Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 9 of 344
Found at i:3338339 original size:6 final size:6
Alignment explanation
Indices: 3338297--3338338 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
3338287 CAATTATTGT
* *
3338297 ATGCCA ATGCCA ATGCCA ATGCCA ATGCCA CTGCCA TTGCCA
1 ATGCCA ATGCCA ATGCCA ATGCCA ATGCCA ATGCCA ATGCCA
3338339 TCATCTCTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.19
Consensus pattern (6 bp):
ATGCCA
Found at i:3340549 original size:19 final size:19
Alignment explanation
Indices: 3340525--3340572 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
3340515 AGAAAATGAA
* *
3340525 TAAATTAATTATTATATAT
1 TAAATTAATTATTAAAGAT
**
3340544 TAAATTAAAGATTAAAGAT
1 TAAATTAATTATTAAAGAT
3340563 TAAATTAATT
1 TAAATTAATT
3340573 TTTTTATTAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
TAAATTAATTATTAAAGAT
Found at i:3342183 original size:22 final size:23
Alignment explanation
Indices: 3342158--3342210 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
3342148 ATTTATCTAA
*
3342158 TAAAATATTA-AAAATAAATATT
1 TAAAATAATACAAAATAAATATT
* *
3342180 TAAAA-AATACATAATAAATTTT
1 TAAAATAATACAAAATAAATATT
3342202 TAAAATAAT
1 TAAAATAAT
3342211 TTACCGAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 3 0.12
22 20 0.77
23 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAAATAATACAAAATAAATATT
Found at i:3347344 original size:37 final size:37
Alignment explanation
Indices: 3347283--3347428 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
3347273 TACGTATGAT
* *
3347283 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
3347318 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
3347355 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
3347392 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
3347429 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:3347445 original size:46 final size:46
Alignment explanation
Indices: 3347392--3347660 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
3347382 TAAGTGTAGC
* **
3347392 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
3347438 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
3347484 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
3347536 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
3347582 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
3347634 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
3347661 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:3347511 original size:52 final size:52
Alignment explanation
Indices: 3347435--3347654 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
3347425 TAGCTAAAGC
* *
3347435 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
3347488 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
3347540 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
3347586 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
3347638 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
3347655 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:3347557 original size:98 final size:98
Alignment explanation
Indices: 3347392--3347660 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
3347382 TAAGTGTAGC
* * *
3347392 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
3347457 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
3347491 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
3347556 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
3347589 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
3347654 GATCAGA
66 GATCAGA
3347661 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:3353726 original size:15 final size:15
Alignment explanation
Indices: 3353706--3353783 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
3353696 TTTATGGAAA
3353706 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
3353721 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
3353735 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
3353751 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
3353765 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
3353781 ATC
1 ATC
3353784 GAGATATTGG
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 9 0.19
15 29 0.62
16 9 0.19
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:3353735 original size:30 final size:30
Alignment explanation
Indices: 3353699--3353783 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
3353689 ATCCATATTT
*
3353699 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
3353729 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
3353759 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
3353784 GAGATATTGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:3359362 original size:52 final size:48
Alignment explanation
Indices: 3359343--3359545 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
3359333 TGACAAGTGG
* *
3359343 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
3359389 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
3359441 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
3359487 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
3359533 AAAGTGATAAGTG
1 AAAGTGATAAGTG
3359546 GCTACACTTT
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:3359446 original size:98 final size:98
Alignment explanation
Indices: 3359277--3359545 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
3359267 TTTGAGTACT
*
3359277 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
3359342 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
3359375 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
3359440 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
3359473 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
3359538 GATAAGTG
65 GAAAAGTG
3359546 GCTACACTTT
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:3359553 original size:37 final size:37
Alignment explanation
Indices: 3359509--3359654 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
3359499 GATAGCTTTA
*
3359509 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
3359546 GCTACACTTTTCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
3359583 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
3359620 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
3359655 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:3361378 original size:15 final size:15
Alignment explanation
Indices: 3361358--3361465 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
3361348 TTTATGGAAA
3361358 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* **
3361373 ATCAAATA-ATGGAA
1 ATCAAAGATATGGGT
3361387 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
3361403 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
*
3361417 AGTCAAAGATATGAGT
1 A-TCAAAGATATGGGT
* **
3361433 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
3361447 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
3361463 ATC
1 ATC
3361466 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:3361387 original size:30 final size:30
Alignment explanation
Indices: 3361351--3361465 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
3361341 ATCCATATTT
*
3361351 ATGGAAAATCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
3361381 ATGGAAAGTCAAAGATATGGGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
* *
3361411 TTGGAAAGTCAAAGATATGAGTATCAAATA
1 ATGGAAAGTCAAAGATATGGGTATCAAATA
*
3361441 TTGGAAAGTCAAAGATATGGGTATC
1 ATGGAAAGTCAAAGATATGGGTATC
3361466 GAGATATTGG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 81 1.00
ACGTcount: A:0.45, C:0.07, G:0.23, T:0.25
Consensus pattern (30 bp):
ATGGAAAGTCAAAGATATGGGTATCAAATA
Found at i:3362994 original size:31 final size:30
Alignment explanation
Indices: 3362951--3363029 Score: 113
Period size: 31 Copynumber: 2.6 Consensus size: 30
3362941 TGGACCCACT
*
3362951 ATTAACTTAATTTAATTATATTATATAACA
1 ATTAATTTAATTTAATTATATTATATAACA
* * *
3362981 TTTTAATTTAATTTAATCATATTATATAATA
1 -ATTAATTTAATTTAATTATATTATATAACA
3363012 ATTAATTTAATTTAATTA
1 ATTAATTTAATTTAATTA
3363030 CCATATTACA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 16 0.38
31 26 0.62
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (30 bp):
ATTAATTTAATTTAATTATATTATATAACA
Found at i:3363624 original size:28 final size:28
Alignment explanation
Indices: 3363589--3363646 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
3363579 TAATTGATAC
3363589 ATATTTAATAAAATAAGAGTTATATAAT
1 ATATTTAATAAAATAAGAGTTATATAAT
3363617 ATATTTAATAAAATAAGAGTTATATAAT
