Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 47 of 343
Found at i:15533047 original size:25 final size:26
Alignment explanation
Indices: 15533013--15533092 Score: 76
Period size: 25 Copynumber: 3.1 Consensus size: 26
15533003 TATAATTTTT
*
15533013 TTTATAAATTCATTAAAAAATTATATA
1 TTTATGAATTCATT-AAAAATTATATA
** * *
15533040 TTT-T-AATTTTTTTATAAATTATATT
1 TTTATGAA-TTCATTAAAAATTATATA
15533065 TTTATGAATTCATTAAAAA-TATATA
1 TTTATGAATTCATTAAAAATTATATA
15533090 TTT
1 TTT
15533093 CAAAAAATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
25 23 0.55
26 14 0.33
27 5 0.12
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (26 bp):
TTTATGAATTCATTAAAAATTATATA
Found at i:15533132 original size:15 final size:14
Alignment explanation
Indices: 15533107--15533140 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
15533097 AAATTATATA
*
15533107 AAATATTTAAAAAT
1 AAATTTTTAAAAAT
15533121 ATAATTTTTAAAAAT
1 A-AATTTTTAAAAAT
15533136 AAATT
1 AAATT
15533141 GTAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATTTTTAAAAAT
Found at i:15537588 original size:5 final size:5
Alignment explanation
Indices: 15537580--15537604 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15537570 AATATAAACC
15537580 CCCAA CCCAA CCCAA CCCAA CCCAA
1 CCCAA CCCAA CCCAA CCCAA CCCAA
15537605 TGCAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.60, G:0.00, T:0.00
Consensus pattern (5 bp):
CCCAA
Found at i:15539930 original size:12 final size:12
Alignment explanation
Indices: 15539913--15539942 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
15539903 TTATTGATAG
15539913 GAGAAAGTAAAT
1 GAGAAAGTAAAT
15539925 GAGAAAGTAAAT
1 GAGAAAGTAAAT
15539937 GAGAAA
1 GAGAAA
15539943 AATACTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.13
Consensus pattern (12 bp):
GAGAAAGTAAAT
Found at i:15542030 original size:19 final size:20
Alignment explanation
Indices: 15542002--15542041 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
15541992 CAATAAATGA
*
15542002 ATACATATGTAT-AAATAAT
1 ATACACATGTATAAAATAAT
15542021 ATACACATGTATAAAATAAT
1 ATACACATGTATAAAATAAT
15542041 A
1 A
15542042 AATAAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (20 bp):
ATACACATGTATAAAATAAT
Found at i:15542179 original size:12 final size:13
Alignment explanation
Indices: 15542157--15542186 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
15542147 AACATAAGGA
15542157 AAAAGAGAGAAAG
1 AAAAGAGAGAAAG
15542170 AAAA-AGAGAAAG
1 AAAAGAGAGAAAG
15542182 AAAAG
1 AAAAG
15542187 TGAAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
AAAAGAGAGAAAG
Found at i:15543318 original size:45 final size:45
Alignment explanation
Indices: 15543267--15543359 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
15543257 AATGAGTATT
15543267 TGTGAATTAAATATGAATAATCAATATTATAATTCAAGTGATATG
1 TGTGAATTAAATATGAATAATCAATATTATAATTCAAGTGATATG
15543312 TGTGAATTAAATATGAATAATCAATATTATAATTCAAGTGATATG
1 TGTGAATTAAATATGAATAATCAATATTATAATTCAAGTGATATG
15543357 TGT
1 TGT
15543360 TGATATTGTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.39
Consensus pattern (45 bp):
TGTGAATTAAATATGAATAATCAATATTATAATTCAAGTGATATG
Found at i:15549130 original size:19 final size:19
Alignment explanation
Indices: 15549108--15549146 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
15549098 AAATAATTTT
*
15549108 AAAAAGTATAAAAATTAAA
1 AAAAAATATAAAAATTAAA
* *
15549127 AAAAAATTTAAAATTTAAA
1 AAAAAATATAAAAATTAAA
15549146 A
1 A
15549147 GTTTAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (19 bp):
AAAAAATATAAAAATTAAA
Found at i:15549278 original size:17 final size:19
Alignment explanation
Indices: 15549251--15549291 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
15549241 AATATAAATT
*
15549251 TAAAAATTTAAA-AAAAAC
1 TAAAAAATTAAATAAAAAC
15549269 -AAAAAATTAAATAAAAAC
1 TAAAAAATTAAATAAAAAC
15549287 TAAAA
1 TAAAA
15549292 TGGCTTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 10 0.50
18 6 0.30
19 4 0.20
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (19 bp):
TAAAAAATTAAATAAAAAC
Found at i:15566620 original size:43 final size:44
Alignment explanation
Indices: 15566552--15566704 Score: 195
Period size: 43 Copynumber: 3.5 Consensus size: 44
15566542 AAAATGCCAC
* * *
15566552 AAAAGATCATGACTTTTAGCGGCGTTTGTAGGAAAAGCATCGCT
1 AAAAGATCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCACCGCT
* * * **
15566596 AAAAG-TCATGGCTTTTAACAGCGTTTGTGGGAAATGTGCCGCT
1 AAAAGATCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCACCGCT
*
15566639 -AAAGATCATGGCTTTTAGCGGCGTTTGTGGGAAAGGCACCGCT
1 AAAAGATCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCACCGCT
*
15566682 AAAAG-TCATGGCTTTTAGTGGCG
1 AAAAGATCATGGCTTTTAGCGGCG
15566705 CTTTTTTTAC
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
42 4 0.04
43 80 0.86
44 9 0.10
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (44 bp):
AAAAGATCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCACCGCT
Found at i:15566726 original size:86 final size:85
Alignment explanation
Indices: 15566542--15566698 Score: 242
Period size: 86 Copynumber: 1.8 Consensus size: 85
15566532 TTATTTGAAA
* * *
15566542 AAAATGCCACAAAAGATCATGACTTTTAGCGGCGTTTGTAGGAAAAGCATCGCTAAAAGTCATGG
1 AAAATGCCGCTAAAGATCATGACTTTTAGCGGCGTTTGTAGGAAAAGCACCGCTAAAAGTCATGG
15566607 CTTTTAACAGCGTTTGTGGG
66 CTTTTAACAGCGTTTGTGGG
* * * *
15566627 AAATGTGCCGCTAAAGATCATGGCTTTTAGCGGCGTTTGTGGGAAAGGCACCGCTAAAAGTCATG
1 AAA-ATGCCGCTAAAGATCATGACTTTTAGCGGCGTTTGTAGGAAAAGCACCGCTAAAAGTCATG
15566692 GCTTTTA
65 GCTTTTA
15566699 GTGGCGCTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
85 3 0.05
86 61 0.95
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.27
Consensus pattern (85 bp):
AAAATGCCGCTAAAGATCATGACTTTTAGCGGCGTTTGTAGGAAAAGCACCGCTAAAAGTCATGG
CTTTTAACAGCGTTTGTGGG
Found at i:15567133 original size:21 final size:21
Alignment explanation
Indices: 15567094--15567141 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
15567084 TCTGCTGCCA
*
15567094 TCGCTGCTACCTCTACCT-CT
1 TCGCTGCTACCGCTACCTCCT
* *
15567114 CTCGCTGCTATCGCTGCCTCCT
1 -TCGCTGCTACCGCTACCTCCT
15567136 TCGCTG
1 TCGCTG
15567142 TTGCATTCGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.06, C:0.44, G:0.17, T:0.33
Consensus pattern (21 bp):
TCGCTGCTACCGCTACCTCCT
Found at i:15567584 original size:13 final size:14
Alignment explanation
Indices: 15567558--15567586 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
15567548 ACTAACGACG
15567558 AATTAAACCATTAT
1 AATTAAACCATTAT
15567572 AATTAAA-CATTAT
1 AATTAAACCATTAT
15567585 AA
1 AA
15567587 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:15573876 original size:93 final size:93
Alignment explanation
Indices: 15573717--15573887 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
15573707 GGATGGTTGA
* * *
15573717 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTTACCTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
*
15573782 TGATTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
15573810 GCATCCGAACTCGTTGAGTTGAGT-TCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCT-GAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAG
15573874 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
15573888 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:15573887 original size:46 final size:46
Alignment explanation
Indices: 15573721--15573892 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
15573711 GGTTGAGCAT
* * * * *
15573721 CCGAACTCGTTGAGTTGAGTCTGAGTTTACCTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * * *
15573767 CCGAACTCGTTGAGTTGATTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC
* *
15573812 ATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
*
15573860 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
15573893 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 56 0.55
47 26 0.26
48 5 0.05
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:15590850 original size:19 final size:19
Alignment explanation
Indices: 15590823--15590860 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15590813 TTCTGTAGTG
15590823 GTTTATTTTT-GTCGTTTCT
1 GTTTATTTTTAGTC-TTTCT
*
15590842 GTTTCTTTTTAGTCTTTCT
1 GTTTATTTTTAGTCTTTCT
