Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 37 of 316
Found at i:10651649 original size:15 final size:16
Alignment explanation
Indices: 10651609--10651650 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
10651599 CTCCCCTCTC
**
10651609 TTTAAAATTTTTAAAA
1 TTTAAAATTACTAAAA
*
10651625 TTTTAAATTACTAAAA
1 TTTAAAATTACTAAAA
10651641 -TTAAAATTAC
1 TTTAAAATTAC
10651651 ACTTCGATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAAAATTACTAAAA
Found at i:10657772 original size:7 final size:7
Alignment explanation
Indices: 10657762--10657791 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
10657752 TTCTCTTTTC
10657762 TTTTCTT
1 TTTTCTT
10657769 TTTTCTT
1 TTTTCTT
10657776 TTTTCTT
1 TTTTCTT
*
10657783 TTTTATT
1 TTTTCTT
10657790 TT
1 TT
10657792 CGTCTCTCTT
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:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTCTT
Found at i:10664608 original size:18 final size:18
Alignment explanation
Indices: 10664570--10664621 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
10664560 TGGTTCAAGC
* *
10664570 TTTCAATCTCATATCTCAA
1 TTTCAAT-TCACATTTCAA
10664589 TTTCAATTCACATTTCAA
1 TTTCAATTCACATTTCAA
*
10664607 TTCTTAATTC-CATTT
1 TT-TCAATTCACATTT
10664622 TTTTTTCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.29, C:0.23, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTCAATTCACATTTCAA
Found at i:10671311 original size:11 final size:11
Alignment explanation
Indices: 10671297--10671337 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
10671287 TGTTTTCTCC
10671297 CTATTTTGCTA
1 CTATTTTGCTA
*
10671308 CTATTTTACTA
1 CTATTTTGCTA
* *
10671319 TTATGTTGCTA
1 CTATTTTGCTA
10671330 CTATTTTG
1 CTATTTTG
10671338 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:10671436 original size:30 final size:30
Alignment explanation
Indices: 10671377--10671438 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
10671367 TATTTTATTA
* *
10671377 TTAATTTTTTTATTATTTTAAAGATATTTG
1 TTAATTTTGTTATTATTTTAAAGACATTTG
10671407 TTAATTTTGTTATTATTTTAGAA-ACATTTG
1 TTAATTTTGTTATTATTTTA-AAGACATTTG
10671437 TT
1 TT
10671439 TGTTAAGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGACATTTG
Found at i:10671579 original size:12 final size:12
Alignment explanation
Indices: 10671558--10671591 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10671548 ATATTATTTT
*
10671558 AAAATTATATAA
1 AAAATAATATAA
10671570 AAAATAATATAA
1 AAAATAATATAA
*
10671582 AAATTAATAT
1 AAAATAATAT
10671592 GAGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:10674773 original size:32 final size:32
Alignment explanation
Indices: 10674732--10674793 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
10674722 ATTAGAGTGG
10674732 CTAAATTGAGAAAAAAAATAGAGTAACAAAGA
1 CTAAATTGAGAAAAAAAATAGAGTAACAAAGA
*
10674764 CTAAATTGAGAAAAAAATTAGAGTAACAAA
1 CTAAATTGAGAAAAAAAATAGAGTAACAAA
10674794 AATAGGACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.61, C:0.06, G:0.15, T:0.18
Consensus pattern (32 bp):
CTAAATTGAGAAAAAAAATAGAGTAACAAAGA
Found at i:10679194 original size:7 final size:7
Alignment explanation
Indices: 10679178--10679288 Score: 73
Period size: 7 Copynumber: 15.9 Consensus size: 7
10679168 AGGGTGTAAG
10679178 GGTTTAA
1 GGTTTAA
*
10679185 GGTTTCA
1 GGTTTAA
*
10679192 GGTTTTA
1 GGTTTAA
*
10679199 GGTTTAT
1 GGTTTAA
*
10679206 GGTTTAG
1 GGTTTAA
10679213 GGTTTAA
1 GGTTTAA
**
10679220 ATTTTAA
1 GGTTTAA
*
10679227 GGTTTGA
1 GGTTTAA
* *
10679234 GTTTTGA
1 GGTTTAA
* *
10679241 TGTTTGA
1 GGTTTAA
10679248 GGTTTAA
1 GGTTTAA
10679255 GGTTT-A
1 GGTTTAA
*
10679261 GGCTTCAA
1 GG-TTTAA
10679269 GGTTT-A
1 GGTTTAA
*
10679275 GCCTTTAA
1 G-GTTTAA
10679283 GGTTTA
1 GGTTTA
10679289 GGGTATAAGA
Statistics
Matches: 80, Mismatches: 20, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
6 5 0.06
7 70 0.88
8 5 0.06
ACGTcount: A:0.21, C:0.05, G:0.28, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:10679450 original size:7 final size:7
Alignment explanation
Indices: 10679420--10679481 Score: 52
Period size: 7 Copynumber: 8.9 Consensus size: 7
10679410 GTGCATAGAA
*
10679420 TTAGGGA
1 TTAGGGT
*
10679427 TTATGGT
1 TTAGGGT
**
10679434 TTAGAAT
1 TTAGGGT
10679441 TTAGGGT
1 TTAGGGT
*
10679448 TTAAGGT
1 TTAGGGT
10679455 TTAGGGT
1 TTAGGGT
**
10679462 TTAGTCT
1 TTAGGGT
*
10679469 ATAGGGT
1 TTAGGGT
10679476 TTAGGG
1 TTAGGG
10679482 GTAAAATTTG
Statistics
Matches: 40, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.23, C:0.02, G:0.34, T:0.42
Consensus pattern (7 bp):
TTAGGGT
Found at i:10679465 original size:21 final size:21
Alignment explanation
Indices: 10679415--10679458 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10679405 TTAGGGTGCA
*
10679415 TAGAA-TTAGGGATTATGGTT
1 TAGAATTTAGGGATTAAGGTT
*
10679435 TAGAATTTAGGGTTTAAGGTT
1 TAGAATTTAGGGATTAAGGTT
10679456 TAG
1 TAG
10679459 GGTTTAGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.41
Consensus pattern (21 bp):
TAGAATTTAGGGATTAAGGTT
Found at i:10680700 original size:16 final size:15
Alignment explanation
Indices: 10680679--10680712 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10680669 GGAACGCAGA
*
10680679 TTTCTGTTGTTAAGGC
1 TTTCTGTTGCTAA-GC
10680695 TTTCTGTTGCTAAGC
1 TTTCTGTTGCTAAGC
10680710 TTT
1 TTT
10680713 TGATTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.12, C:0.15, G:0.21, T:0.53
Consensus pattern (15 bp):
TTTCTGTTGCTAAGC
Found at i:10682365 original size:24 final size:24
Alignment explanation
Indices: 10682335--10682387 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
10682325 CTATGTTATA
10682335 ATATTTGTAACTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
**
10682359 ATATTTGTGTCTAAAATTAATATT
1 ATATTTGTAACTAAAATTAATATT
10682383 ATATT
1 ATATT
10682388 ATAAAACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.49
Consensus pattern (24 bp):
ATATTTGTAACTAAAATTAATATT
Found at i:10683391 original size:40 final size:40
Alignment explanation
Indices: 10683336--10683420 Score: 170
Period size: 40 Copynumber: 2.1 Consensus size: 40
10683326 AAATTAAAAT
10683336 TAAAATAAATATTAAAATAAAAGAAGTGTTATTATTTTTG
1 TAAAATAAATATTAAAATAAAAGAAGTGTTATTATTTTTG
10683376 TAAAATAAATATTAAAATAAAAGAAGTGTTATTATTTTTG
1 TAAAATAAATATTAAAATAAAAGAAGTGTTATTATTTTTG
10683416 TAAAA
1 TAAAA
10683421 AAGTAAATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (40 bp):
TAAAATAAATATTAAAATAAAAGAAGTGTTATTATTTTTG
Found at i:10683468 original size:18 final size:20
Alignment explanation
Indices: 10683431--10683469 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
10683421 AAGTAAATTT
10683431 AATTCATAAAAATATATATA
1 AATTCATAAAAATATATATA
*
10683451 AATTCA-AAACATAT-TATA
1 AATTCATAAAAATATATATA
10683469 A
1 A
10683470 CCAAAACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (20 bp):
AATTCATAAAAATATATATA
Found at i:10683601 original size:9 final size:9
Alignment explanation
Indices: 10683583--10683659 Score: 100
Period size: 9 Copynumber: 8.6 Consensus size: 9
10683573 GTTTAAATTT
10683583 CATAACTTA
1 CATAACTTA
*
10683592 CATAATTTA
1 CATAACTTA
* *
10683601 CATACCTCA
1 CATAACTTA
* *
10683610 CATACCTCA
1 CATAACTTA
10683619 CATAACTTA
1 CATAACTTA
*
10683628 CATAACTCA
1 CATAACTTA
10683637 CATAACTTA
1 CATAACTTA
10683646 CATAACTTA
1 CATAACTTA
10683655 CATAA
1 CATAA
10683660 TACATAAATA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (9 bp):
CATAACTTA
Found at i:10688759 original size:13 final size:14
Alignment explanation
Indices: 10688743--10688771 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10688733 TTTTAAATAT
10688743 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
10688756 TTATAATGGTTTAA
1 TTATAATGGTTTAA
10688770 TT
1 TT
10688772 CGTTGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:10692170 original size:10 final size:10
Alignment explanation
Indices: 10692135--10692176 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
10692125 ATTTTTTAAA
10692135 TTTTA-AATT
1 TTTTATAATT
* *
10692144 TCTTATAAAT
1 TTTTATAATT
*
10692154 TTCTATAATT
1 TTTTATAATT
10692164 TTTTATAATT
1 TTTTATAATT
10692174 TTT
1 TTT
10692177 ATTTAGTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
9 4 0.15
10 22 0.85
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:10694649 original size:22 final size:22
Alignment explanation
Indices: 10694623--10694679 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
10694613 AAAAAATACA
*
10694623 TAAAATTATTAAATGT-TAATTT
1 TAAAATTATTAAATATAT-ATTT
*
10694645 TAAAATAATATAAATATATATTT
1 TAAAATTAT-TAAATATATATTT
10694668 TAAAA-TATTAAA
1 TAAAATTATTAAA
10694680 AAATAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 4 0.13
22 10 0.33
23 15 0.50
24 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TAAAATTATTAAATATATATTT
Found at i:10705335 original size:15 final size:16
Alignment explanation
Indices: 10705305--10705351 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
10705295 TAGATACTTT
10705305 TTTTAAAAATTAATAA
1 TTTTAAAAATTAATAA
*
10705321 TTTTAGAAA-TAATAA
1 TTTTAAAAATTAATAA
*
10705336 ATTTAACAAATGTAAT
1 TTTTAA-AAAT-TAAT
10705352 TCTTCTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 10 0.40
16 11 0.44
18 4 0.16
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (16 bp):
TTTTAAAAATTAATAA
Found at i:10710073 original size:18 final size:19
Alignment explanation
Indices: 10710050--10710085 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10710040 TTATTTTACC
10710050 TAATTAA-TATAAAAATAA
1 TAATTAATTATAAAAATAA
10710068 TAATTAATTATAAAAATA
1 TAATTAATTATAAAAATA
10710086 GTATGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAATTAATTATAAAAATAA
Found at i:10711584 original size:26 final size:26
Alignment explanation
Indices: 10711546--10711621 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
10711536 TTATGTATAA
* **
10711546 GAAATTTTAAAATAGGTAATATA-GG
1 GAAAGTTTAAAATAAATAATATACGG
*
10711571 CGAAAGTTTGAAATAAATAATATACGG
1 -GAAAGTTTAAAATAAATAATATACGG
*
10711598 GAAAGAGTTTAAAATGAATAATAT
1 G-AA-AGTTTAAAATAAATAATAT
10711622 GTAAAATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 20 0.49
27 4 0.10
28 17 0.41
ACGTcount: A:0.50, C:0.03, G:0.18, T:0.29
Consensus pattern (26 bp):
GAAAGTTTAAAATAAATAATATACGG
Found at i:10711643 original size:26 final size:27
Alignment explanation
Indices: 10711605--10711695 Score: 94
Period size: 28 Copynumber: 3.3 Consensus size: 27
10711595 CGGGAAAGAG
*
