Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 203 of 444
Found at i:56782530 original size:20 final size:20
Alignment explanation
Indices: 56782507--56782544 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56782497 TCAGCTCCAA
56782507 TCAGCTCACTTGAGCTTGTT
1 TCAGCTCACTTGAGCTTGTT
* *
56782527 TCAGCTTATTTGAGCTTG
1 TCAGCTCACTTGAGCTTG
56782545 ATTTAGCTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (20 bp):
TCAGCTCACTTGAGCTTGTT
Found at i:56782552 original size:20 final size:20
Alignment explanation
Indices: 56782516--56782553 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56782506 ATCAGCTCAC
56782516 TTGAGCTTGTTTCAGCTTAT
1 TTGAGCTTGTTTCAGCTTAT
56782536 TTGAGCTTGATTT-AGCTT
1 TTGAGCTTG-TTTCAGCTT
56782554 CTTTTCAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.16, C:0.13, G:0.21, T:0.50
Consensus pattern (20 bp):
TTGAGCTTGTTTCAGCTTAT
Found at i:56783450 original size:10 final size:10
Alignment explanation
Indices: 56783435--56783460 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
56783425 TAATGACTTG
56783435 TTCTAGATTA
1 TTCTAGATTA
56783445 TTCTAGATTA
1 TTCTAGATTA
56783455 TTCTAG
1 TTCTAG
56783461 TTACTTCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.50
Consensus pattern (10 bp):
TTCTAGATTA
Found at i:56785198 original size:26 final size:25
Alignment explanation
Indices: 56785149--56785198 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
56785139 AAGGAGTGTG
* *
56785149 AAAGAAAGCAAAAAGAGAATGAGAA
1 AAAGAAAGCAAAAAGAAAAAGAGAA
*
56785174 AAAGAAAGTGAAAAAGAAAAAGAGA
1 AAAGAAAG-CAAAAAGAAAAAGAGA
56785199 TCGAGATTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.70, C:0.02, G:0.24, T:0.04
Consensus pattern (25 bp):
AAAGAAAGCAAAAAGAAAAAGAGAA
Found at i:56785258 original size:41 final size:41
Alignment explanation
Indices: 56785169--56785260 Score: 100
Period size: 40 Copynumber: 2.3 Consensus size: 41
56785159 AAAAGAGAAT
*
56785169 GAGA-AAAAGAAAGTGAAAAAGAAAAAGAGATCGAGATTGA
1 GAGAGAAAAGAAAGTGAAAAAGAAAAAGAAATCGAGATTGA
* * * *
56785209 GAGTGAAAAGAATGTG-AGAAGAAAAAGAAATTGAG-TCTGAA
1 GAGAGAAAAGAAAGTGAAAAAGAAAAAGAAATCGAGAT-TG-A
56785250 GAGAGAAAAGA
1 GAGAGAAAAGA
56785261 TATTGAGCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.02
40 21 0.49
41 21 0.49
ACGTcount: A:0.57, C:0.02, G:0.29, T:0.12
Consensus pattern (41 bp):
GAGAGAAAAGAAAGTGAAAAAGAAAAAGAAATCGAGATTGA
Found at i:56785553 original size:36 final size:36
Alignment explanation
Indices: 56785506--56785580 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
56785496 CCAAAAGGTA
*
56785506 AGCAAGGTATGAGTTTTGAAGTCTTTAAAACATATC
1 AGCAAGGTATGAGTTTTGAAGTCTTTAAAACACATC
*
56785542 AGCAAGGTATGAGTTTTGAAGTTTTTAAAACACATC
1 AGCAAGGTATGAGTTTTGAAGTCTTTAAAACACATC
56785578 AGC
1 AGC
56785581 CTCATTTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (36 bp):
AGCAAGGTATGAGTTTTGAAGTCTTTAAAACACATC
Found at i:56787032 original size:20 final size:20
Alignment explanation
Indices: 56786996--56787033 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
56786986 ATCAGCTCAC
*
56786996 TTGAGTTTCTTTCAGCTTGT
1 TTGAGTTTATTTCAGCTTGT
56787016 TTGAGTTTGATTT-AGCTT
1 TTGAGTTT-ATTTCAGCTT
56787034 CCTTTCAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.13, C:0.11, G:0.21, T:0.55
Consensus pattern (20 bp):
TTGAGTTTATTTCAGCTTGT
Found at i:56789783 original size:30 final size:30
Alignment explanation
Indices: 56789688--56789784 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
56789678 AGCTCACTCC
* *
56789688 TAGCTC-ACTTTCAACTCAAGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCAAGAGCTAAAGCT
* * * **
56789718 TAGCTCAACTTCAGCTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCAAGAGCTAAAG-CT
* *
56789748 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCAAGAGCTAAAGCT
56789778 TAGCTCA
1 TAGCTCA
56789785 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.82
31 7 0.14
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCAAGAGCTAAAGCT
Found at i:56791452 original size:10 final size:11
Alignment explanation
Indices: 56791436--56791476 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
56791426 AATTATATAA
56791436 GAAAAAAAATC
1 GAAAAAAAATC
56791447 -AAAAAAAATC
1 GAAAAAAAATC
*
56791457 GAAAAAAATTC
1 GAAAAAAAATC
56791468 GAAAAAAAA
1 GAAAAAAAA
56791477 AGAAAGAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (11 bp):
GAAAAAAAATC
Found at i:56791481 original size:21 final size:20
Alignment explanation
Indices: 56791434--56791481 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
56791424 AAAATTATAT
56791434 AAGAAAAAAAATCAAAAAAA
1 AAGAAAAAAAATCAAAAAAA
* *
56791454 ATCGAAAAAAATTCGAAAAAAA
1 A-AGAAAAAAAATC-AAAAAAA
56791476 AAGAAA
1 AAGAAA
56791482 GAGAGGTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.61
22 8 0.35
ACGTcount: A:0.77, C:0.06, G:0.08, T:0.08
Consensus pattern (20 bp):
AAGAAAAAAAATCAAAAAAA
Found at i:56792370 original size:9 final size:10
Alignment explanation
Indices: 56792363--56792419 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
56792353 AAGAGAAAAC
56792363 AAAGAAAAGA
1 AAAGAAAAGA
56792373 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
56792385 AAAGAAGA-A
1 AAAGAAAAGA
56792394 AAAGAAAATGA
1 AAAGAAAA-GA
56792405 AATA-AAAAGA
1 AA-AGAAAAGA
56792415 AAAGA
1 AAAGA
56792420 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:56792386 original size:21 final size:20
Alignment explanation
Indices: 56792352--56792419 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
56792342 ACATTCTTGT
56792352 AAAGAGAAAA-CAAAGAAAAGA
1 AAAGA-AAAAGCAAA-AAAAGA
*
56792373 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAAGCAAAAAAAG-A
* *
56792394 AAAGAAAATGAAATAAAAAGA
1 AAAGAAAAAGCAA-AAAAAGA
56792415 AAAGA
1 AAAGA
56792420 GAGGCAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.20
21 27 0.68
22 5 0.12
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAAAAGCAAAAAAAGA
Found at i:56792387 original size:6 final size:5
Alignment explanation
Indices: 56792363--56792419 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
56792353 AAGAGAAAAC
*
56792363 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
56792410 AAAGA AAAGA
1 AAAGA AAAGA
56792420 GAGGCAAGAG
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:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:56792394 original size:15 final size:14
Alignment explanation
Indices: 56792363--56792419 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
56792353 AAGAGAAAAC
56792363 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
56792379 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
56792394 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
56792410 AAAGAAAAGA
1 AAAGAAAAGA
56792420 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:56792511 original size:12 final size:12
Alignment explanation
Indices: 56792481--56792512 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
56792471 AAAAGCCTTT
*
56792481 GAAAATCAAAAA
1 GAAAATGAAAAA
56792493 GAAAATGAAAAA
1 GAAAATGAAAAA
56792505 GAAAATGA
1 GAAAATGA
56792513 GATTGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.16, T:0.09
Consensus pattern (12 bp):
GAAAATGAAAAA
Found at i:56792522 original size:30 final size:30
Alignment explanation
Indices: 56792488--56792555 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
56792478 TTTGAAAATC
* *
56792488 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAACG-AAAAGAAATATGAGAGTG
* * *
56792518 AAAAAGAGAACGAAACGAAATTTGAGAGTG
1 AAAAAGAAAACGAAAAGAAATATGAGAGTG
56792548 AAAAAGAA
1 AAAAAGAA
56792556 TCCAGTGAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.63, C:0.03, G:0.22, T:0.12
Consensus pattern (30 bp):
AAAAAGAAAACGAAAAGAAATATGAGAGTG
Found at i:56794849 original size:30 final size:30
Alignment explanation
Indices: 56794753--56794850 Score: 76
Period size: 30 Copynumber: 3.3 Consensus size: 30
56794743 GAGCTCACTT
* *
56794753 TTAGCTC-ACTTTCAACTCACGAGCTAAACC
1 TTAGCTCAACTTT-AGCTCACGAGCTAAAGC
* * * **
56794783 TTAGCTCAACCTCAGC-CTAGGAG-TTTAGCC
1 TTAGCTCAACTTTAGCTC-ACGAGCTAAAG-C
*
56794813 TCAGCTCAACTTTAGCTCACGAGCTAAAGC
1 TTAGCTCAACTTTAGCTCACGAGCTAAAGC
56794843 TTAGCTCA
1 TTAGCTCA
