Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 436 of 444
Found at i:126290348 original size:17 final size:18
Alignment explanation
Indices: 126290309--126290350 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
126290299 GTTGAACTAA
126290309 ATCAATTATTTTTTTTGT
1 ATCAATTATTTTTTTTGT
*
126290327 TTCAATT-TTTGTTTTT-T
1 ATCAATTATTT-TTTTTGT
126290344 ATCAATT
1 ATCAATT
126290351 CCGAGCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (18 bp):
ATCAATTATTTTTTTTGT
Found at i:126292508 original size:14 final size:16
Alignment explanation
Indices: 126292473--126292540 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 16
126292463 CAGGCGCGAC
126292473 ATATTATTTTATTAATA
1 ATATT-TTTTATTAATA
126292490 A-ATTTTTT-TTAA-A
1 ATATTTTTTATTAATA
126292503 ATATTTTATTATT-AT-
1 ATATTTT-TTATTAATA
*
126292518 -TA-TTTTTATT-ATT
1 ATATTTTTTATTAATA
126292531 ATATTTTTTA
1 ATATTTTTTA
126292541 AAAAAAATCG
Statistics
Matches: 44, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
12 7 0.16
13 5 0.11
14 13 0.30
15 13 0.30
16 5 0.11
17 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATATTTTTTATTAATA
Found at i:126292526 original size:15 final size:14
Alignment explanation
Indices: 126292479--126292538 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
126292469 CGACATATTA
* *
126292479 TTTTATTAATAAAT
1 TTTTATTATTATAT
* **
126292493 TTTTTTTAAAATA-
1 TTTTATTATTATAT
126292506 TTTTATTATTATTAT
1 TTTTATTATTA-TAT
126292521 TTTTATTATTATAT
1 TTTTATTATTATAT
126292535 TTTT
1 TTTT
126292539 TAAAAAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
13 8 0.21
14 19 0.50
15 11 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTATTATTATAT
Found at i:126292540 original size:15 final size:15
Alignment explanation
Indices: 126292506--126292538 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
126292496 TTTTAAAATA
126292506 TTTTATTATTATTAT
1 TTTTATTATTATTAT
126292521 TTTTATTATTA-TAT
1 TTTTATTATTATTAT
126292535 TTTT
1 TTTT
126292539 TAAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATTATTATTAT
Found at i:126292679 original size:16 final size:17
Alignment explanation
Indices: 126292658--126292689 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
126292648 CCTTTGTCTT
126292658 TTCTTTG-TTTGTTTTC
1 TTCTTTGTTTTGTTTTC
126292674 TTCTTTGTTTTGTTTT
1 TTCTTTGTTTTGTTTT
126292690 TGGTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.00, C:0.09, G:0.12, T:0.78
Consensus pattern (17 bp):
TTCTTTGTTTTGTTTTC
Found at i:126297453 original size:32 final size:32
Alignment explanation
Indices: 126297412--126297497 Score: 136
Period size: 32 Copynumber: 2.7 Consensus size: 32
126297402 ATGAACTCGA
126297412 GCCGGGGGAGTAGAGAACGGCGCTGGATACGG
1 GCCGGGGGAGTAGAGAACGGCGCTGGATACGG
* *
126297444 GCCGGGGGAGTAGAGAACGACGCTGGATATGG
1 GCCGGGGGAGTAGAGAACGGCGCTGGATACGG
*
126297476 GCCAGGGGGAGAAGAGAACGGC
1 GCC-GGGGGAGTAGAGAACGGC
126297498 TACGGATACG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 33 0.67
33 16 0.33
ACGTcount: A:0.26, C:0.17, G:0.49, T:0.08
Consensus pattern (32 bp):
GCCGGGGGAGTAGAGAACGGCGCTGGATACGG
Found at i:126297505 original size:33 final size:31
Alignment explanation
Indices: 126297412--126297508 Score: 115
Period size: 32 Copynumber: 3.0 Consensus size: 31
126297402 ATGAACTCGA
*
126297412 GCCGGGGGAGTAGAGAACGGCGCTGGATACGG
1 GCCGGGGGAGTAGAGAACGGCTC-GGATACGG
*
126297444 GCCGGGGGAGTAGAGAACGACGCT-GGATATGG
1 GCCGGGGGAGTAGAGAACG--GCTCGGATACGG
*
126297476 GCCAGGGGGAGAAGAGAACGGCTACGGATACGG
1 GCC-GGGGGAGTAGAGAACGGCT-CGGATACGG
126297509 CTCTGGAGGA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
31 3 0.05
32 29 0.52
33 22 0.39
34 2 0.04
ACGTcount: A:0.26, C:0.18, G:0.47, T:0.09
Consensus pattern (31 bp):
GCCGGGGGAGTAGAGAACGGCTCGGATACGG
Found at i:126297552 original size:33 final size:33
Alignment explanation
Indices: 126297515--126297637 Score: 165
Period size: 33 Copynumber: 3.7 Consensus size: 33
126297505 ACGGCTCTGG
** * *
126297515 AGGAGCAGAGTACGACGGTGGATATGAGCCAGC
1 AGGAGCAGAGTACGGTGGTGGATATGAGCCGGA
*
126297548 AGGAGTAGAGTACGGTGGTGGATATGAGCCGGA
1 AGGAGCAGAGTACGGTGGTGGATATGAGCCGGA
* * *
126297581 AGGAGCGGAGTACGGTGGTGGATAGGAACCGGA
1 AGGAGCAGAGTACGGTGGTGGATATGAGCCGGA
*
126297614 AGGAGCGGAGTACGGTGGTGGATA
1 AGGAGCAGAGTACGGTGGTGGATA
126297638 GGAGGTAGAA
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 81 1.00
ACGTcount: A:0.28, C:0.12, G:0.46, T:0.15
Consensus pattern (33 bp):
AGGAGCAGAGTACGGTGGTGGATATGAGCCGGA
Found at i:126297571 original size:66 final size:64
Alignment explanation
Indices: 126297418--126297637 Score: 163
Period size: 66 Copynumber: 3.4 Consensus size: 64
126297408 TCGAGCCGGG
* * * * * * * **
126297418 GGAGTAGAGAACGGCGCTGGATACGGGCCGGGGGAGTAGAGAACGACGCTGGATATGGGCCAGGG
1 GGAGTAGAGAACGGTGGTGGATAC-GGCCGGAGGAGCAGAGTACGACGGTGGATATGAGCCAGAA
* **
126297483 GGAGAAGAGAACGGCT-ACGGATACGGCTCTGGAGGAGCAGAGTACGACGGTGGATATGAGCCAG
1 GGAGTAGAGAACGG-TGGTGGATACGGC-C-GGAGGAGCAGAGTACGACGGTGGATATGAGCCAG
*
126297547 CA
63 AA
* * * ** * * *
126297549 GGAGTAGAGTACGGTGGTGGATATGAGCCGGAAGGAGCGGAGTACGGTGGTGGATAGGAACCGGA
1 GGAGTAGAGAACGGTGGTGGATACG-GCCGG-AGGAGCAGAGTACGACGGTGGATATGAGCCAGA
126297614 A
64 A
** *
126297615 GGAGCGGAGTACGGTGGTGGATA
1 GGAGTAGAGAACGGTGGTGGATA
126297638 GGAGGTAGAA
Statistics
Matches: 124, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
64 3 0.02
65 23 0.19
66 96 0.77
67 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.45, T:0.13
Consensus pattern (64 bp):
GGAGTAGAGAACGGTGGTGGATACGGCCGGAGGAGCAGAGTACGACGGTGGATATGAGCCAGAA
Found at i:126297792 original size:12 final size:12
Alignment explanation
Indices: 126297775--126297835 Score: 77
Period size: 12 Copynumber: 5.1 Consensus size: 12
126297765 CCGGAGTGTA
*
126297775 GCTCCGGATCTG
1 GCTCCGGCTCTG
126297787 GCTCCGGCTCTG
1 GCTCCGGCTCTG
*
126297799 GCTCCGGCTCCG
1 GCTCCGGCTCTG
*
126297811 GCTCCGGCTCTA
1 GCTCCGGCTCTG
* *
126297823 CCTCCGGCGCTG
1 GCTCCGGCTCTG
126297835 G
1 G
126297836 TGCATGATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.03, C:0.43, G:0.33, T:0.21
Consensus pattern (12 bp):
GCTCCGGCTCTG
Found at i:126297801 original size:6 final size:6
Alignment explanation
Indices: 126297775--126297820 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
126297765 CCGGAGTGTA
* * *
126297775 GCTCCG GATCTG GCTCCG GCTCTG GCTCCG GCTCCG GCTCCG GCTC
1 GCTCCG GCTCCG GCTCCG GCTCCG GCTCCG GCTCCG GCTCCG GCTC
126297821 TACCTCCGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.02, C:0.43, G:0.33, T:0.22
Consensus pattern (6 bp):
GCTCCG
Found at i:126300061 original size:297 final size:297
Alignment explanation
Indices: 126299399--126300707 Score: 2327
Period size: 297 Copynumber: 4.4 Consensus size: 297
126299389 AATCTGCAAT
126299399 TAAAATTATATAACAACAAATTTAATCAAAATTTTAATCAATCAATAAAAATTATCAAATAAATA
1 TAAAATTATATAACAACAAATTTAATCAAAATTTTAATCAATCAATAAAAATTATCAAATAAATA
* * * * * * * *
126299464 ATTCAATAAATTTATATAACCTAATCATTTTTTTAAAA-TACCTTATCCAGAATATCACAATACA
66 ATTCAATAAA--T-TA-AA-TTTA-CATTATATAAAAATTACATTA---A-AAAATCACACTACA
* *
126299528 CTAATACACTACTAAAAAATAATTTTATTGCACAACCATTTTGAAAATTAATTTTATAATTCCCC
121 CTAATACACTAATAAAAAATAATTTTATTGCACAACCATTTTAAAAATTAATTTTATAATTCCCC
126299593 ATCATTTATATACAATAAAAAATAAATATAAATTATCTAAAGATT-AAAAACATATGAATTAAAA
186 ATCATTTATATACAATAAAAAATAAATATAAATTATCTAAAGATTAAAAAACATATGAATTAAAA
* **
126299657 ATAATTGAAATTGAAACATACCTGAA-TAGTTTCTTTCACACAACCTA
251 ATAATTGAAATTGAAACATTCCT-AAGTAGTTTCTTTCACGTAACCTA
*
126299704 TAAAATTATATAATAACAAATTTAATCAAAATTTTAATCAATCAATAAAAATTATCAAATAAATA
1 TAAAATTATATAACAACAAATTTAATCAAAATTTTAATCAATCAATAAAAATTATCAAATAAATA
* *
126299769 ATTAAATAAATTAAATTTACATTATATAAAAATTACATTAAAAAATCACATTACACTAATACACT
66 ATTCAATAAATTAAATTTACATTATATAAAAATTACATTAAAAAATCACACTACACTAATACACT
126299834 AATAAAAAATAATTTTATTGCACAACCATTTTAAAAATTAATTTTATAATTCCCCATCATTTATA
131 AATAAAAAATAATTTTATTGCACAACCATTTTAAAAATTAATTTTATAATTCCCCATCATTTATA
126299899 TACAATAAAAAATAAATATAAATTATCTAAAGATTAAAAAACATATGAATTAAAAATAATTGAAA
196 TACAATAAAAAATAAATATAAATTATCTAAAGATTAAAAAACATATGAATTAAAAATAATTGAAA
126299964 TTGAAACATTCCTAAGTAGTTTCTTTCACGTAACCTA
261 TTGAAACATTCCTAAGTAGTTTCTTTCACGTAACCTA
126300001 TAAAATTATATAACAACAAATTTAATCAAAATTTTAATCAATCAATAAAAATTATCAAATAAATA
1 TAAAATTATATAACAACAAATTTAATCAAAATTTTAATCAATCAATAAAAATTATCAAATAAATA
*
126300066 ATTAAATAAATTAAATTTACATTATATAAAAATTACATTAAAAAATCACACTACACTAATACACT
66 ATTCAATAAATTAAATTTACATTATATAAAAATTACATTAAAAAATCACACTACACTAATACACT
126300131 AATAAAAAATAATTTTATTGCACAACCATTTTAAAAATTAATTTTATAATTCCCCATCATTTATA
131 AATAAAAAATAATTTTATTGCACAACCATTTTAAAAATTAATTTTATAATTCCCCATCATTTATA
*
126300196 TACAATAATAAATAAATATAAATTATCTAAAGATTAAAAAACATATGAATTAAAAATAATTGAAA
196 TACAATAAAAAATAAATATAAATTATCTAAAGATTAAAAAACATATGAATTAAAAATAATTGAAA
126300261 TTGAAACATTCCTAAGTAGTTTCTTTCACGTAACCTA
261 TTGAAACATTCCTAAGTAGTTTCTTTCACGTAACCTA