10711605 TTTAAAATGAATAATATGTAAAAT-AA
1 TTTAAAATAAATAATATGTAAAATGAA
* * *
10711631 TTTAAGATAAATAATATATATAAATGAG
1 TTTAAAATAAATAATATGTA-AAATGAA
* *
10711659 TTTAAAATAAATATTATGTAAAAAGAAA
1 TTTAAAATAAATAATATGTAAAATG-AA
*
10711687 CTTAAAATA
1 TTTAAAATA
10711696 GGTAATATAC
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
26 17 0.33
27 8 0.15
28 27 0.52
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTAAAATAAATAATATGTAAAATGAA
Found at i:10711662 original size:28 final size:27
Alignment explanation
Indices: 10711575--10711681 Score: 92
Period size: 28 Copynumber: 3.9 Consensus size: 27
10711565 TATAGGCGAA
* **
10711575 AGTTTGAAATAAATAATATACGGGAAA-G
1 AGTTTAAAATAAATAATATA--TAAAATG
* *
10711603 AGTTTAAAATGAATAATATGTAAAAT-
1 AGTTTAAAATAAATAATATATAAAATG
* *
10711629 AATTTAAGATAAATAATATATATAAATG
1 AGTTTAAAATAAATAATATATA-AAATG
* *
10711657 AGTTTAAAATAAATATTATGTAAAA
1 AGTTTAAAATAAATAATATATAAAA
10711682 AGAAACTTAA
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
26 21 0.33
27 7 0.11
28 35 0.56
ACGTcount: A:0.54, C:0.01, G:0.12, T:0.33
Consensus pattern (27 bp):
AGTTTAAAATAAATAATATATAAAATG
Found at i:10716052 original size:46 final size:46
Alignment explanation
Indices: 10716016--10716264 Score: 356
Period size: 46 Copynumber: 5.4 Consensus size: 46
10716006 ATAAAATGTG
* * **
10716016 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* *
10716062 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
**
10716108 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
* *
10716154 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
** *
10716200 TAAGACCACAGTTGAAAGATACCATGGCAACATGACA-GAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAA
*
10716246 TAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGA
10716265 CACTATGGTA
Statistics
Matches: 185, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 184 0.99
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAA
Found at i:10718262 original size:10 final size:10
Alignment explanation
Indices: 10718247--10718296 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
10718237 TAAATTTAGG
10718247 ATTTATTTTT
1 ATTTATTTTT
*
10718257 ATTTATCTTT
1 ATTTATTTTT
*
10718267 ATTTA-TCTT
1 ATTTATTTTT
*
10718276 ATTTTATTTGT
1 A-TTTATTTTT
10718287 ATTTATTTTT
1 ATTTATTTTT
10718297 TAGAATTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 3 0.09
10 26 0.81
11 3 0.09
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:10724485 original size:21 final size:20
Alignment explanation
Indices: 10724464--10724518 Score: 66
Period size: 18 Copynumber: 3.0 Consensus size: 20
10724454 CCAATTTTTA
*
10724464 TTATTCTTTATTA--TTATT
1 TTATTATTTATTACTTTATT
10724482 TTATTATTTATTACTTTATT
1 TTATTATTTATTACTTTATT
10724502 TTA-T-TTTATTA-TTTATT
1 TTATTATTTATTACTTTATT
10724519 ACTTTATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 6 0.18
18 19 0.56
19 1 0.03
20 8 0.24
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (20 bp):
TTATTATTTATTACTTTATT
Found at i:10724487 original size:8 final size:8
Alignment explanation
Indices: 10724474--10724526 Score: 56
Period size: 8 Copynumber: 6.6 Consensus size: 8
10724464 TTATTCTTTA
10724474 TTATTATT
1 TTATTATT
10724482 TTATTA-T
1 TTATTATT
10724489 TTATTACTT
1 TTATTA-TT
*
10724498 TATTTTATT
1 T-TATTATT
10724507 TTATTA-T
1 TTATTATT
*
10724514 TTATTACT
1 TTATTATT
10724522 TTATT
1 TTATT
10724527 TTGTTTGGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
7 14 0.36
8 16 0.41
9 5 0.13
10 4 0.10
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (8 bp):
TTATTATT
Found at i:10724492 original size:25 final size:25
Alignment explanation
Indices: 10724464--10724528 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
10724454 CCAATTTTTA
10724464 TTATT-CTTTATTATTATTTTATTAT
1 TTATTACTTTATT-TTATTTTATTAT
10724489 TTATTACTTTATTTTATTTTATTAT
1 TTATTACTTTATTTTATTTTATTAT
10724514 TTATTACTTTATTTT
1 TTATTACTTTATTTT
10724529 GTTTGGGTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 32 0.82
26 7 0.18
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (25 bp):
TTATTACTTTATTTTATTTTATTAT
Found at i:10724500 original size:12 final size:12
Alignment explanation
Indices: 10724485--10724527 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
10724475 TATTATTTTA
10724485 TTATTTATTACT
1 TTATTTATTACT
*
10724497 TTATTTTATT-TT
1 TTA-TTTATTACT
10724509 ATTATTTATTACT
1 -TTATTTATTACT
10724522 TTATTT
1 TTATTT
10724528 TGTTTGGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (12 bp):
TTATTTATTACT
Found at i:10724501 original size:33 final size:33
Alignment explanation
Indices: 10724464--10724526 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
10724454 CCAATTTTTA
10724464 TTATTCTT-TATTATTATTTTATTA-TTTATTACT
1 TTATT-TTATATTATTA-TTTATTACTTTATTACT
*
10724497 TTATTTTATTTTATTATTTATTACTTTATT
1 TTATTTTATATTATTATTTATTACTTTATT
10724527 TTGTTTGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (33 bp):
TTATTTTATATTATTATTTATTACTTTATTACT
Found at i:10728329 original size:21 final size:21
Alignment explanation
Indices: 10728288--10728329 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10728278 ATATTGCCAT
* *
10728288 GTATCGATACTAGATACCAAA
1 GTATCGATACTAGAAAACAAA
10728309 GTATCGATACTTA-AAAACAAA
1 GTATCGATAC-TAGAAAACAAA
10728330 TATGGTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.24
Consensus pattern (21 bp):
GTATCGATACTAGAAAACAAA
Found at i:10734826 original size:16 final size:16
Alignment explanation
Indices: 10734805--10734845 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
10734795 TAATAATAAA
10734805 ATATTATAGGCCCAAT
1 ATATTATAGGCCCAAT
*
10734821 ATATTAGATAGGTCCAAT
1 ATATT--ATAGGCCCAAT
10734839 ATATTAT
1 ATATTAT
10734846 GTAAGTCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.32
18 15 0.68
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (16 bp):
ATATTATAGGCCCAAT
Found at i:10734837 original size:18 final size:18
Alignment explanation
Indices: 10734810--10734844 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10734800 ATAAAATATT
10734810 ATAGGCCCAATATATTAG
1 ATAGGCCCAATATATTAG
*
10734828 ATAGGTCCAATATATTA
1 ATAGGCCCAATATATTA
10734845 TGTAAGTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.31
Consensus pattern (18 bp):
ATAGGCCCAATATATTAG
Found at i:10734853 original size:18 final size:18
Alignment explanation
Indices: 10734816--10734860 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
10734806 TATTATAGGC
*
10734816 CCAATATATTAGATAGGT
1 CCAATATATTAGATAAGT
10734834 CCAATATATTATG-TAAGT
1 CCAATATATTA-GATAAGT
*
10734852 CCAAAATAT
1 CCAATATAT
10734861 AAAAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (18 bp):
CCAATATATTAGATAAGT
Found at i:10735398 original size:15 final size:15
Alignment explanation
Indices: 10735365--10735408 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
10735355 AATGTATTAT
10735365 TTGTTATTTGTTATTTG
1 TTGTT-TTTGTT-TTTG
10735382 TTGTTTTTGTTTTTG
1 TTGTTTTTGTTTTTG
*
10735397 TTTTTTTTGTTT
1 TTGTTTTTGTTT
10735409 AAAAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 15 0.58
16 6 0.23
17 5 0.19
ACGTcount: A:0.05, C:0.00, G:0.16, T:0.80
Consensus pattern (15 bp):
TTGTTTTTGTTTTTG
Found at i:10737121 original size:89 final size:90
Alignment explanation
Indices: 10736964--10737130 Score: 266
Period size: 90 Copynumber: 1.9 Consensus size: 90
10736954 TTTTCTTTTG
* *
10736964 CACTCAATTGAGTACTTGAACTTTTAAAATGCATAAAAAAGACCCTCAAACTTCTTCAAAAAAAG
1 CACTCAATTGAGTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAAATTCTTCAAAAAAAG
10737029 TAATTAAG-CCCTTGCTTTTTCTCC
66 TAATTAAGTCCCTTGCTTTTTCTCC
* * *
10737053 CACTCAATTGGGTACTTGGAACTTTCAAAATGCATAAAAAAGACCTTCAAAATTTTTC-AAAAAA
1 CACTCAATTGAGTACTT-GAACTTTCAAAATGCATAAAAAAGACCCTCAAAATTCTTCAAAAAAA
10737117 GTAATTAAGTCCCT
65 GTAATTAAGTCCCT
10737131 GCTCATATTA
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
89 31 0.44
90 40 0.56
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (90 bp):
CACTCAATTGAGTACTTGAACTTTCAAAATGCATAAAAAAGACCCTCAAAATTCTTCAAAAAAAG
TAATTAAGTCCCTTGCTTTTTCTCC
Found at i:10737471 original size:19 final size:19
Alignment explanation
Indices: 10737449--10737501 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
10737439 TTCTTATGCC
*
10737449 TTTATAAAATTTTACAATT
1 TTTATAAATTTTTACAATT
* **
10737468 TTTATATATTTTTTTAATT
1 TTTATAAATTTTTACAATT
10737487 TTTAATAAATTTTTA
1 TTT-ATAAATTTTTA
10737502 ATATATGAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATAAATTTTTACAATT
Found at i:10743692 original size:30 final size:30
Alignment explanation
Indices: 10743640--10743698 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
10743630 AATTTTTAAA
**
10743640 ATTTCGGACATCTTAATATCTACTAGTAGT
1 ATTTCGGACATCCCAATATCTACTAGTAGT
* * *
10743670 ATTTTGGACATCCCAATGTCTACTGGTAG
1 ATTTCGGACATCCCAATATCTACTAGTAG
10743699 CATAGAGTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (30 bp):
ATTTCGGACATCCCAATATCTACTAGTAGT
Found at i:10746806 original size:42 final size:42
Alignment explanation
Indices: 10746689--10746843 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
10746679 TACCATACCA
* * *
10746689 ATGCCATATCCCAGATATGGTCTTACATGGGAG-CTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACA-CGAAGTCTCATATCG
* * * *
10746731 ATGCCAATAGCTCAGCTATGGTCTTACATGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* * * *
10746774 ATGACATATCCTAGATATGGTCTTACACGAAGTCTTATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
10746816 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
10746844 ATAGTCTTAG
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 64 0.67
43 31 0.33
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:10751172 original size:91 final size:91
Alignment explanation
Indices: 10751012--10751188 Score: 291
Period size: 91 Copynumber: 1.9 Consensus size: 91
10751002 TCAAAATATC
* *
10751012 AAAAATGTAACTTTACAGCAATTAAATAATATGAAAACACTTTCTAAAATATCCATTTAAGATTA
1 AAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCCAAAATATCCATTTAAGATTA
* *
10751077 CATCAATCAAACACATCCAAACAGTA
66 CATCAACCAAAAACATCCAAACAGTA
* * *
10751103 AAAAATGTAACTTTACAGCAAATAAATAATGTGAAAACACTTTCCAAAATCTCCATTTAAGATTG
1 AAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCCAAAATATCCATTTAAGATTA
10751168 CATCAACCAAAAACATCCAAA
66 CATCAACCAAAAACATCCAAA
10751189 TAACAGAAGG
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 79 1.00