56794851 TTTTAGTTTA
Statistics
Matches: 49, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
29 3 0.06
30 39 0.80
31 7 0.14
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.27
Consensus pattern (30 bp):
TTAGCTCAACTTTAGCTCACGAGCTAAAGC
Found at i:56813464 original size:29 final size:29
Alignment explanation
Indices: 56813431--56813490 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
56813421 ATAACCAAAC
*
56813431 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
56813460 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
56813489 CT
1 CT
56813491 TTGAATCCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:56813483 original size:15 final size:15
Alignment explanation
Indices: 56813437--56813484 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
56813427 AAACCTACAA
*
56813437 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
56813452 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
56813466 AAACTTCATATCCAT
1 AAACTTCATATCCAT
56813481 AAAC
1 AAAC
56813485 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:56816028 original size:27 final size:27
Alignment explanation
Indices: 56815992--56816142 Score: 198
Period size: 27 Copynumber: 5.6 Consensus size: 27
56815982 TTAGTTTATC
*
56815992 AAATTACCAAAATACCCTCGATTAACA
1 AAATTACCAAAATACCCTCGATTAGCA
56816019 AAATTACCAAAATACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTAGCA
* *
56816046 AAATTA-AAAAAAACCCTCGATTAGCA
1 AAATTACCAAAATACCCTCGATTAGCA
* * *
56816072 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTAGCA
* * *
56816099 AAATTACCAAAATACCCCCGATTTGTA
1 AAATTACCAAAATACCCTCGATTAGCA
56816126 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
56816143 CTATAAGGTA
Statistics
Matches: 112, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
26 26 0.23
27 84 0.75
28 2 0.02
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTAGCA
Found at i:56816074 original size:53 final size:54
Alignment explanation
Indices: 56815992--56816143 Score: 191
Period size: 53 Copynumber: 2.8 Consensus size: 54
56815982 TTAGTTTATC
* *
56815992 AAATTACCAAAATACCCTCGATTAACAAAATTACCAAAATACCCTCGA-TTAGCA
1 AAATTACAAAAATACCCTCGATTAGCAAAATTACCAAAATACCC-CGAGTTAGCA
* * * *
56816046 AAATTA-AAAAAAACCCTCGATTAGCAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACAAAAATACCCTCGATTAGCAAAATTACCAAAATACCCCGAGTTAGCA
* * * *
56816099 AAATTACCAAAATACCCCCGATTTGTAAAATTACCAAAATACCCC
1 AAATTACAAAAATACCCTCGATTAGCAAAATTACCAAAATACCCC
56816144 TATAAGGTAG
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
52 2 0.02
53 44 0.52
54 39 0.46
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (54 bp):
AAATTACAAAAATACCCTCGATTAGCAAAATTACCAAAATACCCCGAGTTAGCA
Found at i:56816157 original size:27 final size:27
Alignment explanation
Indices: 56816073--56816376 Score: 324
Period size: 27 Copynumber: 11.3 Consensus size: 27
56816063 CGATTAGCAA
** *
56816073 AATTACCAAAATACCCCTAGT-TTGTAA
1 AATTACCAAAATACCCCT-GTAGGGTAG
* ** *
56816100 AATTACCAAAATACCCCCG-ATTTGTAA
1 AATTACCAAAATACCCCTGTA-GGGTAG
* *
56816127 AATTACCAAAATACCCCTATAAGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
56816154 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
56816181 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
56816208 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
** * *
56816235 AATTACTGAAATACCCCTGTAAGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
56816262 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*** *
56816289 AATTATTGAAATACCCCTGTAAGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
56816316 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* ** *
56816343 AAATACTGAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
56816370 AATTACC
1 AATTACC
56816377 GAGATACCGT
Statistics
Matches: 236, Mismatches: 38, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.00
27 234 0.99
28 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:56816383 original size:27 final size:27
Alignment explanation
Indices: 56816127--56816384 Score: 327
Period size: 27 Copynumber: 9.6 Consensus size: 27
56816117 CGATTTGTAA
* * *
56816127 AATTACCAAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
56816154 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
56816181 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
56816208 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
56816235 AATTACTGAAATACCCCTGTAAGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
56816262 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
56816289 AATTATTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
56816316 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
56816343 AAATACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
56816370 AATTACCGAGATACC
1 AATTACCGAAATACC
56816385 GTCGTGGGGT
Statistics
Matches: 198, Mismatches: 33, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 198 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:56819309 original size:40 final size:40
Alignment explanation
Indices: 56819261--56819474 Score: 344
Period size: 40 Copynumber: 5.4 Consensus size: 40
56819251 GGACTAAGAT
*
56819261 CCGAAGGCATTTGTGCTAGTGATTATATCCGGCCTAAGAT-
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAG-TC
*
56819301 CTGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
*
56819341 CCGAAGGTATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
*
56819381 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
*
56819421 CCGAAGGCATTTGTGCTAGTGA--CTATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
*
56819459 CCGAAGGCATTCGTGC
1 CCGAAGGCATTTGTGC
56819475 GAGTTGCTAT
Statistics
Matches: 165, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
38 30 0.18
39 1 0.01
40 134 0.81
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
Found at i:56827291 original size:40 final size:40
Alignment explanation
Indices: 56827231--56827442 Score: 331
Period size: 40 Copynumber: 5.3 Consensus size: 40
56827221 TATTCGAATG
* *
56827231 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
*
56827271 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
56827311 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
56827351 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
56827391 ATGTCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
56827431 ATATCC-GGCTAA
1 ATATCCGGGCTAA
56827443 ATTGAAGGTA
Statistics
Matches: 164, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 7 0.04
40 155 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:56833274 original size:14 final size:14
Alignment explanation
Indices: 56833232--56833276 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
56833222 TTAAAGAAGC
56833232 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
56833246 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
56833259 AACTCATTTAATTA
1 AACTCATTAAATTA
56833273 AACT
1 AACT
56833277 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:56834807 original size:13 final size:13
Alignment explanation
Indices: 56834789--56834817 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
56834779 CGGCTAACCT
56834789 ACATAATTAAATA
1 ACATAATTAAATA
56834802 ACATAATTAAATA
1 ACATAATTAAATA
56834815 ACA
1 ACA
56834818 CACAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:56837235 original size:29 final size:29
Alignment explanation
Indices: 56837202--56837261 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
56837192 ATAACCAAAC
* *
56837202 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
56837231 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
56837260 CT
1 CT
56837262 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:56837254 original size:15 final size:15
Alignment explanation
Indices: 56837208--56837255 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
56837198 AAACCTACAA
*
56837208 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
56837223 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
56837237 AAACTTCATATCCAT
1 AAACTTCATATCCAT
56837252 AAAC
1 AAAC
56837256 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:56839770 original size:14 final size:14
Alignment explanation