126300298 TAAAATTATATAACAACAAATTTAATCAAAATTTTAATCAATCAATAAAAATTATCAAATAAATA
1 TAAAATTATATAACAACAAATTTAATCAAAATTTTAATCAATCAATAAAAATTATCAAATAAATA
126300363 ATTCAATAAATTAAATTTACATTATATAAAAATTACATTAAAAAATCACACTACACTAATACACT
66 ATTCAATAAATTAAATTTACATTATATAAAAATTACATTAAAAAATCACACTACACTAATACACT
126300428 AATAAAAAATAATTTTATTGCACAACCATTTTAAAAATTAATTTTATAATTCCCCATCATTTATA
131 AATAAAAAATAATTTTATTGCACAACCATTTTAAAAATTAATTTTATAATTCCCCATCATTTATA
126300493 TACAATAAAAAATAAATATAAATTATCTAAAGATTAAAAAACATATGAATTAAAAATAATTGAAA
196 TACAATAAAAAATAAATATAAATTATCTAAAGATTAAAAAACATATGAATTAAAAATAATTGAAA
*
126300558 TTGAAACATTCCTAAATAGTTTCTTTCACGTAACCTA
261 TTGAAACATTCCTAAGTAGTTTCTTTCACGTAACCTA
126300595 TAAAATTATATAACAACAAATTTAATCAAAATTTTAATCAATCAATAAAAATTATCAAATAAATA
1 TAAAATTATATAACAACAAATTTAATCAAAATTTTAATCAATCAATAAAAATTATCAAATAAATA
126300660 ATTCAATAAATTAAATTTACATTATATAAAAATTACATTAAAAAATCA
66 ATTCAATAAATTAAATTTACATTATATAAAAATTACATTAAAAAATCA
126300708 TAAAACACTA
Statistics
Matches: 980, Mismatches: 21, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
296 122 0.12
297 762 0.78
299 10 0.01
300 8 0.01
301 2 0.00
302 2 0.00
303 1 0.00
305 73 0.07
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (297 bp):
TAAAATTATATAACAACAAATTTAATCAAAATTTTAATCAATCAATAAAAATTATCAAATAAATA
ATTCAATAAATTAAATTTACATTATATAAAAATTACATTAAAAAATCACACTACACTAATACACT
AATAAAAAATAATTTTATTGCACAACCATTTTAAAAATTAATTTTATAATTCCCCATCATTTATA
TACAATAAAAAATAAATATAAATTATCTAAAGATTAAAAAACATATGAATTAAAAATAATTGAAA
TTGAAACATTCCTAAGTAGTTTCTTTCACGTAACCTA
Found at i:126301164 original size:17 final size:16
Alignment explanation
Indices: 126301142--126301188 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
126301132 AAAAATTTAT
126301142 CAAATAATTCTAAATTA
1 CAAATAATT-TAAATTA
*
126301159 CAAATAATTTAATTTTA
1 CAAATAATTTAA-ATTA
126301176 -AAATAATTATAAA
1 CAAATAATT-TAAA
126301189 AATTTAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
CAAATAATTTAAATTA
Found at i:126301218 original size:3 final size:3
Alignment explanation
Indices: 126301212--126301247 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
126301202 TTTTTTTTAT
126301212 TTC TTC TTC TTTC TTC TTC TTCC TTC TTC TTC TTC T
1 TTC TTC TTC -TTC TTC TTC TT-C TTC TTC TTC TTC T
126301248 CTTTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 25 0.81
4 6 0.19
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:126301226 original size:10 final size:10
Alignment explanation
Indices: 126301211--126301251 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
126301201 CTTTTTTTTA
126301211 TTTCTTCTTC
1 TTTCTTCTTC
126301221 TTTCTTCTTC
1 TTTCTTCTTC
*
126301231 TTCCTTCTTC
1 TTTCTTCTTC
126301241 -TTCTTC-TC
1 TTTCTTCTTC
126301249 TTT
1 TTT
126301252 TTTTTTCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 2 0.07
9 7 0.25
10 19 0.68
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTCTTCTTC
Found at i:126301230 original size:13 final size:13
Alignment explanation
Indices: 126301212--126301247 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
126301202 TTTTTTTTAT
126301212 TTCTTCTTCTTTC
1 TTCTTCTTCTTTC
*
126301225 TTCTTCTTCCTTC
1 TTCTTCTTCTTTC
126301238 TTCTTCTTCT
1 TTCTTCTTCT
126301248 CTTTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (13 bp):
TTCTTCTTCTTTC
Found at i:126301514 original size:15 final size:16
Alignment explanation
Indices: 126301488--126301522 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
126301478 GATTTTTAAA
126301488 AAAAATATATAATAAT
1 AAAAATATATAATAAT
126301504 AAAAATA-ATAATAAT
1 AAAAATATATAATAAT
126301519 AAAA
1 AAAA
126301523 TATTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAATATATAATAAT
Found at i:126301530 original size:24 final size:24
Alignment explanation
Indices: 126301503--126301548 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
126301493 TATATAATAA
126301503 TAAAAATAA-TAATAATAAAATATT
1 TAAAAA-AATTAATAATAAAATATT
*
126301527 TAAAAAAATTATTAATAAAATA
1 TAAAAAAATTAATAATAAAATA
126301549 ATATGTCGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
TAAAAAAATTAATAATAAAATATT
Found at i:126306645 original size:31 final size:31
Alignment explanation
Indices: 126306610--126306670 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
126306600 GTAGTTATTA
*
126306610 AATTATTCAAAAATTTTTATTGAAGTCATTG
1 AATTATCCAAAAATTTTTATTGAAGTCATTG
** * *
126306641 AATTATCCACTAGTTTTTATTTAAGTCATT
1 AATTATCCAAAAATTTTTATTGAAGTCATT
126306671 AGATTGTTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (31 bp):
AATTATCCAAAAATTTTTATTGAAGTCATTG
Found at i:126314918 original size:24 final size:24
Alignment explanation
Indices: 126314891--126314939 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
126314881 AAGGCTGACG
*
126314891 AAATACAACAACTATCTCCTCCTA
1 AAATACAACAACTATCTCCTACTA
126314915 AAATACAACAACTATCTCCTACTA
1 AAATACAACAACTATCTCCTACTA
126314939 A
1 A
126314940 TTTTGTTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (24 bp):
AAATACAACAACTATCTCCTACTA
Found at i:126319056 original size:13 final size:13
Alignment explanation
Indices: 126319038--126319063 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
126319028 AAAGATAGTT
126319038 TAATTATATGTTA
1 TAATTATATGTTA
126319051 TAATTATATGTTA
1 TAATTATATGTTA
126319064 ATTTAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TAATTATATGTTA
Found at i:126321374 original size:14 final size:14
Alignment explanation
Indices: 126321355--126321398 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
126321345 CTTTGAAAAT
*
126321355 AAAAAAGAAGAAGC
1 AAAAAAGAAGAAGA
*
126321369 AAAAAAGAAAAAGA
1 AAAAAAGAAGAAGA
*
126321383 AAAGAAACAAGAAGA
1 AAA-AAAGAAGAAGA
126321398 A
1 A
126321399 GAGTGAAGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.77, C:0.05, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAGAAGA
Found at i:126324490 original size:21 final size:23
Alignment explanation
Indices: 126324466--126324518 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
126324456 ATATAATATT
126324466 TAAATATAATTTAA-AT-AAAAA
1 TAAATATAATTTAATATAAAAAA
* *
126324487 TAAAAAATATTTTAATATAAAAAA
1 T-AAATATAATTTAATATAAAAAA
*
126324511 TAATTATA
1 TAAATATA
126324519 TTAAGAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 11 0.44
23 7 0.28
24 6 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAATATAATTTAATATAAAAAA
Found at i:126324512 original size:30 final size:29
Alignment explanation
Indices: 126324433--126324513 Score: 81
Period size: 32 Copynumber: 2.7 Consensus size: 29
126324423 AGTCTTTAAA
* * *
126324433 ATTTAAATTTAAAAAATATAAAAATATAAT
1 ATTTAAATATAAAAAATA-AAAAAAAAAAT
*
126324463 ATTTAAATATAATTTAAATAAAAATAAAAAAT
1 ATTTAAATATAA--AAAATAAAAA-AAAAAAT
*
126324495 ATTTTAATATAAAAAATAA
1 ATTTAAATATAAAAAATAA
126324514 TTATATTAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
30 17 0.40
31 4 0.10
32 21 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
ATTTAAATATAAAAAATAAAAAAAAAAAT
Found at i:126326408 original size:25 final size:26
Alignment explanation
Indices: 126326380--126326432 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
126326370 ATTGTTCTCT
* * *
126326380 AATTTGATAAAAAT-TGAAATTTAAA
1 AATTTGAAAAAAATATAAAAATTAAA
*
126326405 AATTTTAAAAAAATATAAAAATTAAA
1 AATTTGAAAAAAATATAAAAATTAAA
126326431 AA
1 AA
126326433 GATCAAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (26 bp):
AATTTGAAAAAAATATAAAAATTAAA
Found at i:126329246 original size:3 final size:3
Alignment explanation
Indices: 126329238--126329277 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
126329228 ATAATTTTTT
126329238 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
126329278 GGTGCTATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:126337158 original size:20 final size:19
Alignment explanation
Indices: 126337125--126337180 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
126337115 TGGAAAATAA
*
126337125 TAAAATAAATAAATAATACAT
1 TAAATTAAA-AAATAATAC-T
126337146 TAAATTAAAAAATAACT-CT
1 TAAATTAAAAAATAA-TACT
*
126337165 TAATTTAAAAAA-AATA
1 TAAATTAAAAAATAATA
126337181 AGCGTAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 1 0.03
18 2 0.06
19 12 0.39
20 7 0.23
21 9 0.29
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAATTAAAAAATAATACT
Found at i:126342914 original size:12 final size:12
Alignment explanation
Indices: 126342897--126342921 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
126342887 TAAAACTAAT
126342897 AAATTTAATAAA
1 AAATTTAATAAA
126342909 AAATTTAATAAA
1 AAATTTAATAAA
126342921 A
1 A
126342922 TTAATAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATTTAATAAA
Found at i:126352280 original size:23 final size:23
Alignment explanation
Indices: 126352231--126352280 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
126352221 TATAAGATCT
** *
126352231 TAAATTATATATTAAAATTTGAG
1 TAAATTATATATTAAAATTCAAA
