Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 192 of 228
Found at i:56930955 original size:41 final size:41
Alignment explanation
Indices: 56930894--56931165 Score: 395
Period size: 41 Copynumber: 6.6 Consensus size: 41
56930884 CTTAATTTAA
* * * *
56930894 CAGATTCACCGGCACATAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACTGGCACTTAGCCTGCTAGGTTTATAACCTGATT
56930936 CAGATCACTGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACTGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* * *
56930977 CAGATCACCGGCACTTAGCTTTCTAGGTTTATAACCTGATT
1 CAGATCACTGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
56931018 CAGATCA-TCGGCACTTAGCCTGCTAGGTTTATAACCTAATT
1 CAGATCACT-GGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
56931059 CAGATCACTAGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACTGGCACTTAGCCTGCTAGGTTTATAACCTGATT
56931100 CAGATCA-TCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACT-GGCACTTAGCCTGCTAGGTTTATAACCTGATT
* * *
56931141 CAAATCACCGACACTTAGCCTGCTA
1 CAGATCACTGGCACTTAGCCTGCTA
56931166 AACGTATAGT
Statistics
Matches: 209, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
40 1 0.00
41 203 0.97
42 5 0.02
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (41 bp):
CAGATCACTGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:56931126 original size:123 final size:123
Alignment explanation
Indices: 56930894--56931165 Score: 436
Period size: 123 Copynumber: 2.2 Consensus size: 123
56930884 CTTAATTTAA
* * * *
56930894 CAGATTCACCGGCACATAGCCTGCTAGGCTTATAGCCTGATTCAGATCACTGGCACTTAGCCTGC
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAACCTAATTCAGATCACTAGCACTTAGCCTGC
* *
56930959 TAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCTTTCTAGGTTTATAACCTGATT
65 TAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
56931018 CAGATCATCGGCACTTAGCCTGCTAGGTTTATAACCTAATTCAGATCACTAGCACTTAGCCTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTAATTCAGATCACTAGCACTTAGCCTGCT
*
56931083 AGGTTTATAACCTGATTCAGATCATCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
66 AGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
56931141 CAAATCACCGACACTTAGCCTGCTA
1 CAGATCACCGGCACTTAGCCTGCTA
56931166 AACGTATAGT
Statistics
Matches: 136, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
123 132 0.97
124 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (123 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTAATTCAGATCACTAGCACTTAGCCTGCT
AGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:56940794 original size:27 final size:27
Alignment explanation
Indices: 56940739--56940802 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
56940729 AATTGATATG
*
56940739 AAATGACTGTTATGCCCTCACGTGGTA
1 AAATGACTGTTATGCCCTCACGTGATA
* *
56940766 AAATGACTGTTATGCCC-CTATGTTATA
1 AAATGACTGTTATGCCCTC-ACGTGATA
56940793 AAATGACTGT
1 AAATGACTGT
56940803 ATATTTTATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 1 0.03
27 32 0.97
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (27 bp):
AAATGACTGTTATGCCCTCACGTGATA
Found at i:56945179 original size:21 final size:21
Alignment explanation
Indices: 56945153--56945195 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
56945143 GAAGAGAAAC
*
56945153 ACAATGAATTTTTGAAATCCT
1 ACAATGAATTGTTGAAATCCT
56945174 ACAATGAATTGTTGAAATCCT
1 ACAATGAATTGTTGAAATCCT
56945195 A
1 A
56945196 TAATCTCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (21 bp):
ACAATGAATTGTTGAAATCCT
Found at i:56948136 original size:41 final size:41
Alignment explanation
Indices: 56948043--56948311 Score: 364
Period size: 41 Copynumber: 6.6 Consensus size: 41
56948033 GGTTTTAAAA
* * * *
56948043 CCTAGCAGGCTAAGTGCCAGTG-ATCTAAATCAAG-TTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGAAT-TGAATCAGGCTATAAG
56948083 CCTAGCAGGCTAAGTGCCGGTGAATTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAATTGAATCAGGCTATAAG
*
56948124 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAATTGAATCAGGCTATAAG
*
56948165 CCTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAATTGAATCAGGCTATAAG
* * *
56948206 CCTAGCAGGCTAAGTGCCGGTGAACTGGATTAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAATTGAATCAGGCTATAAG
* * *
56948247 CCTAGCAGGCTAAGTGCCGATG-ATCTAAATCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGAAT-TGAATCAGGCTATAAG
* * *
56948288 CCTAACAAGCTAAGTGCCAGTGAA
1 CCTAGCAGGCTAAGTGCCGGTGAA
56948312 CCTGTTTAAA
Statistics
Matches: 204, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 29 0.14
41 174 0.85
42 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGAATTGAATCAGGCTATAAG
Found at i:56948249 original size:123 final size:122
Alignment explanation
Indices: 56948043--56948310 Score: 401
Period size: 123 Copynumber: 2.2 Consensus size: 122
56948033 GGTTTTAAAA
* *
56948043 CCTAGCAGGCTAAGTGCCAGTGATCTAAATCAAGTTTAAGCCTAGCAGGCTAAGTGCCGGTGAAT
1 CCTAGCAGGCTAAGTGCCAGTGATCTAAATCAAGTATAAGCCTAGCAGGCTAAGTGCCGGTGAAC
* *
56948108 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
66 TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGATGAACTAAATCAGGCTATAAG
* * * *
56948165 CCTAGCAGGCTAAGTGCCGGTGATTTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGAA
1 CCTAGCAGGCTAAGTGCCAGTGATCTAAATCAAG-TATAAGCCTAGCAGGCTAAGTGCCGGTGAA
* * * *
56948230 CTGGATTAGGCTATAAGCCTAGCAGGCTAAGTGCCGATGATCTAAATCAGGCTTTAAG
65 CTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGATGAACTAAATCAGGCTATAAG
* *
56948288 CCTAACAAGCTAAGTGCCAGTGA
1 CCTAGCAGGCTAAGTGCCAGTGA
56948311 ACCTGTTTAA
Statistics
Matches: 130, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
122 30 0.23
123 100 0.77
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (122 bp):
CCTAGCAGGCTAAGTGCCAGTGATCTAAATCAAGTATAAGCCTAGCAGGCTAAGTGCCGGTGAAC
TGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGATGAACTAAATCAGGCTATAAG
Found at i:56959353 original size:31 final size:31
Alignment explanation
Indices: 56959317--56959378 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
56959307 AGATAATTTT
*
56959317 AAAGAGTTTTATTAGGATTGAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
56959348 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
56959379 TAATTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:56959686 original size:3 final size:3
Alignment explanation
Indices: 56959678--56959730 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
56959668 ATCTATCCTT
56959678 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
56959726 TTA TT
1 TTA TT
56959731 TAACTAATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:56963864 original size:26 final size:26
Alignment explanation
Indices: 56963821--56963888 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
56963811 CAAAGCCTGC
* * * *
56963821 TAACCACTGACTCGAGGCCTGCTAAA
1 TAACCACCGGCTCAAGGCCTACTAAA
*
56963847 TAACCACCGGCTCAAGGCCTACTACA
1 TAACCACCGGCTCAAGGCCTACTAAA
*
56963873 TAACCACCAGCTCAAG
1 TAACCACCGGCTCAAG
56963889 ACTTGTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.32, C:0.35, G:0.16, T:0.16
Consensus pattern (26 bp):
TAACCACCGGCTCAAGGCCTACTAAA
Found at i:56966488 original size:1 final size:1
Alignment explanation
Indices: 56966484--56966532 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
56966474 TTTAAAATAA
* * * * *
56966484 TTTTTTTTTTATTTTTTATTTTTTATTTTTTATTTTTTTTATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
56966533 ATAAATTTGT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:56966500 original size:9 final size:9
Alignment explanation
Indices: 56966486--56966534 Score: 62
Period size: 9 Copynumber: 5.1 Consensus size: 9
56966476 TAAAATAATT
56966486 TTTTTTTTA
1 TTTTTTTTA
*
56966495 TTTTTTATTTT
1 -TTTTT-TTTA
56966506 TTATTTTTTA
1 TT-TTTTTTA
56966516 TTTTTTTTA
1 TTTTTTTTA
56966525 TTTTTTTTA
1 TTTTTTTTA
56966534 T
1 T
56966535 AAATTTGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 17 0.49
10 12 0.34
11 6 0.17
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:56966528 original size:14 final size:13
Alignment explanation
Indices: 56966484--56966534 Score: 68
Period size: 14 Copynumber: 3.9 Consensus size: 13
56966474 TTTAAAATAA
56966484 TTTTTTTTTTATT
1 TTTTTTTTTTATT
56966497 TTTTATTTTTTATT
1 TTTT-TTTTTTATT
*
56966511 TTTTATTTTT-TT
1 TTTTTTTTTTATT
*
56966523 TATTTTTTTTAT
1 TTTTTTTTTTAT
56966535 AAATTTGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 10 0.30
13 10 0.30
14 13 0.39
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTTTATT
Found at i:56966530 original size:7 final size:7
Alignment explanation
Indices: 56966484--56966521 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
56966474 TTTAAAATAA
56966484 TTTT-TT
1 TTTTATT
56966490 TTTTATT
1 TTTTATT
56966497 TTTTATT
1 TTTTATT
56966504 TTTTATT
1 TTTTATT
56966511 TTTTATT
1 TTTTATT
56966518 TTTT
1 TTTT
56966522 TTATTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.13
7 27 0.87
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTATT
Found at i:56966576 original size:21 final size:21
Alignment explanation
Indices: 56966530--56966578 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
56966520 TTTTATTTTT
* * *
56966530 TTTATAAATTTGTAAAACATTA
1 TTTA-AAATTTATAAAAAAATA
56966552 -TTAAAATTTATAAAAAAATA
1 TTTAAAATTTATAAAAAAATA
56966572 TTTAAAA
1 TTTAAAA
56966579 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TTTAAAATTTATAAAAAAATA
Found at i:56967131 original size:18 final size:19
Alignment explanation
Indices: 56967108--56967164 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
56967098 TAATTTTTTA
*
56967108 TTTAATATTTTTATAAAT-
1 TTTAATATTTTTAAAAATC
*
56967126 TTTAATAATGTTTTACAAATC
1 TTTAAT-AT-TTTTAAAAATC
* *
56967147 TATAATTTTTTTAAAAAT
1 TTTAATATTTTTAAAAAT
56967165 AAATTAACGC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 6 0.19
19 11 0.34
20 10 0.31
21 5 0.16
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTAATATTTTTAAAAATC
Found at i:56968532 original size:12 final size:12
Alignment explanation
Indices: 56968515--56968557 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
56968505 AACATCTCTT
56968515 TTATCATAATTA
1 TTATCATAATTA
56968527 TTATCATAATT-
1 TTATCATAATTA
56968538 TTATTCATCAATTA
1 TTA-TCAT-AATTA
*
56968552 GTATCA
1 TTATCA
56968558 ACTACTTCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 3 0.11
12 15 0.56
13 7 0.26
14 2 0.07
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (12 bp):
TTATCATAATTA
Found at i:56972405 original size:29 final size:29
Alignment explanation
Indices: 56972343--56972406 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
56972333 AACGTAATAT
*
56972343 TAATAACATCAACAAATATTACATAAAAA
1 TAATAACATCAACAAATAGTACATAAAAA
* *
56972372 AAATAACATCAACAAATAGTA-ATCCAAAA
1 TAATAACATCAACAAATAGTACAT-AAAAA
56972401 TAATAA
1 TAATAA
56972407 TCCATTAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.62, C:0.14, G:0.02, T:0.22
Consensus pattern (29 bp):
TAATAACATCAACAAATAGTACATAAAAA
Found at i:56973495 original size:18 final size:20
Alignment explanation
Indices: 56973463--56973514 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
56973453 AAATATGGAA
**
56973463 AAAAATATTTTATAATTA-T
1 AAAAATATTAAATAATTATT
56973482 AAAAAT-TTAAATAATTATT
1 AAAAATATTAAATAATTATT
56973501 AAAAATATTAAATA
1 AAAAATATTAAATA
56973515 CTTCTTTGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 9 0.31
19 13 0.45
20 7 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATATTAAATAATTATT
Found at i:56973554 original size:11 final size:10
Alignment explanation
Indices: 56973538--56973613 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
56973528 TTTCACATTT
56973538 TAATTTTTTA
1 TAATTTTTTA
56973548 GTAA-TTTTTA
1 -TAATTTTTTA
56973558 TAATTTTTTAA
1 TAATTTTTT-A
* *
56973569 TAATTATTAA
1 TAATTTTTTA
*
56973579 T-ATCTTTTA
1 TAATTTTTTA
*
56973588 TAA-TTTCTA
1 TAATTTTTTA
56973597 -AATTTTTTTA
1 TAA-TTTTTTA
56973607 TAATTTT
1 TAATTTT
56973614 GAAGTCATCC
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
8 2 0.04
9 13 0.25
10 23 0.45
11 13 0.25
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:56973563 original size:20 final size:18
Alignment explanation
Indices: 56973535--56973613 Score: 79
Period size: 19 Copynumber: 4.2 Consensus size: 18
56973525 TTTTTTCACA
56973535 TTTT-AATTTTTTAGTAAT
1 TTTTAAATTTTTTA-TAAT
56973553 TTTTATAATTTTTTAATAAT
1 TTTTA-AATTTTTT-ATAAT
* *
56973573 TATTAATATCTTTTATAAT