Indices: 56839751--56839790 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
56839741 AACCGACCAA
* *
56839751 TTTGTTCGTATCCT
1 TTTGTTCCTACCCT
56839765 TTTGTTCCTACCCT
1 TTTGTTCCTACCCT
*
56839779 TTCGTTCCTACC
1 TTTGTTCCTACC
56839791 ATTCCATTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.07, C:0.33, G:0.10, T:0.50
Consensus pattern (14 bp):
TTTGTTCCTACCCT
Found at i:56840022 original size:10 final size:11
Alignment explanation
Indices: 56840007--56840035 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
56839997 ATACAAGTTA
56840007 AAAAAAATTC-
1 AAAAAAATTCG
56840017 AAAAAAATTCG
1 AAAAAAATTCG
56840028 AAAAAAAT
1 AAAAAAAT
56840036 AAAAAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.17
Consensus pattern (11 bp):
AAAAAAATTCG
Found at i:56845244 original size:19 final size:19
Alignment explanation
Indices: 56845220--56845259 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
56845210 AGCTCCCATG
56845220 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
56845239 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
56845258 TA
1 TA
56845260 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:56851072 original size:30 final size:30
Alignment explanation
Indices: 56851038--56851134 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
56851028 TAAACTAAAA
* *
56851038 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * * *
56851068 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* *
56851098 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGATTTAGCTCGTGAGCT-AAAGT
56851128 TGAGCTA
1 TGAGCTA
56851135 GGAGTGTGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
30 47 0.94
31 3 0.06
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:56854993 original size:30 final size:29
Alignment explanation
Indices: 56854948--56855032 Score: 109
Period size: 30 Copynumber: 2.8 Consensus size: 29
56854938 TTCTTTTGTT
56854948 TCAATTTCTTTTTCATCTTCTTTTTCACTC
1 TCAATTTCTTTTTCAT-TTCTTTTTCACTC
*
56854978 TCAAATTTC-TTTTCATTCTCTTTTTCATTC
1 TC-AATTTCTTTTTCATT-TCTTTTTCACTC
*
56855008 TCATTTTCTTTTTCATTTTCTTTTT
1 TCAATTTCTTTTTCA-TTTCTTTTT
56855033 GCTTTTCAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
29 6 0.12
30 35 0.71
31 8 0.16
ACGTcount: A:0.13, C:0.22, G:0.00, T:0.65
Consensus pattern (29 bp):
TCAATTTCTTTTTCATTTCTTTTTCACTC
Found at i:56855032 original size:6 final size:6
Alignment explanation
Indices: 56854946--56855031 Score: 50
Period size: 6 Copynumber: 14.5 Consensus size: 6
56854936 ATTTCTTTTG
* * * * * * *
56854946 TTTCAA TTTCTT TTTCAT CTTCTT TTTCAC TCTCAAA TTTC-T TTTCAT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTC-AT TTTCAT TTTCAT
* * * *
56854994 TCTCTT TTTCAT TCTCAT TTTCTT TTTCAT TTTC-T TTT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
56855032 TGCTTTTCAA
Statistics
Matches: 58, Mismatches: 20, Indels: 5
0.70 0.24 0.06
Matches are distributed among these distances:
5 8 0.14
6 46 0.79
7 4 0.07
ACGTcount: A:0.13, C:0.22, G:0.00, T:0.65
Consensus pattern (6 bp):
TTTCAT
Found at i:56855032 original size:18 final size:18
Alignment explanation
Indices: 56854983--56855038 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
56854973 CACTCTCAAA
*
56854983 TTTC-TTTTCATTCTCTT
1 TTTCATTTTCATTTTCTT
*
56855000 TTTCATTCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
56855018 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
56855037 TT
1 TT
56855039 CAAAGGCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 4 0.12
18 24 0.73
19 5 0.15
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:56855039 original size:12 final size:12
Alignment explanation
Indices: 56854946--56855032 Score: 59
Period size: 12 Copynumber: 7.2 Consensus size: 12
56854936 ATTTCTTTTG
*
56854946 TTTCAATTTCTT
1 TTTCATTTTCTT
*
56854958 TTTCATCTTCTT
1 TTTCATTTTCTT
* * **
56854970 TTTCACTCTCAAA
1 TTTCATTTTC-TT
*
56854983 TTTC-TTTTCAT
1 TTTCATTTTCTT
* * *
56854994 TCTCTTTTTCAT
1 TTTCATTTTCTT
*
56855006 TCTCATTTTCTT
1 TTTCATTTTCTT
56855018 TTTCATTTTCTT
1 TTTCATTTTCTT
56855030 TTT
1 TTT
56855033 GCTTTTCAAA
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
11 4 0.07
12 51 0.86
13 4 0.07
ACGTcount: A:0.13, C:0.22, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTCATTTTCTT
Found at i:56855111 original size:5 final size:5
Alignment explanation
Indices: 56855101--56855157 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
56855091 CTCTTGCCTC
*
56855101 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
56855148 TCTTT TCTTT
1 TCTTT TCTTT
56855158 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:56855141 original size:15 final size:14
Alignment explanation
Indices: 56855101--56855157 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
56855091 CTCTTGCCTC
*
56855101 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
56855116 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
56855131 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
56855148 TCTTTTCTTT
1 TCTTTTCTTT
56855158 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:56855158 original size:21 final size:21
Alignment explanation
Indices: 56855101--56855168 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
56855091 CTCTTGCCTC
* *
56855101 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
56855122 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
56855143 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
56855163 CTCTTT
1 -TCTTT
56855169 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:56856105 original size:11 final size:11
Alignment explanation
Indices: 56856091--56856126 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
56856081 ATTTTTTTTC
56856091 TTTTCGAATTT
1 TTTTCGAATTT
*
56856102 TTTTTGAATTT
1 TTTTCGAATTT
56856113 TTTTCG-ATTT
1 TTTTCGAATTT
56856123 TTTT
1 TTTT
56856127 TTACTTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.14, C:0.06, G:0.08, T:0.72
Consensus pattern (11 bp):
TTTTCGAATTT
Found at i:56856127 original size:11 final size:11
Alignment explanation
Indices: 56856086--56856127 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
56856076 TTCAGATTTT
56856086 TTTTCTTTTCGAA
1 TTTT-TTTTCG-A
56856099 TTTTTTTT-GA
1 TTTTTTTTCGA
*
56856109 ATTTTTTTCGA
1 TTTTTTTTCGA
56856120 TTTTTTTT
1 TTTTTTTT
56856128 TACTTGTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 8 0.31
11 10 0.38
12 4 0.15
13 4 0.15
ACGTcount: A:0.12, C:0.07, G:0.07, T:0.74
Consensus pattern (11 bp):
TTTTTTTTCGA
Found at i:56858594 original size:20 final size:19
Alignment explanation
Indices: 56858561--56858599 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
56858551 CGGTTCCAAG
56858561 AGCTCAACTCAGCTCCAACT
1 AGCTCAACTCAGCT-CAACT
* *
56858581 AGCTCAATTGAGCTCAACT
1 AGCTCAACTCAGCTCAACT
56858600 TTAATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.31, C:0.33, G:0.13, T:0.23
Consensus pattern (19 bp):
AGCTCAACTCAGCTCAACT
Found at i:56861652 original size:17 final size:18
Alignment explanation
Indices: 56861632--56861670 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
56861622 GAAAAAGAGC
*
56861632 AAAACAAAA-AAAGTTGA
1 AAAACAAAAGAAAGTGGA
*
56861649 AAAAGAAAAGAAAGTGGA
1 AAAACAAAAGAAAGTGGA
56861667 AAAA
1 AAAA
56861671 AAGACAGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.72, C:0.03, G:0.18, T:0.08
Consensus pattern (18 bp):
AAAACAAAAGAAAGTGGA
Found at i:56861681 original size:20 final size:21
Alignment explanation
Indices: 56861648--56861692 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
56861638 AAAAAAGTTG
*
56861648 AAAAAGAAAAGAAAGTG-GAA
1 AAAAAGAAAAGAAAGAGTGAA
* *
56861668 AAAAAGACAGGAAAGAGTGAA
1 AAAAAGAAAAGAAAGAGTGAA
56861689 AAAA
1 AAAA
56861693 TGAGTTGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.69, C:0.02, G:0.24, T:0.04
Consensus pattern (21 bp):
AAAAAGAAAAGAAAGAGTGAA
Found at i:56863250 original size:20 final size:21
Alignment explanation
Indices: 56863201--56863243 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
56863191 AAATGAGATG
56863201 AAACGAGCTAAATTCGAGCTC
1 AAACGAGCTAAATTCGAGCTC
*
56863222 AAACAAGCTAAA-TCGAGCTC
1 AAACGAGCTAAATTCGAGCTC
56863242 AA
1 AA