126352254 TAAATATATATATTAAAA-TCAAA
1 TAAAT-TATATATTAAAATTCAAA
126352277 TAAA
1 TAAA
126352281 ATTTATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (23 bp):
TAAATTATATATTAAAATTCAAA
Found at i:126354537 original size:13 final size:13
Alignment explanation
Indices: 126354516--126354545 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
126354506 ATGTTTGATA
*
126354516 TTATTTTTTAATT
1 TTATCTTTTAATT
126354529 TTATCTTTTAATT
1 TTATCTTTTAATT
126354542 TTAT
1 TTAT
126354546 TTTGATTTTA
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:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (13 bp):
TTATCTTTTAATT
Found at i:126357696 original size:15 final size:15
Alignment explanation
Indices: 126357676--126357709 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
126357666 GAAAATTTAT
126357676 TAAACAATAAAAAA-A
1 TAAACAA-AAAAAACA
126357691 TAAACAAAAAAAACA
1 TAAACAAAAAAAACA
126357706 TAAA
1 TAAA
126357710 ACTTAAGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (15 bp):
TAAACAAAAAAAACA
Found at i:126359371 original size:14 final size:15
Alignment explanation
Indices: 126359341--126359380 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
126359331 TATATATATA
*
126359341 TTAGTTATTTATTTAT
1 TTAGTT-TTTATCTAT
126359357 TTA-TTTTTATCTAT
1 TTAGTTTTTATCTAT
126359371 TTAGTTTTTA
1 TTAGTTTTTA
126359381 AATTTGCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 11 0.50
15 8 0.36
16 3 0.14
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (15 bp):
TTAGTTTTTATCTAT
Found at i:126383923 original size:16 final size:17
Alignment explanation
Indices: 126383902--126383935 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
126383892 ATTAAAGAAC
*
126383902 AGAGAATAGA-AAAAGA
1 AGAGAAGAGATAAAAGA
126383918 AGAGAAGAGATAAAAGA
1 AGAGAAGAGATAAAAGA
126383935 A
1 A
126383936 AAGAGAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (17 bp):
AGAGAAGAGATAAAAGA
Found at i:126383923 original size:23 final size:24
Alignment explanation
Indices: 126383897--126383942 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
126383887 AGAATATTAA
*
126383897 AGAACAGAGAATAGAAAA-AGAAG
1 AGAACAGAGAAAAGAAAAGAGAAG
* *
126383920 AGAAGAGATAAAAGAAAAGAGAA
1 AGAACAGAGAAAAGAAAAGAGAA
126383943 TAATGAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.67, C:0.02, G:0.26, T:0.04
Consensus pattern (24 bp):
AGAACAGAGAAAAGAAAAGAGAAG
Found at i:126400796 original size:35 final size:32
Alignment explanation
Indices: 126400715--126400782 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
126400705 ACTTATAAAC
* * *
126400715 TAATTACTTAAATTTAATAACTTATTATTAAT
1 TAATTAATTCAATTTAATAACTTATTACTAAT
*
126400747 TAATTAATTCAATTTGATAACTTA-TACTAAT
1 TAATTAATTCAATTTAATAACTTATTACTAAT
126400778 TAATT
1 TAATT
126400783 GAACTTGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 11 0.34
32 21 0.66
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.49
Consensus pattern (32 bp):
TAATTAATTCAATTTAATAACTTATTACTAAT
Found at i:126408695 original size:3 final size:3
Alignment explanation
Indices: 126408687--126408739 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
126408677 AAAATCAATG
126408687 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
126408735 ATA AT
1 ATA AT
126408740 GGTTGATGAA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:126410478 original size:27 final size:27
Alignment explanation
Indices: 126410448--126410502 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
126410438 AATTGCAAAG
126410448 TGTCCCCTTTCAAAAAAATCAAAATAA
1 TGTCCCCTTTCAAAAAAATCAAAATAA
*
126410475 TGTCTCCTTTCAAAAAAATCAAAATAA
1 TGTCCCCTTTCAAAAAAATCAAAATAA
126410502 T
1 T
126410503 CTTCAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (27 bp):
TGTCCCCTTTCAAAAAAATCAAAATAA
Found at i:126411487 original size:3 final size:3
Alignment explanation
Indices: 126411479--126411521 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
126411469 ATATTGATGC
126411479 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
126411522 GAAACATGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:126413634 original size:21 final size:21
Alignment explanation
Indices: 126413610--126413679 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
126413600 GTCATTTGTG
126413610 TTTAATTAGTATTTATATTTC
1 TTTAATTAGTATTTATATTTC
* *
126413631 TTTAATT--TAATCTCAT-TTGTA
1 TTTAATTAGT-AT-TTATATT-TC
*
126413652 TTTAATTAGTATTTTTATTTC
1 TTTAATTAGTATTTATATTTC
126413673 TTTAATT
1 TTTAATT
126413680 TAATCACTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 28 0.74
22 4 0.11
23 1 0.03
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (21 bp):
TTTAATTAGTATTTATATTTC
Found at i:126413648 original size:42 final size:42
Alignment explanation
Indices: 126413601--126413684 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
126413591 TCAAACTTGG
*
126413601 TCATTTGTGTTTAATTAGTATTTATATTTCTTTAATTTAATC
1 TCATTTGTATTTAATTAGTATTTATATTTCTTTAATTTAATC
*
126413643 TCATTTGTATTTAATTAGTATTTTTATTTCTTTAATTTAATC
1 TCATTTGTATTTAATTAGTATTTATATTTCTTTAATTTAATC
126413685 ACTATTTAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.26, C:0.07, G:0.06, T:0.61
Consensus pattern (42 bp):
TCATTTGTATTTAATTAGTATTTATATTTCTTTAATTTAATC
Found at i:126413691 original size:37 final size:39
Alignment explanation
Indices: 126413610--126413693 Score: 109
Period size: 42 Copynumber: 2.1 Consensus size: 39
126413600 GTCATTTGTG
*
126413610 TTTAATTAGTATTTATATTTCTTTAATTTAATCTCATTTGTA
1 TTTAATTAGTATTTATATTTCTTTAATTTAA-CTCA--TCTA
*
126413652 TTTAATTAGTATTTTTATTTCTTTAATTTAA-TCA-CTA
1 TTTAATTAGTATTTATATTTCTTTAATTTAACTCATCTA
126413689 TTTAA
1 TTTAA
126413694 CTTAAAATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
37 7 0.17
40 3 0.08
42 30 0.75
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.60
Consensus pattern (39 bp):
TTTAATTAGTATTTATATTTCTTTAATTTAACTCATCTA
Found at i:126415803 original size:32 final size:32
Alignment explanation
Indices: 126415762--126415828 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
126415752 TACGTTCGAG
126415762 TAAGATTGGACCATGAATAAAACCTCTTTATC
1 TAAGATTGGACCATGAATAAAACCTCTTTATC
126415794 TAAGATTGGACCATGAATAAAACCTCTTTATC
1 TAAGATTGGACCATGAATAAAACCTCTTTATC
126415826 TAA
1 TAA
126415829 ACCCAACCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (32 bp):
TAAGATTGGACCATGAATAAAACCTCTTTATC
Found at i:126416874 original size:11 final size:11
Alignment explanation
Indices: 126416860--126416885 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
126416850 CAATAGCCAA
126416860 AAAATAAAAAT
1 AAAATAAAAAT
126416871 AAAATAAAAAT
1 AAAATAAAAAT
126416882 AAAA
1 AAAA
126416886 ACTCAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:126425622 original size:27 final size:27
Alignment explanation
Indices: 126425584--126425638 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
126425574 TTGCTACTGA
126425584 CAAATTTTCCCTTCTCCTTTAATTTAT
1 CAAATTTTCCCTTCTCCTTTAATTTAT
126425611 CAAATTTTCCCTTCTCCTTTAATTTAT
1 CAAATTTTCCCTTCTCCTTTAATTTAT
126425638 C
1 C
126425639 CCCTTTAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (27 bp):
CAAATTTTCCCTTCTCCTTTAATTTAT
Found at i:126429834 original size:13 final size:13
Alignment explanation
Indices: 126429802--126429839 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
126429792 AGATTGGAAC
*
126429802 AATAAAGAAGA-A
1 AATAAAAAAGATA
126429814 AATAAAAAAGATA
1 AATAAAAAAGATA
*
126429827 AATGAAAAAGATA
1 AATAAAAAAGATA
126429840 GAACGTGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (13 bp):
AATAAAAAAGATA
Found at i:126430159 original size:8 final size:8
Alignment explanation
Indices: 126430146--126430170 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
126430136 TAAAAATTTG
126430146 AAATAATA
1 AAATAATA
126430154 AAATAATA
1 AAATAATA
126430162 AAATAATA
1 AAATAATA
126430170 A
1 A
126430171 GAGTTGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:126430595 original size:24 final size:24
Alignment explanation
Indices: 126430563--126430623 Score: 97
Period size: 26 Copynumber: 2.5 Consensus size: 24
126430553 CCTCCCCAAA
126430563 AAAAAACCTAACAAAAAAAAAAAG
1 AAAAAACCTAACAAAAAAAAAAAG
126430587 AAAAAACCTAACCCAAAAAAAAAAAG
1 AAAAAACCTAA--CAAAAAAAAAAAG
126430613 -AAAAACCTAAC
1 AAAAAACCTAAC
126430624 CCCCTCCAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
23 1 0.03
24 11 0.31
25 10 0.29
26 13 0.37
ACGTcount: A:0.74, C:0.18, G:0.03, T:0.05
Consensus pattern (24 bp):
AAAAAACCTAACAAAAAAAAAAAG
Found at i:126430637 original size:26 final size:26
Alignment explanation
Indices: 126430563--126430625 Score: 105
Period size: 25 Copynumber: 2.5 Consensus size: 26
126430553 CCTCCCCAAA
126430563 AAAAAACCTAA--CAAAAAAAAAAAG
1 AAAAAACCTAACCCAAAAAAAAAAAG
126430587 AAAAAACCTAACCCAAAAAAAAAAAG
1 AAAAAACCTAACCCAAAAAAAAAAAG
126430613 -AAAAACCTAACCC
1 AAAAAACCTAACCC