15590861 TTATTGTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.05, C:0.13, G:0.13, T:0.68
Consensus pattern (19 bp):
GTTTATTTTTAGTCTTTCT
Found at i:15593685 original size:50 final size:50
Alignment explanation
Indices: 15593610--15593708 Score: 198
Period size: 50 Copynumber: 2.0 Consensus size: 50
15593600 CAATAGTAAG
15593610 TCAAAGGGAGAAAAGAGAAAAAAGAACAAAAAAACCTATATATGTGGATT
1 TCAAAGGGAGAAAAGAGAAAAAAGAACAAAAAAACCTATATATGTGGATT
15593660 TCAAAGGGAGAAAAGAGAAAAAAGAACAAAAAAACCTATATATGTGGAT
1 TCAAAGGGAGAAAAGAGAAAAAAGAACAAAAAAACCTATATATGTGGAT
15593709 GCACTATTGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.57, C:0.08, G:0.20, T:0.15
Consensus pattern (50 bp):
TCAAAGGGAGAAAAGAGAAAAAAGAACAAAAAAACCTATATATGTGGATT
Found at i:15604494 original size:14 final size:14
Alignment explanation
Indices: 15604475--15604501 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15604465 TAGCTCATGA
15604475 TAGGACCCCACTAC
1 TAGGACCCCACTAC
15604489 TAGGACCCCACTA
1 TAGGACCCCACTA
15604502 TTTTGTCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.41, G:0.15, T:0.15
Consensus pattern (14 bp):
TAGGACCCCACTAC
Found at i:15604611 original size:216 final size:215
Alignment explanation
Indices: 15604226--15604641 Score: 636
Period size: 216 Copynumber: 1.9 Consensus size: 215
15604216 AGGTATTTAT
* * *
15604226 ACATGTTGTCACAGATATTATTACAGCTCATAATAGGACCCCACTAGTAGGACCCCATTATTTTG
1 ACATGTTGTCACAAATATTATTACAGCTCATAATAGGACCCCACTACTAGGACCCCACTATTTTG
* * * *
15604291 TCTTAACTCCACTACCTTTAGCCCTAACATTCTCTGTCCCTAATACTGACATTCTCAGCGGACTC
66 TCTTAACTCAACTACCTCTAGCCCTAACATTCTCTGTACCTAATACTGACATTCTCAGCAGACTC
15604356 CAGGCCTGTTGGACACATGTCTACAGAGCACGAGGTCCTTTTTGTTCTTGGGGCT-AGCGATTTG
131 CAGGCCTGTTGGACACATGTCTACAGAGCACGAGGTCCTTTTTGTTCTTGGGGCTGA-CGATTTG
15604420 AGCGGGACCTATACCTGTTGG
195 AGCGGGACCTATACCTGTTGG
* *
15604441 ACATGTGTGTCACAAATATTATTATAGCTCATGATAGGACCCCACTACTAGGACCCCACTATTTT
1 ACATGT-TGTCACAAATATTATTACAGCTCATAATAGGACCCCACTACTAGGACCCCACTATTTT
* * *
15604506 GTCTTGACTCAATTACCTCTAGCCCTGACATTCTCTGTACCTAATACTGACATTCTCAGCAGACT
65 GTCTTAACTCAACTACCTCTAGCCCTAACATTCTCTGTACCTAATACTGACATTCTCAGCAGACT
* * * * ** *
15604571 TCAGGCTTGTTGGGCAGATGTCTATGGAGCACGCGGTCCTTTTTGTTCTTGGGGCTGACGATTTG
130 CCAGGCCTGTTGGACACATGTCTACAGAGCACGAGGTCCTTTTTGTTCTTGGGGCTGACGATTTG
15604636 AGCGGG
195 AGCGGG
15604642 CTCCGTACCT
Statistics
Matches: 180, Mismatches: 19, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
215 6 0.03
216 173 0.96
217 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.31
Consensus pattern (215 bp):
ACATGTTGTCACAAATATTATTACAGCTCATAATAGGACCCCACTACTAGGACCCCACTATTTTG
TCTTAACTCAACTACCTCTAGCCCTAACATTCTCTGTACCTAATACTGACATTCTCAGCAGACTC
CAGGCCTGTTGGACACATGTCTACAGAGCACGAGGTCCTTTTTGTTCTTGGGGCTGACGATTTGA
GCGGGACCTATACCTGTTGG
Found at i:15607905 original size:17 final size:17
Alignment explanation
Indices: 15607864--15607905 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
15607854 CTTTTAAGTT
*
15607864 TGTAATGTTTTATATTA
1 TGTAATTTTTTATATTA
* *
15607881 TGTTATTTTTTATATTG
1 TGTAATTTTTTATATTA
15607898 TGTAATTT
1 TGTAATTT
15607906 ATAACACAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (17 bp):
TGTAATTTTTTATATTA
Found at i:15610506 original size:18 final size:19
Alignment explanation
Indices: 15610483--15610526 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
15610473 ACTTGATATT
15610483 GAAATGGAAAAT-AAACGA
1 GAAATGGAAAATGAAACGA
* *
15610501 GAAAT-GAAAATGGAATGA
1 GAAATGGAAAATGAAACGA
15610519 GAAATGGA
1 GAAATGGA
15610527 GTACTCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 14 0.64
19 2 0.09
ACGTcount: A:0.57, C:0.02, G:0.27, T:0.14
Consensus pattern (19 bp):
GAAATGGAAAATGAAACGA
Found at i:15615926 original size:26 final size:26
Alignment explanation
Indices: 15615897--15616004 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
15615887 TGATACAAAT
15615897 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15615923 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15615949 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15615975 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15616001 TGAT
1 TGAT
15616005 GGGCATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15621637 original size:23 final size:22
Alignment explanation
Indices: 15621596--15621651 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
15621586 TTTTATATTG
*
15621596 TTACTTTTAATTTGTTTTAAG-
1 TTACTTTTTATTTGTTTTAAGC
*
15621617 TCTACTTTTTATTTTTCTTTAAGC
1 T-TACTTTTTATTTGT-TTTAAGC
15621641 TTA-TTTTTATT
1 TTACTTTTTATT
15621652 AGGTTTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 1 0.03
22 20 0.67
23 8 0.27
24 1 0.03
ACGTcount: A:0.20, C:0.09, G:0.05, T:0.66
Consensus pattern (22 bp):
TTACTTTTTATTTGTTTTAAGC
Found at i:15633441 original size:26 final size:26
Alignment explanation
Indices: 15633412--15633517 Score: 167
Period size: 26 Copynumber: 4.1 Consensus size: 26
15633402 ATACAAATTA
*
15633412 ATAATGGGTTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* * *
15633438 ATAATGGGTTAAGTAAATGTTTCGTG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
15633464 ATAATGGGTTAGGTAAATGTTTCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
15633490 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
15633516 AT
1 AT
15633518 GGGAATTTCA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:15635174 original size:41 final size:41
Alignment explanation
Indices: 15635112--15635191 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
15635102 AGGAAGCTTC
15635112 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTT
*
15635153 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTG
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTG
15635192 CCACATATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.14, C:0.23, G:0.29, T:0.35
Consensus pattern (41 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGTT
Found at i:15635250 original size:27 final size:27
Alignment explanation
Indices: 15635147--15635257 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
15635137 ATCTGGTGGC
* *
15635147 TCTGT-TCTGGTGGCTATGCCACGATTA
1 TCTGTATCTGGTGGCTCTGCCAC-AATA
15635174 TCTG-ATCTGGTGGCTCTGCCACATATA
1 TCTGTATCTGGTGGCTCTGCCACA-ATA
15635201 TCTGT-TCTGGTGGCTCTGCCACAATA
1 TCTGTATCTGGTGGCTCTGCCACAATA
* *
15635227 TCTGTATCTGGTGACT-TCGTCACAATA
1 TCTGTATCTGGTGGCTCT-GCCACAATA
15635254 TCTG
1 TCTG
15635258 GCAGCCTCGC
Statistics
Matches: 75, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
26 10 0.13
27 65 0.87
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGTATCTGGTGGCTCTGCCACAATA
Found at i:15640247 original size:26 final size:26
Alignment explanation
Indices: 15640203--15640361 Score: 275
Period size: 26 Copynumber: 6.2 Consensus size: 26
15640193 TGATACAAAT
15640203 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
15640228 TGATAATGGGTTAGGAAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15640254 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15640280 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15640306 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15640332 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15640358 TGAT
1 TGAT
15640362 GGGAATTTCA
Statistics
Matches: 129, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
25 7 0.05
26 122 0.95
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15641851 original size:28 final size:26
Alignment explanation
Indices: 15641809--15641882 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
15641799 AAAAGCAGTT
* * * *
15641809 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTAAG--TGCA
15641837 AAATTACTGTTATACCCCTAAGTGCA
1 AAATTACTGTTATACCCCTAAGTGCA
*
15641863 AAATTACCGTTATACCCCTA
1 AAATTACTGTTATACCCCTA
15641883 GGGTTAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 22 0.54
28 19 0.46
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAAGTGCA
Found at i:15642030 original size:27 final size:26
Alignment explanation
Indices: 15641988--15642128 Score: 147
Period size: 27 Copynumber: 5.2 Consensus size: 26
15641978 AGGAAGCGTC
15641988 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* * *
15642015 CTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