56863244 GTGAGCTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.44, C:0.23, G:0.16, T:0.16
Consensus pattern (21 bp):
AAACGAGCTAAATTCGAGCTC
Found at i:56866758 original size:39 final size:39
Alignment explanation
Indices: 56866708--56866793 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
56866698 TGATATTTGG
*
56866708 AACATATCCGGACTTGAGATCCGCAGGCTACGTGCTGGA
1 AACATATCCGGACCTGAGATCCGCAGGCTACGTGCTGGA
*
56866747 AACATATCCGGACCTGAGGTCCGCAGGCTACGTGCTGGA
1 AACATATCCGGACCTGAGATCCGCAGGCTACGTGCTGGA
*
56866786 AATATATC
1 AACATATC
56866794 TAGGCCTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.21
Consensus pattern (39 bp):
AACATATCCGGACCTGAGATCCGCAGGCTACGTGCTGGA
Found at i:56866822 original size:40 final size:39
Alignment explanation
Indices: 56866727--56866815 Score: 117
Period size: 39 Copynumber: 2.3 Consensus size: 39
56866717 GGACTTGAGA
* * *
56866727 TCCGCAGGCTACGTGCTGGAAACATATCCGGACCTGAGG
1 TCCGCAGGCTACGTGCTGGAAACATATCAGGACCTAAAG
*
56866766 TCCGCAGGCTACGTGCTGGAAATATATCTAGG-CCTAAAG
1 TCCGCAGGCTACGTGCTGGAAACATATC-AGGACCTAAAG
56866805 TCCCGCAGGCT
1 T-CCGCAGGCT
56866816 TTGTGCTAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
39 33 0.75
40 11 0.25
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.20
Consensus pattern (39 bp):
TCCGCAGGCTACGTGCTGGAAACATATCAGGACCTAAAG
Found at i:56872455 original size:13 final size:13
Alignment explanation
Indices: 56872437--56872461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56872427 AATAGTTGTG
56872437 TGTTATTTAATTA
1 TGTTATTTAATTA
56872450 TGTTATTTAATT
1 TGTTATTTAATT
56872462 TTGTAGGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:56875086 original size:19 final size:19
Alignment explanation
Indices: 56875062--56875098 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
56875052 CCATGCATTA
56875062 AACTAAGACAAATTAAATG
1 AACTAAGACAAATTAAATG
*
56875081 AACTAAGACAACTTAAAT
1 AACTAAGACAAATTAAAT
56875099 TGCTGTAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.14, G:0.08, T:0.22
Consensus pattern (19 bp):
AACTAAGACAAATTAAATG
Found at i:56876994 original size:30 final size:30
Alignment explanation
Indices: 56876960--56877056 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
56876950 AGCTCACTCC
56876960 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
56876990 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * * *
56877020 CAGCTCAACTTTAGCTCACAAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
56877050 TAGCTCA
1 TAGCTCA
56877057 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:56881636 original size:19 final size:19
Alignment explanation
Indices: 56881612--56881651 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
56881602 AGCTCCCATG
56881612 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
56881631 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
56881650 TA
1 TA
56881652 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:56882965 original size:19 final size:19
Alignment explanation
Indices: 56882941--56882980 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
56882931 AGCTCCCATG
56882941 TAGCTC-CACACCAGCTCAT
1 TAGCTCGCA-ACCAGCTCAT
*
56882960 TAGCTCGGAACCAGCTCAT
1 TAGCTCGCAACCAGCTCAT
56882979 TA
1 TA
56882981 TCAGCTCACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGCTCGCAACCAGCTCAT
Found at i:56884212 original size:14 final size:14
Alignment explanation
Indices: 56884190--56884237 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
56884180 ACCTAAACTG
* *
56884190 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
56884204 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
56884218 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
56884232 ACCATT
1 ACCATT
56884238 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:56884674 original size:373 final size:376
Alignment explanation
Indices: 56883984--56884732 Score: 1256
Period size: 373 Copynumber: 2.0 Consensus size: 376
56883974 TGTCGTACCC
*
56883984 GAACTTATCACTATTCGTAGTGTGGCGTTCAACATACCGAGGTTCCTATCTTGTTAGATAGTGGG
1 GAACTTATCACTATTCGTAGTGTGGCATTCAACATACCGAGGTTCCTATCTTGTTAGATAGTGGG
* *
56884049 TCGAGGTTTTCCCTTACCAACCCTATAACCGAACTCAAAAGGCTAAATCAACGGGTTGATACCAT
66 TCGAGGTTTTCCCTTACCAAACCTATAACCGAACTCAAAAGGCTAAATCAACGGGTCGATACCAT
*
56884114 TTCGGTATTTGGTTCTTGAAAGTACCTTTAGTAGTTCAAACCCATTCTTTCTTCTTACCTAATCA
131 TTCGGTATTTAGTTCTTGAAAGTACCTTTAGTAGTTCAAACCCATTCTTTCTTCTTACCTAATCA
* *
56884179 AACCTAAACTGACCAATTTGTTCATACCATTTTGTTCCTACCCTTTCGTTCCTACCATTCCATTC
196 AACCTAAACCGACCAATTTGTTCATACCATTTTGTTCCTACCCTTTCGTTACTACCATTCCATTC
* *
56884244 GTACCCCTCTTTCTACTCTGACTATACCTTCAACTCAACTAATCCTAACGAAACTTCTCGTAGAC
261 GTACCCCTCTTTCTACTCTGACTATACCCTCAACTCAACTAAACCTAACGAAACTTCTCGTAGAC
* * * *
56884309 GATCGGGCAATCTACATACGACTCGACTCTTCTCGAGATGGTTTGTATCAT
326 GATCGGGCAATCTACATACGACTCAACTCTTCCCGAGACGGTTCGTATCAT
*
56884360 GAACTTATCGCTATTCGTAGTGTGGCATTCAACATACCGAGGTTCCTATCTTGTTAGATAGTGGG
1 GAACTTATCACTATTCGTAGTGTGGCATTCAACATACCGAGGTTCCTATCTTGTTAGATAGTGGG
* *
56884425 TCGAGG-TTTCCCTTACCAAACCTATAACCGAACTCAAAAGGCTTAATCAATGGGTCGATACCAT
66 TCGAGGTTTTCCCTTACCAAACCTATAACCGAACTCAAAAGGCTAAATCAACGGGTCGATACCAT
*
56884489 TTCGGTA-TTAGTTCTTGAAAGTACCTTTAGTAGTTCAAACCCGTTC--TCTTCTTTACCTAATC
131 TTCGGTATTTAGTTCTTGAAAGTACCTTTAGTAGTTCAAACCCATTCTTTCTTC-TTACCTAATC
*
56884551 GAACCTAAACCGACCAATTTGTTCATATCC-TTTTGTTCCTACCCTTTCGTTACTACCATTCCAT
195 AAACCTAAACCGACCAATTTGTTCATA-CCATTTTGTTCCTACCCTTTCGTTACTACCATTCCAT
* * *
56884615 TCGTACCCCTCTTTCTACTTTGACTATACCCTCAACTCAACTAAACCTAGCGTAACTTCTCGTAG
259 TCGTACCCCTCTTTCTACTCTGACTATACCCTCAACTCAACTAAACCTAACGAAACTTCTCGTAG
*
56884680 ACGGTCGGGCAATCTACATACGACTCAACTCTTCCCGAGACGGTTCGTATCAT
324 ACGATCGGGCAATCTACATACGACTCAACTCTTCCCGAGACGGTTCGTATCAT
56884733 ACTCGATCAA
Statistics
Matches: 350, Mismatches: 21, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
372 5 0.01
373 176 0.50
374 39 0.11
375 61 0.17
376 69 0.20
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (376 bp):
GAACTTATCACTATTCGTAGTGTGGCATTCAACATACCGAGGTTCCTATCTTGTTAGATAGTGGG
TCGAGGTTTTCCCTTACCAAACCTATAACCGAACTCAAAAGGCTAAATCAACGGGTCGATACCAT
TTCGGTATTTAGTTCTTGAAAGTACCTTTAGTAGTTCAAACCCATTCTTTCTTCTTACCTAATCA
AACCTAAACCGACCAATTTGTTCATACCATTTTGTTCCTACCCTTTCGTTACTACCATTCCATTC
GTACCCCTCTTTCTACTCTGACTATACCCTCAACTCAACTAAACCTAACGAAACTTCTCGTAGAC
GATCGGGCAATCTACATACGACTCAACTCTTCCCGAGACGGTTCGTATCAT
Found at i:56885111 original size:14 final size:14
Alignment explanation
Indices: 56885094--56885133 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
56885084 CGAATGGAAT
*
56885094 GGTAGGAACGAAAG
1 GGTAGGAACAAAAG
56885108 GGTAGGAACAAAAG
1 GGTAGGAACAAAAG
* *
56885122 GATATGAACAAA
1 GGTAGGAACAAA
56885134 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.07, G:0.33, T:0.10
Consensus pattern (14 bp):
GGTAGGAACAAAAG
Found at i:56891426 original size:18 final size:17
Alignment explanation
Indices: 56891390--56891432 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
56891380 TCTTTTTCTT
*
56891390 TTTCGTTTTCTTTTTAA
1 TTTCTTTTTCTTTTTAA
56891407 TTTCTTTTTCTTTCTTAA
1 TTTCTTTTTCTTT-TTAA
56891425 TTTCTTTT
1 TTTCTTTT
56891433 CAAATTCGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.09, C:0.14, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTCTTTTTCTTTTTAA
Found at i:56896723 original size:27 final size:27
Alignment explanation
Indices: 56896693--56896745 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
56896683 AGGAAACAAG
56896693 AAAAGAAAA-AGATGA-AAAAAAGAGATC
1 AAAAGAAAAGAGA-GACAAAAAA-AGATC
56896720 AAAAGAAAAGAGAGACAAAAAAAGAT
1 AAAAGAAAAGAGAGACAAAAAAAGAT
56896746 TATGAGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.72, C:0.04, G:0.19, T:0.06
Consensus pattern (27 bp):
AAAAGAAAAGAGAGACAAAAAAAGATC
Found at i:56896846 original size:12 final size:12
Alignment explanation
Indices: 56896826--56896868 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
56896816 GAGAGGAAAC
*
56896826 AAAATGAGATTG
1 AAAAAGAGATTG
56896838 AAAAAGAGATTG
1 AAAAAGAGATTG
* *
56896850 AAAAAGAGAATC
1 AAAAAGAGATTG
56896862 AAAAAGA
1 AAAAAGA
56896869 AAAAGAGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.63, C:0.02, G:0.21, T:0.14
Consensus pattern (12 bp):
AAAAAGAGATTG