126430626 CCTCCAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
24 11 0.30
25 13 0.35
26 13 0.35
ACGTcount: A:0.71, C:0.21, G:0.03, T:0.05
Consensus pattern (26 bp):
AAAAAACCTAACCCAAAAAAAAAAAG
Found at i:126441576 original size:71 final size:71
Alignment explanation
Indices: 126441477--126441620 Score: 218
Period size: 71 Copynumber: 2.0 Consensus size: 71
126441467 CTTTTCAAGG
* * *
126441477 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGT-
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTAAGGTATTTTCAATT-TC
126441541 TGTTTTC
65 TGTTTTC
* * *
126441548 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTAAGGTATTTTCAATTTCT
126441613 GTTTTC
66 GTTTTC
126441619 AA
1 AA
126441621 TTTACGTTGT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 1 0.02
71 65 0.98
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTAAGGTATTTTCAATTTCT
GTTTTC
Found at i:126441759 original size:13 final size:13
Alignment explanation
Indices: 126441741--126441774 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
126441731 CGCTGAGGTA
*
126441741 TTTTCAATTTCTG
1 TTTTCAATTTATG
126441754 TTTTCAATTTATG
1 TTTTCAATTTATG
126441767 TTGTTCAA
1 TT-TTCAA
126441775 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:126441773 original size:140 final size:140
Alignment explanation
Indices: 126441543--126441899 Score: 599
Period size: 140 Copynumber: 2.6 Consensus size: 140
126441533 TTAATTGTTG
* *
126441543 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAA
1 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAA
126441608 TTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTT
66 TTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTT
126441673 AATTTCTACT
131 AATTTCTACT
*
126441683 TTTTCAAAATCAGCTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAA
1 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAA
* *
126441748 TTTCTGTTTTCAATTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTT
66 TTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTT
126441813 AATTTCTACT
131 AATTTCTACT
** * * * * *
126441823 TTTTCAAAATCAGCTCATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTAAA
1 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAA
126441888 TTTCT-TTTTCAA
66 TTTCTGTTTTCAA
126441900 AAAATCAACT
Statistics
Matches: 204, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
139 7 0.03
140 197 0.97
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (140 bp):
TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAA
TTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTT
AATTTCTACT
Found at i:126442010 original size:72 final size:71
Alignment explanation
Indices: 126441821--126442010 Score: 233
Period size: 72 Copynumber: 2.7 Consensus size: 71
126441811 TTAATTTCTA
* ** * * * *
126441821 CTTTTTC--AAAATCAGCTCATATTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTT
1 CTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATT
126441884 TAAATTT
65 TAAATTT
*
126441891 CTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGACACGCTGAGGTAATTT
1 CTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTAATTT
*
126441956 CAATTT
66 AAATTT
* *
126441962 CTGTTTGTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGG
1 CT-TTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
126442011 CTCACATGCT
Statistics
Matches: 104, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
70 7 0.07
71 23 0.22
72 72 0.69
73 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (71 bp):
CTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTAATTT
AAATTT
Found at i:126442049 original size:14 final size:15
Alignment explanation
Indices: 126442024--126442065 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
126442014 ACATGCTGAG
*
126442024 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
126442039 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
126442053 GTTTTTTCAATTT
1 GTCTTTTCAATTT
126442066 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:126442061 original size:15 final size:14
Alignment explanation
Indices: 126442027--126442076 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
126442017 TGCTGAGGTC
126442027 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
126442040 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
126442054 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
126442069 TTTTTCAA
1 TTTTTCAA
126442077 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:126442149 original size:104 final size:104
Alignment explanation
Indices: 126441953--126442161 Score: 269
Period size: 104 Copynumber: 2.0 Consensus size: 104
126441943 GCTGAGGTAA
* * * ** *
126441953 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACAT
1 TTTCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGCTCACAT
* * ** *
126442018 GCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTGTTT
66 GCTGAGGTATTTTCAAAATCTGCTTTTCAAATTCTGTTT
*
126442057 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA
1 TTTCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCT-CAGCTCACA
*
126442121 TG-TCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTGTTT
65 TGCT-GAGGTATTTTCAAAATCTGCTTTTCAAATTCTGTTT
126442161 T
1 T
126442162 CAAAAATCAA
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
103 1 0.01
104 87 0.97
105 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (104 bp):
TTTCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGCTCACAT
GCTGAGGTATTTTCAAAATCTGCTTTTCAAATTCTGTTT
Found at i:126442150 original size:14 final size:13
Alignment explanation
Indices: 126442131--126442166 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
126442121 TGTCGAGGTA
126442131 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
126442144 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
126442158 TTTTCAAAA
1 TTTTCAAAA
126442167 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:126442232 original size:88 final size:89
Alignment explanation
Indices: 126442041--126442236 Score: 245
Period size: 88 Copynumber: 2.2 Consensus size: 89
126442031 TAATTTCTGC
* * *
126442041 TTTTCAATTTCTGTTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 TTTTCAATTTCTG-TTTTTCAAATTATAGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTT
*
126442106 GAACCTCCAGTCACATGTCGAGGTA
65 GAACCTCCAGTCACATGTCGAGCTA
** *
126442131 TTTTCAAAATCTGTTTTTCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTG
1 TTTTCAATTTCTGTTTTTCAAATTATAGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTG
* ** *
126442195 AGCCT-TGGCTCACGTG-CTGAGCTA
66 AACCTCCAG-TCACATGTC-GAGCTA
126442219 TTTTCAATTTCTGTTTTT
1 TTTTCAATTTCTGTTTTT
126442237 TTTTCAAAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
87 2 0.02
88 67 0.74
89 11 0.12
90 11 0.12
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (89 bp):
TTTTCAATTTCTGTTTTTCAAATTATAGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTG
AACCTCCAGTCACATGTCGAGCTA
Found at i:126442297 original size:30 final size:30
Alignment explanation
Indices: 126442261--126442322 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
126442251 CAACTCATAT
126442261 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
126442291 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
126442321 TG
1 TG
126442323 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:126443211 original size:23 final size:24
Alignment explanation
Indices: 126443152--126443211 Score: 106
Period size: 23 Copynumber: 2.6 Consensus size: 24
126443142 CTCCCCCCAA
126443152 AAAAAACCTAA-CCAAAAAAAAAG
1 AAAAAACCTAACCCAAAAAAAAAG
126443175 AAAAAACCTAACCCAAAAAAAAAG
1 AAAAAACCTAACCCAAAAAAAAAG
126443199 -AAAAACCTAACCC
1 AAAAAACCTAACCC
126443212 CCTCCAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 24 0.67
24 12 0.33
ACGTcount: A:0.68, C:0.23, G:0.03, T:0.05
Consensus pattern (24 bp):
AAAAAACCTAACCCAAAAAAAAAG
Found at i:126452403 original size:2 final size:2
Alignment explanation
Indices: 126452396--126452424 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
126452386 TTTAGGGCTT
126452396 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
126452425 CTTTTTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:126461910 original size:16 final size:16
Alignment explanation
Indices: 126461873--126461909 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
126461863 TTATAATTTG
126461873 ATTTTTAACATTGAAA
1 ATTTTTAACATTGAAA
*
126461889 ATTTTTAACA-TGATA
1 ATTTTTAACATTGAAA
126461904 ATTTTT
1 ATTTTT
126461910 TTTTATGTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (16 bp):
ATTTTTAACATTGAAA
Found at i:126462906 original size:11 final size:11
Alignment explanation
Indices: 126462882--126462926 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
126462872 TTCTAATACG
*
126462882 TATATATATAT
1 TATATATATTT
*
126462893 TATATGTATTT
1 TATATATATTT
*
126462904 TATATATATTA
