Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 293 of 313
Found at i:90021001 original size:23 final size:24
Alignment explanation
Indices: 90020974--90021021 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
90020964 ATTGGGATAA
90020974 AAATGGTTTTG-AAAAAATAAATG
1 AAATGGTTTTGAAAAAAATAAATG
90020997 AAATGGTTTTGAAAAAAATAAATG
1 AAATGGTTTTGAAAAAAATAAATG
90021021 A
1 A
90021022 TCGACTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (24 bp):
AAATGGTTTTGAAAAAAATAAATG
Found at i:90024474 original size:24 final size:22
Alignment explanation
Indices: 90024435--90024490 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
90024425 CGGGTTGATG
* * *
90024435 ACACGGGTGTGTCATATCAACC
1 ACACGGGCGTGTCACATAAACC
* *
90024457 ACATGGGCGTGTCACATAAGCC
1 ACACGGGCGTGTCACATAAACC
90024479 ACACGGGCGTGT
1 ACACGGGCGTGT
90024491 GATACTATTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.20
Consensus pattern (22 bp):
ACACGGGCGTGTCACATAAACC
Found at i:90031283 original size:29 final size:29
Alignment explanation
Indices: 90031239--90031298 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
90031229 GGTTAGGTAC
90031239 AAAGTAACTAGCGTCTCAGCATCCGAGCT
1 AAAGTAACTAGCGTCTCAGCATCCGAGCT
*
90031268 AAAGTAACTAGTGTCTCAGCATCCGAGCT
1 AAAGTAACTAGCGTCTCAGCATCCGAGCT
90031297 AA
1 AA
90031299 CTCCCGAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (29 bp):
AAAGTAACTAGCGTCTCAGCATCCGAGCT
Found at i:90032166 original size:19 final size:19
Alignment explanation
Indices: 90032139--90032178 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
90032129 CAAATCTCAA
*
90032139 ATTACAAAAA-AAAATTATT
1 ATTAAAAAAATAAAATT-TT
90032158 ATTAAAAAAATAAAATTTT
1 ATTAAAAAAATAAAATTTT
90032177 AT
1 AT
90032179 GTATCGAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTAAAAAAATAAAATTTT
Found at i:90032315 original size:18 final size:18
Alignment explanation
Indices: 90032273--90032313 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
90032263 AATAGATGCA
*
90032273 ATAATATGAGCAAAAATT
1 ATAAAATGAGCAAAAATT
*
90032291 ATAAAATGAGCAAAGA-T
1 ATAAAATGAGCAAAAATT
90032308 ATAAAA
1 ATAAAA
90032314 ATAAGATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.61, C:0.05, G:0.12, T:0.22
Consensus pattern (18 bp):
ATAAAATGAGCAAAAATT
Found at i:90032572 original size:14 final size:14
Alignment explanation
Indices: 90032553--90032636 Score: 57
Period size: 14 Copynumber: 5.9 Consensus size: 14
90032543 TAACGATACT
90032553 AATAGATAAATATA
1 AATAGATAAATATA
*
90032567 AATAG--AGATAT-
1 AATAGATAAATATA
*
90032578 AATACATAAAATATAA
1 AATAGAT-AAATAT-A
* *
90032594 TAATAACAAAAATATA
1 -AAT-AGATAAATATA
90032610 AATAGATAAATAATA
1 AATAGATAAAT-ATA
*
90032625 ATTAGATAAATA
1 AATAGATAAATA
90032637 ATAATAGTAC
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
11 4 0.07
12 5 0.09
14 17 0.31
15 16 0.29
16 1 0.02
17 9 0.16
18 3 0.05
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.27
Consensus pattern (14 bp):
AATAGATAAATATA
Found at i:90032596 original size:17 final size:17
Alignment explanation
Indices: 90032576--90032610 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
90032566 AAATAGAGAT
90032576 ATAAT-ACATAAAATATA
1 ATAATAACA-AAAATATA
90032593 ATAATAACAAAAATATA
1 ATAATAACAAAAATATA
90032610 A
1 A
90032611 ATAGATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAATAACAAAAATATA
Found at i:90032609 original size:43 final size:41
Alignment explanation
Indices: 90032560--90032640 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 41
90032550 ACTAATAGAT
*
90032560 AAATATAAATAGAGATATAATACATAAAATATAATAATAACAA
1 AAATATAAATAGAGAAATAATA-ATAAAATA-AATAATAACAA
* * *
90032603 AAATATAAATAGATAAATAATAATTAGATAAATAATAA
1 AAATATAAATAGAGAAATAATAATAAAATAAATAATAA
90032641 TAGTACTAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 8 0.24
42 6 0.18
43 20 0.59
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (41 bp):
AAATATAAATAGAGAAATAATAATAAAATAAATAATAACAA
Found at i:90032625 original size:15 final size:15
Alignment explanation
Indices: 90032553--90032640 Score: 69
Period size: 15 Copynumber: 6.1 Consensus size: 15
90032543 TAACGATACT
90032553 AATAGATAAAT-ATA
1 AATAGATAAATAATA
* *
90032567 AATAGAGATATAATA
1 AATAGATAAATAATA
*
90032582 CATA-A-AATATAAT-
1 AATAGATAA-ATAATA
* *
90032595 AATA-ACAAAAATATA
1 AATAGATAAATA-ATA
90032610 AATAGATAAATAATA
1 AATAGATAAATAATA
*
90032625 ATTAGATAAATAATA
1 AATAGATAAATAATA
90032640 A
1 A
90032641 TAGTACTAGA
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
13 7 0.12
14 19 0.32
15 28 0.47
16 5 0.08
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (15 bp):
AATAGATAAATAATA
Found at i:90032712 original size:3 final size:3
Alignment explanation
Indices: 90032677--90032701 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
90032667 AGATGGAAAT
90032677 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
90032702 GACTATAATA
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:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:90033901 original size:22 final size:22
Alignment explanation
Indices: 90033871--90033913 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
90033861 TGGGCTGCCT
*
90033871 GTTTTGGGTTTAATTTAGTTGG
1 GTTTGGGGTTTAATTTAGTTGG
* *
90033893 GTTTGGGGTTTAGTTTGGTTG
1 GTTTGGGGTTTAATTTAGTTG
90033914 CTTGGTTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.09, C:0.00, G:0.37, T:0.53
Consensus pattern (22 bp):
GTTTGGGGTTTAATTTAGTTGG
Found at i:90034659 original size:30 final size:30
Alignment explanation
Indices: 90034625--90034732 Score: 94
Period size: 30 Copynumber: 3.6 Consensus size: 30
90034615 AGCTTACTCC
* *
90034625 TAGCTCATTTTCAACTCACGAGCTAAACCT
1 TAGCTCATTTTCAGCTCAAGAGCTAAACCT
** * * * *
90034655 TAGCTCAACTTCAGCTTAGGAGTTTAACCT
1 TAGCTCATTTTCAGCTCAAGAGCTAAACCT
* * *
90034685 TAGCTCAACTTT-AGCTCAAGGGCTAAAGCT
1 TAGCTC-ATTTTCAGCTCAAGAGCTAAACCT
90034715 TAGCTCATTTT-AGCTCAA
1 TAGCTCATTTTCAGCTCAA
90034733 ACCCAATTTT
Statistics
Matches: 61, Mismatches: 16, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
29 11 0.18
30 47 0.77
31 3 0.05
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (30 bp):
TAGCTCATTTTCAGCTCAAGAGCTAAACCT
Found at i:90036408 original size:13 final size:12
Alignment explanation
Indices: 90036375--90036405 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
90036365 AAAAAAATTT
*
90036375 AAAAAAATCCGA
1 AAAAAAATTCGA
90036387 AAAAAAATTCGA
1 AAAAAAATTCGA
90036399 AAAAAAA
1 AAAAAAA
90036406 ATTGAAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (12 bp):
AAAAAAATTCGA
Found at i:90037353 original size:6 final size:5
Alignment explanation
Indices: 90037329--90037385 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
90037319 ACGAGAAAAC
*
90037329 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
90037376 AAAGA AAAGA
1 AAAGA AAAGA
90037386 GAGGAAAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:90037360 original size:15 final size:14
Alignment explanation
Indices: 90037329--90037395 Score: 62
Period size: 16 Copynumber: 4.3 Consensus size: 14
90037319 ACGAGAAAAC
90037329 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
90037345 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
90037360 AAAGAAAACGAAATAA
1 AAAGAAAA-G-AAGAA
90037376 AAAGAAAAGAGAGGAA
1 AAAGAAAAGA-A-GAA
90037392 AAAG
1 AAAG
90037396 GTAAGTAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
14 5 0.11
15 12 0.27
16 22 0.50
17 5 0.11
ACGTcount: A:0.75, C:0.03, G:0.21, T:0.01
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:90037464 original size:13 final size:12
Alignment explanation
Indices: 90037433--90037464 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
90037423 TTGAGAGAAC
90037433 TTGAAAAAGCCT
1 TTGAAAAAGCCT
90037445 TTGAAAAAGCCT
1 TTGAAAAAGCCT
90037457 TTGAAAAA
1 TTGAAAAA
90037465 CAAAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:90037497 original size:18 final size:18
Alignment explanation
Indices: 90037457--90037500 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
90037447 GAAAAAGCCT
90037457 TTGAAAAACAAAAAGAAA
1 TTGAAAAACAAAAAGAAA
* * * *
90037475 ATGAAAAATAAAATGAGA
1 TTGAAAAACAAAAAGAAA
90037493 TTGAAAAA
1 TTGAAAAA
90037501 GAGAATGAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.68, C:0.02, G:0.14, T:0.16
Consensus pattern (18 bp):
TTGAAAAACAAAAAGAAA
Found at i:90037562 original size:18 final size:19
Alignment explanation
Indices: 90037526--90037564 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
90037516 TTTGAGAGAG
*
90037526 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
90037545 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
90037563 AA
1 AA
90037565 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:90039731 original size:30 final size:31
Alignment explanation
Indices: 90039657--90039743 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 31
90039647 CAACTCACGT
* *
90039657 GCTAAACCTTAGCTCAACTTCAGCT-TAGGA
1 GCTAAACCTTAGCTCAACTTTAGCTCAAGGA
* * *
90039687 GTTTAACCTCAGCTCAACTTTAGCTCAAGG-
1 GCTAAACCTTAGCTCAACTTTAGCTCAAGGA
* *
90039717 GCTAAAGCTTAGCTC-ATTTTAGCTCAA
1 GCTAAACCTTAGCTCAACTTTAGCTCAA
90039744 ACCCCATTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 11 0.24
30 32 0.70
31 3 0.07
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
GCTAAACCTTAGCTCAACTTTAGCTCAAGGA
Found at i:90041442 original size:45 final size:45
Alignment explanation
Indices: 90041155--90042028 Score: 340
Period size: 45 Copynumber: 19.5 Consensus size: 45
90041145 TATCATTTAG
* * * * *
90041155 TCTGTTCCACTGCAACTTCATGGAGATAGGATTTG-TAACTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAA
* * * * * * * **
90041199 CCCGCTCTACTGCTACTTCAGAGAGATAAGGTTTGCTATCTTTGA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAA
* * * * * * *
90041244 TCTACTACGCTGCAACTTTAGGGAAATAAGACTAG-TGA-CTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCT-ATCTTCAA
* * * * *
90041288 CCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTG-T-T-TT-GA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAA
* * * * **
90041329 TCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTATTTTATAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGA--T-T-TGCTAT--CTTCAA
* * * *
90041380 TCTGTTCCACTGTAACTTCAGGAAAATAAGATTTGCTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAA
* * *
90041425 TCTGCTCCACTACAACTTCA-GGAAGATAAAACTTG--AT-TTCAA
1 TCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTTGCTATCTTCAA
* * * *
90041467 CCTGCT-CACTGCTACTTCAGGGAGATAAGGTTTGCTA---T-AA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAA
* * * **
90041507 TCTGCTCTACTGCAACTTCAGAGAGATAAGATATGTTTATTTATAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAG--A--TTT-GCTAT--CTTCAA
** * * * *
90041559 TCTATTCCACTACAACTTTAGGGAAATAAGATTCGCTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAA
* * * *
90041604 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTT--TAACTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAA
** * * *
90041647 -CTTGCTCCACTGCAACTTCAATGAGATAAGGTTTG-T-T-TT-GA
1 TC-TGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAA
* ** * **
90041688 TCTGCTCTACTGCAACTTCATAGAGATAAGATCTGTAATTTATAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGAT-T-T--GCTAT--CTTCAA
* *
90041739 TCTGTTCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAA
* * * *
90041784 TTTGCTCCACTACAACTTCAGGGAGATAAGACTTG--AT-TTCAA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAA
* * * * * * *
90041826 CCTACT-CACTGCTACTTCAGGGAGATAAGGTTTTCTA---T-GA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAA
** ** * * *
90041866 TCTGCTCTGCTATAACTTCAGAGAGATAAGATTTGTTTATTTATAGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTTG-----CTAT--CTTCAA
* * * * * *
90041918 TTTGTTCCACTGCAAGTTCAGGGAAATAAGATTCGTTATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAA
** * *
90041963 TCTGCTCCACTGCAACTTCAGGGAGGTAAGACTT--TAACTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAA
* *
90042006 CCTGCT-CACTTCAACTTCAGGGA
1 TCTGCTCCACTGCAACTTCAGGGA
90042029 GATACGGTTT
Statistics
Matches: 610, Mismatches: 164, Indels: 114
0.69 0.18 0.13
Matches are distributed among these distances:
40 12 0.02
41 137 0.22
42 43 0.07
43 54 0.09
44 63 0.10
45 163 0.27
46 6 0.01
47 16 0.03
48 3 0.00
49 2 0.00
50 6 0.01
51 54 0.09
52 51 0.08
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.33
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAA
Found at i:90041779 original size:180 final size:179
Alignment explanation
Indices: 90041207--90042084 Score: 1116
Period size: 179 Copynumber: 4.9 Consensus size: 179
90041197 AACCCGCTCT
* * * * * * * * * *
90041207 ACTGCTACTTCAGAGAGATAAGGTTTGCTATCTT-TGATCTACTACGCTGCAACTTTAGGGAAAT
1 ACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAG-TCTGCTCCACTGCAACTTCAGGGAGAT
* * * *
90041271 AAGACTAGTGACTTCAGCCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGTTTTGATCTGCTC
65 AAGACT-TTGACTTCAACCTGCT-CACTGCAACTTCAGGGAGATAAGGTTTGTTATGATCTGCTC
* *
90041336 TACTGCAACTTTAGAGAGATAAGATCTGTATTTTATAGCTTCAATCTGTTCC
128 TACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCC
* * * *
90041388 ACTGTAACTTCAGGAAAATAAGATTTGCTATCTTCAGTCTGCTCCACTACAACTTCAGGAAGATA
1 ACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * * * *
90041453 AAAC-TTGATTTCAACCTGCTCACTGCTACTTCAGGGAGATAAGGTTTGCTATAATCTGCTCTAC
66 AGACTTTGACTTCAACCTGCTCACTGCAACTTCAGGGAGATAAGGTTTGTTATGATCTGCTCTAC
* * *
90041517 TGCAACTTCAGAGAGATAAGATATGTTTATTTATAGCTTCAATCTATTCC
131 TGCAACTTCAGAGAGATAAGATCTG-TAATTTATAGCTTCAATCTGTTCC
* * * *
90041567 ACTACAACTTTAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATA
1 ACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * ** *
90041632 AGACTTTAACTTCAACTTGCTCCACTGCAACTTCAATGAGATAAGGTTTGTTTTGATCTGCTCTA
66 AGACTTTGACTTCAACCTGCT-CACTGCAACTTCAGGGAGATAAGGTTTGTTATGATCTGCTCTA
*
90041697 CTGCAACTTCATAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCC
130 CTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCC
* * * *
90041747 ACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAATTTGCTCCACTACAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * * *
90041812 AGAC-TTGATTTCAACCTACTCACTGCTACTTCAGGGAGATAAGGTTT-TCTATGATCTGCTCTG
66 AGACTTTGACTTCAACCTGCTCACTGCAACTTCAGGGAGATAAGGTTTGT-TATGATCTGCTCTA
** * * *
90041875 CTATAACTTCAGAGAGATAAGATTTGTTTATTTATAGCTTCAATTTGTTCC
130 CTGCAACTTCAGAGAGATAAGATCTG-TAATTTATAGCTTCAATCTGTTCC
* * * *
90041926 ACTGCAAGTTCAGGGAAATAAGATTCGTTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGGTA
1 ACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * * *
90041991 AGACTTTAACTTCAACCTGCTCACTTCAACTTCAGGGAGATACGGTTTGTTATGATCTACTCTAC
66 AGACTTTGACTTCAACCTGCTCACTGCAACTTCAGGGAGATAAGGTTTGTTATGATCTGCTCTAC
* *
90042056 TACAACTTTAGAGAGATAAGATCTGTAAT
131 TGCAACTTCAGAGAGATAAGATCTGTAAT
90042085 CTTCAGCTTA
Statistics
Matches: 596, Mismatches: 93, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
177 1 0.00
178 120 0.20
179 192 0.32
180 168 0.28
181 114 0.19
182 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (179 bp):
ACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
AGACTTTGACTTCAACCTGCTCACTGCAACTTCAGGGAGATAAGGTTTGTTATGATCTGCTCTAC
TGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCC
Found at i:90041843 original size:137 final size:135
Alignment explanation
Indices: 90041598--90041854 Score: 300
Period size: 137 Copynumber: 1.9 Consensus size: 135
90041588 GATTCGCTAT
* * * *
90041598 CTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTTAACTTCAACTTGCTCCACTGCAAC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTTTAACTTCAACTTGCTCCACTACAAC
* ** ** * * *
90041663 TTCAATGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCATAGAGATAAGATCTGTAATT
66 TTCAAGGAGATAAGACTTGTTTCAACCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATT
90041728 TATAG
131 TATAG
* * * * *
90041733 CTTCAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAATTTGCTCCACTACA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTT--TAACTTCAACTTGCTCCACTACA
* * *
90041798 ACTTCAGGGAGATAAGACTTGATTTCAACCTACTC-ACTGCTACTTCAGGGAGATAAG
64 ACTTCAAGGAGATAAGACTTG-TTTCAACCTACTCTACTGCAACTTCAGAGAGATAAG
90041855 GTTTTCTATG
Statistics
Matches: 99, Mismatches: 20, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
135 34 0.34
137 56 0.57
138 9 0.09
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (135 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTTTAACTTCAACTTGCTCCACTACAAC
TTCAAGGAGATAAGACTTGTTTCAACCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATT
TATAG
Found at i:90041949 original size:359 final size:359
Alignment explanation
Indices: 90041253--90042084 Score: 1324
Period size: 359 Copynumber: 2.3 Consensus size: 359
90041243 ATCTACTACG
* * * * *
90041253 CTGCAACTTTAGGGAAATAAGACTAGTGACTTCAGCCTGCTCCACTGCAACTTTAGGGAGATAAG
1 CTGCAACTTTAGGGAGATAAGACT-TTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
*
90041318 GTTTGTTTTGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTATTTTATAGCTTCAATCT
65 GTTTGTTTTGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTAATTTATAGCTTCAATCT
*
90041383 GTTCCACTGTAACTTCAGGAAAATAAGATTTGCTATCTTCAGTCTGCTCCACTACAACTTCAGGA
130 GTTCCACTGTAACTTCAGGAAAATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCAGGA
*
90041448 AGATAAAACTTGATTTCAACCTGCTCACTGCTACTTCAGGGAGATAAGGTTTGCTATAATCTGCT
195 AGATAAAACTTGATTTCAACCTACTCACTGCTACTTCAGGGAGATAAGGTTTGCTATAATCTGCT
* *
90041513 CTACTGCAACTTCAGAGAGATAAGATATGTTTATTTATAGCTTCAATCTATTCCACTACAACTTT
260 CTACTACAACTTCAGAGAGATAAGATATGTTTATTTATAGCTTCAATCTATTCCACTACAACTTC
90041578 AGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCA
325 AGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCA
* **
90041613 CTGCAACTTTAGGGAGATAAGACTTTAACTTCAACTTGCTCCACTGCAACTTCAATGAGATAAGG
1 CTGCAACTTTAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGG
* *
90041678 TTTGTTTTGATCTGCTCTACTGCAACTTCATAGAGATAAGATCTGTAATTTATAGCTTCAATCTG
66 TTTGTTTTGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTG
* * *
90041743 TTCCACTGTAACTTCAGGGAAATAAGATTTGCTATCTTCAATTTGCTCCACTACAACTTCAGGGA
131 TTCCACTGTAACTTCAGGAAAATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCAGGAA
* * *
90041808 GATAAGACTTGATTTCAACCTACTCACTGCTACTTCAGGGAGATAAGGTTTTCTATGATCTGCTC
196 GATAAAACTTGATTTCAACCTACTCACTGCTACTTCAGGGAGATAAGGTTTGCTATAATCTGCTC
* * * * * * *
90041873 TGCTATAACTTCAGAGAGATAAGATTTGTTTATTTATAGCTTCAATTTGTTCCACTGCAAGTTCA
261 TACTACAACTTCAGAGAGATAAGATATGTTTATTTATAGCTTCAATCTATTCCACTACAACTTCA
*
90041938 GGGAAATAAGATTCGTTATCTTCAGTCTGCTCCA
326 GGGAAATAAGATTCGCTATCTTCAGTCTGCTCCA
* * * *
90041972 CTGCAACTTCAGGGAGGTAAGACTTTAACTTCAACCTGCT-CACTTCAACTTCAGGGAGATACGG
1 CTGCAACTTTAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGG
* * *
90042036 TTTGTTATGATCTACTCTACTACAACTTTAGAGAGATAAGATCTGTAAT
66 TTTGTTTTGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTAAT
90042085 CTTCAGCTTA
Statistics
Matches: 431, Mismatches: 41, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
358 64 0.15
359 344 0.80
360 23 0.05
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (359 bp):
CTGCAACTTTAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGG
TTTGTTTTGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTG
TTCCACTGTAACTTCAGGAAAATAAGATTTGCTATCTTCAATCTGCTCCACTACAACTTCAGGAA
GATAAAACTTGATTTCAACCTACTCACTGCTACTTCAGGGAGATAAGGTTTGCTATAATCTGCTC
TACTACAACTTCAGAGAGATAAGATATGTTTATTTATAGCTTCAATCTATTCCACTACAACTTCA
GGGAAATAAGATTCGCTATCTTCAGTCTGCTCCA
Found at i:90042238 original size:44 final size:44
Alignment explanation
Indices: 90042122--90042238 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 44
90042112 CTTAAATCTG
* * * * ** *
90042122 CTCCACTACTGCTTAGGGAGATAAGATTTTCCATCTTTGATTTG
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTAGACCTA
* *
90042166 CTCCACTAATGCTTAGGGAGACAAGATCTACAATCTTCAG-CCTA
1 CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT-AGACCTA
*
90042210 CTCCACTACTGCTTAGGGAGATAGGATCT
1 CTCCACTACTGCTTAGGGAGATAAGATCT
90042239 GTGAATTTAC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 59 0.98
45 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTAGACCTA
Found at i:90063994 original size:12 final size:12
Alignment explanation
Indices: 90063918--90064002 Score: 50
Period size: 12 Copynumber: 7.1 Consensus size: 12
90063908 CAAAAATAAT
*
90063918 AATAATAAAATG
1 AATAATAAAATA
*
90063930 AAT-ATAAAAGA
1 AATAATAAAATA
*
90063941 ATTTAA-ACAAATA
1 A-ATAATA-AAATA
*
90063954 AA-AAGAAAATA
1 AATAATAAAATA
*
90063965 AATAAGAAAATA
1 AATAATAAAATA
**
90063977 TTTAATAAAATA
1 AATAATAAAATA
*
90063989 AGTAATAATAATA
1 AATAATAA-AATA
90064002 A
1 A
90064003 TAAAGATAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
11 16 0.28
12 30 0.53
13 11 0.19
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.25
Consensus pattern (12 bp):
AATAATAAAATA
Found at i:90064170 original size:17 final size:17
Alignment explanation
Indices: 90064150--90064185 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
90064140 TAAATAGAGA
90064150 AATAATACATA-AAATAT
1 AATAATA-ATAGAAATAT
90064167 AATAATAATAGAAATAT
1 AATAATAATAGAAATAT
90064184 AA
1 AA
90064186 ATAGAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (17 bp):
AATAATAATAGAAATAT
Found at i:90064325 original size:3 final size:3
Alignment explanation
Indices: 90064252--90064316 Score: 58
Period size: 3 Copynumber: 21.0 Consensus size: 3
90064242 AGATGGAAAT
* * * **
90064252 ATA ATA ATA GTA ATA ATGCA ATA GTA ATA ATA ATT ATA ATA GCA ATA
1 ATA ATA ATA ATA ATA AT--A ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
90064299 ATA ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
