Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 292 of 343
Found at i:96254510 original size:192 final size:192
Alignment explanation
Indices: 96252040--96254491 Score: 4624
Period size: 192 Copynumber: 12.8 Consensus size: 192
96252030 TTTTGTTTTC
*
96252040 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTA-TTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
96252104 TG-TTTAAATTGAC-CATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTG-TTTTCAAAATCA
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
96252166 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG-TGAGGTA-TTTTAAATTTTTTAAA
131 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTT-AA
96252227 AAAAATCAACTCATATTGCGAGAAGTGAGTTGA-CCTCGGGGCACGCCGAGGTA-TTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
96252290 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
96252355 ACTCATA-TGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTTAA
131 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTTTTTAA
96252417 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCCGAGGTA-TTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
96252480 TG-TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC-AAATCA
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
*
96252543 ACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGGTATTTTTAAATTTTTTAAA
131 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA-GGTATTTTTAAATTTTTT-AA
96252607 AAAAATCAACTCATA-TGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
96252671 TGTTTTTAAATTGACTCATATTGCGAGAGGTGAGTT-AG-CTTTTAA-TTTTG-TTTTCAAAATC
66 TG-TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATC
96252732 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTTTTAA
130 AACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAA
96252794 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
96252859 TG-TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
96252923 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAA
131 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAA
96252985 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
96253050 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
*
96253115 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTATATTTTTTAAA
131 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTT-AA
96253178 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
96253243 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC-TTTAATTTTTGTTTTTCAAAATCA
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
96253307 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAA
131 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAA
96253369 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
96253434 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
*
96253499 ACTCATATTGCAAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAAA
131 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTT-AA
96253562 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
96253627 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
96253692 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAA
131 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAA
96253754 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
96253819 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
96253884 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTTTAA
131 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA--TTTTTTAA
96253948 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
96254013 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
96254078 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAA
131 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAA
96254140 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
96254205 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
96254270 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA-TTTTAAATTTTTTAA
131 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAA
96254331 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
96254396 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAAATC
66 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC-AAAATC
96254461 AACTCATATTGCGAGAAATGAGTTGAGCCTC
130 AACTCATATTGCGAGAAATGAGTTGAGCCTC
96254492 GGGGCACGCC
Statistics
Matches: 2230, Mismatches: 7, Indels: 51
0.97 0.00 0.02
Matches are distributed among these distances:
186 64 0.03
187 62 0.03
188 143 0.06
189 164 0.07
190 231 0.10
191 348 0.16
192 696 0.31
193 330 0.15
194 192 0.09
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (192 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTTTTAA
Found at i:96254654 original size:16 final size:17
Alignment explanation
Indices: 96254633--96254666 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
96254623 TGCTGAGGTA
*
96254633 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
96254649 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
96254666 T
1 T
96254667 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:96254830 original size:85 final size:88
Alignment explanation
Indices: 96254572--96254830 Score: 309
Period size: 91 Copynumber: 2.9 Consensus size: 88
96254562 TAATTTTTGT
*
96254572 TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTT
*
96254636 TCAATTTATGTTTTTTTCAA-TCTATGC
64 TCAATTTCTG-TTTTTT-AATTCTA-GC
* *
96254663 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
**
96254725 TCAATTTCTGCTTTACTAATTCTA-C
64 TCAATTTCTG-TTTTTTAATTCTAGC
* *
96254750 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTTTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
96254814 AAATTCTG-TTTTTAATT
66 AATTTCTGTTTTTTAATT
96254831 TCTGTTTTTT
Statistics
Matches: 148, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
84 3 0.02
85 40 0.27
87 29 0.20
88 2 0.01
89 31 0.21
91 41 0.28
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGTTTTTTAATTCTAGC
Found at i:96255014 original size:54 final size:55
Alignment explanation
Indices: 96254930--96255147 Score: 324
Period size: 54 Copynumber: 4.1 Consensus size: 55
96254920 TCAATTTCTA
*
96254930 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
96254985 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
96255039 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
96255090 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
96255145 CTT
1 CTT
96255148 GGCTCACGTG
Statistics
Matches: 150, Mismatches: 6, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
50 12 0.08
51 35 0.23
52 2 0.01
53 2 0.01
54 48 0.32
55 42 0.28
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:96255413 original size:13 final size:15
Alignment explanation
Indices: 96255389--96255422 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
96255379 TTTAATTTTC
96255389 AAAATTTCAAAAA-A
1 AAAATTTCAAAAATA
96255403 AAAATTT-AAAAATA
1 AAAATTTCAAAAATA
96255417 AAAATT
1 AAAATT
96255423 ACATTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.26
14 14 0.74
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTTCAAAAATA
Found at i:96255468 original size:29 final size:30
Alignment explanation
Indices: 96255418--96255514 Score: 117
Period size: 30 Copynumber: 3.3 Consensus size: 30
96255408 TTAAAAATAA
* * *
96255418 AAATTACATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCACTTTGACCCCTAAAC-TTTCATT
* *
96255448 AAATTTCA-TTTGACCCTTAAACTTTCTTT
1 AAATTTCACTTTGACCCCTAAACTTTCATT
*
96255477 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCACTTTGACCCCTAAACTTTCATT
96255507 AAATTTCA
1 AAATTTCA
96255515 TTTTAATCCT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
28 4 0.07
29 22 0.37
30 33 0.56
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AAATTTCACTTTGACCCCTAAACTTTCATT
Found at i:96255540 original size:59 final size:59
Alignment explanation
Indices: 96255415--96255552 Score: 147
Period size: 59 Copynumber: 2.4 Consensus size: 59
96255405 AATTTAAAAA
* * *
96255415 TAAAAATTACATTTTGACCCCTAAACTTTTCCTAAATTTCATTTGACCCTTAAACTTTC
1 TAAAAATTACACTTAGACCCCTAAACTTTTCCTAAATTTCATTTAACCCTTAAACTTTC
** * * * *
96255474 TTTAAATTTCACTTAGACCCCTAAAC-TTTCATTAAATTTCATTTTAATCC-TAAATTTTC
1 TAAAAATTACACTTAGACCCCTAAACTTTTC-CTAAATTTCA-TTTAACCCTTAAACTTTC
*
96255533 TAAAAATTACATTTAG-CCCC
1 TAAAAATTACACTTAGACCCC
96255553 AGAAGTTTTG
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
58 8 0.12
59 50 0.78
60 6 0.09
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.41
Consensus pattern (59 bp):
TAAAAATTACACTTAGACCCCTAAACTTTTCCTAAATTTCATTTAACCCTTAAACTTTC
Found at i:96255915 original size:3 final size:3