1 ATATTTAATAAAATAAGAGTTATATAAT
3363645 AT
1 AT
3363647 TCAAATAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (28 bp):
ATATTTAATAAAATAAGAGTTATATAAT
Found at i:3368709 original size:210 final size:210
Alignment explanation
Indices: 3368345--3369184 Score: 1247
Period size: 210 Copynumber: 4.0 Consensus size: 210
3368335 CAATCTATAA
*
3368345 TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGAGATCTCCATGAGTTTACCTGATCCA
1 TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGAGATCTCCACGAGTTTACCTGATCCA
* * *
3368410 GTTCCCTCAGC-GAATTTTGCCAGTGAGCAGATGTTGCAAATCTTAGGGAAATCTTCTGATCCTG
66 GTTTCCTCA-CAGAATTTTGCCAGTGAACAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTG
* *
3368474 ACAATTTATCCCAT-T-CTGGTTTATACATGAGTGATGAAATTCATAAAAATTCACAAGTGGTAT
130 ACAATTTA-CCC-TGTACTGATTTATACATGAGTGATGAAATTCATAAAAATTCACAAGTGGAAT
*
3368537 CTGTCATCAGTAATCCAT
193 CTGTCATCAGTGATCCAT
* * **
3368555 TTGAATCCTCTGCCTCATCCGATATCATTTTAAGTGATGAGATCTCCACGAGTTTACCTGATCCA
1 TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGAGATCTCCACGAGTTTACCTGATCCA
* * *
3368620 GTTTCCTCGCAGAATTTTGCCAGTGAACATATGTTGCAAATCTCAGGGAAATCTTCTGATACTGA
66 GTTTCCTCACAGAATTTTGCCAGTGAACAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTGA
* *
3368685 CAATTTACCCTGTACTGATTTATACATGAGTGATGAAATTCAAAAAAATTCTCAAGTGGAATCTG
131 CAATTTACCCTGTACTGATTTATACATGAGTGATGAAATTCATAAAAATTCACAAGTGGAATCTG
*
3368750 TCATCAATGATCCAT
196 TCATCAGTGATCCAT
* * *
3368765 TTGAATCCTCTGCCTCATCCAATATCATTGCAAGCAATGGGATCTCCACAAGTTTACCTGATCCA
1 TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGAGATCTCCACGAGTTTACCTGATCCA
* * * *
3368830 ATTTCCTCACAGAATTTTGCCAGTGAGCAGATGTTGCAAATCTCTGGGAAATCTTCTGATCCTGT
66 GTTTCCTCACAGAATTTTGCCAGTGAACAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTGA
*
3368895 CAATTTACCCTGTACTGATTTATACATGAGTGGTGAAATTCATAAAAATTCACAAGTGGAATCTG
131 CAATTTACCCTGTACTGATTTATACATGAGTGATGAAATTCATAAAAATTCACAAGTGGAATCTG
*
3368960 TCATTAGTGATCCAT
196 TCATCAGTGATCCAT
* * * *
3368975 TTGTATCCTCTGCCTCATCCAATATCATCTCTAA-CAATGGGATCTCCATGAGTTTACCTGATCC
1 TTGAATCCTCTGCCTCATCCAATATCATTTC-AAGCAATGAGATCTCCACGAGTTTACCTGATCC
* * * * *
3369039 AGTTTCCTCACAGAATTTTGCCGGTGAACATATGTTGCAAAACTCGGGGGAATCTTCTGATCCTG
65 AGTTTCCTCACAGAATTTTGCCAGTGAACAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTG
* * ** *
3369104 ACAATTTACCATGTACTGATTTATGCACAAGTGATGAAATTCATAAAATTTCACAAGTGGAATCT
130 ACAATTTACCCTGTACTGATTTATACATGAGTGATGAAATTCATAAAAATTCACAAGTGGAATCT
*
3369169 GTCATCAGTCATCCAT
195 GTCATCAGTGATCCAT
3369185 CATCATCCTC
Statistics
Matches: 569, Mismatches: 57, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
208 1 0.00
209 5 0.01
210 561 0.99
211 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (210 bp):
TTGAATCCTCTGCCTCATCCAATATCATTTCAAGCAATGAGATCTCCACGAGTTTACCTGATCCA
GTTTCCTCACAGAATTTTGCCAGTGAACAGATGTTGCAAATCTCAGGGAAATCTTCTGATCCTGA
CAATTTACCCTGTACTGATTTATACATGAGTGATGAAATTCATAAAAATTCACAAGTGGAATCTG
TCATCAGTGATCCAT
Found at i:3372188 original size:55 final size:55
Alignment explanation
Indices: 3372117--3372249 Score: 241
Period size: 55 Copynumber: 2.4 Consensus size: 55
3372107 CCAGTCTATA
*
3372117 ACATA-TTTTGTCCATTACTTTTCATTTGTTTCAATACACCCATCATTATCATTT
1 ACATATTTTTGTCCATTACTTTTCATTTGTTCCAATACACCCATCATTATCATTT
3372171 ACATATTTTTGTCCATTACTTTTCATTTGTTCCAATACACCCATCATTATCATTT
1 ACATATTTTTGTCCATTACTTTTCATTTGTTCCAATACACCCATCATTATCATTT
*
3372226 ACATTTTTTTGTCCATTACTTTTC
1 ACATATTTTTGTCCATTACTTTTC
3372250 TTGCAATTGT
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
54 5 0.07
55 71 0.93
ACGTcount: A:0.24, C:0.23, G:0.04, T:0.50
Consensus pattern (55 bp):
ACATATTTTTGTCCATTACTTTTCATTTGTTCCAATACACCCATCATTATCATTT
Found at i:3377859 original size:3 final size:3
Alignment explanation
Indices: 3377851--3377875 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3377841 TGGCAGTAAC
3377851 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
3377876 CATCTGCTGA
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:3378439 original size:17 final size:17
Alignment explanation
Indices: 3378417--3378450 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3378407 ATCCACTAAT
*
3378417 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
3378434 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
3378451 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:3383078 original size:17 final size:17
Alignment explanation
Indices: 3383056--3383089 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3383046 ATCCACTAAT
*
3383056 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
3383073 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
3383090 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:3385365 original size:3 final size:3
Alignment explanation
Indices: 3385359--3385384 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3385349 ACAACAAGAA
3385359 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
3385385 GAGTAATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:3385637 original size:17 final size:18
Alignment explanation
Indices: 3385611--3385648 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
3385601 TTTTAATTCA
*
3385611 TTTCATTCCA-AATTTAT
1 TTTCAATCCAGAATTTAT
*
3385628 TTTCAATCCAGAATTTCT
1 TTTCAATCCAGAATTTAT
3385646 TTT
1 TTT
3385649 AGGGTTCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.26, C:0.18, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCAATCCAGAATTTAT
Found at i:3389973 original size:48 final size:48
Alignment explanation
Indices: 3389902--3389996 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
3389892 CCCAACTGAG
*
3389902 CTGTTAAAGCAATGAATTAAAAAATGAATGTAGTTTCAAAGTTTCAAC
1 CTGTTAAAGCAATGAATTAAAAAATGAATGGAGTTTCAAAGTTTCAAC
3389950 CTGTTAAAGCAATGAATTAAAAAATGAATGGAGTTTCAAAGTTTCAA
1 CTGTTAAAGCAATGAATTAAAAAATGAATGGAGTTTCAAAGTTTCAA
3389997 ACTTCTCTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (48 bp):
CTGTTAAAGCAATGAATTAAAAAATGAATGGAGTTTCAAAGTTTCAAC
Found at i:3392560 original size:53 final size:53
Alignment explanation
Indices: 3392503--3392622 Score: 186
Period size: 53 Copynumber: 2.3 Consensus size: 53
3392493 TATCCCAGAC
* *
3392503 ATGGTCTTATACGGAATCACATTATCACATTATACCGATGCCATAGCCTAGCT
1 ATGGTCTTATACGGAATCACATTATCACATTACACCGATGCCATAGCCAAGCT
* * *
3392556 ATGGTCTTATACGGAGTCATATTATCACATTGCACCGATGCCATAGCCAAGCT
1 ATGGTCTTATACGGAATCACATTATCACATTACACCGATGCCATAGCCAAGCT
*
3392609 ATGGTCTTAAACGG
1 ATGGTCTTATACGG
3392623 GCACACTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (53 bp):
ATGGTCTTATACGGAATCACATTATCACATTACACCGATGCCATAGCCAAGCT
Found at i:3400070 original size:53 final size:53
Alignment explanation
Indices: 3400000--3400132 Score: 178
Period size: 53 Copynumber: 2.5 Consensus size: 53
3399990 CATACCGAAA
* *
3400000 CCATATCCCAGAC-ATGGTCTTATACGGAATCACATTATCACATTATACCGATG
1 CCATAGCCCA-ACTATGGTCTTATACGGAATCACATTATCACATTACACCGATG
* * * * *
3400053 CCATAGCCTAGCTATGGTCTTATACGGAGTCATATTATCACATTGCACCGATG
1 CCATAGCCCAACTATGGTCTTATACGGAATCACATTATCACATTACACCGATG
*
3400106 CCATAGCCCAACTATGGTCTTAAACGG
1 CCATAGCCCAACTATGGTCTTATACGG
3400133 GCACACTTAT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
52 1 0.01
53 68 0.99
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (53 bp):
CCATAGCCCAACTATGGTCTTATACGGAATCACATTATCACATTACACCGATG
Found at i:3405331 original size:12 final size:13
Alignment explanation
Indices: 3405309--3405337 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
3405299 TCTAAACCAA
3405309 ACATCTCATTTTC
1 ACATCTCATTTTC
3405322 ACAT-TCATTTTC
1 ACATCTCATTTTC
3405334 ACAT
1 ACAT
3405338 GATTCACCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (13 bp):
ACATCTCATTTTC
Found at i:3407460 original size:20 final size:22
Alignment explanation
Indices: 3407421--3407461 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3407411 TAATATTACA
*
3407421 TATATATATTTTATAGTTGTTT
1 TATATATATTATATAGTTGTTT
3407443 TATATATATTAT-TA-TTGTT
1 TATATATATTATATAGTTGTT
3407462 CCTAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TATATATATTATATAGTTGTTT
Found at i:3409339 original size:24 final size:24
Alignment explanation
Indices: 3409307--3409356 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
3409297 GTTTACAACC
3409307 CGATCACACCTTGTCAAAAAGGAT
1 CGATCACACCTTGTCAAAAAGGAT
3409331 CGATCACACCTTGTCAAAAAGGAT
1 CGATCACACCTTGTCAAAAAGGAT
3409355 CG
1 CG
3409357 GTGGCGACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (24 bp):
CGATCACACCTTGTCAAAAAGGAT
Found at i:3414733 original size:42 final size:42