1 TATATATATTT
*
126462915 TGTATATATTT
1 TATATATATTT
126462926 T
1 T
126462927 TTTAATGCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TATATATATTT
Found at i:126463281 original size:3 final size:3
Alignment explanation
Indices: 126463236--126463267 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
126463226 TTATTGTAGA
126463236 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
126463268 CATACTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:126465791 original size:24 final size:24
Alignment explanation
Indices: 126465748--126465797 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
126465738 TTCCTTTCTT
*
126465748 TTGCATTCATTCCATACATTTGCA
1 TTGCATTCATTCCATACATTGGCA
*
126465772 TTGCATTGCATTGCAT-CATTGGCA
1 TTGCATT-CATTCCATACATTGGCA
126465796 TT
1 TT
126465798 AAACTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (24 bp):
TTGCATTCATTCCATACATTGGCA
Found at i:126468698 original size:46 final size:45
Alignment explanation
Indices: 126468638--126468903 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 45
126468628 TTTGACATGA
* * * * * *
126468638 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
126468684 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
126468730 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
126468776 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
126468822 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
126468860 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
126468904 AGAGCACACT
Statistics
Matches: 197, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:126468867 original size:38 final size:38
Alignment explanation
Indices: 126468816--126468891 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
126468806 ACATTTTATA
126468816 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
126468854 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
126468892 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:126471054 original size:11 final size:11
Alignment explanation
Indices: 126471038--126471089 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
126471028 TATACTAAAT
126471038 AAATAATAATA
1 AAATAATAATA
*
126471049 AAATAAT-ATT
1 AAATAATAATA
* *
126471059 AAATATCTCATA
1 AAATA-ATAATA
*
126471071 AAATATTAATA
1 AAATAATAATA
126471082 AAATAATA
1 AAATAATA
126471090 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:126473989 original size:46 final size:45
Alignment explanation
Indices: 126473929--126474194 Score: 339
Period size: 46 Copynumber: 6.0 Consensus size: 45
126473919 TTTGACATGA
* * * * * *
126473929 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*** *
126473975 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
126474021 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
*
126474067 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
126474113 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
126474151 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
126474195 AGAGCACACT
Statistics
Matches: 197, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 34 0.17
40 3 0.02
43 1 0.01
44 3 0.02
45 4 0.02
46 149 0.76
47 3 0.02
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:126474158 original size:38 final size:38
Alignment explanation
Indices: 126474107--126474182 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
126474097 ACATTTTATA
126474107 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
126474145 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
126474183 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:126476348 original size:11 final size:11
Alignment explanation
Indices: 126476332--126476383 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
126476322 TATACTAAAT
126476332 AAATAATAATA
1 AAATAATAATA
*
126476343 AAATAAT-ATT
1 AAATAATAATA
* *
126476353 AAATATCTCATA
1 AAATA-ATAATA
*
126476365 AAATATTAATA
1 AAATAATAATA
126476376 AAATAATA
1 AAATAATA
126476384 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:126481710 original size:18 final size:18
Alignment explanation
Indices: 126481675--126481708 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
126481665 GTACAAGAGC
126481675 CTCAACGCAAGGACAAAG
1 CTCAACGCAAGGACAAAG
*
126481693 CTCAAC-CAAGGGCAAA
1 CTCAACGCAAGGACAAA
126481709 AGAGTGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.29, G:0.21, T:0.06
Consensus pattern (18 bp):
CTCAACGCAAGGACAAAG
Found at i:126482172 original size:61 final size:61
Alignment explanation
Indices: 126482100--126482223 Score: 230
Period size: 61 Copynumber: 2.0 Consensus size: 61
126482090 TTCTGTATGT
*
126482100 TATTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACGCGCTGAGG
1 TATTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCTGAGG
*
126482161 TATTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 TATTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCTGAGG
126482222 TA
1 TA
126482224 ATTTCAATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (61 bp):
TATTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCTGAGG
Found at i:126482266 original size:74 final size:75
Alignment explanation
Indices: 126482168--126482310 Score: 216
Period size: 74 Copynumber: 1.9 Consensus size: 75
126482158 AGGTATTTTT
* *
126482168 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
126482232 TTCTGTTGTC
66 TTCTGTTGTC
* * * *
126482242 AAAAAAATCAACTCGTATTTCGAGAGGCGAGTTGAGCCTTAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAA
126482307 TTTC
65 TTTC
126482311 CATTTTTCAA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
74 39 0.64
76 22 0.36
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:126482337 original size:90 final size:88
Alignment explanation
Indices: 126482225--126482399 Score: 228
Period size: 91 Copynumber: 2.0 Consensus size: 88
126482215 GCTGAGGTAA
* * *
126482225 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATT-TCGAGAGGCGAGTTGAGCCTTAGGTCAC
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGT-GAGAGGCGAGTGGAGCCTCAGG--AC
*
126482289 ACGCCGAGGTATTTTCAATTTCCATT
63 ACGCCGAGGTAATTTCAATTTCCATT
*
126482315 TTTCAATTTCTGCCTT-TCAAAAAAATCAACTCATATTGTGAGAGGTGAGTGGAGCCTCAGGACA
1 TTTCAATTTCTG--TTGTCAAAAAAATCAACTCATATTGTGAGAGGCGAGTGGAGCCTCAGGACA
* *
126482379 TGCTGAGGTAATTTCAATTTC
64 CGCCGAGGTAATTTCAATTTC
126482400 TGTTGTCAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
89 21 0.28
90 12 0.16
91 39 0.52
92 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (88 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGTGAGAGGCGAGTGGAGCCTCAGGACACG
CCGAGGTAATTTCAATTTCCATT
Found at i:126482442 original size:78 final size:75
Alignment explanation
Indices: 126482314--126482749 Score: 517
Period size: 78 Copynumber: 5.7 Consensus size: 75
126482304 CAATTTCCAT
* * *
126482314 TTTTCAATTTCTGCCTTTC-AAAAAAATCAACTCATATTGTGAGAGGTGAGTGGAGCCTCAGGAC
1 TTTTCAATTTCTG-TTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
126482378 ATGCTGAGGTA
65 ATGCTGAGGTA
* * ** **
126482389 ATTTCAATTTCTGTTGTCAAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAA
1 TTTTCAATTTCTGTTTTC---AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
126482454 ACATGCTGAGGTA
63 ACATGCTGAGGTA
* * *
126482467 TTTTCAATTTTTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGGAC
1 TTTTCAATTTCTGT-TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
126482531 ACGCTGAGGTA
65 ATGCTGAGGTA
* * * ** *
126482542 ATTTCAATTTCTGTTTTC---AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
126482604 CGTTGAGGTA
66 TGCTGAGGTA
*
126482614 TTTTCAATTTCTGTTTTCAAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GG
1 TTTTCAATTTCTGTTTTC---AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
126482678 TTCACATGCTGAGGTA
63 ---ACATGCTGAGGTA
126482694 TTTTCAATTTCTGTCTTT-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTCTGT-TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
126482750 TTCATATCAC
Statistics
Matches: 309, Mismatches: 37, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
72 63 0.20
74 7 0.02
75 73 0.24
77 38 0.12
78 97 0.31
79 3 0.01
80 25 0.08
81 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
TGCTGAGGTA
Found at i:126484407 original size:11 final size:11
Alignment explanation
Indices: 126484383--126484427 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
126484373 TTCTAATACG
*
126484383 TATATATATAT
1 TATATATATTT
*
126484394 TATATGTATTT
1 TATATATATTT
*
126484405 TATATATATTA
1 TATATATATTT
*
126484416 TGTATATATTT
1 TATATATATTT
126484427 T
1 T
126484428 TTTAATGCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TATATATATTT
Found at i:126484522 original size:16 final size:16
Alignment explanation
Indices: 126484501--126484534 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
126484491 TATATATTCT
126484501 TAAATAT-TATTATATA
1 TAAATATATA-TATATA
