Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 22 of 171
Found at i:10076352 original size:18 final size:18
Alignment explanation
Indices: 10076331--10076437 Score: 79
Period size: 18 Copynumber: 5.8 Consensus size: 18
10076321 TTGCTGATGA
*
10076331 TGCAACTGCTGCTGCAAC
1 TGCAACTGCTGCTGCAAT
* ***
10076349 TGCAACTGTTGCTGTTGT
1 TGCAACTGCTGCTGCAAT
**
10076367 TGCTGCTGCTGCTGCAAT
1 TGCAACTGCTGCTGCAAT
***
10076385 TGCAACTGCTGCTGTTGTTGT
1 TGCAACTGCTGC---TGCAAT
**
10076406 TGCTGCTGCTGCTGCAAT
1 TGCAACTGCTGCTGCAAT
10076424 TGCAACTGCTGCTG
1 TGCAACTGCTGCTG
10076438 TTGCTGCTGC
Statistics
Matches: 63, Mismatches: 23, Indels: 6
0.68 0.25 0.07
Matches are distributed among these distances:
18 50 0.79
21 13 0.21
ACGTcount: A:0.13, C:0.25, G:0.27, T:0.35
Consensus pattern (18 bp):
TGCAACTGCTGCTGCAAT
Found at i:10076359 original size:36 final size:36
Alignment explanation
Indices: 10076319--10076398 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
10076309 CTGCAGCTGT
10076319 TGTTGCTGATGATGCAACTGCTGCTGCAACTGCAAC
1 TGTTGCTGATGATGCAACTGCTGCTGCAACTGCAAC
* * ** *
10076355 TGTTGCTGTTGTTGCTGCTGCTGCTGCAATTGCAAC
1 TGTTGCTGATGATGCAACTGCTGCTGCAACTGCAAC
*
10076391 TGCTGCTG
1 TGTTGCTG
10076399 TTGTTGTTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.15, C:0.24, G:0.28, T:0.34
Consensus pattern (36 bp):
TGTTGCTGATGATGCAACTGCTGCTGCAACTGCAAC
Found at i:10076399 original size:36 final size:36
Alignment explanation
Indices: 10076336--10076455 Score: 186
Period size: 36 Copynumber: 3.2 Consensus size: 36
10076326 GATGATGCAA
* *
10076336 CTGCTGCTGCAACTGCAACTGTTGCTGTTGTTGCTG
1 CTGCTGCTGCAATTGCAACTGCTGCTGTTGTTGCTG
10076372 CTGCTGCTGCAATTGCAACTGCTGCTGTTGTTGTTGCTG
1 CTGCTGCTGCAATTGCAACTGCTGC---TGTTGTTGCTG
*
10076411 CTGCTGCTGCAATTGCAACTGCTGCTGTTGCTGCTG
1 CTGCTGCTGCAATTGCAACTGCTGCTGTTGTTGCTG
10076447 CTGCTGCTG
1 CTGCTGCTG
10076456 GTTCATGTAA
Statistics
Matches: 78, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
36 42 0.54
39 36 0.46
ACGTcount: A:0.10, C:0.26, G:0.28, T:0.36
Consensus pattern (36 bp):
CTGCTGCTGCAATTGCAACTGCTGCTGTTGTTGCTG
Found at i:10087170 original size:23 final size:23
Alignment explanation
Indices: 10087096--10087309 Score: 160
Period size: 23 Copynumber: 9.5 Consensus size: 23
10087086 TAAACGGAAC
* * *
10087096 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* *
10087118 GAACAGAGAGCACA-TAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
10087140 GGGCAACAGAGAGCACACAAAGTGCT
1 ---AAACAGAGAGCACACAAAGTGCT
*
10087166 AAACAGAGAGTACACAAA--G-T
1 AAACAGAGAGCACACAAAGTGCT
*
10087186 --AC--TGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
10087205 AATCAGAGAGCACACGAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
10087228 AATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
10087251 AATAACAGAGAGCACGA-GACGTGCT
1 -A-AACAGAGAGCAC-ACAAAGTGCT
*
10087276 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
10087299 AATCAGAGAGC
1 AAACAGAGAGC
10087310 GCGCTAGTGT
Statistics
Matches: 153, Mismatches: 23, Indels: 31
0.74 0.11 0.15
Matches are distributed among these distances:
16 10 0.07
18 3 0.02
19 1 0.01
20 1 0.01
21 2 0.01
22 18 0.12
23 79 0.52
24 2 0.01
25 29 0.19
26 8 0.05
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:10087175 original size:48 final size:44
Alignment explanation
Indices: 10087097--10087309 Score: 168
Period size: 48 Copynumber: 4.8 Consensus size: 44
10087087 AAACGGAACA
* * * * *
10087097 AACAGAGAGTAC-CGAAGTACTGAACAGAGAGCACATAAGTGCT
1 AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
* * *
10087140 GGGCAACAGAGAGCACACAAAGTGCTAAACAGAGAGTACACAA-AG-T
1 ----AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
* *
10087186 -AC--TGAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCT
1 AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACA-GAAGTGCT
* *
10087228 AATCAGAGAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCT
1 AA-CAGAGAGCACACAAAGTGCT-A-AACAGAGAGCAC-AGAAGTGCT
* *
10087276 AAACAGAGAGCACACACAGTGCTAATCAGAGAGC
1 -AACAGAGAGCACACAAAGTGCTAAACAGAGAGC
10087310 GCGCTAGTGT
Statistics
Matches: 137, Mismatches: 17, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
39 28 0.20
40 2 0.01
41 3 0.02
42 1 0.01
43 1 0.01
44 1 0.01
46 25 0.18
47 14 0.10
48 59 0.43
49 3 0.02
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.12
Consensus pattern (44 bp):
AACAGAGAGCACACAAAGTGCTAAACAGAGAGCACAGAAGTGCT
Found at i:10087204 original size:39 final size:39
Alignment explanation
Indices: 10087150--10087224 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
10087140 GGGCAACAGA
*
10087150 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTACT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
* *
10087189 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
10087225 GCTAATCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTACT
Found at i:10104331 original size:19 final size:19
Alignment explanation
Indices: 10104292--10104327 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10104282 AAATAAGCAA
10104292 AAGTTCAAGTAAACAACAT
1 AAGTTCAAGTAAACAACAT
10104311 AAGTTCAAGT-AACAACA
1 AAGTTCAAGTAAACAACA
10104328 ATAACACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.53, C:0.17, G:0.11, T:0.19
Consensus pattern (19 bp):
AAGTTCAAGTAAACAACAT
Found at i:10104753 original size:58 final size:58
Alignment explanation
Indices: 10104644--10104756 Score: 165
Period size: 58 Copynumber: 1.9 Consensus size: 58
10104634 GGAGTTGTTT
* *
10104644 ATGAGTGTTATTTAGGAATAAAATTATATTTGGGTTTAAAAATATTTGGGTTTAGCTC
1 ATGAGTGTTATTTAAGAATAAAATTATATTTGGGTTTAAAAATATTGGGGTTTAGCTC
* * *
10104702 ATGAGTGTTTTTTAATAATGAAATTATATTTGGGTTTAAAAAT-TGTGGGGTTTAG
1 ATGAGTGTTATTTAAGAATAAAATTATATTTGGGTTTAAAAATAT-TGGGGTTTAG
10104757 TTTGTTGATG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
57 1 0.02
58 48 0.98
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.44
Consensus pattern (58 bp):
ATGAGTGTTATTTAAGAATAAAATTATATTTGGGTTTAAAAATATTGGGGTTTAGCTC
Found at i:10124362 original size:4 final size:4
Alignment explanation
Indices: 10124353--10124395 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
10124343 GAAATCTGTA
* *
10124353 TATG TATG TATG TATG CATG TATG TATG TATG CATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
10124396 AATGGGCATC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:10124375 original size:16 final size:16
Alignment explanation
Indices: 10124354--10124395 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
10124344 AAATCTGTAT
10124354 ATGTATGTATGTATGC
1 ATGTATGTATGTATGC
10124370 ATGTATGTATGTATGC
1 ATGTATGTATGTATGC
10124386 ATGTATGTAT
1 ATGTATGTAT
10124396 AATGGGCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (16 bp):
ATGTATGTATGTATGC
Found at i:10137252 original size:19 final size:20
Alignment explanation
Indices: 10137228--10137265 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10137218 TGTATTCTTC
*
10137228 TGTATTTTGCA-TGAGCTGT
1 TGTATTTTACATTGAGCTGT
10137247 TGTATTTTACATTGAGCTG
1 TGTATTTTACATTGAGCTG
10137266 ACAGAAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.18, C:0.11, G:0.24, T:0.47
Consensus pattern (20 bp):
TGTATTTTACATTGAGCTGT
Found at i:10145374 original size:2 final size:2
Alignment explanation
Indices: 10145367--10145404 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
10145357 TTAGAGGCAT
10145367 TA TA TA TA TA -A 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
10145405 TAGAGGACTG
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:10145711 original size:14 final size:14
Alignment explanation
Indices: 10145688--10145740 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
10145678 TAAGAAAACA
10145688 AAAACTTAAATTAT
1 AAAACTTAAATTAT
*
10145702 AAAACATAAATT-T
1 AAAACTTAAATTAT
*
10145715 AAACACTTAAAATAT
1 AAA-ACTTAAATTAT
10145730 CAAAACTTAAA
1 -AAAACTTAAA
10145741 CATCCAATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
13 4 0.12
14 18 0.55
15 8 0.24
16 3 0.09
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAACTTAAATTAT
Found at i:10145737 original size:15 final size:14
Alignment explanation
Indices: 10145688--10145740 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