90064317 CCATAATAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
3 45 0.94
5 3 0.06
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:90066880 original size:22 final size:22
Alignment explanation
Indices: 90066850--90066899 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
90066840 TGAGTTGATG
* *
90066850 ACACAGGCGTGTCATATCAA-CC
1 ACACGGGCGTGTCACAT-AAGCC
90066872 ACACGGGCGTGTCACATAAGCC
1 ACACGGGCGTGTCACATAAGCC
90066894 ACACGG
1 ACACGG
90066900 ACGTTTGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (22 bp):
ACACGGGCGTGTCACATAAGCC
Found at i:90068469 original size:45 final size:45
Alignment explanation
Indices: 90068405--90068495 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
90068395 CACAACGTTT
*
90068405 AACAATTTTTGCACTAATCTTTTCTTTCATATCATCGATTGAGAC
1 AACAATTTTTGCACTAATCTTTTCTTTCATATCATCAATTGAGAC
*
90068450 AACAATTTTTGCGCTAATCTTTTCTTTCATATCATCAATTGAGAC
1 AACAATTTTTGCACTAATCTTTTCTTTCATATCATCAATTGAGAC
90068495 A
1 A
90068496 TTTCTTTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.42
Consensus pattern (45 bp):
AACAATTTTTGCACTAATCTTTTCTTTCATATCATCAATTGAGAC
Found at i:90068976 original size:19 final size:20
Alignment explanation
Indices: 90068948--90068986 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
90068938 TCTTATTTTT
90068948 TATTTCTTTTT-TGTTTTAA
1 TATTTCTTTTTATGTTTTAA
*
90068967 TATTTGTTTTTATGTTTTAA
1 TATTTCTTTTTATGTTTTAA
90068987 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTCTTTTTATGTTTTAA
Found at i:90069004 original size:25 final size:23
Alignment explanation
Indices: 90068967--90069012 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
90068957 TTTGTTTTAA
*
90068967 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
90068990 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
90069013 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:90075493 original size:21 final size:21
Alignment explanation
Indices: 90075454--90075494 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
90075444 GGCCATAATG
*
90075454 ATGTTCACACATGCCATTAAC
1 ATGTTCACACATGCAATTAAC
*
90075475 ATGTTCACACATGGAATTAA
1 ATGTTCACACATGCAATTAA
90075495 AAGCCATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (21 bp):
ATGTTCACACATGCAATTAAC
Found at i:90084794 original size:18 final size:18
Alignment explanation
Indices: 90084767--90084815 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
90084757 ATTTTTTACG
90084767 TATAATAAATTACATAATA
1 TATAA-AAATTACATAATA
* *
90084786 TATAAAAATAACATCATA
1 TATAAAAATTACATAATA
*
90084804 TA-AAACATTACA
1 TATAAAAATTACA
90084816 AATTTACACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 8 0.31
18 13 0.50
19 5 0.19
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (18 bp):
TATAAAAATTACATAATA
Found at i:90093763 original size:31 final size:31
Alignment explanation
Indices: 90093728--90093800 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
90093718 TACACGAAGT
* *
90093728 TACATTAAATTTTATTTTTCGTTCAAATGTA
1 TACATTAAATTTTAATTTTAGTTCAAATGTA
* * *
90093759 TACATAAAATTTTAATTTTATTTCAATTGTA
1 TACATTAAATTTTAATTTTAGTTCAAATGTA
*
90093790 TATATTTAAAT
1 TACA-TTAAAT
90093801 AAATGAATAC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
31 29 0.85
32 5 0.15
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (31 bp):
TACATTAAATTTTAATTTTAGTTCAAATGTA
Found at i:90097555 original size:9 final size:9
Alignment explanation
Indices: 90097543--90097608 Score: 64
Period size: 9 Copynumber: 7.2 Consensus size: 9
90097533 TATGAATTTT
*
90097543 TTTTTAGAA
1 TTTTTATAA
90097552 TTTTTATAA
1 TTTTTATAA
*
90097561 GTTTATATCAA
1 -TTTTTAT-AA
*
90097572 TTTTAATAA
1 TTTTTATAA
90097581 TTTTTATAA
1 TTTTTATAA
90097590 TATTTTA-AA
1 T-TTTTATAA
90097599 TTTTT-TAA
1 TTTTTATAA
90097607 TT
1 TT
90097609 ATTTTTTAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
8 8 0.17
9 22 0.46
10 16 0.33
11 2 0.04
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:90097594 original size:20 final size:20
Alignment explanation
Indices: 90097571--90097683 Score: 58
Period size: 20 Copynumber: 5.8 Consensus size: 20
90097561 GTTTATATCA
90097571 ATTTTAATAATTTTTATAAT
1 ATTTTAATAATTTTTATAAT
* *
90097591 ATTTTAA-ATTTTTTAATTAT
1 ATTTTAATAATTTTT-ATAAT
* * *
90097611 TTTTTAAGAATTTTAAT-AT
1 ATTTTAATAATTTTTATAAT
* **
90097630 GTTTTTACA-AAACTTTA-AAT
1 -ATTTTA-ATAATTTTTATAAT
* *
90097650 ATTTTAAATAAGTTTTATTA-
1 ATTTT-AATAATTTTTATAAT
90097670 ATTTT-ATAATTTTT
1 ATTTTAATAATTTTT
90097684 TTACAATTTA
Statistics
Matches: 72, Mismatches: 13, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
18 8 0.11
19 13 0.18
20 44 0.61
21 7 0.10
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (20 bp):
ATTTTAATAATTTTTATAAT
Found at i:90097607 original size:17 final size:19
Alignment explanation
Indices: 90097579--90097613 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
90097569 CAATTTTAAT
90097579 AATTTTTATAA-TATTTTA
1 AATTTTTATAATTATTTTA
90097597 AATTTTT-TAATTATTTT
1 AATTTTTATAATTATTTT
90097614 TTAAGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
AATTTTTATAATTATTTTA
Found at i:90097666 original size:50 final size:50
Alignment explanation
Indices: 90097570--90097689 Score: 118
Period size: 50 Copynumber: 2.4 Consensus size: 50
90097560 AGTTTATATC
* * * * * **
90097570 AATTTTAATA-ATTTTTATAATATTTTAAATTTTTTAATTATTTTTTAAG
1 AATTTTAATATATTTTTACAAAACTTTAAATATTTTAAATAAGTTTTAAG
* **
90097619 AATTTTAATATGTTTTTACAAAACTTTAAATATTTTAAATAAGTTTTATT
1 AATTTTAATATATTTTTACAAAACTTTAAATATTTTAAATAAGTTTTAAG
*
90097669 AATTTT-ATAATTTTTTTACAA
1 AATTTTAAT-ATATTTTTACAA
90097690 TTTATTAGAA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
49 12 0.21
50 46 0.79
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (50 bp):
AATTTTAATATATTTTTACAAAACTTTAAATATTTTAAATAAGTTTTAAG
Found at i:90099657 original size:26 final size:26
Alignment explanation
Indices: 90099628--90099678 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
90099618 TACAGTTTTG
90099628 CCCCTAGGAGATAAATT-ACCAAAATA
1 CCCCTAGG-GATAAATTGACCAAAATA
* *
90099654 CCCCTAGGGTTAAATTGACCTAAAT
1 CCCCTAGGGATAAATTGACCAAAAT
90099679 GCATGTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.24
Consensus pattern (26 bp):
CCCCTAGGGATAAATTGACCAAAATA
Found at i:90114024 original size:27 final size:27
Alignment explanation
Indices: 90113987--90114038 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
90113977 TGCAAGATAT
* * *
90113987 ATATATAATATGATGTTAAGAGTATAC
1 ATATAAAATATAATGTTAAAAGTATAC
90114014 ATATAAAATATAATGTTAAAAGTAT
1 ATATAAAATATAATGTTAAAAGTAT
90114039 GTATGCATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.37
Consensus pattern (27 bp):
ATATAAAATATAATGTTAAAAGTATAC
Found at i:90114572 original size:18 final size:17
Alignment explanation
Indices: 90114551--90114584 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
90114541 ATACATTTAA
90114551 TATAACAAATATAAATAT
1 TATAACAAATA-AAATAT
90114569 TATAACAAATAAAATA
1 TATAACAAATAAAATA
90114585 CAGAAAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
TATAACAAATAAAATAT
Found at i:90115256 original size:10 final size:10
Alignment explanation
Indices: 90115241--90115270 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
90115231 GTATTTGAAT
90115241 AAAAAAGAAA
1 AAAAAAGAAA
90115251 AAAAAAGAAA
1 AAAAAAGAAA
*
90115261 AGAAAAGAAA
1 AAAAAAGAAA
90115271 CGGATTCGAT
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:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:90122755 original size:26 final size:26
Alignment explanation
Indices: 90122719--90122854 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
90122709 CATGAAATTC
90122719 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
90122745 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
90122771 TTATCATGAAACATTTACCAAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
90122797 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
90122823 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
90122849 TTATCA
1 TTATCA
90122855 ATTTGTATCA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 106 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:90123597 original size:24 final size:24
Alignment explanation
Indices: 90123570--90123615 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
90123560 GTGTTGATGA
90123570 CTTTTAAATTTCTTTTT-ATTATTT
1 CTTTTAAATTT-TTTTTAATTATTT
90123594 CTTTTAAATTTTTTTTAATTAT
1 CTTTTAAATTTTTTTTAATTAT
90123616 ACAATTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.70
Consensus pattern (24 bp):
CTTTTAAATTTTTTTTAATTATTT
Found at i:90124059 original size:14 final size:14
Alignment explanation
Indices: 90124040--90124069 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
90124030 CTGTTTAGAT
90124040 TTTTAAAGTTTGAA
1 TTTTAAAGTTTGAA
90124054 TTTTAAAGTTTGAA
1 TTTTAAAGTTTGAA
90124068 TT
1 TT
90124070 CCAATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (14 bp):
TTTTAAAGTTTGAA
Found at i:90126873 original size:12 final size:12
Alignment explanation
Indices: 90126856--90126881 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
90126846 AAAACTGCCC
90126856 AATAGTAATAAT
1 AATAGTAATAAT
90126868 AATAGTAATAAT
1 AATAGTAATAAT
90126880 AA
1 AA
90126882 CAAGCCATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:90133621 original size:21 final size:21
Alignment explanation
Indices: 90133595--90133642 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
90133585 ATTTTCTTGT
*
90133595 TGCCTCTGCTACCCTTACTGC
1 TGCCTCTGCTACCCTTACTAC
*
90133616 TGCCTCTGCTTCCCTTACTAC
1 TGCCTCTGCTACCCTTACTAC
90133637 TGCCTC
1 TGCCTC
90133643 CGTTTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.08, C:0.44, G:0.12, T:0.35
Consensus pattern (21 bp):
TGCCTCTGCTACCCTTACTAC
Found at i:90133854 original size:86 final size:86
Alignment explanation
Indices: 90133705--90133878 Score: 276
Period size: 86 Copynumber: 2.0 Consensus size: 86
90133695 TCTCGATGCT
* * *
90133705 GCCTCCATTTTAAGTTGAGAAATTTTCTCAATTGTGCTCGCTTGTATATGAGCCATCCAGTCTCT
1 GCCTCCACTTTAAGTTGAGAAATTTTCTCAATTGTGCTAGCTTGCATATGAGCCATCCAGTCTCT
*
90133770 TAACATTGAACTTTAGCTTGA
66 TAACATTGAACTTTAACTTGA
* * *
90133791 GCCTCCACTTTAAGTTGGGAAATTTTCTCAATTGTGCTAGCTTGCATATGAGTCATCCGGTCTCT
1 GCCTCCACTTTAAGTTGAGAAATTTTCTCAATTGTGCTAGCTTGCATATGAGCCATCCAGTCTCT
*
90133856 TAACATTGAATTTTAACTTGA
66 TAACATTGAACTTTAACTTGA
90133877 GC
1 GC
90133879 TGATTCACCG
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
86 80 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (86 bp):
GCCTCCACTTTAAGTTGAGAAATTTTCTCAATTGTGCTAGCTTGCATATGAGCCATCCAGTCTCT
TAACATTGAACTTTAACTTGA
Found at i:90144863 original size:21 final size:23
Alignment explanation
Indices: 90144818--90144866 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
90144808 GTACAAAAGG
90144818 AGATGCAAGAGCAACTGCAGGCTC