Alignment explanation
Indices: 3414686--3414771 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
3414676 GGATACCATA
3414686 AGAGTTGCGTTAAAAGTTACCAACCTGCATGTAGCATTTCGG
1 AGAGTTGCGTTAAAAGTTACCAACCTGCATGTAGCATTTCGG
3414728 AGAGTTGCGTTAAAAGTTACCAACCTGCATGTAGCATTTCGG
1 AGAGTTGCGTTAAAAGTTACCAACCTGCATGTAGCATTTCGG
3414770 AG
1 AG
3414772 TTTTGATTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (42 bp):
AGAGTTGCGTTAAAAGTTACCAACCTGCATGTAGCATTTCGG
Found at i:3415328 original size:32 final size:32
Alignment explanation
Indices: 3415287--3415351 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
3415277 TGCAAAAAAG
3415287 ATCAAAACTAGGTATCAGAAAGCTGTAAAACA
1 ATCAAAACTAGGTATCAGAAAGCTGTAAAACA
3415319 ATCAAAACTAGGTATCAGAAAGCTGTAAAACA
1 ATCAAAACTAGGTATCAGAAAGCTGTAAAACA
3415351 A
1 A
3415352 AGATCATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.18
Consensus pattern (32 bp):
ATCAAAACTAGGTATCAGAAAGCTGTAAAACA
Found at i:3420933 original size:11 final size:11
Alignment explanation
Indices: 3420917--3420941 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3420907 AATTCATAGT
3420917 TAAATTAAAAA
1 TAAATTAAAAA
3420928 TAAATTAAAAA
1 TAAATTAAAAA
3420939 TAA
1 TAA
3420942 TATATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAATTAAAAA
Found at i:3426705 original size:19 final size:20
Alignment explanation
Indices: 3426656--3426705 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
3426646 ATATAAATTA
*
3426656 TTTTTGTAAAAAAATTACTT
1 TTTTTATAAAAAAATTACTT
*
3426676 TTGTTATTAAAAATAA-TA-TT
1 TTTTTA-TAAAAA-AATTACTT
3426696 TTTTTATAAA
1 TTTTTATAAA
3426706 CGAAAATACT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 8 0.32
22 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (20 bp):
TTTTTATAAAAAAATTACTT
Found at i:3428442 original size:12 final size:12
Alignment explanation
Indices: 3428425--3428454 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3428415 TTAAAACTTG
3428425 TTTTTTTTTAAA
1 TTTTTTTTTAAA
*
3428437 TTTTTTTTTAAC
1 TTTTTTTTTAAA
3428449 TTTTTT
1 TTTTTT
3428455 CTTTTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTTTTAAA
Found at i:3429897 original size:20 final size:20
Alignment explanation
Indices: 3429862--3429904 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
3429852 CCTAAAAGCT
*
3429862 AAACCTTGAACTCGAATC-C
1 AAACCTCGAACTCGAATCTC
3429881 AAACCTCGAATCTCGAATCTC
1 AAACCTCGAA-CTCGAATCTC
3429902 AAA
1 AAA
3429905 TCCTAAACCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 8 0.38
21 4 0.19
ACGTcount: A:0.40, C:0.30, G:0.09, T:0.21
Consensus pattern (20 bp):
AAACCTCGAACTCGAATCTC
Found at i:3429948 original size:7 final size:7
Alignment explanation
Indices: 3429936--3429973 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
3429926 ATCTAACTTG
3429936 AACCTTA
1 AACCTTA
3429943 AACCTTA
1 AACCTTA
3429950 AACCTTA
1 AACCTTA
*
3429957 AA-CTTG
1 AACCTTA
*
3429963 AACCTCA
1 AACCTTA
3429970 AACC
1 AACC
3429974 CTCAAGATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.42, C:0.32, G:0.03, T:0.24
Consensus pattern (7 bp):
AACCTTA
Found at i:3429955 original size:14 final size:14
Alignment explanation
Indices: 3429936--3429973 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
3429926 ATCTAACTTG
3429936 AACCTTAAACCTTA
1 AACCTTAAACCTTA
*
3429950 AACCTTAAA-CTTG
1 AACCTTAAACCTTA
*
3429963 AACCTCAAACC
1 AACCTTAAACC
3429974 CTCAAGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.42, C:0.32, G:0.03, T:0.24
Consensus pattern (14 bp):
AACCTTAAACCTTA
Found at i:3442849 original size:21 final size:23
Alignment explanation
Indices: 3442823--3442875 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
3442813 ATAAATAATG
*
3442823 TAAAAAT-TGACAAA-TATTTTA
1 TAAAAATATAACAAAGTATTTTA
*
3442844 TAAAAATATAATAAAGTATTTTA
1 TAAAAATATAACAAAGTATTTTA
3442867 -AAAAATATA
1 TAAAAATATA
3442876 CGATAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 7 0.25
22 14 0.50
23 7 0.25
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (23 bp):
TAAAAATATAACAAAGTATTTTA
Found at i:3442870 original size:22 final size:22
Alignment explanation
Indices: 3442834--3442891 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
3442824 AAAAATTGAC
3442834 AAATATTTTATAAAAATATA-AT
1 AAATATTTTA-AAAAATATACAT
3442856 AAAGTATTTTAAAAAATATACGAT
1 AAA-TATTTTAAAAAATATAC-AT
3442880 AAAT-TTTTAAAA
1 AAATATTTTAAAA
3442892 TTATTTATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
22 20 0.61
23 8 0.24
24 5 0.15
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (22 bp):
AAATATTTTAAAAAATATACAT
Found at i:3453847 original size:5 final size:5
Alignment explanation
Indices: 3453837--3453861 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3453827 AGAGAGATAA
3453837 AAGAG AAGAG AAGAG AAGAG AAGAG
1 AAGAG AAGAG AAGAG AAGAG AAGAG
3453862 GGGGGTTATC
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:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AAGAG
Found at i:3454462 original size:48 final size:48
Alignment explanation
Indices: 3454406--3454502 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
3454396 AAAATATGTT
3454406 TATTTTTTTCATAACAATGGGGCAGCTCAAGTTTTGGGTTTCTAATGG
1 TATTTTTTTCATAACAATGGGGCAGCTCAAGTTTTGGGTTTCTAATGG
3454454 TATTTTTTTCATAACAATGGGGCAGCTCAAGTTTTGGGTTTCTAATGG
1 TATTTTTTTCATAACAATGGGGCAGCTCAAGTTTTGGGTTTCTAATGG
3454502 T
1 T
3454503 TACTGTATTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (48 bp):
TATTTTTTTCATAACAATGGGGCAGCTCAAGTTTTGGGTTTCTAATGG
Found at i:3458743 original size:150 final size:146
Alignment explanation
Indices: 3458462--3458756 Score: 545
Period size: 150 Copynumber: 2.0 Consensus size: 146
3458452 AATAATATTT
3458462 CTTGTGGAACATCTTTCATGATCCTTGGAGAGAGTTCACTAGTAGATTTGGTTTGTTTCTCTTTT
1 CTTGTGGAACATCTTTCATGATCCTTGGAGAGAGTTCACTAGTAGATTTGGTTTGTTTCTCTTTT
3458527 TTTTTTAATGCTTGTGTTGGAGTAAAAGGAGGAGCAAAAACACCCAAAAACAAGAGTTAGGGGTG
66 TTTTTTAATGCTTGTGTTGGAGTAAAAGGAGGAGCAAAAACACCCAAAAACAAGAGTTAGGGGTG
*
3458592 GGGGGTGGTAAAATGG
131 GGGGATGGTAAAATGG
3458608 CTTGTGGAACATCTTTCATGATCCTTGGAGAGAGTTCACTAGTAGATTTGGTTTGTTTCTCTTTT
1 CTTGTGGAACATCTTTCATGATCCTTGGAGAGAGTTCACTAGTAGATTTGGTTTGTTTCTC----
3458673 TTTTTTTTTTAATGCTTGTGTTGGAGTAAAAGGAGGAGCAAAAACACCCAAAAACAAGAGTTAGG
62 TTTTTTTTTTAATGCTTGTGTTGGAGTAAAAGGAGGAGCAAAAACACCCAAAAACAAGAGTTAGG
3458738 GGTGGGGGATGGTAAAATG
127 GGTGGGGGATGGTAAAATG
3458757 TGAAAGGCCA
Statistics
Matches: 144, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
146 61 0.42
150 83 0.58
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (146 bp):
CTTGTGGAACATCTTTCATGATCCTTGGAGAGAGTTCACTAGTAGATTTGGTTTGTTTCTCTTTT
TTTTTTAATGCTTGTGTTGGAGTAAAAGGAGGAGCAAAAACACCCAAAAACAAGAGTTAGGGGTG
GGGGATGGTAAAATGG
Found at i:3463677 original size:17 final size:18
Alignment explanation
Indices: 3463651--3463685 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
3463641 CATGTTTTTA
*
3463651 TTTAATAATTTGATTAAT
1 TTTAATAATTAGATTAAT
3463669 TTTAA-AATTAGATTAAT
1 TTTAATAATTAGATTAAT
3463686 ATAATATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
TTTAATAATTAGATTAAT
Found at i:3464606 original size:27 final size:25
Alignment explanation
Indices: 3464567--3464643 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 25
3464557 ATTTTAAGTT
3464567 AATAATGATAAAATTACATTTTATCTAAA
1 AATAAT-A-AAAATTA-ATTTTAT-TAAA
3464596 AATAATAAAAATTTAA-TTTATTAAA
1 AATAATAAAAA-TTAATTTTATTAAA
3464621 AA-AAT-AAAATTATATTTTTATTA
1 AATAATAAAAATTA-A-TTTTATTA
3464644 TAATAAAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
22 3 0.07
23 5 0.11
24 3 0.07
25 13 0.30
26 5 0.11
27 5 0.11
28 4 0.09
29 6 0.14
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (25 bp):
AATAATAAAAATTAATTTTATTAAA
Found at i:3464663 original size:23 final size:23
Alignment explanation
Indices: 3464597--3464663 Score: 59
Period size: 25 Copynumber: 2.9 Consensus size: 23
3464587 TTATCTAAAA
3464597 ATAATAAAAAT-T-TAATTTATT
1 ATAATAAAAATATATAATTTATT
* * *
3464618 A-AAAAAATAAAATTATATTTTTATT
1 ATAATAAA-AATA-TATA-ATTTATT
3464643 ATAATAAAAATATATAATTTA
1 ATAATAAAAATATATAATTTA
3464664 ATTTCGATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
20 5 0.15
21 3 0.09
23 5 0.15
24 6 0.18
25 10 0.29
26 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATAATAAAAATATATAATTTATT
Found at i:3468876 original size:29 final size:30
Alignment explanation
Indices: 3468835--3468891 Score: 82
Period size: 28 Copynumber: 1.9 Consensus size: 30
3468825 AAATTTATTT
3468835 ATTTTAATTTTTTTAAAGT-TTTCATTTTCC
1 ATTTTAA-TTTTTTAAAGTCTTTCATTTTCC