Alignment explanation
Indices: 96255907--96255975 Score: 56
Period size: 3 Copynumber: 23.0 Consensus size: 3
96255897 AGACTTTGAG
*
96255907 GAA GAA GAA GGAA GAA GAA GGAA GAA GAA -AA GAG GAA GAA GAAA GAAA
1 GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA G-AA G-AA
*
96255955 GAA -AA -AA GAA AAA GAA -AA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA
96255976 ATAATAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
2 8 0.14
3 35 0.62
4 13 0.23
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:96255920 original size:10 final size:10
Alignment explanation
Indices: 96255905--96255935 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
96255895 CTAGACTTTG
96255905 AGGAAGAAGA
1 AGGAAGAAGA
96255915 AGGAAGAAGA
1 AGGAAGAAGA
96255925 AGGAAGAAGA
1 AGGAAGAAGA
96255935 A
1 A
96255936 AAGAGGAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (10 bp):
AGGAAGAAGA
Found at i:96255969 original size:24 final size:24
Alignment explanation
Indices: 96255918--96255976 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
96255908 AAGAAGAAGG
* **
96255918 AAGAAGAAGGAAGAAGAAAAGAGG
1 AAGAAGAAGAAAGAAGAAAAGAAA
96255942 AAGAAGAAAGAAAGAA-AAAAGAAA
1 AAGAAG-AAGAAAGAAGAAAAGAAA
96255966 AAGAA-AAGAAA
1 AAGAAGAAGAAA
96255977 TAATAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
22 6 0.19
24 17 0.55
25 8 0.26
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (24 bp):
AAGAAGAAGAAAGAAGAAAAGAAA
Found at i:96256252 original size:11 final size:11
Alignment explanation
Indices: 96256236--96256305 Score: 77
Period size: 11 Copynumber: 6.3 Consensus size: 11
96256226 TTGGCCCAGC
96256236 AGAAAAAAAAA
1 AGAAAAAAAAA
*
96256247 AGAAAAGAAAA
1 AGAAAAAAAAA
* *
96256258 AGAAGAAAAAG
1 AGAAAAAAAAA
**
96256269 AGAAGGAAAAA
1 AGAAAAAAAAA
*
96256280 AGAAGGAAAAAA
1 AGAA-AAAAAAA
96256292 AGAAAAAAAAA
1 AGAAAAAAAAA
96256303 AGA
1 AGA
96256306 GGTTCAATTC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
11 40 0.80
12 10 0.20
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:96256263 original size:14 final size:14
Alignment explanation
Indices: 96256240--96256303 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
96256230 CCCAGCAGAA
96256240 AAAAAAAAGAAAAG
1 AAAAAAAAGAAAAG
*
96256254 AAAAAGAAGAAAAAG
1 AAAAAAAAG-AAAAG
*
96256269 AGAAGGAAAAA-AGAAG
1 A-AA--AAAAAGAAAAG
*
96256285 GAAAAAAAGAAAA-
1 AAAAAAAAGAAAAG
96256298 AAAAAA
1 AAAAAA
96256304 GAGGTTCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 11
0.70 0.11 0.20
Matches are distributed among these distances:
13 10 0.26
14 11 0.28
15 8 0.21
16 6 0.15
18 4 0.10
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:96256650 original size:20 final size:21
Alignment explanation
Indices: 96256613--96256651 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
96256603 AAAAAATATT
*
96256613 AAAAAAAAGTCTCATATTTAC
1 AAAAAAAAATCTCATATTTAC
*
96256634 AAAAAAAAATTTC-TATTT
1 AAAAAAAAATCTCATATTT
96256652 TTCAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAAAAAAATCTCATATTTAC
Found at i:96256877 original size:20 final size:22
Alignment explanation
Indices: 96256836--96256878 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
96256826 AATTTTGTGT
*
96256836 AAAAAAATCCAGTGTTTTCAAA
1 AAAAAAATCCAGTGTTTCCAAA
96256858 AAAAAAATCCA-T-TTTCCAAA
1 AAAAAAATCCAGTGTTTCCAAA
96256878 A
1 A
96256879 TTTTTAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 11 0.55
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (22 bp):
AAAAAAATCCAGTGTTTCCAAA
Found at i:96256979 original size:35 final size:34
Alignment explanation
Indices: 96256895--96257000 Score: 135
Period size: 35 Copynumber: 3.1 Consensus size: 34
96256885 GTGTCTTCTA
96256895 AAAATTTTT-GTGTTTCAAAAATTTTC-GTTTTC
1 AAAATTTTTCGTGTTTCAAAAATTTTCTGTTTTC
* *
96256927 AAAAATTTCCGTGTTTCAAAAATTTTCGTGTTTTC
1 AAAATTTTTCGTGTTTCAAAAATTTTC-TGTTTTC
* **
96256962 AAAATTTTTCGTATTTCAAAAATCCTCTTGTTTTC
1 AAAATTTTTCGTGTTTCAAAAATTTTC-TGTTTTC
96256997 AAAA
1 AAAA
96257001 ATTTCGGTGT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
32 7 0.11
33 17 0.27
35 39 0.62
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.47
Consensus pattern (34 bp):
AAAATTTTTCGTGTTTCAAAAATTTTCTGTTTTC
Found at i:96257029 original size:35 final size:34
Alignment explanation
Indices: 96256885--96257029 Score: 98
Period size: 35 Copynumber: 4.2 Consensus size: 34
96256875 AAAATTTTTA
* * * *
96256885 GTGTCTTCTAAAAATTTTTGTGTTTCAAAAATTTTC
1 GTGTTTTC-AAAAA-TTTCGTGTTTTAAAAAATTTC
* *
96256921 --GTTTTCAAAAATTTCCGTGTTTCAAAAATTTTC
1 GTGTTTTCAAAAATTT-CGTGTTTTAAAAAATTTC
* * * *
96256954 GTGTTTTCAAAATTTTTCGT-ATTTCAAAAATCCTC
1 GTGTTTTCAAAA-ATTTCGTGTTTTAAAAAAT-TTC
* * *
96256989 TTGTTTTCAAAAATTTCGGTGTTTTGAAAAGTTTC
1 GTGTTTTCAAAAATTTC-GTGTTTTAAAAAATTTC
96257024 GTGTTT
1 GTGTTT
96257030 AAAAAAAAAT
Statistics
Matches: 87, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
32 3 0.03
33 22 0.25
34 16 0.18
35 35 0.40
36 11 0.13
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (34 bp):
GTGTTTTCAAAAATTTCGTGTTTTAAAAAATTTC
Found at i:96257035 original size:17 final size:17
Alignment explanation
Indices: 96256874--96257058 Score: 149
Period size: 17 Copynumber: 10.6 Consensus size: 17
96256864 ATCCATTTTC
* *
96256874 CAAAATTTTTAGTGTCTT
1 CAAAAATTTTCGTGT-TT
*
96256892 CTAAAAATTTTTGTGTTT
1 C-AAAAATTTTCGTGTTT
96256910 CAAAAATTTTCGT-TTT
1 CAAAAATTTTCGTGTTT
*
96256926 CAAAAATTTCCGTGTTT
1 CAAAAATTTTCGTGTTT
96256943 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTG-TTT
* *
96256961 CAAAATTTTTCGTATTT
1 CAAAAATTTTCGTGTTT
** *
96256978 CAAAAATCCTCTTGTTTT
1 CAAAAATTTTCGTG-TTT
96256996 CAAAAA-TTTCGGTGTTT
1 CAAAAATTTTC-GTGTTT
** *
96257013 TGAAAAGTTTCGTGTTT
1 CAAAAATTTTCGTGTTT
* * *
96257030 AAAAAAAAATCTCGTGTTT
1 --CAAAAATTTTCGTGTTT
*
96257049 CATAAATTTT
1 CAAAAATTTT
96257059 GGTTTTAAAA
Statistics
Matches: 134, Mismatches: 25, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
16 15 0.11
17 60 0.45
18 34 0.25
19 25 0.19
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (17 bp):
CAAAAATTTTCGTGTTT
Found at i:96258384 original size:39 final size:37
Alignment explanation
Indices: 96258319--96258392 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 37
96258309 AATAAAATTT
* *
96258319 CTTTTTTCCTTTTTTCCTTCTTTTTCTCTCTCCTTTC
1 CTTTTTTCCTTTTTTCCTTATTTTTCTCTCCCCTTTC
**
96258356 CTTTATTTCCTTTTTTTTTTATTATTTCTCTCCCCTT
1 CTTT-TTTCCTTTTTTCCTTATT-TTTCTCTCCCCTT
96258393 CCCTCACCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 4 0.13
38 15 0.48
39 12 0.39
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (37 bp):
CTTTTTTCCTTTTTTCCTTATTTTTCTCTCCCCTTTC
Found at i:96259540 original size:23 final size:21
Alignment explanation
Indices: 96259510--96259567 Score: 71
Period size: 23 Copynumber: 2.7 Consensus size: 21
96259500 TCAAGTGAAA
96259510 TATTGATATATGTTAAAGAGT
1 TATTGATATATGTTAAAGAGT
** *
96259531 TATTAAGATATAAATTAAAGATT
1 TATT--GATATATGTTAAAGAGT
96259554 TATTGATATATGTT
1 TATTGATATATGTT
96259568 CAATCTGGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 12 0.40
23 18 0.60
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (21 bp):
TATTGATATATGTTAAAGAGT
Found at i:96264053 original size:5 final size:6
Alignment explanation
Indices: 96264040--96264080 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
96264030 ATAATTTAAT
*
96264040 AAATAA AAATAA AAATTTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
96264081 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:96264068 original size:20 final size:21
Alignment explanation
Indices: 96264032--96264075 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
96264022 AATTACAAAT
96264032 AATTTAATAAATAAAAATAAA
1 AATTTAATAAATAAAAATAAA
*
96264053 AATTTAA-AACTAAAAATAAA
1 AATTTAATAAATAAAAATAAA
96264073 AAT
1 AAT
96264076 AAAAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTTAATAAATAAAAATAAA
Found at i:96264081 original size:20 final size:20
Alignment explanation
Indices: 96264043--96264082 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
96264033 ATTTAATAAA
**
96264043 TAAAAATAAAAATTTAAAAC
1 TAAAAATAAAAATAAAAAAC
96264063 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
96264083 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:96264114 original size:9 final size:9
Alignment explanation
Indices: 96264100--96264158 Score: 84
Period size: 9 Copynumber: 6.6 Consensus size: 9
96264090 TTTATACAAA
96264100 TAATTCGGT
1 TAATTCGGT
96264109 TAATTCAGG-
1 TAATTC-GGT
*
96264118 TAATTCGGG
1 TAATTCGGT
96264127 TAATTCGGT
1 TAATTCGGT
*
96264136 TAATTTGGT
1 TAATTCGGT
96264145 TAATTCGGT
1 TAATTCGGT