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (91 bp):
AAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCCAAAATATCCATTTAAGATTA
CATCAACCAAAAACATCCAAACAGTA
Found at i:10763650 original size:25 final size:25
Alignment explanation
Indices: 10763617--10763666 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10763607 AAAAAGACCT
10763617 AAAAAATTCTACTTTATTTAATTCA
1 AAAAAATTCTACTTTATTTAATTCA
10763642 AAAAAATTCTACTTTATTTAATTCA
1 AAAAAATTCTACTTTATTTAATTCA
10763667 GGTTACTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (25 bp):
AAAAAATTCTACTTTATTTAATTCA
Found at i:10765056 original size:20 final size:20
Alignment explanation
Indices: 10765031--10765070 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10765021 AGAAAAAGAT
*
10765031 GACAAATTTTGTCCGTCTTC
1 GACAAATTTTGTCCATCTTC
*
10765051 GACAAATTTTTTCCATCTTC
1 GACAAATTTTGTCCATCTTC
10765071 AACTTTTAGC
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:0.23, C:0.25, G:0.10, T:0.42
Consensus pattern (20 bp):
GACAAATTTTGTCCATCTTC
Found at i:10766152 original size:22 final size:21
Alignment explanation
Indices: 10766126--10766189 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
10766116 TCTATTAATC
10766126 GATTAGCACTTCGATGCTCTCT
1 GATTAGCACTTCGATGC-CTCT
*
10766148 GATTAGCACTTTGATGCCT-T
1 GATTAGCACTTCGATGCCTCT
* * *
10766168 TATTTGCAGTTCGATGCCTCT
1 GATTAGCACTTCGATGCCTCT
10766189 G
1 G
10766190 TACAACACTA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
20 16 0.46
21 3 0.09
22 16 0.46
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.39
Consensus pattern (21 bp):
GATTAGCACTTCGATGCCTCT
Found at i:10767616 original size:16 final size:16
Alignment explanation
Indices: 10767587--10767656 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
10767577 TTTGGTTCGC
*
10767587 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
10767603 CGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
10767619 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
10767635 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
10767651 TGTAAT
1 TGTAAT
10767657 AGCAAATCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.31, C:0.01, G:0.36, T:0.31
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:10767701 original size:45 final size:44
Alignment explanation
Indices: 10767635--10767725 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
10767625 GGATTAGAGG
* *
10767635 TGTAATGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
10767680 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
10767724 TG
1 TG
10767726 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:10767905 original size:16 final size:17
Alignment explanation
Indices: 10767868--10767905 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
10767858 ATTTAATCAT
10767868 ATTTAAACATAATTATA
1 ATTTAAACATAATTATA
*
10767885 A-TTAAATAT-ATTATA
1 ATTTAAACATAATTATA
10767900 ATTTAA
1 ATTTAA
10767906 TAAAATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 11 0.58
17 1 0.05
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAACATAATTATA
Found at i:10767941 original size:22 final size:21
Alignment explanation
Indices: 10767851--10768136 Score: 83
Period size: 22 Copynumber: 14.0 Consensus size: 21
10767841 ATTATCAATA
* *
10767851 ATAA-ATAATTTAATCATATT
1 ATAATATAATTTAATAAAATT
* *
10767871 -TAAACATAATTATAATTAAA-T
1 AT-AATATAATT-TAATAAAATT
*
10767892 ATATTATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
* * *
10767913 CTTATATGAATTTACTAAAATT
1 ATAATAT-AATTTAATAAAATT
**
10767935 ATAATAT-A--TAATAGTA-T
1 ATAATATAATTTAATAAAATT
*
10767952 AAAATATAATTTAAAATAATAATT
1 ATAATATAATTT--AATAA-AATT
10767976 ATTAAATATAATTTAAT-AAA--
1 A-T-AATATAATTTAATAAAATT
10767996 A-AATATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
* * *
10768016 CTTA-AT-A-TTAA-AATATT
1 ATAATATAATTTAATAAAATT
* * * *
10768033 CTTATATGAATTTACTAAAATC
1 ATAATAT-AATTTAATAAAATT
*
10768055 ATAATAT-ATAATACTATAAAA-T
1 ATAATATAAT-TTA--ATAAAATT
* ** **
10768077 ATAATCTAAAATAATTATTATT
1 ATAATATAATTTAA-TAAAATT
*
10768099 A-AATATAATTTAATATAA--
1 ATAATATAATTTAATAAAATT
10768117 AT-ATATAATTTAATAAAATT
1 ATAATATAATTTAATAAAATT
10768137 CTTAGTATTA
Statistics
Matches: 195, Mismatches: 38, Indels: 66
0.65 0.13 0.22
Matches are distributed among these distances:
17 29 0.15
18 31 0.16
19 2 0.01
20 22 0.11
21 37 0.19
22 51 0.26
23 8 0.04
24 5 0.03
26 10 0.05
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.42
Consensus pattern (21 bp):
ATAATATAATTTAATAAAATT
Found at i:10767975 original size:13 final size:12
Alignment explanation
Indices: 10767951--10767991 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
10767941 TATAATAGTA
10767951 TAAAATATAATT
1 TAAAATATAATT
10767963 TAAAATAATAATT
1 TAAAAT-ATAATT
*
10767976 ATTAAATATAATT
1 -TAAAATATAATT
10767989 TAA
1 TAA
10767992 TAAAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:10768001 original size:17 final size:17
Alignment explanation
Indices: 10767979--10768013 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10767969 AATAATTATT
10767979 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
10767996 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
10768013 A
1 A
10768014 TTCTTAATAT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:10768124 original size:18 final size:17
Alignment explanation
Indices: 10768101--10768135 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
10768091 TTATTATTAA
10768101 ATATAATTTAATATAAAT
1 ATATAATTTAATA-AAAT
10768119 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
10768136 TCTTAGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:10768194 original size:61 final size:60
Alignment explanation
Indices: 10767906--10768196 Score: 192
Period size: 61 Copynumber: 4.8 Consensus size: 60
10767896 TATAATTTAA
* * *
10767906 TAAA-ATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAA-T-ATAAT-T
1 TAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
** * * ** * * *
10767963 TAAAATAATAATTATTA-AATATAATTTAAT-AAAAAATATAAT-TTAATAAAATTCTTAATAT
1 T-AAAT-ATTCTTA-TAGAATTTACTAAAATCATAATATATAATACT-ATAAAATTCTTAATAT
* *
10768024 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-T-ATAATCT
1 T-AAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
* * * * ** * *
10768084 AAAATAATTATTATTA-AATATAATTTAAT-ATAAATATATAAT-TTAATAAAATTCTTAGTAT
1 TAAAT-ATTCTTA-TAGAATTTACTAAAATCAT-AATATATAATACT-ATAAAATTCTTAATAT
10768145 TAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAAT
1 TAAATATTCTTATA-GAATTTACTAAAATCATAATATATAATACTATAAAAT
10768197 ATAATCTAAA
Statistics
Matches: 174, Mismatches: 38, Indels: 40
0.69 0.15 0.16
Matches are distributed among these distances:
57 2 0.01
58 22 0.13
59 43 0.25
60 32 0.18
61 55 0.32
62 19 0.11
63 1 0.01
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (60 bp):
TAAATATTCTTATAGAATTTACTAAAATCATAATATATAATACTATAAAATTCTTAATAT
Found at i:10768212 original size:120 final size:119
Alignment explanation
Indices: 10767906--10768212 Score: 526
Period size: 120 Copynumber: 2.6 Consensus size: 119
10767896 TATAATTTAA
* * *
10767906 TAAA-ATTCTTATATGAATTTACTAAAATTATAATATATAATAGTATAAAATATAATTTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
*
10767970 ATAATTATTAAATATAATTTAATAAAAAATATAATTTAATAAAATTCTTAATAT
66 ATTATTATTAAATATAATTTAATAAAAAATATAATTTAATAAAATTCTTAATAT
10768024 TAAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
1 T-AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAAT
* *
10768089 AATTATTATTAAATATAATTTAATATAAATATATAATTTAATAAAATTCTTAGTAT
65 AATTATTATTAAATATAATTTAATA-AAAAATATAATTTAATAAAATTCTTAATAT
*
10768145 TAAATATTCTTATACGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
1 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
10768210 ATT
66 ATT
10768213 GATTTTGTGG
Statistics
Matches: 179, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
118 1 0.01
119 3 0.02
120 146 0.82
121 29 0.16
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (119 bp):
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATCTAAAATA
ATTATTATTAAATATAATTTAATAAAAAATATAATTTAATAAAATTCTTAATAT
Found at i:10769712 original size:13 final size:13
Alignment explanation
Indices: 10769696--10769725 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10769686 TAGACCAAGC
10769696 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
*
10769709 TTTTCATAAGCAT
1 TTTTCAAAAGCAT
10769722 TTTT
1 TTTT
10769726 TTGCAGCACT
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:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:10775671 original size:18 final size:18
Alignment explanation
Indices: 10775640--10775675 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
10775630 CGGTGATGAA
10775640 ATTTGTATTTTTTATTTT
1 ATTTGTATTTTTTATTTT
10775658 ATTT-TATTTATTTATTTT
1 ATTTGTATTT-TTTATTTT
10775676 TGTTTTTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (18 bp):
ATTTGTATTTTTTATTTT
Found at i:10776793 original size:25 final size:26
Alignment explanation
Indices: 10776765--10776820 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 26
10776755 TTTTGAAATT
* *
10776765 TATTTTTATATCATATTAT-TTTAAC
1 TATTTTTATATAATATTATGTTTAAA
*
10776790 TA--TTTATATAATATTTTGTTTAAA
1 TATTTTTATATAATATTATGTTTAAA
10776814 TATTTTT
1 TATTTTT
10776821 TGTGTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 2 0.08
26 3 0.12
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (26 bp):
TATTTTTATATAATATTATGTTTAAA
Found at i:10776803 original size:23 final size:24
Alignment explanation
Indices: 10776769--10776818 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
10776759 GAAATTTATT
* *
10776769 TTTATATCATATTAT-TTTAACTA
1 TTTATATAATATTATGTTTAAATA
*
10776792 TTTATATAATATTTTGTTTAAATA
1 TTTATATAATATTATGTTTAAATA
10776816 TTT
1 TTT
10776819 TTTGTGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTATATAATATTATGTTTAAATA
Found at i:10781420 original size:7 final size:7
Alignment explanation
Indices: 10781401--10781430 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
10781391 TAGCCAAAGC
10781401 TATCTCA
1 TATCTCA
10781408 -ATCTCA
1 TATCTCA
10781414 TATCTCA
1 TATCTCA
10781421 TATCTCA
1 TATCTCA
10781428 TAT
1 TAT
10781431 AATGCTCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (7 bp):
TATCTCA
Found at i:10784834 original size:23 final size:23
Alignment explanation
Indices: 10784808--10784852 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10784798 TCCATACTTA