126484517 TAAATATATATATATA
1 TAAATATATATATATA
126484533 TA
1 TA
126484535 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAATATATATATATA
Found at i:126487199 original size:8 final size:8
Alignment explanation
Indices: 126487165--126487224 Score: 77
Period size: 8 Copynumber: 7.5 Consensus size: 8
126487155 TAATGATGTG
*
126487165 AATAATAA
1 AATATTAA
126487173 AATATATAA
1 AATAT-TAA
126487182 AATA-TAA
1 AATATTAA
126487189 AATATTAA
1 AATATTAA
126487197 AATATTAA
1 AATATTAA
*
126487205 AATATCAA
1 AATATTAA
*
126487213 AATATTAG
1 AATATTAA
126487221 AATA
1 AATA
126487225 ATAATAATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
7 7 0.15
8 32 0.70
9 7 0.15
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (8 bp):
AATATTAA
Found at i:126487217 original size:24 final size:24
Alignment explanation
Indices: 126487165--126487228 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 24
126487155 TAATGATGTG
*
126487165 AATAATAAAATATATAAAATATAA
1 AATATTAAAATATATAAAATATAA
126487189 AATATTAAAATAT-TAAAATATCAA
1 AATATTAAAATATATAAAATAT-AA
*
126487213 AATATTAGAATA-ATAA
1 AATATTAAAATATATAA
126487229 TAATTAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
23 8 0.22
24 28 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (24 bp):
AATATTAAAATATATAAAATATAA
Found at i:126487441 original size:22 final size:24
Alignment explanation
Indices: 126487378--126487442 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
126487368 CGTGATAATA
*
126487378 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
126487403 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
126487426 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
126487443 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:126487463 original size:2 final size:2
Alignment explanation
Indices: 126487458--126487535 Score: 60
Period size: 2 Copynumber: 41.5 Consensus size: 2
126487448 CATGTAAAAA
* *
126487458 AT AT AT AT AT AT AT AA AT A- AT AT A- AT AT -T A- AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
126487496 AC AT A- AA AT AGT AT A- AA AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
126487536 GAATTTAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
1 6 0.10
2 54 0.87
3 2 0.03
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (2 bp):
AT
Found at i:126487580 original size:55 final size:55
Alignment explanation
Indices: 126487426--126487580 Score: 165
Period size: 55 Copynumber: 2.8 Consensus size: 55
126487416 CATAATATAG
* * *
126487426 TTAAGATATATACATAAGATAACATGTAAAAAATATATATATATATAAATAATATAATA
1 TTAAGATATATACAT-A-A-AATA-GTAAAAAATATATATATATATATATAATAGAATA
*
126487485 TTAAGATATATACATAAAATAGTATAAAATATATATATATATATATATATAGAAT-
1 TTAAGATATATACATAAAATAGTAAAAAATATATATATATATATATA-ATAGAATA
* * *
126487540 TTAA-A-ATATACCTAATATATTAAAAGAATATATATA-ATATA
1 TTAAGATATATACATAAAATAGTAAAA-AATATATATATATATA
126487581 ATATTAAGAA
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
53 21 0.24
54 11 0.13
55 28 0.33
56 9 0.10
57 1 0.01
58 1 0.01
59 15 0.17
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (55 bp):
TTAAGATATATACATAAAATAGTAAAAAATATATATATATATATATAATAGAATA
Found at i:126487599 original size:23 final size:25
Alignment explanation
Indices: 126487556--126487601 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
126487546 TATACCTAAT
126487556 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
126487581 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
126487602 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:126488169 original size:30 final size:30
Alignment explanation
Indices: 126488135--126488235 Score: 193
Period size: 30 Copynumber: 3.4 Consensus size: 30
126488125 AATGGAGCAA
*
126488135 GTGTGGCTAGTGGATTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
126488165 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
126488195 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
126488225 GTGTGGCTAGT
1 GTGTGGCTAGT
126488236 TGAGAAAAGT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 70 1.00
ACGTcount: A:0.19, C:0.04, G:0.49, T:0.29
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTGGTGGAAAAG
Found at i:126489142 original size:73 final size:73
Alignment explanation
Indices: 126489046--126489529 Score: 673
Period size: 73 Copynumber: 6.5 Consensus size: 73
126489036 AGCATGTGAG
* *
126489046 CCGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAAATACCTC
126489111 AGCGTGTC
66 AGCGTGTC
* * *
126489119 CCGAGACTCAACTCACCTTTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAAATACCTC
126489184 AGCGTGTC
66 AGCGTGTC
* * * * * *
126489192 CCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTAAAAATAGAAATTTAAAAATACCT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAA-TTGAAAATACCT
126489257 CAGCGTGTC
65 CAGCGTGTC
* * * * * *
126489266 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAACAAAAATTGAAAAGAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A--ATTTTTGACAAACAGAAATTGAAAATAC
*
126489331 CTCAGCATG-C
63 CTCAGCGTGTC
*
126489341 GAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTAC
1 ---CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAAATAC
126489406 CTCAGCGTGTC
63 CTCAGCGTGTC
* * * *
126489417 CCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAATACCTC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAAATACCTC
126489482 AGCGTGTC
66 AGCGTGTC
* *
126489490 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT
126489530 TTTTTACGAA
Statistics
Matches: 369, Mismatches: 34, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
73 225 0.61
74 50 0.14
75 31 0.08
76 17 0.05
77 14 0.04
78 32 0.09
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (73 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAAATACCTC
AGCGTGTC
Found at i:126489557 original size:14 final size:14
Alignment explanation
Indices: 126489538--126489566 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
126489528 TTTTTTTACG
126489538 AACAGAAATTGAAA
1 AACAGAAATTGAAA
126489552 AACAGAAATTGAAA
1 AACAGAAATTGAAA
126489566 A
1 A
126489567 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:126489612 original size:93 final size:91
Alignment explanation
Indices: 126489455--126489622 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 91
126489445 GAGTTGATTT
* * *
126489455 TTGAAAAACAGAAATTTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATGA
126489520 GTTGATTTTTTTTTTACGAACAGAAA
66 GTTGATTTTTTTTTTACGAACAGAAA
126489546 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAATA
126489610 TGAGTTGATTTTT
63 TGAGTTGATTTTT
126489623 GACAAACAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
91 28 0.39
93 41 0.58
94 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (91 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTTTTACGAACAGAAA
Found at i:126489682 original size:165 final size:164
Alignment explanation
Indices: 126489382--126489784 Score: 515
Period size: 165 Copynumber: 2.6 Consensus size: 164
126489372 GAGTTAATTT
* ** * *
126489382 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
*
126489447 GTTGATTTTTGAAAAACAGAAATTTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
66 GTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
126489512 CAATATGAGTTGATTTTTTTTTTACGAACAGAAA
131 CAATATGAGTTGATTTTTTTTTTACGAACAGAAA
*
126489546 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATAT
* * *
126489611 GAGTTGATTTTTGACAAACA-AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCT
64 GAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
126489675 CGCAATATGAGTTGA-----TTTTT--G-AC-----
129 CGCAATATGAGTTGATTTTTTTTTTACGAACAGAAA
** * *
126489698 -----AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
126489758 GTTGA-TTTT-AAAAACAGAAATTGAAAA
66 GTTGATTTTTGAAAAACAGAAATTGAAAA
126489785 CCAGAAATTG
Statistics
Matches: 219, Mismatches: 17, Indels: 26
0.84 0.06 0.10
Matches are distributed among these distances:
143 6 0.03
144 13 0.06
145 37 0.17
147 23 0.11
157 2 0.01
158 1 0.00
160 5 0.02
164 27 0.12
165 56 0.26
166 49 0.22
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (164 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTTTTTTACGAACAGAAA
Found at i:126489737 original size:238 final size:233
Alignment explanation
Indices: 126489084--126489926 Score: 1163
Period size: 238 Copynumber: 3.6 Consensus size: 233
126489074 GAGTTAATTT
* ** ** * *
126489084 TTGACAAACAGAAATTGAAATTACCTCAGC--GTGTCCCGAGACTCAACTCACCTTTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
* *
126489147 GAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTT
66 GAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
* * *
126489212 CGCAATATGAGTTGATTTTTTAAAAATAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAA
131 CGCAATATGAGTTGATTTTTGAAAAACAGAAA-TTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