96264154 TAATT
1 TAATT
96264159 TTATACTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
8 2 0.04
9 41 0.91
10 2 0.04
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:96264856 original size:18 final size:17
Alignment explanation
Indices: 96264839--96264884 Score: 83
Period size: 17 Copynumber: 2.6 Consensus size: 17
96264829 TTAAGCCCCA
96264839 AAAAAAAAACCTAACCC
1 AAAAAAAAACCTAACCC
96264856 AAAAAAAAACCTAACCCC
1 AAAAAAAAACCTAA-CCC
96264874 AAAAAAAAACC
1 AAAAAAAAACC
96264885 AAGAAACCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.67, C:0.28, G:0.00, T:0.04
Consensus pattern (17 bp):
AAAAAAAAACCTAACCC
Found at i:96264861 original size:17 final size:18
Alignment explanation
Indices: 96264834--96264884 Score: 86
Period size: 18 Copynumber: 2.8 Consensus size: 18
96264824 GCCCATTAAG
96264834 CCCCAAAAAAAAAACCTAA
1 CCCC-AAAAAAAAACCTAA
96264853 -CCCAAAAAAAAACCTAA
1 CCCCAAAAAAAAACCTAA
96264870 CCCCAAAAAAAAACC
1 CCCCAAAAAAAAACC
96264885 AAGAAACCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.63, C:0.33, G:0.00, T:0.04
Consensus pattern (18 bp):
CCCCAAAAAAAAACCTAA
Found at i:96269189 original size:18 final size:19
Alignment explanation
Indices: 96269154--96269201 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
96269144 CAACTCTCTC
96269154 ATTTTTATTTCACTTATTT
1 ATTTTTATTTCACTTATTT
96269173 ATTTTTATTT-A-TCTATTT
1 ATTTTTATTTCACT-TATTT
*
96269191 ATTATTATTTC
1 ATTTTTATTTC
96269202 TTCATCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 1 0.04
18 15 0.58
19 10 0.38
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (19 bp):
ATTTTTATTTCACTTATTT
Found at i:96271020 original size:75 final size:75
Alignment explanation
Indices: 96270933--96271073 Score: 239
Period size: 75 Copynumber: 1.9 Consensus size: 75
96270923 GATTGGTGGT
* * *
96270933 GACTCCCATGTTCGTTTTCATTTTCAAAACCAAAGTTGATCTCCGTTTTCAAAAAAATGGTTTCG
1 GACTCCCATGTTCGTTTTCATTTTCAAAACCAAAGTAGATCCCCATTTTCAAAAAAATGGTTTCG
96270998 ATAGCTTGGC
66 ATAGCTTGGC
96271008 GACT-CCACTGTTCGTTTTCATTTTCAAAACCAAAGTAGATCCCCATTTTCAAAAAAATGGTTTC
1 GACTCCCA-TGTTCGTTTTCATTTTCAAAACCAAAGTAGATCCCCATTTTCAAAAAAATGGTTTC
96271072 GA
65 GA
96271074 CCACTGTTCG
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
74 3 0.05
75 59 0.95
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (75 bp):
GACTCCCATGTTCGTTTTCATTTTCAAAACCAAAGTAGATCCCCATTTTCAAAAAAATGGTTTCG
ATAGCTTGGC
Found at i:96271111 original size:62 final size:62
Alignment explanation
Indices: 96271012--96271136 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
96271002 CTTGGCGACT
96271012 CCACTGTTCGTTTTCATTTTCAAAACCAAAGTAGATCCCCATTTTCAAAAAAATGGTTTCGA
1 CCACTGTTCGTTTTCATTTTCAAAACCAAAGTAGATCCCCATTTTCAAAAAAATGGTTTCGA
* **
96271074 CCACTGTTCGTTTTCATTTTCAAAACCAAAGTTGATCCCTGTTTTCAAAAAAATGGTTTCGA
1 CCACTGTTCGTTTTCATTTTCAAAACCAAAGTAGATCCCCATTTTCAAAAAAATGGTTTCGA
96271136 C
1 C
96271137 AGCTTGGTGA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (62 bp):
CCACTGTTCGTTTTCATTTTCAAAACCAAAGTAGATCCCCATTTTCAAAAAAATGGTTTCGA
Found at i:96273632 original size:76 final size:75
Alignment explanation
Indices: 96273539--96273691 Score: 236
Period size: 76 Copynumber: 2.0 Consensus size: 75
96273529 AAAGGATTGG
*
96273539 TGGCGACTCCCAGGTTCGTTTTCATTTTCAAAACCAAAGTCGATCCCCGTTTTCAAAAAAAATGG
1 TGGCGACTCCCAGGTTCGTTTTCATTTTCAAAACCAAAGTCGATCCCCGTTTTC-AAAAAAATAG
96273604 TTTCGACAGCT
65 TTTCGACAGCT
* * **
96273615 TGGCGACT-CCACTGTTCGTTTTCATTTTCAAAACCAAAGTTGATCCTTGTTTTCAAAAAAATAG
1 TGGCGACTCCCA-GGTTCGTTTTCATTTTCAAAACCAAAGTCGATCCCCGTTTTCAAAAAAATAG
96273679 TTTCGACAGCT
65 TTTCGACAGCT
96273690 TG
1 TG
96273692 AAGAACATAT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
75 25 0.35
76 46 0.65
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (75 bp):
TGGCGACTCCCAGGTTCGTTTTCATTTTCAAAACCAAAGTCGATCCCCGTTTTCAAAAAAATAGT
TTCGACAGCT
Found at i:96273810 original size:20 final size:19
Alignment explanation
Indices: 96273767--96273835 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 19
96273757 TCTCTTAACA
96273767 AAAAATATAAAATAATTTTT
1 AAAAAT-TAAAATAATTTTT
96273787 -AAAATTAAAA-AATATTTAT
1 AAAAATTAAAATAAT-TTT-T
*
96273806 AAAAATTTCAAAATTTATATTTT
1 AAAAA-TT-AAAA-TAAT-TTTT
96273829 AAAAATT
1 AAAAATT
96273836 CTAAATTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
17 3 0.07
18 8 0.20
19 6 0.15
20 4 0.10
21 2 0.05
22 6 0.15
23 6 0.15
24 6 0.15
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATTAAAATAATTTTT
Found at i:96273832 original size:22 final size:24
Alignment explanation
Indices: 96273798--96273843 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
96273788 AAATTAAAAA
*
96273798 ATATTTATAAAAATTTCAAAATTT
1 ATATTTATAAAAAATTCAAAATTT
*
96273822 ATATTT-T-AAAAATTCTAAATTT
1 ATATTTATAAAAAATTCAAAATTT
96273844 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 1 0.05
24 6 0.30
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
ATATTTATAAAAAATTCAAAATTT
Found at i:96273834 original size:43 final size:43
Alignment explanation
Indices: 96273766--96273868 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 43
96273756 CTCTCTTAAC
*
96273766 AAAAAATAT-AAAATA-AT-TTTT-AAAATTAAAAAATATTTA
1 AAAAAATTTCAAAATATATATTTTAAAAATTAAAAAATATTTA
* * ** * *
96273805 TAAAAATTTCAAAATTTATATTTTAAAAATTCTAAATTTTTTA
1 AAAAAATTTCAAAATATATATTTTAAAAATTAAAAAATATTTA
*
96273848 AAAAAATTTCTAAATATATAT
1 AAAAAATTTCAAAATATATAT
96273869 AAAGAAATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
39 7 0.14
40 5 0.10
41 2 0.04
42 4 0.08
43 32 0.64
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (43 bp):
AAAAAATTTCAAAATATATATTTTAAAAATTAAAAAATATTTA
Found at i:96273866 original size:41 final size:41
Alignment explanation
Indices: 96273797--96273895 Score: 105
Period size: 40 Copynumber: 2.4 Consensus size: 41
96273787 AAAATTAAAA
* * *
96273797 AATA-TTTATAAAAATTTCAAAATTTATATTTTAA-AAATTCT
1 AATATTTTAAAAAAATTTCAAAA-TTATATATAAAGAAATT-T
* *
96273838 AAATTTTTTAAAAAAATTTCTAAA-TATATATAAAGAAATTT
1 -AATATTTTAAAAAAATTTCAAAATTATATATAAAGAAATTT
96273879 AATATTTTAAAAAAATT
1 AATATTTTAAAAAAATT
96273896 ATAAAATAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
40 16 0.33
41 9 0.18
42 8 0.16
43 16 0.33
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (41 bp):
AATATTTTAAAAAAATTTCAAAATTATATATAAAGAAATTT
Found at i:96277905 original size:17 final size:17
Alignment explanation
Indices: 96277883--96277916 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
96277873 ACTTATTAGG
96277883 TTAG-AAATATATTTTTA
1 TTAGAAAAT-TATTTTTA
96277900 TTAGAAAATTATTTTTA
1 TTAGAAAATTATTTTTA
96277917 AAAAATTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TTAGAAAATTATTTTTA
Found at i:96279451 original size:100 final size:100
Alignment explanation
Indices: 96279258--96279534 Score: 475
Period size: 100 Copynumber: 2.8 Consensus size: 100
96279248 CTATAAAATC
*
96279258 AAATTATATTAGATTAGATTACTACACATTTAAGACGTGGGAAAAAAAATTAGGTACCAACTATT
1 AAATTATATTAGATTACATTACTACACATTTAAGACGTGGG-AAAAAAATTAGGTACCAACTATT
96279323 ATTTCTTAATTAAAATTATTTTCAGGATTTTAATTA
65 ATTTCTTAATTAAAATTATTTTCAGGATTTTAATTA
* * * *
96279359 AAATTATGTTAGATTACATTACTACATATTTAAGACGTGGGAAAAAAATTAGGTACCCACCATTA
1 AAATTATATTAGATTACATTACTACACATTTAAGACGTGGGAAAAAAATTAGGTACCAACTATTA
*
96279424 TTTCTTTATTAAAATTA-TTTCTAGGATTTTAATTA
66 TTTCTTAATTAAAATTATTTTC-AGGATTTTAATTA
96279459 AAATTATATTAGATTACATTACTACACATTTAAGACGTGGGAAAAAAATTAGGTACCAACTATTA
1 AAATTATATTAGATTACATTACTACACATTTAAGACGTGGGAAAAAAATTAGGTACCAACTATTA
96279524 TTTCTTAATTA
66 TTTCTTAATTA
96279535 TAAAAATTAG
Statistics
Matches: 164, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
99 4 0.02
100 122 0.74
101 38 0.23
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.38
Consensus pattern (100 bp):
AAATTATATTAGATTACATTACTACACATTTAAGACGTGGGAAAAAAATTAGGTACCAACTATTA
TTTCTTAATTAAAATTATTTTCAGGATTTTAATTA
Found at i:96279591 original size:15 final size:15
Alignment explanation
Indices: 96279566--96279602 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
96279556 ATTATATATT
*
96279566 TTTACTATTTTAATAA
1 TTTA-TATTTTAAAAA
96279582 TTTATATTTTAAAAA
1 TTTATATTTTAAAAA
96279597 TTTATA
1 TTTATA
96279603 AAGGATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTATATTTTAAAAA
Found at i:96285107 original size:17 final size:17
Alignment explanation
Indices: 96285081--96285114 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
96285071 ATACTTTATA
*
96285081 TTTCAAGTTTTCCATAT
1 TTTCAAGTTTTACATAT
*
96285098 TTTCATGTTTTACATAT
1 TTTCAAGTTTTACATAT
96285115 ACGTGCAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.15, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTCAAGTTTTACATAT
Found at i:96286213 original size:17 final size:17
Alignment explanation
Indices: 96286187--96286227 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
96286177 TAACTCTCTA
* *
96286187 TTTAATTTAAAGATAATT
1 TTTAATTAAAACAT-ATT
96286205 TTTAATTAAAACATATT
1 TTTAATTAAAACATATT
96286222 TTTAAT
1 TTTAAT
96286228 GTTTTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TTTAATTAAAACATATT
Found at i:96290286 original size:16 final size:16
Alignment explanation
Indices: 96290265--96290320 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
96290255 TTGAATTACT
96290265 TATTACAGCTCTATTC
1 TATTACAGCTCTATTC
96290281 TATTACAGCTCTATTC
1 TATTACAGCTCTATTC
* *
96290297 AATTACAGCCCTATTC
1 TATTACAGCTCTATTC
*
96290313 CATTACAG
1 TATTACAG
96290321 TGAACCAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.38
Consensus pattern (16 bp):
TATTACAGCTCTATTC
Found at i:96290728 original size:19 final size:20
Alignment explanation
Indices: 96290682--96290719 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
96290672 ACATGTTAGC
*
96290682 ATTTAATTA-ATTTGTTTAA
1 ATTTAAATATATTTGTTTAA
96290701 ATTTAAATATATTT-TTTAA
1 ATTTAAATATATTTGTTTAA
96290720 TTTTTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
ATTTAAATATATTTGTTTAA
Found at i:96290768 original size:11 final size:10
Alignment explanation
Indices: 96290739--96290780 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
96290729 ATGTTAATGA
96290739 TTTTTAA-TT
1 TTTTTAATTT
**
96290748 TTTAGAATTT
1 TTTTTAATTT
96290758 TTTTTATATTT
1 TTTTTA-ATTT
96290769 TTTTTAATTT
1 TTTTTAATTT
96290779 TT
1 TT
96290781 AAAGTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 5 0.19
10 12 0.44
11 10 0.37
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTTTAATTT
Found at i:96291497 original size:41 final size:41
Alignment explanation
Indices: 96291434--96291518 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
96291424 CTTGGTTCCC
*
96291434 TTTGGGATTATTAAAGCTAGTTTAATAAAATAAGTAGACCT
1 TTTGGGATTATTAAAGCTAGTTTAAAAAAATAAGTAGACCT
*
96291475 TTTGGGATTATTAGAG-TAAGTTTAAAAAAATAAGTAGACCT
1 TTTGGGATTATTAAAGCT-AGTTTAAAAAAATAAGTAGACCT
96291516 TTT
1 TTT
96291519 TGTTATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 1 0.02
41 40 0.98
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.38
Consensus pattern (41 bp):
TTTGGGATTATTAAAGCTAGTTTAAAAAAATAAGTAGACCT
Found at i:96293672 original size:17 final size:18
Alignment explanation
Indices: 96293639--96293673 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
96293629 TAATTTTAAG
*
96293639 GAATGGAAAAAGGCACTT
1 GAATGGAAAAAGACACTT
96293657 GAATGG-AAAAGACACTT
1 GAATGGAAAAAGACACTT
96293674 ACTTATAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.46, C:0.11, G:0.26, T:0.17
Consensus pattern (18 bp):
GAATGGAAAAAGACACTT
Found at i:96306983 original size:19 final size:19
Alignment explanation
Indices: 96306959--96306996 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
96306949 GAAATGAATA
*
96306959 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
96306978 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
96306997 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:96311466 original size:14 final size:15
Alignment explanation
Indices: 96311448--96311494 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
96311438 TAATAAATTA
*
96311448 AAAAATTAAGTGTTG
1 AAAAATTAAATGTTG
* *
96311463 AAAAAATAAATATTG
1 AAAAATTAAATGTTG
96311478 AAAAATTAAATGTTG
1 AAAAATTAAATGTTG
96311493 AA
1 AA
96311495 TTTAAGTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (15 bp):
AAAAATTAAATGTTG
Found at i:96318251 original size:14 final size:14
Alignment explanation
Indices: 96318232--96318261 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
96318222 GGCTAGACCA
96318232 CTTAATTCGTTTTT
1 CTTAATTCGTTTTT
96318246 CTTAATTCGTTTTT
1 CTTAATTCGTTTTT
96318260 CT
1 CT
96318262 GAGTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63
Consensus pattern (14 bp):
CTTAATTCGTTTTT
Found at i:96322140 original size:16 final size:16
Alignment explanation
Indices: 96322116--96322150 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
96322106 CATTAAACAC
*
96322116 AACATCTACATTCGTT
1 AACACCTACATTCGTT
96322132 AACACCTACATTCGTT
1 AACACCTACATTCGTT
96322148 AAC
1 AAC
96322151 GAAAATGAAA
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:0.34, C:0.29, G:0.06, T:0.31
Consensus pattern (16 bp):
AACACCTACATTCGTT
Found at i:96326431 original size:29 final size:28
Alignment explanation
Indices: 96326390--96326470 Score: 67
Period size: 29 Copynumber: 2.8 Consensus size: 28
96326380 AATAAAAAAT
* *
96326390 AAAATATTAAAAATTTATTAGAAATTAGA
1 AAAATATT-AAAATTTATTAAAAAATAGA
* * *
96326419 AAAATATATAAAAATCATTAAAAAATATA
1 AAAATAT-TAAAATTTATTAAAAAATAGA
96326448 AAAAT-TGTAAAATTT-TATAAAAA
1 AAAATAT-TAAAATTTAT-TAAAAA
96326471 TCGTAAAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
27 1 0.02
28 13 0.31
29 27 0.64
30 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (28 bp):
AAAATATTAAAATTTATTAAAAAATAGA
Found at i:96326433 original size:19 final size:19
Alignment explanation
Indices: 96326411--96326488 Score: 56
Period size: 19 Copynumber: 4.1 Consensus size: 19
96326401 AATTTATTAG
96326411 AAATTAGAAAAATATATAA
1 AAATTAGAAAAATATATAA
* *
96326430 AAATCATTAAAAA-ATATAA
1 AAATTA-GAAAAATATATAA
* *
96326449 AAATT-GTAAAATTTTATAA
1 AAATTAG-AAAAATATATAA
96326468 AAATCGTA-AAAAAT-TATAA
1 AAAT--TAGAAAAATATATAA
96326487 AA
1 AA
96326489 TATATGAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
18 4 0.09
19 31 0.67
20 10 0.22
21 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (19 bp):
AAATTAGAAAAATATATAA
Found at i:96326558 original size:19 final size:20
Alignment explanation
Indices: 96326519--96326582 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 20
96326509 TAAAATTTTA
*
96326519 AAAAGTCGTAAGAAAATTATAT
1 AAAA-TCGTAA-AAAAATATAT
96326541 AAAAT-GTAAAAAAATATA-
1 AAAATCGTAAAAAAATATAT
** *
96326559 AATTTCGTAAAAAAATTTAT
1 AAAATCGTAAAAAAATATAT
96326579 AAAA
1 AAAA
96326583 ATTATCGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.09
19 20 0.59
20 6 0.18
21 1 0.03
22 4 0.12
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (20 bp):
AAAATCGTAAAAAAATATAT
Found at i:96326770 original size:18 final size:19
Alignment explanation
Indices: 96326738--96326781 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
96326728 ATTTTTTTAC
96326738 AATTTTTATAAAAAATTCT
1 AATTTTTATAAAAAATTCT
*
96326757 AATTTTTA-ATAAAATTCT
1 AATTTTTATAAAAAATTCT
96326775 AATTTTT
1 AATTTTT
96326782 TATATTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTTTTATAAAAAATTCT
Found at i:96326788 original size:27 final size:27
Alignment explanation
Indices: 96326758--96326821 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
96326748 AAAAATTCTA
96326758 ATTTTTAATAAAATTCTA-ATTTTT-TAT
1 ATTTTTAATAAAATT-TATATTTTTAT-T
*
96326785 ATTTTT-CTAAAATTTATATTTTTATT
1 ATTTTTAATAAAATTTATATTTTTATT
96326811 ATTTTTAATAA
1 ATTTTTAATAA
96326822 GAGCAGGGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 2 0.06
26 20 0.62
27 10 0.31
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (27 bp):
ATTTTTAATAAAATTTATATTTTTATT
Found at i:96331683 original size:15 final size:15
Alignment explanation
Indices: 96331652--96331690 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
96331642 GAATATTTTT
*
96331652 TATAATT-TAAAATA
1 TATAATTATAAAAGA
*
96331666 TATATTTATAAAAGA
1 TATAATTATAAAAGA
96331681 TATAATTATA
1 TATAATTATA
96331691 TTTCATAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
TATAATTATAAAAGA
Found at i:96337987 original size:15 final size:15
Alignment explanation
Indices: 96337956--96337999 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
96337946 ATGAATTGAA
*
96337956 AAAAATAAGTGTT-G
1 AAAAATAAGTATTAG
96337970 AAAAATAAGTATTAG
1 AAAAATAAGTATTAG
*
96337985 AAAATTAAGTATTAG
1 AAAAATAAGTATTAG
96338000 TTATTTTGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.30
Consensus pattern (15 bp):
AAAAATAAGTATTAG
Found at i:96342314 original size:60 final size:60
Alignment explanation
Indices: 96342234--96342352 Score: 186
Period size: 60 Copynumber: 2.0 Consensus size: 60
96342224 TTGTTTTTTA
* * *
96342234 TAATTATTTTAAAATTAATTTGTTAGAAATTTAGGATTATGTTA-AAATTTGTTGTGTTTG
1 TAATTATTTTAAAATTAATTTATTAGAAATTTAGGATTAAGTTATAAA-TTGTTATGTTTG
*
96342294 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTATGTTT
1 TAATTATTTTAAAATTAATTTATTAGAAATTTAGGATTAAGTTATAAATTGTTATGTTT
96342353 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 51 0.94