*
10784808 ATTTTAAAAAATATATTAAATAG
1 ATTTTAAAAAATAAATTAAATAG
* *
10784831 ATTTTATAAATTAAATTAAATA
1 ATTTTAAAAAATAAATTAAATA
10784853 CTTAATTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
ATTTTAAAAAATAAATTAAATAG
Found at i:10795500 original size:24 final size:26
Alignment explanation
Indices: 10795449--10795500 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
10795439 ATCGATAGAA
**
10795449 ATTATAAGTTGAGAATAATTTATTTTG
1 ATTATAAGTTGAGAAT-ATTTAGCTTG
10795476 ATTATAAGTTGAGAAT-TTT-GCTTG
1 ATTATAAGTTGAGAATATTTAGCTTG
10795500 A
1 A
10795501 GGACAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 4 0.17
25 3 0.13
27 16 0.70
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (26 bp):
ATTATAAGTTGAGAATATTTAGCTTG
Found at i:10804602 original size:17 final size:17
Alignment explanation
Indices: 10804528--10804615 Score: 70
Period size: 17 Copynumber: 4.8 Consensus size: 17
10804518 CAAAAACAAA
10804528 TATATAAAAAATTCAAAAT
1 TATA-AAAAAATT-AAAAT
*
10804547 TAT-AAAAATTTAGAAAAT
1 TATAAAAAAATT--AAAAT
*
10804565 TATAACAAAAGAAATATAAAT
1 TAT-A-AAAA-AATTA-AAAT
*
10804586 TCTAAAAAAATTAAAAT
1 TATAAAAAAATTAAAAT
10804603 TATAAAAAAATTA
1 TATAAAAAAATTA
10804616 GCTAAAATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
17 23 0.41
18 12 0.21
19 7 0.12
20 2 0.04
21 10 0.18
22 2 0.04
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (17 bp):
TATAAAAAAATTAAAAT
Found at i:10805892 original size:15 final size:14
Alignment explanation
Indices: 10805824--10805925 Score: 57
Period size: 14 Copynumber: 6.9 Consensus size: 14
10805814 TTATTCCTAT
10805824 TATTTTTATGTT-TC
1 TATTTTTAT-TTATC
*
10805838 TATTTATATTTAT-
1 TATTTTTATTTATC
* *
10805851 T-TTGTTATTCTAATAA
1 TATTTTTATT-T-AT-C
*
10805867 TATTATTATTTATC
1 TATTTTTATTTATC
10805881 TACTTTTTATTTATC
1 TA-TTTTTATTTATC
* *
10805896 TATTTATATTTCTAC
1 TATTTTTATTTAT-C
10805911 TATTATTATATTTAT
1 TATT-TT-TATTTAT
10805926 ATTTATTATA
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
12 6 0.09
13 4 0.06
14 22 0.32
15 20 0.29
16 3 0.04
17 13 0.19
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:10805931 original size:15 final size:15
Alignment explanation
Indices: 10805899--10805944 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
10805889 ATTTATCTAT
*
10805899 TTATATTTCTACTATTA
1 TTATATTTATA-T-TTA
10805916 TTATATTTATATTTA
1 TTATATTTATATTTA
*
10805931 TTATATTTTTATTT
1 TTATATTTATATTT
10805945 CTATTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 16 0.59
16 1 0.04
17 10 0.37
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTATATTTA
Found at i:10805937 original size:23 final size:22
Alignment explanation
Indices: 10805896--10805993 Score: 69
Period size: 23 Copynumber: 4.4 Consensus size: 22
10805886 TTTATTTATC
*
10805896 TATTTATATTT-CTACTATTATT
1 TATTTATATTTATTACTATT-TT
10805918 ATATTTATATTTATTA-TATTTT
1 -TATTTATATTTATTACTATTTT
* * *
10805940 TATTTCTATTTATATACTAATAT
1 TATTTATATTTAT-TACTATTTT
*
10805963 TATTT-TCA-TTATTACTTTTTT
1 TATTTAT-ATTTATTACTATTTT
*
10805984 TCTTATATAT
1 TATT-TATAT
10805994 GTTTTTTACT
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
21 21 0.35
22 11 0.18
23 26 0.43
24 2 0.03
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTATATTTATTACTATTTT
Found at i:10806081 original size:24 final size:26
Alignment explanation
Indices: 10806025--10806074 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
10806015 CATTCTATTT
*
10806025 ATTTATTTGTTTATTTATTTATTTTAC
1 ATTT-TTTGTTTATTTATCTATTTTAC
10806052 ATTTTTTG-TTA-TTATCTATTTTA
1 ATTTTTTGTTTATTTATCTATTTTA
10806075 GCTTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 3 0.14
26 4 0.18
27 4 0.18
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (26 bp):
ATTTTTTGTTTATTTATCTATTTTAC
Found at i:10813398 original size:133 final size:132
Alignment explanation
Indices: 10813084--10813513 Score: 610
Period size: 133 Copynumber: 3.2 Consensus size: 132
10813074 AAATGGCGAG
* *
10813084 TCTTATCTCCATTTATCAGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
* * * ** * * * * *
10813149 AGAGAGTAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAGTAGGGTAA-CAGGCTAAAAATTAC
66 AGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCTAGGTAGCAAGG-AAGCAGACTAAAAATTAC
10813213 AGA
130 AGA
* * *
10813216 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTAAGGTAACA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
* * *
10813281 AAAGAGTAGGTTGATGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTAT
66 AGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCT-AGGTAGCAAGGAAGCAGACTAAAAATTAC
10813346 AGA
130 AGA
**
10813349 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
* * * *
10813414 AGAGAGCAGGCTAAAGATACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTAC
66 AGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCT-AGGTAGCAAGGAAGCAGACTAAAAATTAC
10813479 AGA
130 AGA
10813482 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
10813514 CGATAATGGC
Statistics
Matches: 265, Mismatches: 31, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
132 90 0.34
133 175 0.66
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (132 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
AGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCTAGGTAGCAAGGAAGCAGACTAAAAATTACA
GA
Found at i:10813511 original size:45 final size:44
Alignment explanation
Indices: 10813462--10813737 Score: 186
Period size: 45 Copynumber: 6.2 Consensus size: 44
10813452 GTAGCAAGGA
*
10813462 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGG
1 AGCAGA-TGAAAATTACAGATCTTATCTCCATGTATCAGCTATGG
* **
10813507 AGCAGATCGATAATGGCA-AGTCTTATCTCCATGTATCAGCTATGG
1 AGCAGAT-GAAAATTACAGA-TCTTATCTCCATGTATCAGCTATGG
*** *** * *
10813552 AGCAGATTTTAGCCACCAG-TCTTATCTCTC-TGAAGT-AGC-AAGAG
1 AGCAGATGAAAATTA-CAGATCTTATCTC-CATGTA-TCAGCTATG-G
* * * * * *
10813596 AGCAGGTTGAAAAATACAGGTCTTATTTCCATGTATCGGCTATAG
1 AGCA-GATGAAAATTACAGATCTTATCTCCATGTATCAGCTATGG
* * *
10813641 AGTAGACTGAGAATTATAGATCTTATCTCCATGTATCAGCTATGG
1 AGCAGA-TGAAAATTACAGATCTTATCTCCATGTATCAGCTATGG
* ** *
10813686 AGTAGATCGAAAATGGC-GAGTCCTATCTCCATGTATCAGCTATGG
1 AGCAGAT-GAAAATTACAGA-TCTTATCTCCATGTATCAGCTATGG
10813731 AGCAGAT
1 AGCAGAT
10813738 TTTAGCCACC
Statistics
Matches: 177, Mismatches: 39, Indels: 30
0.72 0.16 0.12
Matches are distributed among these distances:
43 2 0.01
44 33 0.19
45 141 0.80
46 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
AGCAGATGAAAATTACAGATCTTATCTCCATGTATCAGCTATGG
Found at i:10813607 original size:134 final size:134
Alignment explanation
Indices: 10813302--10813692 Score: 333
Period size: 134 Copynumber: 2.9 Consensus size: 134
10813292 TGATGATACA
* *
10813302 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACT-AAAAATTATAGATCTTATCTCCATGTATC
1 AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAAA-TACAGATCTTATCTCCATGTATC
* * * * * * * *
10813366 GGCTATGGAGCAGATTTTAG--CCACCA-ACCTTATCTCTC-TG-AGGT-AGC-AAGAGAGCAGG
65 GGCTATAGAGCAGA-CTGAGAATCA-TAGATCTTATCTC-CATGTA--TCAGCTATG-GAGCAGA
* ** ** *
10813424 CTAAAGATACA
124 TTTTAGCCACC
*
10813435 AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAAATACAGATCTTATCTCCATGTATCG
* *
10813500 GCTATGGAGCAGA-TCGATAATGGCA-AG-TCTTATCTCCATGTATCAGCTATGGAGCAGATTTT
66 GCTATAGAGCAGACT-GAGAAT--CATAGATCTTATCTCCATGTATCAGCTATGGAGCAGATTTT
10813562 AGCCACC
128 AGCCACC
** * *
10813569 AGTCTTATC-TCTCTGAA-GTAGCAA-GAGAGCAGGTTGAAAAATACAGGTCTTATTTCCATGTA
1 AGTCTTATCTTC-CT-AAGGTAGCAAGGA-AGCAGACTGAAAAATACAGATCTTATCTCCATGTA
* * *
10813631 TCGGCTATAGAGTAGACTGAGAATTATAGATCTTATCTCCATGTATCAGCTATGGAGTAGAT
63 TCGGCTATAGAGCAGACTGAGAATCATAGATCTTATCTCCATGTATCAGCTATGGAGCAGAT
10813693 CGAAAATGGC
Statistics
Matches: 216, Mismatches: 25, Indels: 33
0.79 0.09 0.12
Matches are distributed among these distances:
131 1 0.00
132 2 0.01
133 78 0.36
134 127 0.59
135 6 0.03
136 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (134 bp):
AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAAATACAGATCTTATCTCCATGTATCG
GCTATAGAGCAGACTGAGAATCATAGATCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGC
CACC
Found at i:10813721 original size:179 final size:179
Alignment explanation
Indices: 10813352--10813842 Score: 656
Period size: 179 Copynumber: 2.7 Consensus size: 179
10813342 TTATAGATCT
* *
10813352 TATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGA
1 TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTAGCAAGA
* * * * *
10813417 GAGCAGGCTAAAGATACAAGTCTTATCTTCCTAAGGTA---GC-A-AGGAAGCAGACTGAAAATT
66 GAGCAGGTTAAAAATACAGGTCTTATCTTCC--ATGTATCGGCTATA-G-AGTAGACTGAAAATT
* * *
10813477 ACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGATAATGGCAAGTCT
127 ACAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCAAGTCC
**
10813530 TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAAGTAGCAAGA
1 TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTAGCAAGA
* *
10813595 GAGCAGGTTGAAAAATACAGGTCTTAT-TTCCATGTATCGGCTATAGAGTAGACTGAGAATTATA
66 GAGCAGGTT-AAAAATACAGGTCTTATCTTCCATGTATCGGCTATAGAGTAGACTGAAAATTACA
* *
10813659 GATCTTATCTCCATGTATCAGCTATGGAGTAGATCGAAAATGGCGAGTCC
130 GATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCAAGTCC
*
10813709 TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCT-AAGGTAGCAGG
1 TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAA-GTAGCAAG
* * * * * *
10813773 AGAGCAGGTTCAAAATTGCAGGTCTTATCTT-CATATATCGGCTATGGAGTACACTGAAAAATAC
65 AGAGCAGGTT-AAAAATACAGGTCTTATCTTCCATGTATCGGCTATAGAGTAGACTGAAAATTAC
10813837 AGATCT
129 AGATCT
10813843 CCCCTAAACA
Statistics
Matches: 277, Mismatches: 28, Indels: 15
0.87 0.09 0.05
Matches are distributed among these distances:
176 4 0.01
178 75 0.27
179 193 0.70
180 4 0.01
181 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (179 bp):
TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTAGCAAGA
GAGCAGGTTAAAAATACAGGTCTTATCTTCCATGTATCGGCTATAGAGTAGACTGAAAATTACAG
ATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCAAGTCC
Found at i:10814062 original size:88 final size:88
Alignment explanation
Indices: 10813839--10814378 Score: 693
Period size: 88 Copynumber: 6.2 Consensus size: 88
10813829 AAAAATACAG
* * * ** *
10813839 ATCTCCCCTAAACAATAGTGGAGCAGATTGAAGACAGCAAACCTTAACCCCCTAAGCAGTAGGGT
1 ATCT-CCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
10813904 AACAGGCTGGAAAA-TA-A-A---T
65 AACAGGCT-GAAAATTACAGATCTT
* * *