1 TTTTAA-ATTTTTTATAAT
*
56973592 TTCTAAATTTTTTTATAAT
1 TTTTAAA-TTTTTTATAAT
56973611 TTT
1 TTT
56973614 GAAGTCATCC
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
18 5 0.10
19 22 0.44
20 22 0.44
21 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTTAAATTTTTTATAAT
Found at i:56973751 original size:20 final size:18
Alignment explanation
Indices: 56973726--56973788 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 18
56973716 GTATATGTTA
56973726 TTTTTAAAACATTTTAGAAT
1 TTTTTAAAA-ATTTTA-AAT
* *
56973746 TTTTTAACAATTATAAATAT
1 TTTTTAAAAATT-TTAA-AT
*
56973766 TTTTTATAAATTTTAAAT
1 TTTTTAAAAATTTTAAAT
56973784 TTTTT
1 TTTTT
56973789 TTAGTTTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
18 7 0.19
19 7 0.19
20 22 0.61
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTTTAAAAATTTTAAAT
Found at i:56973787 original size:19 final size:18
Alignment explanation
Indices: 56973726--56973789 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 18
56973716 GTATATGTTA
*
56973726 TTTTTAAAACATTTTAGAA-
1 TTTTTTAAA-ATTTTA-AAT
*
56973745 TTTTTTAACAATTATAAAT
1 TTTTTTAA-AATTTTAAAT
56973764 ATTTTTTATAAATTTTAAAT
1 -TTTTTTA-AAATTTTAAAT
56973784 TTTTTT
1 TTTTTT
56973790 TAGTTTTGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 2 0.05
19 18 0.47
20 17 0.45
21 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTTTTAAAATTTTAAAT
Found at i:56976440 original size:7 final size:7
Alignment explanation
Indices: 56976430--56976457 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
56976420 CTTATTAATT
56976430 TATAAAA
1 TATAAAA
56976437 TATAAAA
1 TATAAAA
56976444 TATAAAA
1 TATAAAA
56976451 TATAAAA
1 TATAAAA
56976458 AAATCATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TATAAAA
Found at i:56980663 original size:29 final size:29
Alignment explanation
Indices: 56980630--56980737 Score: 112
Period size: 29 Copynumber: 3.7 Consensus size: 29
56980620 CAAAAAATAA
56980630 AAAATTATATTTTAACCCCTAAATTTTTT
1 AAAATTATATTTTAACCCCTAAATTTTTT
* **
56980659 AAAATT-TCATTTTGACCCCTAAAATTTCAT
1 AAAATTAT-ATTTTAACCCCT-AAATTTTTT
* *
56980689 AAAATTATATTTTAATCCATAAACTTTTTT
1 AAAATTATATTTTAACCCCTAAA-TTTTTT
*
56980719 -AAATTACATTTTGAACCCC
1 AAAATTATATTTT-AACCCC
56980738 AAACTTTCTC
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
28 1 0.02
29 31 0.49
30 30 0.48
31 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.44
Consensus pattern (29 bp):
AAAATTATATTTTAACCCCTAAATTTTTT
Found at i:56980692 original size:30 final size:29
Alignment explanation
Indices: 56980630--56980703 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 29
56980620 CAAAAAATAA
**
56980630 AAAATTATATTTTAACCCCTAAATTTTTT
1 AAAATTATATTTTAACCCCTAAATTTCAT
*
56980659 AAAATT-TCATTTTGACCCCTAAAATTTCAT
1 AAAATTAT-ATTTTAACCCCT-AAATTTCAT
56980689 AAAATTATATTTTAA
1 AAAATTATATTTTAA
56980704 TCCATAAACT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
28 1 0.03
29 17 0.45
30 19 0.50
31 1 0.03
ACGTcount: A:0.41, C:0.14, G:0.01, T:0.45
Consensus pattern (29 bp):
AAAATTATATTTTAACCCCTAAATTTCAT
Found at i:56980717 original size:59 final size:59
Alignment explanation
Indices: 56980630--56980753 Score: 162
Period size: 59 Copynumber: 2.1 Consensus size: 59
56980620 CAAAAAATAA
* * *
56980630 AAAATTATATTTTAACCCCTAAATTTTTTAAAATTTCATTTTG-ACCCCTAAAATTTCAT-
1 AAAATTATATTTTAACCCATAAACTTTTTAAAATTACATTTTGAACCCC-AAAATTTC-TC
* * *
56980689 AAAATTATATTTTAATCCATAAACTTTTTTAAATTACATTTTGAACCCCAAACTTTCTC
1 AAAATTATATTTTAACCCATAAACTTTTTAAAATTACATTTTGAACCCCAAAATTTCTC
56980748 AAAATT
1 AAAATT
56980754 TTGTTTCAGC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
58 1 0.02
59 51 0.89
60 5 0.09
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.43
Consensus pattern (59 bp):
AAAATTATATTTTAACCCATAAACTTTTTAAAATTACATTTTGAACCCCAAAATTTCTC
Found at i:56981005 original size:11 final size:11
Alignment explanation
Indices: 56980987--56981040 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
56980977 AAAAACTTGC
56980987 AAAA-AAGAGA
1 AAAAGAAGAGA
56980997 AAAAGAAGAGGA
1 AAAAGAAGA-GA
*
56981009 AAAAGGAGAGA
1 AAAAGAAGAGA
* *
56981020 AAGAGAGGAGA
1 AAAAGAAGAGA
56981031 AAGAAGAAGA
1 AA-AAGAAGA
56981041 AGAGGAGAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 4 0.11
11 16 0.46
12 15 0.43
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:56981011 original size:20 final size:20
Alignment explanation
Indices: 56980988--56981046 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
56980978 AAAACTTGCA
56980988 AAAAAGAGAAAAAGAAGAGG
1 AAAAAGAGAAAAAGAAGAGG
*
56981008 AAAAAGGAGAGAAAG-AGAGG
1 AAAAA-GAGAAAAAGAAGAGG
* *
56981028 -AGAA-AGAAGAAGAAGAGG
1 AAAAAGAGAAAAAGAAGAGG
56981046 A
1 A
56981047 GAGCCTCCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
17 6 0.19
18 5 0.16
19 3 0.09
20 10 0.31
21 8 0.25
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (20 bp):
AAAAAGAGAAAAAGAAGAGG
Found at i:56981937 original size:22 final size:20
Alignment explanation
Indices: 56981904--56981946 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
56981894 TCGGGCTTCG
56981904 AAATTTTCGTGTCTTTAAAAA
1 AAATTTTCGTGT-TTTAAAAA
56981925 AAATTTCTCGTGTTTTCAAAAA
1 AAATTT-TCGTGTTTT-AAAAA
56981947 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (20 bp):
AAATTTTCGTGTTTTAAAAA
Found at i:56981945 original size:20 final size:21
Alignment explanation
Indices: 56981904--56981946 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
56981894 TCGGGCTTCG
56981904 AAATTTTCGTGTCTTTAAAAA
1 AAATTTTCGTGTCTTTAAAAA
*
56981925 AAATTTCTCGTGT-TTTCAAAA
1 AAATTT-TCGTGTCTTTAAAAA
56981946 A
1 A
56981947 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (21 bp):
AAATTTTCGTGTCTTTAAAAA
Found at i:56994226 original size:44 final size:44
Alignment explanation
Indices: 56994107--56995475 Score: 1311
Period size: 44 Copynumber: 31.1 Consensus size: 44
56994097 CGCCATCGTC
* * * * * *
56994107 GATCTGCTTTCTTCGATCTTCTTCACCACCAGTTTGGGAAAACAA
1 GATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGACAA
* * * * * *
56994152 AATCTGC-ATCGTCGGTCCACTTC-CTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * *
56994195 GATCTGATATCTTCGATCTACTTCACGCCAATACACGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* *
56994239 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGACAA
* * ** *
56994284 GATCTGC-ATCTTCGATCTACTTCACGCTAATGCATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * * *
56994327 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGGCAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* * *
56994372 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* * * *
56994417 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAAATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * *
56994460 GATCTGATATCTTCGATCTACTTCACGCCAATACACGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* *
56994504 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGACAA
* * ** *
56994549 GATCTGC-ATCTTCGATCTACTTCACGCTAATGCATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * * *
56994592 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGGCAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* * * *
56994637 GATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* * * *
56994682 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAAATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* ** * *
56994725 GATCTGATATCTTCGATCTACTTCATGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * *
56994769 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* * *
56994814 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * *
56994857 GATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* *
56994901 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGACAA
** * ** *
56994946 GATCTGC-ATCTTCGATCTACTTCATGCTAATGCATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * *
56994989 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* * * *
56995034 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAGGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * *
56995077 GATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * * *
56995121 TATCTGCTTTCTTCGATCTACTT--CACCAATACACGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * * * *
56995163 GATCTGTTTTCTTCGATCCACTTC-CTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * *
56995207 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * * *
56995251 GATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* ***
56995296 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATGG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * *
56995339 GATCTGCTA-CATTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATC-TTCGATCTACTTCACACCAATATAGGAAGACAA
* * * * *
56995383 GATCTGTTTTCTTCGATCCACTTC-CTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * *
56995427 GACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
56995471 GATCT
1 GATCT
56995476 ACTTTAATGA
Statistics
Matches: 1073, Mismatches: 215, Indels: 73
0.79 0.16 0.05
Matches are distributed among these distances:
42 43 0.04
43 181 0.17
44 584 0.54
45 265 0.25
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (44 bp):
GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
Found at i:56994344 original size:132 final size:131
Alignment explanation
Indices: 56994107--56995475 Score: 1506
Period size: 132 Copynumber: 10.4 Consensus size: 131
56994097 CGCCATCGTC
* * * * * * * *
56994107 GATCTGCTTTCTTCGATCTTCTTCACCACCAGTTTGGGAAAACAAAATCTGCATCGTCGGTCCAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
* * * * * * * *
56994172 TTCCTAC-CAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACACGAAGA
66 TT-C-ACGCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATACAGGAAGA
56994236 CAA
129 CAA
56994239 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
* * ** *
56994304 TTCACGCTAATGCATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGG
66 TTCACGC-AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACACCAATACAGGAAGA
56994369 CAA
129 CAA
* *
56994372 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
* * * * * * * * *
56994437 TTCCTAC-CAATATAGGAAAATAGGATCTGATATCTTCGATCTACTTCACGCCAATACACGAAGA
66 TT-C-ACGCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATACAGGAAGA
56994501 CAA
129 CAA
56994504 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
* * ** *
56994569 TTCACGCTAATGCATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGG
66 TTCACGC-AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACACCAATACAGGAAGA
56994634 CAA
129 CAA
* * *
56994637 GATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
* * * * * * * ** *
56994702 TTCCTAC-CAATATAGGAAAATAGGATCTGATATCTTCGATCTACTTCATGCCAATACATGAAGA
66 TT-C-ACGCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATACAGGAAGA
56994766 CAA
129 CAA
* *
56994769 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
* * * * * * * *
56994834 TTCCTAC-CAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGA
66 TT-C-ACGCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATACAGGAAGA
56994898 CAA
129 CAA
56994901 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
* * * **
56994966 TTCATGCTAATGCATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
66 TTCACGC-AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACACCAATACAGGAAGA
56995031 CAA
129 CAA
* * * * * * * *
56995034 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAGGATAGGATCTGATATCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTG-CATCTTCGATCTA
* *
56995097 CTTCACGCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTT--CACCAATACACGAAGA
65 CTTCACG-CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATACAGGAAGA
56995160 CAA
129 CAA
* * * * * *
56995163 GATCTGTTTTCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCTA
* * **
56995227 CTTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAG
65 CTTCACG-CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACACCAATACAGGAAG
56995292 ACAA
128 ACAA
* * * * ***
56995296 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATGGGATCTGC-TACATTCGATCT
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCAT-C-TTCGATCT
* * *
56995358 ACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCCACTTC-CTACCAATATAGGAA
64 ACTTCACG-CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCAC-ACCAATACAGGAA
* *
56995422 GATAG
