Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001836.1 Hibiscus syriacus cultivar Beakdansim tig00003715_pilon, whole genome shotgun sequence
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: 2428596
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 12
Found at i:723395 original size:21 final size:20
Alignment explanation
Indices: 723364--723421 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
723354 CCATGTGAAT
* *
723364 TGGGCTCTTGAACGGTGGGA
1 TGGGCTCTTGAACGATAGGA
723384 TGGGCTTCTTGAACGATAGGA
1 TGGGC-TCTTGAACGATAGGA
*
723405 GGGGCCTCTTGAACGAT
1 TGGG-CTCTTGAACGAT
723422 GATAGGTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.15
21 27 0.82
22 1 0.03
ACGTcount: A:0.19, C:0.17, G:0.38, T:0.26
Consensus pattern (20 bp):
TGGGCTCTTGAACGATAGGA
Found at i:723598 original size:4 final size:4
Alignment explanation
Indices: 723566--723611 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
723556 GGGCCACTAA
* * * *
723566 AAAT AAAT TAAT ACAT AAAT CAGT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
723612 TGTCGAAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:723854 original size:21 final size:21
Alignment explanation
Indices: 723830--723882 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
723820 TGTACCATTG
*
723830 TCATCACGTAAAGTACCGACC
1 TCATCACGTAAAGCACCGACC
* *
723851 TCATCACGCAAAGCACTGACC
1 TCATCACGTAAAGCACCGACC
*
723872 TCATCATGTAA
1 TCATCACGTAA
723883 CTCCCCTAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.34, C:0.32, G:0.13, T:0.21
Consensus pattern (21 bp):
TCATCACGTAAAGCACCGACC
Found at i:725651 original size:19 final size:19
Alignment explanation
Indices: 725594--725655 Score: 74
Period size: 19 Copynumber: 3.2 Consensus size: 19
725584 AAACTTAAAT
725594 TCGCAACGCGAAAATGAAAA
1 TCGCAACGC-AAAATGAAAA
*
725614 TCACAACG-AGAAATGAAAA
1 TCGCAACGCA-AAATGAAAA
725633 TCGCAACGCAAAACT-AAAA
1 TCGCAACGCAAAA-TGAAAA
725652 TCGC
1 TCGC
725656 GTTGTGATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
18 1 0.03
19 27 0.73
20 9 0.24
ACGTcount: A:0.50, C:0.23, G:0.16, T:0.11
Consensus pattern (19 bp):
TCGCAACGCAAAATGAAAA
Found at i:726185 original size:19 final size:20
Alignment explanation
Indices: 726163--726200 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
726153 AATATTGTGT
*
726163 TTCGAATT-CGTAAATAAAA
1 TTCGAATTACGAAAATAAAA
*
726182 TTCGCATTACGAAAATAAA
1 TTCGAATTACGAAAATAAA
726201 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (20 bp):
TTCGAATTACGAAAATAAAA
Found at i:726233 original size:20 final size:20
Alignment explanation
Indices: 726208--726255 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
726198 AAACGCGCTT
726208 TGCGAATTTGACTTCTGTGC
1 TGCGAATTTGACTTCTGTGC
*
726228 TGCGAATTTGACTTCTGTGT
1 TGCGAATTTGACTTCTGTGC
726248 TGCGAATT
1 TGCGAATT
726256 ACAAATTCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.42
Consensus pattern (20 bp):
TGCGAATTTGACTTCTGTGC
Found at i:726295 original size:20 final size:21
Alignment explanation
Indices: 726246--726361 Score: 89
Period size: 20 Copynumber: 5.8 Consensus size: 21
726236 TGACTTCTGT
726246 GTTGCGAA-TTACAAATTCGC
1 GTTGCGAATTTACAAATTCGC
* * *
726266 ATTACG-ATTTACAAATTCGT
1 GTTGCGAATTTACAAATTCGC
*
726286 GTTGC-AATTTACATATTCGC
1 GTTGCGAATTTACAAATTCGC
** * *
726306 GTTGCGAATTTGGAAAATCAC
1 GTTGCGAATTTACAAATTCGC
** * *
726327 GTTGCGAA-AAAGAAATTCGT
1 GTTGCGAATTTACAAATTCGC
726347 GTTGCGAATTT-CAAA
1 GTTGCGAATTTACAAA
726362 ACTGAGTTGC
Statistics
Matches: 71, Mismatches: 21, Indels: 8
0.71 0.21 0.08
Matches are distributed among these distances:
19 1 0.01
20 52 0.73
21 18 0.25
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (21 bp):
GTTGCGAATTTACAAATTCGC
Found at i:726391 original size:40 final size:41
Alignment explanation
Indices: 726300--726398 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 41
726290 CAATTTACAT
*
726300 ATTCGCGTTGCGAATTTGGAAAATCACGTTGCGAAAAAGAA
1 ATTCGCGTTGCGAATTTGCAAAATCACGTTGCGAAAAAGAA
* * ** *
726341 ATTCGTGTTGCGAATTT-CAAAACTGA-GTTGCGAAATTGTA
1 ATTCGCGTTGCGAATTTGCAAAA-TCACGTTGCGAAAAAGAA
*
726381 GTTCGCGTTGCGAATTTG
1 ATTCGCGTTGCGAATTTG
726399 TTGGTCATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
40 30 0.62
41 18 0.38
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (41 bp):
ATTCGCGTTGCGAATTTGCAAAATCACGTTGCGAAAAAGAA
Found at i:729679 original size:31 final size:30
Alignment explanation
Indices: 729610--729679 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
729600 TGGAATATGC
* *
729610 AAATAT-AAATTTAATGACTAAAATTGAAT
1 AAATATAAAAGTTAAAGACTAAAATTGAAT
*
729639 ACATATAAAAGTTAAAGACTTAAAATTGAAAT
1 AAATATAAAAGTTAAAGAC-TAAAATTG-AAT
729671 AAAT-TAAAA
1 AAATATAAAA
729680 AATACAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 5 0.15
30 10 0.29
31 13 0.38
32 6 0.18
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (30 bp):
AAATATAAAAGTTAAAGACTAAAATTGAAT
Found at i:729796 original size:17 final size:17
Alignment explanation
Indices: 729774--729821 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
729764 AAAAATAATA
729774 TATATATAATA-TAAATT
1 TATATATAA-ACTAAATT
*
729791 TATATATAAACTATATT
1 TATATATAAACTAAATT
729808 TATATTATAAACTA
1 TATA-TATAAACTA
729822 TATAATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 1 0.04
17 18 0.64
18 9 0.32
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
TATATATAAACTAAATT
Found at i:729904 original size:13 final size:13
Alignment explanation
Indices: 729882--730032 Score: 60
Period size: 13 Copynumber: 11.5 Consensus size: 13
729872 ATTTATGTGC
729882 ACTATATATATAA
1 ACTATATATATAA
*
729895 ACTATGTATATAA
1 ACTATATATATAA
* *
729908 AATCATAAACTAT-A
1 ACT-ATATA-TATAA
**
729922 TTTATAT-TATAA
1 ACTATATATATAA
*
729934 ACTATATA-AT-T
1 ACTATATATATAA
* * *
729945 ATTATGAGATATAT
1 ACTAT-ATATATAA
729959 A-TATATATATAA
1 ACTATATATATAA
* * * *
729971 ATTATGTTTATGTGA
1 ACTA--TATATATAA
*
729986 ACTGTATATATAA
1 ACTATATATATAA
* *
729999 ACTTTGTATATAA
1 ACTATATATATAA
730012 ACTATATATGTATAA
1 ACTATATA--TATAA
730027 ACTATA
1 ACTATA
730033 AAAAGTATAT
Statistics
Matches: 100, Mismatches: 26, Indels: 22
0.68 0.18 0.15
Matches are distributed among these distances:
11 7 0.07
12 17 0.17
13 47 0.47
14 7 0.07
15 22 0.22
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (13 bp):
ACTATATATATAA
Found at i:729942 original size:98 final size:102
Alignment explanation
Indices: 729814--730012 Score: 255
Period size: 104 Copynumber: 2.0 Consensus size: 102
729804 TATTTATATT
* *
729814 ATAAACTATATAATTATTATAAACTGTATAATTA-T-T-ATA-AGCCATATATATAAATTATATT
1 ATAAACTATATAATTATTATAAACTATATAATTATTATGATATAGACATATATATAAATTATATT
*
729875 TATGTGCACTATATATATAAACTATGTATATAAAATC
66 TATGTGAACTATATATATAAACTATGTATATAAAATC
* * *
729912 ATAAACTATAT-TTATATTATAAACTATATAATTATTATGAGATATATATATATATATAAATTAT
1 ATAAACTATATAAT-TATTATAAACTATATAATTATTAT--GATATAGACATATATATAAATTAT
* * *
729976 GTTTATGTGAACTGTATATATAAACTTTGTATATAAA
63 ATTTATGTGAACTATATATATAAACTATGTATATAAA
730013 CTATATATGT
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
97 1 0.01
98 30 0.35
99 1 0.01
100 1 0.01
103 3 0.04
104 49 0.58
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (102 bp):
ATAAACTATATAATTATTATAAACTATATAATTATTATGATATAGACATATATATAAATTATATT
TATGTGAACTATATATATAAACTATGTATATAAAATC
Found at i:729947 original size:18 final size:18
Alignment explanation
Indices: 729791--729971 Score: 95
Period size: 18 Copynumber: 9.6 Consensus size: 18
729781 AATATAAATT
*
729791 TATA-TATAAACTATATT
1 TATATTATAAACTATATA
729808 TATATTATAAACTATATA
1 TATATTATAAACTATATA
*
729826 -ATTATTATAAACTGTATA
1 TA-TATTATAAACTATATA
*
729844 -ATTATTATAAGCCATATATA
1 TA-TATTATAA-AC-TATATA
* ** *
729864 TAAATTAT-ATTTATGTGCA
1 TATATTATAAACTATAT--A
729883 CTATATATATAAACTATGTATA
1 -TATAT-TATAAACTA--TATA
* * *
729905 TAAAATCATAAACTATATT
1 T-ATATTATAAACTATATA
729924 TATATTATAAACTATATA
1 TATATTATAAACTATATA
*
729942 -ATTATTATGAGA-TATATA
1 TA-TATTAT-AAACTATATA
729960 TATATATATAAA
1 TATAT-TATAAA
729972 TTATGTTTAT
Statistics
Matches: 127, Mismatches: 20, Indels: 33
0.71 0.11 0.18
Matches are distributed among these distances:
17 10 0.08
18 68 0.54
19 13 0.10
20 14 0.11
21 13 0.10
22 7 0.06
24 2 0.02
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (18 bp):
TATATTATAAACTATATA
Found at i:730081 original size:2 final size:2
Alignment explanation
Indices: 730068--730230 Score: 105
Period size: 2 Copynumber: 84.5 Consensus size: 2
730058 ATTTATATTA
730068 AT AT AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * * * *
730111 AA AA ACT AT AT AT GT AT A- AA AT AT TT A- AA AT AT AT AGT TT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
* * *
730153 AT GT -T AT A- AT TT AT AT -T A- AT AT AT -T AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
730190 GT AT A- ACT A- AT AT A- AGT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
730230 A
1 A
730231 AAGAAATACT
Statistics
Matches: 128, Mismatches: 17, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
1 11 0.09
2 111 0.87
3 6 0.05
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:730122 original size:103 final size:103
Alignment explanation
Indices: 730005--730194 Score: 274
Period size: 103 Copynumber: 1.8 Consensus size: 103
729995 ATAAACTTTG
* * *
730005 TATATAAACTATATATGTATAAACTA-TAAAAAGTATATAGTTTATAAAATATTATTTATATTAA
1 TATAAAAACTATATATGTATAAAATATTAAAAA-TATATAGTTTATAAAATATAATTTATATTAA
730069 TATAGTATATATATATATATATATATATATATATATATA
65 TATAGTATATATATATATATATATATATATATATATATA
* ***
730108 TATAAAAACTATATATGTATAAAATATTTAAAATATATAGTTTATATGTTATAATTTATATTAAT
1 TATAAAAACTATATATGTATAAAATATTAAAAATATATAGTTTATAAAATATAATTTATATTAAT
* * *
730173 ATATTATATATATGTATGTATA
66 ATAGTATATATATATATATATA
730195 ACTAATATAA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
103 71 0.93
104 5 0.07
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (103 bp):
TATAAAAACTATATATGTATAAAATATTAAAAATATATAGTTTATAAAATATAATTTATATTAAT
ATAGTATATATATATATATATATATATATATATATATA
Found at i:730379 original size:35 final size:36
Alignment explanation
Indices: 730309--730382 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
730299 ACAATAGTTA
* *
730309 ATATATGTAACTTATAATATATGTATACATGTAAACT
1 ATATATGTAACTTATAATACATGTATA-ATATAAACT
* *
730346 ATATATGTAACTTATAGTACATGTAT-GTATAAACT
1 ATATATGTAACTTATAATACATGTATAATATAAACT
730381 AT
1 AT
730383 GTATACTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 9 0.27