10813923 ATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAGCGAGCTTTAACCCCCTAAGCAGTAGGGT
1 ATCT-CCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
10813988 AACAGGCTGAAAATTACAGATCTT
65 AACAGGCTGAAAATTACAGATCTT
* * ** *
10814012 ATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGTGAGCCTTAACCCCCTAAGCAGTAAGGTA
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTA
*
10814077 ACAGGCTGAAAATTACAGACCTT
66 ACAGGCTGAAAATTACAGATCTT
** * * *
10814100 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAGCCTTAACTCTCTAAGCAATAGGGTA
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTA
* *
10814165 GCAGGCTAAAAATTACAGATCTT
66 ACAGGCTGAAAATTACAGATCTT
* * *
10814188 ATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACAGTGAGCTTTAACCCCCTAAGCAGTAGGGTA
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTA
10814253 ACAGGCTGAAAATTACAGATCTT
66 ACAGGCTGAAAATTACAGATCTT
* * * *
10814276 ATCTCCCTAAGCAGTAGTGGAGCAGATCTAGGACGGTGAGCCTTATCCCCCTAAGCAGT-GGG-A
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTA
* *
10814339 AGCAGACTG-AAATTACAAATCTT
66 A-CAGGCTGAAAATTACAGATCTT
*
10814362 ATCTCCCTAAGTAGTAG
1 ATCTCCCTAAGCAGTAG
10814379 GGAAACAAGC
Statistics
Matches: 406, Mismatches: 43, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
83 5 0.01
84 70 0.17
85 1 0.00
86 32 0.08
87 9 0.02
88 284 0.70
89 5 0.01
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (88 bp):
ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTA
ACAGGCTGAAAATTACAGATCTT
Found at i:10814401 original size:130 final size:132
Alignment explanation
Indices: 10814236--10814510 Score: 376
Period size: 130 Copynumber: 2.1 Consensus size: 132
10814226 AGCTTTAACC
* * * *
10814236 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
1 CCCTAAGCAGTAGGGAAACAAGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAG
* ** * *
10814301 ATCTAGGACGGTGAGCCTTATCCCCCTAAGCAGT-G-GGAAGCAGACT-GAAATTACAAATCTTA
66 ATCGAAAACGGTAAGCCTTATCCCCCTAAGCAGTAGTGG-AGCAGACTAAAAATTACAAATCTTA
10814363 TCT
130 TCT
*
10814366 CCCTAAGTAGTAGGGAAACAAGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAG
1 CCCTAAGCAGTAGGGAAACAAGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAG
* * * * * *
10814431 ATCGAAAATGGTAAGCCTTATCTCCCTGAGTAGTAGTGGAGCAGGCTAAAAATTACAGATCTTAT
66 ATCGAAAACGGTAAGCCTTATCCCCCTAAGCAGTAGTGGAGCAGACTAAAAATTACAAATCTTAT
10814496 CT
131 CT
10814498 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
10814511 TGGGGCAGAT
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
130 86 0.69
131 8 0.06
132 31 0.25
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.23
Consensus pattern (132 bp):
CCCTAAGCAGTAGGGAAACAAGCTAAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAG
ATCGAAAACGGTAAGCCTTATCCCCCTAAGCAGTAGTGGAGCAGACTAAAAATTACAAATCTTAT
CT
Found at i:10814530 original size:44 final size:44
Alignment explanation
Indices: 10813972--10814530 Score: 334
Period size: 44 Copynumber: 12.8 Consensus size: 44
10813962 AGCTTTAACC
* *
10813972 CCCTAAGCAGTAG-GGTAACAGGCTGAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGACTGAAAATTACAGATCTTATCT
* * * * * * *
10814016 CCCTAAGCAGTAGTGGAGTAGATTGAAGATGGT-GAG-CCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGACTGAAAAT--TACAGATCTTATCT
* * * *
10814060 CCCTAAGCAGTAAG-GTAACAGGCTGAAAATTACAGACCTTATCT
1 CCCTAAGCAGT-AGTGGAGCAGACTGAAAATTACAGATCTTATCT
* * * *
10814104 CCCTAAGCAGTAGTGGAGCAGA-TCGAAGATGGT-GAG-CCTTAACT
1 CCCTAAGCAGTAGTGGAGCAGACT-GAAAAT--TACAGATCTTATCT
* * * *
10814148 CTCTAAGCAATAG-GGTAGCAGGCTAAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGACTGAAAATTACAGATCTTATCT
* * * * * * *
10814192 CCCTAAGTAGTAGTGGAGTAGA-TCGAAGACAGT-GAGCT-TTAACC
1 CCCTAAGCAGTAGTGGAGCAGACT-GAA-A-ATTACAGATCTTATCT
* *
10814236 CCCTAAGCAGTAG-GGTAACAGGCTGAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGACTGAAAATTACAGATCTTATCT
* *** * * *
10814280 CCCTAAGCAGTAGTGGAGCAGATCTAGGACGGT-GAG-CCTTATCC
1 CCCTAAGCAGTAGTGGAGCAGA-CT-GAAAATTACAGATCTTATCT
*
10814324 CCCTAAGCAGT-G-GGAAGCAGACTG-AAATTACAAATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGACTGAAAATTACAGATCTTATCT
* * *
10814366 CCCTAAGTAGTAG-GGAAACA-AGCTAAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGA-CTGAAAATTACAGATCTTATCT
* *
10814410 CCCTAAGCAGTAGCGGAGCAGA-TCGAAAATGGTA-AG-CCTTATCT
1 CCCTAAGCAGTAGTGGAGCAGACT-GAAAAT--TACAGATCTTATCT
* * * *
10814454 CCCTGAGTAGTAGTGGAGCAGGCTAAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGGAGCAGACTGAAAATTACAGATCTTATCT
* * *
10814498 CCCTAAGCAGTAGTGGGGCAGATTGAAGATTAC
1 CCCTAAGCAGTAGTGGAGCAGACTGAAAATTAC
10814531 CAAATTTTAT
Statistics
Matches: 387, Mismatches: 89, Indels: 78
0.70 0.16 0.14
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 27 0.07
43 35 0.09
44 284 0.73
45 28 0.07
46 9 0.02
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (44 bp):
CCCTAAGCAGTAGTGGAGCAGACTGAAAATTACAGATCTTATCT
Found at i:10815572 original size:15 final size:15
Alignment explanation
Indices: 10815552--10815618 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
10815542 TTCTAATACT
10815552 ATTATTATTTATCTA
1 ATTATTATTTATCTA
10815567 ATTATTATTTATCTA
1 ATTATTATTTATCTA
* *
10815582 TTTA-TATTTCTACT-
1 ATTATTATTTAT-CTA
10815596 ATTATTATATT-TCTA
1 ATTATTAT-TTATCTA
*
10815611 TTTATTAT
1 ATTATTAT
10815619 ATTTTTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.25
15 31 0.70
16 2 0.05
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTATCTA
Found at i:10815582 original size:29 final size:29
Alignment explanation
Indices: 10815550--10815618 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 29
10815540 TATTCTAATA
10815550 CTATTATTATTTAT-CTAATTATTAT-TTAT
1 CTATTATTATTTATACT-ATTATTATATT-T
*
10815579 CTATT-TATATTTCTACTATTATTATATTT
1 CTATTAT-TATTTATACTATTATTATATTT
10815608 CTATTTATTAT
1 CTA-TTATTAT
10815619 ATTTTTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
28 1 0.03
29 23 0.68
30 9 0.26
31 1 0.03
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (29 bp):
CTATTATTATTTATACTATTATTATATTT
Found at i:10815619 original size:15 final size:15
Alignment explanation
Indices: 10815583--10815628 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
10815573 ATTTATCTAT
10815583 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
10815600 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
10815615 TTATATTTTTATTT
1 TTATATTTCTATTT
10815629 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:10817851 original size:15 final size:16
Alignment explanation
Indices: 10817826--10817860 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
10817816 TACAGATAGA
10817826 TTTATATTTTTATAAT
1 TTTATATTTTTATAAT
*
10817842 TTTATA-TTTTATTAT
1 TTTATATTTTTATAAT
10817857 TTTA
1 TTTA
10817861 CAAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATATTTTTATAAT
Found at i:10824347 original size:15 final size:14
Alignment explanation
Indices: 10824279--10824380 Score: 57
Period size: 14 Copynumber: 6.9 Consensus size: 14
10824269 TTATTCCTAT
10824279 TATTTTTATGTT-TC
1 TATTTTTAT-TTATC
*
10824293 TATTTATATTTAT-
1 TATTTTTATTTATC
* *
10824306 T-TTGTTATTCTAATAA
1 TATTTTTATT-T-AT-C
*
10824322 TATTATTATTTATC
1 TATTTTTATTTATC
10824336 TACTTTTTATTTATC
1 TA-TTTTTATTTATC
* *
10824351 TATTTATATTTCTAC
1 TATTTTTATTTAT-C
10824366 TATTATTATATTTAT
1 TATT-TT-TATTTAT
10824381 ATTTATTATA
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
12 6 0.09
13 4 0.06
14 22 0.32
15 20 0.29
16 3 0.04
17 13 0.19
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (14 bp):
TATTTTTATTTATC
Found at i:10824386 original size:15 final size:15
Alignment explanation
Indices: 10824354--10824399 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
10824344 ATTTATCTAT
*
10824354 TTATATTTCTACTATTA
1 TTATATTTATA-T-TTA
10824371 TTATATTTATATTTA
1 TTATATTTATATTTA
*
10824386 TTATATTTTTATTT
1 TTATATTTATATTT
10824400 CTATTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 16 0.59
16 1 0.04
17 10 0.37
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTATATTTA
Found at i:10824392 original size:23 final size:22
Alignment explanation
Indices: 10824351--10824448 Score: 69
Period size: 23 Copynumber: 4.4 Consensus size: 22
10824341 TTTATTTATC
*
10824351 TATTTATATTT-CTACTATTATT
1 TATTTATATTTATTACTATT-TT
10824373 ATATTTATATTTATTA-TATTTT
1 -TATTTATATTTATTACTATTTT
* * *
10824395 TATTTCTATTTATATACTAATAT
1 TATTTATATTTAT-TACTATTTT
*
10824418 TATTT-TCA-TTATTACTTTTTT
1 TATTTAT-ATTTATTACTATTTT
*
10824439 TCTTATATAT
1 TATT-TATAT
10824449 GTTTTTTACT
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
21 21 0.35
22 11 0.18
23 26 0.43
24 2 0.03
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTATATTTATTACTATTTT
Found at i:10824536 original size:24 final size:26
Alignment explanation
Indices: 10824480--10824529 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
10824470 CATTCTATTT
*
10824480 ATTTATTTGTTTATTTATTTATTTTAC
1 ATTT-TTTGTTTATTTATCTATTTTAC
10824507 ATTTTTTG-TTA-TTATCTATTTTA
1 ATTTTTTGTTTATTTATCTATTTTA
10824530 GCTTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 3 0.14
26 4 0.18
27 4 0.18
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (26 bp):
ATTTTTTGTTTATTTATCTATTTTAC
Found at i:10831854 original size:133 final size:132
Alignment explanation
Indices: 10831541--10831970 Score: 594
Period size: 133 Copynumber: 3.2 Consensus size: 132
10831531 AAATGGCGAG
* * *
10831541 TCTTATCTCCATTTATCAGCTATTGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
* * * ** * * * *
10831606 AGAGAGTAGGTTGAAGATACGAGCCTTAACCCCCTAAGCAG-TAGGCTAA-CAGGCTAAAAATTA
66 AGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCTAGGTAGCAAGG--AAGCAGACTAAAAATTA
10831669 TAGA
129 TAGA
* * *
10831673 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTAAGGTAACA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
*
10831738 AGAGAGTAGGTTGATGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAAATTAT
66 AGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCT-AGGTAGCAAGGAAGCAGACTAAAAATTAT
10831803 AGA
130 AGA
* **
10831806 TCTTATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
* * * * *
10831871 AGAGAGCAGGCTAAAGATACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTAC
66 AGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCT-AGGTAGCAAGGAAGCAGACTAAAAATTAT
10831936 AGA
130 AGA
10831939 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
10831971 CGATAATGGC
Statistics
