGACATGGTCTTACATTGACTATCATCTCATAGTC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCTCATAGTC
57136903 GATG-CATGTCCTAGACAT-GTCTTACACTGGCT
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCT
57136935 TACGTCTCGA
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
46 14 0.20
47 49 0.69
48 8 0.11
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (48 bp):
GATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCTCATAGTC
Found at i:57136988 original size:46 final size:47
Alignment explanation
Indices: 57136903--57137073 Score: 147
Period size: 46 Copynumber: 3.7 Consensus size: 47
57136893 TCTCATAGTC
* * *
57136903 GATGCATGTCCTAGACATGTCTTACACT-G-GCTTACGTCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCTTA-GTCTCAAGGCT
* * *
57136949 GTTGCATGTCCCAAACATGTCTTACACTAGCCCTT-GTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCTTAGTCTCAAGGCT
* * * * *
57136995 GATGCCATGTCCCGGACATGGTCTTACACTAGCTCTCATAATGT---GGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGC-C-CTTAGTCTCAAGGCT
*
57137043 GATGCATGTCCCAGACATGTCTTATACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
57137074 TCACACACGA
Statistics
Matches: 102, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
46 49 0.48
47 26 0.25
48 22 0.22
49 1 0.01
50 2 0.02
51 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCCTTAGTCTCAAGGCT
Found at i:57139632 original size:13 final size:13
Alignment explanation
Indices: 57139614--57139639 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57139604 ATTCATTATT
57139614 GTGTATGAGTATG
1 GTGTATGAGTATG
57139627 GTGTATGAGTATG
1 GTGTATGAGTATG
57139640 TTGTGTATAC
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:0.23, C:0.00, G:0.38, T:0.38
Consensus pattern (13 bp):
GTGTATGAGTATG
Found at i:57140667 original size:165 final size:166
Alignment explanation
Indices: 57140395--57140726 Score: 612
Period size: 165 Copynumber: 2.0 Consensus size: 166
57140385 GTAGGTTACA
*
57140395 TATATTGATATTCGGATCTAAAAAGAGGGAGTTTTCCTTCTTCAAGAAGTATTATCGCTGAATCT
1 TATATTGATATTCGGATCTAAAAAGAGGGAGTTTTCCTTCTTCAAGAAGTATTATCGCTGAATAT
57140460 TAAAGAACTTGTTATATTTCTTTCCCCTTCAAGCTGGAGTTGTAGATCTGGGTCCTCACCAGTAA
66 TAAAGAACTTGTTATATTTCTTTCCCCTTCAAGCTGGAGTTGTAGATCTGGGTCCTCACCAGTAA
57140525 TTACTCCATGTCAAGTGCTT-CTGCTAATATCAAGG
131 TTACTCCATGTCAAGTGCTTGCTGCTAATATCAAGG
* *
57140560 TATATTGATATTCGGGTCTAAAAAGAGGGAGTTTTCCTTCTTCAAGAAGTATTATTGCTGAATAT
1 TATATTGATATTCGGATCTAAAAAGAGGGAGTTTTCCTTCTTCAAGAAGTATTATCGCTGAATAT
*
57140625 TAAAGAACTTGTTATATTTCTTTCCCTTTCAAGCTGGAGTTGTAGATCTGGGTCCTCACCAGTAA
66 TAAAGAACTTGTTATATTTCTTTCCCCTTCAAGCTGGAGTTGTAGATCTGGGTCCTCACCAGTAA
*
57140690 TTACTCCATGTCAAGTGCTTGCTGCTAATATCGAGG
131 TTACTCCATGTCAAGTGCTTGCTGCTAATATCAAGG
57140726 T
1 T
57140727 GGAAGTCTGG
Statistics
Matches: 161, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
165 146 0.91
166 15 0.09
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (166 bp):
TATATTGATATTCGGATCTAAAAAGAGGGAGTTTTCCTTCTTCAAGAAGTATTATCGCTGAATAT
TAAAGAACTTGTTATATTTCTTTCCCCTTCAAGCTGGAGTTGTAGATCTGGGTCCTCACCAGTAA
TTACTCCATGTCAAGTGCTTGCTGCTAATATCAAGG
Found at i:57141404 original size:27 final size:27
Alignment explanation
Indices: 57141373--57141446 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
57141363 GAAACACCAC
57141373 CATGGCGAACTCTAAAGGAATGGTACTT
1 CATGGCGAACTCTAAAGGAATGGTA-TT
* *
57141401 -ATGGTGAACTCTAAATGAATGGTATT
1 CATGGCGAACTCTAAAGGAATGGTATT
* *
57141427 CATGGCAAACTCAAAAGGAA
1 CATGGCGAACTCTAAAGGAA
57141447 CGATATGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
26 2 0.05
27 37 0.95
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (27 bp):
CATGGCGAACTCTAAAGGAATGGTATT
Done.