127 GACAA
* * * ***
56995427 GACCTGCTATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCT
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCT
56995476 ACTTTAATGA
Statistics
Matches: 1082, Mismatches: 130, Indels: 50
0.86 0.10 0.04
Matches are distributed among these distances:
129 22 0.02
130 104 0.10
131 49 0.05
132 635 0.59
133 264 0.24
134 4 0.00
135 4 0.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (131 bp):
GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
TTCACGCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATACAGGAAGACA
A
Found at i:56994580 original size:265 final size:263
Alignment explanation
Indices: 56994107--56995475 Score: 1669
Period size: 265 Copynumber: 5.2 Consensus size: 263
56994097 CGCCATCGTC
* * * * * * *
56994107 GATCTGCTTTCTTCGATCTTCTTCACCACCAGTTTGGGAAAACAAAATCTGCATCGTCGGTCCAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
56994172 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACACGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACACGAAGAC
56994237 AAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCT
131 AAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATGGGAAGACAAGATCTGCATCTTCGATCT
* * *
56994302 ACTTCACGCTAATGCATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAA
195 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATAGGAA
*
56994367 GGCAA
259 GACAA
*
56994372 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
56994437 TTCCTACCAATATAGGAAAATAGGATCTGATATCTTCGATCTACTTCACGCCAATACACGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACACGAAGAC
56994502 AAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCT
131 AAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATGGGAAGACAAGATCTGCATCTTCGATCT
* * *
56994567 ACTTCACGCTAATGCATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAA
195 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATAGGAA
*
56994632 GGCAA
259 GACAA
* *
56994637 GATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * *
56994702 TTCCTACCAATATAGGAAAATAGGATCTGATATCTTCGATCTACTTCATGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACACGAAGAC
*
56994767 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
131 AAGATCTGCTTTCTTCGATCTACTTC-CCACCAATATGGGAAGACAAGATCTGCATCTTCGATCT
* * * * * * * * * * *
56994832 ACTTC-CTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAA
195 ACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATAGGAA
56994896 GACAA
259 GACAA
*
56994901 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTAC
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * ** * * * * * * * ***
56994966 TTCATGCTAATGCATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
66 TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTC-ACGCCAATACACGAAGA
* * * * * * * *
56995031 CAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAGGATAGGATCTGATATCTTCGATC
130 CAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATGGGAAGACAAGATCTG-CATCTTCGATC
* * *
56995095 TACTTCACGCCAATACATGAAGACAATATCTGCTTTCTTCGATCTACTT--CACCAATACACGAA
194 TACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATAGGAA
56995158 GACAA
259 GACAA
* * * * * * *
56995163 GATCTGTTTTCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
* * * * * * * * ***
56995227 CTTCAC-GCCAATACATGAAGACAAGATCT-ACTTTCTTCGATCTACTTCGCCACCAATATGGGA
65 CTTC-CTACCAATATAGGAAGATAGGATCTGA-TATCTTCGATCTACTTC-ACGCCAATACACGA
* * * * ***
56995290 AGACAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATGGGATCTGC-TACATTC
127 AGACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATGGGAAGACAAGATCTGCAT-C-TTC
* * *
56995353 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCCACTTCCTACCAATATA
190 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATA
* *
56995418 GGAAGATAG
255 GGAAGACAA
* * * ***
56995427 GACCTGCTATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCT
1 GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCT
56995476 ACTTTAATGA
Statistics
Matches: 993, Mismatches: 99, Indels: 25
0.89 0.09 0.02
Matches are distributed among these distances:
260 1 0.00
261 24 0.02
262 214 0.22
263 21 0.02
264 227 0.23
265 506 0.51
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (263 bp):
GATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACACGAAGAC
AAGATCTGCTTTCTTCGATCTACTTCCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTA
CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCCCACCAATATAGGAAGA
CAA
Found at i:57011278 original size:11 final size:11
Alignment explanation
Indices: 57011250--57011317 Score: 64
Period size: 12 Copynumber: 5.6 Consensus size: 11
57011240 TATTATGCCT
57011250 AAAAAAACAAAA
1 AAAAAAAC-AAA
*
57011262 ATAAAAAATAACA
1 A-AAAAAACAA-A
*
57011275 AAAAACAAGAAA
1 AAAAA-AACAAA
57011287 AAAAAAACAAA
1 AAAAAAACAAA
57011298 AAAAAAACAGAA
1 AAAAAAACA-AA
57011310 AAAGAAAA
1 AAA-AAAA
57011318 ATCAAGATGA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
11 14 0.29
12 18 0.38
13 16 0.33
ACGTcount: A:0.85, C:0.07, G:0.04, T:0.03
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:57011279 original size:10 final size:10
Alignment explanation
Indices: 57011253--57011303 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
57011243 TATGCCTAAA
*
57011253 AAAACAAAAAT
1 AAAA-AAAAAC
*
57011264 AAAAAATAAC
1 AAAAAAAAAC
57011274 AAAAAACAAGA-
1 AAAAAA-AA-AC
57011285 AAAAAAAAAC
1 AAAAAAAAAC
57011295 AAAAAAAAA
1 AAAAAAAAA
57011304 ACAGAAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
9 1 0.03
10 21 0.62
11 11 0.32
12 1 0.03
ACGTcount: A:0.86, C:0.08, G:0.02, T:0.04
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:57011291 original size:24 final size:23
Alignment explanation
Indices: 57011250--57011319 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
57011240 TATTATGCCT
*
57011250 AAAAAAACAA-AAATAAAAAATA
1 AAAAAAACAAGAAAAAAAAAATA
*
57011272 ACAAAAAACAAGAAAAAAAAAACA
1 A-AAAAAACAAGAAAAAAAAAATA
*
57011296 AAAAAAAAACAGAAAAAGAAAAAT
1 AAAAAAACA-AGAAAAA-AAAAAT
57011320 CAAGATGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
22 1 0.03
23 16 0.40
24 18 0.45
25 5 0.12
ACGTcount: A:0.84, C:0.07, G:0.04, T:0.04
Consensus pattern (23 bp):
AAAAAAACAAGAAAAAAAAAATA
Found at i:57011312 original size:14 final size:13
Alignment explanation
Indices: 57011251--57011318 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 13
57011241 ATTATGCCTA
*
57011251 AAAAAACAAAAATAA
1 AAAAAA-AAAAA-AC
57011266 AAAATAACAAAAAAC
1 AAAA-AA-AAAAAAC
57011281 AAGAAAAAAAAAAC
1 AA-AAAAAAAAAAC
* *
57011295 AAAAAAAAAACAG
1 AAAAAAAAAAAAC
57011308 AAAAAGAAAAA
1 AAAAA-AAAAA
57011319 TCAAGATGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
13 14 0.30
14 14 0.30
15 9 0.19
16 10 0.21
ACGTcount: A:0.85, C:0.07, G:0.04, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:57012665 original size:76 final size:75
Alignment explanation
Indices: 57012176--57013444 Score: 1511
Period size: 74 Copynumber: 16.9 Consensus size: 75
57012166 TTTCAAGAAA
* * *
57012176 TATTTTTCACTTTCTGT-TTTTTTTCAAATATCAACTCATAATACGAAAGGTGAGTTGAGCCTCG
1 TATTTTT-AATTTCTGTCTTTTTTTTAAA-ATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCG
57012240 GGTCACGCTGAGG
63 GGTCACGCTGAGG
57012253 TATTTTTAATTTC-GATC-TTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTAATTTCTG-TCTTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
* *
57012316 TCACTTCTAAGG
65 TCAC-GCTGAGG
* ** *
57012328 TATTTTTAATTTATGTCTTTTTTAAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCTTCGG
1 TATTTTTAATTTCTGTCTTTTTT--TTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
57012393 GTCACGCTGAGG
64 GTCACGCTGAGG
57012405 TATTTTTAATTTCTGTC--TTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTAATTTCTGTCTTTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGG
57012468 TCACGCTGAGG
65 TCACGCTGAGG
* * *
57012479 TATTTTTAATTTATGTCTTTTTTTAAAAAAAAAATCAACTCATAATACAGAGGTGAATTGAGCCT
1 TATTTTTAATTTCTGTCTTTTTTT-----TAAAATCAACTCATAATACAGAGGTGAGTTGAGCCT
57012544 CGGGTCACGCTGAGG
61 CGGGTCACGCTGAGG
* *
57012559 TATTTTTAATTTCTGCCTTTTTTTTTAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTAATTTCTGTCTTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGT
57012624 CACGCTGAGG
66 CACGCTGAGG
*
57012634 TATTTTTAATTTCGGTCTTTTTTTTAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTAATTTCTGTCTTTTTTTT-AAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
57012699 TCACGCTGAGG
65 TCACGCTGAGG
* * * * * *
57012710 TATTTTTAATATCTATC--TTTTTTAAAATTAACTTATAATACGAGAGGTGAGTTGAGCTTCAGG
1 TATTTTTAATTTCTGTCTTTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGG
57012773 TCACGCTGAGG
65 TCACGCTGAGG
* ** *
57012784 TATTTTTAATTTATGTCTTTTTTAAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCATCGG
1 TATTTTTAATTTCTGTCTTTTTT--TTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
57012849 GTCACGCTGAGG
64 GTCACGCTGAGG
* * * *
57012861 ------T-ATTTC-CTCTCTTTTTTAAAATCAATTCATAATACAGAGGTGAGTTGAGCCTCGAGT
1 TATTTTTAATTTCTGTCTTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGT
57012918 CACGCTGAGG
66 CACGCTGAGG
* *
57012928 TATTTTTAATTTCTATC--TTTTTTAAAATTAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTAATTTCTGTCTTTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGG
57012991 TCACGCTGAGG
65 TCACGCTGAGG
* *
57013002 TATTTTTAATTTATGTCTTTTTTTAAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTAATTTCTGTCTTTTTTT---TAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
57013067 GGTCACGCTGAGG
63 GGTCACGCTGAGG
* * *
57013080 ------T-ATTTC-CTCTCTTTTTTAAAATCAACTCAAAATACAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTAATTTCTGTCTTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGT
*
57013137 CACGTTGAGG
66 CACGCTGAGG
* * *
57013147 TATTTTTAATTTCGGTCTTTTTTTTTAAAATCAACTCATAATACAAAGGTGAGTTGAGCCTCGGA
1 TATTTTTAATTTCTGTC-TTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
57013212 TCACGCTGAGG
65 TCACGCTGAGG
57013223 TATTTTTAATTTCTGTC--TTTTTTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTAATTTCTGTCTTTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGG
57013286 TCACGCTGAGG
65 TCACGCTGAGG
* * * * *
57013297 TACTTCTTTTAAATTTCTGT-TTTTTTTCAAAAAAATCAACACATATTGCGAGAGGTGAGTTAAG
1 TA--T-TTTT-AATTTCTGTCTTTTTTT---TAAAATCAACTCATAATAC-AGAGGTGAGTTGAG
** * * *
57013361 CCTCGGACCATGCCGATG
58 CCTCGGGTCACGCTGAGG
** * *
57013379 TATTTCATTTAAATTTCTG---TTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCT
1 TA-TT--TTT-AATTTCTGTCTTTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCT
57013441 CGGG
61 CGGG
57013445 CGACACTCCG
Statistics
Matches: 1048, Mismatches: 88, Indels: 112
0.84 0.07 0.09
Matches are distributed among these distances:
67 95 0.09
69 7 0.01
70 12 0.01
71 5 0.00
72 1 0.00
73 82 0.08
74 209 0.20
75 114 0.11
76 168 0.16
77 99 0.09
78 99 0.09
79 22 0.02
80 59 0.06
81 20 0.02
82 56 0.05
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (75 bp):
TATTTTTAATTTCTGTCTTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGT
CACGCTGAGG
Found at i:57012730 original size:151 final size:151
Alignment explanation
Indices: 57012176--57013444 Score: 1528
Period size: 151 Copynumber: 8.4 Consensus size: 151
57012166 TTTCAAGAAA
* * * *
57012176 TATTTTTCACTTTCTGT-TTTTTTTCAAATATCAACTCATAATACGAAAGGTGAGTTGAGCCTCG
1 TATTTTT-AATTTCTGTCTTTTTTTTAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCG
57012240 GGTCACGCTGAGGTATTTTTAATTTC-GATC-TTTTTTTAAAATCAACTCATAATACAGAGGTGA
64 GGTCACGCTGAGGTATTTTTAATTTCTG-TCTTTTTTTTAAAATCAACTCATAATACAGAGGTGA
* *
57012303 GTTGAGCCTCGGGTCACTTCTAAGG
128 GTTGAGCCTCGGGTCAC-GCTGAGG
* ** *
57012328 TATTTTTAATTTATGTCTTTTTTAAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCTTCGG
1 TATTTTTAATTTCTGTCTTTTTT-TTAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
57012393 GTCACGCTGAGGTATTTTTAATTTCTGTC--TTTTTTAAAATCAACTCATAATACGAGAGGTGAG
65 GTCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTTTAAAATCAACTCATAATAC-AGAGGTGAG
57012456 TTGAGCCTCGGGTCACGCTGAGG
129 TTGAGCCTCGGGTCACGCTGAGG
* * *
57012479 TATTTTTAATTTATGTCTTTTTTTAAAAAAAAAATCAACTCATAATACAGAGGTGAATTGAGCCT
1 TATTTTTAATTTCTGTCTTTTTTT----TAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCT
* *
57012544 CGGGTCACGCTGAGGTATTTTTAATTTCTGCCTTTTTTTTTAAATCAACTCATAATACAGAGGTG
62 CGGGTCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTTTAAAATCAACTCATAATACAGAGGTG
57012609 AGTTGAGCCTCGGGTCACGCTGAGG
