Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 39 of 211
Found at i:11596352 original size:23 final size:23
Alignment explanation
Indices: 11596326--11596369 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
11596316 AATTCATTTT
11596326 AAATCCCATTT-AAAAAAAAAACA
1 AAAT-CCATTTCAAAAAAAAAACA
*
11596349 AAATCCTTTTCAAAAAAAAAA
1 AAATCCATTTCAAAAAAAAAA
11596370 AACTCTCCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (23 bp):
AAATCCATTTCAAAAAAAAAACA
Found at i:11599121 original size:3 final size:3
Alignment explanation
Indices: 11599115--11599157 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
11599105 TGCTGTTTAA
* *
11599115 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AAT AAA AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11599158 CCAATACTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:11613732 original size:15 final size:16
Alignment explanation
Indices: 11613704--11613734 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
11613694 TTTAAGCTAA
11613704 AGAAAGTAAATGAAAT
1 AGAAAGTAAATGAAAT
11613720 AGAAAGT-AATGAAAT
1 AGAAAGTAAATGAAAT
11613735 GCAAATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.61, C:0.00, G:0.19, T:0.19
Consensus pattern (16 bp):
AGAAAGTAAATGAAAT
Found at i:11614219 original size:15 final size:16
Alignment explanation
Indices: 11614199--11614228 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11614189 TGGTGCCTTA
11614199 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
11614214 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
11614229 ATCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:11618483 original size:40 final size:40
Alignment explanation
Indices: 11618378--11618526 Score: 140
Period size: 40 Copynumber: 3.8 Consensus size: 40
11618368 GAGTTACCGG
* * * * * * *
11618378 AGTATAAACAGGGGCACGAAAGTGCATTCA-AGGTATCGA
1 AGTACAAACAAGGGCACGTATGTGCATTCAGGGGTACCAA
* * *
11618417 AGTAAAAATAGGGGCAC-TCATGTGCATTCAGGGGTACCAA
1 AGTACAAACAAGGGCACGT-ATGTGCATTCAGGGGTACCAA
* * *
11618457 AGTACAAACAAGGGTACGTATTTGCATTCAGGGGTACCGA
1 AGTACAAACAAGGGCACGTATGTGCATTCAGGGGTACCAA
* *
11618497 AGTATAAACAAGGGCACGTATGTGTATTCA
1 AGTACAAACAAGGGCACGTATGTGCATTCA
11618527 TACAATAATT
Statistics
Matches: 90, Mismatches: 17, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
39 25 0.28
40 64 0.71
41 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (40 bp):
AGTACAAACAAGGGCACGTATGTGCATTCAGGGGTACCAA
Found at i:11635388 original size:29 final size:29
Alignment explanation
Indices: 11635350--11635409 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
11635340 ATACCATATC
11635350 TAGTTCTGAATGCAGTTTTTGGTACATCT
1 TAGTTCTGAATGCAGTTTTTGGTACATCT
11635379 TAGTTCTGAATGCAGTTTTTGGTACATCT
1 TAGTTCTGAATGCAGTTTTTGGTACATCT
11635408 TA
1 TA
11635410 CTCTTTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (29 bp):
TAGTTCTGAATGCAGTTTTTGGTACATCT
Found at i:11643180 original size:41 final size:41
Alignment explanation
Indices: 11643135--11643239 Score: 156
Period size: 41 Copynumber: 2.6 Consensus size: 41
11643125 GCTTATTAAA
* *
11643135 ATACACCGGCATAAAGCCTTCTAGGCACAAAGCCAGATATG
1 ATACACCGGCATGAAGCCTGCTAGGCACAAAGCCAGATATG
* * *
11643176 ATACACCGGCACGAAGCCTGCTAGGCATAAAGCCTGATATG
1 ATACACCGGCATGAAGCCTGCTAGGCACAAAGCCAGATATG
*
11643217 GTACACCGGCATGAAGCCTGCTA
1 ATACACCGGCATGAAGCCTGCTA
11643240 TAAGTTACCG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.17
Consensus pattern (41 bp):
ATACACCGGCATGAAGCCTGCTAGGCACAAAGCCAGATATG
Found at i:11646613 original size:21 final size:21
Alignment explanation
Indices: 11646587--11646637 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
11646577 CCTCTATCTG
11646587 TCAACTCTTGCAACTGTGCTT
1 TCAACTCTTGCAACTGTGCTT
*
11646608 TCAACTCTTGTAACTGTGCTT
1 TCAACTCTTGCAACTGTGCTT
11646629 TCAACTCTT
1 TCAACTCTT
11646638 TTAATCAGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (21 bp):
TCAACTCTTGCAACTGTGCTT
Found at i:11650703 original size:41 final size:41
Alignment explanation
Indices: 11650665--11650807 Score: 153
Period size: 41 Copynumber: 3.5 Consensus size: 41
11650655 AAAATACATT
* * *
11650665 GGCATAAAGCCTTCTAGGCACAAAGCCAGATATGATACACT
1 GGCATAAAGCCTGCTAGGCATAAAGCCAGATATGATACACC
** * *
11650706 GGCACGAAGCCTGCTAGGCATAAAGCCTA-ATATGGTATACC
1 GGCATAAAGCCTGCTAGGCATAAAGCC-AGATATGATACACC
* * * * *
11650747 GGCATGAAGCCTGCTAGGCATAAAGCCTGCTATAATTCACC
1 GGCATAAAGCCTGCTAGGCATAAAGCCAGATATGATACACC
*
11650788 GGCATAAAGCCTACTAGGCA
1 GGCATAAAGCCTGCTAGGCA
11650808 GAGATCCCGA
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 83 0.99
42 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (41 bp):
GGCATAAAGCCTGCTAGGCATAAAGCCAGATATGATACACC
Found at i:11650772 original size:16 final size:16
Alignment explanation
Indices: 11650747--11650778 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11650737 ATGGTATACC
*
11650747 GGCATGAAGCCTGCTA
1 GGCATAAAGCCTGCTA
11650763 GGCATAAAGCCTGCTA
1 GGCATAAAGCCTGCTA
11650779 TAATTCACCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.19
Consensus pattern (16 bp):
GGCATAAAGCCTGCTA
Found at i:11652111 original size:22 final size:21
Alignment explanation
Indices: 11652086--11652148 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
11652076 GGAAGTGTAT
*
11652086 GGCTTGTAGCCGTTCTGTTCAA
1 GGCTTCTAGCCGTTCTGTT-AA
* *
11652108 GGCTTACT-GCCTTTCTGCTTAT
1 GGCTT-CTAGCCGTTCTG-TTAA
*
11652130 GGCTTTTAGCCGTTCTGTT
1 GGCTTCTAGCCGTTCTGTT
11652149 GACTTAGTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 3 0.09
22 27 0.82
23 3 0.09
ACGTcount: A:0.10, C:0.24, G:0.24, T:0.43
Consensus pattern (21 bp):
GGCTTCTAGCCGTTCTGTTAA
Found at i:11655782 original size:30 final size:30
Alignment explanation
Indices: 11655748--11655806 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
11655738 AAGCCATGTG
11655748 CCTCACACGGTTGAGTCACATGCCCGTGTT
1 CCTCACACGGTTGAGTCACATGCCCGTGTT
11655778 CCTCACACGGTTGAGTCACATGCCCGTGT
1 CCTCACACGGTTGAGTCACATGCCCGTGT
11655807 GGACCCAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.17, C:0.34, G:0.24, T:0.25
Consensus pattern (30 bp):
CCTCACACGGTTGAGTCACATGCCCGTGTT
Found at i:11660005 original size:14 final size:14
Alignment explanation
Indices: 11659965--11660007 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
11659955 TTGGTAAATT
*
11659965 ATCAAAGTGTACAA
1 ATCAAAGTGTACCA
11659979 ATCAAAGTGTACCA
1 ATCAAAGTGTACCA
11659993 ATCAAAGTGTACCA
1 ATCAAAGTGTACCA
11660007 A
1 A
11660008 ACTAACATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.21
Consensus pattern (14 bp):
ATCAAAGTGTACCA
Found at i:11660326 original size:40 final size:40
Alignment explanation
Indices: 11660241--11660706 Score: 510
Period size: 40 Copynumber: 11.8 Consensus size: 40
11660231 GAGTTACAAG
* * * **
11660241 AGTATAAACA-GGGCACGAAAGTGCATTCA-ACGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* **
11660279 AGTACAAAGAGGGGCACAAATGTGCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * **
11660319 AGTACAAACAGGGGCACGCATGTGCATTTAAAGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
*
11660359 AGTACAAACAGGGGCACGTATGTTCATTCAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* *
11660399 AGTGCAAACAGGGGCACGTATGTGCATTTAGGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * *
11660439 AGTA-AAAAAAGGGCACGTATGTGCATTCAGGGGTAACGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * * * *
11660478 AGTACAAATAGGGGCACATGTGTGCATTTAGGGGTACCAA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * * **
11660518 AGTAAAAACAGGGGCATGTAAGTGCATTCAAAGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * * *
11660558 AGTACAAACAAGAGCACGTATGTGCGTTCAGGGGTACCAA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * **
11660598 AGTACAACCAGGGGCATGTATGTGCATTCAAAGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * *
11660638 AGTACAAACA-AGGCACGTATGTGCGTTCAGGGGTACCAA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
* * *
11660677 AGTA-TAACTAGGGGCATGTTTGTGCATTCA
1 AGTACAAAC-AGGGGCACGTATGTGCATTCA
11660707 TACAATAATT
Statistics
Matches: 352, Mismatches: 71, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
38 11 0.03
39 80 0.23
40 261 0.74
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGA
Found at i:11660392 original size:20 final size:20
Alignment explanation
Indices: 11660367--11660432 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
11660357 GAAGTACAAA
*
11660367 CAGGGGCACGTATGTTCATT
1 CAGGGGCACGTATGTGCATT
* * **
11660387 CAGGGGTACCG-AAGTGCAAA
1 CAGGGGCA-CGTATGTGCATT
11660407 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
*
11660427 TAGGGG
1 CAGGGG
11660433 TACCGAAGTA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.21
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCATT
Found at i:11660621 original size:199 final size:199
Alignment explanation
Indices: 11660241--11660692 Score: 584
Period size: 199 Copynumber: 2.3 Consensus size: 199
11660231 GAGTTACAAG
* * * * ** *
11660241 AGTATAAACAGGGCACGAAAGTGCATTCA-ACGTACCGAAGTACAAAGAGGGGCACAAATGTGCA
1 AGTAAAAAAAGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCACAAATGTGCA
* * * * *
11660305 TTCAGGGGTACCGAAGTACAAACAGGGGCACGCATGTGCATTTAAAGGTACCGAAGTACAAACAG
66 TTCAGGGGTACCAAAGTAAAAACAGGGGCACGCAAGTGCATTCAAAGGTACCGAAGTACAAACAA
* * * * * **
11660370 GGGCACGTATGTTCATTCAGGGGTACCGAAGTGCAAACAGGGGCACGTATGTGCATTTAGGGGTA
131 GAGCACGTATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAAAGGTA
11660435 CCGA
196 CCGA
* **
11660439 AGTAAAAAAAGGGCACGTATGTGCATTCAGGGGTAACGAAGTACAAATAGGGGCACATGTGTGCA
1 AGTAAAAAAAGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCACAAATGTGCA
* * *
11660504 TTTAGGGGTACCAAAGTAAAAACAGGGGCATGTAAGTGCATTCAAAGGTACCGAAGTACAAACAA
66 TTCAGGGGTACCAAAGTAAAAACAGGGGCACGCAAGTGCATTCAAAGGTACCGAAGTACAAACAA
* * *
11660569 GAGCACGTATGTGCGTTCAGGGGTACCAAAGTACAACCAGGGGCATGTATGTGCATTCAAAGGTA