Found at i:56899648 original size:46 final size:46
Alignment explanation
Indices: 56899590--56899812 Score: 231
Period size: 46 Copynumber: 4.8 Consensus size: 46
56899580 TGTAACCCGC
* * ** *
56899590 CCATAAGCGAACTCGGACTCAACTCAAAAAGCTT-GGGTGCTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAG-TTCGGATGCTCGCAT
* *
56899636 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG-CTCGCAT
* * *
56899682 ACATTTCA-TGAACTCAGACTCAACTCAACGAGCTC-GA-GCGTTCGCAT
1 CCA--TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGC--TCGCAT
* * *
56899729 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCTCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCTCGCAT
*
56899775 CCATAAGTGAACTCAGACTCAACTCAACGAGTTTGGAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGAT
56899813 TCCCAAATAT
Statistics
Matches: 147, Mismatches: 20, Indels: 20
0.79 0.11 0.11
Matches are distributed among these distances:
44 1 0.01
45 5 0.03
46 104 0.71
47 34 0.23
48 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCTCGCAT
Found at i:56899707 original size:93 final size:93
Alignment explanation
Indices: 56899598--56899767 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
56899588 GCCCATAAGC
* * * *
56899598 GAACTCGGACTCAACTCAAAAAGCTTGGGTGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAAAAAGCTCGAGCGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
56899663 CGAGTTCGGATGCCTAGTTACATTTCAT
66 CGAGTTCGGATGCCTAGTTACATTTCAT
** * *
56899691 GAACTCAGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAAAAAGCTCGAGCGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
56899756 CGAGTTCGGATG
66 CGAGTTCGGATG
56899768 TTCTCATCCA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAAAAAGCTCGAGCGCTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAT
Found at i:56903247 original size:27 final size:27
Alignment explanation
Indices: 56903217--56903295 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
56903207 CTCAACGAGT
56903217 TCGGATGCCTAGTTACATCTCACGAAC
1 TCGGATGCCTAGTTACATCTCACGAAC
* **
56903244 TCGGA---CTCA---AC-TC-AACGAGT
1 TCGGATGCCT-AGTTACATCTCACGAAC
56903264 TCGGATGCCTAGTTACATCTCACGAAC
1 TCGGATGCCTAGTTACATCTCACGAAC
56903291 TCGGA
1 TCGGA
56903296 CTCAACTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 18
0.61 0.10 0.30
Matches are distributed among these distances:
20 9 0.24
21 2 0.05
22 3 0.08
23 2 0.05
24 2 0.05
25 3 0.08
26 2 0.05
27 14 0.38
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (27 bp):
TCGGATGCCTAGTTACATCTCACGAAC
Found at i:56903260 original size:47 final size:47
Alignment explanation
Indices: 56903194--56903365 Score: 246
Period size: 47 Copynumber: 3.7 Consensus size: 47
56903184 ATCCATAAGT
56903194 GAACTCGG-CTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
56903240 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
56903287 GAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-TCA-C
56903333 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
56903366 CAAATATCCC
Statistics
Matches: 116, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 41 0.35
47 69 0.59
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56907829 original size:29 final size:29
Alignment explanation
Indices: 56907795--56907866 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
56907785 ATATTCATAT
*
56907795 GGCCCATTAGGCCCAAATCACCTGTATAG
1 GGCCCATTAGGCCCAAATCACATGTATAG
* *
56907824 GGCCCATTAGGCCCAAATCACATTTATAT
1 GGCCCATTAGGCCCAAATCACATGTATAG
*
56907853 GGCCCGTT-GGCCCA
1 GGCCCATTAGGCCCA
56907867 GTCACATTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 6 0.15
29 33 0.85
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (29 bp):
GGCCCATTAGGCCCAAATCACATGTATAG
Found at i:56909255 original size:16 final size:16
Alignment explanation
Indices: 56909236--56909279 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
56909226 AAATAAAGAA
56909236 AATTTAGGATTTTGAG
1 AATTTAGGATTTTGAG
*
56909252 AATTCAGGATTTTGAG
1 AATTTAGGATTTTGAG
* *
56909268 ATTTTTGGATTT
1 AATTTAGGATTT
56909280 CAGGATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.27, C:0.02, G:0.23, T:0.48
Consensus pattern (16 bp):
AATTTAGGATTTTGAG
Found at i:56911824 original size:93 final size:93
Alignment explanation
Indices: 56911714--56911884 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
56911704 GCCCATAAGT
* * *
56911714 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAATTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
56911779 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
56911807 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
56911872 CGAGTTCGGATGC
66 CGAGTTCGGATGC
56911885 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56911881 original size:46 final size:46
Alignment explanation
Indices: 56911706--56911881 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
56911696 TGTAACCCGC
* * *
56911706 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
56911752 CCATAATTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * *
56911802 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
56911845 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56911882 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:56912337 original size:30 final size:30
Alignment explanation
Indices: 56912303--56912362 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
56912293 ATTTAATACG
56912303 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
56912333 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
56912363 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:56916846 original size:38 final size:41
Alignment explanation
Indices: 56916743--56916836 Score: 109
Period size: 44 Copynumber: 2.2 Consensus size: 41
56916733 TCCCAAATAG
* * *
56916743 GGTCTTATACGAAATCAGATACGATGTCGATGTCCCAGACAT
1 GGTCTTACACGAATTCA-ATTCGATGTCGATGTCCCAGACAT
56916785 GGTCTTACACGTAAATTTCAATTCGATGTCTG-TGTCCCAGACAT
1 GGTCTTACACG--AA-TTCAATTCGATGTC-GATGTCCCAGACAT
56916829 GGTCTTAC
1 GGTCTTAC
56916837 CCGATAATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
42 10 0.22
44 31 0.69
45 4 0.09
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (41 bp):
GGTCTTACACGAATTCAATTCGATGTCGATGTCCCAGACAT
Found at i:56928799 original size:99 final size:99
Alignment explanation
Indices: 56928628--56928809 Score: 339
Period size: 99 Copynumber: 1.8 Consensus size: 99
56928618 TACTGTGAGG
56928628 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATAATTGGTCGCATGTGTAGTACT
56928693 AAGTGCAGGCTACTATGCTACAAGAAAACTATGA
66 AAGTGCAGGCTACTATGCTACAAGAAAACTATGA
*
56928727 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-GATTATTGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGGATAATTGGTCGCATGTGTAGTAC
56928791 TAAGTGCAGGCTACTATGC
65 TAAGTGCAGGCTACTATGC
56928810 GTACCAGATA
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
99 79 0.98
100 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCTACAAGAAAACTATGA
Found at i:56928814 original size:49 final size:49
Alignment explanation
Indices: 56928633--56928819 Score: 243
Period size: 49 Copynumber: 3.8 Consensus size: 49
56928623 TGAGGTCACG
*
56928633 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCA-GATAATTGGTCGCA
* * * * * *
56928682 TGTGTAGTACTAAGTGCAGGCTACTATGC-TACAAGAAAACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-TGGTCGCA
* *
56928732 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
*
56928781 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
56928820 GCTTCGGCTA
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
48 6 0.05
49 70 0.60
50 33 0.28
51 7 0.06
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
Found at i:56933793 original size:30 final size:30
Alignment explanation
Indices: 56933757--56933853 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
56933747 AGCTCACTCC
*
56933757 TAGCTCATA-TTCAGCTCATGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
56933787 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
56933817 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
56933847 TAGCTCA
1 TAGCTCA
56933854 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:56938187 original size:48 final size:51