127 AGTTGAGCCTCGGGTCACGCTGAGG
*
57012634 TATTTTTAATTTCGGTCTTTTTTTTAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTAATTTCTGTCTTTTTTTTAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
* * * *
57012699 TCACGCTGAGGTATTTTTAATATCTATC--TTTTTTAAAATTAACTTATAATACGAGAGGTGAGT
66 TCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTTTAAAATCAACTCATAATAC-AGAGGTGAGT
* *
57012762 TGAGCTTCAGGTCACGCTGAGG
130 TGAGCCTCGGGTCACGCTGAGG
* ** *
57012784 TATTTTTAATTTATGTCTTTTTTAAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCATCGG
1 TATTTTTAATTTCTGTCTTTTTT-TTAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
* * *
57012849 GTCACGCTGAGG------T-ATTTC-CTCTCTTTTTTAAAATCAATTCATAATACAGAGGTGAGT
65 GTCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTTTAAAATCAACTCATAATACAGAGGTGAGT
*
57012906 TGAGCCTCGAGTCACGCTGAGG
130 TGAGCCTCGGGTCACGCTGAGG
* *
57012928 TATTTTTAATTTCTATC--TTTTTT-AAAATTAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
1 TATTTTTAATTTCTGTCTTTTTTTTAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGG
* *
57012990 GTCACGCTGAGGTATTTTTAATTTATGTCTTTTTTTAAAAAAAATCAACTCATAATACAGAGGTG
65 GTCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTT---TAAAATCAACTCATAATACAGAGGTG
57013055 AGTTGAGCCTCGGGTCACGCTGAGG
127 AGTTGAGCCTCGGGTCACGCTGAGG
* * *
57013080 ------T-ATTTC-CTCTCTTTTTT-AAAATCAACTCAAAATACAGAGGTGAGTTGAGCCTCGGG
1 TATTTTTAATTTCTGTCTTTTTTTTAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
* * *
57013136 TCACGTTGAGGTATTTTTAATTTCGGTCTTTTTTTTTAAAATCAACTCATAATACAAAGGTGAGT
66 TCACGCTGAGGTATTTTTAATTTCTGTC-TTTTTTTTAAAATCAACTCATAATACAGAGGTGAGT
*
57013201 TGAGCCTCGGATCACGCTGAGG
130 TGAGCCTCGGGTCACGCTGAGG
57013223 TATTTTTAATTTCTGTC--TTTTTT-AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
1 TATTTTTAATTTCTGTCTTTTTTTTAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGG
* * * *
57013285 GTCACGCTGAGGTACTTCTTTTAAATTTCTGT-TTTTTTTCAAAAAAATCAACACATATTGCGAG
65 GTCACGCTGAGGTA--T-TTTT-AATTTCTGTCTTTTTTT---TAAAATCAACTCATAATAC-AG
* ** * * *
57013349 AGGTGAGTTAAGCCTCGGACCATGCCGATG
122 AGGTGAGTTGAGCCTCGGGTCACGCTGAGG
* * *
57013379 TATTTCATTTAAATTTCTG----TTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCC
1 TA-TT--TTT-AATTTCTGTCTTTTTTTTAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCC
57013440 TCGGG
61 TCGGG
57013445 CGACACTCCG
Statistics
Matches: 988, Mismatches: 78, Indels: 95
0.85 0.07 0.08
Matches are distributed among these distances:
140 17 0.02
141 31 0.03
142 4 0.00
143 50 0.05
144 50 0.05
145 73 0.07
146 30 0.03
147 1 0.00
148 4 0.00
149 53 0.05
150 89 0.09
151 175 0.18
152 139 0.14
153 23 0.02
154 74 0.07
155 69 0.07
156 51 0.05
157 2 0.00
158 5 0.01
159 40 0.04
160 8 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (151 bp):
TATTTTTAATTTCTGTCTTTTTTTTAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
TCACGCTGAGGTATTTTTAATTTCTGTCTTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTT
GAGCCTCGGGTCACGCTGAGG
Found at i:57013688 original size:29 final size:29
Alignment explanation
Indices: 57013642--57013755 Score: 156
Period size: 29 Copynumber: 3.9 Consensus size: 29
57013632 CAAAAATAAA
*
57013642 AAATTACATTTTGGCCCCTAAACTTTTTG
1 AAATTACATTTTGACCCCTAAACTTTTTG
* * * *
57013671 AAATTGCATTTTGACCCCTAAAATTTCATA
1 AAATTACATTTTGACCCCTAAACTTT-TTG
* *
57013701 AAATTACATTTTAACCCATAAACTTTTTG
1 AAATTACATTTTGACCCCTAAACTTTTTG
57013730 AAATTACATTTTGACCCCTAAACTTT
1 AAATTACATTTTGACCCCTAAACTTT
57013756 CTCAAAATTT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
29 48 0.68
30 23 0.32
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.39
Consensus pattern (29 bp):
AAATTACATTTTGACCCCTAAACTTTTTG
Found at i:57013709 original size:59 final size:59
Alignment explanation
Indices: 57013641--57013764 Score: 187
Period size: 59 Copynumber: 2.1 Consensus size: 59
57013631 ACAAAAATAA
** * *
57013641 AAAATTACATTTTGGCCCCTAAACTTTTTGAAATTGCATTTTGACCCCTAAAATTTCAT-
1 AAAATTACATTTTAACCCATAAACTTTTTGAAATTACATTTTGACCCCTAAAATTTC-TC
*
57013700 AAAATTACATTTTAACCCATAAACTTTTTGAAATTACATTTTGACCCCTAAACTTTCTC
1 AAAATTACATTTTAACCCATAAACTTTTTGAAATTACATTTTGACCCCTAAAATTTCTC
57013759 AAAATT
1 AAAATT
57013765 TTGTTTCAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 1 0.02
59 58 0.98
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (59 bp):
AAAATTACATTTTAACCCATAAACTTTTTGAAATTACATTTTGACCCCTAAAATTTCTC
Found at i:57013776 original size:59 final size:60
Alignment explanation
Indices: 57013641--57013786 Score: 174
Period size: 59 Copynumber: 2.5 Consensus size: 60
57013631 ACAAAAATAA
*** *
57013641 AAAATTACATTTTGGCCCC-TAAACTTTTTGAAATTGCATTTTGACCCCTAAAATTTCAT
1 AAAATTACATTTCAACCCCATAAACTTTTTGAAATTACATTTTGACCCCTAAAATTTCAT
* *
57013700 AAAATTACATTTTAA-CCCATAAACTTTTTGAAATTACATTTTGACCCCTAAACTTTC-T
1 AAAATTACATTTCAACCCCATAAACTTTTTGAAATTACATTTTGACCCCTAAAATTTCAT
***
57013758 CAAAATTTTGTTTCAACCCCA-AAACTTTT
1 -AAAATTACATTTCAACCCCATAAACTTTT
57013787 GTTGCATTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
58 4 0.05
59 68 0.89
60 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.39
Consensus pattern (60 bp):
AAAATTACATTTCAACCCCATAAACTTTTTGAAATTACATTTTGACCCCTAAAATTTCAT
Found at i:57014020 original size:21 final size:21
Alignment explanation
Indices: 57013996--57014052 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
57013986 AAAAACTTGC
57013996 AAAAAAGAGAAAAAGAAGAGG
1 AAAAAAGAGAAAAAGAAGAGG
* *
57014017 AAAAAGGAGAGAAAG-AGAGG
1 AAAAAAGAGAAAAAGAAGAGG
* * *
57014037 AGAAATGAGAAGAAGA
1 AAAAAAGAGAAAAAGA
57014053 GGAGAGCCTC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (21 bp):
AAAAAAGAGAAAAAGAAGAGG
Found at i:57014125 original size:13 final size:13
Alignment explanation
Indices: 57014107--57014136 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
57014097 GCACAAGCGA
57014107 CGGCGCGGCGCGG
1 CGGCGCGGCGCGG
57014120 CGGCGCGGCGCGG
1 CGGCGCGGCGCGG
57014133 CGGC
1 CGGC
57014137 TAGGGTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.40, G:0.60, T:0.00
Consensus pattern (13 bp):
CGGCGCGGCGCGG
Found at i:57014497 original size:15 final size:17
Alignment explanation
Indices: 57014477--57014516 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
57014467 AAAAATAAAA
57014477 AAAAAAGAAG-GAA-AG
1 AAAAAAGAAGAGAAGAG
57014492 AAAAAAG-AGAGAAGAG
1 AAAAAAGAAGAGAAGAG
57014508 AAAAAAGAA
1 AAAAAAGAA
57014517 AAAAAAGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 10 0.45
16 9 0.41
17 1 0.05
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAGAGAAGAG
Found at i:57014912 original size:22 final size:20
Alignment explanation
Indices: 57014879--57014921 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
57014869 TCGGGTTTCG
57014879 AAATTTTCGTGTCTTTAAAAA
1 AAATTTTCGTGT-TTTAAAAA
57014900 AAATTTCTCGTGTTTTCAAAAA
1 AAATTT-TCGTGTTTT-AAAAA
57014922 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (20 bp):
AAATTTTCGTGTTTTAAAAA
Found at i:57014920 original size:20 final size:21
Alignment explanation
Indices: 57014879--57014921 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
57014869 TCGGGTTTCG
57014879 AAATTTTCGTGTCTTTAAAAA
1 AAATTTTCGTGTCTTTAAAAA
*
57014900 AAATTTCTCGTGT-TTTCAAAA
1 AAATTT-TCGTGTCTTTAAAAA
57014921 A
1 A
57014922 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (21 bp):
AAATTTTCGTGTCTTTAAAAA
Found at i:57017085 original size:6 final size:7
Alignment explanation
Indices: 57017064--57017090 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
57017054 AGTAATATAA
57017064 TTTGTTT
1 TTTGTTT
57017071 TTTGTTT
1 TTTGTTT
57017078 TTTGTTT
1 TTTGTTT
57017085 TTTGTT
1 TTTGTT
57017091 AACGGAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (7 bp):
TTTGTTT
Found at i:57017797 original size:40 final size:40
Alignment explanation
Indices: 57017682--57017788 Score: 142
Period size: 40 Copynumber: 2.6 Consensus size: 40
57017672 CTTACATTTC
*
57017682 GGGGCTTTAGCGGCGTTTTTGAAAATACGCCGCTAATGCTT
1 GGGGCTTTAGCGGCGTTTTTGAAAA-ACGCCGCTAATGCTG
* * * * *
57017723 GGTGTTTTAGCAGCGTTTTTTAAAAGCGCCGCTAATGCTG
1 GGGGCTTTAGCGGCGTTTTTGAAAAACGCCGCTAATGCTG
*
57017763 GGGGCTTTAGCGGCGTTTCTGAAAAA
1 GGGGCTTTAGCGGCGTTTTTGAAAAA
57017789 AACTGCTAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
40 33 0.61
41 21 0.39
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (40 bp):
GGGGCTTTAGCGGCGTTTTTGAAAAACGCCGCTAATGCTG
Found at i:57018225 original size:22 final size:22
Alignment explanation
Indices: 57018172--57018262 Score: 75
Period size: 21 Copynumber: 4.3 Consensus size: 22
57018162 TAGGGATTAT
*
57018172 GGTTTAAGGGTT-GAGATTTA-A
1 GGTTTAAGGGTTAGAGA-TTAGG
* * *
57018193 GATTTAGGGGTTAGAGGTTAGG
1 GGTTTAAGGGTTAGAGATTAGG
*
57018215 GGTTTAAGGGTTAGATATTAGG
1 GGTTTAAGGGTTAGAGATTAGG
*
57018237 GG-TTAAGAGTTAG-GATTCA-G
1 GGTTTAAGGGTTAGAGATT-AGG
57018257 GGTTTA
1 GGTTTA
57018263 GGGATTTAGG
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
20 6 0.11
21 27 0.48
22 23 0.41
ACGTcount: A:0.26, C:0.01, G:0.37, T:0.35
Consensus pattern (22 bp):
GGTTTAAGGGTTAGAGATTAGG
Found at i:57018510 original size:21 final size:20
Alignment explanation
Indices: 57018476--57018516 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
57018466 ATATGGATTA
*
57018476 GGGATTATGGTTTACGGGTT
1 GGGATTAAGGTTTACGGGTT
*
57018496 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTACGGGTT
57018517 AGAGATTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.02, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTACGGGTT
Found at i:57018530 original size:22 final size:22
Alignment explanation
Indices: 57018505--57018552 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
57018495 TGGGATTTAA
*
57018505 GGTTTAGGGGTTAGAGATTAGG
1 GGTTTAGGGGTTAGACATTAGG
57018527 GGTTTAGGGGTTAGACATTAGG
1 GGTTTAGGGGTTAGACATTAGG
57018549 GGTT
1 GGTT
57018553 AAGAGTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.02, G:0.44, T:0.33
Consensus pattern (22 bp):
GGTTTAGGGGTTAGACATTAGG
Found at i:57024907 original size:42 final size:43
Alignment explanation
Indices: 57024834--57024922 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 43
57024824 AGCGGCGTTT
* *
57024834 GTTTGTGGGTAAAGCGCCGTTAAAGACCATGTT-TTTAGCGGC
1 GTTTGTGGGTAAAGCGCCGCTAAAGACCATGTTCTATAGCGGC
* ** *
57024876 GTTTGTGGGTAAAGCGTCGCTAAAGGTCATGTTCTATAGCGGT
1 GTTTGTGGGTAAAGCGCCGCTAAAGACCATGTTCTATAGCGGC
57024919 GTTT
1 GTTT
57024923 TTTCAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 29 0.73
43 11 0.28
ACGTcount: A:0.20, C:0.15, G:0.31, T:0.34
Consensus pattern (43 bp):
GTTTGTGGGTAAAGCGCCGCTAAAGACCATGTTCTATAGCGGC
Found at i:57026890 original size:21 final size:20
Alignment explanation
Indices: 57026847--57026891 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
57026837 ATTAAGAATG
*
57026847 AATAAATAAATTTATATATT
1 AATAAATAAATTTATACATT
57026867 AATAATATATAATTT-TACATT
1 AATAA-ATA-AATTTATACATT
57026888 AATA
1 AATA
57026892 TTTTTTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 12 0.55
22 5 0.23
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AATAAATAAATTTATACATT
Found at i:57031322 original size:17 final size:17
Alignment explanation
Indices: 57031300--57031332 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
57031290 TATAACAGCT
57031300 TTGACTAACAGCTACTC
1 TTGACTAACAGCTACTC
57031317 TTGACTAACAGCTACT
1 TTGACTAACAGCTACT
57031333 GACTATCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.30
Consensus pattern (17 bp):
TTGACTAACAGCTACTC
Found at i:57034251 original size:13 final size:13
Alignment explanation
Indices: 57034233--57034257 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57034223 TTGGCAATGC
57034233 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
57034246 TTTTGAAAAGTG
1 TTTTGAAAAGTG
57034258 ATGTGAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:57034267 original size:13 final size:13
Alignment explanation
Indices: 57034251--57034282 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
57034241 AGTGTTTTTG
*
57034251 AAAAGTGATGTGA
1 AAAAGTGACGTGA
57034264 AAAAGTGACGTGA
1 AAAAGTGACGTGA
57034277 AAAAGT
1 AAAAGT
57034283 ACTTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.28, T:0.19
Consensus pattern (13 bp):
AAAAGTGACGTGA
Found at i:57045136 original size:63 final size:63
Alignment explanation
Indices: 57044954--57045136 Score: 213
Period size: 63 Copynumber: 2.9 Consensus size: 63