131 GAGCACGTATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAAAGGTA
11660634 CCGA
196 CCGA
* * * * *
11660638 AGTACAAACAA-GGCACGTATGTGCGTTCAGGGGTACCAAAGTATAACTAGGGGCA
1 AGTA-AAAAAAGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCA
11660693 TGTTTGTGCA
Statistics
Matches: 218, Mismatches: 34, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
198 25 0.11
199 188 0.86
200 5 0.02
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (199 bp):
AGTAAAAAAAGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAATAGGGGCACAAATGTGCA
TTCAGGGGTACCAAAGTAAAAACAGGGGCACGCAAGTGCATTCAAAGGTACCGAAGTACAAACAA
GAGCACGTATGTGCATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCATTCAAAGGTA
CCGA
Found at i:11660670 original size:159 final size:159
Alignment explanation
Indices: 11660298--11660706 Score: 507
Period size: 159 Copynumber: 2.6 Consensus size: 159
11660288 AGGGGCACAA
* ** *
11660298 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGCATGTGCATTTAAAGGTACCGAAGTA
1 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCAAAGTA
* * * ** * * * *
11660363 CAAACAGGGGCACGTATGTTCATTCAGGGGTACCGAAGTGCAAACAGGGGCACGTATGTGCATTT
66 AAAACAGGGGCATGTATGTGCATTCAAAGGTACCGAAGTACAAACAAGAGCACGTATGTGCATTC
*
11660428 AGGGGTACCGAAGTAAAAAAAGGGCACGT
131 AGGGGTACCAAAGTAAAAAAAGGGCACGT
* * * *
11660457 ATGTGCATTCAGGGGTAACGAAGTACAAATAGGGGCACATGTGTGCATTTAGGGGTACCAAAGTA
1 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCAAAGTA
* *
11660522 AAAACAGGGGCATGTAAGTGCATTCAAAGGTACCGAAGTACAAACAAGAGCACGTATGTGCGTTC
66 AAAACAGGGGCATGTATGTGCATTCAAAGGTACCGAAGTACAAACAAGAGCACGTATGTGCATTC
** * *
11660587 AGGGGTACCAAAGTACAACCAGGGGCATGT
131 AGGGGTACCAAAGTA-AAAAAAGGGCACGT
** * * *
11660617 ATGTGCATTCAAAGGTACCGAAGTACAAACA-AGGCACGTATGTGCGTTCAGGGGTACCAAAGT-
1 ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCAAAGTA
* *
11660680 ATAACTAGGGGCATGTTTGTGCATTCA
66 AAAAC-AGGGGCATGTATGTGCATTCA
11660707 TACAATAATT
Statistics
Matches: 212, Mismatches: 36, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
158 4 0.02
159 171 0.81
160 37 0.17
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.20
Consensus pattern (159 bp):
ATGTGCATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTTAGGGGTACCAAAGTA
AAAACAGGGGCATGTATGTGCATTCAAAGGTACCGAAGTACAAACAAGAGCACGTATGTGCATTC
AGGGGTACCAAAGTAAAAAAAGGGCACGT
Found at i:11664719 original size:33 final size:33
Alignment explanation
Indices: 11664682--11664745 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
11664672 TTTAAGCCTA
11664682 AAATTGAAAATGAATTTTATAT-AGGGGGAGCTT
1 AAATTGAAAATGAATTTTAT-TCAGGGGGAGCTT
*
11664715 AAATTGAAAATGCATTTTATTCAGGGGGAGC
1 AAATTGAAAATGAATTTTATTCAGGGGGAGC
11664746 AATTTATTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (33 bp):
AAATTGAAAATGAATTTTATTCAGGGGGAGCTT
Found at i:11665127 original size:22 final size:22
Alignment explanation
Indices: 11665084--11665124 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11665074 CATTTTTCAC
*
11665084 AAAATAGTATTGATACCTTTAG
1 AAAATAGTATCGATACCTTTAG
11665106 AAAA-AGTATCGATACCTTT
1 AAAATAGTATCGATACCTTT
11665125 TAGCAGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (22 bp):
AAAATAGTATCGATACCTTTAG
Found at i:11665793 original size:29 final size:32
Alignment explanation
Indices: 11665728--11665793 Score: 75
Period size: 33 Copynumber: 2.1 Consensus size: 32
11665718 TTAAGCCTTA
**
11665728 AATTGAAAATAAATTTTATATATGAGGGGCTTG
1 AATTGAAAATAAATTTTATATA-GAGGGGAGTG
*
11665761 AATTGAAAATGAATTTTAT-TA-AGGGGAGT-
1 AATTGAAAATAAATTTTATATAGAGGGGAGTG
11665790 AATT
1 AATT
11665794 TATTCAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 4 0.13
30 6 0.20
32 2 0.07
33 18 0.60
ACGTcount: A:0.41, C:0.02, G:0.21, T:0.36
Consensus pattern (32 bp):
AATTGAAAATAAATTTTATATAGAGGGGAGTG
Found at i:11665917 original size:22 final size:24
Alignment explanation
Indices: 11665874--11665917 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
11665864 TGATAATATG
11665874 TTTTGATATAACAAATTAAAGTGT
1 TTTTGATATAACAAATTAAAGTGT
*
11665898 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAACAAATTAAAGT
11665918 TGAACATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.02, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAACAAATTAAAGTGT
Found at i:11666141 original size:21 final size:22
Alignment explanation
Indices: 11666112--11666152 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11666102 CAATTTTCAC
11666112 AAAATAGTATCCATACCTTTAG
1 AAAATAGTATCCATACCTTTAG
**
11666134 AAAA-AGTATTGATACCTTT
1 AAAATAGTATCCATACCTTT
11666153 TACCATGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (22 bp):
AAAATAGTATCCATACCTTTAG
Found at i:11666331 original size:16 final size:17
Alignment explanation
Indices: 11666310--11666343 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11666300 CATCCCCAAT
11666310 AGCTCAT-TACTACTAA
1 AGCTCATATACTACTAA
11666326 AGCTCATAGTACTACTAA
1 AGCTCATA-TACTACTAA
11666344 CGATAATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (17 bp):
AGCTCATATACTACTAA
Found at i:11666819 original size:33 final size:33
Alignment explanation
Indices: 11666753--11666819 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
11666743 TTTGTTTAGC
*
11666753 CTTAAATTGAAAATGAATTTTATATAGGGGGAG
1 CTTAAATTGAAAATGAATTTTATATAGGAGGAG
11666786 CTTAAATTGAAAAT-AGATTTTAT-TAAGGAGGAG
1 CTTAAATTGAAAATGA-ATTTTATAT-AGGAGGAG
11666819 C
1 C
11666820 AATTTATTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 2 0.06
33 29 0.94
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.33
Consensus pattern (33 bp):
CTTAAATTGAAAATGAATTTTATATAGGAGGAG
Found at i:11666904 original size:37 final size:37
Alignment explanation
Indices: 11666846--11666920 Score: 125
Period size: 37 Copynumber: 2.0 Consensus size: 37
11666836 AAGTTACCAA
11666846 ATGTTTTGTTATACCAGAAGGGGGAGATTGTTAAACC
1 ATGTTTTGTTATACCAGAAGGGGGAGATTGTTAAACC
*
11666883 ATGTTTTGTTATATC-GAAAGGGGGAGATTGTTAAACC
1 ATGTTTTGTTATACCAG-AAGGGGGAGATTGTTAAACC
11666920 A
1 A
11666921 AGGTTTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 1 0.03
37 35 0.97
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (37 bp):
ATGTTTTGTTATACCAGAAGGGGGAGATTGTTAAACC
Found at i:11666983 original size:22 final size:23
Alignment explanation
Indices: 11666938--11666983 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
11666928 TTTTAAAATA
*
11666938 TGTTTTGATATAACAATTTAAAG
1 TGTTTTGATATAACAAGTTAAAG
11666961 TGTTCTTGA-ATAA-AAGTTAAAG
1 TGTT-TTGATATAACAAGTTAAAG
11666983 T
1 T
11666984 TGAACATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 8 0.38
24 4 0.19
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.41
Consensus pattern (23 bp):
TGTTTTGATATAACAAGTTAAAG
Found at i:11673983 original size:54 final size:53
Alignment explanation
Indices: 11673880--11673999 Score: 147
Period size: 54 Copynumber: 2.2 Consensus size: 53
11673870 ATTCATGGGC
*
11673880 AAATGACCGAAA-TACCTAGAAGGGTAAAATGACTGAAAAACTCCCGAAGGGTA
1 AAATGACCGAAATTACCTAGAAAGGTAAAATGAC-GAAAAACTCCCGAAGGGTA
* *
11673933 AAATGACCGAAATTCCCTCGAAAGGTAAAATGAC-AAAAA-TACCCATGAAGGGTA
1 AAATGACCGAAATTACCTAGAAAGGTAAAATGACGAAAAACT-CCC--GAAGGGTA
*
11673987 AAATGACAGAAAT
1 AAATGACCGAAAT
11674000 ACCCCTTTGG
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
51 1 0.02
52 8 0.14
53 12 0.20
54 38 0.64
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (53 bp):
AAATGACCGAAATTACCTAGAAAGGTAAAATGACGAAAAACTCCCGAAGGGTA
Found at i:11673999 original size:27 final size:26
Alignment explanation
Indices: 11673880--11674003 Score: 133
Period size: 27 Copynumber: 4.7 Consensus size: 26
11673870 ATTCATGGGC
*
11673880 AAATGACCGAAATA-CCTAGAAGGGTA
1 AAATGACAGAAATACCCT-GAAGGGTA
* * *
11673906 AAATGACTGAAAAACTCCCGAAGGGTA
1 AAATGACAGAAATAC-CCTGAAGGGTA
* * *
11673933 AAATGACCGAAATTCCCTCGAAAGGTA
1 AAATGACAGAAATACCCT-GAAGGGTA
*
11673960 AAATGACAAAAATACCCATGAAGGGTA
1 AAATGACAGAAATACCC-TGAAGGGTA
11673987 AAATGACAGAAATACCC
1 AAATGACAGAAATACCC
11674004 CTTTGGGGTA
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
26 14 0.17
27 64 0.79
28 3 0.04
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.15
Consensus pattern (26 bp):
AAATGACAGAAATACCCTGAAGGGTA
Found at i:11674223 original size:26 final size:26
Alignment explanation
Indices: 11674168--11674270 Score: 109
Period size: 26 Copynumber: 4.0 Consensus size: 26
11674158 TAGGGAAGTA
** **
11674168 TACTG-TACTGGTGGCTTTGCCACAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
*
11674193 ATACTGTTACTGGCAGCTTTGCTGCGT
1 -TACTGTTACTGGCAGCTTTGCTGCAT
*
11674220 TACTGTTACTGCCAGCTTTGCTGCAT
1 TACTGTTACTGGCAGCTTTGCTGCAT
* * *
11674246 CACTATTACTAGCAGCTTTGCTGCA
1 TACTGTTACTGGCAGCTTTGCTGCA
11674271 ATATTAGTGT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 50 0.77
27 15 0.23
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.36
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCAT
Found at i:11674455 original size:30 final size:30
Alignment explanation
Indices: 11674375--11674463 Score: 112
Period size: 30 Copynumber: 3.0 Consensus size: 30
11674365 TACTGCATTG
11674375 CACTAATTACTGTATTGGGCTAAGG-CC-C-
1 CACT-ATTACTGTATTGGGCTAAGGCCCACA
*
11674403 CACTATTACTGTATTAGGCTAAGGCCCACA
1 CACTATTACTGTATTGGGCTAAGGCCCACA
* * *
11674433 CACTGTTATTGTAATGGGCTAAGGCCCACA
1 CACTATTACTGTATTGGGCTAAGGCCCACA
11674463 C
1 C
11674464 TGTACTGATA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
27 19 0.36
28 6 0.11
29 1 0.02
30 27 0.51
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (30 bp):
CACTATTACTGTATTGGGCTAAGGCCCACA
Found at i:11675293 original size:17 final size:17
Alignment explanation
Indices: 11675273--11675314 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
11675263 CTTAAATTAG
*
11675273 GGAAAACTAAGACTGTA
1 GGAAAACTAAAACTGTA
*
11675290 GGAAAACGAAAACTGTA
1 GGAAAACTAAAACTGTA
*
11675307 GGTAAACT
1 GGAAAACT
11675315 CATAAATTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.48, C:0.12, G:0.24, T:0.17