37 24 0.73
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (36 bp):
ATATATGTAACTTATAATACATGTATAATATAAACT
Found at i:730520 original size:13 final size:12
Alignment explanation
Indices: 730489--730553 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 12
730479 TAAAAAACCC
*
730489 TAAACCCAAATC
1 TAAACCCAAATT
*
730501 CAAACCCAAACTT
1 TAAACCCAAA-TT
730514 TAAACCCTAAATT
1 TAAACCC-AAATT
*
730527 CTAAACCTAAATTT
1 -TAAACCCAAA-TT
730541 TAAACCCTAAATT
1 TAAACCC-AAATT
730554 AATCCTTAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
12 9 0.21
13 20 0.47
14 14 0.33
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (12 bp):
TAAACCCAAATT
Found at i:730542 original size:27 final size:27
Alignment explanation
Indices: 730489--730553 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
730479 TAAAAAACCC
730489 TAAACCC-AAA-TCCAAACCCAAACTT
1 TAAACCCTAAATTCCAAACCCAAACTT
* * *
730514 TAAACCCTAAATTCTAAACCTAAATTT
1 TAAACCCTAAATTCCAAACCCAAACTT
730541 TAAACCCTAAATT
1 TAAACCCTAAATT
730554 AATCCTTAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 7 0.20
26 3 0.09
27 25 0.71
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (27 bp):
TAAACCCTAAATTCCAAACCCAAACTT
Found at i:730633 original size:20 final size:21
Alignment explanation
Indices: 730610--730678 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 21
730600 GTAGCTACAT
* *
730610 GTATATATAAGCTATGT-ATA
1 GTATATATAAACTATATAATA
*
730630 GTATGTATAAACTATATAATA
1 GTATATATAAACTATATAATA
*
730651 -TATATATATA-TATATATATA
1 GTATATATAAACTATATA-ATA
730671 -TATATATA
1 GTATATATA
730679 TCATTAAACA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 6 0.14
20 33 0.79
21 3 0.07
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.43
Consensus pattern (21 bp):
GTATATATAAACTATATAATA
Found at i:730653 original size:2 final size:2
Alignment explanation
Indices: 730642--730679 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
730632 ATGTATAAAC
730642 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
730680 CATTAAACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:731324 original size:8 final size:8
Alignment explanation
Indices: 731311--731337 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
731301 CATCGTCCAT
731311 TTAAAATA
1 TTAAAATA
731319 TTAAAATA
1 TTAAAATA
731327 TTAAAATA
1 TTAAAATA
731335 TTA
1 TTA
731338 TATAGTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TTAAAATA
Found at i:731350 original size:2 final size:2
Alignment explanation
Indices: 731332--731375 Score: 63
Period size: 2 Copynumber: 22.0 Consensus size: 2
731322 AAATATTAAA
*
731332 AT AT -T AT AT AGT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
731374 AT
1 AT
731376 GGTTTAGGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.95
3 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:731663 original size:16 final size:16
Alignment explanation
Indices: 731642--731686 Score: 90
Period size: 16 Copynumber: 2.8 Consensus size: 16
731632 TTACTATTCG
731642 TGTGAATAGTAAATTT
1 TGTGAATAGTAAATTT
731658 TGTGAATAGTAAATTT
1 TGTGAATAGTAAATTT
731674 TGTGAATAGTAAA
1 TGTGAATAGTAAA
731687 AATTTTACGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (16 bp):
TGTGAATAGTAAATTT
Found at i:732457 original size:15 final size:15
Alignment explanation
Indices: 732433--732464 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
732423 TGGCAGATCC
*
732433 AAATCCAGAACGGGA
1 AAATCAAGAACGGGA
732448 AAATCAAGAACGGGA
1 AAATCAAGAACGGGA
732463 AA
1 AA
732465 GAAATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.16, G:0.25, T:0.06
Consensus pattern (15 bp):
AAATCAAGAACGGGA
Found at i:746237 original size:30 final size:31
Alignment explanation
Indices: 746183--746255 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
746173 GCTTTAGGTA
* *
746183 TTTAATTTTTTTTGTTGATAAAACTAGATAC
1 TTTAAATTATTTTGTTGATAAAACTAGATAC
*
746214 TTTAAATTATTTT-TTGGTAAAACTAGATAC
1 TTTAAATTATTTTGTTGATAAAACTAGATAC
746244 TTT-AATTATTTT
1 TTTAAATTATTTT
746256 AAGTCCTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
29 9 0.23
30 19 0.49
31 11 0.28
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.53
Consensus pattern (31 bp):
TTTAAATTATTTTGTTGATAAAACTAGATAC
Found at i:751825 original size:17 final size:18
Alignment explanation
Indices: 751799--751832 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
751789 ATGCCAAACC
*
751799 AAGCATGGAG-TGGACAT
1 AAGCAAGGAGTTGGACAT
751816 AAGCAAGGAGTTGGACA
1 AAGCAAGGAGTTGGACA
751833 CCTCAAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.12, G:0.35, T:0.15
Consensus pattern (18 bp):
AAGCAAGGAGTTGGACAT
Found at i:756315 original size:2 final size:2
Alignment explanation
Indices: 756308--756345 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
756298 CAGACGTCTT
756308 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
756346 AAAGAAAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:769627 original size:28 final size:30
Alignment explanation
Indices: 769595--769673 Score: 76
Period size: 31 Copynumber: 2.7 Consensus size: 30
769585 CTGATGTAAG
769595 TTATTTACAAAGTAAGAGTGA-T-TACTCT
1 TTATTTACAAAGTAAGAGTGATTATACTCT
* * *
769623 TTATTCAGAAAAATATA-AG-GATTCATACTCT
1 TTATTTA-CAAAGTA-AGAGTGATT-ATACTCT
769654 TTATTTACAAAGTAAGAGTG
1 TTATTTACAAAGTAAGAGTG
769674 GTTCTGCTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
28 8 0.21
29 9 0.24
30 8 0.21
31 13 0.34
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (30 bp):
TTATTTACAAAGTAAGAGTGATTATACTCT
Found at i:771045 original size:27 final size:26
Alignment explanation
Indices: 771003--771055 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
770993 TAGGGAAGGC
*
771003 ACATGCCACTCTCAACAAGATGTGGT
1 ACATGCCAATCTCAACAAGATGTGGT
771029 ACATGCCTAATCTCAACAAGATGTGGT
1 ACATGCC-AATCTCAACAAGATGTGGT
771056 TCTACTTCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (26 bp):
ACATGCCAATCTCAACAAGATGTGGT
Found at i:771211 original size:31 final size:29
Alignment explanation
Indices: 771147--771211 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 29
771137 AAACTTTCAG
*
771147 TTTCATACATAATGTTTTAAAATTATTGA
1 TTTCATACATAATGTTTTAAAATTAATGA
* * *
771176 TTTCATACATGATGTTTTCTACATTTAATGA
1 TTTCATACATAATG-TTT-TAAAATTAATGA
771207 TTTCA
1 TTTCA
771212 CCCACTTCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 13 0.43
30 3 0.10
31 14 0.47
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (29 bp):
TTTCATACATAATGTTTTAAAATTAATGA
Found at i:772057 original size:51 final size:51
Alignment explanation
Indices: 771996--772254 Score: 202
Period size: 51 Copynumber: 4.9 Consensus size: 51
771986 TTTGGTACTA
* *
771996 TAAGTGAATAATATAAAAAATTATAACACTTAACACATACTTACACCAACG
1 TAAGTGAATAAAATAAAAAATTATAGCACTTAACACATACTTACACCAACG
* *
772047 TAAGTAAATAAAATAAGAAAA-TATAGCACTTAACACATACTTACA-TATTTGGTACTG
1 TAAGTGAATAAAATAA-AAAATTATAGCACTTAACACATACTTACACCA------AC-G
* * * **
772104 TAAGTGAATAAAAT-AAAAATGTGTAGCACTTAACACATACTGACATCAATA
1 TAAGTGAATAAAATAAAAAAT-TATAGCACTTAACACATACTTACACCAACG
* * ** ** * **
772155 TAAAT-ATGTATATCTCCCAAAATATGTAGCACTTAACACATACTTACACCAGTG
1 TAAGTGA-ATA-AAAT-AAAAAAT-TATAGCACTTAACACATACTTACACCAACG
*
772209 TAAGTGAATAAAATAAAAAAATATAGCACTTAACACATACTTACAC
1 TAAGTGAATAAAATAAAAAATTATAGCACTTAACACATACTTACAC
772255 TGGTATGTGA
Statistics
Matches: 164, Mismatches: 28, Indels: 32
0.73 0.12 0.14
Matches are distributed among these distances:
50 2 0.01
51 67 0.41
52 11 0.07
53 2 0.01
54 37 0.23
55 5 0.03
56 3 0.02
57 36 0.22
58 1 0.01
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.27
Consensus pattern (51 bp):
TAAGTGAATAAAATAAAAAATTATAGCACTTAACACATACTTACACCAACG
Found at i:772108 original size:57 final size:56
Alignment explanation
Indices: 771983--772149 Score: 177
Period size: 57 Copynumber: 3.0 Consensus size: 56
771973 TAACACAAAA
* * *
771983 ATATTTGGTACTATAAGTGAATAATATAAAAAATTATAACACTTAACACATACTTAC
1 ATATTTGGTACTGTAAGTGAATAAAATAAAAAA-TATAGCACTTAACACATACTTAC
* *
772040 ACCA------AC-GTAAGTAAATAAAATAAGAAAATATAGCACTTAACACATACTTAC
1 A-TATTTGGTACTGTAAGTGAATAAAATAA-AAAATATAGCACTTAACACATACTTAC
* * *
772091 ATATTTGGTACTGTAAGTGAATAAAATAAAAATGTGTAGCACTTAACACATACTGAC
1 ATATTTGGTACTGTAAGTGAATAAAATAAAAA-ATATAGCACTTAACACATACTTAC
772148 AT
1 AT
772150 CAATATAAAT
Statistics
Matches: 90, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
50 1 0.01
51 37 0.41
52 6 0.07
56 5 0.06
57 40 0.44
58 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (56 bp):
ATATTTGGTACTGTAAGTGAATAAAATAAAAAATATAGCACTTAACACATACTTAC
Found at i:772236 original size:105 final size:104
Alignment explanation
Indices: 772070--772406 Score: 340
Period size: 105 Copynumber: 3.1 Consensus size: 104
772060 TAAGAAAATA
**
772070 TAGCACTTAACACATACTTACATATTTGGTACTGTAAGTGAATAAAATAAAAATGTGTAGCACTT
1 TAGCACTTAACACATACTTACA-A--T-G-A-TGTAAGTGAATAAAATAAAAAAATGTAGCACTT
* *
772135 AACACATACTGACATCAATATAAATATGTATATCTCCCAAAATATG
60 AACACATACTTACA-CAGTATAAATATGTATATCTCCCAAAATATG
*
772181 TAGCACTTAACACATACTTACACCA-G-TGTAAGTGAATAAAATAAAAAAATATAGCACTTAACA
1 TAGCACTTAACACATACTTACA--ATGATGTAAGTGAATAAAATAAAAAAATGTAGCACTTAACA
* ** *
772244 CATACTTACACTGGTATGTGA-ATGTATATCTCTCAAAATATG
64 CATACTTACAC-AGTAT-AAATATGTATATCTCCCAAAATATG
* * * ** *
772286 TAGCACTTAACGCATGCTTACAATGATGTTAGTGAAATAAAATAAAAAAATGTATAACTTAATAC
1 TAGCACTTAACACATACTTACAATGATGTAAGTG-AATAAAATAAAAAAATGTAGCACTTAACAC
* ** *
772351 ACACTTACACCAGTGCAAGTATGTATATCTCCCAAAA-AGTG
65 ATACTTACA-CAGTATAAATATGTATATCTCCCAAAATA-TG
*
772392 TAGCAATTAACACAT
1 TAGCACTTAACACAT
772407 TGAGAGTGAG
Statistics
Matches: 190, Mismatches: 27, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
103 1 0.01
104 2 0.01
105 94 0.49
106 68 0.36
107 1 0.01
108 1 0.01
111 22 0.12
112 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.29
Consensus pattern (104 bp):
TAGCACTTAACACATACTTACAATGATGTAAGTGAATAAAATAAAAAAATGTAGCACTTAACACA
TACTTACACAGTATAAATATGTATATCTCCCAAAATATG
Found at i:772292 original size:54 final size:56
Alignment explanation
Indices: 772119--772307 Score: 171
Period size: 54 Copynumber: 3.5 Consensus size: 56
772109 GAATAAAATA
* * * * * * *
772119 AAAATGTGTAGCACTTAACACATACTGACATCAATATAAAT--ATGTATATCTCCC
1 AAAATATGTAGCACTTAACACATACTTACACCAGTGTAAGTGAATGTATATCTCTC
** *
772173 AAAATATGTAGCACTTAACACATACTTACACCAGTGTAAGTGAA--TA-A--AATA
1 AAAATATGTAGCACTTAACACATACTTACACCAGTGTAAGTGAATGTATATCTCTC
* * * *