57044944 GTACTGTTAC
* * * ** * * *
57044954 TATAAAGTACCTTAATAAAACACATATTGATAGTTTAAGTACGATATTGGATAATTTGTGAACA
1 TATAAA-TACCATAATAAAACACATATTGATAGTTCAAGTACCATATTAAATATTTTATGAAAA
* ** * * *
57045018 TACAAATACCATAATAAAATGCATATTAATAGTTCAGGTACCAAATTAAATATTTTATGAAAA
1 TATAAATACCATAATAAAACACATATTGATAGTTCAAGTACCATATTAAATATTTTATGAAAA
* *
57045081 TATAAATACCATAATAAAACACATATTGATAGTTCAAATACCATATTAAACATTTT
1 TATAAATACCATAATAAAACACATATTGATAGTTCAAGTACCATATTAAATATTTT
57045137 TAATACTACA
Statistics
Matches: 97, Mismatches: 22, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
63 92 0.95
64 5 0.05
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.33
Consensus pattern (63 bp):
TATAAATACCATAATAAAACACATATTGATAGTTCAAGTACCATATTAAATATTTTATGAAAA
Found at i:57053662 original size:3 final size:3
Alignment explanation
Indices: 57053649--57053712 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
57053639 ATTAATTTAT
* * * ** * *
57053649 ATA AAA ATA ATA ATA ATA GTA TTA ATA GCA ATA ATA ATG GTA CATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
57053695 ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA
57053713 TTATTATTAT
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
3 45 0.96
4 2 0.04
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:57055329 original size:44 final size:45
Alignment explanation
Indices: 57055276--57055528 Score: 196
Period size: 44 Copynumber: 5.7 Consensus size: 45
57055266 TTGTCGTTTT
* * *
57055276 AATCCGCTCCACTGCAACTTCAGGGAGAT-GGAATTAG-TAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG-ATTAGCTAGCTTC
* * * *
57055320 AA-CATGCTCCACTACAACTTTAGGGAGATAAGATTCGCTATCTTC
1 AATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAGCTTC
* ** * *
57055365 AATCTGCTCCACTGCAACTTCAGAGAGATAAGGCTGGTTA-CTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAGCTTC
* * * ** *
57055409 AGTCTGCACCACTGCAACTTCAGAGG-GATAAGACTTTGCTTTCTGC
1 AATCTGCTCCACTGCAACTTCAG-GGAGATAAGA-TTAGCTAGCTTC
* * * * *
57055455 AGTCTGCTCCACTACAACTTCAGGTAGATAAGACTTA--TAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGCTAGCTTC
*
57055499 AATCTGCTCCACTACAACTTCAGGGAGATA
1 AATCTGCTCCACTGCAACTTCAGGGAGATA
57055529 GAATTATTCA
Statistics
Matches: 168, Mismatches: 33, Indels: 16
0.77 0.15 0.07
Matches are distributed among these distances:
43 1 0.01
44 90 0.54
45 42 0.25
46 35 0.21
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGCTAGCTTC
Found at i:57055505 original size:90 final size:88
Alignment explanation
Indices: 57055276--57055528 Score: 260
Period size: 90 Copynumber: 2.8 Consensus size: 88
57055266 TTGTCGTTTT
* * * *
57055276 AATCCGCTCCACTGCAACTTCAGGGAGAT-GGAATTAGTAGCTTTAA-CATGCTCCACTACAACT
1 AATCTGCTCCACTGCAACTTCA-GGAGATAAGACTTA-TAACTTTAATC-TGCTCCACTACAACT
* *
57055339 TTAGGGAGATAAGATTCGCTATCTTC
63 TCAGGGAGATAAGATTCGCTATCTGC
* ** * * * * *
57055365 AATCTGCTCCACTGCAACTTCAGAGAGATAAGGCTGGTTACTTCAGTCTGCACCACTGCAACTTC
1 AATCTGCTCCACTGCAACTTCAG-GAGATAAGACTTATAACTTTAATCTGCTCCACTACAACTTC
* *
57055430 AGAGG-GATAAGACTTTGCTTTCTGC
65 AG-GGAGATAAGA-TTCGCTATCTGC
* *
57055455 AGTCTGCTCCACTACAACTTCAGGTAGATAAGACTTATAACTTTAATCTGCTCCACTACAACTTC
1 AATCTGCTCCACTGCAACTTCAGG-AGATAAGACTTATAACTTTAATCTGCTCCACTACAACTTC
57055520 AGGGAGATA
65 AGGGAGATA
57055529 GAATTATTCA
Statistics
Matches: 131, Mismatches: 26, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
88 1 0.01
89 57 0.44
90 73 0.56
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (88 bp):
AATCTGCTCCACTGCAACTTCAGGAGATAAGACTTATAACTTTAATCTGCTCCACTACAACTTCA
GGGAGATAAGATTCGCTATCTGC
Found at i:57057472 original size:12 final size:13
Alignment explanation
Indices: 57057449--57057477 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
57057439 TCCTTCTTTA
57057449 TTATTATTATTTT
1 TTATTATTATTTT
57057462 TTATT-TTATTTT
1 TTATTATTATTTT
57057474 TTAT
1 TTAT
57057478 AACTCAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTATTATTTT
Found at i:57057591 original size:44 final size:45
Alignment explanation
Indices: 57057470--57057592 Score: 131
Period size: 45 Copynumber: 2.8 Consensus size: 45
57057460 TTTTATTTTA
* * * * * *
57057470 TTTTTTATAACTCAAAGCGTCCTTTGTGGGTTTTCACCTTGGTTT
1 TTTTTTAGAACTCAAAGCGCCCTTTGCGAGTTTTCACCTTAGTTC
* * * *
57057515 TTTTTTAGAACTTAAGGCGCCCATTGCAAGTTTTCACCTTAG-TC
1 TTTTTTAGAACTCAAAGCGCCCTTTGCGAGTTTTCACCTTAGTTC
* *
57057559 TTTTTTAGGACTCAAAGTGCCCTTTGCGAGTTTT
1 TTTTTTAGAACTCAAAGCGCCCTTTGCGAGTTTT
57057593 TTCCTTGGTC
Statistics
Matches: 62, Mismatches: 16, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
44 29 0.47
45 33 0.53
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.44
Consensus pattern (45 bp):
TTTTTTAGAACTCAAAGCGCCCTTTGCGAGTTTTCACCTTAGTTC
Found at i:57061024 original size:16 final size:16
Alignment explanation
Indices: 57060999--57061033 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
57060989 TTCTATGATG
*
57060999 AAATGTCATGCAATCA
1 AAATGCCATGCAATCA
57061015 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
57061031 AAA
1 AAA
57061034 CAAAACACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.20, G:0.11, T:0.20
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:57063200 original size:3 final size:3
Alignment explanation
Indices: 57063095--57063181 Score: 57
Period size: 3 Copynumber: 29.0 Consensus size: 3
57063085 ATTAATTTAT
* * * * ** * *
57063095 ATA AAA ATA AAA ATA ATA ATA GTA TTA ATA GCA ATA ACA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
57063143 ATA ATA ACA ACA ACA ACA ATA ATA ATA CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
57063182 TTAAACTGAT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:57075120 original size:3 final size:3
Alignment explanation
Indices: 57075105--57075239 Score: 103
Period size: 3 Copynumber: 44.3 Consensus size: 3
57075095 ATTTTGATAA
* * * ** *
57075105 TAT TAT CAT TAT TAT TAT TTT TAA TAT TGC TAT TAT TAT CAT CCTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT
* *
57075152 TAT TAT TAT TAT TAT TAT TAT T-T TCAT TAT TAC TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * *
57075197 TTT TAT T-T TAC TAC TCT TAT TAT TAT TAT ATAT TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T
57075240 TTTAAATTGT
Statistics
Matches: 103, Mismatches: 23, Indels: 12
0.75 0.17 0.09
Matches are distributed among these distances:
2 4 0.04
3 92 0.89
4 5 0.05
5 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:57078941 original size:8 final size:8
Alignment explanation
Indices: 57078928--57078956 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
57078918 AGTAGAGGCA
57078928 AAAAAAAT
1 AAAAAAAT
57078936 AAAAAAAT
1 AAAAAAAT
57078944 AAAAAAAT
1 AAAAAAAT
57078952 AAAAA
1 AAAAA
57078957 CAAAACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:57079430 original size:17 final size:17
Alignment explanation
Indices: 57079408--57079456 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
57079398 ACTTCACTTG
*
57079408 AAAAGAAATGAAAAGAA
1 AAAAGAAAAGAAAAGAA
57079425 AAAAGAAAAGAAAAGAA
1 AAAAGAAAAGAAAAGAA
* *
57079442 GAATGAAAAAGAAAA
1 AAAAG-AAAAGAAAA
57079457 ATGAGAGGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 19 0.68
18 9 0.32
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (17 bp):
AAAAGAAAAGAAAAGAA
Found at i:57080611 original size:89 final size:89
Alignment explanation
Indices: 57080377--57080611 Score: 272
Period size: 89 Copynumber: 2.6 Consensus size: 89
57080367 CAAGTCTTAT
** * * * * * *
57080377 CTCCCTAAAATTGTAGCGGAATAGACTAAAAACAGTAGATCTTGTCTTCCTGTATTGGCAGCGAA
1 CTCCCTAAGTTTGCAGCGGAACAGACTGAAGATAGTAGATCTTGTCTTCCTGTACTGGCAGCGAA
*
57080442 GCAGATCGAAGACACCAGCCTGAC
66 GCAAATCGAAGACACCAGCCTGAC
* * ** * *
57080466 CTCCCTAAGTTTGCAGTGGAGCAGGTTGAAGATAGCAGATCTTGTCTTCCTATACTGGCAGCGAA
1 CTCCCTAAGTTTGCAGCGGAACAGACTGAAGATAGTAGATCTTGTCTTCCTGTACTGGCAGCGAA
*
57080531 GCAAATCGAAGACACTAGCCTGAC
66 GCAAATCGAAGACACCAGCCTGAC
* * * * **
57080555 GTCCTTGAGTTTTCAGCGGAACAGACTGAAGATAGTAGATCTTGTCTTTTTGTACTG
1 CTCCCTAAGTTTGCAGCGGAACAGACTGAAGATAGTAGATCTTGTCTTCCTGTACTG
57080612 ACAATTAAGT
Statistics
Matches: 118, Mismatches: 28, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
89 118 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (89 bp):
CTCCCTAAGTTTGCAGCGGAACAGACTGAAGATAGTAGATCTTGTCTTCCTGTACTGGCAGCGAA
GCAAATCGAAGACACCAGCCTGAC
Found at i:57080839 original size:50 final size:50
Alignment explanation
Indices: 57080666--57081148 Score: 205
Period size: 50 Copynumber: 9.7 Consensus size: 50
57080656 GCAGTCGAAC
* * * *
57080666 AGATTGAAGCTACAACGGCGAATCTT-GTTCCCCAACATTGCAATTTAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTAAAA
* ** * ** * ** **
57080715 AGATTAAAGCCGTAACGACGAATCTTACTTTCCTGGA-AGTTGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGAATCTTAC-TTCCCCGACA-TTGCAATTAAAA
* * * ** * * *
57080766 AGATTAAAGCTACGATAGTGAATCTTGCTTCCCCGATATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTAAAA
* * * * ** * ** **
57080816 AGATTGAAGCCGCAACGACGAATCTTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTAAAA
* * * ** * * *
57080866 AGATTAAAGCTACGACGTTGAATCTTGCTTTCCCAACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTAAAA
* * * * * * * * ** **
57080916 ATATTGAAGCCGCAATGGCGAATCTTACTTCTCTGGCAGTGCAGTGGAGT
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTAAAA
* * * * * *
57080966 AGATTAAAGCTACGACGGTGAATCTTGCTTCACCGACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTAAAA
* * ** * * ** **
57081016 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAGC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTAAAA
* * * * * *
57081066 AGATTAAAGCTACGATGGTGAATCTTGCTTCCCCGACATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTAAAA
* ** **
57081116 AGATTAAAGCTGCAACAACGAATCTTACTTCCC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCC
57081149 TGGCGGTGTA
Statistics
Matches: 287, Mismatches: 143, Indels: 7
0.66 0.33 0.02
Matches are distributed among these distances:
49 21 0.07
50 234 0.82
51 32 0.11
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTAAAA
Found at i:57080859 original size:100 final size:100
Alignment explanation
Indices: 57080685--57081213 Score: 713
Period size: 100 Copynumber: 5.3 Consensus size: 100
57080675 CTACAACGGC
* * * * *
57080685 GAATCTTG-TTCCCCAACATTGCAATTTAAAAGATTAAAGCCGTAACGACGAATCTTACTTTCCT
1 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTTCCCT
* *
57080749 GGAAGTTGCAGTGGAGCAGATTAAAGCTACGATAGT
66 GG-CGGTGCAGTGGAGCAGATTAAAGCTACGATAGT
*
57080785 GAATCTTGCTTCCCCGATATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTTCCCT
1 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTTCCCT
*
57080850 GGCGGTGCAGTGGAGCAGATTAAAGCTACGA-CGTT
66 GGCGGTGCAGTGGAGCAGATTAAAGCTACGATAG-T
* * * * * *
57080885 GAATCTTGCTTTCCCAACATTGCAATTAAAAATATTGAAGCCGCAATGGCGAATCTTACTTCTCT
1 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTTCCCT
* * **
57080950 GGCAGTGCAGTGGAGTAGATTAAAGCTACGACGGT
66 GGCGGTGCAGTGGAGCAGATTAAAGCTACGATAGT
* * *
57080985 GAATCTTGCTTCACCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCT
1 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTTCCCT
* *
57081050 GGCGGTGTAGTGGAGCAGATTAAAGCTACGATGGT
66 GGCGGTGCAGTGGAGCAGATTAAAGCTACGATAGT
* * *
57081085 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTAAAGCTGCAACAACGAATCTTACTTCCCT
1 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTTCCCT
* * * *
57081150 GGCGGTGTAGTGG-GACAGATTGAAGCTACAAAAGT
66 GGCGGTGCAGTGGAG-CAGATTAAAGCTACGATAGT
* *
57081185 GAATCTTGCTTCCTCGACATTGCAGTTAA
1 GAATCTTGCTTCCCCGACATTGCAATTAA
57081214 TTAGATAGAA
Statistics
Matches: 383, Mismatches: 42, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
99 2 0.01
100 328 0.86
101 53 0.14
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (100 bp):
GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTTCCCT
GGCGGTGCAGTGGAGCAGATTAAAGCTACGATAGT
Found at i:57081189 original size:50 final size:49
Alignment explanation
Indices: 57081033--57081197 Score: 125
Period size: 50 Copynumber: 3.3 Consensus size: 49
57081023 AGCCACAACG
* **
57081033 GCGAATCTTACTTCCCTGGCGGTGTAGTGGAGCAGATTAAAGCTACGATG
1 GCGAATCTTACTTCCCTGGCGGTGTAGTGGA-CAGATTAAAGCTACAAAA
* * * * ** * * ** * *
57081083 GTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTAAAGCTGCAACAA
1 GCGAATCTTACTTCCCTGGCGGTG-TAGTGGACAGATTAAAGCTACAA-AA
*
57081134 -CGAATCTTACTTCCCTGGCGGTGTAGTGGGACAGATTGAAGCTACAAAA