15642042 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* ** *
15642069 CTGGTGGCTTTATCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
* * *
15642096 CTGGTGGCTCTGCCACAATATCTATAT
1 CTGGTGGCTATGCCACATTATCT-GAT
15642123 CTGGTG
1 CTGGTG
15642129 ACTTCGTCAC
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
26 9 0.10
27 83 0.88
28 2 0.02
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGAT
Found at i:15642070 original size:54 final size:53
Alignment explanation
Indices: 15641988--15642128 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 53
15641978 AGGAAGCGTC
15641988 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* *
15642042 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTTTATCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
* * *
15642096 CTGGTGGCTCTGCCACAATATCTATATCTGGTG
1 CTGGTGGCTATGCCACATTATCT-GATCTGGTG
15642129 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 6 0.08
54 74 0.93
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTACCACATATATCTGTT
Found at i:15642139 original size:54 final size:52
Alignment explanation
Indices: 15641988--15642146 Score: 196
Period size: 54 Copynumber: 3.0 Consensus size: 52
15641978 AGGAAGCGTC
15641988 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGC-TCTACCACATATATCTGTT
1 CTGGTGGCTATGCCACAA-TATCTGATCTGGTGGCTTCT--CACATATATCTGTT
* *
15642042 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTTTATCACATATATCTGTT
1 CTGGTGGCTATGCCAC-AATATCTGATCTGGTGGC-TTCTCACATATATCTGTT
* * *
15642096 CTGGTGGCTCTGCCACAATATCTATATCTGGTGACTTCGTCACA-ATATCTG
1 CTGGTGGCTATGCCACAATATCT-GATCTGGTGGCTTC-TCACATATATCTG
15642147 GCAGCCTCGC
Statistics
Matches: 93, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
53 15 0.16
54 75 0.81
55 1 0.01
56 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (52 bp):
CTGGTGGCTATGCCACAATATCTGATCTGGTGGCTTCTCACATATATCTGTT
Found at i:15645518 original size:18 final size:18
Alignment explanation
Indices: 15645487--15645534 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
15645477 AAAAATTACA
* *
15645487 AAATAATTTTTAAAATTCT
1 AAAT-ATTTATAAAATTCC
15645506 AAATATTTATAAAAATTCC
1 AAATATTTAT-AAAATTCC
15645525 AAAT-TTTATA
1 AAATATTTATA
15645535 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 10 0.38
19 15 0.58
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATTTATAAAATTCC
Found at i:15645520 original size:19 final size:18
Alignment explanation
Indices: 15645498--15645534 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
15645488 AATAATTTTT
*
15645498 AAAATTCTAAATATTTATA
1 AAAATTCCAAAT-TTTATA
15645517 AAAATTCCAAATTTTATA
1 AAAATTCCAAATTTTATA
15645535 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTCCAAATTTTATA
Found at i:15645528 original size:26 final size:26
Alignment explanation
Indices: 15645499--15645548 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
15645489 ATAATTTTTA
*
15645499 AAATTCTAAATATTTATAAAAATTCC
1 AAATTCTAAATATTTAAAAAAATTCC
* * *
15645525 AAATTTTATATTTTTAAAAAAATT
1 AAATTCTAAATATTTAAAAAAATT
15645549 ATAAAAAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (26 bp):
AAATTCTAAATATTTAAAAAAATTCC
Found at i:15645584 original size:19 final size:20
Alignment explanation
Indices: 15645562--15645610 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
15645552 AAAAAACTAA
15645562 AAAATATATAAAGAA-TTT-T
1 AAAATATATAAA-AATTTTCT
*
15645581 AAAAT-TTTAAAAATTTTCT
1 AAAATATATAAAAATTTTCT
15645600 AAAATA-ATAAA
1 AAAATATATAAA
15645611 TTTGGGACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 2 0.08
18 8 0.32
19 15 0.60
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATATATAAAAATTTTCT
Found at i:15646502 original size:55 final size:55
Alignment explanation
Indices: 15646443--15646592 Score: 160
Period size: 55 Copynumber: 2.7 Consensus size: 55
15646433 TTAGTATTTC
** * *
15646443 ATATTGCGTAAACCCAAGTAGTAAGGTCAACGGTTGCACCTTCTGT-ATGCATATA
1 ATATTGCGTAAACCCAAGCCGTAAGGTCAATGGTTGCACCTTCCGTCA-GCATATA
* * * * * * * *
15646498 ATATTGTGTAAACTCAGGCCTTAGGGTCAATGGTTGCACTTTCCGTCAGCATCTC
1 ATATTGCGTAAACCCAAGCCGTAAGGTCAATGGTTGCACCTTCCGTCAGCATATA
15646553 ATATTGCGTAAACCCTAA-CCGTAAGGTCAATGGTTGCACC
1 ATATTGCGTAAACCC-AAGCCGTAAGGTCAATGGTTGCACC
15646593 CTCCACAAAC
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
55 73 0.97
56 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (55 bp):
ATATTGCGTAAACCCAAGCCGTAAGGTCAATGGTTGCACCTTCCGTCAGCATATA
Found at i:15647159 original size:16 final size:16
Alignment explanation
Indices: 15647123--15647156 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15647113 TCCCTTCAGA
*
15647123 TAAGGGTTCAGCCTCC
1 TAAGGGTACAGCCTCC
15647139 TAAGGGTACAG-CTCC
1 TAAGGGTACAGCCTCC
15647154 TAA
1 TAA
15647157 AGGCCTCGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (16 bp):
TAAGGGTACAGCCTCC
Found at i:15650223 original size:13 final size:13
Alignment explanation
Indices: 15650205--15650231 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15650195 AAAGCACTTG
15650205 CACACGGGCGTGT
1 CACACGGGCGTGT
15650218 CACACGGGCGTGT
1 CACACGGGCGTGT
15650231 C
1 C
15650232 CCTATCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:15657149 original size:8 final size:8
Alignment explanation
Indices: 15657136--15657160 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15657126 AATTCATAGG
15657136 TGTAACAT
1 TGTAACAT
15657144 TGTAACAT
1 TGTAACAT
15657152 TGTAACAT
1 TGTAACAT
15657160 T
1 T
15657161 AGTATAGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (8 bp):
TGTAACAT
Found at i:15661378 original size:43 final size:42
Alignment explanation
Indices: 15661294--15661457 Score: 131
Period size: 43 Copynumber: 3.9 Consensus size: 42
15661284 GATTGTGTTA
* **
15661294 TCATGTAAGACCACGTCTGGTATATTGG-ATCG-ACTTATGATTT
1 TCATGTAAGACCACGTCTGGGACGTTGGCATCGTAC-T-TGA-TT
15661337 TCATGTAAGACCACGTCTGGGACGTTGGCATCGTACTTGATT
1 TCATGTAAGACCACGTCTGGGACGTTGGCATCGTACTTGATT
* * * * *
15661379 TCAAGTAAGACC-C-TCTTTGGGATAG-TGACATCGATATTTAATT
1 TCATGTAAGACCACGTC--TGGGA-CGTTGGCATCG-TACTTGATT
* * *
15661422 ACATATAAGACCACGTCTGGGACGTTGGCATTGTAC
1 TCATGTAAGACCACGTCTGGGACGTTGGCATCGTAC
15661458 GAGCTTTTGA
Statistics
Matches: 97, Mismatches: 15, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 28 0.29
43 56 0.58
44 6 0.06
45 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (42 bp):
TCATGTAAGACCACGTCTGGGACGTTGGCATCGTACTTGATT
Found at i:15672090 original size:43 final size:44
Alignment explanation
Indices: 15671966--15672122 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 44
15671956 TGTGTTATCG
* *
15671966 TGTAAGACCACGTCTGGGACA-TTGGCATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACAGTTGGCATCGA-TATTTGATTT-CA
* * *
15672010 TGTAAGACCACGTCTAGGAC-GTTGGCATC-CTACTTGATTTCA
1 TGTAAGACCACGTCTGGGACAGTTGGCATCGATATTTGATTTCA
*
15672052 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTTGGCATCGATATTTGATTTCA
*
15672095 TATAAGACCACGTCTGGGA-AGTTGGCAT
1 TGTAAGACCACGTCTGGGACAGTTGGCAT
15672123 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 10, Indels: 15
0.79 0.08 0.12
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 39 0.41
44 28 0.29
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACAGTTGGCATCGATATTTGATTTCA
Found at i:15678889 original size:14 final size:14
Alignment explanation
Indices: 15678870--15678902 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15678860 TTCCACAACT
15678870 CAACCACCGATGAC
1 CAACCACCGATGAC
*
15678884 CAACCACTGATGAC
1 CAACCACCGATGAC
15678898 CAACC
1 CAACC
15678903 GCAGCCGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.42, G:0.12, T:0.09
Consensus pattern (14 bp):
CAACCACCGATGAC
Found at i:15680427 original size:16 final size:16
Alignment explanation
Indices: 15680406--15680436 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15680396 CTATGCATGC
*
15680406 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
15680422 AAAATACAAAAGACA
1 AAAATACAAAAGACA
15680437 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:15687120 original size:15 final size:15
Alignment explanation
Indices: 15687102--15687131 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15687092 ATGCTCAGAA
*