10145678 TAAGAAAACA
*
10145688 AAAACTTAAATTAT
1 AAAACTTAAAATAT
* *
10145702 AAAACAT-AAATTT
1 AAAACTTAAAATAT
10145715 AAACACTTAAAATAT
1 AAA-ACTTAAAATAT
10145730 CAAAACTTAAA
1 -AAAACTTAAA
10145741 CATCCAATAC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.23
14 9 0.29
15 12 0.39
16 3 0.10
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAACTTAAAATAT
Found at i:10153296 original size:24 final size:24
Alignment explanation
Indices: 10153269--10153317 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
10153259 GACAAAATTT
*
10153269 ATATATAATTTTA-TAAAAAAAATA
1 ATATAT-ATTTGAGTAAAAAAAATA
*
10153293 ATATATATTTGAGTAAAAATAATA
1 ATATATATTTGAGTAAAAAAAATA
10153317 A
1 A
10153318 CTAGACTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (24 bp):
ATATATATTTGAGTAAAAAAAATA
Found at i:10155079 original size:22 final size:22
Alignment explanation
Indices: 10155021--10155081 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
10155011 TAAAAATGAT
* * *
10155021 AAAATTTTGATTTAATATTTTA
1 AAAATTATAATTTAATATTGTA
* * *
10155043 AAAATCATATTTTTACTATTGTA
1 AAAATTATA-ATTTAATATTGTA
10155066 AAAATTATAATTTAAT
1 AAAATTATAATTTAAT
10155082 TTTGACATCC
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (22 bp):
AAAATTATAATTTAATATTGTA
Found at i:10172366 original size:16 final size:16
Alignment explanation
Indices: 10172342--10172379 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
10172332 TATTAAAATA
*
10172342 ATGTTTATATGTATGT
1 ATGTATATATGTATGT
10172358 ATGTATATATGTATGT
1 ATGTATATATGTATGT
*
10172374 ACGTAT
1 ATGTAT
10172380 TTATTTACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.03, G:0.18, T:0.50
Consensus pattern (16 bp):
ATGTATATATGTATGT
Found at i:10174482 original size:21 final size:21
Alignment explanation
Indices: 10174449--10174491 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10174439 TCTAATTGTT
* *
10174449 AATATTTATAAAATAAAA-TAA
1 AATACTTA-AAAAAAAAACTAA
10174470 AATACTTAAAAAAAAAACTAA
1 AATACTTAAAAAAAAAACTAA
10174491 A
1 A
10174492 TTCCAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (21 bp):
AATACTTAAAAAAAAAACTAA
Found at i:10178873 original size:17 final size:17
Alignment explanation
Indices: 10178848--10178880 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10178838 TTATTTTGTA
10178848 CCATATTGATAAATAAC
1 CCATATTGATAAATAAC
*
10178865 CCATTTTGATAAATAA
1 CCATATTGATAAATAA
10178881 TTTTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.33
Consensus pattern (17 bp):
CCATATTGATAAATAAC
Found at i:10179187 original size:18 final size:19
Alignment explanation
Indices: 10179146--10179196 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
10179136 ACCAACCTAC
10179146 TAAACAAATAAAATTATAA
1 TAAACAAATAAAATTATAA
*
10179165 T-AACAAAT-CAATTATAA
1 TAAACAAATAAAATTATAA
*
10179182 TAAAC-ATTAAAATTA
1 TAAACAAATAAAATTA
10179197 AAAACTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 11 0.41
18 15 0.56
19 1 0.04
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAACAAATAAAATTATAA
Found at i:10180518 original size:35 final size:33
Alignment explanation
Indices: 10180465--10180531 Score: 80
Period size: 35 Copynumber: 2.0 Consensus size: 33
10180455 TTATAAATTA
* *
10180465 TTAATTTTTTTATATTTTTATATTATATTTTATGT
1 TTAATTTCTTTATATTTTT-TAATAT-TTTTATGT
* *
10180500 TTAATTTCTTTCTGTTTTTTAATATTTTTATG
1 TTAATTTCTTTATATTTTTTAATATTTTTATG
10180532 AAAATATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 7 0.25
34 5 0.18
35 16 0.57
ACGTcount: A:0.22, C:0.03, G:0.04, T:0.70
Consensus pattern (33 bp):
TTAATTTCTTTATATTTTTTAATATTTTTATGT
Found at i:10184260 original size:2 final size:2
Alignment explanation
Indices: 10184249--10184279 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
10184239 TGAAGTATGT
10184249 TC TC -C 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
10184280 ACTATGTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:10188003 original size:5 final size:6
Alignment explanation
Indices: 10187988--10188013 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10187978 AGGAACTGAT
10187988 GGGGGC GGGGGC GGGGGC GGGGGC GG
1 GGGGGC GGGGGC GGGGGC GGGGGC GG
10188014 ACTTACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.85, T:0.00
Consensus pattern (6 bp):
GGGGGC
Found at i:10193153 original size:29 final size:29
Alignment explanation
Indices: 10193106--10193163 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
10193096 GTGATTTGTG
**
10193106 AAAATTGAATAAATCAAAATTTTATGTAT
1 AAAATTGAATAAATCAAAAAATTATGTAT
*
10193135 AAAATTGCATAAAAT-AAAAAATTATGTAT
1 AAAATTGAAT-AAATCAAAAAATTATGTAT
10193164 GACATTGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.34
Consensus pattern (29 bp):
AAAATTGAATAAATCAAAAAATTATGTAT
Found at i:10193392 original size:13 final size:13
Alignment explanation
Indices: 10193374--10193398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10193364 ATGCTTTTTT
10193374 TTTAATTTGATAC
1 TTTAATTTGATAC
10193387 TTTAATTTGATA
1 TTTAATTTGATA
10193399 TTTTTTTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (13 bp):
TTTAATTTGATAC
Found at i:10198468 original size:16 final size:17
Alignment explanation
Indices: 10198447--10198482 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
10198437 TAATAAATCT
10198447 AAACAAAACAAAA-AGC
1 AAACAAAACAAAACAGC
10198463 AAACAAAACAAAACAGC
1 AAACAAAACAAAACAGC
10198480 AAA
1 AAA
10198483 AACATGTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.75, C:0.19, G:0.06, T:0.00
Consensus pattern (17 bp):
AAACAAAACAAAACAGC
Found at i:10201092 original size:18 final size:18
Alignment explanation
Indices: 10201056--10201108 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
10201046 GCTGAGATGA
*
10201056 AAATAAATTT--TTAAGT
1 AAATAAATTTAATTAATT
10201072 AAATAAATTTAATTAATT
1 AAATAAATTTAATTAATT
*
10201090 AAA-AATTTTAAATTAATT
1 AAATAAATTT-AATTAATT
10201108 A
1 A
10201109 CAACTGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 10 0.31
17 5 0.16
18 17 0.53
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
AAATAAATTTAATTAATT
Found at i:10201312 original size:16 final size:15
Alignment explanation
Indices: 10201284--10201322 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
10201274 ATTTTTAAAC
*
10201284 ATAAATAATTAAAAT
1 ATAAATAAATAAAAT
10201299 ATAATATAAATAAAAT
1 ATAA-ATAAATAAAAT
*
10201315 AAAAATAA
1 ATAAATAA
10201323 TTATTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAATAAATAAAAT
Found at i:10201322 original size:20 final size:20
Alignment explanation
Indices: 10201284--10201323 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10201274 ATTTTTAAAC
*
10201284 ATAAATAATTAAAATATAAT
1 ATAAATAAATAAAATATAAT
10201304 ATAAATAAAATAAAA-ATAAT
1 ATAAAT-AAATAAAATATAAT
10201324 TATTTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAAATAAATAAAATATAAT
Found at i:10201583 original size:2 final size:2
Alignment explanation
Indices: 10201576--10201629 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
10201566 CAACGTTAAT
10201576 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10201618 AG AG AG AG AG AG
1 AG AG AG AG AG AG
10201630 CATATCAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10216970 original size:3 final size:3
Alignment explanation
Indices: 10216962--10216986 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10216952 TAAAAAGGAA
10216962 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
10216987 TATATTTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10217922 original size:22 final size:21
Alignment explanation
Indices: 10217893--10217936 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
10217883 ACCTTAAATC
10217893 TAAAAAAA-TATATAATAATTA
1 TAAAAAAAGTAT-TAATAATTA
*
10217914 TAAATAAAAGTATTAATATTTA
1 TAAA-AAAAGTATTAATAATTA
10217936 T
1 T
10217937 TAACAAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 13 0.65
23 3 0.15
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAAAAAAGTATTAATAATTA
Found at i:10226926 original size:41 final size:41
Alignment explanation
Indices: 10226881--10227069 Score: 218
Period size: 41 Copynumber: 4.6 Consensus size: 41
10226871 TTAGCTGCGC
* *