**
126489277 CTCACCTCTCGCAATATGAGTTGATTTT---------TT
195 CTCACCTCTCGCAATATGAGTTGATTTTAAAAACAGAAA
* ** * *
126489307 TTTACGAACAAAAATTGAAAAGACCTCAGCATGCGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
* *
126489372 GAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTT
66 GAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
*
126489437 CGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAATACCTCAGCGTGTCCTGAGGCTCAAC
131 CGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAAC
**
126489502 TCACCTCTCGCAATATGAGTTGATTTTTTTTTTACGAACAGAAA
196 TCACCTCTCGCAATATGAGTTGA------TTTTAAAAACAGAAA
126489546 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
* *
126489611 GAGTTGATTTTTGACAAACA-AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCT
66 GAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
* *
126489675 CGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
131 CGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAAC
126489740 TCACCTCTCGCAATATGAGTTGATTTTAAAAACAGAAA
196 TCACCTCTCGCAATATGAGTTGATTTTAAAAACAGAAA
* * * * *
126489778 TTGAAAACCAGAAATTGAAAATACCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTTGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
* * ** * * **
126489843 GAGCTAATTTTTTATGAACATAAATTAAAACCACCTCAGCGTGTCCTG-GGCTCAACTCACCTCT
66 GAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
126489907 CGCAATATGAGTTGATTTTT
131 CGCAATATGAGTTGATTTTT
126489927 TTTGAAAATC
Statistics
Matches: 559, Mismatches: 43, Indels: 27
0.89 0.07 0.04
Matches are distributed among these distances:
223 25 0.04
224 55 0.10
225 123 0.22
230 4 0.01
232 124 0.22
233 23 0.04
238 126 0.23
239 79 0.14
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (233 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
GAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGATTTTAAAAACAGAAA
Found at i:126489750 original size:73 final size:73
Alignment explanation
Indices: 126489546--126489783 Score: 367
Period size: 73 Copynumber: 3.3 Consensus size: 73
126489536 CGAACAGAAA
** *
126489546 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATA
126489610 TGAGTTGATTT
63 TGAGTTGATTT
* *
126489621 TTGACAAACA-AAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
126489685 GTTGATTT
66 GTTGATTT
*
126489693 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
126489758 GTTGA-TT
66 GTTGATTT
126489765 TT-AAAAACAGAAATTGAAA
1 TTGAAAAACAGAAATTGAAA
126489784 ACCAGAAATT
Statistics
Matches: 154, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
71 17 0.11
72 53 0.34
73 58 0.38
74 17 0.11
75 9 0.06
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:126489789 original size:14 final size:14
Alignment explanation
Indices: 126489767--126489798 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
126489757 AGTTGATTTT
126489767 AAAAACAGAAATTG
1 AAAAACAGAAATTG
*
126489781 AAAACCAGAAATTG
1 AAAAACAGAAATTG
126489795 AAAA
1 AAAA
126489799 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.09, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAAACAGAAATTG
Found at i:126489853 original size:87 final size:85
Alignment explanation
Indices: 126489693--126489853 Score: 227
Period size: 87 Copynumber: 1.9 Consensus size: 85
126489683 GAGTTGATTT
* *
126489693 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
* *
126489758 GTTGATTTTAAAAACAGAAA
66 GCTAATTTTAAAAACAGAAA
*
126489778 TTGA-AAACCAGAAATTGAAAATACCTCAGCGTGTGAGCC-AAGGCTCAACTCACCTCTTGCAAT
1 TTGACAAA-CAGAAATTGAAAATACCTCAGCGTGT---CCTAAGGCTCAACTCACCTCTCGCAAT
126489841 ATGAGCTAATTTT
62 ATGAGCTAATTTT
126489854 TTATGAACAT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
84 3 0.04
85 29 0.43
87 33 0.49
88 2 0.03
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (85 bp):
TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
GCTAATTTTAAAAACAGAAA
Found at i:126501837 original size:14 final size:15
Alignment explanation
Indices: 126501801--126501847 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
126501791 ATAATAAAAT
*
126501801 ATAT-AAAATATAAA
1 ATATCAAAATATTAA
*
126501815 ATATTAAAATATTAA
1 ATATCAAAATATTAA
126501830 A-ATCAAAATATTAGA
1 ATATCAAAATATTA-A
126501845 ATA
1 ATA
126501848 ATAATAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 15 0.54
15 12 0.43
16 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (15 bp):
ATATCAAAATATTAA
Found at i:126501837 original size:22 final size:24
Alignment explanation
Indices: 126501790--126501851 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 24
126501780 TAATGATGTG
* *
126501790 AATAATAAAATATATAAAATATAA
1 AATATTAAAATATATAAAATACAA
126501814 AATATTAAAATAT-TAAAAT-CAA
1 AATATTAAAATATATAAAATACAA
*
126501836 AATATTAGAATA-ATAA
1 AATATTAAAATATATAA
126501852 TAATTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 16 0.47
23 6 0.18
24 12 0.35
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (24 bp):
AATATTAAAATATATAAAATACAA
Found at i:126501847 original size:8 final size:8
Alignment explanation
Indices: 126501790--126501832 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
126501780 TAATGATGTG
*
126501790 AATAATAA
1 AATATTAA
126501798 AATATATAA
1 AATAT-TAA
126501807 AATA-TAA
1 AATATTAA
126501814 AATATTAA
1 AATATTAA
126501822 AATATTAA
1 AATATTAA
126501830 AAT
1 AAT
126501833 CAAAATATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 7 0.22
8 18 0.56
9 7 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATATTAA
Found at i:126502064 original size:22 final size:24
Alignment explanation
Indices: 126502001--126502065 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
126501991 CGTGATAATA
*
126502001 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
126502026 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
126502049 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
126502066 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:126502142 original size:25 final size:24
Alignment explanation
Indices: 126502087--126502145 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
126502077 AAAAAAATAT
* *
126502087 ATATATATAAATAATATAATATTA
1 ATATATATAAATAAAATAATATAA
* *
126502111 ATGATATATACATAAAATAGTATAAA
1 AT-ATATATAAATAAAATAATAT-AA
126502137 ATATATATA
1 ATATATATA
126502146 TATATATACG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 2 0.07
25 24 0.83
26 3 0.10
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (24 bp):
ATATATATAAATAAAATAATATAA
Found at i:126502144 original size:27 final size:27
Alignment explanation
Indices: 126502036--126502147 Score: 77
Period size: 27 Copynumber: 4.1 Consensus size: 27
126502026 TTAAAAATAC
* * *
126502036 ATACATAATATAGT-TAAGATATATAC
1 ATACATAAAATAGTATAAAATATATAT
* * * *
126502062 ATAAGATAACAT-GTAAAAAAAATATAT
1 AT-ACATAAAATAGTATAAAATATATAT
* * *
126502089 ATATAT-AAATAATATAATATTAATGATAT
1 ATACATAAAATAGTATAA-AAT-AT-ATAT
126502118 ATACATAAAATAGTATAAAATATATAT
1 ATACATAAAATAGTATAAAATATATAT
126502145 ATA
1 ATA
126502148 TATATACGTA
Statistics
Matches: 64, Mismatches: 15, Indels: 13
0.70 0.16 0.14
Matches are distributed among these distances:
25 3 0.05
26 11 0.17
27 25 0.39
28 4 0.06
29 11 0.17
30 10 0.16
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (27 bp):
ATACATAAAATAGTATAAAATATATAT
Found at i:126502226 original size:23 final size:25
Alignment explanation
Indices: 126502183--126502228 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
126502173 TATACCTAAT
126502183 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
126502208 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
126502229 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:126502798 original size:30 final size:30
Alignment explanation
Indices: 126502734--126502834 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 30
126502724 GGTAGAGCAA
* * * *
126502734 GTGTGGTTAGTGGAGTAGGTAATGGAGCAA-
1 GTGTGGCTAGTGGAGTTGGTAGTGGA-AAAG
* *
126502764 GTGTGGCTAGTGGATTTGGTGGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTAGTGGAAAAG
126502794 GTGTGGCTAGTGGAGTTGGTAGTGGAAAAG
1 GTGTGGCTAGTGGAGTTGGTAGTGGAAAAG
126502824 GTGTGGCTAGT
1 GTGTGGCTAGT
126502835 TGAGAAAAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.22, C:0.04, G:0.46, T:0.29
Consensus pattern (30 bp):
GTGTGGCTAGTGGAGTTGGTAGTGGAAAAG
Found at i:126504690 original size:16 final size:17
Alignment explanation
Indices: 126504660--126504695 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
126504650 TTTTTAAAAG
126504660 AATTATTTTATAAAATA
1 AATTATTTTATAAAATA
*
126504677 AATTGTTTTA-AAAATA
1 AATTATTTTATAAAATA
126504693 AAT
1 AAT
126504696 GCAATTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
AATTATTTTATAAAATA
Found at i:126517906 original size:93 final size:93
Alignment explanation
Indices: 126517747--126517917 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
126517737 GGATGGTTGA
* * *