15687102 TACAAAAGGAGCCTT
1 TACAAAAGGAACCTT
15687117 TACAAAAGGAACCTT
1 TACAAAAGGAACCTT
15687132 ACTTAATAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (15 bp):
TACAAAAGGAACCTT
Found at i:15687533 original size:54 final size:55
Alignment explanation
Indices: 15687396--15687549 Score: 179
Period size: 55 Copynumber: 2.8 Consensus size: 55
15687386 TTCCTTTTTA
* * ** *
15687396 AACTTACCATTGCCATTTCTTGACATGGTCTTACATGGGACAT--TTGCCTTATAGT
1 AACTTATCAATGCCATGCCTTGACATGGTCTTACAT--GATATCCTTGCCTTATAGT
* * *
15687451 AACTTATCAATTCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAG-
1 AACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGT
* *
15687505 AACTTATCAATGCTATGCCTTGGCATGGTCTTACATGATATCCTT
1 AACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
15687550 ATCTTACCAA
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
53 3 0.03
54 40 0.47
55 43 0.50
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (55 bp):
AACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGT
Found at i:15687581 original size:47 final size:47
Alignment explanation
Indices: 15687528--15687627 Score: 146
Period size: 47 Copynumber: 2.1 Consensus size: 47
15687518 TATGCCTTGG
* * *
15687528 CATGGTCTTACATGATATCCTTATCTTACCAAATGACATGTTTCAAA
1 CATGGTCTTACATGATATCATTACCTTACCAAATGACATGTTCCAAA
* * *
15687575 CATGGTCTTACATGGTATCATTGCCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGATATCATTACCTTACCAAATGACATGTTCCAAA
15687622 CATGGT
1 CATGGT
15687628 ATCCTTGTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (47 bp):
CATGGTCTTACATGATATCATTACCTTACCAAATGACATGTTCCAAA
Found at i:15687861 original size:44 final size:44
Alignment explanation
Indices: 15687776--15687861 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 44
15687766 GTATCCTTAA
* * *
15687776 CCGTCAATTCCTCCTTAAATGCCATGTTATGAACATTGACTTCT
1 CCGTCAATTCCTCCTTAAATGCCATGGTATCAACATGGACTTCT
* * *
15687820 CCGTCAATTCTTCCTTAATTTCCATGGTA-CAAGCATGGACTT
1 CCGTCAATTCCTCCTTAAATGCCATGGTATCAA-CATGGACTT
15687862 TGAGATATCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (44 bp):
CCGTCAATTCCTCCTTAAATGCCATGGTATCAACATGGACTTCT
Found at i:15688441 original size:30 final size:31
Alignment explanation
Indices: 15688402--15688459 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
15688392 CTAACTCAAA
*
15688402 CTTTGGCAAAATTACAATTTTTCCCCTAAAC
1 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
**
15688433 CTTT-GCAAAATTATGATTTTGCCCCTA
1 CTTTGGCAAAATTACAATTTTGCCCCTA
15688460 GGCTCGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (31 bp):
CTTTGGCAAAATTACAATTTTGCCCCTAAAC
Found at i:15691071 original size:25 final size:25
Alignment explanation
Indices: 15691043--15691098 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
15691033 TACTGATTTT
*
15691043 AGCTCTTATGAGCTTACCGATACTC
1 AGCTCGTATGAGCTTACCGATACTC
* *
15691068 AGCTCGTATGAGCTTACCGTTATTC
1 AGCTCGTATGAGCTTACCGATACTC
15691093 AGCTCG
1 AGCTCG
15691099 AAGGAGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATACTC
Found at i:15691109 original size:25 final size:25
Alignment explanation
Indices: 15691052--15691109 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
15691042 TAGCTCTTAT
* *
15691052 GAGCTTACCGATACTCAGCTCGTAT
1 GAGCTTACCGATACTCAGCTCGAAG
* *
15691077 GAGCTTACCGTTATTCAGCTCGAAG
1 GAGCTTACCGATACTCAGCTCGAAG
*
15691102 GAGTTTAC
1 GAGCTTAC
15691110 TGTTTAAATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (25 bp):
GAGCTTACCGATACTCAGCTCGAAG
Found at i:15691450 original size:18 final size:18
Alignment explanation
Indices: 15691427--15691465 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
15691417 CTTAAATGTG
15691427 ATTAAATTCGTAAGTTAA
1 ATTAAATTCGTAAGTTAA
*
15691445 ATTAAATTGGTAAGTTAA
1 ATTAAATTCGTAAGTTAA
15691463 ATT
1 ATT
15691466 CTCTATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (18 bp):
ATTAAATTCGTAAGTTAA
Found at i:15691975 original size:33 final size:33
Alignment explanation
Indices: 15691929--15691995 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
15691919 TTTTGGTAAG
* * *
15691929 TAAGTTTAGTGACATGAATTGATGCAAAATGAT
1 TAAGTTAAATGACATGAAATGATGCAAAATGAT
15691962 TAAGTTAAATGACATGAAATGATGCAAAATGAT
1 TAAGTTAAATGACATGAAATGATGCAAAATGAT
15691995 T
1 T
15691996 TATCTTGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.31
Consensus pattern (33 bp):
TAAGTTAAATGACATGAAATGATGCAAAATGAT
Found at i:15696177 original size:50 final size:50
Alignment explanation
Indices: 15696109--15696207 Score: 119
Period size: 50 Copynumber: 2.0 Consensus size: 50
15696099 TAAAATAAAA
* * * *
15696109 TACAAGTAAAATATGTATAGAAC-TACTCTTCTTCTATTTGATATTGATTG
1 TACAAGTAAAATACGTATAGAACTTA-TATCCTTCTATTTGACATTGATTG
* * *
15696159 TACAAGTAGAATCCGTATAGTACTTATATCCTTCTATTTGACATTGATT
1 TACAAGTAAAATACGTATAGAACTTATATCCTTCTATTTGACATTGATT
15696208 AGAATAAGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 39 0.95
51 2 0.05
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (50 bp):
TACAAGTAAAATACGTATAGAACTTATATCCTTCTATTTGACATTGATTG
Found at i:15700588 original size:25 final size:25
Alignment explanation
Indices: 15700559--15700611 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
15700549 ATTACAAAGG
**
15700559 AAAATCCTAATCTAATTCCTAATTT
1 AAAATCCTAATAGAATTCCTAATTT
15700584 AAAATCCTAATAGAATTCCTAATTT
1 AAAATCCTAATAGAATTCCTAATTT
15700609 AAA
1 AAA
15700612 GTTTATAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (25 bp):
AAAATCCTAATAGAATTCCTAATTT
Found at i:15705255 original size:25 final size:25
Alignment explanation
Indices: 15705226--15705276 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
15705216 CAAAGGAAAA
**
15705226 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
15705251 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
15705276 T
1 T
15705277 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:15705602 original size:3 final size:3
Alignment explanation
Indices: 15705594--15705627 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
15705584 TTTCTTTCCC
*
15705594 CTT CTT CTT CTT CTT CCT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
15705628 CCTAACCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (3 bp):
CTT
Found at i:15709454 original size:7 final size:7
Alignment explanation
Indices: 15709442--15709496 Score: 110
Period size: 7 Copynumber: 7.9 Consensus size: 7
15709432 TTGAATTATA
15709442 TAATTTT
1 TAATTTT
15709449 TAATTTT
1 TAATTTT
15709456 TAATTTT
1 TAATTTT
15709463 TAATTTT
1 TAATTTT
15709470 TAATTTT
1 TAATTTT
15709477 TAATTTT
1 TAATTTT
15709484 TAATTTT
1 TAATTTT
15709491 TAATTT
1 TAATTT
15709497 ACTTAAGCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TAATTTT
Found at i:15723962 original size:67 final size:67
Alignment explanation
Indices: 15723854--15724057 Score: 363
Period size: 67 Copynumber: 3.0 Consensus size: 67
15723844 GAAGAACACA
15723854 AATGAAACCGAAACTAGATTAAGCTCACACAATCCTAAAAAAAACATATATTCCCAATTCCTAAA
1 AATGAAACCGAAACTAGATTAAGCTCACACAATCCTAAAAAAAACATATATTCCCAATTCCTAAA
15723919 AT
66 AT
15723921 AATGAAACCGAAACTAGATTAAGCTCACACAATCCTAAAAAAAACATATATTCCCAATTCCTAAA
1 AATGAAACCGAAACTAGATTAAGCTCACACAATCCTAAAAAAAACATATATTCCCAATTCCTAAA
15723986 AT
66 AT
* *
15723988 AATGAAACCGAAACTAGATTAAGCTCACACAATCCTAAAAAAAAAAACAGACATTCCCAATTCCT
1 AATGAAACCGAAACTAGATTAAGCTCACACAATCCT---AAAAAAAACATATATTCCCAATTCCT
15724053 AAAAT
63 AAAAT
15724058 TCTCTTTTCC
Statistics
Matches: 132, Mismatches: 2, Indels: 3
0.96 0.01 0.02
Matches are distributed among these distances:
67 103 0.78
70 29 0.22
ACGTcount: A:0.50, C:0.23, G:0.06, T:0.21
Consensus pattern (67 bp):
AATGAAACCGAAACTAGATTAAGCTCACACAATCCTAAAAAAAACATATATTCCCAATTCCTAAA
AT
Found at i:15724465 original size:16 final size:17
Alignment explanation
Indices: 15724438--15724469 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15724428 AGTTTTATAA
15724438 ATATTAATTATTTATTT
1 ATATTAATTATTTATTT
15724455 ATATT-ATTATTTATT
1 ATATTAATTATTTATT
15724470 GCCCAAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATTAATTATTTATTT
Found at i:15724847 original size:15 final size:17
Alignment explanation
Indices: 15724821--15724854 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
15724811 GTTCGGTAAT