Consensus pattern (17 bp):
GGAAAACTAAAACTGTA
Found at i:11676724 original size:26 final size:26
Alignment explanation
Indices: 11676695--11676765 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
11676685 TTGCCACATA
*
11676695 TACTGTTACTGGCAGTTTTGCTACGT
1 TACTGTTACTGGCAGCTTTGCTACGT
*
11676721 TACTGTTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTACGT
* * *
11676747 CACTATTACTAGCAGCTTT
1 TACTGTTACTGGCAGCTTT
11676766 ACTGCGATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTACGT
Found at i:11676921 original size:28 final size:28
Alignment explanation
Indices: 11676881--11676966 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
11676871 CATTCTACTG
*
11676881 ATTACTGTATTGGGCTAAAGCCCCCACT
1 ATTACTGTATTGGGCTAAGGCCCCCACT
11676909 ATTACTGTATTGGGCTAAGGCCCACACACT
1 ATTACTGTATTGGGCTAAGGCCC-C-CACT
* * *
11676939 GTTACTGTAATGGGCTAAGGCCCACACT
1 ATTACTGTATTGGGCTAAGGCCCCCACT
11676967 GTACTGATAC
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
28 26 0.50
29 1 0.02
30 25 0.48
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (28 bp):
ATTACTGTATTGGGCTAAGGCCCCCACT
Found at i:11676946 original size:30 final size:30
Alignment explanation
Indices: 11676877--11676995 Score: 134
Period size: 30 Copynumber: 3.9 Consensus size: 30
11676867 ACTGCATTCT
*
11676877 ACTGATTACTGTATTGGGCTAAAGCCC-C-C
1 ACTG-TTACTGTATTGGGCTAAGGCCCACAC
*
11676906 ACTATTACTGTATTGGGCTAAGGCCCACAC
1 ACTGTTACTGTATTGGGCTAAGGCCCACAC
*
11676936 ACTGTTACTGTAATGGGCTAAGGCCCACAC
1 ACTGTTACTGTATTGGGCTAAGGCCCACAC
* * *
11676966 TGTACTGATACTGTATAGGGCTCAGGCCCA
1 ---ACTGTTACTGTATTGGGCTAAGGCCCA
11676996 GACTGATTCT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
28 21 0.27
29 4 0.05
30 29 0.38
33 23 0.30
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (30 bp):
ACTGTTACTGTATTGGGCTAAGGCCCACAC
Found at i:11676987 original size:33 final size:32
Alignment explanation
Indices: 11676877--11677001 Score: 111
Period size: 33 Copynumber: 4.0 Consensus size: 32
11676867 ACTGCATTCT
* * *
11676877 ACTGATTACTGTATTGGGCTAAAGCCCCCACT-
1 ACTGA-TACTGTATAGGGCTAAGGCCCACACTG
*
11676909 A-T--TACTGTATTGGGCTAAGGCCCACAC--
1 ACTGATACTGTATAGGGCTAAGGCCCACACTG
*
11676936 ACTGTTACTGTA-ATGGGCTAAGGCCCACACTG
1 ACTGATACTGTATA-GGGCTAAGGCCCACACTG
* *
11676968 TACTGATACTGTATAGGGCTCAGGCCCAGACTG
1 -ACTGATACTGTATAGGGCTAAGGCCCACACTG
11677001 A
1 A
11677002 TTCTGCATGT
Statistics
Matches: 79, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
27 1 0.01
28 24 0.30
30 23 0.29
31 1 0.01
32 2 0.03
33 27 0.34
34 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (32 bp):
ACTGATACTGTATAGGGCTAAGGCCCACACTG
Found at i:11682286 original size:51 final size:50
Alignment explanation
Indices: 11682167--11682351 Score: 180
Period size: 51 Copynumber: 3.7 Consensus size: 50
11682157 AAAGTGATGG
* * * * * * *
11682167 TCACGTGTGTAGTACTATGTGTAGGCTACTACGCTTACCAGA-A-TGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGT-AT-GA
* *
11682217 TCGCATGTGTAGTACTATGTACAGGCTACTATGCGTA-CTGGATAGCT-TCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATC-GGATAG-TAT-GA
* * *
11682268 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGT-ATGA
11682319 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
11682352 TGAACCGGTA
Statistics
Matches: 113, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
49 1 0.01
50 34 0.30
51 75 0.66
52 2 0.02
53 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGTATGA
Found at i:11682287 original size:101 final size:102
Alignment explanation
Indices: 11682167--11682351 Score: 277
Period size: 101 Copynumber: 1.8 Consensus size: 102
11682157 AAAGTGATGG
* * *
11682167 TCACGTGTGTAGTACTATGTGTAGGCTACTACGCT-TACCAGA-A-TGATAGGTCGCATGTGTAG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACG-TGTACCAGATAGTGAT-GGTCACATGTGTAG
11682229 TACTATGTACAGGCTACTATGCGTACTGGATAGCTTCGA
64 TACTATGTACAGGCTACTATGCGTACTGGATAGCTTCGA
* *
11682268 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
*
11682333 CTATGTGCAGGCTACTATG
66 CTATGTACAGGCTACTATG
11682352 TGAACCGGTA
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 1 0.01
101 36 0.48
102 34 0.45
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTGATGGTCACATGTGTAGTA
CTATGTACAGGCTACTATGCGTACTGGATAGCTTCGA
Found at i:11682428 original size:46 final size:43
Alignment explanation
Indices: 11682355--11682453 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 43
11682345 TACTATGTGA
*
11682355 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* *
11682398 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
11682444 ACCGTGTATC
1 ACCG-GTATC
11682454 TGTTATTATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.10
44 11 0.23
45 2 0.04
46 27 0.56
47 3 0.06
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:11682598 original size:16 final size:16
Alignment explanation
Indices: 11682577--11682608 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11682567 TGATTGAAAG
*
11682577 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
11682593 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
11682609 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:11688491 original size:101 final size:102
Alignment explanation
Indices: 11688371--11688555 Score: 313
Period size: 101 Copynumber: 1.8 Consensus size: 102
11688361 AAAGTGATGG
*
11688371 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-CTAGA-A-TGATAGGTCGCATGTGTAG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-AGATAGTGAT-GGTCACATGTGTAG
11688433 TACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
64 TACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
*
11688472 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
11688537 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
11688556 TGAACCGGTA
Statistics
Matches: 79, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
101 39 0.49
102 36 0.46
103 4 0.05
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:11688501 original size:51 final size:49
Alignment explanation
Indices: 11688368--11688563 Score: 223
Period size: 51 Copynumber: 3.9 Consensus size: 49
11688358 GTGAAAGTGA
* **
11688368 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTAGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATA-G-T
* * * *
11688418 AGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-T
* * *
11688468 TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGT
1 T-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT
* *
11688518 GATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGG
1 --TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
11688564 TATCATTAAT
Statistics
Matches: 122, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
50 41 0.34
51 80 0.66
52 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (49 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT
Found at i:11688557 original size:26 final size:26
Alignment explanation
Indices: 11688477--11688557 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
11688467 TTCGATCACG
11688477 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
11688503 CGTGTA-T-CGGATAGTG-ATGG-TCAC-A
1 TGTGTAGTAC-TAT-GTGCA-GGCT-ACTA
11688528 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
11688554 TGTG
1 TGTG
11688558 AACCGGTATC
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:11688594 original size:101 final size:100
Alignment explanation
Indices: 11688373--11688563 Score: 278
Period size: 102 Copynumber: 1.9 Consensus size: 100
11688363 AGTGATGGTC
*
11688373 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACTAGAATGATAGGTCGCATGTGTAGTACTA
1 ACGTGTGTA-TACTATGTGCAGGCTACTACGTGTACTAGAATGATAGGTCACATGTGTAGTACTA
* *
11688438 TGTGCAGGCTACTATGCGTACCGGATAGCTTCGATC
65 TGTGCAGGCTACTATGCGAACCGGATAGCTTCGATA
*
11688474 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTA-TCGGATAGTGAT-GGTCACATGTGTAGTA
1 ACGTGTGTA-TACTATGTGCAGGCTACTACGTGTACT-AGA-A-TGATAGGTCACATGTGTAGTA
*
11688537 CTATGTGCAGGCTACTATGTGAACCGG
62 CTATGTGCAGGCTACTATGCGAACCGG
11688564 TATCATTAAT
Statistics
Matches: 83, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
100 1 0.01
101 37 0.45
102 41 0.49
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.30
Consensus pattern (100 bp):
ACGTGTGTATACTATGTGCAGGCTACTACGTGTACTAGAATGATAGGTCACATGTGTAGTACTAT
GTGCAGGCTACTATGCGAACCGGATAGCTTCGATA
Found at i:11692542 original size:14 final size:15
Alignment explanation
Indices: 11692503--11692549 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
11692493 AGAGTTGAGA
*
11692503 GAGAGGATGAGAGAT
1 GAGAGGATGAGGGAT
11692518 GAGAGGAATGAGGGAT
1 GAGAGG-ATGAGGGAT
*
11692534 GAG-GGATGATGGAT
1 GAGAGGATGAGGGAT
11692548 GA
1 GA
11692550 TGTGAGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 10 0.34
15 8 0.28
16 11 0.38
ACGTcount: A:0.36, C:0.00, G:0.49, T:0.15
Consensus pattern (15 bp):
GAGAGGATGAGGGAT
Found at i:11692551 original size:7 final size:7
Alignment explanation
Indices: 11692507--11692549 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
11692497 TTGAGAGAGA
11692507 GGATGAG
1 GGATGAG
*
11692514 AGATGAG
1 GGATGAG
11692521 AGGAATGAG
1 -GG-ATGAG
11692530 GGATGAG
1 GGATGAG
*
11692537 GGATGAT
1 GGATGAG
11692544 GGATGA
1 GGATGA
11692550 TGTGAGAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
7 23 0.74
8 3 0.10
9 5 0.16
ACGTcount: A:0.35, C:0.00, G:0.49, T:0.16
Consensus pattern (7 bp):
GGATGAG
Found at i:11699832 original size:103 final size:103
Alignment explanation
Indices: 11699543--11699910 Score: 593
Period size: 102 Copynumber: 3.6 Consensus size: 103
11699533 TGTTAACCGT
* *
11699543 TATGGTGGAT-CCGCACTTAGCACCA-CACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGG
1 TATGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGG
11699606 GGAATCAGCACATAGCAACCCCCTTTTCATTTCAAAGA
66 GGAATCAGCACATAGCAACCCCCTTTTCATTTCAAAGA