1 GCGAATCTTACTTCCCTGGCGGTGTAGT-GGACAGATTAAAGCTACAAAA
* *
57081183 GTGAATCTTGCTTCC
1 GCGAATCTTACTTCC
57081198 TCGACATTGC
Statistics
Matches: 81, Mismatches: 30, Indels: 8
0.68 0.25 0.07
Matches are distributed among these distances:
49 4 0.05
50 74 0.91
51 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
GCGAATCTTACTTCCCTGGCGGTGTAGTGGACAGATTAAAGCTACAAAA
Found at i:57081365 original size:85 final size:88
Alignment explanation
Indices: 57081232--57081691 Score: 239
Period size: 85 Copynumber: 5.3 Consensus size: 88
57081222 AAGCCAATCC
* * * ** * **
57081232 TATCTCCCTGAAATTGCAGTGTAGCGGATTAAAAACACAGATCTTATCTCTTTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAGAAAAAACACAGATCCTATCTCACTGAAGTTGCAGTA
***
57081297 GAGCAGA-TCGCATC-CAG-TCT
66 GAGCAGATTAAAATCACAGATCT
*
57081317 TATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAAC-CA-ATCCTATCTCACTGAAGTTGTAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-GAAA-AAACACAGATCCTATCTCACTGAAGTTGCAG
*
57081380 TGGAGCAGATTAAAATCACAGATCT
64 TAGAGCAGATTAAAATCACAGATCT
* * * **** * *
57081405 TATCTCTCTGAAGTTGCAGTAGAGTAGA-TCGCATC-CAG-TCTTATCTC-CTTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAGAAAAAACACAGATCCTATCTCAC-TGAAGTTGCAGT
* **
57081466 GGAGTGGATTAAAATCACAGATCT
65 AGAGCAGATTAAAATCACAGATCT
* * * * **** * * * * *
57081490 TATCTCTCTGAAGTTGAAGTAGAGTAGA-TTGCATC-CAG-TCTTATCTCCCTAAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAGAAAAAACACAGATCCTATCTCACTGAAGTTGCAGTA
** * *
57081552 GAGCAGAAGAAAGA-AACCA-ATCC
66 GAGCAGATTAAA-ATCA-CAGATCT
* * ** * * * *
57081575 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGAGAAAAAACACAGATCCTATCTCACTGAAGTTGCAGTA
* * * * * *
57081640 GAGTAGATCACACCATAATA-AGCCT
66 GAGCAGATTA-A-AATCACAGA-TCT
57081665 TATCTCCCTGAAGTTGCAGTGGAGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAG
57081692 GTTGAAGATA
Statistics
Matches: 304, Mismatches: 54, Indels: 29
0.79 0.14 0.07
Matches are distributed among these distances:
84 1 0.00
85 188 0.62
86 16 0.05
87 10 0.03
88 57 0.19
89 4 0.01
90 28 0.09
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (88 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGAGAAAAAACACAGATCCTATCTCACTGAAGTTGCAGTA
GAGCAGATTAAAATCACAGATCT
Found at i:57081494 original size:129 final size:129
Alignment explanation
Indices: 57081232--57081634 Score: 447
Period size: 129 Copynumber: 3.1 Consensus size: 129
57081222 AAGCCAATCC
* * * * * * *
57081232 TATCTCCCTGAAATTGCAGTGTAGCGGATTAAAAACACAGATCTTATCTCTTTGAAGTTGCAGTA
1 TATCTCTCTGAAGTTGAAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTA
* * * ** *
57081297 GAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGA-AACCA-ATC
66 GAGAAGATCGCATCCAGTCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAA-ATCA-CAGATC
*
57081360 C
129 T
* *
57081361 TATCTCACTGAAGTTGTAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCTCTGAAGTTGAAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTA
* *
57081426 GAGTAGATCGCATCCAGTCTTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCT
66 GAGAAGATCGCATCCAGTCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCT
* * ** * *
57081490 TATCTCTCTGAAGTTGAAGTAGAGTAGATT-GCATC-CAG-TCTTATCTCCCTAAAGTTGCAGTG
1 TATCTCTCTGAAGTTGAAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGT-
** * * * *
57081552 GAGCAGAAGAAAGAAACCAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGAT
65 -AG-AGAAGATCGCATCCAGTCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGAT
57081617 CT
128 CT
*
57081619 TATCTCTCTAAAGTTG
1 TATCTCTCTGAAGTTG
57081635 CAGTAGAGTA
Statistics
Matches: 237, Mismatches: 32, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
126 21 0.09
127 3 0.01
128 8 0.03
129 205 0.86
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (129 bp):
TATCTCTCTGAAGTTGAAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTA
GAGAAGATCGCATCCAGTCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCT
Found at i:57081573 original size:214 final size:214
Alignment explanation
Indices: 57081232--57081648 Score: 692
Period size: 214 Copynumber: 1.9 Consensus size: 214
57081222 AAGCCAATCC
* * *
57081232 TATCTCCCTGAAATTGCAGTGTAGCGGATTAAAAACACAGATCTTATCTCTTTGAAGTTGCAGTA
1 TATCTCCCTGAAATTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGAAGTA
* *
57081297 GAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAACCAATCCT
66 GAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAAGAAAGAAACCAATCCT
* *
57081362 ATCTCAC-TGAAGTTGTAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGTA
131 ATCTC-CTTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGTA
57081426 GAGTAGATCGCATCCAGTCT
195 GAGTAGATCGCATCCAGTCT
* * * *
57081446 TATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGAAGTA
1 TATCTCCCTGAAATTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGAAGTA
* *
57081511 GAGTAGATTGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAAGAAAGAAACCAATCCT
66 GAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAAGAAAGAAACCAATCCT
*
57081576 ATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGTAG
131 ATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGTAG
57081641 AGTAGATC
196 AGTAGATC
57081649 ACACCATAAT
Statistics
Matches: 188, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
213 1 0.01
214 187 0.99
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (214 bp):
TATCTCCCTGAAATTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGAAGTA
GAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAAGAAAGAAACCAATCCT
ATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCAGTAG
AGTAGATCGCATCCAGTCT
Found at i:57081716 original size:44 final size:43
Alignment explanation
Indices: 57081225--57081778 Score: 255
Period size: 44 Copynumber: 12.8 Consensus size: 43
57081215 TAGATAGAAG
* * * * *
57081225 CCAATCCTATCTCCCTGAAATTGCAGTGTAGC-GGATT-AAAAA
1 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGG-TTGAACAT
** * * *
57081267 CACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGATCG--CAT
1 C-CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAACAT
* **
57081310 CCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAA-A-
1 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG--G-TTGAACAT
* * * * *
57081354 CCAATCCTATCTCACTGAAGTTGTAGTGGAGCAGATT-AAAAT
1 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAACAT
* * * * *
57081396 CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCG--CAT
1 C-CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAACAT
* * * *
57081439 CCAGTCTTATCTCCTTGAAGTTGCAGTGGAG-TGGATT-AAAAT
1 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGG-TTGAACAT
* * * * *
57081481 CACAGATCTTATCTCTCTGAAGTTGAAGTAGAGTAGATTG--CAT
1 C-CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAACAT
* * **
57081524 CCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAAGAAAGAA-A-
1 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG--G-TTGAACAT
* * *
57081568 CCAATCCTATCTCCTTGAAGTTGCAGTGGAGC-GGATT-AAAAT
1 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGG-TTGAACAT
* * * * * *
57081610 CACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTA-GATCACACCAT
1 C-CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGA-A-CAT
** * *
57081656 AATAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGAT
1 -CCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAACAT
* *
57081701 ACCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC-T
1 -CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAA-CAT
* ** * *
57081745 ACTAATAATATCTCCTTGAAGTTACAGTGGAGCA
1 -CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
57081779 AATTAAAACG
Statistics
Matches: 382, Mismatches: 92, Indels: 74
0.70 0.17 0.14
Matches are distributed among these distances:
40 5 0.01
41 81 0.21
42 12 0.03
43 18 0.05
44 224 0.59
45 11 0.03
46 28 0.07
47 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (43 bp):
CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAACAT
Found at i:57081727 original size:134 final size:129
Alignment explanation
Indices: 57081443--57081738 Score: 389
Period size: 129 Copynumber: 2.3 Consensus size: 129
57081433 TCGCATCCAG
* *
57081443 TCTTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGAA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGAA
** *
57081508 GTAGAGTAGATTGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGAAGAAAGAAACCAA
66 GTAGAGTAGATCACATCCAGCCTTATCTCCCTAAAGTTGCAGTGGAGCAGAAGAAAGAAACCAA
* *
57081572 TCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGCA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGAA
* **
57081637 GTAGAGTAGATCACA-CCATAATAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTG-AAGA
66 GTAGAGTAGATCACATCC------AGCCTTATCTCCCTAAAGTTGCAGTGGAGCA-GAAGAAAGA
*
57081700 TACCAA
124 AACCAA
* * *
57081706 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCGGATT
57081739 GAAGCTACTA
Statistics
Matches: 145, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
128 2 0.01
129 74 0.51
134 67 0.46
135 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (129 bp):
TCTTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTAAAGTTGAA
GTAGAGTAGATCACATCCAGCCTTATCTCCCTAAAGTTGCAGTGGAGCAGAAGAAAGAAACCAA
Found at i:57083621 original size:3 final size:3
Alignment explanation
Indices: 57083606--57083739 Score: 94
Period size: 3 Copynumber: 44.3 Consensus size: 3
57083596 ATTTTGATAA
* * * ** *
57083606 TAT TAT CAT TAT TAT TAT TTT TAA TAT TGC TAT TAT TAT CAT CGTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT
* *
57083653 TAT TAT TAT TAT TAT TAT TAT TAT T-T TCAT TAT TAC TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* * * * *
57083698 TAT T-T TAT T-T TAC TAC TCT TAT TAT TAT ATAC TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T
57083740 TTTAAATTGT
Statistics
Matches: 101, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
2 6 0.06
3 89 0.88
4 4 0.04
5 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:57083867 original size:21 final size:20
Alignment explanation
Indices: 57083843--57083927 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 20
57083833 TCAGTTTGTT
57083843 TTATTTTTTATTTTCATTTTA
1 TTATTTTTTATTTT-ATTTTA
*
57083864 TTA--TTTCA--TTATTTTA
1 TTATTTTTTATTTTATTTTA
*
57083880 TTGTTTTTTATTATTATTTATA
1 TTATTTTTTATT-TTATTT-TA
*
57083902 TTATTTTTGT-TTTTACTCTTA
1 TTATTTTT-TATTTTA-TTTTA
57083923 TTATT
1 TTATT
57083928 CCTTTTTGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
16 8 0.16
17 2 0.04
18 4 0.08
19 4 0.08
21 19 0.37
22 13 0.25
23 1 0.02
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (20 bp):
TTATTTTTTATTTTATTTTA
Found at i:57083877 original size:29 final size:29
Alignment explanation
Indices: 57083843--57083909 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
57083833 TCAGTTTGTT
57083843 TTATTTTTTATTTTCATT-TTATTATTT-CA
1 TTATTTTTTATTTT--TTATTATTATTTACA
* *
57083872 TTATTTTATTGTTTTTTATTATTATTTATA
1 TTATTTT-TTATTTTTTATTATTATTTACA
57083902 TTATTTTT
1 TTATTTTT
57083910 GTTTTTACTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 2 0.06
29 17 0.52
30 14 0.42
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (29 bp):
TTATTTTTTATTTTTTATTATTATTTACA
Found at i:57083886 original size:8 final size:8
Alignment explanation
Indices: 57083858--57083908 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
57083848 TTTTATTTTC
57083858 ATTTTATT
1 ATTTTATT
*
57083866 ATTTCATT
1 ATTTTATT
57083874 ATTTTATT
1 ATTTTATT
*
57083882 GTTTT-TT
1 ATTTTATT
57083889 A--TTATT
1 ATTTTATT
57083895 ATTTATATT
1 ATTT-TATT
57083904 ATTTT
1 ATTTT
57083909 TGTTTTTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
5 2 0.06
6 3 0.09
7 2 0.06
8 20 0.57
9 8 0.23
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (8 bp):
ATTTTATT
Found at i:57083927 original size:30 final size:29
Alignment explanation
Indices: 57083861--57083915 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
57083851 TATTTTCATT
57083861 TTATTATTTCATTATTTTATTGTTTTTTA
1 TTATTATTTCATTATTTTATTGTTTTTTA
*
57083890 TTATTATTT-A-TATTATTTTTGTTTTT
1 TTATTATTTCATTATT-TTATTGTTTTT
57083916 ACTCTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 11 0.46
29 9 0.38
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.75
Consensus pattern (29 bp):
TTATTATTTCATTATTTTATTGTTTTTTA
Found at i:57084064 original size:12 final size:12
Alignment explanation