Matches: 267, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
132 90 0.34
133 174 0.65
134 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (132 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCA
AGAGAGTAGGTTGAAGATACAAGTCTTATCTTCCTAGGTAGCAAGGAAGCAGACTAAAAATTATA
GA
Found at i:10831968 original size:45 final size:44
Alignment explanation
Indices: 10831919--10832194 Score: 186
Period size: 45 Copynumber: 6.2 Consensus size: 44
10831909 GTAGCAAGGA
*
10831919 AGCAGACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATGG
1 AGCAGA-TGAAAATTACAGATCTTATCTCCATGTATCAGCTATGG
* **
10831964 AGCAGATCGATAATGGCA-AGTCTTATCTCCATGTATCAGCTATGG
1 AGCAGAT-GAAAATTACAGA-TCTTATCTCCATGTATCAGCTATGG
*** *** * *
10832009 AGCAGATTTTAGCCACCAG-TCTTATCTCTC-TGAAGT-AGC-AAGAG
1 AGCAGATGAAAATTA-CAGATCTTATCTC-CATGTA-TCAGCTATG-G
* * * * * *
10832053 AGCAGGTTGAAAAATGCAGGTCTTATTTCCATGTATCAGCTATAG
1 AGCA-GATGAAAATTACAGATCTTATCTCCATGTATCAGCTATGG
* * *
10832098 AGTAGACTGAGAATTATAGATCTTATCTCCATGTATCAGCTATGG
1 AGCAGA-TGAAAATTACAGATCTTATCTCCATGTATCAGCTATGG
* ** *
10832143 AGTAGATCGAAAATGGC-GAGTCCTATCTCCATGTATCAGCTATGG
1 AGCAGAT-GAAAATTACAGA-TCTTATCTCCATGTATCAGCTATGG
10832188 AGCAGAT
1 AGCAGAT
10832195 TTTAGCCACC
Statistics
Matches: 177, Mismatches: 39, Indels: 30
0.72 0.16 0.12
Matches are distributed among these distances:
43 2 0.01
44 33 0.19
45 141 0.80
46 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
AGCAGATGAAAATTACAGATCTTATCTCCATGTATCAGCTATGG
Found at i:10832064 original size:134 final size:134
Alignment explanation
Indices: 10831892--10832149 Score: 312
Period size: 134 Copynumber: 1.9 Consensus size: 134
10831882 TAAAGATACA
* *
10831892 AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAATTACAGATCTTATCTCCATGTATCG
1 AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAAATACAGATCTTATCTCCATGTATCA
* *
10831957 GCTATGGAGCAGA-TCGATAATGGCA-AG-TCTTATCTCCATGTATCAGCTATGGAGCAGATTTT
66 GCTATAGAGCAGACT-GAGAAT--CATAGATCTTATCTCCATGTATCAGCTATGGAGCAGATTTT
10832019 AGCCACC
128 AGCCACC
** * * *
10832026 AGTCTTATC-TCTCTGAA-GTAGCAA-GAGAGCAGGTTGAAAAATGCAGGTCTTATTTCCATGTA
1 AGTCTTATCTTC-CT-AAGGTAGCAAGGA-AGCAGACTGAAAAATACAGATCTTATCTCCATGTA
* * *
10832088 TCAGCTATAGAGTAGACTGAGAATTATAGATCTTATCTCCATGTATCAGCTATGGAGTAGAT
63 TCAGCTATAGAGCAGACTGAGAATCATAGATCTTATCTCCATGTATCAGCTATGGAGCAGAT
10832150 CGAAAATGGC
Statistics
Matches: 106, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
132 1 0.01
133 6 0.06
134 96 0.91
135 3 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (134 bp):
AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAAAATACAGATCTTATCTCCATGTATCA
GCTATAGAGCAGACTGAGAATCATAGATCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGC
CACC
Found at i:10832176 original size:179 final size:179
Alignment explanation
Indices: 10831809--10832299 Score: 654
Period size: 179 Copynumber: 2.7 Consensus size: 179
10831799 TTATAGATCT
* * *
10831809 TATCTCTATGTATCGGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAGGTAGCAAGA
1 TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTAGCAAGA
* * * * * * *
10831874 GAGCAGGCTAAAGATACAAGTCTTATCTTCCTAAG-GT-AGC-A-AGGAAGCAGACTGAAAATTA
66 GAGCAGGTTAAAAATGCAGGTCTTATCTTCC-ATGTATCAGCTATA-G-AGTAGACTGAAAATTA
* * *
10831935 CAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGATAATGGCAAGTCT
128 CAGATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCAAGTCC
**
10831987 TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAAGTAGCAAGA
1 TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTAGCAAGA
* *
10832052 GAGCAGGTTGAAAAATGCAGGTCTTAT-TTCCATGTATCAGCTATAGAGTAGACTGAGAATTATA
66 GAGCAGGTT-AAAAATGCAGGTCTTATCTTCCATGTATCAGCTATAGAGTAGACTGAAAATTACA
* *
10832116 GATCTTATCTCCATGTATCAGCTATGGAGTAGATCGAAAATGGCGAGTCC
130 GATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCAAGTCC
*
10832166 TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCT-AAGGTAGCAGG
1 TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAA-GTAGCAAG
* * * * *
10832230 AGAGCAGGTTCAAAATTGCAGGTCTTATCTT-CATATATCGGCTATGGAGTAGACTGAAAAATAC
65 AGAGCAGGTT-AAAAATGCAGGTCTTATCTTCCATGTATCAGCTATAGAGTAGACTGAAAATTAC
10832294 AGATCT
129 AGATCT
10832300 CCCCTAAACA
Statistics
Matches: 276, Mismatches: 30, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
177 2 0.01
178 75 0.27
179 194 0.70
180 4 0.01
181 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (179 bp):
TATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTGAAGTAGCAAGA
GAGCAGGTTAAAAATGCAGGTCTTATCTTCCATGTATCAGCTATAGAGTAGACTGAAAATTACAG
ATCTTATCTCCATGTATCAGCTATGGAGCAGATCGAAAATGGCAAGTCC
Found at i:10832245 original size:89 final size:88
Alignment explanation
Indices: 10831975--10832278 Score: 253
Period size: 89 Copynumber: 3.4 Consensus size: 88
10831965 GCAGATCGAT
* *
10831975 AATGGCAAGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCT
1 AATGGCAGGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAATCTTATCTCTCT
* *
10832040 GAAGTAGCAAGAGAGCAGGTTGAAA
66 -AAGTAGCAGGAGAGCAGGTT-CAA
* * * * * * **
10832065 AAT-GCAGGTCTTATTTCCATGTATCAGCTATAGAGTAGA-CTGAG-AATTATAGATCTTATCTC
1 AATGGCAGGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCA--CCA-ATCTTATCTC
* * * * *
10832127 -C-ATGTATCAGCTATGGAGTA-GATCGAA
63 TCTAAGTAGCAG-GA--GAGCAGGTTC-AA
* *
10832154 AATGGC-GAGTCCTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAACCTTATCTCTC
1 AATGGCAG-GTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAATCTTATCTCTC
10832218 TAAGGTAGCAGGAGAGCAGGTTCAA
65 TAA-GTAGCAGGAGAGCAGGTTCAA
* * * *
10832243 AATTGCAGGTCTTATCTTCATATATCGGCTATGGAG
1 AATGGCAGGTCTTATCTCCATGTATCAGCTATGGAG
10832279 TAGACTGAAA
Statistics
Matches: 161, Mismatches: 37, Indels: 33
0.70 0.16 0.14
Matches are distributed among these distances:
87 7 0.04
88 4 0.02
89 86 0.53
90 52 0.32
91 5 0.03
92 7 0.04
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (88 bp):
AATGGCAGGTCTTATCTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAATCTTATCTCTCT
AAGTAGCAGGAGAGCAGGTTCAA
Found at i:10832520 original size:88 final size:88
Alignment explanation
Indices: 10832296--10832835 Score: 711
Period size: 88 Copynumber: 6.2 Consensus size: 88
10832286 AAAAATACAG
* * * *
10832296 ATCTCCCCTAAACAATAGTGGAGCAGATCGAAGACAGTAAACCTTAACCCCCTAAGCAGTAGGGT
1 ATCT-CCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
10832361 AACAGGCTGGAAAA-TA-A-A---T
65 AACAGGCT-GAAAATTACAGATCTT
* * *
10832380 ATCTCTCCTAAACAGTAGTGGAGCAGATCGAAGACAGCGAGCTTTAACCCCCTAAGCAGTAGGGT
1 ATCTC-CCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGT
10832445 AACAGGCTGAAAATTACAGATCTT
65 AACAGGCTGAAAATTACAGATCTT
* * ** *
10832469 ATCTCCCTAAGCAGTAGTGGAGTAGATTGAAGATGGTGAGCCTTAACCCCCTAAGCAGTAAGGTA
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTA
*
10832534 ACAGGCTGAAAATTACAGACCTT
66 ACAGGCTGAAAATTACAGATCTT
** * * *
10832557 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAGCCTTAACTCTCTAAGCAATAGGGTA
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTA
*
10832622 ACAGGCTAAAAATTACAGATCTT
66 ACAGGCTGAAAATTACAGATCTT
* * *
10832645 ATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACAGTGAGCTTTAACCCCCTAAGCAGTAGGGTA
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTA
10832710 ACAGGCTGAAAATTACAGATCTT
66 ACAGGCTGAAAATTACAGATCTT
* * * * *
10832733 ATCTCCCTAAGCAGTAGTGGAGCAGATCTAGGACGGTGAGCCTTATCCCCCTAAGCAGT-TGG-A
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTA
* *
10832796 AGCAGACTG-AAATTACAAATCTT
66 A-CAGGCTGAAAATTACAGATCTT
*
10832819 ATCTCCCTAAGTAGTAG
1 ATCTCCCTAAGCAGTAG
10832836 GGAAACAAGC
Statistics
Matches: 406, Mismatches: 42, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
83 6 0.01
84 68 0.17
85 1 0.00
86 32 0.08
87 8 0.02
88 285 0.70
89 6 0.01
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (88 bp):
ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGGGTA
ACAGGCTGAAAATTACAGATCTT
Found at i:10832858 original size:130 final size:131
Alignment explanation
Indices: 10832429--10832967 Score: 389
Period size: 132 Copynumber: 4.1 Consensus size: 131
10832419 AGCTTTAACC
* * * *
10832429 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAG
1 CCCTAAGCAGTAGGGAAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAG
* * * * * * * * * * *
10832494 ATTGAAGATGGTGAGCCTTAACCCCCTAAGCAGTAAGGTAACAGGCTGAAAATTACAGACCTTAT
66 ATCGAAAACGGTAAGCCTTATCCCCCTAAGCAGTATGG-AGCAGACTAAAAATTACAAATCTTAT
10832559 CT
130 CT
* * * * * * * *
10832561 CCCTAAGCAGTAGTGG-AGC-AGATCGAAGATGGT-GAG-CCTTAACTCTCTAAGCAATAG-GGT
1 CCCTAAGCAGTAG-GGAAACAAGCT-GAAAAT--TACAGATCTTATCTCCCTAAGCAGTAGCGG-
* * * ** * * * * * * * *
10832621 AACAG-GCTAAAA-ATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACAGT-G
61 AGCAGATCGAAAACGGTA-AG-CCTTATCCCCCTAAGCAGTA-TGGAGCAGA-CTAA-AAATTAC
** * *
10832683 AGCT-TTAACC
121 AAATCTTATCT
* * *
10832693 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
1 CCCTAAGCAGTAGGGAAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAG
* ** * *
10832758 ATCTAGGACGGTGAGCCTTATCCCCCTAAGCAGT-TGGAAGCAGACT-GAAATTACAAATCTTAT
66 ATCGAAAACGGTAAGCCTTATCCCCCTAAGCAGTATGG-AGCAGACTAAAAATTACAAATCTTAT
10832821 CT
130 CT
*
10832823 CCCTAAGTAGTAGGGAAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAG
1 CCCTAAGCAGTAGGGAAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAG
* * * * * *
10832888 ATCGAAAATGGTAAGCCTTATCTCCCTGAGTAGTAGTGGAGCAGGCTAAAAATTACAGATCTTAT
66 ATCGAAAACGGTAAGCCTTATCCCCCTAAGCAGTA-TGGAGCAGACTAAAAATTACAAATCTTAT
10832953 CT
130 CT
10832955 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
10832968 TGGGGCAGAT
Statistics
Matches: 304, Mismatches: 80, Indels: 46
0.71 0.19 0.11
Matches are distributed among these distances:
128 3 0.01
129 2 0.01
130 97 0.32
131 25 0.08
132 152 0.50
133 20 0.07
134 5 0.02
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (131 bp):
CCCTAAGCAGTAGGGAAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCAG
ATCGAAAACGGTAAGCCTTATCCCCCTAAGCAGTATGGAGCAGACTAAAAATTACAAATCTTATC
T
Found at i:10832987 original size:44 final size:44
Alignment explanation
Indices: 10832429--10832987 Score: 334
Period size: 44 Copynumber: 12.8 Consensus size: 44
10832419 AGCTTTAACC
* *
10832429 CCCTAAGCAGTAG-GGTAACAGGCTGAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGACTGAAAATTACAGATCTTATCT
* * * * * * *
10832473 CCCTAAGCAGTAGTGGAGTAGATTGAAGATGGT-GAG-CCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGACTGAAAAT--TACAGATCTTATCT
* * * *