772224 AAAAAATATAGCACTTAACACATACTTACA-CTG-GTATGTGAATGTATATCTCTC
1 AAAATATGTAGCACTTAACACATACTTACACCAGTGTAAGTGAATGTATATCTCTC
* *
772278 AAAATATGTAGCACTTAACGCATGCTTACA
1 AAAATATGTAGCACTTAACACATACTTACA
772308 ATGATGTTAG
Statistics
Matches: 107, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
49 8 0.07
50 2 0.02
51 30 0.28
52 1 0.01
53 1 0.01
54 64 0.60
56 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.29
Consensus pattern (56 bp):
AAAATATGTAGCACTTAACACATACTTACACCAGTGTAAGTGAATGTATATCTCTC
Found at i:772336 original size:54 final size:53
Alignment explanation
Indices: 772173--772336 Score: 142
Period size: 54 Copynumber: 3.1 Consensus size: 53
772163 TATATCTCCC
*
772173 AAAATATGTAGCACTTAACACATACTTACACCA-GTGTAAGTG-AATAAAATAAA
1 AAAATATGTAGCACTTAACACATACTTACA--ATGTGTTAGTGAAATAAAATAAA
* * ** ***
772226 AAAATA--TAGCACTTAACACATACTTACACTG-G-TATGTGAATGTATATCTCTC
1 AAAATATGTAGCACTTAACACATACTTACAATGTGTTA-GTGAA-ATA-AAATAAA
* *
772278 AAAATATGTAGCACTTAACGCATGCTTACAATGATGTTAGTGAAATAAAATAAA
1 AAAATATGTAGCACTTAACACATACTTACAATG-TGTTAGTGAAATAAAATAAA
772332 AAAAT
1 AAAAT
772337 GTATAACTTA
Statistics
Matches: 84, Mismatches: 17, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
48 1 0.01
49 4 0.05
50 2 0.02
51 24 0.29
52 8 0.10
53 6 0.07
54 29 0.35
55 2 0.02
56 6 0.07
57 2 0.02
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (53 bp):
AAAATATGTAGCACTTAACACATACTTACAATGTGTTAGTGAAATAAAATAAA
Found at i:774385 original size:69 final size:69
Alignment explanation
Indices: 774292--774439 Score: 183
Period size: 69 Copynumber: 2.1 Consensus size: 69
774282 TGTGATTCAC
** *
774292 TCTAATCCTTCGGGGCTCTCATGCGAGTCACCCAAAATAAGTATGATT-AGGTTCTCCCGTGCAA
1 TCTAATCCTTCGGGAATCTCATGCGAGTCACCCAAAATAAGTATGATTCA-GTGCTCCCGTGCAA
774356 GTCAA
65 GTCAA
** * *
774361 TCTAATCCTTCGGGAATC-CTATGCGAGTCACCCGTAATAAGTATGATTCAGTGCTCTCGTGCGA
1 TCTAATCCTTCGGGAATCTC-ATGCGAGTCACCCAAAATAAGTATGATTCAGTGCTCCCGTGCAA
* *
774425 GTGAC
65 GTCAA
774430 TCTAATCCTT
1 TCTAATCCTT
774440 AAACATTTGG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
68 1 0.01
69 66 0.97
70 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (69 bp):
TCTAATCCTTCGGGAATCTCATGCGAGTCACCCAAAATAAGTATGATTCAGTGCTCCCGTGCAAG
TCAA
Found at i:782431 original size:5 final size:5
Alignment explanation
Indices: 782423--782448 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
782413 CCATCTCCTC
782423 TGTTT TGTTT TGTTT TGTTT TGTTT T
1 TGTTT TGTTT TGTTT TGTTT TGTTT T
782449 ATAGGATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TGTTT
Found at i:783213 original size:168 final size:168
Alignment explanation
Indices: 782935--783271 Score: 674
Period size: 168 Copynumber: 2.0 Consensus size: 168
782925 CGGTGCTTTC
782935 ATGGGTACCCTTACCAACAATGTCTCCTCCTCTCTTCCAAATGAAAGAAAATCGAGGAAAAGAAA
1 ATGGGTACCCTTACCAACAATGTCTCCTCCTCTCTTCCAAATGAAAGAAAATCGAGGAAAAGAAA
783000 ACAACAGACATTTAAAAATTACCTCGATCAATCATAGGATCTCTTGCATATCATACTAGTTCTTG
66 ACAACAGACATTTAAAAATTACCTCGATCAATCATAGGATCTCTTGCATATCATACTAGTTCTTG
783065 TAAAATAAAGTCATGGGATTACCTTAATCTCTGGTTCG
131 TAAAATAAAGTCATGGGATTACCTTAATCTCTGGTTCG
783103 ATGGGTACCCTTACCAACAATGTCTCCTCCTCTCTTCCAAATGAAAGAAAATCGAGGAAAAGAAA
1 ATGGGTACCCTTACCAACAATGTCTCCTCCTCTCTTCCAAATGAAAGAAAATCGAGGAAAAGAAA
783168 ACAACAGACATTTAAAAATTACCTCGATCAATCATAGGATCTCTTGCATATCATACTAGTTCTTG
66 ACAACAGACATTTAAAAATTACCTCGATCAATCATAGGATCTCTTGCATATCATACTAGTTCTTG
783233 TAAAATAAAGTCATGGGATTACCTTAATCTCTGGTTCG
131 TAAAATAAAGTCATGGGATTACCTTAATCTCTGGTTCG
783271 A
1 A
783272 ATATCCTATT
Statistics
Matches: 169, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 169 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.28
Consensus pattern (168 bp):
ATGGGTACCCTTACCAACAATGTCTCCTCCTCTCTTCCAAATGAAAGAAAATCGAGGAAAAGAAA
ACAACAGACATTTAAAAATTACCTCGATCAATCATAGGATCTCTTGCATATCATACTAGTTCTTG
TAAAATAAAGTCATGGGATTACCTTAATCTCTGGTTCG
Found at i:784262 original size:24 final size:23
Alignment explanation
Indices: 784231--784318 Score: 113
Period size: 24 Copynumber: 3.7 Consensus size: 23
784221 ATCATAACAT
*
784231 AATCCAGGTCAAGTATCGGATCAA
1 AATCCAGGTCAAGTATC-GATCAG
* *
784255 AATTCAGGTCAAGTATTCAATCAG
1 AATCCAGGTCAAGTA-TCGATCAG
784279 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTAT-CGATCAG
*
784303 AATCCAGGTCAGGTAT
1 AATCCAGGTCAAGTAT
784319 TATAATAGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
23 1 0.02
24 53 0.95
25 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (23 bp):
AATCCAGGTCAAGTATCGATCAG
Found at i:788458 original size:36 final size:36
Alignment explanation
Indices: 788416--788824 Score: 254
Period size: 38 Copynumber: 10.8 Consensus size: 36
788406 GTTTTCGAAA
*
788416 ATATATATTGTATAGTTTTGAAAACATTTTAAAAAT
1 ATATATATTATATAGTTTTGAAAACATTTTAAAAAT
* * * *
788452 ATATATAATATATAGCTTCGAAAACATTTTGAAACCAT
1 ATATATATTATATAGTTTTGAAAACATTTT-AAA-AAT
* *
788490 TTATATATTATATAGTTTTTAAAAGTCATTTTGAATATATATATAT
1 ATATATATTATATAGTTTTGAAAA--CA-TTT---TA-A-A-A-AT
*
788536 ATATATATATATATAGTTTTTAAAACATTTTAAAAATT
1 ATATATAT-TATATAGTTTTGAAAACATTTTAAAAA-T
* *
788574 ATATATAGTATATAGTTTTGAAAACATTTTGAAAAT
1 ATATATATTATATAGTTTTGAAAACATTTTAAAAAT
* * * *
788610 -TATATAGTATATAGTTTTAAAAAACATTTTTGAAAAC
1 ATATATATTATATAGTTTT-GAAAACA-TTTTAAAAAT
* * * **
788647 ATTTATATTATATAGTTTTTTAAAAGATATTT-TGAAT
1 ATATATATTATATAG-TTTTGAAAACAT-TTTAAAAAT
* **
788684 ATATA-A-TATATAGCTTTTAAAAAACATTTTTGAAA-
1 ATATATATTATATAG-TTTT-GAAAACATTTTAAAAAT
* * * *
788719 ATATACATTATATAGTTTTTTAAAACGTTTCTGAAAAT
1 ATATATATTATATAG-TTTTGAAAACATTT-TAAAAAT
** * **
788757 ACGTATAATATATAGTTTAAAAAAAACATTTTAAAAAT
1 ATATATATTATATAGTTT--TGAAAACATTTTAAAAAT
* *
788795 TTATATATTATAT-GCTTTTGAAAACTTTTT
1 ATATATATTATATAG-TTTTGAAAACATTTT
788825 TTATATATTA
Statistics
Matches: 295, Mismatches: 51, Indels: 54
0.74 0.13 0.14
Matches are distributed among these distances:
35 37 0.13
36 60 0.20
37 64 0.22
38 79 0.27
39 13 0.04
40 3 0.01
41 5 0.02
43 1 0.00
44 5 0.02
45 3 0.01
46 9 0.03
47 16 0.05
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (36 bp):
ATATATATTATATAGTTTTGAAAACATTTTAAAAAT
Found at i:788531 original size:2 final size:2
Alignment explanation
Indices: 788524--788550 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
788514 GTCATTTTGA
788524 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
788551 GTTTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:788542 original size:122 final size:119
Alignment explanation
Indices: 788416--788632 Score: 330
Period size: 122 Copynumber: 1.8 Consensus size: 119
788406 GTTTTCGAAA
*
788416 ATATATAT-TGTATAGTTTTGAAAACATTTTAAAAA-TATATATAATATATAGCTTCGAAAACAT
1 ATATATATATATATAGTTTTGAAAACATTTTAAAAATTATATATAATATATAGCTTCGAAAACAT
* *
788479 TTTGAAACCATTTATATATTATATAGTTTTTAAAAGTCATTTTGAATATATATATAT
66 TTTGAAA--A-TTATATAGTATATAGTTTTAAAAAGTCATTTTGAATATATATATAT
* * * *
788536 ATATATATATATATAGTTTTTAAAACATTTTAAAAATTATATATAGTATATAGTTTTGAAAACAT
1 ATATATATATATATAGTTTTGAAAACATTTTAAAAATTATATATAATATATAGCTTCGAAAACAT
788601 TTTGAAAATTATATAGTATATAGTTTTAAAAA
66 TTTGAAAATTATATAGTATATAGTTTTAAAAA
788633 ACATTTTTGA
Statistics
Matches: 88, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
119 22 0.25
120 9 0.10
121 25 0.28
122 32 0.36
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (119 bp):
ATATATATATATATAGTTTTGAAAACATTTTAAAAATTATATATAATATATAGCTTCGAAAACAT
TTTGAAAATTATATAGTATATAGTTTTAAAAAGTCATTTTGAATATATATATAT
Found at i:788549 original size:47 final size:44
Alignment explanation
Indices: 788491--788587 Score: 133
Period size: 45 Copynumber: 2.1 Consensus size: 44
788481 TGAAACCATT
* *
788491 TATATATTATATAGTTTTTAAAAGTCATTTTGAATATATATATATA-
1 TATATATTATATAGTTTTTAAAA--CATTTTAAAAAT-TATATATAG
788537 TATATATATATATAGTTTTTAAAACATTTTAAAAATTATATATAG
1 TATATAT-TATATAGTTTTTAAAACATTTTAAAAATTATATATAG
788582 TATATA
1 TATATA
788588 GTTTTGAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
44 8 0.17
45 16 0.34
46 7 0.15
47 16 0.34
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (44 bp):
TATATATTATATAGTTTTTAAAACATTTTAAAAATTATATATAG
Found at i:788586 original size:84 final size:81
Alignment explanation
Indices: 788450--788622 Score: 215
Period size: 84 Copynumber: 2.1 Consensus size: 81
788440 CATTTTAAAA
* * *
788450 ATATATATAATATATAGCTTCGAAAACATTTTGAAACCATTTATATATTATATAGTTTTTAAAAG
1 ATATATATAATATATAGCTTCGAAAACATTTTGAAACAATTTATATAGTATATAGTTTTGAAAA-
*
788515 TCATTTTGAATATATATAT
65 -CATTTTGAAAAT-TATAT
* **
788534 ATATATATATATATATAGTTTTTAAAACATTTT-AAA-AATTATATATAGTATATAGTTTTGAAA
1 ATATATATA-ATATATAGCTTCGAAAACATTTTGAAACAATT-TATATAGTATATAGTTTTGAAA
788597 ACATTTTGAAAATTATAT
64 ACATTTTGAAAATTATAT
788615 AGTATATA
1 A-TATATA
788623 GTTTTAAAAA
Statistics
Matches: 79, Mismatches: 7, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
81 6 0.08
82 17 0.22
83 3 0.04
84 33 0.42
85 20 0.25
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.45
Consensus pattern (81 bp):
ATATATATAATATATAGCTTCGAAAACATTTTGAAACAATTTATATAGTATATAGTTTTGAAAAC
ATTTTGAAAATTATAT
Found at i:788824 original size:110 final size:111
Alignment explanation
Indices: 788557--788824 Score: 276
Period size: 110 Copynumber: 2.4 Consensus size: 111
788547 TATAGTTTTT
* *
788557 AAAACATTTTAAAAATTATATATAGTATATAG-TTTTGAAAACATTTTGAAAATTATATAGTATA
1 AAAACATTTTAAAAATT-TATATA-TATAT-GCTTTTGAAAACTTTTTGAAAATTATACAGTATA
* ** * **
788621 TAGTTTTAAAAAACATTTTTGAAAACATTTATATTATATAGTTTTTTAA
63 TAGTTTTAAAAAACATTTCTGAAAACACGTATAATATATAGTTTTAAAA
* * * * * * *
788670 AAGATATTTTGAATATATA-ATATATA-GCTTTTAAAAAACATTTTTGAAAA-TATACATTATAT
1 AAAACATTTTAAAAATTTATATATATATGCTTTT-GAAAAC-TTTTTGAAAATTATACAGTATAT
** * *
788732 AGTTTTTTAAAACGTTTCTGAAAATACGTATAATATATAG-TTTAAAA
64 AGTTTTAAAAAACATTTCTGAAAACACGTATAATATATAGTTTTAAAA
788779 AAAACATTTTAAAAATTTATATATTATATGCTTTTGAAAACTTTTT
1 AAAACATTTTAAAAATTTATATA-TATATGCTTTTGAAAACTTTTT
788825 TTATATATTA
Statistics
Matches: 124, Mismatches: 25, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
108 1 0.01
109 23 0.19
110 59 0.48
111 21 0.17
112 8 0.06
113 12 0.10
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (111 bp):
AAAACATTTTAAAAATTTATATATATATGCTTTTGAAAACTTTTTGAAAATTATACAGTATATAG
TTTTAAAAAACATTTCTGAAAACACGTATAATATATAGTTTTAAAA
Found at i:790271 original size:16 final size:18
Alignment explanation
Indices: 790242--790282 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
790232 TTTTCCTCTC
*
790242 TATTTTTAGGTTA-TTAT
1 TATTTTTAGGTTATTTAA