*
3468865 ATTTTAA-TTTTTAAAGTCTTTTATTTT
1 ATTTTAATTTTTTAAAGTCTTTCATTTT
3468892 TCATATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 10 0.40
29 8 0.32
30 7 0.28
ACGTcount: A:0.25, C:0.07, G:0.04, T:0.65
Consensus pattern (30 bp):
ATTTTAATTTTTTAAAGTCTTTCATTTTCC
Found at i:3468902 original size:28 final size:28
Alignment explanation
Indices: 3468844--3468899 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
3468834 TATTTTAATT
*
3468844 TTTTTAAAGTTTTCATTTTCCATTTTAA
1 TTTTTAAAGTTTTCATTTTCCATATTAA
* *
3468872 TTTTTAAAGTCTTTTATTTTTCATATTA
1 TTTTTAAAGT-TTTCATTTTCCATATTA
3468900 TTTATTATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.25, C:0.09, G:0.04, T:0.62
Consensus pattern (28 bp):
TTTTTAAAGTTTTCATTTTCCATATTAA
Found at i:3474511 original size:18 final size:17
Alignment explanation
Indices: 3474464--3474519 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
3474454 ATTTTTATTT
3474464 GTTTATTAAAAAATAAAA
1 GTTT-TTAAAAAATAAAA
* *
3474482 ATAATTTTAAAAGATAAAA
1 GT--TTTTAAAAAATAAAA
3474501 GTTTTTAAAAAAATAAAA
1 GTTTTT-AAAAAATAAAA
3474519 G
1 G
3474520 AATAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 4 0.13
18 12 0.39
19 13 0.42
20 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (17 bp):
GTTTTTAAAAAATAAAA
Found at i:3483244 original size:14 final size:14
Alignment explanation
Indices: 3483210--3483254 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
3483200 ATCTGGAATG
* *
3483210 CTAGCTCGCCACACG
1 CTAGCTCACCAC-CT
3483225 CTAGCTCACCACCT
1 CTAGCTCACCACCT
3483239 CTAGCTCACCACCT
1 CTAGCTCACCACCT
3483253 CT
1 CT
3483255 GCTAGCTCGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.20, C:0.49, G:0.11, T:0.20
Consensus pattern (14 bp):
CTAGCTCACCACCT
Found at i:3483259 original size:17 final size:15
Alignment explanation
Indices: 3483208--3483262 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
3483198 AAATCTGGAA
*
3483208 TGCTAGCTCGCCACAC
1 TGCTAGCTCACCAC-C
3483224 -GCTAGCTCACCACC
1 TGCTAGCTCACCACC
3483238 T-CTAGCTCACCACCTC
1 TGCTAGCTCACCA-C-C
3483254 TGCTAGCTC
1 TGCTAGCTC
3483263 GGGGGATCGC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 12 0.35
15 13 0.38
16 2 0.06
17 7 0.21
ACGTcount: A:0.18, C:0.45, G:0.15, T:0.22
Consensus pattern (15 bp):
TGCTAGCTCACCACC
Found at i:3484280 original size:21 final size:22
Alignment explanation
Indices: 3484234--3484282 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
3484224 TTTCTTAATA
3484234 AATTTGAATAATATTGTACACT
1 AATTTGAATAATATTGTACACT
* * *
3484256 -ATTTTAATAATTTTGTATA-T
1 AATTTGAATAATATTGTACACT
3484276 AATTTGA
1 AATTTGA
3484283 CAACATTGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (22 bp):
AATTTGAATAATATTGTACACT
Found at i:3486832 original size:13 final size:13
Alignment explanation
Indices: 3486814--3486838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3486804 TTTCTTGCAT
3486814 ATATATAATATAA
1 ATATATAATATAA
3486827 ATATATAATATA
1 ATATATAATATA
3486839 TTAATGTGTA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATATAATATAA
Found at i:3499260 original size:15 final size:15
Alignment explanation
Indices: 3499237--3499290 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3499227 AATTCATTAG
* *
3499237 TTAAATTTTTAATAT
1 TTAATTTTTTAACAT
*
3499252 TTAATTTTTTAACAC
1 TTAATTTTTTAACAT
*
3499267 TT-ATTTTGTCAACAT
1 TTAATTTT-TTAACAT
3499282 TTAATTTTT
1 TTAATTTTT
3499291 ATCAAATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 5 0.16
15 22 0.69
16 5 0.16
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (15 bp):
TTAATTTTTTAACAT
Found at i:3508303 original size:11 final size:11
Alignment explanation
Indices: 3508238--3508317 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
3508228 CAAATATCTT
3508238 TAAAATAATAA
1 TAAAATAATAA
*
3508249 CAAAATTAATAA
1 TAAAA-TAATAA
*
3508261 TAAAATAAGAA
1 TAAAATAATAA
* *
3508272 TTATATAAT-A
1 TAAAATAATAA
3508282 TCCAAATAATAATAA
1 T---AA-AATAATAA
*
3508297 TAAAATAATAG
1 TAAAATAATAA
*
3508308 TAATATAATA
1 TAAAATAATA
3508318 GCAAAATGAC
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
10 2 0.04
11 31 0.58
12 12 0.23
13 1 0.02
14 5 0.09
15 2 0.04
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.30
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:3513267 original size:22 final size:23
Alignment explanation
Indices: 3513234--3513282 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
3513224 AAACATGGAT
* *
3513234 TGTA-AAATGTAAATTGTCTA-G
1 TGTATAAACGTAAATTGTCGATG
3513255 TGTATAAACGTAAATTGTCGATG
1 TGTATAAACGTAAATTGTCGATG
3513278 TGTAT
1 TGTAT
3513283 GAGCATGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 14 0.58
23 6 0.25
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (23 bp):
TGTATAAACGTAAATTGTCGATG
Found at i:3523576 original size:15 final size:15
Alignment explanation
Indices: 3523556--3523584 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3523546 GATAAAATTT
3523556 CTACTTTTTAATGGG
1 CTACTTTTTAATGGG
3523571 CTACTTTTTAATGG
1 CTACTTTTTAATGG
3523585 ACTATTCACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (15 bp):
CTACTTTTTAATGGG
Found at i:3528084 original size:19 final size:19
Alignment explanation
Indices: 3528046--3528084 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3528036 AATTTACCTC
*
3528046 ATATTTAAATCAACATTTA
1 ATATTTAAATCAACAATTA
* *
3528065 ATATTTAAATTAATAATTA
1 ATATTTAAATCAACAATTA
3528084 A
1 A
3528085 ATTAATGTAA
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:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATTTAAATCAACAATTA
Found at i:3529174 original size:25 final size:26
Alignment explanation
Indices: 3529140--3529188 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
3529130 TTGAGATTTA
*
3529140 TTAGTAAAAATAACATTTTTATTTTT
1 TTAGTAAAAATAACATTTTAATTTTT
*
3529166 TTAGT-AAAATAATATTTTAATTT
1 TTAGTAAAAATAACATTTTAATTT
3529189 CCTATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (26 bp):
TTAGTAAAAATAACATTTTAATTTTT
Found at i:3529240 original size:35 final size:34
Alignment explanation
Indices: 3529174--3529238 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
3529164 TTTTAGTAAA
*
3529174 ATAATATTTTAATTTCCTATTATTTTATTTTAGG
1 ATAATATTTTAATTTCCTAGTATTTTATTTTAGG
3529208 ATAATACTTTTAATTT-CTAGTATTTTATTTT
1 ATAATA-TTTTAATTTCCTAGTATTTTATTTT
3529239 TATTTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 20 0.69
35 9 0.31
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (34 bp):
ATAATATTTTAATTTCCTAGTATTTTATTTTAGG
Found at i:3531696 original size:24 final size:27
Alignment explanation
Indices: 3531642--3531697 Score: 82
Period size: 25 Copynumber: 2.2 Consensus size: 27
3531632 TCGAATGACC
3531642 AATATACAAGAAAACTTAAAATAAATG
1 AATATACAAGAAAACTTAAAATAAATG
*
3531669 AATATA-AA-AAAATTTAAAATAAAT-
1 AATATACAAGAAAACTTAAAATAAATG
3531693 AATAT
1 AATAT
3531698 TATATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 5 0.18
25 15 0.54
26 2 0.07
27 6 0.21
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.27
Consensus pattern (27 bp):
AATATACAAGAAAACTTAAAATAAATG
Found at i:3533929 original size:3 final size:3
Alignment explanation
Indices: 3533911--3533979 Score: 63
Period size: 3 Copynumber: 24.0 Consensus size: 3
3533901 CATTAAATTA
* * *
3533911 ATT ATT -TT AAT ATT ATT ATT ACT ATT A-T ATT A-C ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
3533956 ACT ACT ACT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
3533980 TCCTCATTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
2 5 0.09
3 50 0.91
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:3533974 original size:37 final size:38
Alignment explanation
Indices: 3533892--3533975 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 38
3533882 GTTATTTTAG
* *
3533892 TTATT-TTATCATTAAATTAATTATTTTAATATTATTA
1 TTATTATTATCATTAAATTAATTATTTTAATACTACTA
* * *
3533929 TTACTATTAT-ATTACATT-ATTATTATTACTACTACTA
1 TTATTATTATCATTAAATTAATTATT-TTAATACTACTA
3533966 TTATTATTAT
1 TTATTATTAT
3533976 TATTTCCTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
36 6 0.15
37 29 0.74
38 4 0.10
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (38 bp):
TTATTATTATCATTAAATTAATTATTTTAATACTACTA
Found at i:3535756 original size:51 final size:50
Alignment explanation
Indices: 3535682--3535841 Score: 230
Period size: 51 Copynumber: 3.2 Consensus size: 50
3535672 CTGATCACAT
*
3535682 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* * *
3535733 TTATCACTTGTCACTGATAAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