10832517 CCCTAAGCAGTAAG-GTAACAGGCTGAAAATTACAGACCTTATCT
1 CCCTAAGCAGT-AGTGGAGCAGACTGAAAATTACAGATCTTATCT
* * * *
10832561 CCCTAAGCAGTAGTGGAGCAGA-TCGAAGATGGT-GAG-CCTTAACT
1 CCCTAAGCAGTAGTGGAGCAGACT-GAAAAT--TACAGATCTTATCT
* * * * *
10832605 CTCTAAGCAATAG-GGTAACAGGCTAAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGACTGAAAATTACAGATCTTATCT
* * * * * * *
10832649 CCCTAAGTAGTAGTGGAGTAGA-TCGAAGACAGT-GAGCT-TTAACC
1 CCCTAAGCAGTAGTGGAGCAGACT-GAA-A-ATTACAGATCTTATCT
* *
10832693 CCCTAAGCAGTAG-GGTAACAGGCTGAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGACTGAAAATTACAGATCTTATCT
* *** * * *
10832737 CCCTAAGCAGTAGTGGAGCAGATCTAGGACGGT-GAG-CCTTATCC
1 CCCTAAGCAGTAGTGGAGCAGA-CT-GAAAATTACAGATCTTATCT
*
10832781 CCCTAAGCAGT--TGGAAGCAGACTG-AAATTACAAATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGACTGAAAATTACAGATCTTATCT
* *
10832823 CCCTAAGTAGTAG-GGAAACA-AGCTGAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGG-AGCAGA-CTGAAAATTACAGATCTTATCT
* *
10832867 CCCTAAGCAGTAGCGGAGCAGA-TCGAAAATGGTA-AG-CCTTATCT
1 CCCTAAGCAGTAGTGGAGCAGACT-GAAAAT--TACAGATCTTATCT
* * * *
10832911 CCCTGAGTAGTAGTGGAGCAGGCTAAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGTGGAGCAGACTGAAAATTACAGATCTTATCT
* * *
10832955 CCCTAAGCAGTAGTGGGGCAGATTGAAGATTAC
1 CCCTAAGCAGTAGTGGAGCAGACTGAAAATTAC
10832988 CAAATTTTAT
Statistics
Matches: 386, Mismatches: 89, Indels: 80
0.70 0.16 0.14
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 28 0.07
43 34 0.09
44 283 0.73
45 28 0.07
46 9 0.02
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (44 bp):
CCCTAAGCAGTAGTGGAGCAGACTGAAAATTACAGATCTTATCT
Found at i:10834030 original size:15 final size:15
Alignment explanation
Indices: 10834010--10834076 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
10834000 TTCTAATACT
10834010 ATTATTATTTATCTA
1 ATTATTATTTATCTA
10834025 ATTATTATTTATCTA
1 ATTATTATTTATCTA
* *
10834040 TTTA-TATTTCTACT-
1 ATTATTATTTAT-CTA
10834054 ATTATTATATT-TCTA
1 ATTATTAT-TTATCTA
*
10834069 TTTATTAT
1 ATTATTAT
10834077 ATTTTTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.25
15 31 0.70
16 2 0.05
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTATCTA
Found at i:10834040 original size:29 final size:29
Alignment explanation
Indices: 10834008--10834076 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 29
10833998 TATTCTAATA
10834008 CTATTATTATTTAT-CTAATTATTAT-TTAT
1 CTATTATTATTTATACT-ATTATTATATT-T
*
10834037 CTATT-TATATTTCTACTATTATTATATTT
1 CTATTAT-TATTTATACTATTATTATATTT
10834066 CTATTTATTAT
1 CTA-TTATTAT
10834077 ATTTTTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
28 1 0.03
29 23 0.68
30 9 0.26
31 1 0.03
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (29 bp):
CTATTATTATTTATACTATTATTATATTT
Found at i:10834077 original size:15 final size:15
Alignment explanation
Indices: 10834041--10834086 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
10834031 ATTTATCTAT
10834041 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
10834058 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
10834073 TTATATTTTTATTT
1 TTATATTTCTATTT
10834087 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:10836309 original size:15 final size:16
Alignment explanation
Indices: 10836284--10836318 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
10836274 TACAGATAGA
10836284 TTTATATTTTTATAAT
1 TTTATATTTTTATAAT
*
10836300 TTTATA-TTTTATTAT
1 TTTATATTTTTATAAT
10836315 TTTA
1 TTTA
10836319 CAAATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATATTTTTATAAT
Found at i:10846051 original size:17 final size:16
Alignment explanation
Indices: 10846010--10846052 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
10846000 GGATTTTGGT
*
10846010 AAATTATAT-TTAGTC
1 AAATTATATATGAGTC
*
10846025 AAATTTTATATGAGTC
1 AAATTATATATGAGTC
10846041 AAATTCATATAT
1 AAATT-ATATAT
10846053 ATTAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 8 0.35
16 10 0.43
17 5 0.22
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (16 bp):
AAATTATATATGAGTC
Found at i:10849892 original size:37 final size:39
Alignment explanation
Indices: 10849832--10849918 Score: 133
Period size: 37 Copynumber: 2.3 Consensus size: 39
10849822 TAAAAAATAT
10849832 TTATATTAAAAACACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAACACTA-CATAAATATAATAAATATTTTA
*
10849872 TTATATTAAAAACAC-A-ATAAATATAATGAATATTTTA
1 TTATATTAAAAACACTACATAAATATAATAAATATTTTA
*
10849909 TTGTATTAAA
1 TTATATTAAA
10849919 CGTAATTTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 29 0.64
39 1 0.02
40 15 0.33
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (39 bp):
TTATATTAAAAACACTACATAAATATAATAAATATTTTA
Found at i:10852003 original size:23 final size:22
Alignment explanation
Indices: 10851960--10852011 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
10851950 TAATACGTTG
* *
10851960 TTTTATTTATTATCTATTTTAGA
1 TTTTATATATTATCTAATTTA-A
*
10851983 TTTTATATATTATTTAATTTAA
1 TTTTATATATTATCTAATTTAA
10852005 -TTTATAT
1 TTTTATAT
10852012 CACATGGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 7 0.27
22 1 0.04
23 18 0.69
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTATATATTATCTAATTTAA
Found at i:10852497 original size:13 final size:13
Alignment explanation
Indices: 10852479--10852521 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
10852469 TCTTTTTACC
*
10852479 ATTTACTATTATT
1 ATTTACTATTTTT
10852492 ATTTACATATTTTT
1 ATTTAC-TATTTTT
10852506 ATTGTA-TATTTTT
1 ATT-TACTATTTTT
10852519 ATT
1 ATT
10852522 ATTATTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 16 0.59
14 9 0.33
15 2 0.07
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (13 bp):
ATTTACTATTTTT
Found at i:10866544 original size:15 final size:15
Alignment explanation
Indices: 10866508--10866550 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10866498 AAAATATTAA
*
10866508 AATATA-TAATTTTT
1 AATATATTAATATTT
*
10866522 ATTAATATTAATATTT
1 AAT-ATATTAATATTT
10866538 AATATATTAATAT
1 AATATATTAATAT
10866551 AAGTATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 2 0.08
15 13 0.54
16 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATATATTAATATTT
Found at i:10867833 original size:19 final size:20
Alignment explanation
Indices: 10867796--10867846 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
10867786 GCTAATAGTT
* *
10867796 TGATAATTTGATATTTTTTTA
1 TGATTATTT-ATATATTTTTA
10867817 T-ATTATTTATATATTTTTA
1 TGATTATTTATATATTTTTA
10867836 TGATT-TTTATA
1 TGATTATTTATA
10867847 AGTTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 17 0.63
20 9 0.33
21 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (20 bp):
TGATTATTTATATATTTTTA
Found at i:10867852 original size:10 final size:9
Alignment explanation
Indices: 10867811--10868170 Score: 66
Period size: 9 Copynumber: 38.6 Consensus size: 9
10867801 ATTTGATATT
10867811 TTTTTAT-A
1 TTTTTATAA
10867819 TTATTTATATA
1 TT-TTTATA-A
*
10867830 TTTTTATGA
1 TTTTTATAA
10867839 TTTTTATAA
1 TTTTTATAA
*
10867848 GTTTTTTTTTAA
1 ---TTTTTATAA
* *
10867860 ATTTTAAATA
1 TTTTTATA-A
10867870 TTTGTTATTAA
1 TTT-TTA-TAA
*
10867881 --TTT-GAA
1 TTTTTATAA
*
10867887 TTTTTATTA
1 TTTTTATAA
* *
10867896 TTTATTAGAT
1 TTT-TTATAA
*
10867906 TTTTTAGAA
1 TTTTTATAA
*
10867915 TATTTATAA
1 TTTTTATAA
*
10867924 GTTTTTATGA
1 -TTTTTATAA
10867934 TTTTTATAA
1 TTTTTATAA
* *
10867943 ATTTTA-AG
1 TTTTTATAA
* *
10867951 TTTATAAGAA
1 TTT-TTATAA
*
10867961 TTTTAATAA
1 TTTTTATAA
10867970 -TTTT-TAA
1 TTTTTATAA
*
10867977 TGTTTA-ATA
1 TTTTTATA-A
*
10867986 TTTTTATGA
1 TTTTTATAA
*
10867995 TTTTTAATGAT
1 TTTTT-AT-AA
10868006 TTTTTATAA
1 TTTTTATAA
10868015 GTTTTTA-AGA
1 -TTTTTATA-A
* *
10868025 TTTTTTTACG
1 TTTTTATA-A
*
10868035 TTATTATACAA
1 TT-TT-TATAA
*
10868046 TTTTGA-ATA
1 TTTTTATA-A
10868055 TGTTTTATTAA
1 T-TTTTA-TAA
10868066 -TTTTATAA
1 TTTTTATAA
*
10868074 TTGATTT-GAA
1 TT--TTTATAA
*
10868084 TTTTAAT-A
1 TTTTTATAA
10868092 TTTTTATAA
1 TTTTTATAA
*
10868101 TATTTATAA
1 TTTTTATAA
*
10868110 GTTTATATCAA
1 -TTTTTAT-AA
* **
10868121 TTTTAATTT
1 TTTTTATAA
10868130 TTTTTA-AA
1 TTTTTATAA
* *
10868138 TATTTAACAA
1 T-TTTTATAA
*
10868148 TTTTTATGA
1 TTTTTATAA
10868157 TTTTT-TAA
1 TTTTTATAA
10868165 TATTTT
1 T-TTTT
10868171 TATGAGATAA
Statistics
Matches: 251, Mismatches: 60, Indels: 81
0.64 0.15 0.21
Matches are distributed among these distances:
6 2 0.01
7 3 0.01
8 34 0.14
9 116 0.46
10 62 0.25
11 22 0.09
12 12 0.05
ACGTcount: A:0.32, C:0.01, G:0.06, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:10867964 original size:26 final size:26
Alignment explanation
Indices: 10867907--10867982 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
10867897 TTATTAGATT
* * * *
10867907 TTTTAGAATATTTATAAGTTTTTATGAT
1 TTTTATAA-ATTT-TAAGTTTATAAGAA
10867935 TTTTATAAATTTTAAGTTTATAAGAA
1 TTTTATAAATTTTAAGTTTATAAGAA
*
10867961 TTTTAATAATTTTTAATGTTTA
1 TTTT-ATAAATTTTAA-GTTTA
10867983 ATATTTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 15 0.37
27 14 0.34
28 12 0.29
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.57
Consensus pattern (26 bp):
TTTTATAAATTTTAAGTTTATAAGAA
Found at i:10868011 original size:20 final size:20
Alignment explanation
Indices: 10867986--10868030 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
10867976 ATGTTTAATA
*
10867986 TTTTTATGA-TTTTTAATGAT
1 TTTTTATAAGTTTTTAA-GAT
10868006 TTTTTATAAGTTTTTAAGAT
1 TTTTTATAAGTTTTTAAGAT
10868026 TTTTT
1 TTTTT
10868031 TACGTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (20 bp):
TTTTTATAAGTTTTTAAGAT
Found at i:10868123 original size:37 final size:36
Alignment explanation
Indices: 10868038--10868173 Score: 116
Period size: 37 Copynumber: 3.7 Consensus size: 36
10868028 TTTTACGTTA
10868038 TTATA-CAATTTTGAATATGTTTTATTAAT-TTTATAAT
1 TTATATCAATTTT-AATAT-TTTTA-TAATATTTATAAT
* * *
10868075 TGATTTGAATTTTAATATTTTTATAATATTTATAAGT
1 TTATATCAATTTTAATATTTTTATAATATTTATAA-T
* *
10868112 TTATATCAATTTTAAT-TTTTTTTAAATATTTAACAAT
1 TTATATCAATTTTAATATTTTTAT-AATATTT-ATAAT
* * *
10868149 TTTTATGATTTTTTAATATTTTTAT
1 TTATATCA-ATTTTAATATTTTTAT
10868174 GAGATAATAT
Statistics
Matches: 80, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
35 4 0.05
36 18 0.22
37 36 0.45
38 16 0.20
39 6 0.08
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (36 bp):
TTATATCAATTTTAATATTTTTATAATATTTATAAT
Found at i:10876114 original size:23 final size:22
Alignment explanation