*
790259 TATTTTTA-TTTATTTAA
1 TATTTTTAGGTTATTTAA
790276 TATTTTT
1 TATTTTT
790283 TCTTGGATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (18 bp):
TATTTTTAGGTTATTTAA
Found at i:794041 original size:95 final size:95
Alignment explanation
Indices: 793858--794034 Score: 230
Period size: 95 Copynumber: 1.9 Consensus size: 95
793848 ATATATATCC
* * ** ** *
793858 AATAAAGCTTGAGTTGTCCCTTTAGAGCAATTGGTTAAAATTCGTGGCTTTATGAATAATATTCA
1 AATAAAGCTTGAGTTGTCCCTTAAGAGCAATTAGTTAAAAGACCCGGATTTATGAATAATATTCA
* *
793923 GCTAGCCTGATAAAGGTAATTATACTATAG
66 ACTAACCTGATAAAGGTAATTATACTATAG
* * *
793953 AATAAAGCTTGAGTTGTCCCTCTAAG-GCAATTAGTTAAACGACCCGGATTTGTGGATAATATTC
1 AATAAAGCTTGAGTTGTCCCT-TAAGAGCAATTAGTTAAAAGACCCGGATTTATGAATAATATTC
794017 AACTAACCTGATAAAGGT
65 AACTAACCTGATAAAGGT
794035 GTTTATATAT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
95 66 0.96
96 3 0.04
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (95 bp):
AATAAAGCTTGAGTTGTCCCTTAAGAGCAATTAGTTAAAAGACCCGGATTTATGAATAATATTCA
ACTAACCTGATAAAGGTAATTATACTATAG
Found at i:795564 original size:165 final size:165
Alignment explanation
Indices: 795230--796153 Score: 1271
Period size: 165 Copynumber: 5.6 Consensus size: 165
795220 TTAAGTCGAA
* * * *
795230 AAGGGTTATCTG-C-CAACCAAAGACCTTCGATTTTGACTACGCTTAGCTCCAAGGCACATTATT
1 AAGGGTTATCTGTCACAA--AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * *
795293 TGCAGCATAGCTTAAGTCAAGAAAGGTTATCTACC-AAGACCCTCGAGTTCGATTACACTCAGCT
64 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCT
*
795357 TCGAGGCCACATCATTTACAACATAACTCAAGGCTAG
129 TCGAGGGCACATCATTTACAACATAACTCAAGGCTAG
*
795394 AAGGGTTATCTGTCACAAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTG
1 AAGGGTTATCTGTCACAAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
*
795459 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTT
66 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
*
795524 GTGGGCACATCATTTACAACATAACTCAAGGCTAG
131 GAGGGCACATCATTTACAACATAACTCAAGGCTAG
* *
795559 AAGGGTTATCTGTCACAAAAAGACCTTCGAATTCGACTACGCTCAGCTCCAAGGCATATCATTTG
1 AAGGGTTATCTGTCACAAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* * * * * *
795624 TAGCATAACTTAAGTTGATAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTT
66 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
** *
795689 GAGGGCACATCATTTACAGTATAACTCAAGGCTAA
131 GAGGGCACATCATTTACAACATAACTCAAGGCTAG
* * * *
795724 AAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACACTAAGCTCCAAGGCACATCATTTG
1 AAGGGTTATCTGTCACAAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* * * *
795789 CAACATAGCTTAAGTCGAGAAGGGCTATCAGCCAAATACCCTCGAGTTCGATTACTCTCAGCTTC
66 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
* * *
795854 GAGGGTACATCATTTACAATATAACTCAAGTCTAG
131 GAGGGCACATCATTTACAACATAACTCAAGGCTAG
* * * * * * * *
795889 AAAGGTTATCTGTCACCCAAAAGACCTTCAAGTTTGACTACGCTCAGATCCAAGACATATTATTT
1 AAGGGTTATCTGTCA-CAAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* * * * *
795954 GCAGCATAGCTTAAGTCGAGAAGTGTTACCTGCCAAAGACCCTCGAGTTTGATTACACTCAACTT
65 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTT
* *
796019 CGAGGGTACATCATTTACAACATAACTCAAGGCTAT
130 CGAGGGCACATCATTTACAACATAACTCAAGGCTAG
* * * * * * *
796055 AAGGGTTATCTATCAC-CAAAGACCTTCGAGTTCAACTACACTCAGCTCTAAGGCACATTATTTA
1 AAGGGTTATCTGTCACAAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* *
796119 CAGCATAGCTTAAGTCGAGAAGAGCTATCTTCCAA
66 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
796154 CCAAAGACCT
Statistics
Matches: 676, Mismatches: 80, Indels: 8
0.88 0.10 0.01
Matches are distributed among these distances:
164 152 0.22
165 378 0.56
166 146 0.22
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (165 bp):
AAGGGTTATCTGTCACAAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
GAGGGCACATCATTTACAACATAACTCAAGGCTAG
Found at i:795632 original size:84 final size:82
Alignment explanation
Indices: 795206--796192 Score: 740
Period size: 84 Copynumber: 11.9 Consensus size: 82
795196 AAACGACAAT
* * * * * *
795206 ATTTGCAGCATAACTTAAGTCGAAAAGGGTTATCTGCCAACCAAAGACCTTCGATTTTGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTC-A-CAAAGACCTTCGAGTTCGACTACA
* *
795271 CTTAGCTCCAAGGCACATT
64 CTCAGCTCCAAGGCACATC
* * * * * *
795290 ATTTGCAGCATAGCTTAAGTCAAGAAAGGTTATC--T-ACCAAGACCCTCGAGTTCGATTACACT
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTCACAAAGACCTTCGAGTTCGACTACACT
* *
795352 CAGCTTCGAGGCCACATC
66 CAGCTCCAAGG-CACATC
* * * * *
795370 ATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACAAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTCAC--AAAGACCTTCGAGTTCGACTACA
*
795435 CTCAGCTCCAAGGCATATC
64 CTCAGCTCCAAGGCACATC
* * * * *
795454 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C-CAAAGACCCTCGAGTTCGATTACACT
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTCACAAAGACCTTCGAGTTCGACTACACT
****
795517 CAGCTTTGTGGGCACATC
66 CAGC-TCCAAGGCACATC
* * * * * *
795535 ATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACAAAAAGACCTTCGAATTCGACTACG
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTCAC--AAAGACCTTCGAGTTCGACTACA
*
795600 CTCAGCTCCAAGGCATATC
64 CTCAGCTCCAAGGCACATC
* * * *
795619 ATTTGTAGCATAACTTAAGT-TGATAAGGGTTATCTG-C-CAAAGACCCTCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCT-AGAAGGGTTATCTGTCACAAAGACCTTCGAGTTCGACTACAC
** *
795681 TCAGCTTTGAGGGCACATC
65 TCAGC-TCCAAGGCACATC
* * * * * *
795700 ATTTACAGTATAACTCAAGGCTAAAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACA
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTCA-C-AAAGACCTTCGAGTTCGACTACA
*
795765 CTAAGCTCCAAGGCACATC
64 CTCAGCTCCAAGGCACATC
* * * * * * * * *
795784 ATTTGCAACATAGCTTAAGTCGAGAAGGGCTATCAG-C-CAAATACCCTCGAGTTCGATTACTCT
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTCACAAAGACCTTCGAGTTCGACTACACT
* * *
795847 CAGCTTCGAGGGTACATC
66 CAGC-TCCAAGGCACATC
* ** * * * *
795865 ATTTACAATATAACTCAAGTCTAGAAAGGTTATCTGTCACCCAAAAGACCTTCAAGTTTGACTAC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTCA--C-AAAGACCTTCGAGTTCGACTAC
* * * * *
795930 GCTCAGATCCAAGACATATT
63 ACTCAGCTCCAAGGCACATC
* * * * * * *
795950 ATTTGCAGCATAGCTTAAGTCGAGAAGTGTTACCTG-C-CAAAGACCCTCGAGTTTGATTACACT
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTCACAAAGACCTTCGAGTTCGACTACACT
* * * *
796013 CAACTTCGAGGGTACATC
66 CAGC-TCCAAGGCACATC
* * * * * * *
796031 ATTTACAACATAACTCAAGGCTATAAGGGTTATCTATCACCAAAGACCTTCGAGTTCAACTACAC
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTCA-CAAAGACCTTCGAGTTCGACTACAC
* *
796096 TCAGCTCTAAGGCACATT
65 TCAGCTCCAAGGCACATC
* * * * * * *
796114 ATTTACAGCATAGCTTAAGTCGAGAAGAGCTATCT-TCCAACCAAAGACCTTTCGAGTTCGATTT
1 ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGT-C-A-CAAAGACC-TTCGAGTTCGACTA
* *
796178 CATTCAGCTCAAAGG
62 CACTCAGCTCCAAGG
796193 TCTGTCAACC
Statistics
Matches: 692, Mismatches: 180, Indels: 61
0.74 0.19 0.07
Matches are distributed among these distances:
79 28 0.04
80 131 0.19
81 147 0.21
82 8 0.01
83 43 0.06
84 173 0.25
85 140 0.20
86 22 0.03
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (82 bp):
ATTTGCAGCATAACTTAAGTCTAGAAGGGTTATCTGTCACAAAGACCTTCGAGTTCGACTACACT
CAGCTCCAAGGCACATC
Found at i:796513 original size:10 final size:10
Alignment explanation
Indices: 796498--796522 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
796488 CTCATCCTTA
796498 TTTTTTTATT
1 TTTTTTTATT
796508 TTTTTTTATT
1 TTTTTTTATT
796518 TTTTT
1 TTTTT
796523 ATTTTGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:796537 original size:18 final size:18
Alignment explanation
Indices: 796495--796537 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
796485 ACCCTCATCC
* *
796495 TTATTTTTTTATTTTTTT
1 TTATTTTTTTATTTTGTA
796513 TTATTTTTTTATTTTGTA
1 TTATTTTTTTATTTTGTA
*
796531 TTGTTTT
1 TTATTTT
796538 AGTTTATTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.00, G:0.05, T:0.84
Consensus pattern (18 bp):
TTATTTTTTTATTTTGTA
Found at i:797234 original size:5 final size:5
Alignment explanation
Indices: 797219--797251 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
797209 TATAGTTTTG
797219 TTAACT TTAAT TTAAT TTAAT TTAAT TTAAT TT
1 TTAA-T TTAAT TTAAT TTAAT TTAAT TTAAT TT
797252 CCACCTCACG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (5 bp):
TTAAT
Found at i:804683 original size:15 final size:15
Alignment explanation
Indices: 804663--804699 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
804653 ATATTTAGCT
*
804663 GGGCGGGCGGATGTG
1 GGGCGGGCGGATGCG
804678 GGGCGGGCGGATGCG
1 GGGCGGGCGGATGCG
804693 GGGCGGG
1 GGGCGGG
804700 TAATGTCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.16, G:0.70, T:0.08
Consensus pattern (15 bp):
GGGCGGGCGGATGCG
Found at i:806021 original size:22 final size:22
Alignment explanation
Indices: 805994--806047 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
805984 ATTTGATATA
805994 AAAATATAAATACTTTAAATTT
1 AAAATATAAATACTTTAAATTT
806016 AAAATATAAATACTTTAAATTT
1 AAAATATAAATACTTTAAATTT
806038 AAAATATAAA
1 AAAATATAAA
806048 ATATTAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATATAAATACTTTAAATTT
Found at i:807378 original size:15 final size:15
Alignment explanation
Indices: 807358--807435 Score: 55
Period size: 16 Copynumber: 5.5 Consensus size: 15
807348 TTTTTTATTA
807358 TTTTATTAATTAATT
1 TTTTATTAATTAATT
807373 TTTTA-T--TTAATT
1 TTTTATTAATTAATT
807385 TTTT-TT-ATT--TT
1 TTTTATTAATTAATT
*
807396 TTTTGTTTAATTAATT
1 TTTT-ATTAATTAATT
*
807412 TTTGTATTCAA-TAAAT
1 TTT-TATT-AATTAATT
807428 TTTTATTA
1 TTTTATTA
807436 TTTTATTATT
Statistics
Matches: 52, Mismatches: 2, Indels: 19
0.71 0.03 0.26
Matches are distributed among these distances:
11 6 0.12
12 11 0.21
13 4 0.08
14 5 0.10
15 9 0.17
16 14 0.27
17 3 0.06
ACGTcount: A:0.27, C:0.01, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTATTAATTAATT
Found at i:807448 original size:43 final size:40
Alignment explanation
Indices: 807348--807450 Score: 113
Period size: 39 Copynumber: 2.5 Consensus size: 40
807338 ACCTTTCCCA
* **
807348 TTTT-TTATTATTTTA-TTAATTAATTTTTTATTTAATTTT
1 TTTTATTATT-TTTTATTTAATTAATTTTTTATTCAATAAT
*
807387 TTTTATT-TTTTTTGTTTAATTAATTTTTGTATTCAATAAAT
1 TTTTATTATTTTTTATTTAATTAATTTTT-TATTCAAT-AAT
807428 TTTTATTATTTTATTATTTAATT
1 TTTTATTATTTT-TTATTTAATT
807451 GTAAATTTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
38 4 0.08
39 19 0.36
40 9 0.17
41 8 0.15
42 4 0.08
43 9 0.17
ACGTcount: A:0.26, C:0.01, G:0.02, T:0.71