* *
11699644 TACGGTGGATATCGCACTTAGCATCACCAATGAATC-GGGAATCAGCACTTAGCAACCCCTCGGG
1 TATGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGG
11699708 GGAATCAGCACATAGCAA-CCCCTTTTCATTTCAAAGA
66 GGAATCAGCACATAGCAACCCCCTTTTCATTTCAAAGA
*
11699745 TATTGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGG
1 TATGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGG
*
11699810 GGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGA
65 GGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGA
* **
11699850 TATGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TATGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
11699911 TTTATATACA
Statistics
Matches: 248, Mismatches: 12, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
101 57 0.23
102 63 0.25
103 54 0.22
104 34 0.14
105 39 0.16
106 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (103 bp):
TATGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGG
GGAATCAGCACATAGCAACCCCCTTTTCATTTCAAAGA
Found at i:11700273 original size:29 final size:29
Alignment explanation
Indices: 11700240--11700303 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
11700230 TAATCCACCA
11700240 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
11700269 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
11700299 CCCAA
1 CCCAA
11700304 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:11700277 original size:30 final size:30
Alignment explanation
Indices: 11700247--11700303 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11700237 CCACCCAACT
11700247 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
11700276 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
11700304 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:11710146 original size:26 final size:26
Alignment explanation
Indices: 11710101--11710152 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
11710091 CACCACTGAA
*
11710101 TCGGGGAATCAACACTTAGCAACCCC
1 TCGGGGAATCAACACATAGCAACCCC
* *
11710127 TCGGGGAATTAGCACATAGCAACCCC
1 TCGGGGAATCAACACATAGCAACCCC
11710153 CTTTTTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.33, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAACACATAGCAACCCC
Found at i:11710319 original size:104 final size:103
Alignment explanation
Indices: 11710070--11710438 Score: 553
Period size: 104 Copynumber: 3.6 Consensus size: 103
11710060 AACCGTTATC
** * * *
11710070 GGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAACACTTAGCAACCCCTC-GGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGAGGAATCAGCACTTAGCAACCCCTCGGGGGA
* *
11710134 ATTAGCACATAGCAACCCCCTTTTTCATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCC-TTTTCATTTCAAAGATAT
* *
11710173 GGTGGATATCGCACTTAGCATCACCAATGAATCGAGGAATCAGCACTTAGCAACCCGTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGAGGAATCAGCACTTAGCAACCCCTCGGGGGA
11710238 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAT
66 ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAT
* *
11710276 GGTGGATATCACACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATG-AATCGAGGAATCAGCACTTAGCAACCCCTCGGGGG
*
11710341 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAT
65 AATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATAT
* **
11710381 GGTGGATCA-CGCACATAGCACCACCAATGAATCGAGGAATCAGCACACAGCAACCCCT
1 GGTGGAT-ATCGCACTTAGCACCACCAATGAATCGAGGAATCAGCACTTAGCAACCCCT
11710439 TTTATATACA
Statistics
Matches: 243, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
103 96 0.40
104 107 0.44
105 39 0.16
106 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (103 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGAGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATAT
Found at i:11710800 original size:29 final size:29
Alignment explanation
Indices: 11710767--11710830 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
11710757 TAATCCACCA
11710767 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
11710796 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
11710826 CCCAA
1 CCCAA
11710831 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:11710804 original size:30 final size:30
Alignment explanation
Indices: 11710774--11710830 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11710764 CCACCCAACT
11710774 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
11710803 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
11710831 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:11711810 original size:27 final size:27
Alignment explanation
Indices: 11711780--11711981 Score: 174
Period size: 27 Copynumber: 7.5 Consensus size: 27
11711770 TACGCTCGAT
* * *
11711780 GGGTAAAATGACCGTAATACCCATTTA
1 GGGTAAAATGACCGTAATGCCCCTATA
* *
11711807 GGGTAAAATGATCGTAATGGCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTATA
* * * *
11711834 TGCTAAAATGATCGTAATGCCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTATA
* *
11711861 GGGTAAAATAACCGTAATGCCCCTGTCA
1 GGGTAAAATGACCGTAATGCCCCTAT-A
**
11711889 -AATAAAATGACCGTAATGCCCCTATA
1 GGGTAAAATGACCGTAATGCCCCTATA
* * *
11711915 GGGTAAAATAACCGTAATGTCCCTGTA
1 GGGTAAAATGACCGTAATGCCCCTATA
* * * * *
11711942 AGGTAAAATAATCGCAATG-CCCTGGTA
1 GGGTAAAATGACCGTAATGCCCCT-ATA
*
11711969 GGCTAAAATGACC
1 GGGTAAAATGACC
11711982 CTGTAGGGTA
Statistics
Matches: 143, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
26 5 0.03
27 137 0.96
28 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
GGGTAAAATGACCGTAATGCCCCTATA
Found at i:11711865 original size:54 final size:53
Alignment explanation
Indices: 11711783--11711977 Score: 194
Period size: 54 Copynumber: 3.6 Consensus size: 53
11711773 GCTCGATGGG
* * * * * * * *
11711783 TAAAATGACCGTAATACCCATTTAGGGTAAAATGATCGTAATGGCCCTATATGC
1 TAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACCGTAATGCCCCTGTA-GA
* *
11711837 TAAAATGATCGTAATGCCCCTGTAGGGTAAAATAACCGTAATGCCCCTGTCAAA
1 TAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACCGTAATGCCCCTGT-AGA
* * *
11711891 TAAAATGACCGTAATGCCCCTATAGGGTAAAATAACCGTAATGTCCCTGTAAGG
1 TAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACCGTAATGCCCCTGT-AGA
* * * *
11711945 TAAAATAATCGCAATG-CCCTGGTAGGCTAAAAT
1 TAAAATGACCGTAATGCCCCT-GTAGGGTAAAAT
11711978 GACCCTGTAG
Statistics
Matches: 118, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
53 4 0.03
54 113 0.96
55 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (53 bp):
TAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACCGTAATGCCCCTGTAGA
Found at i:11711922 original size:81 final size:81
Alignment explanation
Indices: 11711810--11711963 Score: 218
Period size: 81 Copynumber: 1.9 Consensus size: 81
11711800 CCATTTAGGG
* * * * * *
11711810 TAAAATGATCGTAATGGCCCTATATGCTAAAATGATCGTAATGCCCCTGTAGGGTAAAATAACCG
1 TAAAATGACCGTAATGCCCCTATAGGCTAAAATAACCGTAATGCCCCTGTAAGGTAAAATAACCG
*
11711875 TAATGCCCCTGTCAAA
66 CAATGCCCCTGTCAAA
* * *
11711891 TAAAATGACCGTAATGCCCCTATAGGGTAAAATAACCGTAATGTCCCTGTAAGGTAAAATAATCG
1 TAAAATGACCGTAATGCCCCTATAGGCTAAAATAACCGTAATGCCCCTGTAAGGTAAAATAACCG
11711956 CAATGCCC
66 CAATGCCC
11711964 TGGTAGGCTA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (81 bp):
TAAAATGACCGTAATGCCCCTATAGGCTAAAATAACCGTAATGCCCCTGTAAGGTAAAATAACCG
CAATGCCCCTGTCAAA
Found at i:11711976 original size:81 final size:81
Alignment explanation
Indices: 11711781--11711981 Score: 208
Period size: 81 Copynumber: 2.5 Consensus size: 81
11711771 ACGCTCGATG
* * * * * * * * * * *
11711781 GGTAAAATGACCGTAATACCCATTTAGGGTAAAATGATCGTAATGGCCCTATATGCTAAAATGAT
1 GGTAAAATAACCGCAATGCCCCTGTAGGATAAAATGACCGTAATGCCCCTATAGGCTAAAATAAC
*
11711846 CGTAATGCCCCTGTAG
66 CGTAATGCCCCTGTAA
* * *
11711862 GGTAAAATAACCGTAATGCCCCTGTCA-AATAAAATGACCGTAATGCCCCTATAGGGTAAAATAA
1 GGTAAAATAACCGCAATGCCCCTGT-AGGATAAAATGACCGTAATGCCCCTATAGGCTAAAATAA
*
11711926 CCGTAATGTCCCTGTAA
65 CCGTAATGCCCCTGTAA
* *
11711943 GGTAAAATAATCGCAATG-CCCTGGTAGGCTAAAATGACC
1 GGTAAAATAACCGCAATGCCCCT-GTAGGATAAAATGACC
11711982 CTGTAGGGTA
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
80 5 0.05
81 93 0.94
82 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (81 bp):
GGTAAAATAACCGCAATGCCCCTGTAGGATAAAATGACCGTAATGCCCCTATAGGCTAAAATAAC
CGTAATGCCCCTGTAA
Found at i:11711987 original size:18 final size:18
Alignment explanation
Indices: 11711957--11711995 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11711947 AAATAATCGC
11711957 AATGCCCTGGTAGGCTAA
1 AATGCCCTGGTAGGCTAA
*
11711975 AATGACCCT-GTAGGGTAA
1 AATG-CCCTGGTAGGCTAA
11711993 AAT
1 AAT
11711996 AACCGTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (18 bp):
AATGCCCTGGTAGGCTAA
Found at i:11712015 original size:45 final size:45
Alignment explanation
Indices: 11711930--11712024 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 45
11711920 AAATAACCGT
* * **
11711930 AATGTCCCTGTAAGGTAAAATAATCGCAATGCCCTGGTAGGCTAA
1 AATGACCCTGTAAGGTAAAATAACCGCAAACCCCTGGTAGGCTAA
* * *
11711975 AATGACCCTGTAGGGTAAAATAACCGTATAACCCCT-GTAGGGTAA
1 AATGACCCTGTAAGGTAAAATAACCGCA-AACCCCTGGTAGGCTAA
11712020 AATGA
1 AATGA
11712025 ATGAAATACC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 37 0.88
46 5 0.12
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (45 bp):
AATGACCCTGTAAGGTAAAATAACCGCAAACCCCTGGTAGGCTAA
Found at i:11712035 original size:27 final size:28
Alignment explanation
Indices: 11711980--11712053 Score: 91
Period size: 27 Copynumber: 2.7 Consensus size: 28
11711970 GCTAAAATGA
*
11711980 CCCTGTAGGGTAAAAT-AACCGTATAAC
1 CCCTGTAGGGTAAAATGAACCGAATAAC
*
11712007 CCCTGTAGGGTAAAATGAA-TGAA-ATAC
1 CCCTGTAGGGTAAAATGAACCGAATA-AC
*
11712034 CCCTGTAAGGTAAAATGAAC
1 CCCTGTAGGGTAAAATGAAC
11712054 ATAATGCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 1 0.02
27 38 0.93
28 2 0.05
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (28 bp):
CCCTGTAGGGTAAAATGAACCGAATAAC
Found at i:11712048 original size:72 final size:72