Indices: 10876088--10876140 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
10876078 TAGCTCATTG
*
10876088 GAGCTTACCGATTCAGCTCGAA-A
1 GAGCTTACCG-TTCAACTC-AATA
*
10876111 GAGCTTACTGTTCAACTCAATA
1 GAGCTTACCGTTCAACTCAATA
10876133 GAGCTTAC
1 GAGCTTAC
10876141 TGTTTATCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 16 0.59
23 9 0.33
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (22 bp):
GAGCTTACCGTTCAACTCAATA
Found at i:10876144 original size:22 final size:23
Alignment explanation
Indices: 10876064--10876142 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
10876054 ATAGCTCGTA
* * *
10876064 AGAGCTTACTGTTTTAGCTCATT
1 AGAGCTTACTGATTCAGCTCAAT
* *
10876087 GGAGCTTACCGATTCAGCTCGAA-
1 AGAGCTTACTGATTCAGCTC-AAT
*
10876110 AGAGCTTACTG-TTCAACTCAAT
1 AGAGCTTACTGATTCAGCTCAAT
10876132 AGAGCTTACTG
1 AGAGCTTACTG
10876143 TTTATCAGCT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
21 2 0.04
22 18 0.39
23 25 0.54
24 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (23 bp):
AGAGCTTACTGATTCAGCTCAAT
Found at i:10887731 original size:14 final size:14
Alignment explanation
Indices: 10887712--10887771 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
10887702 GTATATCATC
10887712 ATTTAAATCCACTA
1 ATTTAAATCCACTA
10887726 ATTTAAATCCAC--
1 ATTTAAATCCACTA
* *
10887738 ATGTGTATAT-CA-TC
1 AT-T-TAAATCCACTA
10887752 ATTTAAATCCACTA
1 ATTTAAATCCACTA
10887766 ATTTAA
1 ATTTAA
10887772 CTCTCATGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
12 6 0.16
13 6 0.16
14 25 0.68
ACGTcount: A:0.40, C:0.18, G:0.03, T:0.38
Consensus pattern (14 bp):
ATTTAAATCCACTA
Found at i:10887743 original size:40 final size:40
Alignment explanation
Indices: 10887692--10887771 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
10887682 AATTAAACTT
10887692 ATCCACATGTGTATATCATCATTTAAATCCACTAATTTAA
1 ATCCACATGTGTATATCATCATTTAAATCCACTAATTTAA
10887732 ATCCACATGTGTATATCATCATTTAAATCCACTAATTTAA
1 ATCCACATGTGTATATCATCATTTAAATCCACTAATTTAA
10887772 CTCTCATGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (40 bp):
ATCCACATGTGTATATCATCATTTAAATCCACTAATTTAA
Found at i:10888864 original size:15 final size:15
Alignment explanation
Indices: 10888844--10888873 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10888834 GAGTTTTTGT
10888844 ACGTTAATGAATGAG
1 ACGTTAATGAATGAG
10888859 ACGTTAATGAATGAG
1 ACGTTAATGAATGAG
10888874 TTTTTCTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
ACGTTAATGAATGAG
Found at i:10888995 original size:21 final size:21
Alignment explanation
Indices: 10888970--10889011 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10888960 TACTCGTGTA
10888970 ATTTCCTTTCTGAATTTTTTT
1 ATTTCCTTTCTGAATTTTTTT
10888991 ATTTCCTTTCTGAATTTTTTT
1 ATTTCCTTTCTGAATTTTTTT
10889012 CTTTTTGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.05, T:0.67
Consensus pattern (21 bp):
ATTTCCTTTCTGAATTTTTTT
Found at i:10891004 original size:52 final size:51
Alignment explanation
Indices: 10890919--10891050 Score: 180
Period size: 52 Copynumber: 2.6 Consensus size: 51
10890909 ATGTCACTAG
*
10890919 TGACT-CAAGTGTGGTACTATGTGAAGGCTACTTTGTGAAGAAAGATAGCTT
1 TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTT
* *
10890970 TG-GTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTT
1 TGACT-ACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
*
10891021 TGACTACAACG-GTGGTACTATGTGTAGGCC
1 TGACTACAA-GTGTGGTACTATGTGAAGGCC
10891051 GCCGGGTATC
Statistics
Matches: 72, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
50 1 0.01
51 35 0.49
52 36 0.50
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (51 bp):
TGACTACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTT
Found at i:10909033 original size:18 final size:18
Alignment explanation
Indices: 10909006--10909098 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
10908996 CCCAACTACT
*
10909006 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
10909024 GTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACC
10909042 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
10909060 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
10909078 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
10909096 GTA
1 GTA
10909099 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:10909058 original size:36 final size:36
Alignment explanation
Indices: 10909006--10909098 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
10908996 CCCAACTACT
* *
10909006 GTATACGTGAACAGTACCGTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
10909042 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
10909078 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
10909099 AACGGTCGTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:10911818 original size:4 final size:4
Alignment explanation
Indices: 10911809--10911839 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
10911799 TGATAAGGTC
10911809 TACA TACA TACA TACA TACA TACA TACA TAC
1 TACA TACA TACA TACA TACA TACA TACA TAC
10911840 GTAATTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:10918183 original size:18 final size:18
Alignment explanation
Indices: 10918156--10918248 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
10918146 TACGACCGTT
*
10918156 TACGGTACTATTCACGTA
1 TACGATACTATTCACGTA
* *
10918174 TACGACACTATTCACATA
1 TACGATACTATTCACGTA
* *
10918192 TACGGTACTATTTACGTA
1 TACGATACTATTCACGTA
*
10918210 TACGGTACTATTCACGTA
1 TACGATACTATTCACGTA
*
10918228 TACGATACTGTTCACGTA
1 TACGATACTATTCACGTA
10918246 TAC
1 TAC
10918249 AGTAGTTGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (18 bp):
TACGATACTATTCACGTA
Found at i:10931791 original size:31 final size:31
Alignment explanation
Indices: 10931733--10931827 Score: 84
Period size: 31 Copynumber: 3.1 Consensus size: 31
10931723 AATCCTAAAA
**
10931733 TTCAGG-TCCCAATATAGGAACAATTACCAAG
1 TTCAGGCT-CCAATATAAAAACAATTACCAAG
* * * *
10931764 TTCATGCTCTAATATAAAAACACTTACCTAG
1 TTCAGGCTCCAATATAAAAACAATTACCAAG
* ** *
10931795 GTCAGGCTCCAATATGGAAACAATTACTAAG
1 TTCAGGCTCCAATATAAAAACAATTACCAAG
10931826 TT
1 TT
10931828 AAGCCTTAAT
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
31 47 0.98
32 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (31 bp):
TTCAGGCTCCAATATAAAAACAATTACCAAG
Found at i:10935043 original size:26 final size:26
Alignment explanation
Indices: 10934989--10935042 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
10934979 TTATTATTTT
* *
10934989 AAATATATATAATATAAATTTATATA
1 AAATATATACAATATAAAATTATATA
10935015 AAATATATACAAT-TAAAATTATATA
1 AAATATATACAATATAAAATTATATA
10935040 AAA
1 AAA
10935043 AGCTTATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
AAATATATACAATATAAAATTATATA
Found at i:10935100 original size:17 final size:18
Alignment explanation
Indices: 10935078--10935123 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
10935068 TAAAAATTAT
10935078 AATTTATAAATTAAT-AA
1 AATTTATAAATTAATAAA
* *
10935095 AATTTACAAATTTATAAA
1 AATTTATAAATTAATAAA
*
10935113 AATATATAAAT
1 AATTTATAAAT
10935124 ATATAGAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTTATAAATTAATAAA
Found at i:10935154 original size:43 final size:43
Alignment explanation
Indices: 10935066--10935172 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 43
10935056 TTGAAAAACA
* * * *
10935066 TATAAAAAT-TAT-AATTTATAAATTAATAAAATTTACAAATT
1 TATAAAAATATATAAATATATAAATGAATAAAAATTACAAATG
*
10935107 TATAAAAATATATAAATATATAGAA-GAATAAAAATTATAAATG
1 TATAAAAATATATAAATATATA-AATGAATAAAAATTACAAATG
* *
10935150 TATAAATATATA-AAATATCTAAA
1 TATAAAAATATATAAATATATAAA
10935173 AAGCACAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 11 0.20
42 11 0.20
43 32 0.57
44 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.36
Consensus pattern (43 bp):
TATAAAAATATATAAATATATAAATGAATAAAAATTACAAATG
Found at i:10936094 original size:54 final size:54
Alignment explanation
Indices: 10936012--10936119 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
10936002 TTTGTGGTAT
10936012 GGGTTCAAATCTCCCCATATGTAATTTCTTTTACTAGTTTATTAACAATATAAA
1 GGGTTCAAATCTCCCCATATGTAATTTCTTTTACTAGTTTATTAACAATATAAA
*
10936066 GGGTTCAAATCTCCCCCTATGTAATTTCTTTTACTAGTTTATTAACAATATAAA
1 GGGTTCAAATCTCCCCATATGTAATTTCTTTTACTAGTTTATTAACAATATAAA
10936120 ATGACAAAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (54 bp):
GGGTTCAAATCTCCCCATATGTAATTTCTTTTACTAGTTTATTAACAATATAAA
Found at i:10939282 original size:41 final size:42
Alignment explanation
Indices: 10939175--10939343 Score: 182
Period size: 43 Copynumber: 4.0 Consensus size: 42
10939165 ATATCGTACA
* *
10939175 ATGCTAATGTCCCAGACGTGGTCTTACATGC-AATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACA--CAAATCACATATCG
* * * *
10939218 ATGCCACTATCCCAGACAGGGTCTTACACAAATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAATCACATATCG
* * *
10939259 GTGACAATGTCCCAGACATGGTCTTACACATAATCACATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACA-AATCACATATCG
*
10939302 ATGCCAACGTCCCAGACATGGTCTTACACGAGAA-CACATATC
1 ATGCCAATGTCCCAGACATGGTCTTACAC-A-AATCACATATC
10939344 AAAAATCCTA
Statistics
Matches: 104, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
41 28 0.27
42 16 0.15
43 57 0.55
44 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAATCACATATCG
Found at i:10944485 original size:3 final size:3
Alignment explanation
Indices: 10944479--10944505 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10944469 AAAAAAAAAA
10944479 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
10944506 TTAAGACCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10953290 original size:90 final size:90
Alignment explanation
Indices: 10953137--10953321 Score: 370
Period size: 90 Copynumber: 2.1 Consensus size: 90
10953127 GTGAAAATAG
10953137 ACTCATTGAGCTTTAATCCCATATTTTATTCTGCCTCTAACTCATTTTCCACTATTTTTAGTGTA
1 ACTCATTGAGCTTTAATCCCATATTTTATTCTGCCTCTAACTCATTTTCCACTATTTTTAGTGTA
10953202 TTTTCAAAGTTACACTACTGCAGTA
66 TTTTCAAAGTTACACTACTGCAGTA
10953227 ACTCATTGAGCTTTAATCCCATATTTTATTCTGCCTCTAACTCATTTTCCACTATTTTTAGTGTA
1 ACTCATTGAGCTTTAATCCCATATTTTATTCTGCCTCTAACTCATTTTCCACTATTTTTAGTGTA
10953292 TTTTCAAAGTTACACTACTGCAGTA
66 TTTTCAAAGTTACACTACTGCAGTA
10953317 ACTCA
1 ACTCA
10953322 AATCTGTCAA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 95 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.43
Consensus pattern (90 bp):
ACTCATTGAGCTTTAATCCCATATTTTATTCTGCCTCTAACTCATTTTCCACTATTTTTAGTGTA
TTTTCAAAGTTACACTACTGCAGTA
Done.