Consensus pattern (40 bp):
TTTTATTATTTTTTATTTAATTAATTTTTTATTCAATAAT
Found at i:807789 original size:13 final size:14
Alignment explanation
Indices: 807758--807790 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
807748 TTTATTGAAT
*
807758 AAAAATAATTAATA
1 AAAAATAATAAATA
807772 AAAAATAA-AAATA
1 AAAAATAATAAATA
807785 AAAAAT
1 AAAAAT
807791 GAGAGAATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAATAATAAATA
Found at i:810390 original size:21 final size:21
Alignment explanation
Indices: 810366--810406 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
810356 AAAATGGTTG
*
810366 TGGTACCATCTGATACGACTA
1 TGGTACCATCTGAAACGACTA
*
810387 TGGTTCCATCTGAAACGACT
1 TGGTACCATCTGAAACGACT
810407 TTGAAATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (21 bp):
TGGTACCATCTGAAACGACTA
Found at i:822846 original size:21 final size:21
Alignment explanation
Indices: 822822--822861 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
822812 ACAGTACTAG
*
822822 AGCAAGGTATCGGTACCCTGT
1 AGCAAGGTATCGATACCCTGT
*
822843 AGCAGGGTATCGATACCCT
1 AGCAAGGTATCGATACCCT
822862 ATTTGTAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (21 bp):
AGCAAGGTATCGATACCCTGT
Found at i:830717 original size:28 final size:28
Alignment explanation
Indices: 830651--830743 Score: 123
Period size: 28 Copynumber: 3.2 Consensus size: 28
830641 AACCCGACCC
*
830651 CCCGAATATCACAATTAAAAAACCCGACCCGA
1 CCCGAATATCACACTTAAAAAA----ACCCGA
*
830683 CCCGAATATCACACTTAAAAAAACCTGA
1 CCCGAATATCACACTTAAAAAAACCCGA
*
830711 CCTGAATATCACACTTAAAAAAACCCGA
1 CCCGAATATCACACTTAAAAAAACCCGA
830739 CCCGA
1 CCCGA
830744 CCCGAATATC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 35 0.62
32 21 0.38
ACGTcount: A:0.44, C:0.32, G:0.09, T:0.15
Consensus pattern (28 bp):
CCCGAATATCACACTTAAAAAAACCCGA
Found at i:830752 original size:33 final size:32
Alignment explanation
Indices: 830640--830777 Score: 180
Period size: 32 Copynumber: 4.5 Consensus size: 32
830630 TTTTCACCCT
*
830640 AAACCCGACCC--CCCGAATATCACAATTAAA
1 AAACCCGACCCGACCCGAATATCACACTTAAA
830670 AAACCCGACCCGACCCGAATATCACACTTAAA
1 AAACCCGACCCGACCCGAATATCACACTTAAA
* *
830702 AAA----ACCTGACCTGAATATCACACTTAAAA
1 AAACCCGACCCGACCCGAATATCACACTT-AAA
*
830731 AAACCCGACCCGACCCGAATATCAAACTTAAA
1 AAACCCGACCCGACCCGAATATCACACTTAAA
*
830763 AAACCCGACCTGACC
1 AAACCCGACCCGACC
830778 TAAACTCGAT
Statistics
Matches: 94, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
28 20 0.21
29 6 0.06
30 11 0.12
32 38 0.40
33 19 0.20
ACGTcount: A:0.43, C:0.35, G:0.09, T:0.14
Consensus pattern (32 bp):
AAACCCGACCCGACCCGAATATCACACTTAAA
Found at i:830844 original size:33 final size:33
Alignment explanation
Indices: 830640--830845 Score: 164
Period size: 32 Copynumber: 6.4 Consensus size: 33
830630 TTTTCACCCT
* *
830640 AAACCCGACCC--CCCGAATATCACA-ATTAAA
1 AAACCCGACCCGACCTGAATATCACACTTTAAA
*
830670 AAACCCGACCCGACCCGAATATCACAC-TTAAA
1 AAACCCGACCCGACCTGAATATCACACTTTAAA
* *
830702 AAA----ACCTGACCTGAATATCACACTTAAAA
1 AAACCCGACCCGACCTGAATATCACACTTTAAA
* *
830731 AAACCCGACCCGACCCGAATATCAAAC-TTAAA
1 AAACCCGACCCGACCTGAATATCACACTTTAAA
* ***
830763 AAACCCGACCTGACCT-AA-ACTCGATTTTTTAAAAAA
1 AAACCCGACCCGACCTGAATA-TC-ACACTTT---AAA
*
830799 AAATCCGAACCCGACCTGAATATCACACTTTAAA
1 AAACCCG-ACCCGACCTGAATATCACACTTTAAA
*
830833 AAACCTGACCCGA
1 AAACCCGACCCGA
830846 ATGTCAAACT
Statistics
Matches: 140, Mismatches: 19, Indels: 31
0.74 0.10 0.16
Matches are distributed among these distances:
28 18 0.13
29 7 0.05
30 12 0.09
31 4 0.03
32 40 0.29
33 25 0.18
34 8 0.06
36 9 0.06
37 12 0.09
38 4 0.03
39 1 0.01
ACGTcount: A:0.43, C:0.32, G:0.09, T:0.17
Consensus pattern (33 bp):
AAACCCGACCCGACCTGAATATCACACTTTAAA
Found at i:830847 original size:28 final size:28
Alignment explanation
Indices: 830806--830874 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
830796 AAAAAATCCG
* * *
830806 AACCCGACCTGAATATCACACTTTAAAA
1 AACCCGACCCGAATATCAAACTTAAAAA
* *
830834 AACCTGACCCGAATGTCAAACTTAAAAA
1 AACCCGACCCGAATATCAAACTTAAAAA
830862 AACCCGACCCGAA
1 AACCCGACCCGAA
830875 CCCGGAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.43, C:0.30, G:0.10, T:0.16
Consensus pattern (28 bp):
AACCCGACCCGAATATCAAACTTAAAAA
Found at i:830914 original size:31 final size:32
Alignment explanation
Indices: 830855--830937 Score: 123
Period size: 31 Copynumber: 2.6 Consensus size: 32
830845 AATGTCAAAC
*
830855 TTAAAAAAACCCGACCCGAACCCGGAATTTTT
1 TTAAAAAAATCCGACCCGAACCCGGAATTTTT
* *
830887 TTAAAAAAATCCGACTCGATCCC-GAATTTTT
1 TTAAAAAAATCCGACCCGAACCCGGAATTTTT
*
830918 TTAAAAAAATTCGACCCGAA
1 TTAAAAAAATCCGACCCGAA
830938 TACCAAAAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
31 25 0.56
32 20 0.44
ACGTcount: A:0.40, C:0.24, G:0.11, T:0.25
Consensus pattern (32 bp):
TTAAAAAAATCCGACCCGAACCCGGAATTTTT
Found at i:842336 original size:29 final size:30
Alignment explanation
Indices: 842299--842355 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
842289 GTTCAAAGTT
842299 TGGCCACCAACC-AGATGAAATTTCCAAAG
1 TGGCCACCAACCAAGATGAAATTTCCAAAG
842328 TGGCCACCAACCAAGATGAAATTTCCAA
1 TGGCCACCAACCAAGATGAAATTTCCAA
842356 CTTGTCAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.18
Consensus pattern (30 bp):
TGGCCACCAACCAAGATGAAATTTCCAAAG
Found at i:847899 original size:23 final size:23
Alignment explanation
Indices: 847870--847936 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
847860 CGAACGACGT
847870 ATGTTCGCGAACATTAAATGAAC
1 ATGTTCGCGAACATTAAATGAAC
* **
847893 ATGTTCGTGAACATTTAAACAAAC
1 ATGTTCGCGAACA-TTAAATGAAC
* * *
847917 ATGTTCACGATCGTTAAATG
1 ATGTTCGCGAACATTAAATG
847937 CGCACGTTCT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 17 0.50
24 17 0.50
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (23 bp):
ATGTTCGCGAACATTAAATGAAC
Found at i:847917 original size:24 final size:23
Alignment explanation
Indices: 847870--847922 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
847860 CGAACGACGT
**
847870 ATGTTCGCGAACATTAAATGAAC
1 ATGTTCGCGAACATTAAACAAAC
*
847893 ATGTTCGTGAACATTTAAACAAAC
1 ATGTTCGCGAACA-TTAAACAAAC
847917 ATGTTC
1 ATGTTC
847923 ACGATCGTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (23 bp):
ATGTTCGCGAACATTAAACAAAC
Found at i:850185 original size:23 final size:23
Alignment explanation
Indices: 850159--850221 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
850149 ATATAACCAC
850159 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
850182 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
850205 TACCTATTACATCATAT
1 TACCTATTACATTATAT
850222 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:850613 original size:23 final size:23
Alignment explanation
Indices: 850587--850649 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
850577 ATATAACCAC
850587 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
850610 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
850633 TACCTATTACATCATAT
1 TACCTATTACATTATAT
850650 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:851042 original size:23 final size:23
Alignment explanation
Indices: 851016--851078 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
851006 ATATAACCAC
851016 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
851039 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
851062 TACCTATTACATCATAT
1 TACCTATTACATTATAT
851079 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:851168 original size:428 final size:431
Alignment explanation
Indices: 849985--851787 Score: 3372
Period size: 428 Copynumber: 4.2 Consensus size: 431
849975 TATGTTATTG
849985 TTTTTAATTTAATAAT-A-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
850048 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAG
850113 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
850178 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
850243 TGTCCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
850308 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA
326 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA
850373 TTATTTGATTGTTTTGATATGTTATAAAATAATATTTAGAA
391 TTATTTGATTGTTTTGATATGTTATAAAATAATATTTAGAA
850414 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
850479 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTT-AATTAATGTTTTTCACAGTG--AAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAG
850541 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
850606 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
850671 TGTCCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
850736 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC-AAAAA
326 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA
850800 TT-TTTGATTGTTTTGATATGTTATAAAATAATATTTAGAA
391 TTATTTGATTGTTTTGATATGTTATAAAATAATATTTAGAA
850840 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
850905 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAG
850970 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
851035 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
*
851100 TGTCCATACTTTTTATAAAAAGGATCGATACTT-TGTTTAAAGTTATGTAATTTATGTTTCAA-T
261 TGTCCATACTTTTTATAAAAAAGATCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTCAATT
* *
851163 TTTTTTAATAGTGTTTCATGTTTTCCACTTACAATATTAATTTAATAATTTCATTTACACAAAAA
325 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAA
* *
851228 ATTATTTGATTGTTTTGATATTTTATAAAATAATTTTTAGAA
390 ATTATTTGATTGTTTTGATATGTTATAAAATAATATTTAGAA
* *
851270 TTTTTAATTTAAT-A-AATATAT-TTGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
851332 -AATTAATATCTTAAAACTCACTCAAAAGAT-ACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAG
851395 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTA-ATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
851459 ACGATACCTATTACATTATATAAGCGCTACCTATT--ATCATA-TTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
*
851521 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
851586 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA
326 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA
*
851651 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
391 TTATTTGATTGTTTTGATATGTTATAAAATAATATTTAGAA
*
851692 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
851757 AAATTAATATCTTAAAACTCACTCAAAAGAT
66 AAATTAATATCTTAAAACTCACTCAAAAGAT
851788 GTATATACCT
Statistics
Matches: 1348, Mismatches: 12, Indels: 31
0.97 0.01 0.02