126517747 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCAAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCAAACTCGTTGAGT
126517812 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
126517840 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCAAACTCGTTGAGT
126517905 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
126517918 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:126517920 original size:46 final size:46
Alignment explanation
Indices: 126517751--126517922 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
126517741 GGTTGAGCAT
* * *
126517751 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * * *
126517797 CCAAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
*
126517842 ATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
126517890 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
126517923 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 57 0.56
47 25 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:126521458 original size:2 final size:2
Alignment explanation
Indices: 126521451--126521507 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
126521441 ATGGACACTT
*
126521451 TA TA TA TA TT TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
126521492 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
126521508 CCAATATAGG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:126526888 original size:17 final size:15
Alignment explanation
Indices: 126526853--126526884 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
126526843 AACTGATTGA
126526853 TTTA-TAATGGAATT
1 TTTATTAATGGAATT
126526867 TTTATTAATGGAATT
1 TTTATTAATGGAATT
126526882 TTT
1 TTT
126526885 TTATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTATTAATGGAATT
Found at i:126528052 original size:19 final size:20
Alignment explanation
Indices: 126528025--126528062 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
126528015 TTTTATTGGT
*
126528025 TATATTTTAT-TATTTAAAA
1 TATAGTTTATATATTTAAAA
126528044 TATAGTTTATATATTTAAA
1 TATAGTTTATATATTTAAA
126528063 TTAAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TATAGTTTATATATTTAAAA
Found at i:126528072 original size:20 final size:19
Alignment explanation
Indices: 126528028--126528073 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
126528018 TATTGGTTAT
*
126528028 ATTTTATTATTTAAAATAT
1 ATTTTATTATTTAAAATAA
* *
126528047 AGTTTATATATTTAAATTAA
1 ATTTTAT-TATTTAAAATAA
126528067 ATTTTAT
1 ATTTTAT
126528074 GAATAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
ATTTTATTATTTAAAATAA
Found at i:126555009 original size:10 final size:10
Alignment explanation
Indices: 126554981--126555014 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
126554971 AAGAGAATGA
126554981 AAAAT-AAAG
1 AAAATAAAAG
126554990 AAAATAAAAAG
1 AAAAT-AAAAG
126555001 AAAATAAAAG
1 AAAATAAAAG
126555011 AAAA
1 AAAA
126555015 AAATTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.22
10 9 0.39
11 9 0.39
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (10 bp):
AAAATAAAAG
Found at i:126557017 original size:17 final size:17
Alignment explanation
Indices: 126556983--126557038 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
126556973 TCTGTATTTA
* *
126556983 TTATATATTATGTTATT
1 TTATATATTATATAATT
126557000 TTATATATTATATAA-T
1 TTATATATTATATAATT
* *
126557016 TTATAATAATATATAATA
1 TTAT-ATATTATATAATT
126557034 TTATA
1 TTATA
126557039 ATGTAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 5 0.15
17 24 0.73
18 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TTATATATTATATAATT
Found at i:126565175 original size:15 final size:15
Alignment explanation
Indices: 126565129--126565175 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
126565119 TTAAGTGTTA
*
126565129 AAAAAATAAATATTG
1 AAAAAATAAGTATTG
*
126565144 AAAAAATAAGTACTG
1 AAAAAATAAGTATTG
*
126565159 AAAAAATAAGTGTTG
1 AAAAAATAAGTATTG
126565174 AA
1 AA
126565176 TTTAAGTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.62, C:0.02, G:0.13, T:0.23
Consensus pattern (15 bp):
AAAAAATAAGTATTG
Found at i:126569559 original size:17 final size:17
Alignment explanation
Indices: 126569537--126569571 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
126569527 AACAAACAAG
126569537 ATTGTATAAATAATTAT
1 ATTGTATAAATAATTAT
126569554 ATTGTATAAATAATTAT
1 ATTGTATAAATAATTAT
126569571 A
1 A
126569572 AAACAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
ATTGTATAAATAATTAT
Found at i:126572607 original size:18 final size:19
Alignment explanation
Indices: 126572584--126572630 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
126572574 AAAGTAATTA
126572584 AGCATAAAACTTTCAAG-T
1 AGCATAAAACTTTCAAGCT
*
126572602 AGCATAAAACTTTCATGCT
1 AGCATAAAACTTTCAAGCT
126572621 AGCAATAAAA
1 AGC-ATAAAA
126572631 TTACACATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 16 0.62
19 4 0.15
20 6 0.23
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.26
Consensus pattern (19 bp):
AGCATAAAACTTTCAAGCT
Found at i:126576234 original size:30 final size:31
Alignment explanation
Indices: 126576175--126576238 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
126576165 ACTTAACAAG
126576175 CAAATGCTTCTAAAATAATAATAAAAATTAA
1 CAAATGCTTCTAAAATAATAATAAAAATTAA
*
126576206 CAAATGCCTT-TAAAATAATAA-GAAAATTAA
1 CAAATG-CTTCTAAAATAATAATAAAAATTAA
126576236 CAA
1 CAA
126576239 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 11 0.35
31 17 0.55
32 3 0.10
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.27
Consensus pattern (31 bp):
CAAATGCTTCTAAAATAATAATAAAAATTAA
Found at i:126576293 original size:22 final size:22
Alignment explanation
Indices: 126576268--126576310 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
126576258 TATTCAAACA
126576268 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
126576290 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
126576311 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:126580605 original size:20 final size:18
Alignment explanation
Indices: 126580559--126580607 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
126580549 AAAGTAATTA
*
126580559 AGCATAAAACTTTCAAGT
1 AGCATAAAATTTTCAAGT
*
126580577 AGCATAAAATTTTCATGCT
1 AGCATAAAATTTTCAAG-T
126580596 AGCAATAAAATT
1 AGC-ATAAAATT
126580608 ACACATAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 15 0.56
19 4 0.15
20 8 0.30
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (18 bp):
AGCATAAAATTTTCAAGT
Found at i:126580640 original size:16 final size:16
Alignment explanation
Indices: 126580619--126580654 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
126580609 CACATAAGGA
126580619 CTCAATCGACAATTCC
1 CTCAATCGACAATTCC
126580635 CTCAATCGACAATTCC
1 CTCAATCGACAATTCC
126580651 CTCA
1 CTCA
126580655 CTCAACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.39, G:0.06, T:0.25
Consensus pattern (16 bp):
CTCAATCGACAATTCC
Found at i:126580662 original size:16 final size:16
Alignment explanation
Indices: 126580619--126580662 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
126580609 CACATAAGGA
*
126580619 CTCAATCGACAATTCC
1 CTCAATCAACAATTCC
*
126580635 CTCAATCGACAATTCC
1 CTCAATCAACAATTCC
*
126580651 CTCACTCAACAA
1 CTCAATCAACAA
126580663 ATTTTACCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.34, C:0.39, G:0.05, T:0.23
Consensus pattern (16 bp):
CTCAATCAACAATTCC
Found at i:126589550 original size:33 final size:32
Alignment explanation
Indices: 126589494--126589555 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
126589484 GCATAATAAT
* *
126589494 TGCTGTTGTATATACTTGATATAGACATGTTAA
1 TGCTATTGTATATAATTGATATAG-CATGTTAA
* *
126589527 TGCTATTGTATTTAATTGTTATAGCATGT
1 TGCTATTGTATATAATTGATATAGCATGT
126589556 CATGTTGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 5 0.20
33 20 0.80
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (32 bp):
TGCTATTGTATATAATTGATATAGCATGTTAA
Found at i:126593705 original size:20 final size:20
Alignment explanation
Indices: 126593680--126593723 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
126593670 TATTTTGGTT
126593680 ATTTTAATTGAATTATTT-TA
1 ATTTT-ATTGAATTATTTATA
* *
126593700 ATTTTATTTAATTTTTTATA
1 ATTTTATTGAATTATTTATA
126593720 ATTT
1 ATTT
126593724 AAAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTTATTGAATTATTTATA
Found at i:126601876 original size:31 final size:31
Alignment explanation
Indices: 126601816--126601882 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 31
126601806 CAAATTCGGG
126601816 TAAAAAATTACTAAAATTATGTATTAATAAT
1 TAAAAAATTACTAAAATTATGTATTAATAAT
126601847 ATAAAAAATTACTAAAA-TAT-TATTAAATAAT
1 -TAAAAAATTACTAAAATTATGTATT-AATAAT
126601878 TAAAA
1 TAAAA
126601883 TAATCATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 9 0.26
31 9 0.26
32 16 0.47
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (31 bp):
TAAAAAATTACTAAAATTATGTATTAATAAT
Done.