Alignment explanation
Indices: 56938055--56938192 Score: 176
Period size: 51 Copynumber: 2.8 Consensus size: 51
56938045 ACTAGTCATG
* *
56938055 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-AAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCAGATAACTGTGATCACA
* * * * *
56938106 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTA-T-TGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACA
56938155 TGTGTAGTACTAA-TGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
56938193 GCTTCGGCTA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
48 22 0.29
49 18 0.24
50 4 0.05
51 32 0.42
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTGTGATCACA
Found at i:56946841 original size:13 final size:13
Alignment explanation
Indices: 56946823--56946847 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56946813 TAACCTACAA
56946823 AATTAAATAACAT
1 AATTAAATAACAT
56946836 AATTAAATAACA
1 AATTAAATAACA
56946848 CACAACTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:56946891 original size:21 final size:22
Alignment explanation
Indices: 56946867--56946911 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
56946857 TCATATAATT
*
56946867 ATAATTTAAAAT-AATAACTAA
1 ATAACTTAAAATCAATAACTAA
*
56946888 ATAACTTAATATCAATAACTAA
1 ATAACTTAAAATCAATAACTAA
56946910 AT
1 AT
56946912 TTGAACACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (22 bp):
ATAACTTAAAATCAATAACTAA
Found at i:56947139 original size:20 final size:20
Alignment explanation
Indices: 56947092--56947139 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
56947082 AGTAAGCTCG
56947092 ATTGAGCTCAAACGAGCTGA
1 ATTGAGCTCAAACGAGCTGA
*** *
56947112 AACAAGCTCAAATGAGCTGA
1 ATTGAGCTCAAACGAGCTGA
*
56947132 GTTGAGCT
1 ATTGAGCT
56947140 GGACGGAGCT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (20 bp):
ATTGAGCTCAAACGAGCTGA
Found at i:56948750 original size:18 final size:19
Alignment explanation
Indices: 56948727--56948765 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
56948717 TTTATCTCAA
*
56948727 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
56948745 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
56948764 TT
1 TT
56948766 CTCTCTCAAA
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:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:56948781 original size:48 final size:49
Alignment explanation
Indices: 56948729--56948832 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 49
56948719 TATCTCAATT
* * *
56948729 TCTTTTTCCACTCT-TTTTTC-TTGTTCACATTCTTTTTCTCTCTCAAAC
1 TCTTTTTCCACTCTCTTTTTCAAT-CTCACATTCTTTTTCACTCTCAAAC
* ** *
56948777 TCTTTTT-CATTCTCTTTTTCAATCTCATTTTCTTTTTCACTCTCAATC
1 TCTTTTTCCACTCTCTTTTTCAATCTCACATTCTTTTTCACTCTCAAAC
56948825 TCTTTTTC
1 TCTTTTTC
56948833 TTTTTCTTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
47 5 0.11
48 40 0.87
49 1 0.02
ACGTcount: A:0.12, C:0.28, G:0.01, T:0.59
Consensus pattern (49 bp):
TCTTTTTCCACTCTCTTTTTCAATCTCACATTCTTTTTCACTCTCAAAC
Found at i:56948804 original size:18 final size:18
Alignment explanation
Indices: 56948783--56948832 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
56948773 AAACTCTTTT
56948783 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
56948801 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
56948819 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
56948833 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Found at i:56948822 original size:24 final size:24
Alignment explanation
Indices: 56948758--56948839 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
56948748 CTTGTTCACA
*
56948758 TTCTTTTTCTCTCTCAAACTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
* * * * *
56948782 TTCATTCTCTTTTTCAATCTCATT
1 TTCTTTTTCTCTCTCAATCTCTTT
*
56948806 TTCTTTTTCACTCTCAATCTCTTT
1 TTCTTTTTCTCTCTCAATCTCTTT
56948830 TTCTTTTTCT
1 TTCTTTTTCT
56948840 TTCATTTCTT
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.12, C:0.27, G:0.00, T:0.61
Consensus pattern (24 bp):
TTCTTTTTCTCTCTCAATCTCTTT
Found at i:56948891 original size:42 final size:42
Alignment explanation
Indices: 56948836--56948932 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
56948826 CTTTTTCTTT
* * * *
56948836 TTCTTTCA-TTTCTTTGTTTCTTTTCTTGATTTCATTCAAGA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
56948877 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
1 TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
*
56948919 TCCTCTCATTTTCT
1 TTCTCTCATTTTCT
56948933 CTCATAATCT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 7 0.14
42 43 0.86
ACGTcount: A:0.14, C:0.23, G:0.05, T:0.58
Consensus pattern (42 bp):
TTCTCTCATTTTCTTTGTTTCTTCTCTCGATTTCATTCAAAA
Found at i:56951069 original size:13 final size:13
Alignment explanation
Indices: 56951051--56951075 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56951041 TAACCTACAA
56951051 AATTAAATAACAT
1 AATTAAATAACAT
56951064 AATTAAATAACA
1 AATTAAATAACA
56951076 CACAACTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:56952993 original size:22 final size:20
Alignment explanation
Indices: 56952961--56953009 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
56952951 GCCAAATTTA
56952961 TGAACTATTTTAATACATTAGTG
1 TGAAC-ATTTTAAT-CATT-GTG
* *
56952984 TGAACATTTTTATTATTGTG
1 TGAACATTTTAATCATTGTG
56953004 TGAACA
1 TGAACA
56953010 CCTAGATGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 3 0.12
22 7 0.29
23 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
TGAACATTTTAATCATTGTG
Found at i:56954682 original size:12 final size:12
Alignment explanation
Indices: 56954674--56954698 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56954664 TTTGAAAAGC
56954674 AAAAAGAAAATG
1 AAAAAGAAAATG
56954686 AAAAAGAAAATG
1 AAAAAGAAAATG
56954698 A
1 A
56954699 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:56954695 original size:18 final size:18
Alignment explanation
Indices: 56954668--56954723 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
56954658 AAAGCCTTTG
56954668 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
56954687 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
56954705 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
56954722 AA
1 AA
56954724 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:56954708 original size:30 final size:31
Alignment explanation
Indices: 56954674--56954755 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
56954664 TTTGAAAAGC
*
56954674 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
56954704 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
56954734 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
56954756 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:56957907 original size:40 final size:40
Alignment explanation
Indices: 56957854--56958007 Score: 173
Period size: 40 Copynumber: 3.9 Consensus size: 40
56957844 TTATAGTGAT
* * * * ***
56957854 TCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
*
56957894 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* **
56957934 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTAC
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* * * *
56957974 TAGCATAATTGCCTTCGGGACTTAGCCCGGATAT
1 TCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
56958008 CATTCCAATG
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
Found at i:56957920 original size:80 final size:80
Alignment explanation
Indices: 56957826--56958007 Score: 202
Period size: 80 Copynumber: 2.3 Consensus size: 80
56957816 GCTCGATTGT
* * *** * * * **
56957826 CTTCGGGACCTAGCCCAGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
56957891 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* * *
56957906 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
56957971 TACTAGCATAATTGC
66 AACTAGCACAAATGC
*
56957986 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCAGATAT
56958008 CATTCCAATG
Statistics
Matches: 84, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCAGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:56960073 original size:20 final size:21
Alignment explanation
Indices: 56960042--56960086 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
56960032 AGCTCCGTCC