61 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (60 bp):
TAATTATTTTAAAATTAATTTATTAGAAATTTAGGATTAAGTTATAAATTGTTATGTTTG
Found at i:96342685 original size:27 final size:27
Alignment explanation
Indices: 96342636--96342688 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
96342626 ACCATATGCA
* * *
96342636 CCTCTGAGATAGGCACGATTAGTCGCG
1 CCTCTGAGAAAGGCACAACTAGTCGCG
*
96342663 CCTCTGAGAAAGGCTCAACTAGTCGC
1 CCTCTGAGAAAGGCACAACTAGTCGC
96342689 ACAGAGATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.21
Consensus pattern (27 bp):
CCTCTGAGAAAGGCACAACTAGTCGCG
Found at i:96342778 original size:20 final size:20
Alignment explanation
Indices: 96342745--96342792 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
96342735 TGATTCGAAA
*
96342745 ATAAAAAATAATATCTT-AT
1 ATAAAAAATAATATATTAAT
*
96342764 TTAAAAAATATATATATTAAT
1 ATAAAAAATA-ATATATTAAT
96342785 ATAAAAAA
1 ATAAAAAA
96342793 AGAGTCGTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.38
20 6 0.25
21 9 0.38
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAAAAAATAATATATTAAT
Found at i:96354961 original size:16 final size:16
Alignment explanation
Indices: 96354936--96354973 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
96354926 AAAGTTTAAC
96354936 ATAT-TAATCT-ATAT
1 ATATATAATCTCATAT
96354950 AATATATAATCTCATAT
1 -ATATATAATCTCATAT
96354967 ATATATA
1 ATATATA
96354974 CATTTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.19
16 13 0.62
17 4 0.19
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATATAATCTCATAT
Found at i:96362929 original size:89 final size:89
Alignment explanation
Indices: 96362778--96362954 Score: 327
Period size: 89 Copynumber: 2.0 Consensus size: 89
96362768 GCTTGATGGT
* *
96362778 TCACTTCTGTTTGTTTATTGCTTCAATGATACAGAAACTTACAAGTTTCAATGTACAATTTCCAT
1 TCACTTCTGTTTGTTCATTGCTTCAATGATACAGAAACTTACAAGTTTCAATGAACAATTTCCAT
96362843 ATTTTTCACTTGTGTCCTAACATG
66 ATTTTTCACTTGTGTCCTAACATG
*
96362867 TCACTTCTGTTTGTTCATTGCTTCAATGATACAGCAACTTACAAGTTTCAATGAACAATTTCCAT
1 TCACTTCTGTTTGTTCATTGCTTCAATGATACAGAAACTTACAAGTTTCAATGAACAATTTCCAT
96362932 ATTTTTCACTTGTGTCCTAACAT
66 ATTTTTCACTTGTGTCCTAACAT
96362955 ATAACTCTTG
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 85 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (89 bp):
TCACTTCTGTTTGTTCATTGCTTCAATGATACAGAAACTTACAAGTTTCAATGAACAATTTCCAT
ATTTTTCACTTGTGTCCTAACATG
Found at i:96366023 original size:7 final size:7
Alignment explanation
Indices: 96366013--96366042 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
96366003 AGTTAAAATG
96366013 TTGAATA
1 TTGAATA
96366020 TTGAATA
1 TTGAATA
96366027 TTGAATA
1 TTGAATA
*
96366034 TTAAATA
1 TTGAATA
96366041 TT
1 TT
96366043 AAATTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.47
Consensus pattern (7 bp):
TTGAATA
Found at i:96366032 original size:14 final size:14
Alignment explanation
Indices: 96366008--96366042 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
96365998 TAAAAAGTTA
*
96366008 AAATGTTGAATATT
1 AAATATTGAATATT
*
96366022 GAATATTGAATATT
1 AAATATTGAATATT
96366036 AAATATT
1 AAATATT
96366043 AAATTATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (14 bp):
AAATATTGAATATT
Found at i:96366595 original size:18 final size:17
Alignment explanation
Indices: 96366555--96366597 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
96366545 AATAAAAATT
96366555 ATTAAATTTTAATAAAA
1 ATTAAATTTTAATAAAA
*
96366572 A-T-AATTTTATTAAAA
1 ATTAAATTTTAATAAAA
96366587 ATTAGAATTTT
1 ATTA-AATTTT
96366598 TTTATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 13 0.59
16 2 0.09
17 1 0.05
18 6 0.27
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (17 bp):
ATTAAATTTTAATAAAA
Found at i:96366636 original size:28 final size:28
Alignment explanation
Indices: 96366600--96366700 Score: 76
Period size: 28 Copynumber: 3.5 Consensus size: 28
96366590 AGAATTTTTT
* * *
96366600 TATAAAAATCTTAAAAAATTATAAAATA
1 TATAAAAATATAAAAAAACTATAAAATA
* *
96366628 TATAGAAATATAAAAAAACTATAAAATGT
1 TATAAAAATATAAAAAAACTATAAAAT-A
** * * * *
96366657 TATAAAGTTGTAAGAAAATTATAAAAAA
1 TATAAAAATATAAAAAAACTATAAAATA
*
96366685 TGTAAAAATTATAAAA
1 TATAAAAA-TATAAAA
96366701 TTCGTAAAAA
Statistics
Matches: 53, Mismatches: 18, Indels: 3
0.72 0.24 0.04
Matches are distributed among these distances:
28 28 0.53
29 25 0.47
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (28 bp):
TATAAAAATATAAAAAAACTATAAAATA
Found at i:96366710 original size:10 final size:9
Alignment explanation
Indices: 96366599--96366723 Score: 69
Period size: 9 Copynumber: 13.4 Consensus size: 9
96366589 TAGAATTTTT
96366599 TTATAAAAA
1 TTATAAAAA
96366608 TCT-TAAAAAA
1 T-TAT-AAAAA
96366618 TTAT-AAAA
1 TTATAAAAA
*
96366626 TATATAGAAA
1 T-TATAAAAA
*
96366636 TATAAAAAAA
1 T-TATAAAAA
* *
96366646 CTATAAAATG
1 TTATAAAA-A
*
96366656 TTAT-AAAG
1 TTATAAAAA
*
96366664 TTGTAAGAAAA
1 TTAT-A-AAAA
96366675 TTATAAAAA
1 TTATAAAAA
* *
96366684 ATGTAAAAA
1 TTATAAAAA
96366693 TTAT-AAAA
1 TTATAAAAA
*
96366701 TTCGTAAAAA
1 TT-ATAAAAA
96366711 TTATAAAAA
1 TTATAAAAA
96366720 TTAT
1 TTAT
96366724 CGCACCAAAA
Statistics
Matches: 89, Mismatches: 16, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
8 15 0.17
9 39 0.44
10 29 0.33
11 6 0.07
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (9 bp):
TTATAAAAA
Found at i:96370238 original size:16 final size:16
Alignment explanation
Indices: 96370217--96370287 Score: 124
Period size: 16 Copynumber: 4.4 Consensus size: 16
96370207 TGAATTACTG
96370217 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
96370233 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
*
96370249 ATTACAGCTTTATTCA
1 ATTACAGCTCTATTCA
*
96370265 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCA
96370281 ATTACAG
1 ATTACAG
96370288 TGAACCAAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:96373276 original size:25 final size:25
Alignment explanation
Indices: 96373248--96373302 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
96373238 TTACAAAGGG
**
96373248 AAAGTCCTAATCTAATTCCTAATTT
1 AAAGTCCTAATAGAATTCCTAATTT
*
96373273 AAAGTCCTAATAGAATTCTTAATTT
1 AAAGTCCTAATAGAATTCCTAATTT
96373298 AAAGT
1 AAAGT
96373303 TTATAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (25 bp):
AAAGTCCTAATAGAATTCCTAATTT
Found at i:96377858 original size:25 final size:25
Alignment explanation
Indices: 96377824--96377876 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
96377814 TTATAAAGGG
** *
96377824 AAAGTCCTAATCTATTTCCTAATTT
1 AAAGTCCTAATAGAATTCCTAATTT
96377849 AAAGTCCTAATAGAATTCCTAATTT
1 AAAGTCCTAATAGAATTCCTAATTT
96377874 AAA
1 AAA
96377877 TTTATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.38
Consensus pattern (25 bp):
AAAGTCCTAATAGAATTCCTAATTT
Found at i:96382691 original size:15 final size:17
Alignment explanation
Indices: 96382660--96382693 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
96382650 TACAATTTTA
96382660 ATTAAGTATACAAAAAT
1 ATTAAGTATACAAAAAT
96382677 ATTAA-TATA-AAAAAT
1 ATTAAGTATACAAAAAT
96382692 AT
1 AT
96382694 ATATTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 4 0.24
17 5 0.29
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
ATTAAGTATACAAAAAT
Found at i:96390394 original size:11 final size:11
Alignment explanation
Indices: 96390378--96390415 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
96390368 TAGTTAGATG
96390378 AGGGAGGAGAA
1 AGGGAGGAGAA
96390389 AGGGA-G-GAA
1 AGGGAGGAGAA
96390398 AGGGAGGAGAA
1 AGGGAGGAGAA
96390409 AGAGGAG
1 AG-GGAG
96390416 TTGTGCGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 8 0.33
10 2 0.08
11 10 0.42
12 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (11 bp):
AGGGAGGAGAA
Found at i:96390768 original size:60 final size:61
Alignment explanation
Indices: 96390659--96390781 Score: 212
Period size: 60 Copynumber: 2.0 Consensus size: 61
96390649 GGCAGTGTGG
*
96390659 CTCTGTTTTAGCCCGTGTGTGTTAAAAATTCAAGCCCAGTCTTCACACGGCCTCGGACACGC
1 CTCTGTTTTAGCCCGTGTGCGTTAAAAA-TCAAGCCCAGTCTTCACACGGCCTCGGACACGC
*
96390721 CTCTGTTTTAGCCCGTGTGCGTTAAAAA-CAAGCCCAGTCTTCACACGGCCTTGGACACGC
1 CTCTGTTTTAGCCCGTGTGCGTTAAAAATCAAGCCCAGTCTTCACACGGCCTCGGACACGC
96390781 C
1 C
96390782 CGTGTGTCCA
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 32 0.54
62 27 0.46
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (61 bp):
CTCTGTTTTAGCCCGTGTGCGTTAAAAATCAAGCCCAGTCTTCACACGGCCTCGGACACGC
Found at i:96394159 original size:16 final size:17
Alignment explanation
Indices: 96394121--96394152 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
96394111 AATTTAAAAT
96394121 AATAAAAAT-AAAATGC
1 AATAAAAATAAAAATGC
96394137 AATAAAAATAAAAATG