3535783 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
3535834 TTGTCACT
1 TTATCACT
3535842 GATCAGAAGT
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 45 0.46
51 53 0.54
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:3542483 original size:51 final size:50
Alignment explanation
Indices: 3542412--3542571 Score: 239
Period size: 51 Copynumber: 3.2 Consensus size: 50
3542402 CTGATCACAT
*
3542412 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
3542463 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
3542513 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
3542564 TTGTCACT
1 TTATCACT
3542572 GATCAGAAGT
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 46 0.46
51 54 0.54
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:3544981 original size:10 final size:10
Alignment explanation
Indices: 3544966--3544995 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
3544956 CAAAAAAATG
*
3544966 TTATTTTAAC
1 TTATTTTAAA
3544976 TTATTTTAAA
1 TTATTTTAAA
3544986 TTATTTTAAA
1 TTATTTTAAA
3544996 GTTTCGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (10 bp):
TTATTTTAAA
Found at i:3550010 original size:2 final size:2
Alignment explanation
Indices: 3550005--3550031 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3549995 CCCCCTCTTC
3550005 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3550032 ACTGCCTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3558425 original size:52 final size:54
Alignment explanation
Indices: 3558333--3558437 Score: 169
Period size: 54 Copynumber: 2.0 Consensus size: 54
3558323 ATATATTTTC
* * *
3558333 TAAAATTTATATAAAATATAAAAAGACAAAAAAATTAAAATTTAATATTATTTA
1 TAAAATTTATATAAAACATAAAAAGACAAAAAAATCAAAATTAAATATTATTTA
3558387 TAAAATTTATATAAAACAT-AAAAGACAAAAAAA-CAAAATTAAATATTATTT
1 TAAAATTTATATAAAACATAAAAAGACAAAAAAATCAAAATTAAATATTATTT
3558438 TCTATAAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
52 16 0.33
53 14 0.29
54 18 0.38
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (54 bp):
TAAAATTTATATAAAACATAAAAAGACAAAAAAATCAAAATTAAATATTATTTA
Found at i:3564214 original size:60 final size:60
Alignment explanation
Indices: 3564141--3564263 Score: 246
Period size: 60 Copynumber: 2.0 Consensus size: 60
3564131 GCTGCAATAT
3564141 CTTCTCTAGAAGAAACCTCGATGACCTCTTTAACTTTTCTCCCCAACGATCATCAACTAA
1 CTTCTCTAGAAGAAACCTCGATGACCTCTTTAACTTTTCTCCCCAACGATCATCAACTAA
3564201 CTTCTCTAGAAGAAACCTCGATGACCTCTTTAACTTTTCTCCCCAACGATCATCAACTAA
1 CTTCTCTAGAAGAAACCTCGATGACCTCTTTAACTTTTCTCCCCAACGATCATCAACTAA
3564261 CTT
1 CTT
3564264 ATCCAGGGCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (60 bp):
CTTCTCTAGAAGAAACCTCGATGACCTCTTTAACTTTTCTCCCCAACGATCATCAACTAA
Found at i:3567356 original size:3 final size:3
Alignment explanation
Indices: 3567348--3567377 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3567338 ATCTAAGATT
3567348 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3567378 AGTTAAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3571724 original size:8 final size:8
Alignment explanation
Indices: 3571706--3571738 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
3571696 CTTGTAAAGG
3571706 AAATAAAAA
1 AAAT-AAAA
3571715 AAATAAAA
1 AAATAAAA
3571723 AAAT-AAA
1 AAATAAAA
3571730 AAATAAAA
1 AAATAAAA
3571738 A
1 A
3571739 TCCAGGGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.30
8 12 0.52
9 4 0.17
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAATAAAA
Found at i:3572307 original size:6 final size:6
Alignment explanation
Indices: 3572293--3572338 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
3572283 GTGGTGGTGG
* * *
3572293 TGGTGA TGGTCA TGGTCA TGGTCA TGGTCA TGGTGA TGGCCA TGGT
1 TGGTCA TGGTCA TGGTCA TGGTCA TGGTCA TGGTCA TGGTCA TGGT
3572339 GATCATTGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.15, C:0.13, G:0.39, T:0.33
Consensus pattern (6 bp):
TGGTCA
Found at i:3572308 original size:12 final size:12
Alignment explanation
Indices: 3572287--3572341 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
3572277 ATGATGGTGG
* *
3572287 TGGTGGTGGTGA
1 TGGTGATGGTCA
*
3572299 TGGTCATGGTCA
1 TGGTGATGGTCA
*
3572311 TGGTCATGGTCA
1 TGGTGATGGTCA
*
3572323 TGGTGATGGCCA
1 TGGTGATGGTCA
3572335 TGGTGAT
1 TGGTGAT
3572342 CATTGGAAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.15, C:0.11, G:0.42, T:0.33
Consensus pattern (12 bp):
TGGTGATGGTCA
Found at i:3572308 original size:18 final size:18
Alignment explanation
Indices: 3572287--3572338 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
3572277 ATGATGGTGG
* *
3572287 TGGTGGTGGTGATGGTCA
1 TGGTGATGGTCATGGTCA
*
3572305 TGGTCATGGTCATGGTCA
1 TGGTGATGGTCATGGTCA
*
3572323 TGGTGATGGCCATGGT
1 TGGTGATGGTCATGGT
3572339 GATCATTGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.13, C:0.12, G:0.42, T:0.33
Consensus pattern (18 bp):
TGGTGATGGTCATGGTCA
Found at i:3580060 original size:16 final size:16
Alignment explanation
Indices: 3580036--3580066 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3580026 AATTTATTTT
*
3580036 TATATAAAATTAATAA
1 TATAAAAAATTAATAA
3580052 TATAAAAAATTAATA
1 TATAAAAAATTAATA
3580067 TAAACAAGCT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TATAAAAAATTAATAA
Found at i:3588040 original size:28 final size:28
Alignment explanation
Indices: 3587994--3588062 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
3587984 TATAATAATT
* **
3587994 ATAAATTTTTAAAATTATTTTATATAAAA
1 ATAAA-TTTTAAAAATATTAAATATAAAA
*
3588023 ATAAATTTTAAAAATATTAAATATATAA
1 ATAAATTTTAAAAATATTAAATATAAAA
*
3588051 A-AAATATTAAAA
1 ATAAATTTTAAAA
3588063 TAAATATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 10 0.29
28 20 0.57
29 5 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
ATAAATTTTAAAAATATTAAATATAAAA
Found at i:3589364 original size:30 final size:31
Alignment explanation
Indices: 3589330--3589398 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
3589320 TGGCCCAATA
* *
3589330 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATACTCAAAATTTGAAGGACTAATAGT
* *
3589360 GTAAATA-TGAAAATTTTAAGGACTAATAGT
1 GTAAATACTCAAAATTTGAAGGACTAATAGT
*
3589390 GCAAATACT
1 GTAAATACT
3589399 TTAAGGGTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 15 0.47
30 16 0.50
31 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.30
Consensus pattern (31 bp):
GTAAATACTCAAAATTTGAAGGACTAATAGT
Found at i:3591836 original size:22 final size:21
Alignment explanation
Indices: 3591811--3591865 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
3591801 CCATTCAAGA
**
3591811 TAAAATAATATATAAAACTCTT
1 TAAAATAATATAT-AAACAATT
3591833 TAAAAATAATATATAAACAATT
1 T-AAAATAATATATAAACAATT
3591855 TAAAAT-ATATA
1 TAAAATAATATA
3591866 ATGTGTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 5 0.17
21 5 0.17
22 8 0.27
23 12 0.40
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATAATATATAAACAATT
Found at i:3591866 original size:25 final size:24
Alignment explanation
Indices: 3591813--3592001 Score: 94
Period size: 25 Copynumber: 7.6 Consensus size: 24
3591803 ATTCAAGATA
* *
3591813 AAATAATATATAAAACTCTT-TAA-
1 AAATAATATATAAAAAT-TTAAAAT
3591836 AAATAATATATAAACAATTTAAAAT
1 AAATAATATATAAA-AATTTAAAAT
* * * *
3591861 ATATAATGTGTAAAAAAAAGTTTGAAAT
1 AAATAA--TAT-ATAAAAA-TTTAAAAT
* *
3591889 ACATAATATATAAAAATATTAAAGT
1 AAATAATATATAAAAAT-TTAAAAT
* *
3591914 AAATAATGTATAAAAATTTGAAAT
1 AAATAATATATAAAAATTTAAAAT
* **** *
3591938 GAGCGTTATATAAAAAGTTAAAAT
1 AAATAATATATAAAAATTTAAAAT
* * * *
3591962 AGATAATAACAAAAAAATGTAAAAT
1 AAATAAT-ATATAAAAATTTAAAAT
*
3591987 AAATAAATAAATAAA
1 AAAT-AATATATAAA
3592002 TAGAATGTTA
Statistics
Matches: 120, Mismatches: 36, Indels: 18
0.69 0.21 0.10
Matches are distributed among these distances:
23 16 0.13
24 27 0.22
25 52 0.43
26 5 0.04
27 4 0.03
28 16 0.13
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (24 bp):
AAATAATATATAAAAATTTAAAAT
Found at i:3592101 original size:15 final size:15
Alignment explanation
Indices: 3592077--3592122 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
3592067 ATATAAATAG
*
3592077 AAATAAAAATATAAT
1 AAATAGAAATATAAT
3592092 AAATAGAAATATAAT
1 AAATAGAAATATAAT
3592107 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
3592123 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:3592110 original size:23 final size:25
Alignment explanation
Indices: 3592052--3592113 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 25
3592042 AAATGATAAT
*
3592052 GAAA-ATAATATTAGTATATAAATA
1 GAAATATAATAATAGTATATAAATA