1 AGATGCAAGAGCAAC-GCAGGCTC
*
90144842 AGATGCAAGAGC-A-GCTGGCTC
1 AGATGCAAGAGCAACGCAGGCTC
90144863 AGAT
1 AGAT
90144867 CCAGCAGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 11 0.46
23 1 0.04
24 12 0.50
ACGTcount: A:0.33, C:0.22, G:0.31, T:0.14
Consensus pattern (23 bp):
AGATGCAAGAGCAACGCAGGCTC
Found at i:90145917 original size:175 final size:176
Alignment explanation
Indices: 90145618--90145975 Score: 675
Period size: 175 Copynumber: 2.0 Consensus size: 176
90145608 GATCACACTC
90145618 CAGA-ATATAGAGAAGAAGCCAAGCGAAAGCTTCCGGCAGTATGCTCAGAGATGGAGAGAGGTCG
1 CAGACATATAGAGAAGAAGCCAAGCGAAAGCTTCCGGCAGTATGCTCAGAGATGGAGAGAGGTCG
*
90145682 CTACACAGGTCCAACCACCGTTGCTAGAAAAAGAAACAACCATGCTCTTCATCAATACATTGAAG
66 CTACACAGGTCCAACCACCGTTGCTAGAAAAAGAAACAACCATGCTCTTCACCAATACATTGAAG
*
90145747 GCGCCTTTCATTACTCATATGTTAGGTAACGCAACCAAGAGCTTTG
131 GCCCCTTTCATTACTCATATGTTAGGTAACGCAACCAAGAGCTTTG
*
90145793 CAGACATA-AGAGAAGAAGCCAATCGAAAGCTTCCGGCAGTATGCTCAGAGATGGAGAGAGGTCG
1 CAGACATATAGAGAAGAAGCCAAGCGAAAGCTTCCGGCAGTATGCTCAGAGATGGAGAGAGGTCG
90145857 CTACACAGGTCCAACCACCGTTGCTAGAAAAAGAAACAACCATGCTCTTCACCAATACATTGAAG
66 CTACACAGGTCCAACCACCGTTGCTAGAAAAAGAAACAACCATGCTCTTCACCAATACATTGAAG
90145922 GCCCCTTTCATTACTCATATGTTAGGTAACGCAACCAAGAGCTTTG
131 GCCCCTTTCATTACTCATATGTTAGGTAACGCAACCAAGAGCTTTG
90145968 CAGACATA
1 CAGACATA
90145976 GTAATGTCTG
Statistics
Matches: 179, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
175 176 0.98
176 3 0.02
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (176 bp):
CAGACATATAGAGAAGAAGCCAAGCGAAAGCTTCCGGCAGTATGCTCAGAGATGGAGAGAGGTCG
CTACACAGGTCCAACCACCGTTGCTAGAAAAAGAAACAACCATGCTCTTCACCAATACATTGAAG
GCCCCTTTCATTACTCATATGTTAGGTAACGCAACCAAGAGCTTTG
Found at i:90147083 original size:56 final size:56
Alignment explanation
Indices: 90146997--90147228 Score: 437
Period size: 56 Copynumber: 4.1 Consensus size: 56
90146987 ACAAGGGATG
90146997 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
90147053 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
90147109 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
90147165 ATGGGCAAAACATGTCATCAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
90147221 ATGGGCAA
1 ATGGGCAA
90147229 TAAACTAATA
Statistics
Matches: 172, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 172 1.00
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:90157410 original size:40 final size:40
Alignment explanation
Indices: 90157316--90157460 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
90157306 TACTCGAATG
*
90157316 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
90157357 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
90157397 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
90157437 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
90157461 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:90165156 original size:133 final size:133
Alignment explanation
Indices: 90164990--90165548 Score: 895
Period size: 133 Copynumber: 4.2 Consensus size: 133
90164980 GATTACAGAT
*
90164990 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCACTG
* * * *
90165055 AGCAAGAGTGAAGCAGATCGAATTTTAGA-GAATCTTGTCTCCACGTCCCGGCGATGGAGCAGAT
66 AGCAGGAGTGAAGCAGATCAAATTTT-GATGAATCTTATCTCCACGTACCGGCGATGGAGCAGAT
90165119 TCCA
130 TCCA
* * * *
90165123 ATTATCAGCCTTATCTTCATTGAGCAGGAGTGGAGCAGACTAAATACTAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCACTG
* * * * *
90165188 AGCAGGAGTGAAGCAGATCGAACTTTAAAGAATCTTATCTCCACGTCCCGGCGATGGAGCAGATT
66 AGCAGGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
90165253 CCA
131 CCA
*
90165256 ATCATCAGCCTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCACTG
* * *
90165321 AGTAGGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTACCGGTGATGGAGCAGATT
66 AGCAGGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
90165386 CCA
131 CCA
*
90165389 ATCATCAGCCTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCACTG
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCACTG
* * *
90165454 AGTAGGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTACCGGTGATGGAGCAGATT
66 AGCAGGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
90165519 CCA
131 CCA
*
90165522 ATCATCAGCCTTATCTTCACTAAGCAG
1 ATCATCAGCCTTATCTTCACTGAGCAG
90165549 TAGGGTAAAG
Statistics
Matches: 403, Mismatches: 22, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
132 1 0.00
133 402 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (133 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACCAGATCTTATCTTCACTG
AGCAGGAGTGAAGCAGATCAAATTTTGATGAATCTTATCTCCACGTACCGGCGATGGAGCAGATT
CCA
Found at i:90165183 original size:43 final size:43
Alignment explanation
Indices: 90164999--90165470 Score: 214
Period size: 43 Copynumber: 10.7 Consensus size: 43
90164989 TATCATCAGC
*
90164999 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGACTAAATACTAGAT
* * * * *
90165042 CTTATCTTCACTGAGCAAGAGTGAAGCAGATCGAATTTTA-GAGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGA-CTAA--ATACTAG-AT
* * ** * * * * *
90165088 CTTGTCTCCAC-GTCCCGGCGATGGAGCAGATTCCAATTA-TCAG-C
1 CTTATCTTCACTGAGCAGGAG-TGGAGCAGA--CTAAATACT-AGAT
*
90165132 CTTATCTTCATTGAGCAGGAGTGGAGCAGACTAAATACTAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGACTAAATACTAGAT
* * * *
90165175 CTTATCTTCACTGAGCAGGAGTGAAGCAGATCGAACTTTA-AAGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGA-CTAA--ATACTAG-AT
* ** * * * * *
90165221 CTTATCTCCAC-GTCCCGGCGATGGAGCAGATTCCAAT-CATCAG-C
1 CTTATCTTCACTGAGCAGGAG-TGGAGCAGACT-AAATAC-T-AGAT
* * *
90165265 CTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAAATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGACTAAATACTAGAT
* * **
90165308 CTTATCTTCACTGAGTAGGAGTGAAGCAGA-TCAAATTTTGATGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGACT-AAATACT-A-G-AT
* * * * * *
90165354 CTTATCTCCA-TGTA-CCGGTGATGGAGCAGATTCCAAT-CATCAG-C
1 CTTATCTTCACTG-AGCAGGAG-TGGAGCAGACT-AAATAC-T-AGAT
* * *
90165398 CTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAAATACCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGACTAAATACTAGAT
* *
90165441 CTTATCTTCACTGAGTAGGAGTGAAGCAGA
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGA
90165471 TCAAATTTTG
Statistics
Matches: 315, Mismatches: 80, Indels: 68
0.68 0.17 0.15
Matches are distributed among these distances:
42 12 0.04
43 122 0.39
44 65 0.21
45 36 0.11
46 69 0.22
47 11 0.03
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGACTAAATACTAGAT
Found at i:90166909 original size:14 final size:15
Alignment explanation
Indices: 90166875--90166922 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
90166865 TTTTCCCTTT
* *
90166875 TTATCCTATTATTTG
1 TTATACTATTATTTA
90166890 TTATACTATT-TTTA
1 TTATACTATTATTTA
* *
90166904 TTATACCACTATTTA
1 TTATACTATTATTTA
90166919 TTAT
1 TTAT
90166923 TTTTATTACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.27, C:0.12, G:0.02, T:0.58
Consensus pattern (15 bp):
TTATACTATTATTTA
Found at i:90166998 original size:24 final size:25
Alignment explanation
Indices: 90166962--90167016 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
90166952 TTTTTTACTA
90166962 TTTATT-TTAAATCATTATAT-TAT
1 TTTATTATTAAATCATTATATATAT
* *
90166985 TATTATTATT-AATCTTTTTATATAT
1 T-TTATTATTAAATCATTATATATAT
90167010 TTTATTA
1 TTTATTA
90167017 AAAGTTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 20 0.74
25 6 0.22
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTATTATTAAATCATTATATATAT
Found at i:90167789 original size:126 final size:126
Alignment explanation
Indices: 90167563--90167790 Score: 332
Period size: 126 Copynumber: 1.8 Consensus size: 126
90167553 AATCATTTTT
* * ** * * * *
90167563 AAAATAATGGCAATTTTCGGTATTTATGGAACTCAAAGGATCGTGCCCTAACGTACTGGGTTTCG
1 AAAATAAAGGCAATGTTCGGTATTTAAAGAACTCAAAGAATCGTGCCCTAACGCACTGGGCTCCG
90167628 CTTTCTTTGTTAGTCTTGAATATTCGAATAACCTCTTCCCAGTGCACTCTCAAAAGATTTC
66 CTTTCTTTGTTAGTCTTGAATATTCGAATAACCTCTTCCCAGTGCACTCTCAAAAGATTTC
* *
90167689 AAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGCACTGGGCTCCG
1 AAAATAAAGGCAATGTTCGGTATTTAAAGAACTCAAAGAATCGTGCCCTAACGCACTGGGCTCCG
* *
90167754 CTTTCTTTGTTTA-TTTTGAATATTCGAATATCCTCTT
66 CTTTCTTTG-TTAGTCTTGAATATTCGAATAACCTCTT
90167791 AAGGCTAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
126 86 0.97
127 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (126 bp):
AAAATAAAGGCAATGTTCGGTATTTAAAGAACTCAAAGAATCGTGCCCTAACGCACTGGGCTCCG
CTTTCTTTGTTAGTCTTGAATATTCGAATAACCTCTTCCCAGTGCACTCTCAAAAGATTTC
Found at i:90168644 original size:20 final size:20
Alignment explanation
Indices: 90168615--90168657 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
90168605 CAGAAAATGA
*
90168615 TTTCTAGAAAATTATTTA-TT
1 TTTCTAG-AAATGATTTACTT
*
90168635 TTTCTGGAAATGATTTACTT
1 TTTCTAGAAATGATTTACTT
90168655 TTT
1 TTT
90168658 TGGTGTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (20 bp):
TTTCTAGAAATGATTTACTT
Found at i:90170564 original size:35 final size:35
Alignment explanation
Indices: 90170520--90170593 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
90170510 TAACAAAACA
90170520 AAAACCAAATATACCAAATACCCTTACCCTTACAC
1 AAAACCAAATATACCAAATACCCTTACCCTTACAC
90170555 AAAACCAAATATACCAAATACCCTTACCCTTACAC
1 AAAACCAAATATACCAAATACCCTTACCCTTACAC
90170590 AAAA
1 AAAA
90170594 GCTAATTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (35 bp):
AAAACCAAATATACCAAATACCCTTACCCTTACAC
Found at i:90171392 original size:18 final size:19
Alignment explanation
Indices: 90171359--90171394 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
90171349 GTAATTTTCA
90171359 AAATTCAAAATATTTATAG
1 AAATTCAAAATATTTATAG
*
90171378 AAATTCTAAAT-TTTATA
1 AAATTCAAAATATTTATA
90171395 TTTTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (19 bp):
AAATTCAAAATATTTATAG
Found at i:90171432 original size:20 final size:18
Alignment explanation
Indices: 90171389--90171429 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
90171379 AATTCTAAAT
90171389 TTTAT-ATTTTTTAAAAA
1 TTTATAATTTTTTAAAAA
90171406 TTTATAATTTTTTAAAAA
1 TTTATAATTTTTTAAAAA
*
90171424 TATATA
1 TTTATA
90171430 TAAAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATAATTTTTTAAAAA
Found at i:90171675 original size:18 final size:19
Alignment explanation
Indices: 90171640--90171675 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
90171630 GTTTCACTCA
90171640 AAATTCAAAATATTTATAG
1 AAATTCAAAATATTTATAG
*
90171659 AAATTCTAAAT-TTTATA
1 AAATTCAAAATATTTATA
90171676 TTTTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (19 bp):
AAATTCAAAATATTTATAG
Found at i:90171713 original size:20 final size:18
Alignment explanation
Indices: 90171670--90171710 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
90171660 AATTCTAAAT
90171670 TTTAT-ATTTTTTAAAAA
1 TTTATAATTTTTTAAAAA
90171687 TTTATAATTTTTTAAAAA
1 TTTATAATTTTTTAAAAA