56960042 AGCTCAAATCCAGCTTATTC-G
1 AGCTCAAATCCAGCTT-TTCTG
*
56960063 AGCTC-AATCCATCTTTTCTG
1 AGCTCAAATCCAGCTTTTCTG
56960083 AGCT
1 AGCT
56960087 AAACCGATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 3 0.14
20 14 0.64
21 5 0.23
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.33
Consensus pattern (21 bp):
AGCTCAAATCCAGCTTTTCTG
Found at i:56961512 original size:93 final size:93
Alignment explanation
Indices: 56961405--56961576 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
56961395 GCCCATAAGT
*
56961405 GAACTCGGACTCAACTCAACGAGCTCGGGC-GTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACAG-TCGCATCCATAAGTGAACTCGGACTCAACTCA
56961469 ACAAGCTCGGATGCCTAGTTACATCTCTC
65 ACAAGCTCGGATGCCTAGTTACATCTCTC
*
56961498 GAACTCGGACTCAACTCAACGAGTTCGGACAGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACAGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
56961563 CGAGTTCGGATGCC
66 CAAGCTCGGATGCC
56961577 CAAACATCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
93 73 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACAGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:56961572 original size:46 final size:46
Alignment explanation
Indices: 56961397--56961572 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
56961387 TGTAACCCGC
*
56961397 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAG-TCGCAT
* **
56961443 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-AGTCGCAT
* *
56961493 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACAGTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAGTCGCAT
*
56961536 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
56961573 TGCCCAAACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 64 0.58
47 27 0.25
49 1 0.01
50 6 0.05
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAGTCGCAT
Found at i:56963821 original size:13 final size:13
Alignment explanation
Indices: 56963803--56963841 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
56963793 CGAATGGAAT
*
56963803 GGTAGGAACGAAA
1 GGTAGGAACAAAA
56963816 GGTAGGAACAAAA
1 GGTAGGAACAAAA
*
56963829 GGATACGAACAAA
1 GG-TAGGAACAAA
56963842 TTGGTCGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.51, C:0.10, G:0.31, T:0.08
Consensus pattern (13 bp):
GGTAGGAACAAAA
Found at i:56969922 original size:30 final size:30
Alignment explanation
Indices: 56969827--56969923 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
56969817 AGCTCACTCC
*
56969827 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAACCT
* * * * * *
56969857 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* * *
56969887 CAGCTCAACTTTAGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
56969917 TAGCTCA
1 TAGCTCA
56969924 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
30 46 0.92
31 4 0.08
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:56973318 original size:13 final size:13
Alignment explanation
Indices: 56973300--56973324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56973290 TGGTCATCAT
56973300 GGTGTGAACACAA
1 GGTGTGAACACAA
56973313 GGTGTGAACACA
1 GGTGTGAACACA
56973325 TGATCAATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:56976180 original size:30 final size:30
Alignment explanation
Indices: 56976085--56976181 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 30
56976075 AGCTCACTCC
* *
56976085 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * **
56976115 TAGCTCAACTTCAGCTTC-GGAG-TTTAGCCT
1 TAGCTCAACTTTAGC-TCACGAGCTAAAG-CT
* *
56976145 CAGCTCAACTTTAGCTCATGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
56976175 TAGCTCA
1 TAGCTCA
56976182 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
29 4 0.08
30 37 0.74
31 9 0.18
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:56978772 original size:12 final size:11
Alignment explanation
Indices: 56978746--56978791 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 11
56978736 GAAAACAATG
56978746 AAAAGAAAAGA
1 AAAAGAAAAGA
*
56978757 AAAAGCAAAAGC
1 AAAAG-AAAAGA
56978769 AAAAG--AAGA
1 AAAAGAAAAGA
56978778 AAAAGAAAATGA
1 AAAAGAAAA-GA
56978790 AA
1 AA
56978792 TAAAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
9 8 0.28
11 7 0.24
12 14 0.48
ACGTcount: A:0.76, C:0.04, G:0.17, T:0.02
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:56978881 original size:12 final size:12
Alignment explanation
Indices: 56978873--56978897 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56978863 TTTGAAAAGC
56978873 AAAAAGAAAATG
1 AAAAAGAAAATG
56978885 AAAAAGAAAATG
1 AAAAAGAAAATG
56978897 A
1 A
56978898 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:56978894 original size:18 final size:18
Alignment explanation
Indices: 56978867--56978922 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
56978857 AAAGCCTTTG
*
56978867 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAATGAAAATGA
* *
56978886 AAAAGAAAATGAGATTGA
1 AAAAGAAAATGAAAATGA
*
56978904 AAAAGAGAATGAAAA-GA
1 AAAAGAAAATGAAAATGA
56978921 AA
1 AA
56978923 TTTGAGAGCG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
17 4 0.13
18 22 0.71
19 5 0.16
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.09
Consensus pattern (18 bp):
AAAAGAAAATGAAAATGA
Found at i:56978907 original size:30 final size:31
Alignment explanation
Indices: 56978873--56978954 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
56978863 TTTGAAAAGC
**
56978873 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGCG
* *
56978903 AAAAAGAGAATG-AAAAGAAATTTGAGAGCG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGCG
* *
56978933 AAAAAGAAGATGAAAAATAAAT
1 AAAAAGAAAATGAAAAAGAAAT
56978955 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 27 0.63
31 8 0.19
ACGTcount: A:0.65, C:0.01, G:0.21, T:0.13
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGCG
Found at i:56980293 original size:14 final size:14
Alignment explanation
Indices: 56980271--56980315 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
56980261 TTAAAGAAGC
56980271 AACTCATTAAATTA
1 AACTCATTAAATTA
*
56980285 AATTCATTAAA-TA
1 AACTCATTAAATTA
*
56980298 AACTCATTTAATTA
1 AACTCATTAAATTA
56980312 AACT
1 AACT
56980316 AAGATGAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:56980353 original size:22 final size:22
Alignment explanation
Indices: 56980327--56980396 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
56980317 AGATGAGTTG
56980327 TATTAATGACCAGCAACTCATT
1 TATTAATGACCAGCAACTCATT
* *
56980349 TATTAA--ACTA--AGA-TGAGTT
1 TATTAATGACCAGCA-ACTCA-TT
56980368 GTATTAATGACCAGCAACTCATT
1 -TATTAATGACCAGCAACTCATT
56980391 TATTAA
1 TATTAA
56980397 ACTAAGAGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 9 0.25
22 15 0.42
23 3 0.08
24 3 0.08
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (22 bp):
TATTAATGACCAGCAACTCATT
Found at i:56980359 original size:42 final size:42
Alignment explanation
Indices: 56980298--56980403 Score: 203
Period size: 42 Copynumber: 2.5 Consensus size: 42
56980288 TCATTAAATA
56980298 AACTCATTTAATTAAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTT-ATTAAACTAAGATGAGTTGTATTAATGACCAGC
56980341 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
56980383 AACTCATTTATTAAACTAAGA
1 AACTCATTTATTAAACTAAGA
56980404 GGCTTAAATG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 54 0.86
43 9 0.14
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (42 bp):
AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
Found at i:56985635 original size:12 final size:12
Alignment explanation
Indices: 56985620--56985665 Score: 69
Period size: 11 Copynumber: 4.0 Consensus size: 12
56985610 TTTCAGATTT
56985620 TTTTTTTTTGAA
1 TTTTTTTTTGAA
56985632 TTTTTTTTTGAA
1 TTTTTTTTTGAA
*
56985644 -TTTTTTTCG-A
1 TTTTTTTTTGAA
56985654 TTTTTTTTTGAA
1 TTTTTTTTTGAA
56985666 ACTTACTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 1 0.03
11 16 0.53
12 13 0.43
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.74
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:56985635 original size:13 final size:13
Alignment explanation
Indices: 56985619--56985650 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
56985609 TTTTCAGATT
56985619 TTTTTTTTTTGAA