15724821 TATTTATAATAATT-AA
1 TATTTATAATAATTCAA
15724837 TATTT-TAATAATTCAA
1 TATTTATAATAATTCAA
15724853 TA
1 TA
15724855 ATTAGATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTTATAATAATTCAA
Found at i:15724875 original size:18 final size:19
Alignment explanation
Indices: 15724852--15724891 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
15724842 TAATAATTCA
15724852 ATAATTAGATTTATTA-AT
1 ATAATTAGATTTATTATAT
* *
15724870 ATAATTATATTTGTTATAT
1 ATAATTAGATTTATTATAT
15724889 ATA
1 ATA
15724892 TATAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
ATAATTAGATTTATTATAT
Found at i:15726562 original size:25 final size:23
Alignment explanation
Indices: 15726500--15726562 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
15726490 TAGTGGTTAA
* * *
15726500 TATTTATATCTTTT-ATTAATTT
1 TATTTTTATTTTTTAATTAAATT
15726522 TATTTTTATTTTTTAATTAAATT
1 TATTTTTATTTTTTAATTAAATT
15726545 TATTCTTCTATTTTTTAA
1 TATT-TT-TATTTTTTAA
15726563 AAATAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
22 12 0.34
23 11 0.31
24 2 0.06
25 10 0.29
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (23 bp):
TATTTTTATTTTTTAATTAAATT
Found at i:15726692 original size:10 final size:9
Alignment explanation
Indices: 15726670--15726702 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
15726660 TTATTTTAAT
15726670 ATTTTTA-A
1 ATTTTTATA
15726678 ATTTTTATGA
1 ATTTTTAT-A
15726688 ATTTTTATA
1 ATTTTTATA
15726697 ATTTTT
1 ATTTTT
15726703 TTTAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 7 0.30
9 7 0.30
10 9 0.39
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:15727531 original size:18 final size:18
Alignment explanation
Indices: 15727497--15727531 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15727487 AGTTTACTTT
15727497 TTATATTTAATTATATAC
1 TTATATTTAATTATATAC
15727515 TTATAGTTTAATT-TATA
1 TTATA-TTTAATTATATA
15727532 ATTTTCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
TTATATTTAATTATATAC
Found at i:15727910 original size:11 final size:11
Alignment explanation
Indices: 15727896--15727936 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
15727886 TATTTTCTCC
15727896 CTATTTTGCTA
1 CTATTTTGCTA
*
15727907 CTATTTTACTA
1 CTATTTTGCTA
* *
15727918 TTATGTTGCTA
1 CTATTTTGCTA
15727929 CTATTTTG
1 CTATTTTG
15727937 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:15728189 original size:12 final size:12
Alignment explanation
Indices: 15728159--15728192 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
15728149 TATATATTTT
15728159 AAAATT-ATATA
1 AAAATTAATATA
15728170 AAAA-TAATATA
1 AAAATTAATATA
15728181 AAAATTAATATA
1 AAAATTAATATA
15728193 GGCAGGCCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:15729640 original size:22 final size:23
Alignment explanation
Indices: 15729597--15729644 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
15729587 TTTTTTGTAG
*
15729597 GTTTAGGGTTTATCAAAATTATTT
1 GTTTAGGATTTAT-AAAATTATTT
15729621 GTTTAGGATTTAT-AAATTATTT
1 GTTTAGGATTTATAAAATTATTT
15729643 GT
1 GT
15729645 AGAGGGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.48
24 12 0.52
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.52
Consensus pattern (23 bp):
GTTTAGGATTTATAAAATTATTT
Found at i:15741349 original size:23 final size:20
Alignment explanation
Indices: 15741323--15741372 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
15741313 AATTGAAATG
15741323 TATATTTGAAATGTTTTATAACA
1 TATATTTGAAA--TTTTA-AACA
* *
15741346 TATATTTTAAATTTTAAATA
1 TATATTTGAAATTTTAAACA
15741366 TATATTT
1 TATATTT
15741373 TTGGAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 10 0.40
21 5 0.20
23 10 0.40
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
TATATTTGAAATTTTAAACA
Found at i:15741502 original size:16 final size:16
Alignment explanation
Indices: 15741463--15741511 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
15741453 TTATTATTAG
15741463 TTTTATAATATTTTAAA
1 TTTTA-AATATTTTAAA
*
15741480 -TGT--ATATTTTAAA
1 TTTTAAATATTTTAAA
15741493 TTTTAAATATTTTAAA
1 TTTTAAATATTTTAAA
15741509 TTT
1 TTT
15741512 GTTTTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
13 10 0.37
14 2 0.07
16 15 0.56
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TTTTAAATATTTTAAA
Found at i:15741525 original size:29 final size:30
Alignment explanation
Indices: 15741463--15741530 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
15741453 TTATTATTAG
15741463 TTTTATAATATTTTAAATGTATATTTTAAA-
1 TTTTA-AATATTTTAAATGTATATTTTAAAT
*
15741493 TTTTAAATATTTTAAAT-T-TGTTTTATAATT
1 TTTTAAATATTTTAAATGTATATTTTA-AA-T
15741523 TTTTAAAT
1 TTTTAAAT
15741531 TATGATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
27 6 0.18
28 3 0.09
29 12 0.35
30 13 0.38
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (30 bp):
TTTTAAATATTTTAAATGTATATTTTAAAT
Found at i:15741528 original size:21 final size:20
Alignment explanation
Indices: 15741493--15741550 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 20
15741483 ATATTTTAAA
15741493 TTTTAAATATTTTAAATTTG
1 TTTTAAATATTTTAAATTTG
*
15741513 TTTTATAATTTTTTAAATTATG
1 TTTTA-AATATTTTAAATT-TG
15741535 ATTTTTAAATTATTTT
1 --TTTTAAA-TATTTT
15741551 TAAAGATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 5 0.16
21 12 0.39
22 2 0.06
23 2 0.06
24 10 0.32
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTAAATATTTTAAATTTG
Found at i:15741610 original size:20 final size:20
Alignment explanation
Indices: 15741587--15741627 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
15741577 TCTATATAAA
*
15741587 ATTTTAAAAAAT-AATATTTG
1 ATTTAAAAAAATGAA-ATTTG
15741607 ATTTAAAAAAATGAAATTTG
1 ATTTAAAAAAATGAAATTTG
15741627 A
1 A
15741628 AATAATTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (20 bp):
ATTTAAAAAAATGAAATTTG
Found at i:15741745 original size:22 final size:21
Alignment explanation
Indices: 15741687--15741745 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
15741677 ATGACTTTAT
15741687 TTAAAATATATATATT-AAAAA
1 TTAAAA-ATATATATTAAAAAA
* * *
15741708 GTAAAAATTTAAATTAAAAAAA
1 TTAAAAATATATATT-AAAAAA
15741730 TTAAAAATATATATTA
1 TTAAAAATATATATTA
15741746 TAACTGGTCA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TTAAAAATATATATTAAAAAA
Found at i:15742715 original size:20 final size:21
Alignment explanation
Indices: 15742686--15742725 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
15742676 TAAGTTTTCT
*
15742686 AAAATTTTAAATAT-ATTAAA
1 AAAATGTTAAATATAATTAAA
*
15742706 AAAATGTTAAGTATAATTAA
1 AAAATGTTAAATATAATTAA
15742726 TTTTAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAATGTTAAATATAATTAAA
Found at i:15742883 original size:71 final size:72
Alignment explanation
Indices: 15742808--15742942 Score: 209
Period size: 71 Copynumber: 1.9 Consensus size: 72
15742798 TTTAAAAAAA
* *
15742808 TTTAAAAAATTAAATATATTAAAAAATGTTAACAACAACCAATTTTAAAAT-TTTAATATATTTA
1 TTTAAAAAATTAAATATATTAAAAAAAGTTAACAACAACCAATTTTAAAATATTCAATATATTTA
15742872 ATATATT
66 ATATATT
** * *
15742879 TTTAAAAAATTAAATATATTAAAAAAAGTTAAGTATAACCAATTTTAATATATTCAATATATTT
1 TTTAAAAAATTAAATATATTAAAAAAAGTTAACAACAACCAATTTTAAAATATTCAATATATTT
15742943 TTAAAAATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
71 46 0.81
72 11 0.19
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (72 bp):
TTTAAAAAATTAAATATATTAAAAAAAGTTAACAACAACCAATTTTAAAATATTCAATATATTTA
ATATATT
Found at i:15742971 original size:20 final size:20
Alignment explanation
Indices: 15742941--15742978 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15742931 TTCAATATAT
15742941 TTTTAAAAATATATTTTAAAA
1 TTTTAAAAATAT-TTTTAAAA
15742962 TTTT-AAAATATTTTTAA
1 TTTTAAAAATATTTTTAA
15742979 TAGATAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTAAAAATATTTTTAAAA
Found at i:15743023 original size:10 final size:10
Alignment explanation
Indices: 15743008--15743036 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
15742998 TAATATATTT
15743008 AAAATTTAAA
1 AAAATTTAAA
15743018 AAAA-TTAAA
1 AAAATTTAAA
15743027 AAAATTTAAA
1 AAAATTTAAA
15743037 TATATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:15743032 original size:19 final size:19
Alignment explanation
Indices: 15743008--15743046 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
15742998 TAATATATTT