3592076 GAAATA-AA-AATA-TA-ATAAATA
1 GAAATATAATAATAGTATATAAATA
3592097 GAAATATAATAATAGTA
1 GAAATATAATAATAGTA
3592114 GAAATATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 13 0.39
22 4 0.12
23 7 0.21
24 8 0.24
25 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (25 bp):
GAAATATAATAATAGTATATAAATA
Found at i:3592125 original size:44 final size:44
Alignment explanation
Indices: 3592071--3592157 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
3592061 ATTAGTATAT
3592071 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
3592115 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
3592158 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:3592142 original size:15 final size:14
Alignment explanation
Indices: 3592069--3592155 Score: 61
Period size: 15 Copynumber: 6.0 Consensus size: 14
3592059 ATATTAGTAT
*
3592069 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
3592082 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
3592098 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
3592112 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
3592127 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
3592142 ATAAATAATAATAG
1 ATAAATAAAAATAG
3592156 TATTAGAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.05
14 20 0.33
15 34 0.57
16 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:3599978 original size:39 final size:39
Alignment explanation
Indices: 3599933--3600131 Score: 335
Period size: 39 Copynumber: 5.1 Consensus size: 39
3599923 AAGCAAGACA
3599933 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
*
3599972 CTGGAAATGTATCCAGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
3600011 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
** *
3600050 CTGGAAATGTATCCGGGCTAAAGTTCCGCAAGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
* * *
3600089 CTGGAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
3600128 CTGG
1 CTGG
3600132 TAATATAATT
Statistics
Matches: 151, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 151 1.00
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
Found at i:3602218 original size:33 final size:33
Alignment explanation
Indices: 3602180--3602245 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3602170 TTTCAAATAG
* *
3602180 TAAATATTTATTTTAGTCTTTTAAATTTTTTTA
1 TAAATATTTATTTTAATCTTTTAAAATTTTTTA
*
3602213 TAAATATTTATTTTAATTTTTTAAAATTTTTTA
1 TAAATATTTATTTTAATCTTTTAAAATTTTTTA
3602246 AATTATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (33 bp):
TAAATATTTATTTTAATCTTTTAAAATTTTTTA
Found at i:3605799 original size:23 final size:23
Alignment explanation
Indices: 3605769--3605827 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
3605759 TATTATTATC
3605769 AGTATAAAAGAAAGGTAAATTTG
1 AGTATAAAAGAAAGGTAAATTTG
3605792 AGTATAAAAGAAAGGTAAATTTG
1 AGTATAAAAGAAAGGTAAATTTG
*
3605815 AGCATAAAA-AAAG
1 AGTATAAAAGAAAG
3605828 ACTATTATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 4 0.11
23 31 0.89
ACGTcount: A:0.56, C:0.02, G:0.20, T:0.22
Consensus pattern (23 bp):
AGTATAAAAGAAAGGTAAATTTG
Found at i:3608001 original size:25 final size:24
Alignment explanation
Indices: 3607971--3608023 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
3607961 TAATTTTCAT
3607971 ATTATTTTATTATT-TAAATATAAAA
1 ATTATTTTATT-TTATAAA-ATAAAA
*
3607996 ATTATTTTATTTTATAAAATTAAA
1 ATTATTTTATTTTATAAAATAAAA
3608020 ATTA
1 ATTA
3608024 ATTATAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTATTTTATTTTATAAAATAAAA
Found at i:3612202 original size:15 final size:15
Alignment explanation
Indices: 3612182--3612211 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3612172 TTTATGGAAG
3612182 TTTGTACCTCTTAAA
1 TTTGTACCTCTTAAA
3612197 TTTGTACCTCTTAAA
1 TTTGTACCTCTTAAA
3612212 CTGGAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
TTTGTACCTCTTAAA
Found at i:3614628 original size:20 final size:20
Alignment explanation
Indices: 3614599--3614640 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3614589 TACGTATAGT
3614599 TAATAAGAAA-AAAACATGAA
1 TAATAAGAAATAAAACAT-AA
*
3614619 TAATATGAAATAAAACATAA
1 TAATAAGAAATAAAACATAA
3614639 TA
1 TA
3614641 TATTTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (20 bp):
TAATAAGAAATAAAACATAA
Found at i:3619184 original size:47 final size:47
Alignment explanation
Indices: 3619075--3619185 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
3619065 CTGGGATAAG
* *
3619075 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
3619122 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
3619169 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
3619186 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:3622090 original size:13 final size:14
Alignment explanation
Indices: 3622048--3622092 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
3622038 TAATAATGAT
3622048 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
3622063 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
3622076 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
3622089 TAAA
1 TAAA
3622093 AAATAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:3622171 original size:16 final size:19
Alignment explanation
Indices: 3622130--3622172 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
3622120 GAAACAGAGC
3622130 AAGGAAAGAAAGAAAGAAA
1 AAGGAAAGAAAGAAAGAAA
3622149 AAGGGAAAG-AA-AAAG-AA
1 AA-GGAAAGAAAGAAAGAAA
3622166 AAGGAAA
1 AAGGAAA
3622173 ATTTAGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.22
17 4 0.17
18 4 0.17
19 4 0.17
20 6 0.26
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (19 bp):
AAGGAAAGAAAGAAAGAAA
Found at i:3629212 original size:46 final size:46
Alignment explanation
Indices: 3629170--3629464 Score: 430
Period size: 46 Copynumber: 6.4 Consensus size: 46
3629160 ATGAAATATG
* *
3629170 TAAGACCATGGCTGAAAGATACCATGGCAACATGATATGAAATGTA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAA
* *
3629216 TAAGACCATGGTTGAAAGATACCATGACAACGTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAA
* **
3629262 TAAGACCATGGTTGAAAGATAACATGGCAACATGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAA
*
3629308 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGA-GAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGA-TATGAAATGAA
* ***
3629354 TAAGACCATGGTTGAAAGATACCATGGCAATATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAA
*** *
3629400 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATTAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAA
3629446 TAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGA
3629465 GAATAAAACC
Statistics
Matches: 229, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
46 228 1.00
47 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAA
Found at i:3629408 original size:138 final size:138
Alignment explanation
Indices: 3629160--3629639 Score: 498
Period size: 138 Copynumber: 3.3 Consensus size: 138
3629150 GCTTTCTGAA
* * * *
3629160 ATGAAATATGTAAGACCATGGCTGAAAGATACCATGGCAACATGA-TATGAAATGTATAAGACCA
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGA-GAAATGAATAAGACCA
* * *
3629224 TGGTTGAAAGATACCATGACAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATAACATGG
65 TGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGG
*
3629289 CAACATGAT
130 CAACATGAC
3629298 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCAT
** **
3629363 GGTTGAAAGATACCATGGCAATATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGC
3629428 AACATGAC
131 AACATGAC
** *
3629436 GGGAAAT-TAATAAGACCATGGTTGAAAGAGAATAAAACCATGGTTGAAAGATACCATGGCAACA
1 ATGAAATGT-GTAAGACCATGGTT------G------A--A--------AGATACCATGGCAACA
* * * *
3629500 TGACGGGAAATGAATAAGATCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAACAAGA
43 TGACGAGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGA
3629565 CCATGGTTGAAAGATACCATGGCAACATGAC
108 CCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
3629596 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
3629640 TCAAAGATAA
Statistics
Matches: 286, Mismatches: 30, Indels: 52
0.78 0.08 0.14
Matches are distributed among these distances:
137 1 0.00
138 157 0.55
139 1 0.00
144 1 0.00
146 1 0.00
148 1 0.00
150 1 0.00
152 1 0.00
154 1 0.00
159 1 0.00
160 120 0.42
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (138 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCAT
GGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGC
AACATGAC
Found at i:3629469 original size:22 final size:22
Alignment explanation