1 AATAAAAATAAAAATG
96394153 ACTAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (17 bp):
AATAAAAATAAAAATGC
Found at i:96401222 original size:27 final size:27
Alignment explanation
Indices: 96401191--96401248 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
96401181 TTTATTTCTC
96401191 AAAATAATTAGTCCTTTACTTTTCACT
1 AAAATAATTAGTCCTTTACTTTTCACT
*
96401218 AAAATGATTAGTCCTTTACTTTTCACT
1 AAAATAATTAGTCCTTTACTTTTCACT
96401245 AAAA
1 AAAA
96401249 GATTTACATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.05, T:0.41
Consensus pattern (27 bp):
AAAATAATTAGTCCTTTACTTTTCACT
Found at i:96410364 original size:21 final size:21
Alignment explanation
Indices: 96410339--96410379 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
96410329 ATACAATAAT
*
96410339 AAAA-TTATATTTTAACTCTTA
1 AAAATTTATAATTTAA-TCTTA
96410360 AAAATTTATAATTTAATCTT
1 AAAATTTATAATTTAATCTT
96410380 GATACCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAATTTATAATTTAATCTTA
Found at i:96414613 original size:22 final size:22
Alignment explanation
Indices: 96414582--96414625 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
96414572 TTATTAACAC
*
96414582 TTTTTATATTTTTAAACTTATA
1 TTTTTATATTTTAAAACTTATA
* *
96414604 TTTTTTTATTTTAAAATTTATA
1 TTTTTATATTTTAAAACTTATA
96414626 AATTAGGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTTATATTTTAAAACTTATA
Found at i:96418049 original size:132 final size:133
Alignment explanation
Indices: 96417830--96418097 Score: 511
Period size: 132 Copynumber: 2.0 Consensus size: 133
96417820 GATGCAGATA
96417830 ACAGAATCAGATAAACATAGCAAATATCCAAAATCCTACCCCCATCCTCTACACACCATCTCCGA
1 ACAGAATCAGATAAACATAGCAAATATCCAAAATCCTACCCCCATCCTCTACACACCATCTCCGA
96417895 CCATCCCATCTCACCATGTGGGGTTAAAAACACCCACCCATCCC-ACACACCATATAGTGTCAAT
66 CCATCCCATCTCACCATGTGGGGTTAAAAACACCCACCCATCCCTACACACCATATAGTGTCAAT
96417959 GCG
131 GCG
*
96417962 ACAGAATCAGATAAACATAGCAAATATCCAAATTCCTACCCCCATCCTCTACACACCATCTCCGA
1 ACAGAATCAGATAAACATAGCAAATATCCAAAATCCTACCCCCATCCTCTACACACCATCTCCGA
*
96418027 CCATCCCATCTCACCATGTGGGGTTAAAAACACCCACCCATCCCTACACACCATATAGTGTCGAT
66 CCATCCCATCTCACCATGTGGGGTTAAAAACACCCACCCATCCCTACACACCATATAGTGTCAAT
96418092 GCG
131 GCG
96418095 ACA
1 ACA
96418098 CATGACAAAA
Statistics
Matches: 133, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
132 108 0.81
133 25 0.19
ACGTcount: A:0.34, C:0.36, G:0.10, T:0.19
Consensus pattern (133 bp):
ACAGAATCAGATAAACATAGCAAATATCCAAAATCCTACCCCCATCCTCTACACACCATCTCCGA
CCATCCCATCTCACCATGTGGGGTTAAAAACACCCACCCATCCCTACACACCATATAGTGTCAAT
GCG
Found at i:96419939 original size:8 final size:8
Alignment explanation
Indices: 96419926--96419956 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
96419916 AATTAATAAT
96419926 AACAACAA
1 AACAACAA
96419934 AACAACAA
1 AACAACAA
96419942 AACAACAA
1 AACAACAA
96419950 AACAACA
1 AACAACA
96419957 GGAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.74, C:0.26, G:0.00, T:0.00
Consensus pattern (8 bp):
AACAACAA
Found at i:96421154 original size:29 final size:30
Alignment explanation
Indices: 96421121--96421206 Score: 95
Period size: 31 Copynumber: 2.9 Consensus size: 30
96421111 ATTTAATATA
96421121 CAATTATATACAT-AAACTTTAATTTGGTAT
1 CAATTATATACATGAAACTTTAATTTGGT-T
* *
96421151 -AATTATACACATGAAACTCTAATTATGGTT
1 CAATTATATACATGAAACTTTAATT-TGGTT
* * *
96421181 CAAATGTATACTTGAAACTTTAATTT
1 CAATTATATACATGAAACTTTAATTT
96421207 TGATTTAATC
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
29 11 0.24
30 12 0.26
31 23 0.50
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.41
Consensus pattern (30 bp):
CAATTATATACATGAAACTTTAATTTGGTT
Found at i:96421174 original size:30 final size:30
Alignment explanation
Indices: 96421122--96421179 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
96421112 TTTAATATAC
* *
96421122 AATTATATACATAAACTTTAATT-TGGTAT
1 AATTATACACATAAACTCTAATTATGGTAT
96421151 AATTATACACATGAAACTCTAATTATGGT
1 AATTATACACAT-AAACTCTAATTATGGT
96421180 TCAAATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.44
30 10 0.40
31 4 0.16
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (30 bp):
AATTATACACATAAACTCTAATTATGGTAT
Found at i:96422098 original size:4 final size:4
Alignment explanation
Indices: 96422089--96422113 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
96422079 TCTGAAGTTT
96422089 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
96422114 ATAAAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:96423295 original size:6 final size:6
Alignment explanation
Indices: 96423284--96423308 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
96423274 AACAAGCATT
96423284 GTGAGG GTGAGG GTGAGG GTGAGG G
1 GTGAGG GTGAGG GTGAGG GTGAGG G
96423309 ACCCAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.68, T:0.16
Consensus pattern (6 bp):
GTGAGG
Found at i:96428095 original size:35 final size:36
Alignment explanation
Indices: 96428030--96428100 Score: 94
Period size: 35 Copynumber: 2.0 Consensus size: 36
96428020 ATATTTCATA
96428030 TATTATTAATTAATTTTAAATCATACATTTATTATT
1 TATTATTAATTAATTTTAAATCATACATTTATTATT
*
96428066 TATT-TTATATTATTTTTAAA-CAT-CAATTTATTATT
1 TATTATTA-ATTAATTTTAAATCATAC-ATTTATTATT
96428101 ATAAATACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
34 1 0.03
35 16 0.50
36 15 0.47
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (36 bp):
TATTATTAATTAATTTTAAATCATACATTTATTATT
Found at i:96428164 original size:3 final size:3
Alignment explanation
Indices: 96428156--96428180 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
96428146 GAATTTTTAG
96428156 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
96428181 AAATCTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:96430221 original size:26 final size:26
Alignment explanation
Indices: 96430191--96430245 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
96430181 GCAAAATTAA
96430191 ATTTTTCAAAAGCACTTCTCAAAAGT
1 ATTTTTCAAAAGCACTTCTCAAAAGT
* * *
96430217 ATTTTTCCATAGCACTTTTCAAAAGT
1 ATTTTTCAAAAGCACTTCTCAAAAGT
96430243 ATT
1 ATT
96430246 ACCAAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (26 bp):
ATTTTTCAAAAGCACTTCTCAAAAGT
Found at i:96430640 original size:3 final size:3
Alignment explanation
Indices: 96430588--96430621 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
96430578 TGGAACTTCA
96430588 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
96430622 AATTTTTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:96431887 original size:11 final size:12
Alignment explanation
Indices: 96431865--96431894 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
96431855 CCGTATTACT
96431865 TTTTTTATTATA
1 TTTTTTATTATA
96431877 TTTTTTA-TATA
1 TTTTTTATTATA
96431888 TTTTTTA
1 TTTTTTA
96431895 AAAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTATTATA
Found at i:96431931 original size:20 final size:19
Alignment explanation
Indices: 96431895--96431937 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
96431885 ATATTTTTTA
*
96431895 AAAAAATATATATAATACAT
1 AAAAAATATATAAAATAC-T
96431915 AAAAAATAT-TAAAAATACT
1 AAAAAATATAT-AAAATACT
96431934 AAAA
1 AAAA
96431938 CAATGTTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAAATATATAAAATACT
Found at i:96432149 original size:20 final size:19
Alignment explanation
Indices: 96432124--96432186 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
96432114 AAATGGTACC
96432124 AAAATAGTGAAAAAAACAAG
1 AAAATAGT-AAAAAAACAAG
*
96432144 AAAATAATAAAAAAAC-AG
1 AAAATAGTAAAAAAACAAG
*
96432162 CAATAATAGTAAAAGAAAAAAG
1 -AA-AATAGTAAAA-AAACAAG
96432184 AAA
1 AAA
96432187 TTTTTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 2 0.06
19 10 0.28
20 17 0.47
21 5 0.14
22 2 0.06
ACGTcount: A:0.73, C:0.05, G:0.11, T:0.11
Consensus pattern (19 bp):
AAAATAGTAAAAAAACAAG
Found at i:96434868 original size:3 final size:3
Alignment explanation
Indices: 96434860--96434905 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
96434850 TGCAAACATA
* *
96434860 TAT TAT TAT T-T ATAT TAT TAC TAT TAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
96434905 T
1 T
96434906 TCTTTTACGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 35 0.95
4 1 0.03
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:96435059 original size:7 final size:7
Alignment explanation
Indices: 96435033--96435073 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
96435023 TTATTACTTT
96435033 ATTATTA
1 ATTATTA
*
96435040 ATTTAGT-
1 A-TTATTA
96435047 ATTATTA
1 ATTATTA
96435054 ATTATTA
1 ATTATTA
96435061 ATTATT-
1 ATTATTA
96435067 ATTATTA
1 ATTATTA
96435074 TCCTTATTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