15743008 AAAATTTAAAAAAATTAAA
1 AAAATTTAAAAAAATTAAA
* *
15743027 AAAATTTAAATATATTAAA
1 AAAATTTAAAAAAATTAAA
15743046 A
1 A
15743047 GTTTAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATTTAAAAAAATTAAA
Found at i:15743046 original size:17 final size:17
Alignment explanation
Indices: 15742999--15743063 Score: 67
Period size: 17 Copynumber: 3.7 Consensus size: 17
15742989 GAATTTTTTT
*
15742999 AATATATTTAAAATTTA
1 AATATATTAAAAATTTA
* *
15743016 AAAAAATTAAAAAAATTTA
1 AATATATT--AAAAATTTA
*
15743035 AATATATTAAAAGTTTA
1 AATATATTAAAAATTTA
*
15743052 AATATGTTAAAA
1 AATATATTAAAA
15743064 GAAAATGTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
17 25 0.64
19 14 0.36
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
AATATATTAAAAATTTA
Found at i:15745326 original size:30 final size:30
Alignment explanation
Indices: 15745282--15745348 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
15745272 CGCAAAGCAA
*
15745282 TTCATATCACTCAGACATTAGCGGTTCAAG
1 TTCATATCACTCAGACATGAGCGGTTCAAG
* * * *
15745312 TTTATATCATTCAGACATGGGCGGTTCGAG
1 TTCATATCACTCAGACATGAGCGGTTCAAG
15745342 TTCATAT
1 TTCATAT
15745349 TACTGGAACA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (30 bp):
TTCATATCACTCAGACATGAGCGGTTCAAG
Found at i:15747281 original size:19 final size:21
Alignment explanation
Indices: 15747238--15747286 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 21
15747228 AATTTTAAAA
15747238 TTAATAATTTATAAAAATTATAT
1 TTAA-AATTTATAAAAA-TATAT
15747261 TTAAAATTT-TAAAAA-ATAT
1 TTAAAATTTATAAAAATATAT
15747280 TTAAAAT
1 TTAAAAT
15747287 GTACATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 11 0.42
21 6 0.23
22 5 0.19
23 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTAAAATTTATAAAAATATAT
Found at i:15747395 original size:20 final size:19
Alignment explanation
Indices: 15747353--15747400 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
15747343 ATAATATATT
*
15747353 TTAAAAAATTAAAAAACAT
1 TTAAAAAATTAAAAAACAA
* *
15747372 TTAAAAAATTATAAAGCAAA
1 TTAAAAAATTAAAAAAC-AA
15747392 TTAAAAAAT
1 TTAAAAAAT
15747401 ATTTAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (19 bp):
TTAAAAAATTAAAAAACAA
Found at i:15747456 original size:28 final size:29
Alignment explanation
Indices: 15747396--15747456 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
15747386 AGCAAATTAA
*
15747396 AAAATATTTAAAATTTAAAATATACATTT
1 AAAATATTTAAAATCTAAAATATACATTT
15747425 AAAATATTATAAAA-CTAATAATA-A-ATTT
1 AAAATATT-TAAAATCTAA-AATATACATTT
15747453 AAAA
1 AAAA
15747457 GGTCATATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.28
29 12 0.41
30 9 0.31
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (29 bp):
AAAATATTTAAAATCTAAAATATACATTT
Found at i:15747519 original size:21 final size:21
Alignment explanation
Indices: 15747480--15747548 Score: 88
Period size: 22 Copynumber: 3.3 Consensus size: 21
15747470 AAATATTTAA
*
15747480 ATATTTTATATTATTAAAAAAT
1 ATATTTAATATT-TTAAAAAAT
15747502 ATATTTAATA-TTTAAAAAAT
1 ATATTTAATATTTTAAAAAAT
*
15747522 AATATTTAAAATTTTAAAAAAT
1 -ATATTTAATATTTTAAAAAAT
15747544 A-ATTT
1 ATATTT
15747549 CAAAAATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.30
21 11 0.26
22 19 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATTTAATATTTTAAAAAAT
Found at i:15747553 original size:21 final size:19
Alignment explanation
Indices: 15747392--15747553 Score: 71
Period size: 20 Copynumber: 7.9 Consensus size: 19
15747382 ATAAAGCAAA
15747392 TTAAAAAAT-ATTTAAAAT
1 TTAAAAAATAATTTAAAAT
*
15747410 TTAAAATATACATTTAAAAT
1 TTAAAAAATA-ATTTAAAAT
* *
15747430 ATTATAAAACTAA-TAATAAAT
1 -TTA-AAAAATAATTTA-AAAT
* *
15747451 TTAAAAGGTCATATCTTTAAAAT
1 TTAAAA---AATA-ATTTAAAAT
* * * *
15747474 ATT--TAAATATTTTATATT
1 -TTAAAAAATAATTTAAAAT
*
15747492 ATTAAAAAATATATTTAATAT
1 -TTAAAAAATA-ATTTAAAAT
15747513 TTAAAAAATAATATTTAAAATT
1 TTAAAAAAT-A-ATTTAAAA-T
15747535 TTAAAAAATAATTTCAAAA
1 TTAAAAAATAATTT-AAAA
15747554 ATATATATTT
Statistics
Matches: 108, Mismatches: 19, Indels: 31
0.68 0.12 0.20
Matches are distributed among these distances:
18 17 0.16
19 6 0.06
20 32 0.30
21 27 0.25
22 18 0.17
23 4 0.04
24 4 0.04
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (19 bp):
TTAAAAAATAATTTAAAAT
Found at i:15747554 original size:22 final size:22
Alignment explanation
Indices: 15747493--15747555 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
15747483 TTTTATATTA
* *
15747493 TTAAAAAAT-ATATTTAATA-T
1 TTAAAAAATAATATTAAAAATT
*
15747513 TTAAAAAATAATATTTAAAATT
1 TTAAAAAATAATATTAAAAATT
15747535 TTAAAAAATAAT-TTCAAAAAT
1 TTAAAAAATAATATT-AAAAAT
15747556 ATATATTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.24
21 11 0.29
22 18 0.47
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAAAAAATAATATTAAAAATT
Found at i:15747562 original size:35 final size:34
Alignment explanation
Indices: 15747511--15747590 Score: 115
Period size: 35 Copynumber: 2.2 Consensus size: 34
15747501 TATATTTAAT
15747511 ATTTAAAAAATAATATTTAAAATTTTAAAAAATA
1 ATTTAAAAAATAATATTTAAAATTTTAAAAAATA
*
15747545 ATTTCAAAAATATATATTTAAAATTTTAAAAATATA
1 ATTTAAAAAATA-ATATTTAAAATTTTAAAAA-ATA
15747581 TATTATAAAA
1 -ATT-TAAAA
15747591 CATTTCAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 11 0.28
35 19 0.47
36 3 0.08
37 3 0.08
38 4 0.10
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (34 bp):
ATTTAAAAAATAATATTTAAAATTTTAAAAAATA
Found at i:15747569 original size:22 final size:24
Alignment explanation
Indices: 15747544--15747599 Score: 80
Period size: 22 Copynumber: 2.4 Consensus size: 24
15747534 TTTAAAAAAT
15747544 AATTTCAAAAATATATATT-T-AA
1 AATTTCAAAAATATATATTATAAA
*
15747566 AATTTTAAAAATATATATTATAAA
1 AATTTCAAAAATATATATTATAAA
15747590 ACATTTCAAA
1 A-ATTTCAAA
15747600 TATACATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 18 0.62
23 1 0.03
24 3 0.10
25 7 0.24
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (24 bp):
AATTTCAAAAATATATATTATAAA
Found at i:15747600 original size:23 final size:22
Alignment explanation
Indices: 15747544--15747608 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
15747534 TTTAAAAAAT
15747544 AATTTCAAAAATATATATTTAAA
1 AATTT-AAAAATATATATTTAAA
*
15747567 ATTTTAAAAATATATATTATAAA
1 AATTTAAAAATATATATT-TAAA
* *
15747590 ACATTT-CAAATATACATTT
1 A-ATTTAAAAATATATATTT
15747609 CAAGTTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 14 0.39
23 19 0.53
24 3 0.08
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTAAAAATATATATTTAAA
Found at i:15747655 original size:19 final size:18
Alignment explanation
Indices: 15747631--15747679 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
15747621 AATGAATAAT
15747631 AAATAAAATAAATAAAGAA
1 AAATAAAA-AAATAAAGAA
*
15747650 AAATAAAAAACTTAAA-AA
1 AAATAAAAAA-ATAAAGAA
15747668 AAAGTAAAAAAA
1 AAA-TAAAAAAA
15747680 AAAAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.80, C:0.02, G:0.04, T:0.14
Consensus pattern (18 bp):
AAATAAAAAAATAAAGAA
Found at i:15749100 original size:5 final size:5
Alignment explanation
Indices: 15749090--15749131 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
15749080 TTATGTTTTA
15749090 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
15749132 AAACTAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:15750432 original size:15 final size:15
Alignment explanation
Indices: 15750409--15750458 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
15750399 TTTATTGAAT
15750409 TTATATTGATTAAAA
1 TTATATTGATTAAAA
* *
15750424 TTATTTTGATTGAAA
1 TTATATTGATTAAAA
*
15750439 TTATATTGATT-GAA
1 TTATATTGATTAAAA
15750453 TTATAT
1 TTATAT
15750459 AATATATATG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (15 bp):
TTATATTGATTAAAA
Found at i:15750860 original size:23 final size:23
Alignment explanation
Indices: 15750830--15750916 Score: 101
Period size: 21 Copynumber: 4.0 Consensus size: 23
15750820 GCTTTATCGA
*
15750830 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
*
15750853 TCAGGCACCTTGTGTGTCGTA--
1 TCAGGCACCTTATGTGTCGTATT
**
15750874 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTTATGTGTCGTATT
*
15750896 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTTATGTGTCGTAT
15750917 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 34 0.62