Indices: 57084047--57084073 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
57084037 ATTCATTATC
57084047 ATTATTAATTTT
1 ATTATTAATTTT
57084059 ATTATTAATTTT
1 ATTATTAATTTT
57084071 ATT
1 ATT
57084074 TATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTATTAATTTT
Found at i:57085752 original size:6 final size:6
Alignment explanation
Indices: 57085741--57085770 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
57085731 ACCAAACTGC
57085741 CCACGA CCACGA CCACGA CCACGA CCACGA
1 CCACGA CCACGA CCACGA CCACGA CCACGA
57085771 AATGAACCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
CCACGA
Found at i:57087063 original size:4 final size:4
Alignment explanation
Indices: 57087054--57087087 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
57087044 AAGTTTTATT
57087054 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
57087088 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:57087095 original size:22 final size:22
Alignment explanation
Indices: 57087037--57087096 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
57087027 AAGTGGCCCA
*
57087037 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
57087061 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
57087082 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
57087097 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:57089460 original size:18 final size:18
Alignment explanation
Indices: 57089439--57089477 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
57089429 GATTGAGAGT
* *
57089439 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
57089457 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
57089475 GAA
1 GAA
57089478 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:57090886 original size:4 final size:4
Alignment explanation
Indices: 57090877--57090909 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
57090867 AAGTTTTATT
57090877 TTTA TTTA TTTA TTTA TTTA TTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA
57090910 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:57096564 original size:144 final size:144
Alignment explanation
Indices: 57096302--57096603 Score: 464
Period size: 144 Copynumber: 2.1 Consensus size: 144
57096292 CATGGAAGTT
* *
57096302 GGGATTGAACCAGAAAGCCCATTAAAATGAAGCACAAGATTGCCCAAGTTAGTCAAGTTTCCTAT
1 GGGATAGAACCAGAAAGCCCATTAAAATGAAGCACAAGATTACCCAAGTTAGTCAAGTTTCCTAT
* *
57096367 GGAATCAGGGATGACACCAGTGAGATTATTGTCCGACAACTGCAAGTCGAAAAGAGATTTGAGCA
66 GGAATCAGGGATGACACCAGTGAGATTATTGTACGACAACTGAAAGTCGAAAAGAGATTTGAGCA
57096432 TCCCTACCTCACTG
131 TCCCTACCTCACTG
* *
57096446 GGGATAGAACCAGAAAGCCCATTAAAATTAAGCACAAGATTATCCAAGTTAGTCAAGTTTCCTAT
1 GGGATAGAACCAGAAAGCCCATTAAAATGAAGCACAAGATTACCCAAGTTAGTCAAGTTTCCTAT
* * *
57096511 GGAATGAGGGATGACACCAGTGAGATTATTGTACG-CTAACTGAAACG-CTAAAAGCGATTTGAG
66 GGAATCAGGGATGACACCAGTGAGATTATTGTACGAC-AACTGAAA-GTCGAAAAGAGATTTGAG
* * *
57096574 CATTCCTATCTCATTG
129 CATCCCTACCTCACTG
57096590 GGGATAGAACCAGA
1 GGGATAGAACCAGA
57096604 GAGATTATTA
Statistics
Matches: 144, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
143 1 0.01
144 142 0.99
145 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (144 bp):
GGGATAGAACCAGAAAGCCCATTAAAATGAAGCACAAGATTACCCAAGTTAGTCAAGTTTCCTAT
GGAATCAGGGATGACACCAGTGAGATTATTGTACGACAACTGAAAGTCGAAAAGAGATTTGAGCA
TCCCTACCTCACTG
Found at i:57099789 original size:24 final size:23
Alignment explanation
Indices: 57099762--57099810 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
57099752 TAGTATTTTG
* *
57099762 ATATCTAATATTTTTAAACAATTA
1 ATATATAATATTTGTAAA-AATTA
*
57099786 ATATATATTATTTGTAAAAATTA
1 ATATATAATATTTGTAAAAATTA
57099809 AT
1 AT
57099811 TTGAATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (23 bp):
ATATATAATATTTGTAAAAATTA
Found at i:57102050 original size:23 final size:23
Alignment explanation
Indices: 57102023--57102069 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
57102013 TAACAAAAGT
57102023 ATACACATACATACAAATGCAAG
1 ATACACATACATACAAATGCAAG
57102046 ATACACATACATACAAATGCAAG
1 ATACACATACATACAAATGCAAG
57102069 A
1 A
57102070 ACGTAACCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.17
Consensus pattern (23 bp):
ATACACATACATACAAATGCAAG
Found at i:57102276 original size:21 final size:21
Alignment explanation
Indices: 57102204--57102276 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
57102194 TGACAGGAGT
* *
57102204 ACACGCCCGTGT-GTCTGGGGG
1 ACACGCCCGTGTGGT-TGAGAG
* * * *
57102225 ACACACCCATGTGATTGAGAT
1 ACACGCCCGTGTGGTTGAGAG
* *
57102246 ACATGGCCGTGTGGTTGAGAG
1 ACACGCCCGTGTGGTTGAGAG
57102267 ACACGCCCGT
1 ACACGCCCGT
57102277 ATGACTGAGG
Statistics
Matches: 37, Mismatches: 14, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
21 36 0.97
22 1 0.03
ACGTcount: A:0.21, C:0.26, G:0.33, T:0.21
Consensus pattern (21 bp):
ACACGCCCGTGTGGTTGAGAG
Found at i:57107510 original size:42 final size:42
Alignment explanation
Indices: 57107458--57107708 Score: 339
Period size: 42 Copynumber: 6.0 Consensus size: 42
57107448 CGCTTACAAA
*
57107458 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGAGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
*
57107500 AAAAAACGCCGCTACAGATCATGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
*
57107542 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
*
57107584 AAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * *
57107626 AAGAAAACGCCGCTAAA-AGTAATGTTCTATAGCGACGCTT-GG
1 AA-AAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAGG
* * *
57107668 TCAAAAACGCCACTAATAG-T-AGTGTTCTTTAGCAGCGCTTA
1 -AAAAAACGCCGCTAA-AGATCA-TGTTCTTTAGCGGCGCTTA
57107709 TTTCACAAAC
Statistics
Matches: 187, Mismatches: 15, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
41 1 0.01
42 153 0.82
43 33 0.18
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
Found at i:57108179 original size:21 final size:21
Alignment explanation
Indices: 57108155--57108223 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
57108145 GCTTCTATCG
57108155 CTGCTTCTCTCGCTGCGACCT
1 CTGCTTCTCTCGCTGCGACCT
* *
57108176 CTGCTTCTCTCGTTG-TAGCCT
1 CTGCTTCTCTCGCTGCGA-CCT
* *
57108197 CTACTTCCCTCGCTGCCG-CCT
1 CTGCTTCTCTCGCTG-CGACCT
57108218 CTGCTT
1 CTGCTT
57108224 TAAGTTGTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
20 1 0.03
21 37 0.97
ACGTcount: A:0.04, C:0.42, G:0.17, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCGACCT
Found at i:57111506 original size:7 final size:7
Alignment explanation
Indices: 57111494--57111638 Score: 87
Period size: 7 Copynumber: 20.0 Consensus size: 7
57111484 TACCCTTGAC
57111494 ACCCTAA
1 ACCCTAA
57111501 ACCCTAA
1 ACCCTAA
57111508 ACCCCTAA
1 A-CCCTAA
*
57111516 CCCCTAA
1 ACCCTAA
*
57111523 ATCTCCTAG
1 A-C-CCTAA
*
57111532 CCCCTAA
1 ACCCTAA
*
57111539 ATTCCT-A
1 A-CCCTAA
*
57111546 GCCCTAA
1 ACCCTAA
*
57111553 CCCCTAA
1 ACCCTAA
57111560 ATCCCTAA
1 A-CCCTAA
*
57111568 CCCCTAA
1 ACCCTAA
*
57111575 CCCCTAA
1 ACCCTAA
*
57111582 CCCCTAA
1 ACCCTAA
57111589 ATCCCTAA
1 A-CCCTAA
*
57111597 CCCCTAA
1 ACCCTAA
*
57111604 CCCCTAA
1 ACCCTAA
*
57111611 CCCCTAA
1 ACCCTAA
*
57111618 ACCTTATA
1 ACCCTA-A
*
57111626 TCCC-AA
1 ACCCTAA
57111632 ACCCTAA
1 ACCCTAA
57111639 TCCATACCCC
Statistics
Matches: 110, Mismatches: 19, Indels: 18
0.75 0.13 0.12
Matches are distributed among these distances:
6 7 0.06
7 73 0.66
8 26 0.24
9 4 0.04
ACGTcount: A:0.32, C:0.47, G:0.01, T:0.19
Consensus pattern (7 bp):
ACCCTAA
Found at i:57111515 original size:15 final size:14
Alignment explanation
Indices: 57111494--57111638 Score: 112
Period size: 15 Copynumber: 9.5 Consensus size: 14
57111484 TACCCTTGAC
*
57111494 ACCCTAAACCCTAA
1 ACCCTAACCCCTAA
57111508 ACCCCTAACCCCTAA
1 A-CCCTAACCCCTAA
*
57111523 ATCTCCTAGCCCCTAA
1 A-C-CCTAACCCCTAA
57111539 ATTCCTAGCCCTAACCCCTAA
1 A---C---C-CTAACCCCTAA
57111560 ATCCCTAACCCCTAA
1 A-CCCTAACCCCTAA
*
57111575 CCCCTAACCCCTAA
1 ACCCTAACCCCTAA
57111589 ATCCCTAACCCCTAA
1 A-CCCTAACCCCTAA
*
57111604 CCCCTAACCCCTAA
1 ACCCTAACCCCTAA
* *
57111618 ACCTTATATCCC-AA
1 ACCCTA-ACCCCTAA
57111632 ACCCTAA
1 ACCCTAA
57111639 TCCATACCCC
Statistics
Matches: 108, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
13 1 0.01
14 38 0.35
15 42 0.39
16 13 0.12
18 1 0.01
19 1 0.01
20 1 0.01
21 11 0.10
ACGTcount: A:0.32, C:0.47, G:0.01, T:0.19
Consensus pattern (14 bp):
ACCCTAACCCCTAA
Found at i:57111556 original size:21 final size:22
Alignment explanation
Indices: 57111502--57111610 Score: 107
Period size: 22 Copynumber: 4.9 Consensus size: 22
57111492 ACACCCTAAA
57111502 CCCTAAACCCCTAACCCCTAAAT
1 CCCT-AACCCCTAACCCCTAAAT
* ** *
57111525 CTCCTAGCCCCTAAATTCCT--AG
1 C-CCTAACCCCT-AACCCCTAAAT
* *
57111547 CCCTAACCCCTAAATCCCT-AAC
1 CCCTAACCCCT-AACCCCTAAAT
57111569 CCCTAACCCCTAACCCCTAAAT
1 CCCTAACCCCTAACCCCTAAAT
57111591 CCCTAACCCCTAACCCCTAA
1 CCCTAACCCCTAACCCCTAA
57111611 CCCCTAAACC
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
21 22 0.30
22 36 0.49
23 7 0.10
24 8 0.11
ACGTcount: A:0.30, C:0.49, G:0.02, T:0.19
Consensus pattern (22 bp):
CCCTAACCCCTAACCCCTAAAT
Found at i:57111635 original size:29 final size:29
Alignment explanation
Indices: 57111547--57111618 Score: 144
Period size: 29 Copynumber: 2.5 Consensus size: 29
57111537 AAATTCCTAG
57111547 CCCTAACCCCTAAATCCCTAACCCCTAAC
1 CCCTAACCCCTAAATCCCTAACCCCTAAC
57111576 CCCTAACCCCTAAATCCCTAACCCCTAAC
1 CCCTAACCCCTAAATCCCTAACCCCTAAC
57111605 CCCTAACCCCTAAA
1 CCCTAACCCCTAAA
57111619 CCTTATATCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.32, C:0.51, G:0.00, T:0.17
Consensus pattern (29 bp):
CCCTAACCCCTAAATCCCTAACCCCTAAC
Found at i:57112384 original size:22 final size:22
Alignment explanation
Indices: 57112341--57112387 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 22
57112331 ATACTATCTG
57112341 TTTTACGATTATATAAAAAAAA
1 TTTTACGATTATATAAAAAAAA
* *
57112363 TTTTACTATATATAATATAAAAAA
1 TTTTACGAT-TAT-ATAAAAAAAA
57112387 T
1 T
57112388 AAGCAGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 3 0.14
24 10 0.48
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTTACGATTATATAAAAAAAA
Found at i:57112626 original size:41 final size:40
Alignment explanation
Indices: 57112581--57112793 Score: 142
Period size: 41 Copynumber: 5.2 Consensus size: 40
57112571 AATGTTTTTT
57112581 GCGGCGCTTCAACAAAAACGCCGCTAAAACCCCTAACATTA
1 GCGGCGCTT-AACAAAAACGCCGCTAAAACCCCTAACATTA
* * ** * *
57112622 GCGGCGCTTATCATAGACACGCCGCTAAAAGTCTTAACTTTA
1 GCGGCGCTTAACA-A-AAACGCCGCTAAAACCCCTAACATTA
* * ** * *
57112664 GCGTCGCTTATATAAAAACGCCGCTAAAAGACCAAATATTA
1 GCGGCGCTTA-ACAAAAACGCCGCTAAAACCCCTAACATTA
* * * *
57112705 GCGGCGCTTCAA-AGAAATCGCTGCTAAATA-CCTTAACTTTA
1 GCGGCGCTT-AACA-AAAACGCCGCTAAA-ACCCCTAACATTA
* * * * *
57112746 GCGGCGGTTGATCAAAAACGCCACTAAAACCCCCGACCATTA
1 GCGGCGCTT-AACAAAAACGCCGCTAAAA-CCCCTAACATTA
57112788 GCGGCG
1 GCGGCG
57112794 AAAGCCTAAA
Statistics
Matches: 130, Mismatches: 33, Indels: 17
0.72 0.18 0.09
Matches are distributed among these distances:
40 5 0.04
41 77 0.59
42 47 0.36
43 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.20
Consensus pattern (40 bp):
GCGGCGCTTAACAAAAACGCCGCTAAAACCCCTAACATTA
Found at i:57112773 original size:82 final size:83
Alignment explanation
Indices: 57112581--57112793 Score: 211
Period size: 83 Copynumber: 2.6 Consensus size: 83
57112571 AATGTTTTTT
* * * *
57112581 GCGGCGCTTCA-ACAAAAACGCCGCTAAAACCCCTAACATTAGCGGCGCTTATCATAGACACGCC
1 GCGGCGCTT-ATACAAAAACGCCGCTAAAACACCAAACATTAGCGGCGCTTATCAAAGAAACGCC
*
57112645 GCTAAAAGTCTTAACTTTA
65 GCTAAAAGCCTTAACTTTA
* * * * *
57112664 GCGTCGCTTATATAAAAACGCCGCTAAAAGACCAAATATTAGCGGCGC-T-TCAAAGAAATCGCT
1 GCGGCGCTTATACAAAAACGCCGCTAAAACACCAAACATTAGCGGCGCTTATCAAAGAAA-CGCC
57112727 GCTAAATA-CCTTAACTTTA
65 GCTAAA-AGCCTTAACTTTA
* * * * *
57112746 GCGGCGGTTGAT-CAAAAACGCCACTAAAACCCCCGACCATTAGCGGCG
1 GCGGCGCTT-ATACAAAAACGCCGCTAAAA-CACCAAACATTAGCGGCG
57112794 AAAGCCTAAA
Statistics
Matches: 106, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
81 7 0.07
82 43 0.41
83 56 0.53
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.20
Consensus pattern (83 bp):
GCGGCGCTTATACAAAAACGCCGCTAAAACACCAAACATTAGCGGCGCTTATCAAAGAAACGCCG
CTAAAAGCCTTAACTTTA
Found at i:57118409 original size:156 final size:159
Alignment explanation
Indices: 57118106--57118410 Score: 404
Period size: 156 Copynumber: 1.9 Consensus size: 159
57118096 TCCTTTCTTG
* *