10226881 TTATGAGAAAACGCCGCTAAAGGTCAGAGCATTAGTGGCGT
1 TTATGAGAAAACGCCGCTAAAGGTCAGAGCATTAGCGACGT
* * * * * * *
10226922 TTATGGGGAAGCGCCGCTAAAGGTTAGAGTAATAGCGGCGT
1 TTATGAGAAAACGCCGCTAAAGGTCAGAGCATTAGCGACGT
* *
10226963 TTATGAGAAAACGCCGCTAAATGTCAGCGCATTAGCGACGT
1 TTATGAGAAAACGCCGCTAAAGGTCAGAGCATTAGCGACGT
* *
10227004 TTATGAGAAAACGCCGCTAAATGTCA-ACGCATTAGCAACGT
1 TTATGAGAAAACGCCGCTAAAGGTCAGA-GCATTAGCGACGT
* *
10227045 TTATGGGAAAAACGCTGCTAAAGGT
1 TTATGAG-AAAACGCCGCTAAAGGT
10227070 TAAGCAATAG
Statistics
Matches: 125, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
41 110 0.88
42 15 0.12
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (41 bp):
TTATGAGAAAACGCCGCTAAAGGTCAGAGCATTAGCGACGT
Found at i:10227098 original size:123 final size:123
Alignment explanation
Indices: 10226881--10227104 Score: 292
Period size: 123 Copynumber: 1.8 Consensus size: 123
10226871 TTAGCTGCGC
*** * *
10226881 TTATGAGAAAACGCCGCTAAAGGTCAGAGCATTAGTGGCGTTTATGGGGAAGCGCCGCTAAAGGT
1 TTATGAGAAAACGCCGCTAAAGGTCAGAGCATTAGCAACGTTTATGGGAAAACGCCGCTAAAGGT
* * * *
10226946 TAGAGTAATAGCGGCGTTTATGAGAAAACGCCGCTAAATGTCAGCGCATTAGCGACGT
66 TAGAGCAATAGCAGCGTTTATCACAAAACGCCGCTAAATGTCAGCGCATTAGCGACGT
* *
10227004 TTATGAGAAAACGCCGCTAAATGTCA-ACGCATTAGCAACGTTTATGGGAAAAACGCTGCTAAAG
1 TTATGAGAAAACGCCGCTAAAGGTCAGA-GCATTAGCAACGTTTATGGG-AAAACGCCGCTAAAG
*
10227068 GTTA-AGCAATAGCAGCGTTT-TCCCATAAACGCCGCTA
64 GTTAGAGCAATAGCAGCGTTTATCACA-AAACGCCGCTA
10227105 TTTATTTAAA
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
122 3 0.03
123 67 0.78
124 16 0.19
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (123 bp):
TTATGAGAAAACGCCGCTAAAGGTCAGAGCATTAGCAACGTTTATGGGAAAACGCCGCTAAAGGT
TAGAGCAATAGCAGCGTTTATCACAAAACGCCGCTAAATGTCAGCGCATTAGCGACGT
Found at i:10228665 original size:40 final size:41
Alignment explanation
Indices: 10228565--10228674 Score: 159
Period size: 41 Copynumber: 2.7 Consensus size: 41
10228555 CATAAACACC
* *
10228565 GCTAAAGATCAGAGCATTAGCGGCGTTTATGAGAAAGCGCC
1 GCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGCA
* * * *
10228606 GCTAAAAGTCAAAGAATTAGCGACGTTTATGAGAAAGCG-A
1 GCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGCA
10228646 GCTAAAGGTCAGAGCATTAGCGGCGTTTA
1 GCTAAAGGTCAGAGCATTAGCGGCGTTTA
10228675 GTGGGCTTGA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
40 25 0.42
41 34 0.58
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (41 bp):
GCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGCA
Found at i:10248871 original size:19 final size:20
Alignment explanation
Indices: 10248844--10248884 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
10248834 ACCGGGTTTT
*
10248844 ATATTTTTTTATTTTT-TAA
1 ATATATTTTTATTTTTATAA
10248863 ATATATTTTTATTTTTATAA
1 ATATATTTTTATTTTTATAA
10248883 AT
1 AT
10248885 TTTTTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
ATATATTTTTATTTTTATAA
Found at i:10267619 original size:18 final size:19
Alignment explanation
Indices: 10267598--10267635 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
10267588 TATTTTCAAA
10267598 AAATTTAATAATAA-ATTT
1 AAATTTAATAATAATATTT
* *
10267616 AAATTTTATATTAATATTT
1 AAATTTAATAATAATATTT
10267635 A
1 A
10267636 TATAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATTTAATAATAATATTT
Found at i:10267888 original size:2 final size:2
Alignment explanation
Indices: 10267883--10267913 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10267873 AAATAGTTTC
10267883 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 A
10267914 GACAGAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10268242 original size:21 final size:21
Alignment explanation
Indices: 10268200--10268253 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
10268190 ATTAAAATTA
*
10268200 TTTATAAATTTTAGGATTAAT
1 TTTATAAATATTAGGATTAAT
* *
10268221 TTTATAAA-ATTATGATTAAA
1 TTTATAAATATTAGGATTAAT
*
10268241 TTGATATAATATT
1 TTTATA-AATATT
10268254 TAAAAGTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 14 0.52
21 10 0.37
22 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
TTTATAAATATTAGGATTAAT
Found at i:10280151 original size:2 final size:2
Alignment explanation
Indices: 10280144--10280168 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10280134 GCAAGCACAA
10280144 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
10280169 TTTAAATCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:10283505 original size:29 final size:30
Alignment explanation
Indices: 10283473--10283541 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
10283463 TAACATCATT
* *
10283473 TTATATTTA-TATATTATATAAATAAA-TAA
1 TTATATTTATTA-AATATAAAAATAAATTAA
10283502 TTATATTTATTAAATATAAAAATAAATTAA
1 TTATATTTATTAAATATAAAAATAAATTAA
10283532 -TATATTTATT
1 TTATATTTATT
10283542 TTTTTAATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 31 0.86
30 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
TTATATTTATTAAATATAAAAATAAATTAA
Found at i:10283601 original size:30 final size:31
Alignment explanation
Indices: 10283558--10283619 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
10283548 ATTCGTATCA
*
10283558 TTAAATTAAAATTAAAATTT-ATATATATAT
1 TTAAACTAAAATTAAAATTTAATATATATAT
*
10283588 TTAAACTATAATTAAAATTTCAATATATATAT
1 TTAAACTAAAATTAAAATTT-AATATATATAT
10283620 ATAATTACGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 18 0.64
32 10 0.36
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (31 bp):
TTAAACTAAAATTAAAATTTAATATATATAT
Found at i:10286776 original size:29 final size:30
Alignment explanation
Indices: 10286726--10286796 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 30
10286716 TTTTCTAAAA
*
10286726 TTAAAAATTTAGTTCTTATATTTTT-AT-T
1 TTAAAAATTTAATTCTTATATTTTTCATAT
10286754 TTAAAAAATTTAATCTCTT-TATTTTTCATAT
1 TT-AAAAATTTAAT-TCTTATATTTTTCATAT
10286785 TTAAAAATTTAA
1 TTAAAAATTTAA
10286797 ATTCAATTGG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
28 2 0.05
29 17 0.45
30 16 0.42
31 3 0.08
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.55
Consensus pattern (30 bp):
TTAAAAATTTAATTCTTATATTTTTCATAT
Found at i:10288509 original size:18 final size:19
Alignment explanation
Indices: 10288476--10288516 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
10288466 TCCACGTGTC
10288476 TTTTATTTTTATTTTTA-T
1 TTTTATTTTTATTTTTACT
10288494 TTTTA-TTTTATTTTTTACT
1 TTTTATTTTTA-TTTTTACT
10288513 TTTT
1 TTTT
10288517 CACCTTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 11 0.52
19 5 0.24
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTATTTTTATTTTTACT
Found at i:10288515 original size:6 final size:6
Alignment explanation
Indices: 10288476--10288508 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
10288466 TCCACGTGTC
10288476 TTTTAT TTTTAT TTTTAT TTTTA- TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
10288509 TACTTTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:10295819 original size:24 final size:23
Alignment explanation
Indices: 10295789--10295845 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
10295779 AAAAATTGAT
*
10295789 TTAAATTTTTAAAAATTATAAAA
1 TTAAATTTTTAAAAATAATAAAA
*
10295812 TATAAATTATT-AAAATAATAAAA
1 T-TAAATTTTTAAAAATAATAAAA
*
10295835 TTATATTTTTA
1 TTAAATTTTTA
10295846 TTATTATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 7 0.25
23 13 0.46
24 8 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTAAATTTTTAAAAATAATAAAA
Found at i:10295823 original size:17 final size:17
Alignment explanation
Indices: 10295800--10295838 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
10295790 TAAATTTTTA
10295800 AAAATTA-TAAAAT-AT
1 AAAATTATTAAAATAAT
10295815 -AAATTATTAAAATAAT
1 AAAATTATTAAAATAAT
10295831 AAAATTAT
1 AAAATTAT
10295839 ATTTTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 2 0.10
17 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATTATTAAAATAAT
Found at i:10307043 original size:16 final size:16
Alignment explanation
Indices: 10307020--10307059 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
10307010 CGTTTGGTTC
10307020 GCTGTAATGAAATAGA
1 GCTGTAATGAAATAGA
* *
10307036 GGTGTAATGGAATAGA
1 GCTGTAATGAAATAGA
10307052 GCTGTAAT
1 GCTGTAAT