Matches are distributed among these distances:
421 81 0.06
422 125 0.09
423 1 0.00
424 51 0.04
425 127 0.09
426 200 0.15
427 66 0.05
428 326 0.24
429 218 0.16
430 70 0.05
431 83 0.06
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (431 bp):
TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAG
TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
TGTCCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAA
TTATTTGATTGTTTTGATATGTTATAAAATAATATTTAGAA
Found at i:851457 original size:22 final size:23
Alignment explanation
Indices: 851431--851494 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
851421 ATACTTTACA
851431 ATATAACCACTACCTATTA-ATT
1 ATATAACCACTACCTATTACATT
*
851453 ATATAAACGA-TACCTATTACATT
1 ATAT-AACCACTACCTATTACATT
* *
851476 ATATAAGCGCTACCTATTA
1 ATATAACCACTACCTATTA
851495 TCATATTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAACCACTACCTATTACATT
Found at i:851480 original size:23 final size:22
Alignment explanation
Indices: 851441--851494 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
851431 ATATAACCAC
851441 TACCTATTAATTATATAAACGA
1 TACCTATTAATTATATAAACGA
* *
851463 TACCTATTACATTATATAAGCGC
1 TACCTATTA-ATTATATAAACGA
851486 TACCTATTA
1 TACCTATTA
851495 TCATATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.37
Consensus pattern (22 bp):
TACCTATTAATTATATAAACGA
Found at i:851815 original size:25 final size:25
Alignment explanation
Indices: 851787--851898 Score: 114
Period size: 25 Copynumber: 4.8 Consensus size: 25
851777 ACTCAAAAGA
851787 TGTATATACCTAAATATGTAGTTAT
1 TGTATATACCTAAATATGTAGTTAT
*
851812 TGTACATACCTAAATATGTAGTTAT
1 TGTATATACCTAAATATGTAGTTAT
* * *
851837 TGTACATACCTAAAT-T-TAATGA-
1 TGTATATACCTAAATATGTAGTTAT
* *
851859 T-AATATA--T-ACT-TGTAGTTAT
1 TGTATATACCTAAATATGTAGTTAT
851879 TGTATATACCTAAATATGTA
1 TGTATATACCTAAATATGTA
851899 CTACGAATTT
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.04
19 5 0.07
20 1 0.01
21 9 0.13
22 1 0.01
23 5 0.07
24 3 0.04
25 43 0.61
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.42
Consensus pattern (25 bp):
TGTATATACCTAAATATGTAGTTAT
Found at i:854763 original size:23 final size:23
Alignment explanation
Indices: 854734--854796 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
854724 ATATAACCAC
854734 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
854757 TAGCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
854780 TACCTATTACATCATAT
1 TACCTATTACATTATAT
854797 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:855553 original size:16 final size:16
Alignment explanation
Indices: 855528--855561 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
855518 ATCTATTACA
*
855528 TTTTTCAATCGACACT
1 TTTTTAAATCGACACT
855544 TTTTTAAATCGACACT
1 TTTTTAAATCGACACT
855560 TT
1 TT
855562 GCTGTGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (16 bp):
TTTTTAAATCGACACT
Found at i:859303 original size:24 final size:24
Alignment explanation
Indices: 859266--859318 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
859256 CCGTTCTATC
859266 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
859290 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
859314 TATTT
1 TATTT
859319 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:859478 original size:17 final size:18
Alignment explanation
Indices: 859456--859498 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
859446 ATATATCCGG
859456 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
859473 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
859493 TATCAT
1 TATCAT
859499 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:859516 original size:20 final size:19
Alignment explanation
Indices: 859461--859507 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
859451 TCCGGTATCA
859461 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
859480 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
859501 TTTTACC
1 TTTTACC
859508 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:859741 original size:181 final size:182
Alignment explanation
Indices: 859432--859900 Score: 658
Period size: 181 Copynumber: 2.6 Consensus size: 182
859422 CTTACGAAAG
* * *
859432 TATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTTTATC
1 TATCGACACTTTAAATATATCCGGTAACCTTTTACCGGTTTTATCATTTTGATACCGGTTTTATC
* * * * *
859497 ATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGATACATTATAGGC
66 ATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATAGGA
*
859562 GCTAAAACTGTTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-TAAAA
131 GCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAA
* * *
859613 TATCGACACTGTT-AATATATTCGGTAACCTTTTACCGGTTTTATCGTTTTGATACCGATTTTAT
1 TATCGACACT-TTAAATATATCCGGTAACCTTTTACCGGTTTTATCATTTTGATACCGGTTTTAT
* *
859677 CATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTATAGG
65 CATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATAGG
** * *
859742 ATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATTAAAG
130 AGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAA
* * * * *
859795 TACCGACACTTTAAATGTATCCGGTAGCGC-TTTACCGGTTTTATCATTTCT-ATTCCGGTTTTG
1 TATCGACACTTTAAATATATCCGGTAAC-CTTTTACCGGTTTTATCATTT-TGATACCGGTTTTA
* *
859858 TCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
64 TCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
859901 AATTTGGATC
Statistics
Matches: 255, Mismatches: 28, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
181 159 0.62
182 94 0.37
183 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (182 bp):
TATCGACACTTTAAATATATCCGGTAACCTTTTACCGGTTTTATCATTTTGATACCGGTTTTATC
ATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATAGGA
GCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAA
Found at i:865344 original size:37 final size:36
Alignment explanation
Indices: 865243--865355 Score: 104
Period size: 35 Copynumber: 3.2 Consensus size: 36
865233 CCAACTTTGA
* * * *
865243 AAAAATGA-TTTTCAAAGTTTGGTAAATATTTTTTT
1 AAAAATAATTTTTCAAAGTTTGGTAAATGTTTGTTG
* ** *
865278 TAAAAT-GGTTTTCAAAGTTTGGTAAATGTTTCTTTG
1 AAAAATAATTTTTCAAAGTTTGGTAAATGTTT-GTTG
* * *
865314 AAAAATAATTTTTCAACGTTTTGTAGATGTTTGTTG
1 AAAAATAATTTTTCAAAGTTTGGTAAATGTTTGTTG
865350 AAAAAT
1 AAAAAT
865356 GATAATGGGA
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
35 27 0.42
36 17 0.27
37 20 0.31
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (36 bp):
AAAAATAATTTTTCAAAGTTTGGTAAATGTTTGTTG
Found at i:869851 original size:34 final size:36
Alignment explanation
Indices: 869800--869919 Score: 138
Period size: 34 Copynumber: 3.4 Consensus size: 36
869790 GGCAACCAAC
869800 TTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT-
1 TTTG-AAAAATGATTTTCAAAGTTTGGTAAATGTTTA
** *
869836 TTT-TTAAATGGTTTTCAAAGTTTGGTAAATGTTTA
1 TTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTTA
* * *
869871 TTTGAAAAATAGTTTTTCAACGTTTGGTAGATGTTT-
1 TTTGAAAAAT-GATTTTCAAAGTTTGGTAAATGTTTA
*
869907 GTTGAAAAATGAT
1 TTTGAAAAATGAT
869920 AATGGGATAA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
34 28 0.39
35 5 0.07
36 16 0.23
37 22 0.31
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (36 bp):
TTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTTA
Found at i:871931 original size:16 final size:16
Alignment explanation
Indices: 871910--871947 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
871900 TATTCACATA
871910 AATAGTGAATTTTGTG
1 AATAGTGAATTTTGTG
871926 AATAGTGAATTTTGTG
1 AATAGTGAATTTTGTG
871942 AATAGT
1 AATAGT
871948 AAAAATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (16 bp):
AATAGTGAATTTTGTG
Found at i:886393 original size:3 final size:3
Alignment explanation
Indices: 886385--886514 Score: 181
Period size: 3 Copynumber: 43.7 Consensus size: 3
886375 TTAATATATT
* *
886385 TAA TAA TAA AAA TAA TAA TAA TAA -AA TAA TAA TAA TAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
886432 CAA TGA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
886480 TGA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
886515 TGGATAAAAA
Statistics
Matches: 110, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
2 2 0.02
3 108 0.98
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:887007 original size:114 final size:114
Alignment explanation
Indices: 886761--887772 Score: 1719
Period size: 114 Copynumber: 8.8 Consensus size: 114
886751 GCTCTTGATG
*
886761 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-
1 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTT-CT
* * * * * *
886825 CTGGTAATG-TTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACA
65 CTGGAAAAGAATGATCCATCAAGTGATGAATTTAAACAAAAGGTTGAACA
*
886874 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
886939 TGGAAAAGAATGATCCATCAAGTGATGAATTTAAACAAAAGGTTGAACA
66 TGGAAAAGAATGATCCATCAAGTGATGAATTTAAACAAAAGGTTGAACA
* *
886988 AGTTCTTCTCATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
887053 TGGAAAAGAATGATCCATCAAGTGATGAATTTAAACAAAAGGTTGAACA
66 TGGAAAAGAATGATCCATCAAGTGATGAATTTAAACAAAAGGTTGAACA
887102 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
887167 TGGAAAAGAATGATCCATCAAGTGATGAATTTAAACAAAAGGTTGAACA
66 TGGAAAAGAATGATCCATCAAGTGATGAATTTAAACAAAAGGTTGAACA
887216 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
887281 TGGAAAAGAATGATCCATCAAGTGATGAATTTAAACAAAAGGTTGAACA
66 TGGAAAAGAATGATCCATCAAGTGATGAATTTAAACAAAAGGTTGAACA
887330 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
* * * *
887395 TGG-AAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
66 TGGAAAAGAATGATCCATCAA-GTGATGAATTTAAACAAAAGGTTGAACA
*
887444 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
887509 TGGAAAAGAATGATCCATCAAGTGATGAA-TTAAACAAAAGGTTGAACA
66 TGGAAAAGAATGATCCATCAAGTGATGAATTTAAACAAAAGGTTGAACA
887557 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAC-CT
* * * *
887622 TCCTCTGG-AAACAATGATCCATCAATTTGATGAATTCAAGCAAAAGGTTGAACA
62 T-CTCTGGAAAAGAATGATCCATCAA-GTGATGAATTTAAACAAAAGGTTGAACA
*
887676 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
1 AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
*
887741 TGGAAAAGAATGATCCATCAATCTGATGAATT
66 TGGAAAAGAATGATCCATCAA-GTGATGAATT
887773 CAAATCTTTG
Statistics
Matches: 859, Mismatches: 28, Indels: 22
0.94 0.03 0.02
Matches are distributed among these distances:
112 1 0.00
113 138 0.16
114 548 0.64
115 45 0.05
116 40 0.05
117 19 0.02
118 13 0.02
119 55 0.06
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (114 bp):
AGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTC
TGGAAAAGAATGATCCATCAAGTGATGAATTTAAACAAAAGGTTGAACA
Found at i:888460 original size:52 final size:52
Alignment explanation
Indices: 888383--889019 Score: 1070
Period size: 52 Copynumber: 12.2 Consensus size: 52
888373 TCTAAACTCA
* * * *
888383 ATGCT-TGATTCTGTCTAATCAGATCAGATATCTCAAAGAACACTTCCAGAAA
1 ATGCTATG-TTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
888435 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
* *
888487 ATGCTATGTTATGAT-CAACCAGATCAGATAACTCAAAGAACACTTCTAGAAG
1 ATGCTATGTTCTG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
888539 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
* *
888591 ATGCTATGTTATGAT-CAACCAGATCAGATAACTCAAAGAACACTTCTAGAAG
1 ATGCTATGTTCTG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
888643 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
888695 ATGCTATGTTATGAT-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
888747 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
888799 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
* *
888851 ATGCTATGTTATGAT-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAA
1 ATGCTATGTTCTG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
888903 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
*
888955 ATGCTATGTTATGAT-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTATGTTCTG-TCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
889007 ATGCTATGTTCTG
1 ATGCTATGTTCTG
889020 ATGCTTTTCC
Statistics
Matches: 555, Mismatches: 20, Indels: 20
0.93 0.03 0.03
Matches are distributed among these distances:
51 4 0.01
52 544 0.98
53 7 0.01
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (52 bp):
ATGCTATGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAG
Found at i:890023 original size:9 final size:9
Alignment explanation
Indices: 890011--890083 Score: 52
Period size: 9 Copynumber: 8.7 Consensus size: 9
890001 TTTTTTCTTT
890011 TTCTTTTTC
1 TTCTTTTTC
890020 TTC-TTTTC
1 TTCTTTTTC
890028 --CTTTTT-
1 TTCTTTTTC
890034 TT-TTTCTT-
1 TTCTTT-TTC
*
890042 TTCTTTCTC
1 TTCTTTTTC
890051 TTCTTTTTC
1 TTCTTTTTC
*
890060 TT-TTCTTTT
1 TTCTT-TTTC
*
890069 TTCTTTTTT
1 TTCTTTTTC
890078 TTCTTT
1 TTCTTT
890084 CTTCAAGCAT
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
6 1 0.02
7 7 0.13
8 12 0.23
9 31 0.58
10 2 0.04
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:890031 original size:32 final size:32
Alignment explanation
Indices: 889995--890087 Score: 134
Period size: 31 Copynumber: 2.9 Consensus size: 32
889985 CACCTTGACC
889995 CCTTTTTTTTTTCTTTTTCTTTTTCTTCTTTT
1 CCTTTTTTTTTTCTTTTTCTTTTTCTTCTTTT
*
890027 CCTTTTTTTTTTC-TTTTCTTTCTCTTCTTTT
1 CCTTTTTTTTTTCTTTTTCTTTTTCTTCTTTT
* *
890058 TCTTTTCTTTTTTCTTTTTTTTCTTTCTTC
1 CCTTTT-TTTTTTCTTTTTCTT-TTTCTTC
890088 AAGCATAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
31 22 0.41
32 20 0.37
33 6 0.11
34 6 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (32 bp):
CCTTTTTTTTTTCTTTTTCTTTTTCTTCTTTT
Found at i:890084 original size:20 final size:20
Alignment explanation
Indices: 889996--890086 Score: 87
Period size: 20 Copynumber: 4.3 Consensus size: 20
889986 ACCTTGACCC
* *
889996 CTTTTTTTTTTCTTTTTCTT
1 CTTTCTTTTTTCTTTTTTTT
*
890016 -TTTCTTCTTTTCCTTTTTTT
1 CTTTCTT-TTTTCTTTTTTTT
890036 -TTTCTTTTCTTTCTCTTCTTTTT
1 CTTTC-TTT-TTTCT-TT-TTTTT
890059 CTTTTCTTTTTTCTTTTTTTT
1 C-TTTCTTTTTTCTTTTTTTT
890080 CTTTCTT
1 CTTTCTT
890087 CAAGCATAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
19 5 0.08
20 22 0.37
21 12 0.20
22 4 0.07
23 10 0.17
24 3 0.05
25 4 0.07
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (20 bp):
CTTTCTTTTTTCTTTTTTTT
Found at i:900649 original size:13 final size:15
Alignment explanation
Indices: 900631--900662 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
900621 TGACATAAAA
900631 AAAATAC-TG-AAAT
1 AAAATACTTGCAAAT
900644 AAAATACTTGCAAAT
1 AAAATACTTGCAAAT
900659 AAAA
1 AAAA
900663 CATATAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.22
Consensus pattern (15 bp):
AAAATACTTGCAAAT
Found at i:902765 original size:3 final size:3
Alignment explanation
Indices: 902757--902893 Score: 193
Period size: 3 Copynumber: 45.7 Consensus size: 3
902747 TTAATATATT
* *
902757 TAA TAA TAA AAA TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
902805 TAT TAA CAA TGA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
902853 TAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
902894 TGGATAAAAA
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 116 1.00
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:907052 original size:96 final size:96
Alignment explanation
Indices: 906920--907110 Score: 249
Period size: 96 Copynumber: 2.0 Consensus size: 96
906910 CAAGTAGTAA
* ** *
906920 CCAGTAGATTTCACGATCCATAAATCAGAAACGATCATATTTTTTAGTGAAAACAGGA-AACCAT
1 CCAGTAGATTCCACGATCCATAAATCAGAAACGATCATATTTTACAATGAAAACA-GATAACCAT
* * *
906984 ATAACACATTTCAGGTAACCATAGTTCATAAT
65 AGAACACATTTCAAGTAACCATAGTCCATAAT
* * * *
907016 CCAGTAGATTCCATGATCCATAAATCAGGAATGATCATATTTTACAATTAAAACAGATAACCATA
1 CCAGTAGATTCCACGATCCATAAATCAGAAACGATCATATTTTACAATGAAAACAGATAACCATA
* *
907081 GAATATATTTCAAGTAACCATAGTCCATAA
66 GAACACATTTCAAGTAACCATAGTCCATAA
907111 ACCAATAAAT
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 2 0.02
96 79 0.98
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (96 bp):
CCAGTAGATTCCACGATCCATAAATCAGAAACGATCATATTTTACAATGAAAACAGATAACCATA
GAACACATTTCAAGTAACCATAGTCCATAAT
Found at i:907448 original size:21 final size:21
Alignment explanation
Indices: 907422--907544 Score: 135
Period size: 21 Copynumber: 5.9 Consensus size: 21
907412 AGGGTGTCAA
*
907422 AGTGCATCCATGCATCCTTGC
1 AGTGCATCCATGCATCCATGC
*
907443 AGTGCATCCATGCATCCATGT
1 AGTGCATCCATGCATCCATGC
*
907464 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCATGC
907485 AGTGCATCCATGCAT-C-TGCAC
1 AGTGCATCCATGCATCCATG--C
* * *
907506 TAATGCATCGATGCAT-CAGGC
1 -AGTGCATCCATGCATCCATGC
*
907527 AATGCATCCATGCATCCA
1 AGTGCATCCATGCATCCA
907545 AACATCGAAT
Statistics
Matches: 89, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
19 2 0.02
20 15 0.17
21 57 0.64
22 14 0.16
23 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (21 bp):
AGTGCATCCATGCATCCATGC
Found at i:907486 original size:42 final size:41
Alignment explanation
Indices: 907422--907544 Score: 149
Period size: 42 Copynumber: 3.0 Consensus size: 41
907412 AGGGTGTCAA
* *
907422 AGTGCATCCATGCATCCTTGCAGTGCATCCATGCATCCATGT
1 AGTGCATCCATGCATCCATGCAGTGCATCCATGCATCCA-CT
*
907464 AGTGCATCCATGCATCCCTGCAGTGCATCCATGCATCTGCACT
1 AGTGCATCCATGCATCCATGCAGTGCATCCATGCATC--CACT
* * * *
907507 AATGCATCGATGCAT-CAGGCAATGCATCCATGCATCCA
1 AGTGCATCCATGCATCCATGCAGTGCATCCATGCATCCA
907545 AACATCGAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
40 2 0.03
42 54 0.75
43 14 0.19
44 2 0.03
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (41 bp):
AGTGCATCCATGCATCCATGCAGTGCATCCATGCATCCACT
Found at i:907589 original size:21 final size:21
Alignment explanation
Indices: 907563--907660 Score: 144
Period size: 21 Copynumber: 4.7 Consensus size: 21
907553 ATGCAATTAG
907563 TGCATCGATGCATCATTGCCA
1 TGCATCGATGCATCATTGCCA
*
907584 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCATTGCCA
* *
907605 TGCATCGTTGCATCCTTGCCA
1 TGCATCGATGCATCATTGCCA
*
907626 TGCATCGATGCATC-CTGCCA
1 TGCATCGATGCATCATTGCCA
*
907646 TGCATCCATGCATCA
1 TGCATCGATGCATCA
907661 AGGCTGCAAC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.25
21 53 0.75
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.29
Consensus pattern (21 bp):
TGCATCGATGCATCATTGCCA
Found at i:907609 original size:42 final size:41
Alignment explanation
Indices: 907563--907660 Score: 160
Period size: 42 Copynumber: 2.4 Consensus size: 41
907553 ATGCAATTAG
907563 TGCATCGATGCATCATTGCCATGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCATTGCCATGCATCGATGCATCC-TGCCA
* *
907605 TGCATCGTTGCATCCTTGCCATGCATCGATGCATCCTGCCA
1 TGCATCGATGCATCATTGCCATGCATCGATGCATCCTGCCA
*
907646 TGCATCCATGCATCA
1 TGCATCGATGCATCA
907661 AGGCTGCAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 17 0.33
42 34 0.67
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.29
Consensus pattern (41 bp):
TGCATCGATGCATCATTGCCATGCATCGATGCATCCTGCCA
Found at i:911041 original size:21 final size:21
Alignment explanation
Indices: 911015--911072 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
911005 AGGGTGTCAA
911015 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
911036 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
911057 AGTGCATCCATGCATC
1 AGTGCATCCATGCATC
911073 TGCACTAATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:911105 original size:42 final size:42
Alignment explanation
Indices: 911017--911203 Score: 116
Period size: 42 Copynumber: 4.4 Consensus size: 42
911007 GGTGTCAAAG
* * * *
911017 TGCATCCATGCATCCCTGC--AGTGCATCCATGCATCCCTG-CA
1 TGCATCCATGCAT-CATGCATAATGCATCGATGCAT-CATGCCA
*
911058 GTGCATCCATGCATC-TGCACTAATGCATCGATGCATCAGGCCA
1 -TGCATCCATGCATCATGCA-TAATGCATCGATGCATCATGCCA
* ** * *
911101 TGCATCTAAACATCGAATGCAATTAGTGCATCGATGCATCCTTGCCA
1 TGCATCCATGCATC--ATGC-A-TAATGCATCGATGCAT-CATGCCA
* * * *
911148 TGCATCGATGCATCCTTG--TCATGCATCGATGCATCCTGCCA
1 TGCATCCATGCAT-CATGCATAATGCATCGATGCATCATGCCA
911189 TGCATCCATGCATCA
1 TGCATCCATGCATCA
911204 AGGCTGCAAC
Statistics
Matches: 115, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
40 4 0.03
41 19 0.17
42 40 0.35
43 15 0.13
45 3 0.03
46 18 0.16
47 15 0.13
48 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (42 bp):
TGCATCCATGCATCATGCATAATGCATCGATGCATCATGCCA
Found at i:911153 original size:21 final size:21
Alignment explanation
Indices: 911127--911202 Score: 127
Period size: 21 Copynumber: 3.7 Consensus size: 21
911117 ATGCAATTAG
911127 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
*
911148 TGCATCGATGCATCCTTGTCA
1 TGCATCGATGCATCCTTGCCA
911169 TGCATCGATGCATCC-TGCCA
1 TGCATCGATGCATCCTTGCCA
*
911189 TGCATCCATGCATC
1 TGCATCGATGCATC
911203 AAGGCTGCAA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 17 0.33
21 35 0.67
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.29
Consensus pattern (21 bp):
TGCATCGATGCATCCTTGCCA
Found at i:916358 original size:50 final size:50
Alignment explanation
Indices: 916297--916422 Score: 189
Period size: 50 Copynumber: 2.5 Consensus size: 50