22 2 0.04
23 19 0.35
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.39
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:15754921 original size:20 final size:20
Alignment explanation
Indices: 15754896--15754934 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15754886 AACATTCAAA
15754896 ATACCATAATCAC-AACCAAG
1 ATACCATAA-CACAAACCAAG
15754916 ATACCATAACACAAACCAA
1 ATACCATAACACAAACCAA
15754935 ACCATATGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.54, C:0.31, G:0.03, T:0.13
Consensus pattern (20 bp):
ATACCATAACACAAACCAAG
Found at i:15757369 original size:21 final size:21
Alignment explanation
Indices: 15757343--15757395 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
15757333 TTTTAAAACT
*
15757343 ACTTGACCTTAGTGTCTTACC
1 ACTTGAACTTAGTGTCTTACC
15757364 ACTTGAACTTAGTGTCTTACC
1 ACTTGAACTTAGTGTCTTACC
15757385 ACTTGAACTTA
1 ACTTGAACTTA
15757396 ATAAATCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.38
Consensus pattern (21 bp):
ACTTGAACTTAGTGTCTTACC
Found at i:15758493 original size:3 final size:3
Alignment explanation
Indices: 15758485--15758516 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15758475 TTAGAAGATT
15758485 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
15758517 TTTTCATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:15761833 original size:23 final size:26
Alignment explanation
Indices: 15761796--15761849 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 26
15761786 CTTCTAAAGT
15761796 TACC-AAATATGAAACTAAGC-A-CA
1 TACCAAAATATGAAACTAAGCTAGCA
*
15761819 TACCAAAATAT-AAACTAGGCTAGCA
1 TACCAAAATATGAAACTAAGCTAGCA
15761844 TACCAA
1 TACCAA
15761850 CATAGCCTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 12 0.44
24 7 0.26
25 8 0.30
ACGTcount: A:0.50, C:0.22, G:0.09, T:0.19
Consensus pattern (26 bp):
TACCAAAATATGAAACTAAGCTAGCA
Found at i:15774007 original size:21 final size:22
Alignment explanation
Indices: 15773974--15774014 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
15773964 TTCATTTATG
*
15773974 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
15773995 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
15774015 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:15774464 original size:27 final size:28
Alignment explanation
Indices: 15774424--15774482 Score: 102
Period size: 27 Copynumber: 2.1 Consensus size: 28
15774414 GAATCATTTG
*
15774424 ATATTTCGCACACTAAGTGTCATTCTCA
1 ATATCTCGCACACTAAGTGTCATTCTCA
15774452 ATATCTCG-ACACTAAGTGTCATTCTCA
1 ATATCTCGCACACTAAGTGTCATTCTCA
15774479 ATAT
1 ATAT
15774483 TTCTTACACT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 23 0.77
28 7 0.23
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.36
Consensus pattern (28 bp):
ATATCTCGCACACTAAGTGTCATTCTCA
Found at i:15777527 original size:11 final size:12
Alignment explanation
Indices: 15777511--15777541 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
15777501 ACAGAGAAGG
15777511 AAGAAAAAGA-A
1 AAGAAAAAGAGA
15777522 AAGAAAAAGAGA
1 AAGAAAAAGAGA
15777534 AAGAAAAA
1 AAGAAAAA
15777542 AAGGGGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAGA
Found at i:15781183 original size:40 final size:41
Alignment explanation
Indices: 15781110--15781298 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 41
15781100 GATTCAGATA
* * *
15781110 TATATATGGTACTTAGTGTG-TA-A-TACGAGATAGCTTCAGC
1 TATATATGGCACTTAGTGTGCGAGATTA-GA-ATAGCTTCGGC
* *
15781150 TTTATATGGCACTTAGTGTGCGA-TTTAGAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGATTAGAATAGCTTCGGC
* * *
15781190 TATATATGACACTTAGTGTGCGAGACT-GAGATAACTTCGGC
1 TATATATGGCACTTAGTGTGCGAGATTAGA-ATAGCTTCGGC
* * * *
15781231 TATGTAAGGCACTTAGTGTACGAGATTATAATAGCTTCGGC
1 TATATATGGCACTTAGTGTGCGAGATTAGAATAGCTTCGGC
* *
15781272 TTTGTATTGGCACTTAGTGTGCGAGAT
1 TATATA-TGGCACTTAGTGTGCGAGAT
15781299 ATCGAGTATT
Statistics
Matches: 123, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
40 51 0.41
41 51 0.41
42 21 0.17
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.34
Consensus pattern (41 bp):
TATATATGGCACTTAGTGTGCGAGATTAGAATAGCTTCGGC
Found at i:15781244 original size:41 final size:40
Alignment explanation
Indices: 15781137--15781298 Score: 173
Period size: 41 Copynumber: 4.0 Consensus size: 40
15781127 GTGTAATACG
* * * *
15781137 AGATAGCTTCAGCTTTATATGGCACTTAGTGTGCGA-TTT
1 AGATAGCTTCGGCTATGTATGGCACTTAGTGTGCGAGATT
* * *
15781176 AGAATAGCTTCGGCTATATATGACACTTAGTGTGCGAGACTG
1 AG-ATAGCTTCGGCTATGTATGGCACTTAGTGTGCGAGA-TT
* * *
15781218 AGATAACTTCGGCTATGTAAGGCACTTAGTGTACGAGATT
1 AGATAGCTTCGGCTATGTATGGCACTTAGTGTGCGAGATT
* *
15781258 ATAATAGCTTCGGCTTTGTATTGGCACTTAGTGTGCGAGAT
1 A-GATAGCTTCGGCTATGTA-TGGCACTTAGTGTGCGAGAT
15781299 ATCGAGTATT
Statistics
Matches: 102, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
39 2 0.02
40 33 0.32
41 46 0.45
42 21 0.21
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (40 bp):
AGATAGCTTCGGCTATGTATGGCACTTAGTGTGCGAGATT
Found at i:15785873 original size:20 final size:20
Alignment explanation
Indices: 15785850--15785888 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15785840 TTGTTATGGG
*
15785850 CAACTGTATTAAAATGGGCC
1 CAACTATATTAAAATGGGCC
* *
15785870 CAACTATGTTAATATGGGC
1 CAACTATATTAAAATGGGC
15785889 AAGGCCCAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (20 bp):
CAACTATATTAAAATGGGCC
Found at i:15788680 original size:109 final size:109
Alignment explanation
Indices: 15788466--15788670 Score: 358
Period size: 109 Copynumber: 1.9 Consensus size: 109
15788456 TGTGTGATTG
*
15788466 GAAGGAGGCTAGACTCATACTGGATATGGAAGAGAGTGCACTCACAGTTACTCAAGGAAAGAAGA
1 GAAGGAGGCTAGACTCATACTGGAGATGGAAGAGAGTGCACTCACAGTTACTCAAGGAAAGAAGA
15788531 CGATCCAAGCCAAGCAAAAGGGAAAGGCTAAAATGCAACCTTCA
66 CGATCCAAGCCAAGCAAAAGGGAAAGGCTAAAATGCAACCTTCA
* *
15788575 GAAGGAGGCTATACTCATACTGGAGATGGGAGAGAGTGCACTCACAGTTACTCAAGGAAAGAAGA
1 GAAGGAGGCTAGACTCATACTGGAGATGGAAGAGAGTGCACTCACAGTTACTCAAGGAAAGAAGA
*
15788640 CGATCCAAG-CAAGGCAAAAGGGGAAGGCTAA
66 CGATCCAAGCCAA-GCAAAAGGGAAAGGCTAA
15788671 GACTCAACCT
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
108 3 0.03
109 88 0.97
ACGTcount: A:0.40, C:0.18, G:0.28, T:0.14
Consensus pattern (109 bp):
GAAGGAGGCTAGACTCATACTGGAGATGGAAGAGAGTGCACTCACAGTTACTCAAGGAAAGAAGA
CGATCCAAGCCAAGCAAAAGGGAAAGGCTAAAATGCAACCTTCA
Found at i:15793612 original size:20 final size:20
Alignment explanation
Indices: 15793575--15793613 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
15793565 CATAAACATA
*
15793575 TTCAAAATAATATAATTTTG
1 TTCAAAATAAAATAATTTTG
15793595 TTCAAAA-AAAATAGATTTT
1 TTCAAAATAAAATA-ATTTT
15793614 TGTAAATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (20 bp):
TTCAAAATAAAATAATTTTG
Found at i:15798447 original size:18 final size:17
Alignment explanation
Indices: 15798426--15798466 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
15798416 ATTTGATTAA
15798426 TTAAAAAATTAAAAAAT
1 TTAAAAAATTAAAAAAT
* *
15798443 GTTAAAATATTAAAATAT
1 -TTAAAAAATTAAAAAAT
15798461 TTAAAA
1 TTAAAA
15798467 CCCGTTTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
TTAAAAAATTAAAAAAT
Found at i:15802380 original size:13 final size:14
Alignment explanation
Indices: 15802353--15802382 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
15802343 CTATAATTTT
15802353 AATACAAACTAATA
1 AATACAAACTAATA
15802367 AATACAAA-TAATA
1 AATACAAACTAATA
15802380 AAT
1 AAT
15802383 TTTTTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (14 bp):
AATACAAACTAATA
Found at i:15802877 original size:50 final size:51
Alignment explanation
Indices: 15802802--15802902 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 51
15802792 TCCATCTGTT
15802802 CAAAATTTCACATTAACCTCGTGTTAGG-TCAAATAAAAGTTATTTGTACA
1 CAAAATTTCACATTAACCTCGTGTTAGGCTCAAATAAAAGTTATTTGTACA
15802852 CAAAATTTCACATTAACCTCGTGTTAGGCTCAAATAAAAGTTATTTGTACA
1 CAAAATTTCACATTAACCTCGTGTTAGGCTCAAATAAAAGTTATTTGTACA
15802903 TTCTTCTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 28 0.56
51 22 0.44
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.34
Consensus pattern (51 bp):
CAAAATTTCACATTAACCTCGTGTTAGGCTCAAATAAAAGTTATTTGTACA
Found at i:15808301 original size:14 final size:14
Alignment explanation