10307060 CAGTAATTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.28
Consensus pattern (16 bp):
GCTGTAATGAAATAGA
Found at i:10311496 original size:326 final size:325
Alignment explanation
Indices: 10310903--10311964 Score: 1898
Period size: 324 Copynumber: 3.3 Consensus size: 325
10310893 AATTTACAAA
* * *
10310903 ATCCATTCATAATTCTATATACCACAAATCTAATTCATATATGGGCAAATACAAGACATCCACAA
1 ATCCATTCACAATTCTATATACCACAAATCTAATTCATATATGGGCAGATACAAGACATCCATAA
10310968 GATAACATTAAGCCCCCAAAACCGAACTTGAATCTTATTTT-AGTCAAAGGATAAAGACAACGGT
66 GATAACATTAAGCCCCCAAAACCGAACTTGAATCTTATTTTGA-TCAAAGGATAAAGACAACGGT
* * *
10311032 AAAGCATATACAGCTTGAACAGATTCCTGTCATTTGAAACATCATTTTTCCATTCAATTACATTC
130 AGAGCATATACAGCTTGAACAGATTCCTGTCATTTGAAACATCATTCTGCCATTCAATTACATTC
*
10311097 AGAAATGACACATTTCAATTCATACATAGACCCGATCCAACATCAGAGGAAACACTAAATCAGGA
195 AGAAATGACACATTTCAATTCATACATAGACCCGATCTAACATCAGAGGAAACACTAAATCAGGA
*
10311162 GTTGGGACAGTAAAAGCTAATGACATGCATATAAGTGACATTTTTTTATCTCATCATCTCATGAC
260 GTTGGGACAGTAAAAGCTAATGACATGCATATAAGTGACA-TTTTTTATCTCATCAGCTCATGAC
10311227 TT
324 TT
10311229 ATCCATTCACAATTCTATATACCACAAATCTAATTCATATATGGGCAGATACAAGACATCCATAA
1 ATCCATTCACAATTCTATATACCACAAATCTAATTCATATATGGGCAGATACAAGACATCCATAA
*
10311294 GATAACATTAAGCCCCCAAAACCGAACTTGAATCTTATTTTGATCAAAGGATAAAGACAACAGTA
66 GATAACATTAAGCCCCCAAAACCGAACTTGAATCTTATTTTGATCAAAGGATAAAGACAACGGTA
10311359 GAGCATATACAGCTTGAACAGATT-CTGTCATTTGAAACATCATTCTGCCATTCAATTACATTCA
131 GAGCATATACAGCTTGAACAGATTCCTGTCATTTGAAACATCATTCTGCCATTCAATTACATTCA
* * *
10311423 GAAATGACACATTTCAAGT-AGCTTCATAGACCTGATCTAACATCAGAGGAAACACTAAATCAGG
196 GAAATGACACATTTCAATTCA--TACATAGACCCGATCTAACATCAGAGGAAACACTAAATCAGG
*
10311487 AGTTGGGACAGTAAAAGCTAATGACATGCATATAAGTGAAATTTTTTATCTCATCAGCTCATGAC
259 AGTTGGGACAGTAAAAGCTAATGACATGCATATAAGTGACATTTTTTATCTCATCAGCTCATGAC
10311552 TT
324 TT
*
10311554 ATCCATTCACAATTCTATATACCACAAATTTAATTCATATATGGGCAGATACAAG-CATCCATAA
1 ATCCATTCACAATTCTATATACCACAAATCTAATTCATATATGGGCAGATACAAGACATCCATAA
10311618 GATAACATTAAGCCCCCAAAACCGAACTTGAATCTTATTTTGATCAAAGGATAAAGACAACGGTA
66 GATAACATTAAGCCCCCAAAACCGAACTTGAATCTTATTTTGATCAAAGGATAAAGACAACGGTA
10311683 GAGCATATACAGCTTGAACAGATTCCTGTCATTTGAAACATCATTCTGCCATTCAATTACATTCA
131 GAGCATATACAGCTTGAACAGATTCCTGTCATTTGAAACATCATTCTGCCATTCAATTACATTCA
*
10311748 GAAATGACACATTTCAATTCATACATAGACCCGATTTAACATCAGAGGAAACACTAAATCAGGAG
196 GAAATGACACATTTCAATTCATACATAGACCCGATCTAACATCAGAGGAAACACTAAATCAGGAG
*
10311813 TTGGGACAGTAAAAGCTAATGACATGCATATAAGTGACATTTTTTATCTTATCAGCTCATGACTT
261 TTGGGACAGTAAAAGCTAATGACATGCATATAAGTGACATTTTTTATCTCATCAGCTCATGACTT
*
10311878 ATCCATTCACAATTCTATATACCACAAATCTAATTCATATATGGGAAGATACAAGACATCCATAA
1 ATCCATTCACAATTCTATATACCACAAATCTAATTCATATATGGGCAGATACAAGACATCCATAA
*
10311943 GAAAACATTAAGCCCCCAAAAC
66 GATAACATTAAGCCCCCAAAAC
10311965 TAGCTTTCCA
Statistics
Matches: 706, Mismatches: 24, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
324 255 0.36
325 223 0.32
326 227 0.32
327 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.28
Consensus pattern (325 bp):
ATCCATTCACAATTCTATATACCACAAATCTAATTCATATATGGGCAGATACAAGACATCCATAA
GATAACATTAAGCCCCCAAAACCGAACTTGAATCTTATTTTGATCAAAGGATAAAGACAACGGTA
GAGCATATACAGCTTGAACAGATTCCTGTCATTTGAAACATCATTCTGCCATTCAATTACATTCA
GAAATGACACATTTCAATTCATACATAGACCCGATCTAACATCAGAGGAAACACTAAATCAGGAG
TTGGGACAGTAAAAGCTAATGACATGCATATAAGTGACATTTTTTATCTCATCAGCTCATGACTT
Found at i:10322099 original size:25 final size:29
Alignment explanation
Indices: 10322056--10322131 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 29
10322046 ACATTTTAAA
*
10322056 AAATAAAATATTAATTTATTTTTATAT-T
1 AAATAAAATATTAATTTATTTATATATGT
10322084 AAAT-AAATA-TAA-TTATTTATATATGT
1 AAATAAAATATTAATTTATTTATATATGT
*
10322110 AAAATATAA-ATTAATATTATTT
1 -AAATAAAATATTAAT-TTATTT
10322132 CAATAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
25 11 0.28
26 4 0.10
27 10 0.25
28 9 0.22
30 6 0.15
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
AAATAAAATATTAATTTATTTATATATGT
Found at i:10322579 original size:4 final size:4
Alignment explanation
Indices: 10322570--10322605 Score: 63
Period size: 4 Copynumber: 8.8 Consensus size: 4
10322560 GTTTGAACAA
10322570 TATG TATG TATG TATG TATG TATG TATTG TATG TAT
1 TATG TATG TATG TATG TATG TATG TA-TG TATG TAT
10322606 TCAAGTCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:10324287 original size:28 final size:29
Alignment explanation
Indices: 10324246--10324309 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
10324236 TGAGCAATGA
* * *
10324246 AAATACCAACTTGA-AAGAAAAATAATTT
1 AAATACTAAATTGATAAAAAAAATAATTT
*
10324274 AAATACTAAATTGATAAAAAAAATAGTTT
1 AAATACTAAATTGATAAAAAAAATAATTT
*
10324303 AATTACT
1 AAATACT
10324310 TGTTAGTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (29 bp):
AAATACTAAATTGATAAAAAAAATAATTT
Found at i:10337607 original size:13 final size:13
Alignment explanation
Indices: 10337584--10337633 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
10337574 ATACACTTAA
10337584 AAACATT-AAAAT
1 AAACATTAAAAAT
10337596 AAACATTTAAAAAT
1 AAACA-TTAAAAAT
10337610 AAACAAATTAAAAAT
1 AAAC--ATTAAAAAT
10337625 --ACATTAAAA
1 AAACATTAAAA
10337634 TTTTTTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 7 0.21
12 5 0.15
13 4 0.12
14 9 0.26
15 8 0.24
16 1 0.03
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (13 bp):
AAACATTAAAAAT
Found at i:10337608 original size:14 final size:15
Alignment explanation
Indices: 10337591--10337625 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10337581 TAAAAACATT
*
10337591 AAAATAAAC-ATTTA
1 AAAATAAACAAATTA
10337605 AAAATAAACAAATTA
1 AAAATAAACAAATTA
10337620 AAAATA
1 AAAATA
10337626 CATTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATAAACAAATTA
Found at i:10337784 original size:19 final size:19
Alignment explanation
Indices: 10337750--10337819 Score: 58
Period size: 19 Copynumber: 3.9 Consensus size: 19
10337740 AAAACGCATA
*
10337750 AAAATAACATCAAAACAAC
1 AAAATAACAACAAAACAAC
*
10337769 AAAATAACAACCAAAC-A-
1 AAAATAACAACAAAACAAC
* * *
10337786 AAAGTAA-AA-ATAACGAC
1 AAAATAACAACAAAACAAC
*
10337803 AAAACAACAACAAAACA
1 AAAATAACAACAAAACA
10337820 GTAAAAAAGT
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
15 3 0.08
16 3 0.08
17 11 0.29
18 3 0.08
19 18 0.47
ACGTcount: A:0.70, C:0.20, G:0.03, T:0.07
Consensus pattern (19 bp):
AAAATAACAACAAAACAAC
Found at i:10337817 original size:23 final size:23
Alignment explanation
Indices: 10337763--10337817 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
10337753 ATAACATCAA
*
10337763 AACAAC-AAAATAACAACCAAAC
1 AACAACAAAAATAACAACAAAAC
* *
10337785 AA-AAGTAAAAATAACGACAAAAC
1 AACAA-CAAAAATAACAACAAAAC
10337808 AACAACAAAA
1 AACAACAAAA
10337818 CAGTAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
21 2 0.08
22 2 0.08
23 20 0.77
24 2 0.08
ACGTcount: A:0.71, C:0.20, G:0.04, T:0.05
Consensus pattern (23 bp):
AACAACAAAAATAACAACAAAAC
Found at i:10338154 original size:20 final size:20
Alignment explanation
Indices: 10338129--10338175 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
10338119 CTTTAAACAA
10338129 GTTCGAATTCG-AGATTTAAG
1 GTTCGAATTCGAAG-TTTAAG
10338149 GTTCGAATTCGAAGTTTAAG
1 GTTCGAATTCGAAGTTTAAG
*
10338169 GCTCGAA
1 GTTCGAA
10338176 GCTCAAGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.32
Consensus pattern (20 bp):
GTTCGAATTCGAAGTTTAAG
Found at i:10349609 original size:24 final size:26
Alignment explanation
Indices: 10349573--10349631 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 26
10349563 ATTATGTCCA
10349573 ATTT-ATTTCTAA-TATTTAATTT-T
1 ATTTAATTTCTAATTATTTAATTTAT
*
10349596 ATTTAATTTCTAATTATTTATTTTAT
1 ATTTAATTTCTAATTATTTAATTTAT
10349622 ATTTATATTT
1 ATTTA-ATTT
10349632 AATCTCCCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 4 0.13
24 8 0.26
25 9 0.29
26 6 0.19
27 4 0.13
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (26 bp):
ATTTAATTTCTAATTATTTAATTTAT
Found at i:10356759 original size:2 final size:2
Alignment explanation
Indices: 10356752--10356776 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10356742 GCCAAAAGTA
10356752 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