6 10 0.34
7 15 0.52
8 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (7 bp):
ATTATTA
Found at i:96439877 original size:25 final size:26
Alignment explanation
Indices: 96439822--96439877 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
96439812 GTACGATTGA
96439822 ACCTATGAAAATTTGTTTTTCAATAT
1 ACCTATGAAAATTTGTTTTTCAATAT
96439848 ACCTATGAAAATTTGTTTTTCAATAT
1 ACCTATGAAAATTTGTTTTTCAATAT
96439874 -CCTA
1 ACCTA
96439878 AATTTTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (26 bp):
ACCTATGAAAATTTGTTTTTCAATAT
Found at i:96443365 original size:18 final size:18
Alignment explanation
Indices: 96443342--96443377 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
96443332 GGATTTTTGG
*
96443342 AAAAAATTAAAATTAAAA
1 AAAAAATTAAAACTAAAA
*
96443360 AAAAAATTCAAACTAAAA
1 AAAAAATTAAAACTAAAA
96443378 TCCCAACTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (18 bp):
AAAAAATTAAAACTAAAA
Found at i:96444847 original size:21 final size:21
Alignment explanation
Indices: 96444823--96444869 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
96444813 TTCTGTTCTG
*
96444823 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCGCGCTGCTGC
96444844 CTCCGCCTCCCGCGCTGCTGC
1 CTCCGCCTCCCGCGCTGCTGC
96444865 CTCCG
1 CTCCG
96444870 TTATAAGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.00, C:0.57, G:0.21, T:0.21
Consensus pattern (21 bp):
CTCCGCCTCCCGCGCTGCTGC
Found at i:96450459 original size:27 final size:27
Alignment explanation
Indices: 96450421--96450473 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
96450411 ATGTAAGTTG
*
96450421 TTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTATGTGAGTTATGTAAA
96450448 TTATGTAAGTTATGTGAGTTATGTAA
1 TTATGTAAGTTATGTGAGTTATGTAA
96450474 GTTGTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.45
Consensus pattern (27 bp):
TTATGTAAGTTATGTGAGTTATGTAAA
Found at i:96450494 original size:9 final size:9
Alignment explanation
Indices: 96450405--96450476 Score: 81
Period size: 9 Copynumber: 7.7 Consensus size: 9
96450395 ATGTATTAGT
96450405 TAAGTTATG
1 TAAGTTATG
96450414 TAAGTTGTTATG
1 TAA---GTTATG
*
96450426 TACGTTATG
1 TAAGTTATG
*
96450435 TGAGTTATG
1 TAAGTTATG
*
96450444 TAAATTATG
1 TAAGTTATG
96450453 TAAGTTATG
1 TAAGTTATG
*
96450462 TGAGTTATG
1 TAAGTTATG
96450471 TAAGTT
1 TAAGTT
96450477 GTTATGTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
9 44 0.85
12 8 0.15
ACGTcount: A:0.29, C:0.01, G:0.24, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:96450946 original size:241 final size:241
Alignment explanation
Indices: 96450516--96450969 Score: 854
Period size: 241 Copynumber: 1.9 Consensus size: 241
96450506 ATGATATATG
96450516 CTTTTTCCAAGTCTTTTTGAAATTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGG
1 CTTTTTCCAAGTCTTTTTGAAATTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGG
* *
96450581 ATCCGTTATATCTTACAGCTCGATATAAGGCAACTCGTCAGGTTTCCAGCCTATATACTTTGAAT
66 ATCCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAAT
96450646 CTTTAAAATATTTAAAATAAAGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGC
131 CTTTAAAATATTTAAAATAAAGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGC
96450711 AAGCTACATGGTAATAAATATTCAATAGTAAATAAGCTCGATAGAA
196 AAGCTACATGGTAATAAATATTCAATAGTAAATAAGCTCGATAGAA
* * *
96450757 CTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTTATCATACGTGGCGTTGTTACACCTAGGGAGG
1 CTTTTTCCAAGTCTTTTTGAAATTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGG
96450822 ATCCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAAT
66 ATCCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAAT
*
96450887 CTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGC
131 CTTTAAAATATTTAAAATAAAGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGC
96450952 AAGCTACATGGTAATAAA
196 AAGCTACATGGTAATAAA
96450970 ATTAATTCAT
Statistics
Matches: 207, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 207 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (241 bp):
CTTTTTCCAAGTCTTTTTGAAATTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGG
ATCCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAAT
CTTTAAAATATTTAAAATAAAGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGC
AAGCTACATGGTAATAAATATTCAATAGTAAATAAGCTCGATAGAA
Found at i:96451386 original size:27 final size:27
Alignment explanation
Indices: 96451354--96451419 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
96451344 AAAACATGTC
*
96451354 AATTTCATATGCTATAAATCATGCTGA
1 AATTTCATATACTATAAATCATGCTGA
96451381 AATTTCATATACTATAAATCATGCTGA
1 AATTTCATATACTATAAATCATGCTGA
*
96451408 AATTTTATATAC
1 AATTTCATATAC
96451420 ACAAGTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (27 bp):
AATTTCATATACTATAAATCATGCTGA
Found at i:96452203 original size:14 final size:13
Alignment explanation
Indices: 96452184--96452213 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
96452174 CAATATAATT
96452184 TTACTTCATATATA
1 TTACTTCATATA-A
96452198 TTACTTCATATAA
1 TTACTTCATATAA
96452211 TTA
1 TTA
96452214 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:96453726 original size:19 final size:19
Alignment explanation
Indices: 96453702--96453739 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
96453692 GGTCGTCCAC
96453702 TCGGAGTCTTCAACGGCAG
1 TCGGAGTCTTCAACGGCAG
*
96453721 TCGGAGTTTTCAACGGCAG
1 TCGGAGTCTTCAACGGCAG
96453740 AAGGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.24
Consensus pattern (19 bp):
TCGGAGTCTTCAACGGCAG
Found at i:96453750 original size:19 final size:19
Alignment explanation
Indices: 96453704--96453744 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
96453694 TCGTCCACTC
* **
96453704 GGAGTCTTCAACGGCAGTC
1 GGAGTTTTCAACGGCAGAA
96453723 GGAGTTTTCAACGGCAGAA
1 GGAGTTTTCAACGGCAGAA
96453742 GGA
1 GGA
96453745 TATTTCGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.34, T:0.20
Consensus pattern (19 bp):
GGAGTTTTCAACGGCAGAA
Found at i:96453785 original size:20 final size:20
Alignment explanation
Indices: 96453757--96453808 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
96453747 TTTCGATTTT
96453757 GATTTGGGGAAATA-TGTAGG
1 GATTTGGGGAAATAGT-TAGG
*
96453777 GATTAGGGGAAA-AGTTAGG
1 GATTTGGGGAAATAGTTAGG
96453796 GATTTGGGGAAAT
1 GATTTGGGGAAAT
96453809 TTGGGTGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.33, C:0.00, G:0.40, T:0.27
Consensus pattern (20 bp):
GATTTGGGGAAATAGTTAGG
Found at i:96454716 original size:26 final size:26
Alignment explanation
Indices: 96454679--96454762 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
96454669 TGATACAAAT
* *
96454679 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
96454705 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
96454731 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
96454757 TGATAA
1 TGATAA
96454763 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:96458892 original size:41 final size:41
Alignment explanation
Indices: 96458731--96458903 Score: 219
Period size: 41 Copynumber: 4.2 Consensus size: 41
96458721 AACCTTTTGT
* *
96458731 GGCG-TTTGGA-ACAAAAGCGCCACTA-TGTCTCAGTTTTTTTGT
1 GGCGTTTTGGATA-AAAA-CGCCACTATTG-CTCAG-TTTTTAGC
* * *
96458773 GGTGTTTT-GAAAAAAACGCCACTATTTCTCAGTTTTTAGC
1 GGCGTTTTGGATAAAAACGCCACTATTGCTCAGTTTTTAGC
96458813 GGCGTTTTGGATAAAAACGCCACTATTGCTCAGTTTTTAGC
1 GGCGTTTTGGATAAAAACGCCACTATTGCTCAGTTTTTAGC
* *
96458854 GGCGTTTTGGATAAAAATGCCATTATTGCTCAGTTTTTAGC
1 GGCGTTTTGGATAAAAACGCCACTATTGCTCAGTTTTTAGC
96458895 GGCGTTTTG
1 GGCGTTTTG
96458904 TTTCAAACGC
Statistics
Matches: 118, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
40 13 0.11
41 91 0.77
42 10 0.08
43 4 0.03
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (41 bp):
GGCGTTTTGGATAAAAACGCCACTATTGCTCAGTTTTTAGC
Found at i:96460341 original size:24 final size:26
Alignment explanation
Indices: 96460302--96460354 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
96460292 CCAAACACAT
*
96460302 TTAAAAAATTACAATTATT-T-ATAA
1 TTAAAAAACTACAATTATTATGATAA
*
96460326 TTAAAAAACTATAATTATTATGATAA
1 TTAAAAAACTACAATTATTATGATAA
96460352 TTA
1 TTA
96460355 TTATATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 17 0.68
25 1 0.04
26 7 0.28
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (26 bp):
TTAAAAAACTACAATTATTATGATAA
Found at i:96460988 original size:16 final size:16
Alignment explanation
Indices: 96460969--96461005 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
96460959 AATATGATTG
96460969 TAATTGAATAGAGCTA
1 TAATTGAATAGAGCTA
* *
96460985 TAATGGAATAGAGCTG
1 TAATTGAATAGAGCTA
96461001 TAATT
1 TAATT
96461006 AGTAATTCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (16 bp):