Indices: 15808282--15808311 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15808272 AATAAAAAAT
*
15808282 AATATTATAAATTA
1 AATATTACAAATTA
15808296 AATATTACAAATTA
1 AATATTACAAATTA
15808310 AA
1 AA
15808312 GTACGAAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (14 bp):
AATATTACAAATTA
Found at i:15810949 original size:356 final size:356
Alignment explanation
Indices: 15810292--15811009 Score: 1154
Period size: 356 Copynumber: 2.0 Consensus size: 356
15810282 TAACATCATA
* *
15810292 GAACATCAATCCCTAGTAGTAATGCTTAAAAGGAAAAAAAGAAAAGCTTGATTGAGCTTCCGCGA
1 GAACATCAATCCCTAGTAGTAATGCTTAAAAGGAAAAAAAGAAAAGCTTAACTGAGCTTCCGCGA
* *
15810357 CATTGACCCGCTCAAGATTAGGGACCACCTGAAATCCAATCAATAACAAAGTGAGTTGTGAACTC
66 CACTGACCCGCTCAAGATTAGGGACCACCTAAAATCCAATCAATAACAAAGTGAGTTGTGAACTC
* * * * *
15810422 AATGCATAAAAGTAGTTTAATTAAATAATGTTTGCTCATAAAGAAATTCCAAATTTAGAGATTCG
131 AATGCATAAAAGGAGTTAAATTAAATAATGTTCGCTCATAAAGAAATTCCAAATTCAAAGATTCG
* *
15810487 GTTGATATAAGAGTAATTTCAGTCTAGATTCAGAGTAGATGAGTTACATATATGTATATATATAC
196 GTTGATATAAGAGTAATTTCAGTCCAGATTCAGAGCAGATGAGTTACATATATGTATATATATAC
*
15810552 GATTTCAATTCAAATATTGTTCAGATCAGATTCAAATGCAATATTCCTATTTCCG-TCTGCTACA
261 GATTTCAATTCAAATATGGTTCAGATCAGATTCAAATGCAATATTCCTATTTCCGTTC-GCTACA
* *
15810616 CATCATCTTC-GTCCATCCCAACACACCACTAT
325 CACCATCTTCAGT-CATCCCAACACACCACAAT
*
15810648 GAACATCAATCCCTAGTAGTAATGCTTAAAATGAAAAAAAGAAAAGCTTAACTGAGCTTCCGCGA
1 GAACATCAATCCCTAGTAGTAATGCTTAAAAGGAAAAAAAGAAAAGCTTAACTGAGCTTCCGCGA
*
15810713 CACTGACCCGCTCAAGATT-GGGATCACCTAAAATCCAATCAATAACAAAGTGAGTTGTGAACTC
66 CACTGACCCGCTCAAGATTAGGGACCACCTAAAATCCAATCAATAACAAAGTGAGTTGTGAACTC
* * * *
15810777 AATGCGTAAAAGGAGTTAAAATTCAATAATGTTCGCTTATAAAGAAATTCCAAATTCAAAGGTTC
131 AATGCATAAAAGGAGTT-AAATTAAATAATGTTCGCTCATAAAGAAATTCCAAATTCAAAGATTC
*
15810842 GGTTGATATATGAGTAATTTCAGTCCAGATTCAGAGCAGATGAGTTACATATATGTATATATATA
195 GGTTGATATAAGAGTAATTTCAGTCCAGATTCAGAGCAGATGAGTTACATATATGTATATATATA
* * *
15810907 TGATTTCAATTCAAATATGGTTCAGATCAGATTCAGATGCAATATTCCTATTTTCGTTCGCTACA
260 CGATTTCAATTCAAATATGGTTCAGATCAGATTCAAATGCAATATTCCTATTTCCGTTCGCTACA
*
15810972 CACCATCTTCAGTCATCTCAACACACCACAAT
325 CACCATCTTCAGTCATCCCAACACACCACAAT
*
15811004 GGACAT
1 GAACAT
15811010 TTAATGCCCA
Statistics
Matches: 333, Mismatches: 26, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
355 58 0.17
356 271 0.81
357 4 0.01
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (356 bp):
GAACATCAATCCCTAGTAGTAATGCTTAAAAGGAAAAAAAGAAAAGCTTAACTGAGCTTCCGCGA
CACTGACCCGCTCAAGATTAGGGACCACCTAAAATCCAATCAATAACAAAGTGAGTTGTGAACTC
AATGCATAAAAGGAGTTAAATTAAATAATGTTCGCTCATAAAGAAATTCCAAATTCAAAGATTCG
GTTGATATAAGAGTAATTTCAGTCCAGATTCAGAGCAGATGAGTTACATATATGTATATATATAC
GATTTCAATTCAAATATGGTTCAGATCAGATTCAAATGCAATATTCCTATTTCCGTTCGCTACAC
ACCATCTTCAGTCATCCCAACACACCACAAT
Found at i:15816589 original size:20 final size:21
Alignment explanation
Indices: 15816551--15816589 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
15816541 TCAAGTTGGT
*
15816551 CACATGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
15816572 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
15816590 GTTTTAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.36, G:0.31, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:15817821 original size:32 final size:32
Alignment explanation
Indices: 15817780--15817840 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
15817770 GAAAAGAAAG
15817780 ATCTCATCTTTTCTTCATCTTCTCTCCACCGA
1 ATCTCATCTTTTCTTCATCTTCTCTCCACCGA
15817812 ATCTCATCTTTTCTTCATCTTCTCTCCAC
1 ATCTCATCTTTTCTTCATCTTCTCTCCAC
15817841 TGAAAATGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.15, C:0.38, G:0.02, T:0.46
Consensus pattern (32 bp):
ATCTCATCTTTTCTTCATCTTCTCTCCACCGA
Found at i:15825643 original size:46 final size:45
Alignment explanation
Indices: 15825510--15825867 Score: 362
Period size: 46 Copynumber: 7.7 Consensus size: 45
15825500 ATTGTTGGCT
* * * * *
15825510 AGTGTAAGACATATTTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA-AGCC
* * * * * * *
15825556 AATTTAAAACCATGTCTTGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA-AGCC
15825604 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AAGCC
15825650 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AAGCC
15825696 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AAGCC
* *
15825742 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGA-AGCC
* * ** * * * *
15825788 AGTGTAAGACCATGCCTGGGACATGGCAT-TGATTTGAGATGTGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACG-AAGCC
15825835 AGTGTAAGACTATGTCTGGGACATGGCATCGGC
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC
15825868 ACTTTACCCA
Statistics
Matches: 269, Mismatches: 31, Indels: 22
0.84 0.10 0.07
Matches are distributed among these distances:
45 3 0.01
46 165 0.61
47 73 0.27
48 27 0.10
49 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAAGCC
Found at i:15828461 original size:15 final size:16
Alignment explanation
Indices: 15828430--15828470 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
15828420 TCAATTGCAG
15828430 AAAGAAGAAAAAAATA
1 AAAGAAGAAAAAAATA
*
15828446 AAAGAA-AAAAAGATA
1 AAAGAAGAAAAAAATA
15828461 AAAGATAGAA
1 AAAGA-AGAA
15828471 GAAGGAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 13 0.59
16 7 0.32
17 2 0.09
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (16 bp):
AAAGAAGAAAAAAATA
Found at i:15836600 original size:12 final size:10
Alignment explanation
Indices: 15836578--15836612 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
15836568 CAAAAAGAAG
15836578 AAAAAATAAA
1 AAAAAATAAA
*
15836588 AGAAAAATGAA
1 A-AAAAATAAA
15836599 AAAAAATAAA
1 AAAAAATAAA
15836609 AAAA
1 AAAA
15836613 GGAAGAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.86, C:0.00, G:0.06, T:0.09
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:15836610 original size:22 final size:21
Alignment explanation
Indices: 15836569--15836609 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15836559 AATAAATTGC
15836569 AAAAAGAAGAAAAAATAAAAG
1 AAAAAGAAGAAAAAATAAAAG
15836590 AAAAATGAA-AAAAAATAAAA
1 AAAAA-GAAGAAAAAATAAAA
15836610 AAAGGAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (21 bp):
AAAAAGAAGAAAAAATAAAAG
Found at i:15838880 original size:14 final size:13
Alignment explanation
Indices: 15838859--15838898 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
15838849 ATCAATTTAT
15838859 ATTAAAAATTAAA
1 ATTAAAAATTAAA
*
15838872 GTATAAAAATTAAA
1 AT-TAAAAATTAAA
*
15838886 ATTAAAATTTAAA
1 ATTAAAAATTAAA
15838899 CCTAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (13 bp):
ATTAAAAATTAAA
Found at i:15839416 original size:40 final size:42
Alignment explanation
Indices: 15839351--15839442 Score: 125
Period size: 40 Copynumber: 2.2 Consensus size: 42
15839341 CAAAAAGTAT
* * *
15839351 TTATATTAAAAAAATACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAAAACACTACAATAAATACAATAAATATTTTA
*
15839393 TTATATTAAAAAAACA-TA-AATAAATACAATATATATTTTA
1 TTATATTAAAAAAACACTACAATAAATACAATAAATATTTTA
*
15839433 TTGTATTAAA
1 TTATATTAAA
15839443 TATATATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
40 28 0.62
41 2 0.04
42 15 0.33
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.39
Consensus pattern (42 bp):
TTATATTAAAAAAACACTACAATAAATACAATAAATATTTTA
Found at i:15839537 original size:6 final size:6
Alignment explanation
Indices: 15839526--15839550 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15839516 TTAGTGAGCT
15839526 AATATA AATATA AATATA AATATA A
1 AATATA AATATA AATATA AATATA A
15839551 TTTAATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:15839560 original size:18 final size:19
Alignment explanation
Indices: 15839525--15839595 Score: 71
Period size: 18 Copynumber: 3.9 Consensus size: 19
15839515 GTTAGTGAGC
15839525 TAATATAAATATAA-ATATA
1 TAATAT-AATATAATATATA
*
15839544 -AATATAATTTAATATATA
1 TAATATAATATAATATATA
15839562 TAAT-TAATATAATAT-T-
1 TAATATAATATAATATATA
**
15839578 TTTTATAATATAATATAT
1 TAATATAATATAATATAT
15839596 TCGAATTCTG
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 2 0.05
17 18 0.41
18 21 0.48
19 3 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATATAATATAATATATA
Done.