*
90171705 TATATA
1 TTTATA
90171711 TAAAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATAATTTTTTAAAAA
Found at i:90171859 original size:281 final size:281
Alignment explanation
Indices: 90171356--90171919 Score: 1128
Period size: 281 Copynumber: 2.0 Consensus size: 281
90171346 AAAGTAATTT
90171356 TCAAAATTCAAAATATTTATAGAAATTCTAAATTTTATATTTTTTAAAAATTTATAATTTTTTAA
1 TCAAAATTCAAAATATTTATAGAAATTCTAAATTTTATATTTTTTAAAAATTTATAATTTTTTAA
90171421 AAATATATATAAAAATTTAATAAAATAATAATTTTAGAATCTAAATAAGTGATTAATGATTCAAG
66 AAATATATATAAAAATTTAATAAAATAATAATTTTAGAATCTAAATAAGTGATTAATGATTCAAG
90171486 TTTATCATACTAAAATATCTTATTTTTTTCTTAAAAAGTTTTCAAATATATATTCTTTCAAATTT
131 TTTATCATACTAAAATATCTTATTTTTTTCTTAAAAAGTTTTCAAATATATATTCTTTCAAATTT
90171551 TTGTGTTCTAATATAAAAATAGTTATATTGTTCAAGATTTTAATTTAACATTATTAATTTTTCTA
196 TTGTGTTCTAATATAAAAATAGTTATATTGTTCAAGATTTTAATTTAACATTATTAATTTTTCTA
90171616 ATTTAACTCGAACGGTTTCAC
261 ATTTAACTCGAACGGTTTCAC
90171637 TCAAAATTCAAAATATTTATAGAAATTCTAAATTTTATATTTTTTAAAAATTTATAATTTTTTAA
1 TCAAAATTCAAAATATTTATAGAAATTCTAAATTTTATATTTTTTAAAAATTTATAATTTTTTAA
90171702 AAATATATATAAAAATTTAATAAAATAATAATTTTAGAATCTAAATAAGTGATTAATGATTCAAG
66 AAATATATATAAAAATTTAATAAAATAATAATTTTAGAATCTAAATAAGTGATTAATGATTCAAG
90171767 TTTATCATACTAAAATATCTTATTTTTTTCTTAAAAAGTTTTCAAATATATATTCTTTCAAATTT
131 TTTATCATACTAAAATATCTTATTTTTTTCTTAAAAAGTTTTCAAATATATATTCTTTCAAATTT
90171832 TTGTGTTCTAATATAAAAATAGTTATATTGTTCAAGATTTTAATTTAACATTATTAATTTTTCTA
196 TTGTGTTCTAATATAAAAATAGTTATATTGTTCAAGATTTTAATTTAACATTATTAATTTTTCTA
90171897 ATTTAACTCGAACGGTTTCAC
261 ATTTAACTCGAACGGTTTCAC
90171918 TC
1 TC
90171920 GATTCAATCG
Statistics
Matches: 283, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
281 283 1.00
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (281 bp):
TCAAAATTCAAAATATTTATAGAAATTCTAAATTTTATATTTTTTAAAAATTTATAATTTTTTAA
AAATATATATAAAAATTTAATAAAATAATAATTTTAGAATCTAAATAAGTGATTAATGATTCAAG
TTTATCATACTAAAATATCTTATTTTTTTCTTAAAAAGTTTTCAAATATATATTCTTTCAAATTT
TTGTGTTCTAATATAAAAATAGTTATATTGTTCAAGATTTTAATTTAACATTATTAATTTTTCTA
ATTTAACTCGAACGGTTTCAC
Found at i:90172040 original size:21 final size:21
Alignment explanation
Indices: 90172016--90172055 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
90172006 GCCTTTTCTA
*
90172016 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGGCAAAACTATC
*
90172037 AAGTTAGAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
90172056 CGTTATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.15, T:0.20
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATC
Found at i:90173153 original size:92 final size:92
Alignment explanation
Indices: 90172993--90173176 Score: 289
Period size: 92 Copynumber: 2.0 Consensus size: 92
90172983 TATGTTTGAA
* *
90172993 ATGTTATATTTTAGTCACTTACGTCATCATTTTATTACGAAGTGCTCACTCTACTATTAAATTCT
1 ATGTTATACTTTAGTCACTTACGTCATCATTTTATTACGAAGTGCTCACTCTACCATTAAATTCT
* *
90173058 GTTACCTCCCTAATGGCAGTCCTACGT
66 GTTACCTCCCTAATGACAATCCTACGT
* * *
90173085 ATGTTATACTTTAGTCACTTACGTCATCATTTTGTTACGAAGTGGTCACTCTACCGTTAAACTT-
1 ATGTTATACTTTAGTCACTTACGTCATCATTTTATTACGAAGTGCTCACTCTACCATTAAA-TTC
90173149 TGTTACCTCCCTAATGACAATCCTACGT
65 TGTTACCTCCCTAATGACAATCCTACGT
90173177 GGTAGTCCAA
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 82 0.98
93 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.39
Consensus pattern (92 bp):
ATGTTATACTTTAGTCACTTACGTCATCATTTTATTACGAAGTGCTCACTCTACCATTAAATTCT
GTTACCTCCCTAATGACAATCCTACGT
Found at i:90176732 original size:19 final size:19
Alignment explanation
Indices: 90176709--90176761 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 19
90176699 ATAATATTGC
90176709 ATAAACATATACATATATA
1 ATAAACATATACATATATA
* *
90176728 TTAAAGGTATATACATATATA
1 ATAAA--CATATACATATATA
90176749 ATAGAACATATAC
1 ATA-AACATATAC
90176762 TAACAATAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 4 0.15
20 6 0.22
21 15 0.56
22 2 0.07
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (19 bp):
ATAAACATATACATATATA
Found at i:90177943 original size:15 final size:15
Alignment explanation
Indices: 90177925--90177983 Score: 75
Period size: 15 Copynumber: 3.9 Consensus size: 15
90177915 ATATTTAATG
90177925 ATATAATATATAAAA
1 ATATAATATATAAAA
*
90177940 ATAT-ATTTATAAAA
1 ATATAATATATAAAA
90177954 ATAATAATTATATAAAA
1 AT-ATAA-TATATAAAA
*
90177971 ATATAAAATATAA
1 ATATAATATATAA
90177984 TGGTTTAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 11 0.29
15 12 0.32
16 5 0.13
17 10 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATATAATATATAAAA
Found at i:90177945 original size:17 final size:17
Alignment explanation
Indices: 90177925--90177982 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
90177915 ATATTTAATG
90177925 ATATAATATATAAAAAT
1 ATATAATATATAAAAAT
90177942 ATAT--T-TATAAAAAT
1 ATATAATATATAAAAAT
90177956 A-ATAATTATATAAAAAT
1 ATATAA-TATATAAAAAT
*
90177973 ATAAAATATA
1 ATATAATATA
90177983 ATGGTTTAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
13 2 0.06
14 10 0.29
15 1 0.03
16 1 0.03
17 18 0.51
18 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAATATATAAAAAT
Found at i:90178269 original size:18 final size:19
Alignment explanation
Indices: 90178246--90178287 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
90178236 CAATATGTAG
* *
90178246 ATAAAAAT-ACTTAATAGT
1 ATAAAAATGACATAATAAT
90178264 AT-AAAATGACATAATAAT
1 ATAAAAATGACATAATAAT
90178282 ATAAAA
1 ATAAAA
90178288 TAAATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 5 0.25
18 12 0.60
19 3 0.15
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAAAAATGACATAATAAT
Found at i:90178288 original size:18 final size:17
Alignment explanation
Indices: 90178257--90178393 Score: 57
Period size: 18 Copynumber: 7.4 Consensus size: 17
90178247 TAAAAATACT
* *
90178257 TAATAGTATAAAATGACA
1 TAATAATATAAAAT-AAA
90178275 TAATAATATAAAATAAA
1 TAATAATATAAAATAAA
90178292 T-ATAATATATAATATGAAA
1 TAATAATATA-AA-AT-AAA
*
90178311 GT-ATATATGTGAAAAT-AA
1 -TAATA-ATAT-AAAATAAA
90178329 TATATAATATATAAATAATA
1 TA-ATAATATA-AAATAA-A
* *
90178349 TGAGTAATATATAAAATAAT
1 T-AAT-A-ATATAAAATAAA
90178369 TATATAATATATAATATAAA
1 TA-ATAATATA-AA-ATAAA
90178389 -AATAA
1 TAATAA
90178394 AAATAAAGCA
Statistics
Matches: 94, Mismatches: 8, Indels: 34
0.69 0.06 0.25
Matches are distributed among these distances:
16 8 0.09
17 7 0.07
18 33 0.35
19 12 0.13
20 15 0.16
21 13 0.14
22 6 0.06
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (17 bp):
TAATAATATAAAATAAA
Found at i:90178301 original size:7 final size:7
Alignment explanation
Indices: 90178274--90178386 Score: 64
Period size: 7 Copynumber: 16.1 Consensus size: 7
90178264 ATAAAATGAC
90178274 ATAATAAT
1 ATAAT-AT
90178282 ATAA-A-
1 ATAATAT
90178287 ATAA-AT
1 ATAATAT
90178293 ATAATAT
1 ATAATAT
90178300 ATAATAT
1 ATAATAT
90178307 GA-AAGTAT
1 -ATAA-TAT
* *
90178315 ATATGTGAAA
1 ATA-AT--AT
90178325 ATAATAT
1 ATAATAT
90178332 ATAATAT
1 ATAATAT
90178339 AT-A-A-
1 ATAATAT
90178343 ATAATAT
1 ATAATAT
90178350 GAGTAATAT
1 -A-TAATAT
90178359 ATAA-A-
1 ATAATAT
90178364 ATAATTAT
1 ATAA-TAT
90178372 ATAATAT
1 ATAATAT
90178379 ATAATAT
1 ATAATAT
90178386 A
1 A
90178387 AAAATAAAAA
Statistics
Matches: 85, Mismatches: 4, Indels: 33
0.70 0.03 0.27
Matches are distributed among these distances:
4 2 0.02
5 11 0.13
6 8 0.09
7 37 0.44
8 16 0.19
9 7 0.08
10 4 0.05
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (7 bp):
ATAATAT
Found at i:90178356 original size:20 final size:18
Alignment explanation
Indices: 90178277--90178387 Score: 95
Period size: 20 Copynumber: 5.8 Consensus size: 18
90178267 AAATGACATA
90178277 ATAATATA-AAATAA-AT
1 ATAATATATAAATAATAT
90178293 ATAATATATAATATGAA-AGT
1 ATAATATATAA-AT-AATA-T
*
90178313 AT-ATATGTGAAAATAATAT
1 ATAATATAT--AAATAATAT
90178332 ATAATATATAAATAATAT
1 ATAATATATAAATAATAT
90178350 GAGTAATATATAAAATAATTAT
1 -A-TAATATAT-AAATAA-TAT
90178372 ATAATATATAATATAA
1 ATAATATATAA-ATAA
90178388 AAATAAAAAT
Statistics
Matches: 80, Mismatches: 2, Indels: 22
0.77 0.02 0.21
Matches are distributed among these distances:
16 8 0.10
17 2 0.03
18 11 0.14
19 16 0.20
20 31 0.39
21 9 0.11
22 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
ATAATATATAAATAATAT
Found at i:90178356 original size:27 final size:25
Alignment explanation
Indices: 90178274--90178393 Score: 78
Period size: 25 Copynumber: 4.9 Consensus size: 25
90178264 ATAAAATGAC
*
90178274 ATAATAATATAAAATA-AATATAATAT
1 ATAAT-ATATAATATATAA-ATAATAT
**
90178300 ATAATATGA-AAGTATATATGTGAA-A-
1 ATAATAT-ATAA-TATATAAAT-AATAT
90178325 ATAATATATAATATATAAATAATAT
1 ATAATATATAATATATAAATAATAT
90178350 GAGTAATATATAA-A-AT-AAT--TAT
1 -A-TAATATATAATATATAAATAATAT
*
90178372 ATAATATATAATATAAAAATAA
1 ATAATATATAATATATAAATAA
90178394 AAATAAAGCA
Statistics
Matches: 74, Mismatches: 6, Indels: 29
0.68 0.06 0.27
Matches are distributed among these distances:
20 10 0.14
21 2 0.03
22 4 0.05
23 5 0.07
24 12 0.16
25 15 0.20
26 13 0.18
27 13 0.18
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (25 bp):
ATAATATATAATATATAAATAATAT
Found at i:90180082 original size:19 final size:17
Alignment explanation
Indices: 90180043--90180075 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
90180033 ATAGCTAAAT
90180043 ATAATATAATAATAATA
1 ATAATATAATAATAATA
90180060 ATAATATAA-AATAATA
1 ATAATATAATAATAATA
90180076 GTGATAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAATATAATAATAATA
Found at i:90180736 original size:11 final size:11
Alignment explanation
Indices: 90180712--90180748 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
90180702 AGGTAAGTTC
90180712 TTTTTTATAT-
1 TTTTTTATATA
90180722 TTTTTTATATA
1 TTTTTTATATA
*
90180733 TTTTTTACATA
1 TTTTTTATATA
90180744 TTTTT
1 TTTTT
90180749 AGTTTATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTATATA
Found at i:90182018 original size:14 final size:14
Alignment explanation
Indices: 90181999--90182033 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
90181989 TAATTGATTT
*
90181999 TTGAAAAACATAAA
1 TTGAAAAACAAAAA
90182013 TTGAAAAACAAAAA
1 TTGAAAAACAAAAA
90182027 TTGAAAA
1 TTGAAAA
90182034 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAAAAA
Found at i:90182164 original size:17 final size:17
Alignment explanation
Indices: 90182142--90182175 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
90182132 TCAACTCATC
90182142 TCTCGCAATATGAGTTG
1 TCTCGCAATATGAGTTG
90182159 TCTCGCAATATGAGTTG
1 TCTCGCAATATGAGTTG
90182176 ATTTTTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (17 bp):
TCTCGCAATATGAGTTG
Found at i:90182182 original size:94 final size:92
Alignment explanation
Indices: 90182065--90182244 Score: 209
Period size: 92 Copynumber: 1.9 Consensus size: 92
90182055 TCAACTCGCC
* * * *
90182065 TCTCGCAATACAATTTGACTTTTTTTAAAAAAAAGAATTGAAAATACCTC-AGCGTGTGACCTGA