Alignment explanation
Indices: 11711903--11712051 Score: 171
Period size: 72 Copynumber: 2.1 Consensus size: 72
11711893 AAATGACCGT
* ** * *
11711903 AATGCCCCTATAGGGTAAAATAACCGTAATGTCCCTGTAAGGTAAAATAATCGCAATGCCCTGGT
1 AATGACCCTATAGGGTAAAATAACCGTAATACCCCTGTAAGGTAAAATAATCGAAATCCCCTGGT
11711968 AGGCTAA
66 AGGCTAA
* *
11711975 AATGACCCTGTAGGGTAAAATAACCGT-ATAACCCCTGTAGGGTAAAATGAAT-GAAATACCCCT
1 AATGACCCTATAGGGTAAAATAACCGTAAT-ACCCCTGTAAGGTAAAAT-AATCGAAAT-CCCCT
11712038 -GTAAGG-TAA
63 GGT-AGGCTAA
11712047 AATGA
1 AATGA
11712052 ACATAATGCC
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
71 2 0.03
72 54 0.82
73 10 0.15
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (72 bp):
AATGACCCTATAGGGTAAAATAACCGTAATACCCCTGTAAGGTAAAATAATCGAAATCCCCTGGT
AGGCTAA
Found at i:11712150 original size:24 final size:25
Alignment explanation
Indices: 11712123--11712180 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
11712113 CTGTGGTTAA
*
11712123 ATGACTGATTTGTCTGTG-TTTGGT
1 ATGAATGATTTGTCTGTGATTTGGT
*
11712147 ATGAATGATTTGTCTGTGATTT-GA
1 ATGAATGATTTGTCTGTGATTTGGT
11712171 ATGAATGATT
1 ATGAATGATT
11712181 CTGAGCATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.22, C:0.05, G:0.26, T:0.47
Consensus pattern (25 bp):
ATGAATGATTTGTCTGTGATTTGGT
Found at i:11712325 original size:26 final size:26
Alignment explanation
Indices: 11712296--11712349 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
11712286 TTGGCCAAAT
*
11712296 ATACTATTACTGGCAGCTTTGTTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
* *
11712322 ATACTGTTGCTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
11712348 AT
1 AT
11712350 GCTACTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:11712361 original size:26 final size:26
Alignment explanation
Indices: 11712306--11712361 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
11712296 ATACTATTAC
* ** *
11712306 TGGCAGCTTTGTTGCGATACTGTTGC
1 TGGCAGCTTTGCTGCGATACTACTGA
*
11712332 TGGCAGCTTTGCTGCGATGCTACTGA
1 TGGCAGCTTTGCTGCGATACTACTGA
11712358 TGGC
1 TGGC
11712362 TTTGTGCCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.12, C:0.21, G:0.32, T:0.34
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCGATACTACTGA
Found at i:11712393 original size:32 final size:32
Alignment explanation
Indices: 11712352--11712586 Score: 240
Period size: 32 Copynumber: 7.4 Consensus size: 32
11712342 GCTGCGATGC
* * *
11712352 TACTGATGGCTTTGTGCCAATTATAGTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
11712384 TACTGATGGCTTTGTGCCGATCATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * * *
11712416 TACCGATGACTGTGTGCCAATCAT-TTCACTGT
1 TACTGATGGCTTTGTGCCGATCATATT-ACTGT
* * * *
11712448 TACTGATAGCTGTGTGCCGATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * *
11712480 TACTAATGGCTTTGTGCCGATCATGTTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * * * *
11712512 TACTGATGGCTGTGTACCGGTCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
* * *
11712544 TACTGATGGTTTTGTGCCAATCACATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACTGT
*
11712575 TACTTATGGCTT
1 TACTGATGGCTT
11712587 GTAGCCATTT
Statistics
Matches: 164, Mismatches: 37, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
31 12 0.07
32 151 0.92
33 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACTGT
Found at i:11712465 original size:64 final size:64
Alignment explanation
Indices: 11712349--11712585 Score: 282
Period size: 64 Copynumber: 3.7 Consensus size: 64
11712339 TTTGCTGCGA
* * *
11712349 TGCTACTGATGGCTTTGTGCCAATTATAG-TACTGTTACTGATGGCTTTGTGCCGATCATATTAC
1 TGCTACTGATGGCTTTGTGCCAATCAT-GTTACTGTTACTGATGGCTGTGTGCCGATCATATCAC
* * * * *
11712413 TGTTACCGATGACTGTGTGCCAATCAT-TTCACTGTTACTGATAGCTGTGTGCCGATCATATCAC
1 TGCTACTGATGGCTTTGTGCCAATCATGTT-ACTGTTACTGATGGCTGTGTGCCGATCATATCAC
* * * * *
11712477 TGCTACTAATGGCTTTGTGCCGATCATGTTACCGTTACTGATGGCTGTGTACCGGTCATATCAC
1 TGCTACTGATGGCTTTGTGCCAATCATGTTACTGTTACTGATGGCTGTGTGCCGATCATATCAC
* ** *
11712541 TGCTACTGATGGTTTTGTGCCAATCACATTACTG-TACTTATGGCT
1 TGCTACTGATGGCTTTGTGCCAATCATGTTACTGTTACTGATGGCT
11712586 TGTAGCCATT
Statistics
Matches: 145, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
63 11 0.08
64 132 0.91
65 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (64 bp):
TGCTACTGATGGCTTTGTGCCAATCATGTTACTGTTACTGATGGCTGTGTGCCGATCATATCAC
Found at i:11712525 original size:96 final size:94
Alignment explanation
Indices: 11712349--11712586 Score: 278
Period size: 96 Copynumber: 2.5 Consensus size: 94
11712339 TTTGCTGCGA
* * *
11712349 TGCTACTGATGGCTTTGTGCCAATTATAGTACTGTTACTGATGGCTTTGTGCCGATCATATTACT
1 TGCTACTGATGGCTTTGTGCCAATCATA-TACTG-TACTAATGGCTTTGTGCCGATCATATTACC
* *
11712414 GTTACCGATGACTGTGTGCCAATCATTTCAC
64 GTTACCGATGACTGTGTACCAATCATATCAC
* * * * *
11712445 TGTTACTGATAGCTGTGTGCCGATCATATCACTGCTACTAATGGCTTTGTGCCGATCATGTTACC
1 TGCTACTGATGGCTTTGTGCCAATCATAT-ACTG-TACTAATGGCTTTGTGCCGATCATATTACC
* * **
11712510 GTTACTGATGGCTGTGTACCGGTCATATCAC
64 GTTACCGATGACTGTGTACCAATCATATCAC
* * *
11712541 TGCTACTGATGGTTTTGTGCCAATCACATTACTGTACTTATGGCTT
1 TGCTACTGATGGCTTTGTGCCAATCATA-TACTGTACTAATGGCTT
11712587 GTAGCCATTT
Statistics
Matches: 118, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
95 12 0.10
96 105 0.89
97 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.37
Consensus pattern (94 bp):
TGCTACTGATGGCTTTGTGCCAATCATATACTGTACTAATGGCTTTGTGCCGATCATATTACCGT
TACCGATGACTGTGTACCAATCATATCAC
Found at i:11714910 original size:11 final size:11
Alignment explanation
Indices: 11714896--11714925 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
11714886 TCTTTTCGTC
*
11714896 TTTTTTTCTTT
1 TTTTTTTCCTT
11714907 TTTTTTTCCTT
1 TTTTTTTCCTT
11714918 TTTTTTTC
1 TTTTTTTC
11714926 AAGAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTCCTT
Found at i:11714913 original size:12 final size:12
Alignment explanation
Indices: 11714896--11714924 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
11714886 TCTTTTCGTC
11714896 TTTTTTT-CTTT
1 TTTTTTTCCTTT
11714907 TTTTTTTCCTTT
1 TTTTTTTCCTTT
11714919 TTTTTT
1 TTTTTT
11714925 CAAGAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTCCTTT
Found at i:11728408 original size:51 final size:52
Alignment explanation
Indices: 11728313--11728505 Score: 148
Period size: 51 Copynumber: 3.8 Consensus size: 52
11728303 AAACACGTGT
* *
11728313 GTAGTACTA-AGTGCAGGCTACTACGTGTATCGATAGATAATGGTCACATGA
1 GTAGTACTATAGTGCAGGCTACTACGTGTACCGAAAGATAATGGTCACATGA
* * * * *
11728364 GTAGTACTATA-TGCAGGCTACTATGTGTACCGAAAGGCT-TTGGTCACGTGT
1 GTAGTACTATAGTGCAGGCTACTACGTGTACCGAAA-GATAATGGTCACATGA
** * * * * * *
11728415 GTAGTACTAT-GTATAGGTTACTACGTGAACCGGAAAG-T-TTGATCACGTGT
1 GTAGTACTATAGTGCAGGCTACTACGTGTACC-GAAAGATAATGGTCACATGA
* * * *
11728465 GTAGTACAAT-GTGAAGGCTACTACGTGTATCGAATGATAAT
1 GTAGTACTATAGTGCAGGCTACTACGTGTACCGAAAGATAAT
11728506 AATTACACGG
Statistics
Matches: 115, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
49 4 0.03
50 38 0.33
51 66 0.57
52 7 0.06
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (52 bp):
GTAGTACTATAGTGCAGGCTACTACGTGTACCGAAAGATAATGGTCACATGA
Found at i:11732453 original size:7 final size:7
Alignment explanation
Indices: 11732442--11732510 Score: 93
Period size: 7 Copynumber: 9.6 Consensus size: 7
11732432 TTGAGAGAGA
11732442 GGATGAG
1 GGATGAG
*
11732449 AGATGAGAG
1 GGATG--AG
11732458 GGATGAG
1 GGATGAG
11732465 GGATGAG
1 GGATGAG
11732472 GGATGAG
1 GGATGAG
11732479 GGATGAG
1 GGATGAG
11732486 GGATGAG
1 GGATGAG
*
11732493 GGATGAA
1 GGATGAG
*
11732500 GGATGAT
1 GGATGAG
11732507 GGAT
1 GGAT
11732511 AAAGTGAGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
7 50 0.89
9 6 0.11
ACGTcount: A:0.32, C:0.00, G:0.52, T:0.16
Consensus pattern (7 bp):
GGATGAG
Found at i:11757835 original size:35 final size:34
Alignment explanation
Indices: 11757789--11757861 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
11757779 AATGATGTTA
* ** *
11757789 AATTGAATGTATTTATTATGTACATAGTCGAATTT
1 AATTGAATGTATGTA-TAACTACATAGTCGAATTG
* *
11757824 AATTGTATGTATGTATAACTACATTGTCGAATTG
1 AATTGAATGTATGTATAACTACATAGTCGAATTG
11757858 AATT
1 AATT
11757862 TAGAATGGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 19 0.59
35 13 0.41
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (34 bp):
AATTGAATGTATGTATAACTACATAGTCGAATTG
Found at i:11758094 original size:44 final size:43
Alignment explanation
Indices: 11757978--11758142 Score: 151
Period size: 43 Copynumber: 3.8 Consensus size: 43
11757968 TACGATATGT
* * ** *
11757978 GATTTCGTGTAATACCACATCTGGGACGTTGGCATCGATTTGA
1 GATTTAGTGTAAGACCATGTCTGGGACATTGGCATCGATTTGA
* *
11758021 GATTTCGTGGAAGACTGCAT-T-TGGGACATTGGCATCGATTTGA
1 GATTTAGTGTAAGAC--CATGTCTGGGACATTGGCATCGATTTGA
*
11758064 GATTTATGTGTAAGACCATGTCTGGGACATTGGCATCG-TAT-A
1 GATTTA-GTGTAAGACCATGTCTGGGACATTGGCATCGATTTGA
* * *
11758106 TCATTGTA-TGTAAGACCCTGTCTGGGACAGTGGCATC
1 -GATT-TAGTGTAAGACCATGTCTGGGACATTGGCATC
11758143 AATAGTTGAT
Statistics
Matches: 105, Mismatches: 10, Indels: 15
0.81 0.08 0.12
Matches are distributed among these distances:
42 31 0.30
43 45 0.43
44 27 0.26
45 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
GATTTAGTGTAAGACCATGTCTGGGACATTGGCATCGATTTGA
Found at i:11758175 original size:43 final size:43
Alignment explanation
Indices: 11758113--11758212 Score: 130
Period size: 43 Copynumber: 2.3 Consensus size: 43
11758103 ATATCATTGT
* * *
11758113 ATGTAAGACCCTGTCTGGGACAGTGGCA-TCAATAGTTGATTTC
1 ATGTAAGACCCTATATGGGACAATGGCACT-AATAGTTGATTTC
* *
11758156 ATGTAAGACCCTATATGGGACAATGGCACTGATAGTTGATTTT
1 ATGTAAGACCCTATATGGGACAATGGCACTAATAGTTGATTTC
*
11758199 GTGTAAGACCCTAT
1 ATGTAAGACCCTAT
11758213 CTAGGATGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
43 49 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
ATGTAAGACCCTATATGGGACAATGGCACTAATAGTTGATTTC
Found at i:11763359 original size:23 final size:22