10356777 TTTTTTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10359227 original size:25 final size:25
Alignment explanation
Indices: 10359182--10359230 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
10359172 ATTAACTCAA
* *
10359182 TAATATTTATGCTTGTGTATATTTT
1 TAATATTTATGCTTATATATATTTT
10359207 TAATATTTATG-TTATAATATATTT
1 TAATATTTATGCTTAT-ATATATTT
10359231 ACATTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (25 bp):
TAATATTTATGCTTATATATATTTT
Found at i:10359917 original size:21 final size:21
Alignment explanation
Indices: 10359893--10359940 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
10359883 CAACTTAACA
*
10359893 AACAAATGTCTCTAAAATAAT
1 AACAAATGCCTCTAAAATAAT
10359914 AACAAATGCCTCTAAAATAAT
1 AACAAATGCCTCTAAAATAAT
10359935 AACAAA
1 AACAAA
10359941 ATTAACAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.56, C:0.17, G:0.04, T:0.23
Consensus pattern (21 bp):
AACAAATGCCTCTAAAATAAT
Found at i:10386210 original size:18 final size:20
Alignment explanation
Indices: 10386187--10386232 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
10386177 ATAATCAACT
10386187 TTTTTTATA-ATAG-TTTTA
1 TTTTTTATATATAGATTTTA
*
10386205 TTTTTT-TATTTAGATTTTA
1 TTTTTTATATATAGATTTTA
*
10386224 TTTGTTATA
1 TTTTTTATA
10386233 GAAAATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 2 0.09
18 9 0.39
19 10 0.43
20 2 0.09
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.70
Consensus pattern (20 bp):
TTTTTTATATATAGATTTTA
Found at i:10386210 original size:19 final size:19
Alignment explanation
Indices: 10386186--10386226 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
10386176 TATAATCAAC
10386186 TTTTTTTATAATAG-TTTTA
1 TTTTTTTAT-ATAGATTTTA
*
10386205 TTTTTTTATTTAGATTTTA
1 TTTTTTTATATAGATTTTA
10386224 TTT
1 TTT
10386227 GTTATAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTTTTTATATAGATTTTA
Found at i:10387738 original size:6 final size:6
Alignment explanation
Indices: 10387727--10387757 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
10387717 AATTAATTAA
10387727 TTATGG TTATGG TTATGG TTATGG TTATGG T
1 TTATGG TTATGG TTATGG TTATGG TTATGG T
10387758 GGAGGGAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (6 bp):
TTATGG
Found at i:10396316 original size:47 final size:47
Alignment explanation
Indices: 10396247--10396341 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
10396237 TTAAATAAAC
10396247 AGGACAAGTAACATAGAAATGAATTCAGTTAATCCCTAAAGCTATAT
1 AGGACAAGTAACATAGAAATGAATTCAGTTAATCCCTAAAGCTATAT
10396294 AGGACAAGTAACATAGAAATGAATTCAGTTAATCCCTAAAGCTATAT
1 AGGACAAGTAACATAGAAATGAATTCAGTTAATCCCTAAAGCTATAT
10396341 A
1 A
10396342 CAGACCAGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (47 bp):
AGGACAAGTAACATAGAAATGAATTCAGTTAATCCCTAAAGCTATAT
Found at i:10398178 original size:95 final size:95
Alignment explanation
Indices: 10398010--10398183 Score: 260
Period size: 95 Copynumber: 1.8 Consensus size: 95
10398000 TCTTTTTATA
* *
10398010 AACAAACTCGGTGCCATTCACGACTACAACAAAGAATGAATTATTCTTCATTTTAAATTCAATGC
1 AACAAACTCGGTGCCATTCACGACTACAACAAAGAACGAATTATTCTTCATTATAAATTCAATGC
*
10398075 AAATGCAACGCATCTTCAGGAGATTCATAG
66 AAACGCAACGCATCTTCAGGAGATTCATAG
* * * * *
10398105 AACACACTCGGTTCCATTCACGAGTACGACAAAAGAACGAATTATTCTTGA-TATAAATTCAATG
1 AACAAACTCGGTGCCATTCACGACTACAAC-AAAGAACGAATTATTCTTCATTATAAATTCAATG
10398169 CAAACGCAACGCATC
65 CAAACGCAACGCATC
10398184 ACCACCAGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
95 52 0.74
96 18 0.26
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.25
Consensus pattern (95 bp):
AACAAACTCGGTGCCATTCACGACTACAACAAAGAACGAATTATTCTTCATTATAAATTCAATGC
AAACGCAACGCATCTTCAGGAGATTCATAG
Found at i:10399409 original size:14 final size:14
Alignment explanation
Indices: 10399390--10399417 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10399380 TCTAAAAATT
10399390 AAAAATTATTTTAA
1 AAAAATTATTTTAA
10399404 AAAAATTATTTTAA
1 AAAAATTATTTTAA
10399418 TATTTTATAA
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAAATTATTTTAA
Found at i:10400294 original size:30 final size:31
Alignment explanation
Indices: 10400241--10400304 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
10400231 TAACCTATAA
*
10400241 TTTTATAATTTTTCAAAGATTAAACTA-AAT
1 TTTTATAATTTTTAAAAGATTAAACTACAAT
* *
10400271 TTTTATCATTTTTAAAACG-TTAAAGTACAAT
1 TTTTATAATTTTTAAAA-GATTAAACTACAAT
10400302 TTT
1 TTT
10400305 ATTATTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 22 0.76
31 7 0.24
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (31 bp):
TTTTATAATTTTTAAAAGATTAAACTACAAT
Found at i:10421401 original size:18 final size:18
Alignment explanation
Indices: 10421380--10421437 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
10421370 TAGTACTATT
10421380 ACAAATATATAAACTAAC
1 ACAAATATATAAACTAAC
**
10421398 AC-AATATATAATACTATT
1 ACAAATATATAA-ACTAAC
*
10421416 ACAAATATCTAAACTAAC
1 ACAAATATATAAACTAAC
10421434 ACAA
1 ACAA
10421438 TTACTTTTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 9 0.27
18 16 0.48
19 8 0.24
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (18 bp):
ACAAATATATAAACTAAC
Found at i:10421405 original size:17 final size:17
Alignment explanation
Indices: 10421383--10421438 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
10421373 TACTATTACA
10421383 AATATATAAACTAACAC
1 AATATATAAACTAACAC
10421400 AATATATAATACTATTACA-
1 AATATATAA-ACTA--ACAC
*
10421419 AATATCTAAACTAACAC
1 AATATATAAACTAACAC
10421436 AAT
1 AAT
10421439 TACTTTTACC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
16 3 0.09
17 12 0.35
18 8 0.24
19 8 0.24
20 3 0.09
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (17 bp):
AATATATAAACTAACAC
Found at i:10427237 original size:2 final size:2
Alignment explanation
Indices: 10427220--10427260 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
10427210 TAGTTAAGCA
10427220 AT AT AT -T AT -T AT -T 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 AT AT AT AT AT AT AT AT
10427259 AT
1 AT
10427261 GTAAAATGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 33 0.92
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:10427847 original size:13 final size:13
Alignment explanation
Indices: 10427829--10427854 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10427819 TAGTGTGATT
10427829 ACATGATAATATC
1 ACATGATAATATC
10427842 ACATGATAATATC
1 ACATGATAATATC
10427855 TGTTCATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
ACATGATAATATC
Found at i:10433412 original size:20 final size:20
Alignment explanation
Indices: 10433389--10433429 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10433379 TAATTTAATT
10433389 TTTTAAAAATTATAAAAATA
1 TTTTAAAAATTATAAAAATA
* **
10433409 TTTTTACTATTATAAAAATA
1 TTTTAAAAATTATAAAAATA
10433429 T
1 T
10433430 ACAATTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTAAAAATTATAAAAATA
Found at i:10434013 original size:17 final size:18
Alignment explanation
Indices: 10433981--10434016 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
10433971 TTTTAGAAGC
10433981 ATTTTTGACATGAAAAGT
1 ATTTTTGACATGAAAAGT
*
10433999 ATTTTTGA-ATTAAAAGT
1 ATTTTTGACATGAAAAGT
10434016 A
1 A
10434017 ATACTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.42
Consensus pattern (18 bp):
ATTTTTGACATGAAAAGT
Found at i:10444355 original size:28 final size:28
Alignment explanation
Indices: 10444299--10444355 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
10444289 ACAAAGAAAG
* * **
10444299 GTGCGAGTTGCCACAATGAAGCTGTGAA
1 GTGCGAGCTGCCACAATGAAACTACGAA
*
10444327 GTGCGAGCTGTCACAATGAAACTACGAA
1 GTGCGAGCTGCCACAATGAAACTACGAA
10444355 G
1 G
10444356 CAATCGGAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (28 bp):
GTGCGAGCTGCCACAATGAAACTACGAA
Found at i:10444884 original size:12 final size:12
Alignment explanation
Indices: 10444863--10444909 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
10444853 CACATTAATA
10444863 AATAAACGAGCC
1 AATAAACGAGCC
* *
10444875 AATAAGCGAGCT
1 AATAAACGAGCC
*
10444887 TATAAACGAGCC
1 AATAAACGAGCC
10444899 AATAAACGAGC
1 AATAAACGAGC
10444910 TTATTCGTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (12 bp):
AATAAACGAGCC