1 TTTTTTTTTTGAA
56985632 -TTTTTTTTTGAA
1 TTTTTTTTTTGAA
56985644 TTTTTTT
1 TTTTTTT
56985651 CGATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (13 bp):
TTTTTTTTTTGAA
Found at i:56986837 original size:14 final size:14
Alignment explanation
Indices: 56986815--56986859 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
56986805 TTAAAGAAGC
56986815 AACTCATTAAATTA
1 AACTCATTAAATTA
*
56986829 AATTCATTAAA-TA
1 AACTCATTAAATTA
*
56986842 AACTCATTTAATTA
1 AACTCATTAAATTA
56986856 AACT
1 AACT
56986860 AAGATGAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:56986897 original size:22 final size:22
Alignment explanation
Indices: 56986871--56986940 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
56986861 AGATGAGTTG
56986871 TATTAATGACCAGCAACTCATT
1 TATTAATGACCAGCAACTCATT
* *
56986893 TATTAA--ACTA--AGA-TGAGTT
1 TATTAATGACCAGCA-ACTCA-TT
56986912 GTATTAATGACCAGCAACTCATT
1 -TATTAATGACCAGCAACTCATT
56986935 TATTAA
1 TATTAA
56986941 ACTAAGAGGC
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
18 3 0.08
19 3 0.08
20 9 0.25
22 15 0.42
23 3 0.08
24 3 0.08
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (22 bp):
TATTAATGACCAGCAACTCATT
Found at i:56986903 original size:42 final size:42
Alignment explanation
Indices: 56986842--56986947 Score: 203
Period size: 42 Copynumber: 2.5 Consensus size: 42
56986832 TCATTAAATA
56986842 AACTCATTTAATTAAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTT-ATTAAACTAAGATGAGTTGTATTAATGACCAGC
56986885 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
1 AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
56986927 AACTCATTTATTAAACTAAGA
1 AACTCATTTATTAAACTAAGA
56986948 GGCTTAAATG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 54 0.86
43 9 0.14
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (42 bp):
AACTCATTTATTAAACTAAGATGAGTTGTATTAATGACCAGC
Found at i:56991192 original size:14 final size:15
Alignment explanation
Indices: 56991143--56991192 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
56991133 GTATCTTGGG
*
56991143 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
56991158 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
56991173 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
56991187 TTTCTT
1 TTTCTT
56991193 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:57001344 original size:32 final size:34
Alignment explanation
Indices: 57001308--57001388 Score: 105
Period size: 32 Copynumber: 2.5 Consensus size: 34
57001298 CATGAGAGTT
* *
57001308 ACATAATGCATGACTTTATT-AAA-ATGTAGAAC
1 ACATAATGCATGACATAATTAAAATATGTAGAAC
* *
57001340 ACATAATGCATGTCATAATTAAAATATGTAGATC
1 ACATAATGCATGACATAATTAAAATATGTAGAAC
57001374 A-ATAATGCATGACAT
1 ACATAATGCATGACAT
57001389 TAACTAAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
32 17 0.40
33 16 0.38
34 9 0.21
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.31
Consensus pattern (34 bp):
ACATAATGCATGACATAATTAAAATATGTAGAAC
Found at i:57004120 original size:20 final size:19
Alignment explanation
Indices: 57004097--57004136 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
57004087 CGTTTCCATG
57004097 AGCTCAACTCAGCTCCATCT
1 AGCTCAACTCAGCT-CATCT
* *
57004117 AGCTCAATTGAGCTCATCT
1 AGCTCAACTCAGCTCATCT
57004136 A
1 A
57004137 TAATTTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.28
Consensus pattern (19 bp):
AGCTCAACTCAGCTCATCT
Found at i:57007021 original size:27 final size:28
Alignment explanation
Indices: 57006967--57007034 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
57006957 ATTTGACTTA
* *
57006967 AAGACAAATTTAAATCATGCAATAAACT
1 AAGACAAATTAAAAACATGCAATAAACT
* *
57006995 AAGACAAATTAAAAACATG-TATGAACT
1 AAGACAAATTAAAAACATGCAATAAACT
*
57007022 -AGACACATTAAAA
1 AAGACAAATTAAAA
57007035 TTTGGCTGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 12 0.34
27 6 0.17
28 17 0.49
ACGTcount: A:0.56, C:0.13, G:0.09, T:0.22
Consensus pattern (28 bp):
AAGACAAATTAAAAACATGCAATAAACT
Found at i:57007342 original size:20 final size:20
Alignment explanation
Indices: 57007297--57007344 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
57007287 AATAAACGGA
57007297 ATTGAGCTCAAACGAGCTAG
1 ATTGAGCTCAAACGAGCTAG
*
57007317 AATGAGCTCAAATC-AGCTAG
1 ATTGAGCTCAAA-CGAGCTAG
*
57007337 TTTGAGCT
1 ATTGAGCT
57007345 GAACGAAGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (20 bp):
ATTGAGCTCAAACGAGCTAG
Found at i:57011274 original size:11 final size:13
Alignment explanation
Indices: 57011249--57011280 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
57011239 ACAAGTTTGA
57011249 AAAAAAAATTCCG
1 AAAAAAAATTCCG
57011262 AAAAAAAA-T-CG
1 AAAAAAAATTCCG
57011273 AAAAAAAA
1 AAAAAAAA
57011281 GTGATTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.53
12 1 0.05
13 8 0.42
ACGTcount: A:0.75, C:0.09, G:0.06, T:0.09
Consensus pattern (13 bp):
AAAAAAAATTCCG
Found at i:57012260 original size:42 final size:42
Alignment explanation
Indices: 57012201--57012306 Score: 203
Period size: 42 Copynumber: 2.5 Consensus size: 42
57012191 CATTTAAGCC
57012201 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
57012243 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
57012285 TCTTAGTTTAATTAAATGAGTT
1 TCTTAGTTTAA-TAAATGAGTT
57012307 TATTTAATGA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 53 0.84
43 10 0.16
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (42 bp):
TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
Found at i:57012308 original size:14 final size:14
Alignment explanation
Indices: 57012289--57012333 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
57012279 AACTCATCTT
*
57012289 AGTTTAATTAAATG
1 AGTTTAATTTAATG
57012303 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
57012316 AATTTAATTTAATG
1 AGTTTAATTTAATG
57012330 AGTT
1 AGTT
57012334 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:57013512 original size:11 final size:11
Alignment explanation
Indices: 57013475--57013513 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
57013465 CAAGTAAGTT
57013475 TCAAAAAAAAA
1 TCAAAAAAAAA
* *
57013486 TCGAAAAAAAT
1 TCAAAAAAAAA
57013497 TCAAAAAAAAA
1 TCAAAAAAAAA
*
57013508 ACAAAA
1 TCAAAA
57013514 TCTGAAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.77, C:0.10, G:0.03, T:0.10
Consensus pattern (11 bp):
TCAAAAAAAAA
Found at i:57018850 original size:42 final size:42
Alignment explanation
Indices: 57018773--57018877 Score: 185
Period size: 42 Copynumber: 2.5 Consensus size: 42
57018763 CATTTAAGCC
57018773 TCTTAGTTTAATAAATGA-TTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
57018814 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
*
57018856 TATTAGTTTAATTAAATGAGTT
1 TCTTAGTTTAA-TAAATGAGTT
57018878 TATTTAATGA
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
41 18 0.30
42 33 0.54
43 10 0.16
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (42 bp):
TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
Found at i:57018879 original size:14 final size:14
Alignment explanation
Indices: 57018860--57018904 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
57018850 AACTCATATT
*
57018860 AGTTTAATTAAATG
1 AGTTTAATTTAATG
57018874 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
57018887 AATTTAATTTAATG
1 AGTTTAATTTAATG
57018901 AGTT
1 AGTT
57018905 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:57024397 original size:19 final size:19
Alignment explanation
Indices: 57024373--57024412 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
57024363 AGCTCCTATG
*
57024373 TAGCTCCACACCAGCTCAT
1 TAGCTCCAAACCAGCTCAT
*
57024392 TAGCTCGAAACCAGCTCAT
1 TAGCTCCAAACCAGCTCAT
57024411 TA
1 TA
57024413 TCAGCTCGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.35, G:0.12, T:0.23
Consensus pattern (19 bp):
TAGCTCCAAACCAGCTCAT
Found at i:57024445 original size:16 final size:18
Alignment explanation
Indices: 57024414--57024446 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
57024404 AGCTCATTAT
57024414 CAGCTCGCGAGTTTAGCC
1 CAGCTCGCGAGTTTAGCC
57024432 CAGCTCG-G-GTTTAGC
1 CAGCTCGCGAGTTTAGC
57024447 TCATGAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.24
Consensus pattern (18 bp):
CAGCTCGCGAGTTTAGCC
Done.