Alignment explanation
Indices: 11763324--11763367 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
11763314 AATGTATATT
*
11763324 AAATTTAGCAAGTGTGAAATTCC
1 AAATTTAGCAAGT-AGAAATTCC
11763347 AAATTTAAG-AAGTAGAAATTC
1 AAATTT-AGCAAGTAGAAATTC
11763368 TTGAGACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 10 0.53
24 2 0.11
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (22 bp):
AAATTTAGCAAGTAGAAATTCC
Found at i:11772281 original size:22 final size:21
Alignment explanation
Indices: 11772230--11772292 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
11772220 CAGTAATCAG
*
11772230 AATGGCTAAGAGCCATAAACAG
1 AATGGCTAA-AGCCATAAACAA
* * *
11772252 GATAGCTATAAGCTATAAACAA
1 AATGGCTA-AAGCCATAAACAA
11772274 AATGGCTACAAGCCATAAA
1 AATGGCTA-AAGCCATAAA
11772293 TACAGTAATA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (21 bp):
AATGGCTAAAGCCATAAACAA
Found at i:11772353 original size:32 final size:32
Alignment explanation
Indices: 11772317--11772448 Score: 138
Period size: 32 Copynumber: 4.1 Consensus size: 32
11772307 TACCACAAAA
* *
11772317 CCATCAGTAGCAGTGATATGATCGACTCACAG
1 CCATCAGTAGCAGTGATATGATCGGCACACAG
* * * * *
11772349 CCATCAGTAACGGTAATATGATTGGCACAAAG
1 CCATCAGTAGCAGTGATATGATCGGCACACAG
*
11772381 CCATCAGTAGCAGTGATATGACCGGCACACAG
1 CCATCAGTAGCAGTGATATGATCGGCACACAG
*** * * *
11772413 CCATCAGTAATGGTAATATGACCGGCACAAAG
1 CCATCAGTAGCAGTGATATGATCGGCACACAG
11772445 CCAT
1 CCAT
11772449 AAGCAGCATC
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 82 1.00
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (32 bp):
CCATCAGTAGCAGTGATATGATCGGCACACAG
Found at i:11772398 original size:64 final size:64
Alignment explanation
Indices: 11772297--11772448 Score: 223
Period size: 64 Copynumber: 2.4 Consensus size: 64
11772287 CATAAATACA
** * * *
11772297 GTAATATGATTACCACAAAACCATCAGTAGCAGTGATATGATCGACTCACAGCCATCAGTAACG
1 GTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATGACCGACACACAGCCATCAGTAACG
* *
11772361 GTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATGACCGGCACACAGCCATCAGTAATG
1 GTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATGACCGACACACAGCCATCAGTAACG
**
11772425 GTAATATGACCGGCACAAAGCCAT
1 GTAATATGATTGGCACAAAGCCAT
11772449 AAGCAGCATC
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 79 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (64 bp):
GTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATGACCGACACACAGCCATCAGTAACG
Found at i:11772684 original size:24 final size:24
Alignment explanation
Indices: 11772626--11772711 Score: 91
Period size: 24 Copynumber: 3.6 Consensus size: 24
11772616 CCATGCTCAG
** *
11772626 AATCAATCATACAATTCACAGACA
1 AATCAATCATTTAAATCACAGACA
*
11772650 AAACAATCATTTAAATCACAGACA
1 AATCAATCATTTAAATCACAGACA
** **
11772674 AATCAATCATTTTCATCATGGACA
1 AATCAATCATTTAAATCACAGACA
*
11772698 AATCAATCAGTTAA
1 AATCAATCATTTAA
11772712 CCTCGAAGGG
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.48, C:0.21, G:0.06, T:0.26
Consensus pattern (24 bp):
AATCAATCATTTAAATCACAGACA
Found at i:11772832 original size:53 final size:52
Alignment explanation
Indices: 11772756--11772895 Score: 176
Period size: 53 Copynumber: 2.6 Consensus size: 52
11772746 GGCATTACGA
11772756 TCATTTTA-CCTTACAGGGGTATTTTGGTCATTTTACCC-TAAGGGAATATCTCGG
1 TCATTTTACCCTT-C-GGGGTATTTTGGTCATTTTACCCTTAAGGG--TATCTCGG
* *
11772810 TCATTTTACCCTTCGGGGTATTTTGGTCGTTTTACCCTTTAAGGGTATTTCGG
1 TCATTTTACCCTTCGGGGTATTTTGGTCATTTTACCC-TTAAGGGTATCTCGG
* *
11772863 TTATTTTACCCTTCGAGGGTATTTCGGTCATTT
1 TCATTTTACCCTTCG-GGGTATTTTGGTCATTT
11772896 AAAAATATTT
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
53 43 0.56
54 24 0.31
55 10 0.13
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.44
Consensus pattern (52 bp):
TCATTTTACCCTTCGGGGTATTTTGGTCATTTTACCCTTAAGGGTATCTCGG
Found at i:11772869 original size:27 final size:26
Alignment explanation
Indices: 11772729--11772895 Score: 142
Period size: 27 Copynumber: 6.3 Consensus size: 26
11772719 GGGAAAAATA
* * *
11772729 GTCA-TTTACCCTTCAGGGGCATTACG
1 GTCATTTTACCCTT-AAGGGTATTTCG
* *
11772755 ATCATTTTA-CCTTACAGGGGTATTTTG
1 GTCATTTTACCCTTA-A-GGGTATTTCG
*
11772782 GTCATTTTACCC-TAAGGGAATATCTCG
1 GTCATTTTACCCTTAAGGG--TATTTCG
** *
11772809 GTCATTTTACCCTTCGGGGTATTTTG
1 GTCATTTTACCCTTAAGGGTATTTCG
*
11772835 GTCGTTTTACCCTTTAAGGGTATTTCG
1 GTCATTTTACCC-TTAAGGGTATTTCG
* *
11772862 GTTATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTTACCCTT-AAGGGTATTTCG
11772889 GTCATTT
1 GTCATTT
11772896 AAAAATATTT
Statistics
Matches: 112, Mismatches: 20, Indels: 17
0.75 0.13 0.11
Matches are distributed among these distances:
25 4 0.04
26 26 0.23
27 76 0.68
28 6 0.05
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (26 bp):
GTCATTTTACCCTTAAGGGTATTTCG
Found at i:11773938 original size:24 final size:24
Alignment explanation
Indices: 11773889--11773939 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
11773879 TTTTCAAATT
* * * *
11773889 TCCTTGATTTTCTCCCCAATATCC
1 TCCTTGATTTGCTCCACAAAACCC
11773913 TCCTTGATTTGCTCCACAAAACCC
1 TCCTTGATTTGCTCCACAAAACCC
11773937 TCC
1 TCC
11773940 AAGACCAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.20, C:0.39, G:0.06, T:0.35
Consensus pattern (24 bp):
TCCTTGATTTGCTCCACAAAACCC
Found at i:11776097 original size:66 final size:66
Alignment explanation
Indices: 11776023--11776148 Score: 243
Period size: 66 Copynumber: 1.9 Consensus size: 66
11776013 CCAAAAGTGT
11776023 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAAGGAGTATGTGGTTGCTAT
1 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAAGGAGTATGTGGTTGCTAT
11776088 A
66 A
*
11776089 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAATGAGTATGTGGTT
1 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAAGGAGTATGTGGTT
11776149 TCCATGAAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (66 bp):
CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAAGGAGTATGTGGTTGCTAT
A
Found at i:11776160 original size:66 final size:66
Alignment explanation
Indices: 11776023--11776173 Score: 241
Period size: 66 Copynumber: 2.3 Consensus size: 66
11776013 CCAAAAGTGT
*
11776023 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAAGGAGTATGTGGTTGCTAT
1 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAAGGAGTATGTGGTTGCCAT
11776088 A
66 A
* *
11776089 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAATGAGTATGTGGTTTCCAT
1 CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAAGGAGTATGTGGTTGCCAT
11776154 GA
66 -A
*
11776156 -AAATTATCATTTAAATGT
1 CAAATTATC-TTAAAATGT
11776174 GATCTTATAT
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
66 70 0.89
67 9 0.11
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (66 bp):
CAAATTATCTTAAAATGTATATATGTGTAATGTGATGTATGCCTAAAGGAGTATGTGGTTGCCAT
A
Found at i:11786988 original size:15 final size:16
Alignment explanation
Indices: 11786968--11786997 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11786958 CAAGAAAAGC
11786968 ATATTT-CAATAGAAG
1 ATATTTGCAATAGAAG
11786983 ATATTTGCAATAGAA
1 ATATTTGCAATAGAA
11786998 TAAAAATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (16 bp):
ATATTTGCAATAGAAG
Found at i:11792721 original size:15 final size:15
Alignment explanation
Indices: 11792701--11792731 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11792691 GTTATGTAAG
11792701 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
11792716 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
11792731 T
1 T
11792732 ATGTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:11796968 original size:70 final size:71
Alignment explanation
Indices: 11796854--11797039 Score: 241
Period size: 71 Copynumber: 2.5 Consensus size: 71
11796844 GGGGAATCAT
* *
11796854 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-TCATTTCAAATATACAATG
1 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATG
11796918 GATATCG
65 GATATCG
***
11796925 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGG
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGG
11796990 ATATCG
66 ATATCG
*
11796996 CACTTAGC-ACCACCAATGAACGGGGAATCAGCACTTAGCAACCC
1 CACTTAGCAACC-CC--T---CGGGGAATCAGCACATAGCAACCC
11797040 TCGGGGAATC
Statistics
Matches: 102, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
70 31 0.30
71 47 0.46
73 1 0.01
76 23 0.23
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACAATGG
ATATCG
Found at i:11797045 original size:25 final size:25
Alignment explanation
Indices: 11797016--11797064 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
11797006 CACCAATGAA
*
11797016 CGGGGAATCAGCACTTAGCAACCCT
1 CGGGGAATCAGCACATAGCAACCCT
11797041 CGGGGAATCAGCACATAGCAACCC
1 CGGGGAATCAGCACATAGCAACCC
11797065 CCTTTCACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.12
Consensus pattern (25 bp):
CGGGGAATCAGCACATAGCAACCCT
Found at i:11797050 original size:101 final size:101
Alignment explanation
Indices: 11796924--11797141 Score: 359
Period size: 101 Copynumber: 2.1 Consensus size: 101
11796914 AATGGATATC
11796924 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAA-CCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
*
11796989 GAT-ATCGCACTTAGCACCACCAATGAA-CGGGGAATCA
65 GATCA-CGCACATAGCACCACCAAT-AATCGGGGAATCA
11797026 GCACTTAGCAACCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGG
1 GCACTTAGCAACCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGG
*
11797091 ATCACGCACATAGCACCACCCATAATCGGGGAATCA
66 ATCACGCACATAGCACCACCAATAATCGGGGAATCA
**
11797127 GCACACAGCAACCCT
1 GCACTTAGCAACCCT
11797142 TTATATCAAC
Statistics
Matches: 110, Mismatches: 4, Indels: 5
0.92 0.03 0.04
Matches are distributed among these distances:
100 2 0.02
101 96 0.87
102 12 0.11
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (101 bp):
GCACTTAGCAACCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTGG
ATCACGCACATAGCACCACCAATAATCGGGGAATCA