Indices: 3629444--3629486 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
3629434 ACGGGAAATT
*
3629444 AATAAGACCATGGTTGAAAGAG
1 AATAAAACCATGGTTGAAAGAG
3629466 AATAAAACCATGGTTGAAAGA
1 AATAAAACCATGGTTGAAAGA
3629487 TACCATGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.09, G:0.23, T:0.19
Consensus pattern (22 bp):
AATAAAACCATGGTTGAAAGAG
Found at i:3629489 original size:160 final size:160
Alignment explanation
Indices: 3629312--3629624 Score: 509
Period size: 160 Copynumber: 2.0 Consensus size: 160
3629302 AATGTGTAAG
3629312 ACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCATGGTTGAAAGATACC
* * * * *
3629377 ATGGCAATATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAA
66 ATGGCAACATGACAGGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAA
* *
3629442 TTAATAAGACCATGGTTGAAAGAGAATAAA
131 TGAATAAGACCATAGTTGAAAGAGAATAAA
* *
3629472 ACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGATCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCATGGTTGAAAGATACC
* * *
3629537 ATGGCAGCGTGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAA
66 ATGGCAACATGACAGGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAA
*
3629602 TGAGTAAGACCATAGTTGAAAGA
131 TGAATAAGACCATAGTTGAAAGA
3629625 CACTATGGCA
Statistics
Matches: 140, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
160 140 1.00
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (160 bp):
ACCATGGTTGAAAGATACCATGGCAACATGACGAGAAATGAATAAGACCATGGTTGAAAGATACC
ATGGCAACATGACAGGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAA
TGAATAAGACCATAGTTGAAAGAGAATAAA
Found at i:3629506 original size:68 final size:68
Alignment explanation
Indices: 3629397--3629532 Score: 245
Period size: 68 Copynumber: 2.0 Consensus size: 68
3629387 GACGGGAAAT
* *
3629397 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATTAATAAGACCATGGTTGAA
1 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAA
3629462 AGA
66 AGA
*
3629465 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGATCATGGTTGAA
1 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAA
3629530 AGA
66 AGA
3629533 TACCATGGCA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.19
Consensus pattern (68 bp):
GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAA
AGA
Found at i:3629532 original size:46 final size:46
Alignment explanation
Indices: 3629465--3629639 Score: 233
Period size: 46 Copynumber: 3.8 Consensus size: 46
3629455 GGTTGAAAGA
* *
3629465 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAAT
1 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAT
* * * *
3629511 GAATAAGATCATGGTTGAAAGATACCATGGCAGCGTGACATGAAAT
1 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAT
* *
3629557 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAT
* * * * *
3629603 GAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GAATAAGACCATGGTTGAAAGATACCATGGCAACATG
3629640 TCAAAGATAA
Statistics
Matches: 111, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 111 1.00
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (46 bp):
GAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAAT
Found at i:3629534 original size:206 final size:206
Alignment explanation
Indices: 3629259--3629639 Score: 575
Period size: 206 Copynumber: 1.8 Consensus size: 206
3629249 GATATGAAAT
* * * **
3629259 GAATAAGACCATGGTTGAAAGATAACATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAA
1 GAATAAAACCATGGTTGAAAGATAACATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAA
* *
3629324 AGATACCATGGCAACATGACGA-GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAATATG
66 AGATACCATGGCAACATGAC-ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATG
* * * *
3629388 ACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATTAATAAGACC
130 ACAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGGGAAATTAATAAGACC
3629453 ATGGTTGAAAGA
195 ATGGTTGAAAGA
* * *
3629465 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGATCATGGTTGAA
1 GAATAAAACCATGGTTGAAAGATAACATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAA
* *
3629530 AGATACCATGGCAGCGTGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGA
66 AGATACCATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGA
* * *
3629595 CAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
131 CAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATG
3629640 TCAAAGATAA
Statistics
Matches: 155, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
205 1 0.01
206 154 0.99
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.19
Consensus pattern (206 bp):
GAATAAAACCATGGTTGAAAGATAACATGGCAACATGACAGGAAATGAATAAGACCATGGTTGAA
AGATACCATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGA
CAGAAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGGGAAATTAATAAGACCA
TGGTTGAAAGA
Found at i:3629556 original size:114 final size:114
Alignment explanation
Indices: 3629351--3629578 Score: 375
Period size: 114 Copynumber: 2.0 Consensus size: 114
3629341 GACGAGAAAT
* *
3629351 GAATAAGACCATGGTTGAAAGATACCATGGCAATATGACGGGAAATGAATAAGACCATGGTTGAA
1 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAA
* * *
3629416 AGATACCATGGCAACATGACGGGAAATTAATAAGACCATGGTTGAAAGA
66 AGATACCATGGCAACATGACAGGAAATGAACAAGACCATGGTTGAAAGA
*
3629465 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGATCATGGTTGAA
1 GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAA
* * *
3629530 AGATACCATGGCAGCGTGACATGAAATGAACAAGACCATGGTTGAAAGA
66 AGATACCATGGCAACATGACAGGAAATGAACAAGACCATGGTTGAAAGA
3629579 TACCATGGCA
Statistics
Matches: 105, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 105 1.00
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (114 bp):
GAATAAAACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAA
AGATACCATGGCAACATGACAGGAAATGAACAAGACCATGGTTGAAAGA
Found at i:3633199 original size:13 final size:13
Alignment explanation
Indices: 3633152--3633193 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
3633142 TAAAGTAATT
* *
3633152 AAATAAAACAAATA
1 AAATAAAAGAAA-G
3633166 AAATAAAAGAAAG
1 AAATAAAAGAAAG
3633179 AAATAAAAGAAAG
1 AAATAAAAGAAAG
3633192 AA
1 AA
3633194 TGAAAACGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.10
Consensus pattern (13 bp):
AAATAAAAGAAAG
Found at i:3636404 original size:2 final size:2
Alignment explanation
Indices: 3636397--3636428 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3636387 ATTTTGTTTC
3636397 AT AT AT 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
3636429 CTTTTTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3636941 original size:131 final size:131
Alignment explanation
Indices: 3636764--3637129 Score: 432
Period size: 131 Copynumber: 2.8 Consensus size: 131
3636754 TTATTCATTC
* * *
3636764 AAAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACAAGATTCGAT-ATTAGCAATTCGCGGAATCGTGCCCTAACGTG
*
3636829 TTGGGTTGCAATTTTGCGTTTGCTCAAAATAATCGAATAGCACTTCAAAATTTCACTCACGTCTT
65 TTGGGTTGCAATTTTGCGTTTGCTCAAAATAATCGAATAGCACTTCAAAATTTCACTCACATCTT
3636894 -T
130 CT
*
3636895 TAAAATTCTTCAAAACGAAGACAAGATTCGATACTTAGCAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTCAAAACGAAGACAAGATTCGATA-TTAGCAATTCGCGGAATCGTGCCCTAACGTG
* * * * * * *
3636960 TTGGGTTGCAATTTCGCGTTTGCTCAAAGTAATCGAGTATCCCTTCAAAATTTCATTCATATCTT
65 TTGGGTTGCAATTTTGCGTTTGCTCAAAATAATCGAATAGCACTTCAAAATTTCACTCACATCTT
3637025 CT
130 CT
* * * * ** * * * *
3637027 AAAAATTATTTAAAACGAAGGCAACATTCGGCATTTGACAATTCG-AGAATCATGCCCTATCGTG
1 AAAAATTCTTCAAAACGAAGACAAGATTCGATATTAG-CAATTCGCGGAATCGTGCCCTAACGTG
* ** * *
3637091 CTGGGTTGTGATTTCT-CGTTTGTTCAAAACAATCGAATA
65 TTGGGTTGCAATTT-TGCGTTTGCTCAAAATAATCGAATA
3637130 TTCTTTTATA
Statistics
Matches: 200, Mismatches: 31, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
131 166 0.83
132 34 0.17
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (131 bp):
AAAAATTCTTCAAAACGAAGACAAGATTCGATATTAGCAATTCGCGGAATCGTGCCCTAACGTGT
TGGGTTGCAATTTTGCGTTTGCTCAAAATAATCGAATAGCACTTCAAAATTTCACTCACATCTTC
T
Found at i:3639627 original size:46 final size:46
Alignment explanation
Indices: 3639565--3640037 Score: 678
Period size: 46 Copynumber: 10.2 Consensus size: 46
3639555 TTTCTGTCAT
* ** * *
3639565 GTTGCCATAGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* * *
3639611 GTTGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCATTTTC-TATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA--CA--CA-TTTCATATCAC
* *
3639661 GTTGCCATAGTATCTTTCAACCATGGTTTTACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* *