1 TCTCGCAATACAAGTTGA-TTTTTTTAAAAAAAA-AATTAAAAATACCTCGA-CATGTGACCCGA
* * *
90182129 GGCTCAACTCATCTCTCGCAATATGAGTTG
63 GACTCAACTCACCTCTAGCAATATGAGTTG
** * ** *
90182159 TCTCGCAATATGAGTTGATTTTTTTGAAGCATAAATTAAAAATACCTCGACATGTGACCCGAGAC
1 TCTCGCAATACAAGTTGATTTTTTTAAAAAAAAAATTAAAAATACCTCGACATGTGACCCGAGAC
90182224 TCAACTCACCTCTAGCAATAT
66 TCAACTCACCTCTAGCAATAT
90182245 AAATTGATTT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
92 45 0.62
93 12 0.17
94 15 0.21
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (92 bp):
TCTCGCAATACAAGTTGATTTTTTTAAAAAAAAAATTAAAAATACCTCGACATGTGACCCGAGAC
TCAACTCACCTCTAGCAATATGAGTTG
Found at i:90182274 original size:14 final size:14
Alignment explanation
Indices: 90182255--90182289 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
90182245 AAATTGATTT
*
90182255 TTGAAAAACATAAA
1 TTGAAAAACAGAAA
*
90182269 TTGAAAAACAGAAT
1 TTGAAAAACAGAAA
90182283 TTGAAAA
1 TTGAAAA
90182290 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:90182363 original size:14 final size:14
Alignment explanation
Indices: 90182344--90182392 Score: 80
Period size: 14 Copynumber: 3.5 Consensus size: 14
90182334 GTTGATTTTT
90182344 TTGAAAAGCAAAAA
1 TTGAAAAGCAAAAA
90182358 TTGAAAAGCAAAAA
1 TTGAAAAGCAAAAA
* *
90182372 TTGAAAAGCAGACA
1 TTGAAAAGCAAAAA
90182386 TTGAAAA
1 TTGAAAA
90182393 TACCTCAGCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.59, C:0.08, G:0.16, T:0.16
Consensus pattern (14 bp):
TTGAAAAGCAAAAA
Found at i:90182434 original size:103 final size:103
Alignment explanation
Indices: 90182255--90182446 Score: 314
Period size: 103 Copynumber: 1.9 Consensus size: 103
90182245 AAATTGATTT
* * *
90182255 TTGAAAAACATAAATTGAAAAACAGAATTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
1 TTGAAAAACAAAAATTGAAAAACAGAATTTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCAC
90182320 CTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAAAAA
66 CTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAAAAA
* *
90182358 TTGAAAAGCAAAAATTGAAAAGCAGACA-TTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCA
1 TTGAAAAACAAAAATTGAAAAACAGA-ATTTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCA
*
90182422 CCTCTTGCAATATGAGTTGATTTTT
65 CCTCTCGCAATATGAGTTGATTTTT
90182447 GACAAACAGA
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
103 81 0.99
104 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (103 bp):
TTGAAAAACAAAAATTGAAAAACAGAATTTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAAAAA
Found at i:90182505 original size:73 final size:73
Alignment explanation
Indices: 90182372--90182683 Score: 385
Period size: 76 Copynumber: 4.2 Consensus size: 73
90182362 AAAGCAAAAA
* * * *
90182372 TTGAAAAGCAGACATTGAAAATACCTCAGCGTGCCCTAAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
90182437 GTTGA-TTT
65 GTTGATTTT
* *
90182445 TTGACAAACAGAAATTGAAATTACCTCAATGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
90182510 GTTGATTTTT
65 GTTGA-TTTT
* * * * * *
90182520 TTGAAAGACAGAAATTGAAAATTACCTCAGCATGTCTTGAGGCTCAACTCATCTCTCGCAACATG
1 TTGAAA-ACAGAAATTGAAAA-TACCTCAACGTGTCCTAAGGCTCAACTCACCTCTCGCAATATG
90182585 AGTTGATTTTTT
64 AGTTGA--TTTT
* * * * *
90182597 TTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCGCCTCTCGTAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
90182662 GTTGA-TTT
65 GTTGATTTT
90182670 TTGAAAACAGAAAT
1 TTGAAAACAGAAAT
90182684 AAAAACATCA
Statistics
Matches: 211, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
72 7 0.03
73 69 0.33
74 5 0.02
75 20 0.09
76 85 0.40
77 25 0.12
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (73 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:90183524 original size:43 final size:44
Alignment explanation
Indices: 90183443--90183561 Score: 145
Period size: 43 Copynumber: 2.7 Consensus size: 44
90183433 CATTAGAATG
* * *
90183443 CCCTTTT-GGGTTTTCATCTTAAT-CTTTTGTGTTAATCAAGACA
1 CCCTTTTCGGGTTTTCACCTTGATCCTTTT-TATTAATCAAGACA
*
90183486 CCCTTTTCGGGTTTTCACCTTGATCCTTTTTATT-ATCAAGACG
1 CCCTTTTCGGGTTTTCACCTTGATCCTTTTTATTAATCAAGACA
*
90183529 CCTTTTTCGGGTTTTCACCTTGATTCCCTTTTT
1 CCCTTTTCGGGTTTTCACCTTGA-T-CCTTTTT
90183562 TTTAGGCATA
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
43 37 0.55
44 18 0.27
45 12 0.18
ACGTcount: A:0.15, C:0.24, G:0.13, T:0.48
Consensus pattern (44 bp):
CCCTTTTCGGGTTTTCACCTTGATCCTTTTTATTAATCAAGACA
Found at i:90190726 original size:26 final size:26
Alignment explanation
Indices: 90190489--90190718 Score: 388
Period size: 26 Copynumber: 8.8 Consensus size: 26
90190479 CTTTTAATAA
*
90190489 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
90190515 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
90190541 GTCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
90190567 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
90190593 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
90190619 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
90190645 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
90190671 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCCATT
90190697 ATCATGGAACATTTACCTAACC
1 ATCATGGAACATTTACCTAACC
90190719 TTTTATCAAT
Statistics
Matches: 196, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 196 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90190737 original size:10 final size:10
Alignment explanation
Indices: 90190722--90190746 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
90190712 CCTAACCTTT
90190722 TATCAATTTG
1 TATCAATTTG
90190732 TATCAATTTG
1 TATCAATTTG
90190742 TATCA
1 TATCA
90190747 TAAATTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (10 bp):
TATCAATTTG
Found at i:90192791 original size:222 final size:222
Alignment explanation
Indices: 90192405--90192848 Score: 834
Period size: 222 Copynumber: 2.0 Consensus size: 222
90192395 CTGGATCGTC
90192405 TAAATCTGGAACGGGTGGATCAGCAGGACTAGCCCCCGGGTTTGATACGAACATTCCTTGCCCCA
1 TAAATCTGGAACGGGTGGATCAGCAGGACTAGCCCCCGGGTTTGATACGAACATTCCTTGCCCCA
90192470 GATTAGCAGGTGGCGTAGGTTGTTGCTCTAGGCCTGTAGGTTCCCATTGAGCGTACCCTCTTTGT
66 GATTAGCAGGTGGCGTAGGTTGTTGCTCTAGGCCTGTAGGTTCCCATTGAGCGTACCCTCTTTGT
* *
90192535 GTTGCGTGGGTGTGCGGTGGAGTAAATCCCAGAGGATGGGGCAGATCCTGATTGAGGTTAACCCT
131 GTTGCGTGGGTGTGCGGTGGAGTAAATCCCAGAGGATGGGGCAGATCCTGATCGAAGTTAACCCT
* *
90192600 TGATTGTGGTTCCACAACGTCAGGGTT
196 TAACTGTGGTTCCACAACGTCAGGGTT
90192627 TAAATCTGGAACGGGTGGATCAGCAGGACTAGCCCCCGGGTTTGATACGAACATTCCTTGCCCCA
1 TAAATCTGGAACGGGTGGATCAGCAGGACTAGCCCCCGGGTTTGATACGAACATTCCTTGCCCCA
90192692 GATTAGCAGGTGGCGTAGGTTGTTGCTCTAGGCCTGTAGGTTCCCATTGAGCGTACCCTCTTTGT
66 GATTAGCAGGTGGCGTAGGTTGTTGCTCTAGGCCTGTAGGTTCCCATTGAGCGTACCCTCTTTGT
* *
90192757 GTTGCGTGGGTGTGCGGTGGAGTAAATCCCAGAGGATGGGGCGGATCTTGATCGAAGTTAACCCT
131 GTTGCGTGGGTGTGCGGTGGAGTAAATCCCAGAGGATGGGGCAGATCCTGATCGAAGTTAACCCT
90192822 TAACTGTGGTTCCACAACGTCAGGGTT
196 TAACTGTGGTTCCACAACGTCAGGGTT
90192849 CATAGGTCCC
Statistics
Matches: 216, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
222 216 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (222 bp):
TAAATCTGGAACGGGTGGATCAGCAGGACTAGCCCCCGGGTTTGATACGAACATTCCTTGCCCCA
GATTAGCAGGTGGCGTAGGTTGTTGCTCTAGGCCTGTAGGTTCCCATTGAGCGTACCCTCTTTGT
GTTGCGTGGGTGTGCGGTGGAGTAAATCCCAGAGGATGGGGCAGATCCTGATCGAAGTTAACCCT
TAACTGTGGTTCCACAACGTCAGGGTT
Found at i:90194875 original size:12 final size:12
Alignment explanation
Indices: 90194840--90194891 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
90194830 TAAAATAAAG
90194840 TAATAAGTGATAA
1 TAATAAGT-ATAA
*
90194853 TAAT--G-AAAA
1 TAATAAGTATAA
90194862 TAATAAGTATAA
1 TAATAAGTATAA
*
90194874 TAATAAATATAA
1 TAATAAGTATAA
90194886 TAATAA
1 TAATAA
90194892 ACATAACACT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
9 7 0.21
11 2 0.06
12 20 0.61
13 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (12 bp):
TAATAAGTATAA
Found at i:90194881 original size:19 final size:19
Alignment explanation
Indices: 90194820--90194882 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 19
90194810 CAAATAACAC
90194820 ATAATAA-TATTAA-AATAA
1 ATAATAAGTA-TAATAATAA
90194838 AGTAATAAGTGATAATAATGAAA
1 A-TAATAAGT-ATAATAAT--AA
90194861 ATAATAAGTATAATAATAA
1 ATAATAAGTATAATAATAA
90194880 ATA
1 ATA
90194883 TAATAATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
18 1 0.03
19 11 0.28
20 4 0.10
21 12 0.31
22 8 0.21
23 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (19 bp):
ATAATAAGTATAATAATAA
Found at i:90194892 original size:12 final size:12
Alignment explanation
Indices: 90194860--90194897 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
90194850 TAATAATGAA
*
90194860 AATAATAAGTAT
1 AATAATAAATAT
90194872 AATAATAAATAT
1 AATAATAAATAT
*
90194884 AATAATAAACAT
1 AATAATAAATAT
90194896 AA
1 AA
90194898 CACTATATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:90195056 original size:3 final size:3
Alignment explanation
Indices: 90195043--90195079 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
90195033 ATAGTTAAAT
*
90195043 ATA AT- ATA ATA ATA ATA ATA ATA AT- ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
90195080 GTGATAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:90204354 original size:21 final size:21
Alignment explanation
Indices: 90204330--90204370 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
90204320 GTTCTGCTCC
*
90204330 GCCTCCCTCGCTGCTGCCTCT
1 GCCTCCCGCGCTGCTGCCTCT
*
90204351 GCCTCCCGCTCTGCTGCCTC
1 GCCTCCCGCGCTGCTGCCTC
90204371 CGCTCTAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.54, G:0.20, T:0.27
Consensus pattern (21 bp):
GCCTCCCGCGCTGCTGCCTCT
Found at i:90206174 original size:22 final size:24
Alignment explanation
Indices: 90206134--90206192 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 24
90206124 GTTTAATTAG
* *
90206134 GGTTTATTAAATCAGGGTT-TA-T
1 GGTTTATTAAATTACGGTTATAGT
90206156 GGTTTATTAAATTACGGTTATAGT
1 GGTTTATTAAATTACGGTTATAGT
* *
90206180 GTTTTATTTAATT
1 GGTTTATTAAATT
90206193 TTTAAGTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 17 0.55
23 2 0.06
24 12 0.39
ACGTcount: A:0.27, C:0.03, G:0.19, T:0.51
Consensus pattern (24 bp):
GGTTTATTAAATTACGGTTATAGT
Found at i:90206271 original size:21 final size:20
Alignment explanation
Indices: 90206243--90206297 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
90206233 AATGATTTTA
90206243 TTATTAGGGTTTTGGGTGTG
1 TTATTAGGGTTTTGGGTGTG
* *
90206263 TTAATTAGGGTTTTTGGTTTG
1 TT-ATTAGGGTTTTGGGTGTG
90206284 TT-TTAGGGTTTTGG
1 TTATTAGGGTTTTGG
90206298 ATTTTATTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.35
20 2 0.06
21 18 0.58
ACGTcount: A:0.11, C:0.00, G:0.35, T:0.55
Consensus pattern (20 bp):
TTATTAGGGTTTTGGGTGTG
Found at i:90206312 original size:21 final size:21
Alignment explanation
Indices: 90206236--90206316 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
90206226 TAAGAAAAAT