Found at i:10444896 original size:24 final size:24
Alignment explanation
Indices: 10444864--10444913 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
10444854 ACATTAATAA
*
10444864 ATAAACGAGCCAATAAGCGAGCTT
1 ATAAACGAGCCAATAAACGAGCTT
10444888 ATAAACGAGCCAATAAACGAGCTT
1 ATAAACGAGCCAATAAACGAGCTT
10444912 AT
1 AT
10444914 TCGTAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (24 bp):
ATAAACGAGCCAATAAACGAGCTT
Found at i:10446173 original size:45 final size:45
Alignment explanation
Indices: 10446109--10446201 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
10446099 AAATCGAGTG
10446109 AAAAAAATAATAAATTGTTATTAATTGATGTTTAAAATAACAAAT
1 AAAAAAATAATAAATTGTTATTAATTGATGTTTAAAATAACAAAT
* *
10446154 AAAAAAATAGTAATTTGTTATTAATTGATGTTTAAAATAACAAAT
1 AAAAAAATAATAAATTGTTATTAATTGATGTTTAAAATAACAAAT
10446199 AAA
1 AAA
10446202 TGACATATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (45 bp):
AAAAAAATAATAAATTGTTATTAATTGATGTTTAAAATAACAAAT
Found at i:10458538 original size:23 final size:23
Alignment explanation
Indices: 10458512--10458698 Score: 106
Period size: 23 Copynumber: 8.4 Consensus size: 23
10458502 AGTGCTGGGC
10458512 AACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
10458535 AACAGAGAGTACACAAA-----A
1 AACAGAGAGCACACAAAGTGCTA
* * *
10458553 TAC--TGAGCACACGAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
** *
10458574 ATGAGAGAGCACACGAAGTGCT-
1 AACAGAGAGCACACAAAGTGCTA
* *
10458596 AATAGAGAGCAC-CAAAGTACTAA
1 AACAGAGAGCACACAAAGTGCT-A
* *
10458619 TAACAGAGAGCACGA-GACGTGCTA
1 -AACAGAGAGCAC-ACAAAGTGCTA
* * * * * *
10458643 AACAAATATCACACACAGTGTTG
1 AACAGAGAGCACACAAAGTGCTA
*
10458666 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
10458689 AATAGAGAGC
1 AACAGAGAGC
10458699 GCGCTAGTGT
Statistics
Matches: 120, Mismatches: 31, Indels: 26
0.68 0.18 0.15
Matches are distributed among these distances:
16 9 0.08
18 3 0.03
21 8 0.07
22 11 0.09
23 72 0.60
24 12 0.10
25 5 0.04
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.13
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:10461375 original size:9 final size:9
Alignment explanation
Indices: 10461361--10461389 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
10461351 CAATTATTTC
10461361 AAAAAACAA
1 AAAAAACAA
10461370 AAAAAAC-A
1 AAAAAACAA
10461378 AAAAAACAA
1 AAAAAACAA
10461387 AAA
1 AAA
10461390 CATGATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAACAA
Found at i:10462745 original size:23 final size:23
Alignment explanation
Indices: 10462716--10462760 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
10462706 ATCAACAAAT
10462716 AATTTAAAATT-ATAAAAATAAAA
1 AATTTAAAATTCA-AAAAATAAAA
10462739 AATTTAAAATTCAAAAAATAAA
1 AATTTAAAATTCAAAAAATAAA
10462761 CCAAAGTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (23 bp):
AATTTAAAATTCAAAAAATAAAA
Found at i:10485233 original size:114 final size:114
Alignment explanation
Indices: 10485033--10485241 Score: 348
Period size: 114 Copynumber: 1.8 Consensus size: 114
10485023 TGTAAATTTT
* *
10485033 TTTATCCAAACTCAACCCTTGAACAAGTTTAGTTGGACTCCATGAAAACACTAAGATTCAAACCA
1 TTTATCCAAACTCAACCCTTGAACAAATTTAGTCGGACTCCATGAAAACACTAAGATTCAAACCA
10485098 CAACAATGCAATGCATGATTAGATCAACACATGGCTCATTAGGTAAATC
66 CAACAATGCAATGCATGATTAGATCAACACATGGCTCATTAGGTAAATC
* * **
10485147 TTTATCCCAACTCAA-CTTATGAACAAATTTAGTCGGGTTCCATGAAAACACTAAGATTCAAACC
1 TTTATCCAAACTCAACCCT-TGAACAAATTTAGTCGGACTCCATGAAAACACTAAGATTCAAACC
10485211 ACAACAATGCAATGCATGATTAGATCAACAC
65 ACAACAATGCAATGCATGATTAGATCAACAC
10485242 CAGAACTCAT
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
113 2 0.02
114 86 0.98
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.25
Consensus pattern (114 bp):
TTTATCCAAACTCAACCCTTGAACAAATTTAGTCGGACTCCATGAAAACACTAAGATTCAAACCA
CAACAATGCAATGCATGATTAGATCAACACATGGCTCATTAGGTAAATC
Found at i:10487962 original size:17 final size:16
Alignment explanation
Indices: 10487941--10487974 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
10487931 TGTAATATTA
10487941 ATTTTTTTAAAAAATT
1 ATTTTTTTAAAAAATT
*
10487957 ATTTTTTTATAAAATT
1 ATTTTTTTAAAAAATT
10487973 AT
1 AT
10487975 AAAATATATA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTTTTAAAAAATT
Found at i:10489330 original size:25 final size:28
Alignment explanation
Indices: 10489275--10489327 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
10489265 TTATAAATGT
*
10489275 AAAAAATCATATATAATATATTATTTTTA
1 AAAAAAT-ATATAAAATATATTATTTTTA
10489304 AAAAAAT-TATAAAATATA-TATTTT
1 AAAAAATATATAAAATATATTATTTT
10489328 AAATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
27 10 0.43
29 7 0.30
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
AAAAAATATATAAAATATATTATTTTTA
Found at i:10508379 original size:25 final size:25
Alignment explanation
Indices: 10508350--10508400 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
10508340 TAGAACCCTA
10508350 ATGAATTTCAAATTGATTGGCTAAT
1 ATGAATTTCAAATTGATTGGCTAAT
10508375 ATGAATTTCAAATTGATTGGCTAAT
1 ATGAATTTCAAATTGATTGGCTAAT
10508400 A
1 A
10508401 AACTATAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (25 bp):
ATGAATTTCAAATTGATTGGCTAAT
Found at i:10514526 original size:93 final size:93
Alignment explanation
Indices: 10514365--10514550 Score: 354
Period size: 93 Copynumber: 2.0 Consensus size: 93
10514355 CTAATAATGG
10514365 AAATTTTTCTTTATTCTCACCGCCAAATGGTAAACCCTCTTCATCGTGGGTGGTGTTAGACTCCA
1 AAATTTTTCTTTATTCTCACCGCCAAATGGTAAACCCTCTTCATCGTGGGTGGTGTTAGACTCCA
10514430 TTTTATTGCTGGTCTAGGATGGATTTTT
66 TTTTATTGCTGGTCTAGGATGGATTTTT
* *
10514458 AAATTTTTCTTTATTCTCACTGCCAAATGGTAAACCCTCTTCATCGTGGGTGGTGTTAGACTCTA
1 AAATTTTTCTTTATTCTCACCGCCAAATGGTAAACCCTCTTCATCGTGGGTGGTGTTAGACTCCA
10514523 TTTTATTGCTGGTCTAGGATGGATTTTT
66 TTTTATTGCTGGTCTAGGATGGATTTTT
10514551 TTCAGATTCA
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.20, C:0.18, G:0.19, T:0.42
Consensus pattern (93 bp):
AAATTTTTCTTTATTCTCACCGCCAAATGGTAAACCCTCTTCATCGTGGGTGGTGTTAGACTCCA
TTTTATTGCTGGTCTAGGATGGATTTTT
Found at i:10528028 original size:19 final size:19
Alignment explanation
Indices: 10528004--10528068 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
10527994 TTTTACTTGA
10528004 TATAGAACTTGGTAACAGG
1 TATAGAACTTGGTAACAGG
** * * *
10528023 TATAG-ACATAAAGTTACTTGA
1 TATAGAAC-T-TGGTAAC-AGG
10528044 TATAGAACTTGGTAACAGG
1 TATAGAACTTGGTAACAGG
10528063 TATAGA
1 TATAGA
10528069 CATAAAGTTT
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
18 2 0.06
19 13 0.41
20 8 0.25
21 7 0.22
22 2 0.06
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (19 bp):
TATAGAACTTGGTAACAGG
Found at i:10528051 original size:40 final size:40
Alignment explanation
Indices: 10527996--10528077 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
10527986 AGGACAATTT
10527996 TTACTTGATATAGAACTTGGTAACAGGTATAGACATAAAG
1 TTACTTGATATAGAACTTGGTAACAGGTATAGACATAAAG
10528036 TTACTTGATATAGAACTTGGTAACAGGTATAGACATAAAG
1 TTACTTGATATAGAACTTGGTAACAGGTATAGACATAAAG
10528076 TT
1 TT
10528078 TAACATTGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (40 bp):
TTACTTGATATAGAACTTGGTAACAGGTATAGACATAAAG
Found at i:10528381 original size:28 final size:27
Alignment explanation
Indices: 10528300--10528427 Score: 95
Period size: 28 Copynumber: 4.6 Consensus size: 27
10528290 ATCTTTTAAT
10528300 ATAATTATTATT--AAATTATATTTAAA-A
1 ATAATTA-TATTAAAAATT-TA-TTAAATA
* *
10528327 ATAATTCTATT-AAAATTTAATAAAAATA
1 ATAATTATATTAAAAATTT-AT-TAAATA
10528355 ATAATTATATTAAAAATGTTATTAAATA
1 ATAATTATATTAAAAAT-TTATTAAATA
*
10528383 ATATATTAT-TTAATTAAATTATATTTAATA
1 ATA-ATTATATTAA--AAATT-TATTAAATA
*
10528413 ATAATTATGTTAAAA
1 ATAATTATATTAAAA
10528428 TATAATTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 21
0.77 0.05 0.19
Matches are distributed among these distances:
26 6 0.07
27 15 0.18
28 25 0.29
29 18 0.21
30 21 0.25
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (27 bp):
ATAATTATATTAAAAATTTATTAAATA
Found at i:10528420 original size:58 final size:59
Alignment explanation
Indices: 10528351--10528485 Score: 186
Period size: 58 Copynumber: 2.3 Consensus size: 59
10528341 ATTTAATAAA
* *
10528351 AATAATAATTATATTAAAAATGTTATTAAATAATATATTA-TTTAATTAAATTATATTT