916287 GTAGTAGTAA
* * *
916297 AGCGCGTCCCCTGAACCGCGCTATACGTTGATTTGGCGTCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACGGTGATCTGGCGTCACGTGGGTAT
** *
916347 AGCGCGCCCCCTGCCCCGCGATATACGGTGATCTGGCGTCACGTGGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACGGTGATCTGGCGTCACGTGGGTAT
*
916397 AGCGCGCCCCCTGATCCGCGCTATAC
1 AGCGCGCCCCCTGAACCGCGCTATAC
916423 ATGGGTATTT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.15, C:0.34, G:0.29, T:0.21
Consensus pattern (50 bp):
AGCGCGCCCCCTGAACCGCGCTATACGGTGATCTGGCGTCACGTGGGTAT
Found at i:919891 original size:12 final size:12
Alignment explanation
Indices: 919874--919910 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
919864 ATTTATAAGA
919874 GAGGAGAGATGC
1 GAGGAGAGATGC
*
919886 GA-G-GAGATGT
1 GAGGAGAGATGC
919896 GAGGAGAGATGC
1 GAGGAGAGATGC
919908 GAG
1 GAG
919911 AACCGGAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 8 0.38
11 2 0.10
12 11 0.52
ACGTcount: A:0.32, C:0.05, G:0.51, T:0.11
Consensus pattern (12 bp):
GAGGAGAGATGC
Found at i:921826 original size:24 final size:24
Alignment explanation
Indices: 921794--921842 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 24
921784 CGCTCTCTCG
921794 TTTCACACCATCTTCACT-TTTTGC
1 TTTCACACCATCTTCA-TGTTTTGC
921818 TTTCACACCATCTTCATGTTTTGC
1 TTTCACACCATCTTCATGTTTTGC
921842 T
1 T
921843 CCTTCCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.16, C:0.31, G:0.06, T:0.47
Consensus pattern (24 bp):
TTTCACACCATCTTCATGTTTTGC
Found at i:932235 original size:6 final size:6
Alignment explanation
Indices: 932224--932300 Score: 136
Period size: 6 Copynumber: 12.7 Consensus size: 6
932214 ACCCCTGTAT
*
932224 CCATAC CCATAC CCATAC CCATAC CCATAC TCATACC CCATAC CCATAC
1 CCATAC CCATAC CCATAC CCATAC CCATAC CCATA-C CCATAC CCATAC
932273 CCATAC CCATAC CCATAC CCATAC CCAT
1 CCATAC CCATAC CCATAC CCATAC CCAT
932301 CTATTTGAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
6 63 0.93
7 5 0.07
ACGTcount: A:0.32, C:0.49, G:0.00, T:0.18
Consensus pattern (6 bp):
CCATAC
Found at i:932274 original size:37 final size:37
Alignment explanation
Indices: 932224--932298 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
932214 ACCCCTGTAT
*
932224 CCATACCCATACCCATACCCATACCCATACTCATACC
1 CCATACCCATACCCATACCCATACCCATACCCATACC
932261 CCATACCCATACCCATACCCATACCCATACCCATACC
1 CCATACCCATACCCATACCCATACCCATACCCATACC
932298 C
1 C
932299 ATCTATTTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.51, G:0.00, T:0.17
Consensus pattern (37 bp):
CCATACCCATACCCATACCCATACCCATACCCATACC
Found at i:933006 original size:15 final size:15
Alignment explanation
Indices: 932986--933014 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
932976 AACGAGAACG
932986 AGAAGAAGAAGATGA
1 AGAAGAAGAAGATGA
933001 AGAAGAAGAAGATG
1 AGAAGAAGAAGATG
933015 GGGAGGGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.34, T:0.07
Consensus pattern (15 bp):
AGAAGAAGAAGATGA
Found at i:934451 original size:2 final size:2
Alignment explanation
Indices: 934444--934472 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
934434 AAGCCTGATA
934444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
934473 ATCCAGTACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:934807 original size:2 final size:2
Alignment explanation
Indices: 934800--934839 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
934790 ATACTCTGTA
934800 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
934840 GCTTTGATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:942732 original size:29 final size:29
Alignment explanation
Indices: 942699--942754 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
942689 TCCCAACACA
*
942699 TAGGTCGCCATGCCCTCCT-GGCGACCTTG
1 TAGGTCGCCATGCACT-CTGGGCGACCTTG
942728 TAGGTCGCCATGCACTCTGGGCGACCT
1 TAGGTCGCCATGCACTCTGGGCGACCT
942755 ACCCTCGCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.12, C:0.36, G:0.29, T:0.23
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCTGGGCGACCTTG
Found at i:942799 original size:33 final size:33
Alignment explanation
Indices: 942758--942851 Score: 109
Period size: 33 Copynumber: 2.8 Consensus size: 33
942748 GCGACCTACC
*
942758 CTCGCTCGGCTT-CCCTCGGATTCCCTCGCATAG
1 CTCGCTCGG-TTGCCCTCGGATGCCCTCGCATAG
*
942791 CTCGCTCGGTTGTCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
* * * * *
942824 CTAGTTCGGATGGCCTCGGATGCTCTCG
1 CTCGCTCGGTTGCCCTCGGATGCCCTCG
942852 GATGGCCTCG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
32 2 0.04
33 51 0.96
ACGTcount: A:0.10, C:0.36, G:0.27, T:0.28
Consensus pattern (33 bp):
CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
Found at i:942868 original size:14 final size:14
Alignment explanation
Indices: 942849--942876 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
942839 TCGGATGCTC
942849 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
942863 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
942877 ACTGGGAAGA
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:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:942877 original size:10 final size:10
Alignment explanation
Indices: 942829--942862 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
942819 CATAGCTAGT
942829 TCGGATGGCC
1 TCGGATGGCC
942839 TCGGAT-GCTC
1 TCGGATGGC-C
942849 TCGGATGGCC
1 TCGGATGGCC
942859 TCGG
1 TCGG
942863 TCGGATGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 2 0.09
10 18 0.82
11 2 0.09
ACGTcount: A:0.09, C:0.29, G:0.38, T:0.24
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:945258 original size:69 final size:69
Alignment explanation
Indices: 945180--945339 Score: 257
Period size: 69 Copynumber: 2.3 Consensus size: 69
945170 TGAAAAGAGT
* * * *
945180 TCAAGAAGGCATGGAGATGATGGTGAATACGAGGCTGGGGTAAAAGAAGATAGGAGGGATGGAAG
1 TCAAAAAGGCATGGTGATGATGGTGAATACGAGGCTAGGATAAAAGAAGATAGGAGGGATGGAAG
*
945245 TATA
66 TAGA
* *
945249 TCAGAAAGGCATGGTGATGATGGTGAATATGAGGCTAGGATAAAAGAAGATAGGAGGGATGGAAG
1 TCAAAAAGGCATGGTGATGATGGTGAATACGAGGCTAGGATAAAAGAAGATAGGAGGGATGGAAG
945314 TAGA
66 TAGA
945318 TCAAAAAGGCATGGTGATGATG
1 TCAAAAAGGCATGGTGATGATG
945340 AGTTTGAGCC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 83 1.00
ACGTcount: A:0.38, C:0.06, G:0.38, T:0.19
Consensus pattern (69 bp):
TCAAAAAGGCATGGTGATGATGGTGAATACGAGGCTAGGATAAAAGAAGATAGGAGGGATGGAAG
TAGA
Found at i:956249 original size:2 final size:2
Alignment explanation
Indices: 956242--956278 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
956232 AAAATTCACG
956242 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
956279 CACACCCACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:956596 original size:5 final size:5
Alignment explanation
Indices: 956586--956611 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
956576 TATTATTATT
956586 TCGGG TCGGG TCGGG TCGGG TCGGG T
1 TCGGG TCGGG TCGGG TCGGG TCGGG T
956612 TTCTAAGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.58, T:0.23
Consensus pattern (5 bp):
TCGGG
Found at i:956816 original size:2 final size:2
Alignment explanation
Indices: 956809--956875 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
956799 CGTGCATGCA
956809 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
956850 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
956876 GTGTGTGTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 63 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:957521 original size:50 final size:49
Alignment explanation
Indices: 957391--957521 Score: 129
Period size: 50 Copynumber: 2.6 Consensus size: 49
957381 CACCCGTAGC
* * *
957391 AGTAAAGCGCGCCCCTTGAACCGCGCTATACGCTGATTTGGCGTCACGTG
1 AGTATAGCGCGCCCC-TGAACCGCGCTATACGCTAATTTGGCGCCACGTG
* ** * *
957441 AGTATAACGCGCCCCCTGCCCCGCGATATACGGTAATTTGGCGCCACGT-
1 AGTATAGCGCG-CCCCTGAACCGCGCTATACGCTAATTTGGCGCCACGTG
* *
957490 AGGTATAGCGCGTCCCCTGATCCACGCTATAC
1 A-GTATAGCGCG-CCCCTGAACCGCGCTATAC
957522 CTGGGTATCT
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
49 1 0.02
50 60 0.92
51 4 0.06
ACGTcount: A:0.21, C:0.33, G:0.25, T:0.21
Consensus pattern (49 bp):
AGTATAGCGCGCCCCTGAACCGCGCTATACGCTAATTTGGCGCCACGTG
Found at i:957686 original size:12 final size:10
Alignment explanation
Indices: 957643--957684 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
957633 TTTTATCATA
957643 TCAAATTCTC
1 TCAAATTCTC
957653 TCAAATTCTC
1 TCAAATTCTC
957663 T-AAATTTCTC
1 TCAAA-TTCTC
*
957673 TCAAATACTC
1 TCAAATTCTC
957683 TC
1 TC
957685 TCTTTTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.10
10 23 0.79
11 3 0.10
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (10 bp):
TCAAATTCTC
Found at i:957762 original size:17 final size:18
Alignment explanation
Indices: 957725--957765 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
957715 CTATTATGTA
*
957725 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
957743 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
957760 TTTACT
1 TTTACT
957766 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:957956 original size:107 final size:108
Alignment explanation
Indices: 957827--958043 Score: 384
Period size: 107 Copynumber: 2.0 Consensus size: 108
957817 TGGAAATCAT
*
957827 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAA-TTAAATTATTAGTAA
957892 TAATTAG-TGATTTATTTAATGC-ATTATTAGATTAAGAATTAA
65 TAATTAGTTGATTTATTTAATGCAATTATTAGATTAAGAATTAA
957934 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTAAATTATTAGTAAT
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTAAATTATTAGTAAT
957999 AATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 AATTAGTTGATTTATTTAATGCA--ATTATTAGATTAAGAATTAA
958044 TTTTTGTAAT
Statistics
Matches: 105, Mismatches: 1, Indels: 5
0.95 0.01 0.05
Matches are distributed among these distances:
106 22 0.21
107 63 0.60
110 20 0.19
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.44
Consensus pattern (108 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTAAATTATTAGTAAT
AATTAGTTGATTTATTTAATGCAATTATTAGATTAAGAATTAA
Found at i:959885 original size:3 final size:3
Alignment explanation
Indices: 959877--959906 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
959867 ACCTGCTCAG
*
959877 GAC GAC GAC GAC GAC GAT GAC GAC GAC GAC
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC
959907 AGCGAGGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.30, G:0.33, T:0.03
Consensus pattern (3 bp):
GAC
Done.