Found at i:11804424 original size:104 final size:104
Alignment explanation
Indices: 11804302--11804525 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
11804292 AATGGATATC
11804302 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
11804367 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
11804406 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
11804471 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
11804510 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
11804526 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:11804887 original size:29 final size:29
Alignment explanation
Indices: 11804854--11804917 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
11804844 TAATCCACCA
11804854 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
11804883 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
11804913 CCCAA
1 CCCAA
11804918 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:11804891 original size:30 final size:30
Alignment explanation
Indices: 11804861--11804917 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11804851 CCACCCAACT
11804861 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
11804890 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
11804918 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:11813315 original size:16 final size:16
Alignment explanation
Indices: 11813294--11813324 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11813284 TATTGACCCA
11813294 TACTTTATTCAATAAT
1 TACTTTATTCAATAAT
11813310 TACTTTATTCAATAA
1 TACTTTATTCAATAA
11813325 ACCTTAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (16 bp):
TACTTTATTCAATAAT
Found at i:11815459 original size:57 final size:57
Alignment explanation
Indices: 11815366--11815476 Score: 168
Period size: 57 Copynumber: 1.9 Consensus size: 57
11815356 TTAAATTTGT
* * *
11815366 TAAACTGTGCAGGAAGTGATACCAAAACCATAAGAACAAGCAAATACTCAGAAATCC
1 TAAACTGTGCAGGAAGCGATACCAAAAACATAAGAACAAACAAATACTCAGAAATCC
* * *
11815423 TAAATTGTGCAGGAAGCGATACCAAAAACATAAGAACAAACAATTCCTCAGAAA
1 TAAACTGTGCAGGAAGCGATACCAAAAACATAAGAACAAACAAATACTCAGAAA
11815477 GCTCTATCTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.49, C:0.20, G:0.15, T:0.16
Consensus pattern (57 bp):
TAAACTGTGCAGGAAGCGATACCAAAAACATAAGAACAAACAAATACTCAGAAATCC
Found at i:11817941 original size:25 final size:25
Alignment explanation
Indices: 11817881--11817952 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
11817871 TTTTAAGATC
* * * *
11817881 TAAAAATATATAACAAAT-GAAATT
1 TAAAAATATACAAAAAATAAAAAAT
11817905 TAAAAATATACAAAAAATTAAAAAAT
1 TAAAAATATACAAAAAA-TAAAAAAT
*
11817931 TAAAAAT-TACAGAAAATAAAAA
1 TAAAAATATACAAAAAATAAAAA
11817953 TAAAAACAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 21 0.51
25 9 0.22
26 11 0.27
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.24
Consensus pattern (25 bp):
TAAAAATATACAAAAAATAAAAAAT
Found at i:11817950 original size:16 final size:15
Alignment explanation
Indices: 11817917--11817958 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
11817907 AAAATATACA
11817917 AAAAATTAAAAAATT
1 AAAAATTAAAAAATT
11817932 AAAAATTACAGAAAA-T
1 AAAAATTA-A-AAAATT
11817948 AAAAA-TAAAAA
1 AAAAATTAAAAA
11817959 CAAAATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 3 0.12
14 1 0.04
15 10 0.40
16 7 0.28
17 4 0.16
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (15 bp):
AAAAATTAAAAAATT
Found at i:11818894 original size:14 final size:16
Alignment explanation
Indices: 11818875--11818911 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
11818865 TATAAAAATT
11818875 ATAAAAAAT-T-TTTA
1 ATAAAAAATCTATTTA
11818889 ATAAAAAATCTATTTA
1 ATAAAAAATCTATTTA
11818905 A-AAAAAA
1 ATAAAAAA
11818912 GAATGCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 7 0.33
16 5 0.24
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAAAAATCTATTTA
Found at i:11819370 original size:88 final size:87
Alignment explanation
Indices: 11819221--11819385 Score: 235
Period size: 88 Copynumber: 1.9 Consensus size: 87
11819211 TGTTTAATAA
* *
11819221 TACAAATTGTAATTACACAGTTATATAATTTATATTTTTAAAAAATATAGTAATTACTATAAAAA
1 TACAAATTGTAATTACACAATTACATAATTTATATTTTTAAAAAATATA-TAATTACTAT-AAAA
11819286 ATT-TTAGTATGAATATTTGGTAG
64 ATTATTAGTATGAATATTTGGTAG
* **
11819309 TACAAATTGTAATTGCACAATTACATAATTTATATATATTTTTAAAATAT-TAATTACTATAAAA
1 TACAAATTGTAATTACACAATTACATAATTTATAT-T-TTTAAAAAATATATAATTACTATAAAA
11819373 ATTATTAGTATGA
64 ATTATTAGTATGA
11819386 TAAGTATAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
87 7 0.10
88 51 0.74
89 1 0.01
90 10 0.14
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (87 bp):
TACAAATTGTAATTACACAATTACATAATTTATATTTTTAAAAAATATATAATTACTATAAAAAT
TATTAGTATGAATATTTGGTAG
Found at i:11820691 original size:20 final size:18
Alignment explanation
Indices: 11820639--11820692 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
11820629 CAACTATAGG
*
11820639 TACATCTTCATACATATA
1 TACATATTCATACATATA
*
11820657 TACATATACATATACATATA
1 TACATATTC--ATACATATA
11820677 TACTATTATTCATACA
1 TAC-A-TATTCATACA
11820693 ATGCTAAACC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 7 0.24
20 17 0.59
21 1 0.03
22 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.39
Consensus pattern (18 bp):
TACATATTCATACATATA
Found at i:11821417 original size:41 final size:41
Alignment explanation
Indices: 11821359--11821458 Score: 101
Period size: 41 Copynumber: 2.4 Consensus size: 41
11821349 ACCGGCATGT
* * **
11821359 AGCCTGCTAGGCTTAAAGCCTGATTTAGAACACCGACATTA
1 AGCCTGCTAGACGTAAAGCCTGAAATAGAACACCGACATTA
* *** *
11821400 AGCCTGCTAGACGTAAAGTCTGAAATATTTCACCTACATTA
1 AGCCTGCTAGACGTAAAGCCTGAAATAGAACACCGACATTA
* *
11821441 AGCCTGCTAAATGTAAAG
1 AGCCTGCTAGACGTAAAG
11821459 TTTAAATTAT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGCCTGAAATAGAACACCGACATTA
Found at i:11821459 original size:41 final size:41
Alignment explanation
Indices: 11821393--11821532 Score: 158
Period size: 41 Copynumber: 3.4 Consensus size: 41
11821383 TTAGAACACC
*
11821393 GACATTAAGCCTGCTAGACGTAAAGTCTGAAATATTTCACCT
1 GACATTAAGCCTGCTAAACGTAAAGTCTGAAATATTTCA-CT
* * *
11821435 -ACATTAAGCCTGCTAAATGTAAAGT-TTAAATTATTTCATT
1 GACATTAAGCCTGCTAAACGTAAAGTCTGAAA-TATTTCACT
* * * *
11821475 GGCATTAAGCCTGCTAGACGTAAAGTCTGGATTATTTCACT
1 GACATTAAGCCTGCTAAACGTAAAGTCTGAAATATTTCACT
* *
11821516 GGCATTAAGCCAGCTAA
1 GACATTAAGCCTGCTAA
11821533 GCACAAAGCC
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
40 5 0.06
41 75 0.91
42 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (41 bp):
GACATTAAGCCTGCTAAACGTAAAGTCTGAAATATTTCACT
Found at i:11821868 original size:65 final size:61
Alignment explanation
Indices: 11821722--11821869 Score: 154
Period size: 65 Copynumber: 2.3 Consensus size: 61
11821712 TTAGTTTAAA
* *
11821722 ACATTAAATTCAGCTCAATGAATTTGTAACCTATATTTGAACCACATATATATATAATGTAT
1 ACATTAAATTCAGCTCAA-GAATTTGCAACCTATATTTGAACCACATATATATAAAATGTAT
* * * * *
11821784 ACATCAAATTCGGCTCAAGAGATTTTGCAATCTATGTTTGAACCACATACGTATA-AGAAATTTA
1 ACATTAAATTCAGCTCAAGA-A-TTTGCAACCTATATTTGAACCACATA--TATATA-AAATGTA
11821848 T
61 T
* *
11821849 ATATTAAATTCAACTCAAGAA
1 ACATTAAATTCAGCTCAAGAA
11821870 CTTGAATATA
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
61 2 0.03
62 17 0.24
63 23 0.33
64 2 0.03
65 26 0.37
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.34
Consensus pattern (61 bp):
ACATTAAATTCAGCTCAAGAATTTGCAACCTATATTTGAACCACATATATATAAAATGTAT
Found at i:11823445 original size:18 final size:20
Alignment explanation
Indices: 11823401--11823449 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
11823391 CCTAAACAAA
*
11823401 AAGTATCGATACTTATTAGT
1 AAGTATCGATACCTATTAGT
11823421 AAGTATCGATACCT-TTAGT
1 AAGTATCGATACCTATTAGT
11823440 -AGTATCGATA
1 AAGTATCGATA
11823450 TGTATTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 10 0.36
19 5 0.18
20 13 0.46
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (20 bp):
AAGTATCGATACCTATTAGT
Found at i:11824006 original size:30 final size:30
Alignment explanation
Indices: 11823972--11824032 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
11823962 CAGATTTCAA
*
11823972 GAGCCACACGGGCTAGACACACTGCCGTGT
1 GAGCCACACGGGCTAGACACACTGCCATGT
* *
11824002 GAGCCATACGGGCTGGACACACTGCCATGT
1 GAGCCACACGGGCTAGACACACTGCCATGT
11824032 G
1 G
11824033 CCAAATCATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (30 bp):
GAGCCACACGGGCTAGACACACTGCCATGT
Found at i:11825797 original size:14 final size:14
Alignment explanation
Indices: 11825778--11825812 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
11825768 CGACTGTGGA
11825778 GCTCAATGCGGTTT
1 GCTCAATGCGGTTT
11825792 GCTCAATGCGGTTT
1 GCTCAATGCGGTTT
*
11825806 ACTCAAT
1 GCTCAAT
11825813 ACTTTGGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (14 bp):
GCTCAATGCGGTTT
Found at i:11828740 original size:21 final size:21
Alignment explanation
Indices: 11828681--11828740 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
11828671 AGAATAATGA
*
11828681 TGAATTGCACATACGTGCCCC
1 TGAATTGCACATACGTACCCC
* * *
11828702 T-ATTTGTAC-TTCGGTACCCC
1 TGAATTGCACATAC-GTACCCC
11828722 TGAATTGCACATACGTACC
1 TGAATTGCACATACGTACC
11828741 ACTGTTTGTT
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
19 2 0.07
20 13 0.45
21 12 0.41
22 2 0.07
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (21 bp):
TGAATTGCACATACGTACCCC
Found at i:11828749 original size:41 final size:41
Alignment explanation
Indices: 11828681--11828763 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
11828671 AGAATAATGA
* *
11828681 TGAATTGCACATACGTGCCCCTATTTG-TACTTCGGTACCCC
1 TGAATTGCACATACGTACCACTATTTGTTA-TTCGGTACCCC
*
11828722 TGAATTGCACATACGTACCACTGTTTGTTATTCGGTACCCC
1 TGAATTGCACATACGTACCACTATTTGTTATTCGGTACCCC
11828763 T
1 T
11828764 AGATGTACTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 36 0.95
42 2 0.05