1 AATAATAATTATATTAAAAATATAATTAAATAATATATTATTTTAATTAAATTATATTT
* * * *
10528409 AATAATAATTATGTT-AAAATATAATTAAATTATTTATTATTTTTATTAAATTATATTT
1 AATAATAATTATATTAAAAATATAATTAAATAATATATTATTTTAATTAAATTATATTT
10528467 AATAATAATCT-TATTAAAA
1 AATAATAAT-TATATTAAAA
10528486 TTTAATAACA
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
57 20 0.30
58 43 0.64
59 4 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (59 bp):
AATAATAATTATATTAAAAATATAATTAAATAATATATTATTTTAATTAAATTATATTT
Found at i:10528609 original size:44 final size:45
Alignment explanation
Indices: 10528561--10528669 Score: 132
Period size: 44 Copynumber: 2.4 Consensus size: 45
10528551 TTTTTTATGC
* *
10528561 TATTACAGCTTTATTTCATTTCATTCAACCAAAC-ACAAGAA-TAT
1 TATTACAGCTTTATTCCATTCCATTCAACCAAACAAC-AGAATTAT
* * *
10528605 TATTACAGCTTTATTCCATTCCATTTAACTAAACAACTGAATTAT
1 TATTACAGCTTTATTCCATTCCATTCAACCAAACAACAGAATTAT
*
10528650 TGATTACAGCTCTATTCCAT
1 T-ATTACAGCTTTATTCCAT
10528670 AATAATCTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
44 33 0.59
45 6 0.11
46 17 0.30
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.39
Consensus pattern (45 bp):
TATTACAGCTTTATTCCATTCCATTCAACCAAACAACAGAATTAT
Found at i:10528697 original size:16 final size:16
Alignment explanation
Indices: 10528652--10528705 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
10528642 TGAATTATTG
*
10528652 ATTACAGCTCTATTCC
1 ATTACAACTCTATTCC
* *
10528668 ATAATAA-TCTTATTCC
1 ATTACAACTC-TATTCC
*
10528684 ATTACAACTCTATTCT
1 ATTACAACTCTATTCC
10528700 ATTACA
1 ATTACA
10528706 GCGAACCAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 2 0.07
16 26 0.87
17 2 0.07
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:10544200 original size:2 final size:2
Alignment explanation
Indices: 10544193--10544228 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10544183 CAAACGATAA
10544193 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
10544229 GTGTCTCTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10566372 original size:33 final size:33
Alignment explanation
Indices: 10566330--10566398 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
10566320 TTTATGATTC
10566330 TAACAAAAATATATATATAAATTCATTAAAAAT
1 TAACAAAAATATATATATAAATTCATTAAAAAT
10566363 TAACAAAAATATATATATAAATTCATTAAAAAT
1 TAACAAAAATATATATATAAATTCATTAAAAAT
10566396 TAA
1 TAA
10566399 AATAAATTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (33 bp):
TAACAAAAATATATATATAAATTCATTAAAAAT
Found at i:10577966 original size:21 final size:21
Alignment explanation
Indices: 10577940--10577981 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10577930 TTGGGTCCAT
10577940 TTGAATTGGACCAAAAAGTGG
1 TTGAATTGGACCAAAAAGTGG
10577961 TTGAATTGGACCAAAAAGTGG
1 TTGAATTGGACCAAAAAGTGG
10577982 AAATGCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.29, T:0.24
Consensus pattern (21 bp):
TTGAATTGGACCAAAAAGTGG
Found at i:10594003 original size:8 final size:8
Alignment explanation
Indices: 10593990--10594015 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10593980 GTGCATGGGC
10593990 GTGTGTAT
1 GTGTGTAT
10593998 GTGTGTAT
1 GTGTGTAT
10594006 GTGTGTAT
1 GTGTGTAT
10594014 GT
1 GT
10594016 AAAGAGAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (8 bp):
GTGTGTAT
Found at i:10597410 original size:1 final size:1
Alignment explanation
Indices: 10597406--10597437 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
10597396 TTTTTTTTTT
*
10597406 GGGGGGGGGGGGGGGGGGGGGGGGGGGCGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
10597438 TAGCTTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.03, G:0.97, T:0.00
Consensus pattern (1 bp):
G
Found at i:10601997 original size:19 final size:19
Alignment explanation
Indices: 10601972--10602014 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
10601962 TGTGGGTTGT
* *
10601972 TTTTTAAATAATTTTAATGA
1 TTTTAAAATAATTTAAAT-A
10601992 TTTTAAAATAATTTAAATA
1 TTTTAAAATAATTTAAATA
10602011 TTTT
1 TTTT
10602015 GCTGATGTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTTAAAATAATTTAAATA
Found at i:10624935 original size:3 final size:3
Alignment explanation
Indices: 10624927--10624972 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
10624917 AACACTGCAA
10624927 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10624973 TTTCTTTCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10631281 original size:37 final size:36
Alignment explanation
Indices: 10631219--10631294 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 36
10631209 ATAAAATAAG
10631219 TTTAATAATATAAAAATTAAATTAATACATTATTATAT
1 TTTAATAATATAAAAATTAAATTAATACATT-TTA-AT
10631257 TTTAATAATAT-AAAATTAAATTAATACATTTTAAT
1 TTTAATAATATAAAAATTAAATTAATACATTTTAAT
10631292 TTT
1 TTT
10631295 GATCCAGCGG
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
35 5 0.13
36 3 0.08
37 19 0.50
38 11 0.29
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (36 bp):
TTTAATAATATAAAAATTAAATTAATACATTTTAAT
Found at i:10636063 original size:6 final size:6
Alignment explanation
Indices: 10636052--10636077 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10636042 TGATGACCAC
10636052 GATGAA GATGAA GATGAA GATGAA GA
1 GATGAA GATGAA GATGAA GATGAA GA
10636078 CGAGGAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.35, T:0.15
Consensus pattern (6 bp):
GATGAA
Found at i:10637666 original size:103 final size:103
Alignment explanation
Indices: 10637539--10637740 Score: 341
Period size: 103 Copynumber: 2.0 Consensus size: 103
10637529 GTGTTCTTTG
* *
10637539 ATACTCCCAAGCTAACTCAGTCTCTCTGATCGAGGGTTGATCTTTATGTGTTCTAACCTATCAGA
1 ATACTCCCAAGCTAACTCAGTCTCTCTGATCGAGGGTTGATCTTTATGAGTTCTAACCTACCAGA
*
10637604 CTTAAAACTGAACTAGAAAGCAACTATGCCCACCTTCC
66 ATTAAAACTGAACTAGAAAGCAACTATGCCCACCTTCC
*
10637642 ATACTCCCAAGCTAACTCAGTCTCTCTGATCGAGGGTTGATCTTTATGAGTTCTAACCTACCGGA
1 ATACTCCCAAGCTAACTCAGTCTCTCTGATCGAGGGTTGATCTTTATGAGTTCTAACCTACCAGA
* * *
10637707 ATTAAAACTGAACTATAATGCAACTATTCCCACC
66 ATTAAAACTGAACTAGAAAGCAACTATGCCCACC
10637741 AATGGTACAC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 92 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (103 bp):
ATACTCCCAAGCTAACTCAGTCTCTCTGATCGAGGGTTGATCTTTATGAGTTCTAACCTACCAGA
ATTAAAACTGAACTAGAAAGCAACTATGCCCACCTTCC
Found at i:10637935 original size:80 final size:79
Alignment explanation
Indices: 10637844--10638002 Score: 221
Period size: 80 Copynumber: 2.0 Consensus size: 79
10637834 AATCGAACTG
* ** *
10637844 GATAGAGTAAATGAGGGACTTGTTCTGCAAAAAGCACTGACACGGATGTGAATGAATTATT-TAC
1 GATAGAGTAAATGAGGGACTTGTTCGGCAAAAAGCACTGACACAAATGTGAATGAATGATTGT--
10637908 AAGACAAGTTCAATCT
64 AAGACAAGTTCAATCT
* * *
10637924 GATAGAGTAAATGAGGGTCTTGTTCGGCAAAAAGCATTGTCACAAATGTGAATGAATGATTGTAA
1 GATAGAGTAAATGAGGGACTTGTTCGGCAAAAAGCACTGACACAAATGTGAATGAATGATTGTAA
*
10637989 GCCAAGTTCAATCT
66 GACAAGTTCAATCT
10638003 TCAGTACAGT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
79 15 0.21
80 54 0.77
81 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.27
Consensus pattern (79 bp):
GATAGAGTAAATGAGGGACTTGTTCGGCAAAAAGCACTGACACAAATGTGAATGAATGATTGTAA
GACAAGTTCAATCT
Found at i:10645258 original size:23 final size:24
Alignment explanation
Indices: 10645227--10645288 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
10645217 TTGATGTTTT
*
10645227 TATTATTATAACATATAATAGAAA-
1 TATT-TTATAACATATAACAGAAAG
10645251 TATTTTATATA-ATATAACAGAAAG
1 TATTTTATA-ACATATAACAGAAAG
*
10645275 TATTTTATCACATA
1 TATTTTATAACATA
10645289 ATTATATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 17 0.52
24 16 0.48
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.40
Consensus pattern (24 bp):
TATTTTATAACATATAACAGAAAG
Found at i:10662922 original size:21 final size:21
Alignment explanation
Indices: 10662898--10662937 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10662888 CATATATTCA
*
10662898 ATAATATTCAATGCAGATGAT
1 ATAATATTCAATGAAGATGAT
10662919 ATAATATTCAATGAAGATG
1 ATAATATTCAATGAAGATG
10662938 CCAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (21 bp):
ATAATATTCAATGAAGATGAT
Found at i:10664754 original size:15 final size:17
Alignment explanation