3639707 GTTGCCATGGTATCTTTCAACCATGGTCTTGCGCATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* *
3639753 ATTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* ** *
3639799 GTTGCGATGGTATCTTTCAACCATGGTCTTAGGCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* *
3639845 GTTGCCATGCTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
*
3639891 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
*
3639937 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
* *
3639983 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
3640029 GTTGCCATG
1 GTTGCCATG
3640038 CTAGATGAAT
Statistics
Matches: 392, Mismatches: 29, Indels: 12
0.91 0.07 0.03
Matches are distributed among these distances:
45 4 0.01
46 348 0.89
48 2 0.01
50 34 0.09
51 4 0.01
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
Found at i:3641156 original size:16 final size:17
Alignment explanation
Indices: 3641137--3641175 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
3641127 AATTTTTCCC
*
3641137 TTTTTTCTT-CTTTCTT
1 TTTTTTCTTCCTTCCTT
3641153 TTTTTT-TTCCTTCCTT
1 TTTTTTCTTCCTTCCTT
3641169 TTTTTTC
1 TTTTTTC
3641176 CCTGCTCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTCTTCCTTCCTT
Found at i:3641174 original size:15 final size:15
Alignment explanation
Indices: 3641135--3641174 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
3641125 CCAATTTTTC
* *
3641135 CCTTTTTTCTTCTTT
1 CCTTTTTTTTTCCTT
*
3641150 CTTTTTTTTTTCCTT
1 CCTTTTTTTTTCCTT
3641165 CCTTTTTTTT
1 CCTTTTTTTT
3641175 CCCTGCTCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (15 bp):
CCTTTTTTTTTCCTT
Found at i:3641229 original size:18 final size:19
Alignment explanation
Indices: 3641199--3641246 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
3641189 TCGTTTCATC
3641199 CCTTCTTTC-TTTTTCTATT
1 CCTT-TTTCTTTTTTCTATT
*
3641218 -CTTTTTCTTTTTTTTATT
1 CCTTTTTCTTTTTTCTATT
*
3641236 CCTTTTACTTT
1 CCTTTTTCTTT
3641247 ATATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 4 0.16
18 12 0.48
19 9 0.36
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (19 bp):
CCTTTTTCTTTTTTCTATT
Found at i:3642290 original size:20 final size:20
Alignment explanation
Indices: 3642260--3642311 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
3642250 CCCATGGTCT
*
3642260 AGCCCCACGGGCATGTTCCA
1 AGCCACACGGGCATGTTCCA
*
3642280 GGCCACACGGGCATGTTCCA
1 AGCCACACGGGCATGTTCCA
*
3642300 AGCCATACGGGC
1 AGCCACACGGGC
3642312 GTGTGCCTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.21, C:0.37, G:0.29, T:0.13
Consensus pattern (20 bp):
AGCCACACGGGCATGTTCCA
Found at i:3643499 original size:19 final size:19
Alignment explanation
Indices: 3643477--3643537 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
3643467 AATGTACACT
3643477 TAAAATCATATAGCGATCA
1 TAAAATCATATAGCGATCA
* *
3643496 TAAATATTCAAAGTA-C-A-CT
1 TAAA-A-TCATA-TAGCGATCA
3643515 TAAAATCATATAGCGATCA
1 TAAAATCATATAGCGATCA
3643534 TAAA
1 TAAA
3643538 TATTCAATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
16 2 0.06
17 5 0.16
18 2 0.06
19 14 0.44
20 2 0.06
21 5 0.16
22 2 0.06
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.28
Consensus pattern (19 bp):
TAAAATCATATAGCGATCA
Found at i:3643521 original size:38 final size:38
Alignment explanation
Indices: 3643470--3643544 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
3643460 ATAGCATAAT
3643470 GTACACTTAAAATCATATAGCGATCATAAATATTCAAA
1 GTACACTTAAAATCATATAGCGATCATAAATATTCAAA
3643508 GTACACTTAAAATCATATAGCGATCATAAATATTCAA
1 GTACACTTAAAATCATATAGCGATCATAAATATTCAA
3643545 TCATTCATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (38 bp):
GTACACTTAAAATCATATAGCGATCATAAATATTCAAA
Found at i:3643851 original size:18 final size:18
Alignment explanation
Indices: 3643830--3643893 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
3643820 TAGCAATCGG
*
3643830 TTATTCAGTAACGGTCAA
1 TTATTCAGTAACAGTCAA
* *
3643848 TTATTCAGTAGCAGTCAG
1 TTATTCAGTAACAGTCAA
*
3643866 TCT-TTCAGTAATAGTCAA
1 T-TATTCAGTAACAGTCAA
3643884 TTATTCAGTA
1 TTATTCAGTA
3643894 CATTTATTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
17 1 0.03
18 36 0.95
19 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:3643891 original size:36 final size:36
Alignment explanation
Indices: 3643810--3643893 Score: 107
Period size: 36 Copynumber: 2.3 Consensus size: 36
3643800 AATAATAATT
* * *
3643810 AATTATTCAATAGCAATCGGTTATTCAGTAACGGTC
1 AATTATTCAGTAGCAATCAGTTATTCAGTAACAGTC
* *
3643846 AATTATTCAGTAGCAGTCAGTCT-TTCAGTAATAGTC
1 AATTATTCAGTAGCAATCAGT-TATTCAGTAACAGTC
3643882 AATTATTCAGTA
1 AATTATTCAGTA
3643894 CATTTATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
36 41 0.98
37 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (36 bp):
AATTATTCAGTAGCAATCAGTTATTCAGTAACAGTC
Found at i:3644320 original size:19 final size:19
Alignment explanation
Indices: 3644272--3644323 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
3644262 CATTCAGTAC
*
3644272 ATATTTCAGCTAATCATAT
1 ATATTTCAGTTAATCATAT
3644291 ATATTTTCAGTTCAAT-ATAT
1 ATA-TTTCAGTT-AATCATAT
3644311 ATATTTCAGTTAA
1 ATATTTCAGTTAA
3644324 CTTTACATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.07
19 11 0.37
20 14 0.47
21 3 0.10
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.46
Consensus pattern (19 bp):
ATATTTCAGTTAATCATAT
Found at i:3644813 original size:19 final size:18
Alignment explanation
Indices: 3644773--3644822 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 18
3644763 TAATATTAAT
3644773 TTAATAATAAA--AATCA
1 TTAATAATAAATTAATCA
3644789 -TAATAATAAATTAATCAA
1 TTAATAATAAATTAATC-A
*
3644807 TTAATAATAATTTAAT
1 TTAATAATAAATTAAT
3644823 ATATTTTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.34
17 4 0.14
18 1 0.03
19 14 0.48
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAATAATAAATTAATCA
Found at i:3649510 original size:6 final size:6
Alignment explanation
Indices: 3649475--3649513 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
3649465 TGGTCTCTTT
* * *
3649475 GCAATG CCAATT GCAATT GCAATG GCAATG GCAATG GCA
1 GCAATG GCAATG GCAATG GCAATG GCAATG GCAATG GCA
3649514 CCACCATGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.21
Consensus pattern (6 bp):
GCAATG
Found at i:3649932 original size:4 final size:4
Alignment explanation
Indices: 3649923--3649974 Score: 95
Period size: 4 Copynumber: 13.0 Consensus size: 4
3649913 ACCATATACA
*
3649923 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3649971 ATGT
1 ATGT
3649975 TTTTTCTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:3650755 original size:20 final size:19
Alignment explanation
Indices: 3650712--3650765 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
3650702 AAAATGACAG
*
3650712 AAAATTATATT-TTGAAAAT
1 AAAATAATATTATT-AAAAT
3650731 AAAAT-ATATGTATTAAAATT
1 AAAATAATAT-TATTAAAA-T
3650751 AAAATAATATTATTA
1 AAAATAATATTATTA
3650766 TATAAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.13
19 10 0.32
20 13 0.42
21 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (19 bp):
AAAATAATATTATTAAAAT
Found at i:3656382 original size:17 final size:17
Alignment explanation
Indices: 3656341--3656383 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
3656331 TATTGGGTGT
* *
3656341 GAGTTTTTCTTAAACAA
1 GAGTTATTCCTAAACAA
* *
3656358 TAGATATTCCTAAACAA
1 GAGTTATTCCTAAACAA
3656375 GAGTTATTC
1 GAGTTATTC
3656384 TAACATGTTC
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (17 bp):
GAGTTATTCCTAAACAA
Found at i:3657274 original size:16 final size:16
Alignment explanation
Indices: 3657249--3657282 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3657239 GCACTTTTTA
*
3657249 AATAATAATTGTTCTC
1 AATAAAAATTGTTCTC
*
3657265 AATAAAAATTTTTCTC
1 AATAAAAATTGTTCTC
3657281 AA
1 AA
3657283 ATAATAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (16 bp):
AATAAAAATTGTTCTC
Found at i:3658069 original size:15 final size:15
Alignment explanation
Indices: 3658038--3658066 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3658028 AACCCAACGA
3658038 ATATATATACATATT
1 ATATATATACATATT
3658053 ATATATATA-ATATT
1 ATATATATACATATT
3658067 TATTCTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATATACATATT
Found at i:3660345 original size:15 final size:15
Alignment explanation
Indices: 3660316--3660357 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
3660306 CATTTTTTGG
*
3660316 AAATTTT-ATAATAT
1 AAATTTTAAAAATAT
*
3660330 ATATTTTAAAAATAT
1 AAATTTTAAAAATAT
*
3660345 AAATTTTGAAAAT
1 AAATTTTAAAAAT
3660358 TGTATAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
AAATTTTAAAAATAT
Done.