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (41 bp):
TGAATTGCACATACGTACCACTATTTGTTATTCGGTACCCC
Found at i:11832720 original size:103 final size:103
Alignment explanation
Indices: 11832535--11832734 Score: 305
Period size: 103 Copynumber: 1.9 Consensus size: 103
11832525 GTTACATTTA
*
11832535 TATGGTAATGCTCTGTAACCCTACTCCAGCGACGGATACGAGATAAGGGTGTTACATTTGCTCCC
1 TATGGTAATGCTCTGTAACCCTACTCCAGCGACGGATACGAGATAAAGGTGTTACATTTGCTCCC
**
11832600 TTCAGTGTGCAGACTTTCCTTTTCTTTTTCCCCAAATG
66 TTCAGTGCACAGACTTTCCTTTTCTTTTTCCCCAAATG
* *
11832638 TATGGTAATGCTCCT-TAACCCTACTCCAGCGACGTATACGAGATAAAGGTGTTACATTTTCT-C
1 TATGGTAATGCT-CTGTAACCCTACTCCAGCGACGGATACGAGATAAAGGTGTTACATTTGCTCC
* *
11832701 CTCTCCGTGCACAGCCTTTCCTTTTCTTTTTCCC
65 CT-TCAGTGCACAGACTTTCCTTTTCTTTTTCCC
11832735 TATTCTTTTC
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
102 3 0.03
103 83 0.94
104 2 0.02
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (103 bp):
TATGGTAATGCTCTGTAACCCTACTCCAGCGACGGATACGAGATAAAGGTGTTACATTTGCTCCC
TTCAGTGCACAGACTTTCCTTTTCTTTTTCCCCAAATG
Found at i:11838255 original size:45 final size:45
Alignment explanation
Indices: 11838221--11838437 Score: 301
Period size: 45 Copynumber: 4.8 Consensus size: 45
11838211 TTCCTTTGAT
* *
11838221 TCGTGATGCCATAGCGTCTTTCAG-CTATGGTCTTATTCGATAGAA
1 TCGTGATGCCATAACGTCTTTCAGTC-ATGGTCTTACTCGATAGAA
* * ** *
11838266 TCATGATGTCATAGTGTCTTTTAGTCATGGTCTTACTCGATAGAA
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAA
* *
11838311 TCGTGATGCCATAACTTCTTTTAGTCATGGTCTTACTCGATAGAA
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAA
* *
11838356 TCATGATGCCATAACGTCTTTCATTCATGGTCTTACTCGATAGAA
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAA
* *
11838401 TCGTGATGCCATAACGTCTTTCAATTATGGTCTTACT
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACT
11838438 TGTTTCTAGT
Statistics
Matches: 154, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 153 0.99
46 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (45 bp):
TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAA
Found at i:11842562 original size:12 final size:11
Alignment explanation
Indices: 11842535--11842568 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
11842525 TATATATATT
*
11842535 TAAAAATTATA
1 TAAAAATAATA
11842546 TAAAAATAATA
1 TAAAAATAATA
11842557 TAAAAAATAATA
1 T-AAAAATAATA
11842569 CGGTTGGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:11849055 original size:41 final size:41
Alignment explanation
Indices: 11849000--11849135 Score: 186
Period size: 41 Copynumber: 3.3 Consensus size: 41
11848990 TATATGATTG
**
11849000 GCACTAAGTGTGCGAAGTTAAATAATGATGTTGAATAACGA
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
*
11849041 GCACTAAGTGTGCGAAACTAAGTAATGATGTTGAATAACGA
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
* * *
11849082 GCATTAAGTGTGCGAAACCAAATAATAATGTT-AATAAC-A
1 GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
*
11849121 GGCATTAAGTGTGCG
1 -GCACTAAGTGTGCG
11849136 GAACCGAGAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 20 0.23
41 66 0.76
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.26
Consensus pattern (41 bp):
GCACTAAGTGTGCGAAACTAAATAATGATGTTGAATAACGA
Found at i:11851455 original size:18 final size:18
Alignment explanation
Indices: 11851432--11851466 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
11851422 TCTAAGAAGC
11851432 ACTTTTGAGATAAAAACT
1 ACTTTTGAGATAAAAACT
11851450 ACTTTTGAGATAAAAAC
1 ACTTTTGAGATAAAAAC
11851467 ATTGCTAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (18 bp):
ACTTTTGAGATAAAAACT
Found at i:11857973 original size:7 final size:7
Alignment explanation
Indices: 11857957--11857995 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
11857947 AAAATAAAAT
11857957 AAAAAC-
1 AAAAACA
11857963 AAAAACA
1 AAAAACA
11857970 AAAAA-A
1 AAAAACA
11857976 TAAAAACA
1 -AAAAACA
11857984 AAAAACA
1 AAAAACA
11857991 AAAAA
1 AAAAA
11857996 ATATAAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 7 0.23
7 22 0.73
8 1 0.03
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (7 bp):
AAAAACA
Found at i:11857977 original size:20 final size:21
Alignment explanation
Indices: 11857952--11858003 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
11857942 ATAATAAAAT
11857952 AAAATAAAAAC-AAAAACAAA
1 AAAATAAAAACAAAAAACAAA
11857972 AAAATAAAAACAAAAAACAAA
1 AAAATAAAAACAAAAAACAAA
11857993 AAAATATAAAA
1 AAAATA-AAAA
11858004 TATAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 11 0.37
21 15 0.50
22 4 0.13
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (21 bp):
AAAATAAAAACAAAAAACAAA
Found at i:11857980 original size:14 final size:14
Alignment explanation
Indices: 11857957--11857994 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
11857947 AAAATAAAAT
11857957 AAAAACAAAAACAA
1 AAAAACAAAAACAA
*
11857971 AAAAATAAAAAC-A
1 AAAAACAAAAACAA
11857984 AAAAACAAAAA
1 AAAAACAAAAA
11857995 AATATAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAAACAAAAACAA
Found at i:11861713 original size:17 final size:17
Alignment explanation
Indices: 11861691--11861724 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11861681 AAAAACCTCT
11861691 TTGTTAGTGTTTAACAA
1 TTGTTAGTGTTTAACAA
11861708 TTGTTAGTGTTTAACAA
1 TTGTTAGTGTTTAACAA
11861725 AACAACTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (17 bp):
TTGTTAGTGTTTAACAA
Found at i:11862890 original size:27 final size:27
Alignment explanation
Indices: 11862860--11863462 Score: 674
Period size: 27 Copynumber: 22.4 Consensus size: 27
11862850 TTTCATCTCT
* *
11862860 TGGGGGTATTCCGGTCATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* *
11862887 TGGGGGTAATTCGATCAATTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
*
11862914 TGGGGGTATTTCGATCATTTTCCCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
** *
11862941 TCAGGGTATTTCGGTCATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* *
11862968 TAGGGGTATTTCAATCATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* *
11862995 TGGGGGCATTTCGGTCATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* *
11863022 TGAGGGTGTTTCGATCATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* * *
11863049 TAGGGGTATTTCGGTCAATTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
*
11863076 TGGGGGTATTTCGATCAATTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* * *
11863103 TAGGGGTATTTCGAACAATTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
** * *
11863130 TAAGAGTATTTC-AGTCAATTTACCCTA
1 TGGGGGTATTTCGA-TCATTTTACCCTA
* * * *
11863157 TAGAGGTATTTCAATCATTTTACTCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
11863184 -GGGGGTATTTCGATCATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* * *
11863210 TGGGGGTATTT-TAGTCATTTTACCTTG
1 TGGGGGTATTTCGA-TCATTTTACCCTA
*
11863237 TGGGGGTATTTCGATTATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* * * *
11863264 TAGGGGTATTTTGGTCATTTTACCCTG
1 TGGGGGTATTTCGATCATTTTACCCTA
* * *
11863291 TGGGCGTATTT-TAGTCATTTTATCCTA
1 TGGGGGTATTTCGA-TCATTTTACCCTA
* *
11863318 TGGGGGTATTTCGATCATTTTACCTTG
1 TGGGGGTATTTCGATCATTTTACCCTA
* * *
11863345 TGGGGGTATTTTGGTCATTTTATCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* * * *
11863372 TAGGGATATTTCGATTATTTTATCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* *
11863399 TGGGGGTATTTCGGTTATTTTACCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
* *
11863426 TAGGGGTATTTCGATCATTTTATCCTA
1 TGGGGGTATTTCGATCATTTTACCCTA
11863453 TGGGGGTATT
1 TGGGGGTATT
11863463 AACCTCTCGA
Statistics
Matches: 483, Mismatches: 86, Indels: 14
0.83 0.15 0.02
Matches are distributed among these distances:
26 24 0.05
27 456 0.94
28 3 0.01
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (27 bp):
TGGGGGTATTTCGATCATTTTACCCTA
Found at i:11868547 original size:59 final size:60
Alignment explanation
Indices: 11868476--11868592 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 60
11868466 ATCACTTTCA
* * * *
11868476 TATTAAATTAATATAATATTTATC-AAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTATCTAAGATAAACATTAAATTAAATTTAATATTAAATCT
* *
11868535 TATTAAAATAATAGAATGTTTATCTTGTAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTATC-T-AAGATAAACATTAAATTAAATTTAATATTAA
11868593 GATAATCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 21 0.43
62 28 0.57
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (60 bp):
TATTAAAATAATAGAATATTTATCTAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:11870321 original size:14 final size:15
Alignment explanation
Indices: 11870288--11870319 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11870278 TATGCATGCA
*
11870288 AAATATAAAAGACAT
1 AAATAAAAAAGACAT
11870303 AAATAAAAAAGACAT
1 AAATAAAAAAGACAT
11870318 AA
1 AA
11870320 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATAAAAAAGACAT
Found at i:11876373 original size:16 final size:16
Alignment explanation
Indices: 11876352--11876410 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
11876342 TTAATCACTT
11876352 TAATATTAAATTAATA
1 TAATATTAAATTAATA
** *
11876368 TAATATTTATCTTGATA
1 TAATA-TTAAATTAATA
* *
11876385 -AATATTATATTAATT
1 TAATATTAAATTAATA
11876400 TAATATTAAAT
1 TAATATTAAAT
11876411 CTTATTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
15 8 0.24
16 18 0.53
17 8 0.24
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:11886549 original size:25 final size:25
Alignment explanation
Indices: 11886514--11886613 Score: 110
Period size: 25 Copynumber: 4.0 Consensus size: 25
11886504 TCACAGCTCT
* * *
11886514 TATAAGTTTCCTGTTATTCAACTCG
1 TATAAGCTTCCCGTTATTCAACTCA
*
11886539 TATAAGCTTCCCGTTATTCAGCTCA
1 TATAAGCTTCCCGTTATTCAACTCA
* * *
11886564 TATGAGCTTCCCGTTATTCAGCTCC
1 TATAAGCTTCCCGTTATTCAACTCA
* * *
11886589 CATGAGCTTCCTGTTATTCAACTCA
1 TATAAGCTTCCCGTTATTCAACTCA
11886614 GAAAAGATTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (25 bp):
TATAAGCTTCCCGTTATTCAACTCA
Done.