Indices: 10664729--10664760 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10664719 GAAAATTATT
10664729 TAAAGCAAAGTA-ATTG
1 TAAAGCAAAGTAGATTG
10664745 TAAA-CAAAGTAGATTG
1 TAAAGCAAAGTAGATTG
10664761 ATATTGATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (17 bp):
TAAAGCAAAGTAGATTG
Found at i:10665501 original size:17 final size:17
Alignment explanation
Indices: 10665479--10665512 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
10665469 TTGTGCCCTA
10665479 ATAATTGATT-ATATTTT
1 ATAATT-ATTAATATTTT
10665496 ATAATTATTAATATTTT
1 ATAATTATTAATATTTT
10665513 TGAAGAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
ATAATTATTAATATTTT
Found at i:10665700 original size:5 final size:5
Alignment explanation
Indices: 10665690--10665725 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
10665680 ACTTCTCAAC
*
10665690 CATAT CATAT CATAT CATAT CATAT CATAT TATAT C
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT C
10665726 CATACATAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (5 bp):
CATAT
Found at i:10674010 original size:2 final size:2
Alignment explanation
Indices: 10674003--10674034 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
10673993 TTACTGCTTT
*
10674003 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10674035 CATACCCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:10680703 original size:23 final size:24
Alignment explanation
Indices: 10680655--10680720 Score: 100
Period size: 23 Copynumber: 2.8 Consensus size: 24
10680645 TATTAATAAA
10680655 TTTATTAATAATT-AGATGAATTTT
1 TTTATTAATAATTAAG-TGAATTTT
10680679 TTTATTAATAATTAAGT-AATTTT
1 TTTATTAATAATTAAGTGAATTTT
*
10680702 TTTACTAATAATTAAGTGA
1 TTTATTAATAATTAAGTGA
10680721 TTACGAGTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 22 0.56
24 15 0.38
25 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.52
Consensus pattern (24 bp):
TTTATTAATAATTAAGTGAATTTT
Found at i:10682552 original size:2 final size:2
Alignment explanation
Indices: 10682545--10682569 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10682535 AGGCTTAAAC
10682545 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
10682570 GAGGGGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10692296 original size:5 final size:5
Alignment explanation
Indices: 10692286--10692312 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
10692276 GGTTGTTTTT
10692286 AAGGG AAGGG AAGGG AAGGG AAGGG AA
1 AAGGG AAGGG AAGGG AAGGG AAGGG AA
10692313 AGGTAGGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (5 bp):
AAGGG
Found at i:10692320 original size:15 final size:15
Alignment explanation
Indices: 10692286--10692320 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10692276 GGTTGTTTTT
*
10692286 AAGGGAAGGGAAGGG
1 AAGGGAAGGGAAAGG
10692301 AAGGGAAGGGAAAGG
1 AAGGGAAGGGAAAGG
*
10692316 TAGGG
1 AAGGG
10692321 TGGATTTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.57, T:0.03
Consensus pattern (15 bp):
AAGGGAAGGGAAAGG
Found at i:10703004 original size:15 final size:15
Alignment explanation
Indices: 10702955--10703005 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
10702945 TTTAGATTCG
* *
10702955 TTTATATTATTTTAA
1 TTTATATTTTTTTTA
*
10702970 TTTAATATTTTGTGTT-
1 TTT-ATATTTT-TTTTA
10702986 TTTATATTTTTTTTA
1 TTTATATTTTTTTTA
10703001 TTTAT
1 TTTAT
10703006 TAAAATTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 3 0.10
15 15 0.52
16 9 0.31
17 2 0.07
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (15 bp):
TTTATATTTTTTTTA
Found at i:10705608 original size:15 final size:18
Alignment explanation
Indices: 10705578--10705613 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
10705568 CTATCACTAT
10705578 AAATACCTTCAAGCAT-A
1 AAATACCTTCAAGCATCA
10705595 AAAT-CCTT-AAGCATCA
1 AAATACCTTCAAGCATCA
10705611 AAA
1 AAA
10705614 ACAAATTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.50, C:0.22, G:0.06, T:0.22
Consensus pattern (18 bp):
AAATACCTTCAAGCATCA
Found at i:10706545 original size:20 final size:20
Alignment explanation
Indices: 10706522--10706559 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10706512 ATATAAACTG
10706522 TAAAATAAT-TATTTAAAACA
1 TAAAA-AATATATTTAAAACA
*
10706542 TAAAAAATATTTTTAAAA
1 TAAAAAATATATTTAAAA
10706560 TTTTTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAAAATATATTTAAAACA
Found at i:10716960 original size:3 final size:3
Alignment explanation
Indices: 10716947--10716976 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10716937 GTTGGGGGAT
*
10716947 AAG ATG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
10716977 GGGTTAAATA
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:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:10720088 original size:6 final size:7
Alignment explanation
Indices: 10720073--10720098 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10720063 TTCATATTGG
10720073 TTTTGTT
1 TTTTGTT
10720080 TTTTGTT
1 TTTTGTT
10720087 TTTTGTT
1 TTTTGTT
10720094 TTTTG
1 TTTTG
10720099 AAGTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (7 bp):
TTTTGTT
Found at i:10723854 original size:25 final size:25
Alignment explanation
Indices: 10723794--10723854 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
10723784 TACGAGGAGA
*
10723794 AAGAAGAAGAATGAATGAAAGAAAG
1 AAGAAGAAGAATAAATGAAAGAAAG
*
10723819 AAGAATG-AGAATAAATGAATGAAAG
1 AAGAA-GAAGAATAAATGAAAGAAAG
*
10723844 AAGGAGAAGAA
1 AAGAAGAAGAA
10723855 GGTGACATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 1 0.03
25 29 0.94
26 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.10
Consensus pattern (25 bp):
AAGAAGAAGAATAAATGAAAGAAAG
Found at i:10724310 original size:249 final size:246
Alignment explanation
Indices: 10723640--10724315 Score: 754
Period size: 249 Copynumber: 2.7 Consensus size: 246
10723630 TGTGTGTCGT
* * * *
10723640 AGGGAGTGGGAGGCAGGCAGAGATTCGATTGGAGTG-GAAGACAATAAATTGAGATTTTAATTTA
1 AGGGAGTGGGAGGCATGCAGAGATTCG-TTGGGGTGAG-GGATAATAAATTGAG-TTTTAATTT-
* ** *
10723704 AGGTTATAAAAAAAGAGG-GGGGAATTTTAAGGGTATTGAAAGAAAGGTAAAAAAAATAGTAAAG
62 AGGTTATAAAAAAA-AGGAAGGGAACCTTAAAGGTATTGAAAGAAAGGTAAAAAAAA-AGTAAAG
* * * * * * *
10723768 GGTAGAGTGTAGTAGTTACGAGGAGAAAGAAGAAGAATGAATGAAAGAAAGAAGAATGAGAATAA
125 AGTGGAGTGTAGTAGCTACGAGGAGAAGGAAGAAGAAGGAAAGAAAGAAAGAAGAAGGAGAATAA
* * *
10723833 ATGAATGAAAGAAGGAGAAGAAGGTGACATGCATGCAGCATGCGCATGTGTGTGTAGG
190 ATGAATGAAAGAAGGAAAAGAAGGTGACATGCATGCAGCAT-CGCACGTATGTGTAGG
*
10723891 AGGGAGTGGGAGGCATGTAGAGATTCAGTTGGGGTGAGGGATAAT-AA---A---TT-A---AGG
1 AGGGAGTGGGAGGCATGCAGAGATTC-GTTGGGGTGAGGGATAATAAATTGAGTTTTAATTTAGG
* *
10723945 TTACAAAAAAAGGGAAAGGG-ACCTTAAAGGTATTGAAAGAAAGGTAAAAAAAGAAGAAGTAAAG
65 TTATAAAAAAAAGG-AAGGGAACCTTAAAGGTATTGAAAGAAAGGT--AAAAA-AA-AAGTAAAG
**
10724009 AGTGGAACGTAGTAGCTACGAGGAGAATGAAGAAGAATGAAAGAAAGAAAGAAAGAAAGAAGAAG
125 AGTGGAGTGTAGTAGCTACGAGGAGAA-G--GAAGAA-G-AAG---GAAAGAAAGAAAGAAGAAG
*
10724074 GAGAATAAATGAATGAAAGAAGGAAAAGAAGGTGGCATGCATGCAGCAT-GCACGTATGTGTAGG
182 GAGAATAAATGAATGAAAGAAGGAAAAGAAGGTGACATGCATGCAGCATCGCACGTATGTGTAGG
10724138 -GGGAGTGGGAGGCATGCAGAGATTCTGTTGGGGTGAGGGATAATAAATTGAGGTTTTAATTTAG
1 AGGGAGTGGGAGGCATGCAGAGATTC-GTTGGGGTGAGGGATAATAAATTGA-GTTTTAATTTAG
*
10724202 GATTATAAAAAAAAGGAAGGAAGAACCTTAAAAGTATTGAAAGAAAGGTAAAAAAAAAGTAAAGA
64 G-TTATAAAAAAAAGGAAGG--GAACCTTAAAGGTATTGAAAGAAAGGTAAAAAAAAAGTAAAGA
* **
10724267 ATGGAGTGTAACAGCTACGAGGAGAAGGAAGAAGAAGGAAAGAAAGAAA
126 GTGGAGTGTAGTAGCTACGAGGAGAAGGAAGAAGAAGGAAAGAAAGAAA
10724316 TAAAGGAGGA
Statistics
Matches: 359, Mismatches: 34, Indels: 66
0.78 0.07 0.14
Matches are distributed among these distances:
237 2 0.01
238 35 0.10
239 3 0.01
240 5 0.01
241 31 0.09
242 2 0.01
243 2 0.01
244 6 0.02
245 1 0.00
246 44 0.12
247 16 0.04
249 76 0.21
250 3 0.01
251 36 0.10
252 5 0.01
253 1 0.00
254 8 0.02
255 1 0.00
256 1 0.00
257 30 0.08
258 9 0.03
259 17 0.05
260 1 0.00
261 24 0.07
ACGTcount: A:0.45, C:0.05, G:0.32, T:0.18
Consensus pattern (246 bp):
AGGGAGTGGGAGGCATGCAGAGATTCGTTGGGGTGAGGGATAATAAATTGAGTTTTAATTTAGGT
TATAAAAAAAAGGAAGGGAACCTTAAAGGTATTGAAAGAAAGGTAAAAAAAAAGTAAAGAGTGGA
GTGTAGTAGCTACGAGGAGAAGGAAGAAGAAGGAAAGAAAGAAAGAAGAAGGAGAATAAATGAAT
GAAAGAAGGAAAAGAAGGTGACATGCATGCAGCATCGCACGTATGTGTAGG
Done.