57118106 GCTTCTAGTTCTTGTACTCGTACTAGACTAAGACAAAAAAATCAAAACCCCAAATTAGATTTAAA
1 GCTTCTAGTTCTTGTACTCATACTAGACTAAGACAAAAAAATCAAAACCCCAAATTAGACTTAAA
* ** * * * * *
57118171 TATTTTGAAATTTGATAGTAAAAAAGTGTTTACGATAAAACTGCGATCTAGTTGTGTTAGGTTGA
66 AATTTCAAAAATTGACAATAAAAAAGTGTTTACGATAAAACCGCGATCTAGCTGTGTTAGGTTGA
* *
57118236 ATGCATTGTCTTCTGTTGTTCTTTTTTTA
131 AGGCATTGTCTTATGTTGTTCTTTTTTTA
*
57118265 GCTTCTAGTTCTTGTACTCATACTAGACT-A-A-AAAAAAATCATAACCCCAAATTAGACTTAAA
1 GCTTCTAGTTCTTGTACTCATACTAGACTAAGACAAAAAAATCAAAACCCCAAATTAGACTTAAA
* * * *
57118327 AATTTCAAAAATTGACAATAAAAAGGTGTTTACGATATACCCGTGAT-TCAGCTGTGTTAGGTTG
66 AATTTCAAAAATTGACAATAAAAAAGTGTTTACGATAAAACCGCGATCT-AGCTGTGTTAGGTTG
57118391 AAGGCA-TGATCTTATGTTGT
130 AAGGCATTG-TCTTATGTTGT
57118411 GACCCTCACC
Statistics
Matches: 127, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
155 3 0.02
156 94 0.74
157 1 0.01
158 1 0.01
159 28 0.22
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (159 bp):
GCTTCTAGTTCTTGTACTCATACTAGACTAAGACAAAAAAATCAAAACCCCAAATTAGACTTAAA
AATTTCAAAAATTGACAATAAAAAAGTGTTTACGATAAAACCGCGATCTAGCTGTGTTAGGTTGA
AGGCATTGTCTTATGTTGTTCTTTTTTTA
Found at i:57119042 original size:16 final size:16
Alignment explanation
Indices: 57119021--57119054 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
57119011 CTAGAGTTAA
57119021 ATGCTTCACAGAGGTT
1 ATGCTTCACAGAGGTT
57119037 ATGCTTCACAGAGGTT
1 ATGCTTCACAGAGGTT
57119053 AT
1 AT
57119055 TGTCAACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (16 bp):
ATGCTTCACAGAGGTT
Found at i:57120731 original size:33 final size:32
Alignment explanation
Indices: 57120694--57120805 Score: 84
Period size: 33 Copynumber: 3.4 Consensus size: 32
57120684 TAACCTCAAT
57120694 ACCCTCCTCACCTAAACCTTTAACACCCTCACC
1 ACCCTCC-CACCTAAACCTTTAACACCCTCACC
* ** * *
57120727 ACCCTCACCACTTTTA--TTTCCAACAACCTCAAC
1 ACCCTC-CCACCTAAACCTTT--AACACCCTCACC
* * *
57120760 ATCCTCCCCACCTAAACCTTCAACACCTTCACC
1 ACCCT-CCCACCTAAACCTTTAACACCCTCACC
57120793 ACCCTCACCACCT
1 ACCCTC-CCACCT
57120806 TTACTGCCAG
Statistics
Matches: 58, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
31 3 0.05
32 1 0.02
33 50 0.86
34 2 0.03
35 2 0.03
ACGTcount: A:0.28, C:0.50, G:0.00, T:0.22
Consensus pattern (32 bp):
ACCCTCCCACCTAAACCTTTAACACCCTCACC
Found at i:57120757 original size:66 final size:66
Alignment explanation
Indices: 57120667--57120828 Score: 207
Period size: 66 Copynumber: 2.5 Consensus size: 66
57120657 CATTACTCTT
* * ** * * *
57120667 ACCACATTGACTGCCAGTAACCTCAATACCCTCCTCACCTAAACCTTTAACACCCTCACCACCCT
1 ACCACCTTTACTGCCAACAACCTCAACACCCTCCCCACCTAAACCTTCAACACCCTCACCACCCT
57120732 C
66 C
* * * * *
57120733 ACCACTTTTATTTCCAACAACCTCAACATCCTCCCCACCTAAACCTTCAACACCTTCACCACCCT
1 ACCACCTTTACTGCCAACAACCTCAACACCCTCCCCACCTAAACCTTCAACACCCTCACCACCCT
57120798 C
66 C
*
57120799 ACCACCTTTACTGCCAGCAACCTCAACACC
1 ACCACCTTTACTGCCAACAACCTCAACACC
57120829 TTCATTACCA
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
66 80 1.00
ACGTcount: A:0.29, C:0.46, G:0.03, T:0.22
Consensus pattern (66 bp):
ACCACCTTTACTGCCAACAACCTCAACACCCTCCCCACCTAAACCTTCAACACCCTCACCACCCT
C
Found at i:57120794 original size:24 final size:23
Alignment explanation
Indices: 57120751--57120795 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
57120741 TATTTCCAAC
*
57120751 AACCTCAACATCCTCCCCACCTA
1 AACCTCAACATCCTCACCACCTA
57120774 AACCTTCAACA-CCTTCACCACC
1 AACC-TCAACATCC-TCACCACC
57120796 CTCACCACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.31, C:0.51, G:0.00, T:0.18
Consensus pattern (23 bp):
AACCTCAACATCCTCACCACCTA
Found at i:57121765 original size:28 final size:29
Alignment explanation
Indices: 57121711--57121831 Score: 129
Period size: 29 Copynumber: 4.2 Consensus size: 29
57121701 TAAAAAATAA
57121711 TAAACAAAAA-CCTCCAAAATCAAAAACCC
1 TAAACAAAAATCC-CCAAAATCAAAAACCC
* *
57121740 TAAGCAAAAATCCCCAAAATCAAAACCCC
1 TAAACAAAAATCCCCAAAATCAAAAACCC
* * * * *
57121769 TAACCCAAAATCCCCAAATTCGACAA-CC
1 TAAACAAAAATCCCCAAAATCAAAAACCC
* * *
57121797 TAAACTAAAATCCCCAAACTTAAAAACCC
1 TAAACAAAAATCCCCAAAATCAAAAACCC
57121826 TAAACA
1 TAAACA
57121832 TACACCGAAA
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
28 22 0.29
29 51 0.68
30 2 0.03
ACGTcount: A:0.52, C:0.33, G:0.02, T:0.13
Consensus pattern (29 bp):
TAAACAAAAATCCCCAAAATCAAAAACCC
Found at i:57123757 original size:26 final size:26
Alignment explanation
Indices: 57123714--57123770 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
57123704 TTTTTTAATT
* *
57123714 TTAATTTTAATTTCAACTATTAAGTA
1 TTAATTTTAAATTCAACTATTAAGCA
*
57123740 TTAATTTTAAAATT-AACTTTTAAGCA
1 TTAATTTT-AAATTCAACTATTAAGCA
57123766 TTAAT
1 TTAAT
57123771 AATTCCTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (26 bp):
TTAATTTTAAATTCAACTATTAAGCA
Found at i:57128020 original size:143 final size:143
Alignment explanation
Indices: 57127762--57128193 Score: 792
Period size: 143 Copynumber: 3.0 Consensus size: 143
57127752 ACTTGGAACT
* * * *
57127762 AAGGAAATGTGCAGGTGTACAAAATCGTATCAAGTAATAAAGTGACAACTAATGTCGAGCTATCG
1 AAGGAAATGTGCAAGTGTACAAAATCGTACCAAGTAATAAAGTGACAAGTAATGTCGAGTTATCG
* *
57127827 TATCCATAGGGACTGTGAAAGAGAATATTTATGAAATGCAAATTTAAACAATTTGGTGATGGAAA
66 TATCCATAGGTACTATGAAAGAGAATATTTATGAAATGCAAATTTAAACAATTTGGTGATGGAAA
57127892 ATATGTTGATTTG
131 ATATGTTGATTTG
57127905 AAGGAAATGTGCAAGTGTACAAAATCGTACCAAGTAATAAAGTGACAAGTAATGTCGAGTTATCG
1 AAGGAAATGTGCAAGTGTACAAAATCGTACCAAGTAATAAAGTGACAAGTAATGTCGAGTTATCG
57127970 TATCCATAGGTACTATGAAAGAGAATATTTATGAAATGCAAATTTAAACAATTTGGTGATGGAAA
66 TATCCATAGGTACTATGAAAGAGAATATTTATGAAATGCAAATTTAAACAATTTGGTGATGGAAA
57128035 ATATGTTGATTTG
131 ATATGTTGATTTG
*
57128048 AAGGAAATGTGCAAGTGTACAAAATCGTACCAAGTAATAAAGTGACAAGTAATGTCAAGTTATCG
1 AAGGAAATGTGCAAGTGTACAAAATCGTACCAAGTAATAAAGTGACAAGTAATGTCGAGTTATCG
*
57128113 TATCCATAGGTACTATGAAAGAGAATATTTATGAAATGCAAATTTAAACAATTTGGTGATGAAAA
66 TATCCATAGGTACTATGAAAGAGAATATTTATGAAATGCAAATTTAAACAATTTGGTGATGGAAA
57128178 ATATGTTGATTTG
131 ATATGTTGATTTG
57128191 AAG
1 AAG
57128194 TGGTGATATA
Statistics
Matches: 281, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 281 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (143 bp):
AAGGAAATGTGCAAGTGTACAAAATCGTACCAAGTAATAAAGTGACAAGTAATGTCGAGTTATCG
TATCCATAGGTACTATGAAAGAGAATATTTATGAAATGCAAATTTAAACAATTTGGTGATGGAAA
ATATGTTGATTTG
Found at i:57133219 original size:51 final size:50
Alignment explanation
Indices: 57133141--57133374 Score: 256
Period size: 50 Copynumber: 4.8 Consensus size: 50
57133131 GATAATAACA
* ** *
57133141 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
** *
57133192 TGGCC-ATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 T-GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
** *
57133243 TG-C--TG----G---CAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
57133283 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
57133333 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
57133375 TTACCCAAAT
Statistics
Matches: 159, Mismatches: 13, Indels: 23
0.82 0.07 0.12
Matches are distributed among these distances:
40 11 0.07
41 20 0.13
43 1 0.01
44 1 0.01
47 1 0.01
48 2 0.01
49 1 0.01
50 72 0.45
51 47 0.30
52 3 0.02
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:57133231 original size:26 final size:26
Alignment explanation
Indices: 57133151--57133231 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
57133141 TGCCAAAGCC
57133151 ATGTCCCAGACATGGTCTTACATGGG
1 ATGTCCCAGACATGGTCTTACATGGG
* * * **
57133177 ATGTTCTCATGTCGGTGG-C---CATGCC
1 ATG-TCCCA-GAC-ATGGTCTTACATGGG
57133202 ATGTCCCAGACATGGTCTTACATGGG
1 ATGTCCCAGACATGGTCTTACATGGG
57133228 ATGT
1 ATGT
57133232 TCTCATGTCG
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
22 3 0.08
23 3 0.08
24 4 0.11
25 7 0.18
26 11 0.29
27 4 0.11
28 3 0.08
29 3 0.08
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (26 bp):
ATGTCCCAGACATGGTCTTACATGGG
Found at i:57133496 original size:13 final size:13
Alignment explanation
Indices: 57133475--57133504 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
57133465 GCTTGGATCA
57133475 TCATCAAATAAAT
1 TCATCAAATAAAT
*
57133488 TCATGAAATAAAT
1 TCATCAAATAAAT
57133501 TCAT
1 TCAT
57133505 AGTTGCTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:57133752 original size:30 final size:30
Alignment explanation
Indices: 57133717--57133774 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
57133707 CCTCGACTCT
*
57133717 AACTTTTTCAAAATTACGA-TTTTGCCCCTA
1 AACTTTTGCAAAATTAC-ATTTTTGCCCCTA
*
57133747 AACTTTTGCATAATTACATTTTTGCCCC
1 AACTTTTGCAAAATTACATTTTTGCCCC
57133775 AAGGCCCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (30 bp):
AACTTTTGCAAAATTACATTTTTGCCCCTA
Found at i:57146956 original size:20 final size:20
Alignment explanation
Indices: 57146931--57146990 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
57146921 ATTTTAAAAT
57146931 CAAGTTAAAATGATTTTAAC
1 CAAGTTAAAATGATTTTAAC
57146951 CAAGTTAAAATGATTTTAAC
1 CAAGTTAAAATGATTTTAAC
*
57146971 CAAGTTAAAATCATTTTAAC
1 CAAGTTAAAATGATTTTAAC
57146991 ACATCAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (20 bp):
CAAGTTAAAATGATTTTAAC
Found at i:57147015 original size:40 final size:40
Alignment explanation
Indices: 57146921--57147015 Score: 104
Period size: 40 Copynumber: 2.3 Consensus size: 40
57146911 TTTTGAAACA
* * *
57146921 ATTTTAAAATCAAGTTAAAATGATTTTAACCAAGTTAAAATG
1 ATTTT-AAA-CAAGTTAAAATCATTTTAACCAAGTCAAAATC
*
57146963 ATTTTAACCAAGTTAAAATCATTTTAA-CACA-TCAAAATC
1 ATTTTAAACAAGTTAAAATCATTTTAACCA-AGTCAAAATC
57147002 ATTTTCAAACAAGT
1 ATTTT-AAACAAGT
57147016 CATAATTGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
39 13 0.28
40 26 0.57
41 2 0.04
42 5 0.11
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (40 bp):
ATTTTAAACAAGTTAAAATCATTTTAACCAAGTCAAAATC
Found at i:57154363 original size:6 final size:6
Alignment explanation
Indices: 57154352--57154381 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
57154342 TGGAAGACCA
57154352 TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT
1 TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT
57154382 GTAGATGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (6 bp):
TCTGAT
Found at i:57158809 original size:18 final size:18
Alignment explanation
Indices: 57158786--57158823 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
57158776 TTCAATTAAG
*
57158786 TCTTTCATT-AAGTGTTTT
1 TCTTTC-TTAAAGTATTTT
57158804 TCTTTCTTAAAGTATTTT
1 TCTTTCTTAAAGTATTTT
57158822 TC
1 TC
57158824 ATCTAGTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.18, C:0.13, G:0.08, T:0.61
Consensus pattern (18 bp):
TCTTTCTTAAAGTATTTT
Found at i:57158904 original size:25 final size:24
Alignment explanation
Indices: 57158866--57158922 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
57158856 AGTTTTGCAG
* *
57158866 CAAGTTTTT-TTAAAGTTTTTCAT
1 CAAGTTTTTCATAAAATTTTTCAT
*
57158889 TAAGTCTTTTCATAAAATTTTTCAT
1 CAAGT-TTTTCATAAAATTTTTCAT
57158914 CAAGTTTTT
1 CAAGTTTTT
57158923 AATCATTTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 4 0.14
24 8 0.29
25 16 0.57
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.54
Consensus pattern (24 bp):
CAAGTTTTTCATAAAATTTTTCAT
Found at i:57158927 original size:12 final size:12
Alignment explanation
Indices: 57158818--57158927 Score: 69
Period size: 12 Copynumber: 8.8 Consensus size: 12
57158808 TCTTAAAGTA
*
57158818 TTTTTCATCTAG
1 TTTTTCATCAAG
*
57158830 TTCTTTTATCAAG
1 TT-TTTCATCAAG
*
57158843 TTTTTAATTACCAAG
1 TTTTTCA-T--CAAG
* *
57158858 TTTTGCAGCAAG
1 TTTTTCATCAAG
* *
57158870 TTTTT-TTAAAG
1 TTTTTCATCAAG
*
57158881 TTTTTCATTAAG
1 TTTTTCATCAAG
* *
57158893 TCTTTTCATAAAA
1 T-TTTTCATCAAG
57158906 TTTTTCATCAAG
1 TTTTTCATCAAG
*
57158918 TTTTTAATCA
1 TTTTTCATCA
57158928 TTTCGTTTTT
Statistics
Matches: 75, Mismatches: 17, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
11 8 0.11
12 37 0.49
13 21 0.28
15 9 0.12
ACGTcount: A:0.27, C:0.13, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTTTCATCAAG
Found at i:57160658 original size:13 final size:13
Alignment explanation
Indices: 57160640--57160664 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57160630 TAATATATTT
57160640 ATTAATTAAAAAC
1 ATTAATTAAAAAC
57160653 ATTAATTAAAAA
1 ATTAATTAAAAA
57160665 AATGTTGAAA
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:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Done.