TAATTGAATAGAGCTA
Found at i:96461334 original size:58 final size:57
Alignment explanation
Indices: 96461173--96461310 Score: 168
Period size: 60 Copynumber: 2.4 Consensus size: 57
96461163 TGTTATTAAG
* * * * * * * *
96461173 TTTTAATAAAATTATTGTTAAATATATTTTAATAAAAATAATAAAAATAATTTAATCATA
1 TTTTAATATAATTATTATTAAATACAATTTAAT-AAAATAAT--ATACAATTTAATAACA
96461233 TTTTAATATAATTATTATTAAATACAATTTAATAAAATAATATACAATTTAATAACA
1 TTTTAATATAATTATTATTAAATACAATTTAATAAAATAATATACAATTTAATAACA
96461290 TTCTTAATATAATTATTATTA
1 TT-TTAATATAATTATTATTA
96461311 TATGAATTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
57 14 0.20
58 18 0.26
59 8 0.12
60 29 0.42
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.45
Consensus pattern (57 bp):
TTTTAATATAATTATTATTAAATACAATTTAATAAAATAATATACAATTTAATAACA
Found at i:96461830 original size:15 final size:15
Alignment explanation
Indices: 96461810--96461843 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
96461800 TAAGAAAGCC
96461810 TCTAGAGAACCCTTA
1 TCTAGAGAACCCTTA
96461825 TCTAGAGAACCCTTA
1 TCTAGAGAACCCTTA
96461840 TCTA
1 TCTA
96461844 TGTACTGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.29
Consensus pattern (15 bp):
TCTAGAGAACCCTTA
Found at i:96469189 original size:19 final size:21
Alignment explanation
Indices: 96469157--96469197 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
96469147 TAGAAAGAAT
96469157 ATAAAAGATAATATATAATAA
1 ATAAAAGATAATATATAATAA
96469178 ATAAAA-AT-ATATATAATAA
1 ATAAAAGATAATATATAATAA
96469197 A
1 A
96469198 ATAACTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.60
20 2 0.10
21 6 0.30
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
ATAAAAGATAATATATAATAA
Found at i:96469195 original size:15 final size:17
Alignment explanation
Indices: 96469166--96469198 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
96469156 TATAAAAGAT
96469166 AATATATAATAAATAAA
1 AATATATAATAAATAAA
96469183 AATATAT-AT-AATAAA
1 AATATATAATAAATAAA
96469198 A
1 A
96469199 TAACTTGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AATATATAATAAATAAA
Found at i:96471442 original size:46 final size:46
Alignment explanation
Indices: 96471389--96471571 Score: 294
Period size: 46 Copynumber: 4.0 Consensus size: 46
96471379 TATATATACA
* * * *
96471389 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
96471435 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
96471481 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
96471527 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
96471572 ATACACTTCC
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:96471636 original size:47 final size:47
Alignment explanation
Indices: 96471545--96471643 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 47
96471535 ACACATTTCG
* *
96471545 CATTAGCCATTCGGCTTTACCACATATATACACTTCCACGTTCATCA
1 CATTAGCCATTCGGCCTTACCACATATATACACTTCCACATTCATCA
* * * * *
96471592 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCATATTCATCA
1 CATTAGCCATTCGGCCTTACCACATATATACACT-TCCACATTCATCA
96471639 CATTA
1 CATTA
96471644 AATCCTAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
46 1 0.02
47 42 0.98
ACGTcount: A:0.27, C:0.28, G:0.10, T:0.34
Consensus pattern (47 bp):
CATTAGCCATTCGGCCTTACCACATATATACACTTCCACATTCATCA
Found at i:96481367 original size:34 final size:34
Alignment explanation
Indices: 96481290--96481377 Score: 104
Period size: 34 Copynumber: 2.6 Consensus size: 34
96481280 TAGCTATAAA
* *
96481290 AAAATTAAATAAAAATATTTTATTTTTATTTTTTC
1 AAAATTAAA-AAATATATTTTATTTCTATTTTTTC
*** * *
96481325 ATTTTTAAAAAATATTTTTTATTTCTATTTTTTG
1 AAAATTAAAAAATATATTTTATTTCTATTTTTTC
96481359 AAAATTAAAAAATATATTT
1 AAAATTAAAAAATATATTT
96481378 AGCAAACAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
34 36 0.86
35 6 0.14
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (34 bp):
AAAATTAAAAAATATATTTTATTTCTATTTTTTC
Found at i:96488089 original size:19 final size:19
Alignment explanation
Indices: 96488065--96488109 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
96488055 TGCCTCTTTT
*
96488065 TGCATT-CATTTCATTCATC
1 TGCATTACATTTCA-TCATA
96488084 TGCATTACATTTCATCATA
1 TGCATTACATTTCATCATA
96488103 TGCATTA
1 TGCATTA
96488110 AGCTTCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (19 bp):
TGCATTACATTTCATCATA
Found at i:96494199 original size:6 final size:6
Alignment explanation
Indices: 96494188--96494227 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
96494178 GAATGATAAG
*
96494188 AAAAAT AAAAAT AAAAAT AAAAAT AATTAA- AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT AAAAAT AAAA
96494228 TATGAGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 2 0.07
6 26 0.87
7 2 0.07
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:96495730 original size:22 final size:22
Alignment explanation
Indices: 96495704--96495745 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
96495694 GTCGTCCTAG
96495704 AATCAAAGGCACATCACTATAA
1 AATCAAAGGCACATCACTATAA
*
96495726 AATCAAAGGCACGTCACTAT
1 AATCAAAGGCACATCACTAT
96495746 CTTCTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.24, G:0.12, T:0.19
Consensus pattern (22 bp):
AATCAAAGGCACATCACTATAA
Found at i:96505566 original size:24 final size:24
Alignment explanation
Indices: 96505534--96505581 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
96505524 GGGAAAATGA
*
96505534 TTGAGACTTATAAAGATTGGCATG
1 TTGAGACTTATAAAGAATGGCATG
96505558 TTGAGACTTATAAAGAATGGCATG
1 TTGAGACTTATAAAGAATGGCATG
96505582 AGAAGTTACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.31
Consensus pattern (24 bp):
TTGAGACTTATAAAGAATGGCATG
Found at i:96507096 original size:44 final size:43
Alignment explanation
Indices: 96506971--96507097 Score: 155
Period size: 44 Copynumber: 2.9 Consensus size: 43
96506961 CATCGTGGCG
* * * *
96506971 AATCTTATCTCCTTGGAGTTACAGTAGAGCAGATTAAAGCCAA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCAA
* * **
96507014 ATATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTATA
1 A-ATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCA-A
*
96507059 AATCTTAGCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG
96507098 ATAGCGAATC
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
43 1 0.01
44 68 0.96
45 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCCAA
Found at i:96507125 original size:45 final size:44
Alignment explanation
Indices: 96507023--96507148 Score: 126
Period size: 44 Copynumber: 2.8 Consensus size: 44
96507013 AATATCTTAT
* * * *
96507023 CTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTATAAATCTTAG
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTCAG
* * *
96507067 CTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTCAT
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATCTCAG
* * * * * *
96507112 TTCCCTAAAGTTGCAGTAGAACAGATTAAAGCTACAA
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAA
96507149 GTCACAAATC
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
44 33 0.50
45 33 0.50
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATCTCAG
Found at i:96507268 original size:44 final size:44
Alignment explanation
Indices: 96507205--96507364 Score: 155
Period size: 44 Copynumber: 3.6 Consensus size: 44
96507195 TACCATGGTA
* * *
96507205 AATCTCATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCCACT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACT
** * *
96507249 AATCTTATCTCCCTAAAGTTATAGTGGAGCATATTGAAGCCACA
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * *
96507293 AATCTTATCTCCTTGAAA-TTGCAGTGGAACAGACTGAAG--ATGT
1 AATCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTGAAGCCA-CT
* *
96507336 GAATCTTATTTCCCTACAGTTGCAGTGGA
1 -AATCTTATCTCCCTAAAGTTGCAGTGGA
96507365 ATAGATTAAA
Statistics
Matches: 94, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 88 0.94
45 3 0.03
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACT
Found at i:96509203 original size:16 final size:15
Alignment explanation
Indices: 96509178--96509210 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
96509168 ATTGTTATCA
96509178 TTGTTATTATTTATT
1 TTGTTATTATTTATT
96509193 TTGTTATTTATTTATT
1 TTGTTA-TTATTTATT
96509209 TT
1 TT
96509211 TGATTGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (15 bp):
TTGTTATTATTTATT
Found at i:96511885 original size:3 final size:3
Alignment explanation
Indices: 96511836--96511866 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
96511826 TCACGGTAAG
96511836 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
96511867 ACTGCTGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Done.