90206236 GATTTTATTATTAGGGTTTTG
1 GATTTTATTATTAGGGTTTTG
*
90206257 GGTGTGTTA--ATTAGGGTTTTTG
1 GAT-T-TTATTATTAGGG-TTTTG
*
90206279 G--TTTGTT-TTAGGGTTTTG
1 GATTTTATTATTAGGGTTTTG
*
90206297 GATTTTATTGTTAGGGTTTT
1 GATTTTATTATTAGGGTTTT
90206317 TAGTGTTTAG
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
18 8 0.16
19 7 0.14
20 5 0.10
21 19 0.39
22 7 0.14
23 3 0.06
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (21 bp):
GATTTTATTATTAGGGTTTTG
Found at i:90219126 original size:17 final size:18
Alignment explanation
Indices: 90219100--90219133 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
90219090 TAATTTTGCA
90219100 TAAATATGAATTATAGAT
1 TAAATATGAATTATAGAT
*
90219118 TAAAT-TGAATTCTAGA
1 TAAATATGAATTATAGA
90219134 AGTACTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (18 bp):
TAAATATGAATTATAGAT
Found at i:90222754 original size:35 final size:34
Alignment explanation
Indices: 90222686--90222754 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 34
90222676 GTAAGTAATT
*
90222686 TATCCTCTTTCCTATTTGACAATACATGTTTTTA
1 TATCCTCTTTCCTATTTGACAATACATGGTTTTA
* **
90222720 TATCCTCTTTTCTTATTTGACAATTTATGGTTTTA
1 TATCCTC-TTTCCTATTTGACAATACATGGTTTTA
90222755 ATTTGATACG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 7 0.23
35 23 0.77
ACGTcount: A:0.22, C:0.17, G:0.07, T:0.54
Consensus pattern (34 bp):
TATCCTCTTTCCTATTTGACAATACATGGTTTTA
Found at i:90238636 original size:17 final size:18
Alignment explanation
Indices: 90238586--90238696 Score: 67
Period size: 17 Copynumber: 6.2 Consensus size: 18
90238576 AAATTAACTA
90238586 ATTTAATATATTA-TTTCT
1 ATTT-ATATATTATTTTCT
90238604 A-TTAT-TATTATGTTTCT
1 ATTTATATATTAT-TTTCT
90238621 ATTTATAT-TTATTTTCTT
1 ATTTATATATTATTTTC-T
* *
90238639 ATTCTA-ATACTATTAT-T
1 ATT-TATATATTATTTTCT
*
90238656 ATTTATCTATTTATATTTCT
1 ATTTATATA-TTAT-TTTCT
*
90238676 A-CTAT-TATTATATTTCT
1 ATTTATATATTAT-TTTCT
90238693 ATTT
1 ATTT
90238697 CTATTTTTAT
Statistics
Matches: 74, Mismatches: 7, Indels: 24
0.70 0.07 0.23
Matches are distributed among these distances:
15 5 0.07
16 4 0.05
17 29 0.39
18 21 0.28
19 13 0.18
20 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (18 bp):
ATTTATATATTATTTTCT
Found at i:90238669 original size:29 final size:28
Alignment explanation
Indices: 90238645--90238721 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 28
90238635 TCTTATTCTA
90238645 ATACTATTATTATTTATCTA-TTTATATTT
1 ATACTATTATTATTT-TCTATTTTAT-TTT
*
90238674 CTACTATTATTATATTTCTATTTCTATTTTT
1 ATACTATTATTAT-TTTCTATTT-TA-TTTT
*
90238705 ATACTAATATTATTTTC
1 ATACTATTATTATTTTC
90238722 GTTATTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 16 0.39
30 8 0.20
31 16 0.39
32 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (28 bp):
ATACTATTATTATTTTCTATTTTATTTT
Found at i:90238695 original size:43 final size:43
Alignment explanation
Indices: 90238606--90238687 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
90238596 TTATTTCTAT
** * *
90238606 TATTATTATGTTTCTATTTATATTTATTTTCTTATTCTAATAC
1 TATTATTATGTTTCTATTTATATTTATACTATTATTATAATAC
*
90238649 TATTATTAT-TTATCTATTTATATTTCTACTATTATTATA
1 TATTATTATGTT-TCTATTTATATTTATACTATTATTATA
90238688 TTTCTATTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 2 0.06
43 31 0.94
ACGTcount: A:0.28, C:0.09, G:0.01, T:0.62
Consensus pattern (43 bp):
TATTATTATGTTTCTATTTATATTTATACTATTATTATAATAC
Found at i:90249360 original size:27 final size:27
Alignment explanation
Indices: 90249330--90249507 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
90249320 ATATTGAGTC
* * * *
90249330 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
90249357 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90249384 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
90249412 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
90249439 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
90249466 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
90249493 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
90249508 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:90249469 original size:82 final size:81
Alignment explanation
Indices: 90249351--90249506 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
90249341 TGCTATATAA
* *
90249351 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
90249416 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
90249433 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
90249497 CACTTAGTGC
65 CACTTAGTGC
90249507 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:90257063 original size:46 final size:45
Alignment explanation
Indices: 90256995--90257124 Score: 197
Period size: 46 Copynumber: 2.8 Consensus size: 45
90256985 GAAATTACAG
*
90256995 ATCCTATACTCCTGAGACGCAGTGGGATGGATTGGAGAAAATGAAA
1 ATCCTATAC-CCTGAGACGCAGTGGGATGGATTGAAGAAAATGAAA
* * *
90257041 ATCCTATACCCTTGAGATGCAGTGGGATGGATTGAAGAAAATGCAG
1 ATCCTATACCC-TGAGACGCAGTGGGATGGATTGAAGAAAATGAAA
90257087 ATCCTATACCCCTGAGACGCAGTGGGATGGATTGAAGA
1 ATCCTATA-CCCTGAGACGCAGTGGGATGGATTGAAGA
90257125 GGATTACAGA
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
45 2 0.03
46 72 0.94
47 3 0.04
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.22
Consensus pattern (45 bp):
ATCCTATACCCTGAGACGCAGTGGGATGGATTGAAGAAAATGAAA
Found at i:90257344 original size:132 final size:131
Alignment explanation
Indices: 90257126--90257583 Score: 553
Period size: 132 Copynumber: 3.5 Consensus size: 131
90257116 GATTGAAGAG
* * * *
90257126 GATTACAGATCTTATCTCCCTAAGCAGTACTAGAGCAGATCGAAGACGGCGAATCTTATCTTCCC
1 GATTACAGATCTTATCTCCCTAAGAAGTAGTAGAGCAGATCGAAGACGACGAATCTTATCTTCCT
* * * *
90257191 AAGGTAGTAGGGAAGCTGATTTAAGCCACTAGCCTTATCTCTCTGAGCAGTAGTGGAGCAAGCTA
66 GAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTC-CTGAGCAGCAGTGGAGCAAGCTG
90257256 AA
130 AA
* * *
90257258 GATTACAAATCTTATCTCTCTAAGAAGTAGTAGAGCAGATCGAAGACGATGAATCTTATCTTCCT
1 GATTACAGATCTTATCTCCCTAAGAAGTAGTAGAGCAGATCGAAGACGACGAATCTTATCTTCCT
* *
90257323 GAGGTAGTAGGGAAGCAGATTTAAGCTACTAGCCTTATCTGCCTGAGCAGCAGTGGAGCAGGCTG
66 GAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCT-CCTGAGCAGCAGTGGAGCAAGCTG
90257388 AA
130 AA
* * * * * * *
90257390 GATTGCAGATTTTATCTCCCTAAGCAGTAGTGGAACAGATCGAGGACGACGAATCTTATCTT-TT
1 GATTACAGATCTTATCTCCCTAAGAAGTAGTAGAGCAGATCGAAGACGACGAATCTTATCTTCCT
* * * *
90257454 CGAGGTAATAGGGAAGCAGATTTAAGCCACTGGCTTTATCTCCCTGAGTAGCAGTGGAG-AAGGC
66 -GAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCT-CCTGAGCAGCAGTGGAGCAA-GC
90257518 TGAA
128 TGAA
** * * * * *
90257522 GATTGTAGATCTTATCTTCCTAAAAAAGTAGT-GAAGTAGATCAAAGACGGCGAATCTTATCT
1 GATTACAGATCTTATCTCCCT-AAGAAGTAGTAG-AGCAGATCGAAGACGACGAATCTTATCT
90257584 CCATAAAGCA
Statistics
Matches: 281, Mismatches: 40, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
131 2 0.01
132 247 0.88
133 32 0.11
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (131 bp):
GATTACAGATCTTATCTCCCTAAGAAGTAGTAGAGCAGATCGAAGACGACGAATCTTATCTTCCT
GAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCCTTATCTCCTGAGCAGCAGTGGAGCAAGCTGA
A
Found at i:90257746 original size:89 final size:89
Alignment explanation
Indices: 90257559--90257738 Score: 207
Period size: 89 Copynumber: 2.0 Consensus size: 89
90257549 GTAGTGAAGT
* *
90257559 AGATCAAAGACGGCGAATCTTATCTCCATAAAGCAGCAATGAAACAGATTTAGGCCACCAGCCTC
1 AGATCGAAGACGGCGAATCTTATCTCCATAAAGCAGCAATGAAACAGATTTAAGCCACCAGCCTC
** * *
90257624 ATCTCCCTAAAGTAGCAGTGGGGT
66 ATCTCCCTAAAGTAGCAAAGGAGC
* * * ** * * *
90257648 AGATCGAAGACGGTGAATCTTATTTTCATGTAGCGGCAATGAAGCAGATTTAAGCCACCAGCCTT
1 AGATCGAAGACGGCGAATCTTATCTCCATAAAGCAGCAATGAAACAGATTTAAGCCACCAGCCTC
* * *
90257713 ATCTCCTTGAGGTAGCAAAGGAGC
66 ATCTCCCTAAAGTAGCAAAGGAGC
90257737 AG
1 AG
90257739 GTTGAAGATA
Statistics
Matches: 74, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.22
Consensus pattern (89 bp):
AGATCGAAGACGGCGAATCTTATCTCCATAAAGCAGCAATGAAACAGATTTAAGCCACCAGCCTC
ATCTCCCTAAAGTAGCAAAGGAGC
Found at i:90257759 original size:45 final size:45
Alignment explanation
Indices: 90257710--90258139 Score: 229
Period size: 45 Copynumber: 9.6 Consensus size: 45
90257700 AGCCACCAGC
* * ** * *
90257710 CTTATCTCCTTGAGGTAGCAAAGGAGCAGGTTGAAGATAGTAGGT
1 CTTATCTCCCTGAAGTAGCAAAGGAGCAGACTGAAGATAGCAGAT
* **
90257755 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGAT
1 CTTATCTCCCTGAAGTAGCAAAGGAGCAGACTGAAGATAGCAGAT
* ** * *
90257800 CTTATCTCCCTGAAGTTGCAGTGAAGTAGACTGAAGATAGCAGAT
1 CTTATCTCCCTGAAGTAGCAAAGGAGCAGACTGAAGATAGCAGAT
* ** ** *** * * *
90257845 CTTATCTCCCTGAAGTTGCAGTGGAATATTTTGAAGATAACAAAC
1 CTTATCTCCCTGAAGTAGCAAAGGAGCAGACTGAAGATAGCAGAT
* * * * * **
90257890 CTCATCTCTCTAAAGTTGCAGTA-GAGCAGGTTGAAG-TAGCA-AGT
1 CTTATCTCCCTGAAGTAGCA-AAGGAGCAGACTGAAGATAGCAGA-T
* ** * *
90257934 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAGGT
1 CTTATCTCCCTGAAGTAGCAAAGGAGCAGACTGAAGATAGCAGAT
* * * * *
90257979 CTTATCTCCATGAAGTTGCAGTA-GAGCAGAATGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTAGCA-AAGGAGCAGACTGAAGATAGCAGAT
* * ** ** * * * *
90258024 CTTATCTTCCTGAAGTTGCAGTGGAATAGATTGAAGATAACAAAC
1 CTTATCTCCCTGAAGTAGCAAAGGAGCAGACTGAAGATAGCAGAT
* ** * * * * * *
90258069 CTCATCTATCTGAAGTTGCAATGGAGCAGACTAAAAATAACAGGT
1 CTTATCTCCCTGAAGTAGCAAAGGAGCAGACTGAAGATAGCAGAT
* * *
90258114 TTTATCTCCCTGAAGTTGCAATGGAG
1 CTTATCTCCCTGAAGTAGCAAAGGAG
90258140 TAGGTTGAAA
Statistics
Matches: 309, Mismatches: 69, Indels: 14
0.79 0.18 0.04
Matches are distributed among these distances:
43 1 0.00
44 33 0.11
45 275 0.89
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTAGCAAAGGAGCAGACTGAAGATAGCAGAT
Found at i:90257863 original size:90 final size:90
Alignment explanation
Indices: 90257741--90258139 Score: 408
Period size: 90 Copynumber: 4.4 Consensus size: 90
90257731 AGGAGCAGGT
* * * * * *
90257741 TGAAGATAGTAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTATC
1 TGAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAACCTCATC
*
90257806 TCCCTGAAGTTGCAGT-GAAGTAGAC
66 TCCCTGAAGTTGCAGTAG-AGCAGAC
** ***
90257831 TGAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAATATTTTGAAGATAACAAACCTCATC
1 TGAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAACCTCATC
* * **
90257896 TCTCTAAAGTTGCAGTAGAGCAGGT
66 TCCCTGAAGTTGCAGTAGAGCAGAC
* * *** *
90257921 TGAAG-TAGCA-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAGGTCTTAT
1 TGAAGATAGCAGA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAACCTCAT
* *
90257984 CTCCATGAAGTTGCAGTAGAGCAGAA
65 CTCCCTGAAGTTGCAGTAGAGCAGAC
* * ** *
90258010 TGAAGATAGCAAATCTTATCTTCCTGAAGTTGCAGTGGAATAGATTGAAGATAACAAACCTCATC
1 TGAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAACCTCATC
** * *
90258075 TATCTGAAGTTGCAATGGAGCAGAC
66 TCCCTGAAGTTGCAGTAGAGCAGAC
* * * * * *
90258100 TAAAAATAACAGGTTTTATCTCCCTGAAGTTGCAATGGAG
1 TGAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAG
90258140 TAGGTTGAAA
Statistics
Matches: 249, Mismatches: 56, Indels: 8
0.80 0.18 0.03
Matches are distributed among these distances:
88 1 0.00
89 72 0.29
90 174 0.70
91 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (90 bp):
TGAAGATAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACAAACCTCATC
TCCCTGAAGTTGCAGTAGAGCAGAC
Found at i:90257953 original size:179 final size:179
Alignment explanation
Indices: 90257733--90258139 Score: 582
Period size: 179 Copynumber: 2.3 Consensus size: 179
90257723 GGTAGCAAAG
*
90257733 GAGCAGGTTGAAGATAGTAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAG
1 GAGCAGGTTGAAG-TAGCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAG
* * * *
90257798 ATCTTATCTCCCTGAAGTTGCAGT-GAAGTAGACTGAAGATAGCAGATCTTATCTCCCTGAAGTT
65 ATCTTATCTCCATGAAGTTGCAGTAG-AGCAGAATGAAGATAGCAAATCTTATCTCCCTGAAGTT
** * *
90257862 GCAGTGGAATATTTTGAAGATAACAAACCTCATCTCTCTAAAGTTGCAGTA
129 GCAGTGGAATAGATTGAAGATAACAAACCTCATCTATCTAAAGTTGCAATA
* * *
90257913 GAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGCTGAAGATAGCAGG
1 GAGCAGGTTGAAGTAGCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
*
90257978 TCTTATCTCCATGAAGTTGCAGTAGAGCAGAATGAAGATAGCAAATCTTATCTTCCTGAAGTTGC
66 TCTTATCTCCATGAAGTTGCAGTAGAGCAGAATGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
* *
90258043 AGTGGAATAGATTGAAGATAACAAACCTCATCTATCTGAAGTTGCAATG
131 AGTGGAATAGATTGAAGATAACAAACCTCATCTATCTAAAGTTGCAATA
* ** * * * *
90258092 GAGCAGACTAAAAATAACAGGTTTTATCTCCCTGAAGTTGCAATGGAG
1 GAGCAG-GTTGAAGTAGCAGGTCTTATCTCCCTGAAGTTGCAGTGGAG
90258140 TAGGTTGAAA
Statistics
Matches: 202, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
179 155 0.77
180 47 0.23
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (179 bp):
GAGCAGGTTGAAGTAGCAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
TCTTATCTCCATGAAGTTGCAGTAGAGCAGAATGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
AGTGGAATAGATTGAAGATAACAAACCTCATCTATCTAAAGTTGCAATA
Found at i:90259173 original size:29 final size:29
Alignment explanation
Indices: 90259136--90259246 Score: 82
Period size: 29 Copynumber: 3.8 Consensus size: 29
90259126 ATATTATTGC
* *
90259136 TATTATTATTATGTTTCTATTTATATTTA
1 TATTGTTATTATATTTCTATTTATATTTA
* * * *
90259165 TTTTGTTATTCTAATACTA-TTATTATTTA
1 TATTGTTATTATATTTCTATTTA-TATTTA
* ** * *
90259194 TCTAATTTTTAT-TTATCTATTTATATTTC
1 TATTGTTATTATATT-TCTATTTATATTTA
*
90259223 TACTGTTATTATATTTCTATTTAT
1 TATTGTTATTATATTTCTATTTAT
90259247 TATATTTCTA
Statistics
Matches: 59, Mismatches: 19, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
28 4 0.07
29 50 0.85
30 5 0.08
ACGTcount: A:0.26, C:0.07, G:0.03, T:0.64
Consensus pattern (29 bp):
TATTGTTATTATATTTCTATTTATATTTA
Found at i:90259207 original size:15 final size:14
Alignment explanation
Indices: 90259151--90259267 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
90259141 TTATTATGTT
*
90259151 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
90259165 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
90259179 TACTATTATTATTTA
1 T-CTATTTTTATTTA
90259194 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
90259209 TCTATTTATATTTC
1 TCTATTTTTATTTA
* *
90259223 TACTGTTATTATATT-
1 T-CTATTTTTAT-TTA
90259238 TCTATTTATTATATT-
1 TCTATTT-TTAT-TTA
*
90259253 TCTATTTCTATTTA
1 TCTATTTTTATTTA
90259267 T
1 T
90259268 ATACTAATAT
Statistics
Matches: 81, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
12 6 0.07
13 4 0.05
14 23 0.28
15 37 0.46
16 4 0.05
17 7 0.09
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.64
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:90259230 original size:58 final size:58
Alignment explanation
Indices: 90259151--90259267 Score: 139
Period size: 58 Copynumber: 2.0 Consensus size: 58
90259141 TTATTATGTT
** * *
90259151 TCTATTTATATTTATTTTGTTATTCTAATACTA-TTATTAT-TTATCTAATTTTTATTTA
1 TCTATTTATATTTATACTGTTATTATAATACTATTTATTATATT-TCT-ATTTCTATTTA
* * *
90259209 TCTATTTATATTTCTACTGTTATTATATTTCTATTTATTATATTTCTATTTCTATTTA
1 TCTATTTATATTTATACTGTTATTATAATACTATTTATTATATTTCTATTTCTATTTA
90259267 T
1 T
90259268 ATACTAATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 38 0.76
59 10 0.20
60 2 0.04
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.64
Consensus pattern (58 bp):
TCTATTTATATTTATACTGTTATTATAATACTATTTATTATATTTCTATTTCTATTTA
Found at i:90259232 original size:44 final size:44
Alignment explanation
Indices: 90259179--90259298 Score: 108
Period size: 44 Copynumber: 2.8 Consensus size: 44
90259169 GTTATTCTAA
90259179 TACTATTATTAT-TTATCTAATTT-TTAT-TTATCTATTTATATTTC
1 TACTATTATTATATT-TCT-ATTTATTATATT-TCTATTTATATTTC
* * *
90259223 TACTGTTATTATATTTCTATTTATTATATTTCTATTTCTATTTATA
1 TACTATTATTATATTTCTATTTATTATATTTCTATTTATA-TT-TC
* *
90259269 TACTAATATTAT-TTTC-A-TTATTATTTTTCT
1 TACTATTATTATATTTCTATTTATTATATTTCT
90259299 TATATATGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
43 16 0.25
44 28 0.43
45 10 0.15
46 11 0.17
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.63
Consensus pattern (44 bp):
TACTATTATTATATTTCTATTTATTATATTTCTATTTATATTTC
Found at i:90259236 original size:17 final size:15
Alignment explanation
Indices: 90259214--90259259 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
90259204 ATTTATCTAT
90259214 TTATATTTCTACTGTTA
1 TTATATTTCTA-T-TTA
90259231 TTATATTTCTATTTA
1 TTATATTTCTATTTA
90259246 TTATATTTCTATTT
1 TTATATTTCTATTT
90259260 CTATTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 17 0.59
16 1 0.03
17 11 0.38
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:90264709 original size:22 final size:22
Alignment explanation
Indices: 90264684--90264766 Score: 94
Period size: 22 Copynumber: 3.8 Consensus size: 22
90264674 AAGTAGCAGT
* *
90264684 AAAATAGCACAAAAACAGCATC
1 AAAACAGCACAAAAACACCATC
* * *
90264706 AAAACAACACCAAAATACCATC
1 AAAACAGCACAAAAACACCATC
*
90264728 AAAACAGCACAAAAATACCATC
1 AAAACAGCACAAAAACACCATC
* *
90264750 AAAATAGCACCAAAACA
1 AAAACAGCACAAAAACA
90264767 ACACCCAAAC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.60, C:0.27, G:0.05, T:0.08
Consensus pattern (22 bp):
AAAACAGCACAAAAACACCATC
Found at i:90264722 original size:33 final size:33
Alignment explanation
Indices: 90264684--90264821 Score: 120
Period size: 33 Copynumber: 4.1 Consensus size: 33
90264674 AAGTAGCAGT
90264684 AAAATAGCACAAAAACAGCATCAAAACAACACC
1 AAAATAGCACAAAAACAGCATCAAAACAACACC
* *
90264717 AAAATACCATC-AAAACAGCA-CAAAA-ATACCATC
1 AAAATAGCA-CAAAAACAGCATCAAAACA-A-CACC
* * * * * *
90264750 AAAATAGCACCAAAACAACACCCAAACAATAAC
1 AAAATAGCACAAAAACAGCATCAAAACAACACC
* *
90264783 AAAACAGCACAAAAAACAGCATCACCAACAACACC
1 AAAATAGCAC-AAAAACAGCATCA-AAACAACACC
90264818 AAAA
1 AAAA
90264822 ACCTGCAAAA
Statistics
Matches: 82, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
31 1 0.01
32 7 0.09
33 47 0.57
34 15 0.18
35 12 0.15
ACGTcount: A:0.60, C:0.29, G:0.04, T:0.07
Consensus pattern (33 bp):
AAAATAGCACAAAAACAGCATCAAAACAACACC
Found at i:90264771 original size:11 final size:11
Alignment explanation
Indices: 90264684--90264803 Score: 69
Period size: 11 Copynumber: 10.8 Consensus size: 11
90264674 AAGTAGCAGT
* *
90264684 AAAATAGCACA
1 AAAACAGCACC
*
90264695 AAAACAGCATC
1 AAAACAGCACC
*
90264706 AAAACAACACC
1 AAAACAGCACC
* * *
90264717 AAAATACCATC
1 AAAACAGCACC
*
90264728 AAAACAGCACA
1 AAAACAGCACC
* * *
90264739 AAAATACCATC
1 AAAACAGCACC
*
90264750 AAAATAGCACC
1 AAAACAGCACC
*
90264761 AAAACAACACC
1 AAAACAGCACC
* ** *
90264772 CAAACAATAAC
1 AAAACAGCACC
*
90264783 AAAACAGCACAA
1 AAAACAGCAC-C
90264795 AAAACAGCA
1 AAAACAGCA
90264804 TCACCAACAA
Statistics
Matches: 80, Mismatches: 28, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
11 71 0.89
12 9 0.11
ACGTcount: A:0.61, C:0.28, G:0.05, T:0.07
Consensus pattern (11 bp):
AAAACAGCACC
Found at i:90264978 original size:9 final size:9
Alignment explanation
Indices: 90264964--90265005 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
90264954 ATCGAAGAAA
90264964 CATCGTCCT
1 CATCGTCCT
90264973 CATCGTCCT
1 CATCGTCCT
* *
90264982 CGTTGTCCT
1 CATCGTCCT
90264991 CATCGTCCT
1 CATCGTCCT
90265000 CATCGT
1 CATCGT
90265006 TCTTGCAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.10, C:0.40, G:0.14, T:0.36
Consensus pattern (9 bp):
CATCGTCCT
Found at i:90272317 original size:26 final size:27
Alignment explanation
Indices: 90272286--90272337 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
90272276 ATTGTTATAA
*
90272286 AATAAAGAGAGATA-GAAAG-AATAAAT
1 AATAAAGA-AAATATGAAAGCAATAAAT
90272312 AATAAAGAAAATATGAAAGCAATAAA
1 AATAAAGAAAATATGAAAGCAATAAA
90272338 GAATGTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 13 0.57
27 6 0.26
ACGTcount: A:0.67, C:0.02, G:0.15, T:0.15
Consensus pattern (27 bp):
AATAAAGAAAATATGAAAGCAATAAAT
Found at i:90277970 original size:47 final size:46
Alignment explanation
Indices: 90277858--90278075 Score: 232
Period size: 47 Copynumber: 4.7 Consensus size: 46
90277848 GATTTCTTGT
* * * **
90277858 GTGCCAGTGTAAGACAAGTCCGGGACATGCTTCGGCCACA-TTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACAGAGATGA
*
90277904 GTGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGATGA
*
90277952 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-AGA-GATGA
* * *
90277999 -TAGCCAGTGCAAGACGTGTCTGGGACATGCATCGGCTA-AGAG-T-T
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGATGA
*
90278043 GTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATC
90278076 AGCATGTAAT
Statistics
Matches: 148, Mismatches: 15, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
44 28 0.19
45 3 0.02
46 25 0.17
47 69 0.47
48 23 0.16
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.22
Consensus pattern (46 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATGA
Found at i:90278075 original size:91 final size:94
Alignment explanation
Indices: 90277855--90278075 Score: 274
Period size: 94 Copynumber: 2.4 Consensus size: 94
90277845 TCAGATTTCT
* * * ** *
90277855 TGTGTGCCAGTGTAAGACAAGTCCGGGACATGCTTCGGCCACATTATGAGTGCCAGTATAAGACC
1 TGTGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAGTACAAGACC
90277920 ATGTCTGGGACATGGCATCGGCACAGAGA
66 ATGTCTGGGACATGGCATCGGCACAGAGA
* * *
90277949 TGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGA-TAGCCAGTGCAAGA
1 TGTGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACGATGAGT-GCCAGTACAAGA
*
90278013 -CGTGTCTGGGACAT-GCATCGGCTA-AGAG-
64 CCATGTCTGGGACATGGCATCGGC-ACAGAGA
*
90278041 T-TGTGCTAGTGTAAGACATGTCTGGGACATGCATC
1 TGTGTGCCAGTGTAAGACATGTCTGGGACATGCATC
90278076 AGCATGTAAT
Statistics
Matches: 112, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
91 32 0.29
92 1 0.01
93 12 0.11
94 52 0.46
95 15 0.13
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (94 bp):
TGTGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAGTACAAGACC
ATGTCTGGGACATGGCATCGGCACAGAGA
Done.