Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003386.1 Hibiscus syriacus cultivar Beakdansim tig00007128_pilon, whole genome shotgun sequence
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: 155280
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Found at i:599 original size:32 final size:31
Alignment explanation
Indices: 527--604 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 31
517 ATAAATACTG
*
527 ATGACTATATTACAAATTAATTAAAATTAGA
1 ATGACTAAATTACAAATTAATTAAAATTAGA
*
558 A-GACCAAATTA-AAA-TAATTAAAATTATGTCA
1 ATGACTAAATTACAAATTAATTAAAATTA-G--A
589 ATGACTAAATTACAAA
1 ATGACTAAATTACAAA
605 GTTTCATACT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 12 0.31
29 4 0.10
30 8 0.21
31 3 0.08
32 9 0.23
33 3 0.08
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (31 bp):
ATGACTAAATTACAAATTAATTAAAATTAGA
Found at i:1383 original size:22 final size:22
Alignment explanation
Indices: 1358--1408 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
1348 TATATCAAAT
*
1358 GCGGTTGTTCATCTTCCCAGAG
1 GCGGCTGTTCATCTTCCCAGAG
*
1380 GCGGCTGTTCATCTTCCCAGCG
1 GCGGCTGTTCATCTTCCCAGAG
*
1402 GCTGCTG
1 GCGGCTG
1409 GGTGCATGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.10, C:0.31, G:0.29, T:0.29
Consensus pattern (22 bp):
GCGGCTGTTCATCTTCCCAGAG
Found at i:1560 original size:3 final size:3
Alignment explanation
Indices: 1552--1606 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
1542 AATATTTATT
**
1552 TAA TAA TAA TAA TAA TAA -ATA TAA T-A TATA TAA TAA TAA TAA TTT
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA
1597 TAA TAA TAA T
1 TAA TAA TAA T
1607 TTCAATGATT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 3 0.07
3 37 0.84
4 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:4131 original size:213 final size:213
Alignment explanation
Indices: 3758--4187 Score: 754
Period size: 213 Copynumber: 2.0 Consensus size: 213
3748 GAAAATCGAC
3758 GCAAGAGCAAGAAAGACAGACAAGTAAATCTACAACAAGCAGAAGTGTTGAGAACGATGAGAGGG
1 GCAAGAGCAAGAAAGACAGACAAGTAAATCTACAACAAGCAGAAGTGTTGAGAACGATGAGAGGG
3823 AGGTGAACAGAACGTGGCCAAAGCAACAATCACAAACATGGTAGATCAAAGTCGAGAAGCAAAAA
66 AGGTGAACAGAACGTGGCCAAAGCAACAATCACAAACATGGTAGATCAAAGTCGAGAAGCAAAAA
* *
3888 GAATTTAAAGTGCTACAACTGTGAAAAGAATGATCACTTGAAGAAGGATTGTTGGAGTCTAGGTA
131 GAATTTAAAGTGCTACAACTATGAAAAGAATGATCACTTAAAGAAGGATTGTTGGAGTCTAGGTA
3953 AAAACTCCAATCCACAAG
196 AAAACTCCAATCCACAAG
3971 GCAAGAGCAAGAAAGACAGACAAGTAAATCTACAACAAGCAGAAGTGTTGAGAACGATGAGAGGG
1 GCAAGAGCAAGAAAGACAGACAAGTAAATCTACAACAAGCAGAAGTGTTGAGAACGATGAGAGGG
* * * *
4036 AGGTGACCAGAACGTGGCCAAAGTAGCAGTCACAAACATGGTAGATCAAAGTCGAGAAGCAAAAA
66 AGGTGAACAGAACGTGGCCAAAGCAACAATCACAAACATGGTAGATCAAAGTCGAGAAGCAAAAA
* *
4101 GAATTTTAAA-TGCTACAACTATGGAAAGAATGGTCACTTAAAGAAGGATTGTTGGAGTCTAGGT
131 GAA-TTTAAAGTGCTACAACTATGAAAAGAATGATCACTTAAAGAAGGATTGTTGGAGTCTAGGT
* *
4165 AAAAACTTCAATCTACAAG
195 AAAAACTCCAATCCACAAG
4184 GCAA
1 GCAA
4188 TACCACAAAC
Statistics
Matches: 206, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
213 200 0.97
214 6 0.03
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.17
Consensus pattern (213 bp):
GCAAGAGCAAGAAAGACAGACAAGTAAATCTACAACAAGCAGAAGTGTTGAGAACGATGAGAGGG
AGGTGAACAGAACGTGGCCAAAGCAACAATCACAAACATGGTAGATCAAAGTCGAGAAGCAAAAA
GAATTTAAAGTGCTACAACTATGAAAAGAATGATCACTTAAAGAAGGATTGTTGGAGTCTAGGTA
AAAACTCCAATCCACAAG
Found at i:9896 original size:30 final size:31
Alignment explanation
Indices: 9862--9919 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
9852 AAAATTTGGG
* *
9862 GACC-ATTCTATAATTTTTGAAAAGTTGAGA
1 GACCAATTCGATAATTTTAGAAAAGTTGAGA
*
9892 GACCAATTCGATAATTTTAGAAATGTTG
1 GACCAATTCGATAATTTTAGAAAAGTTG
9920 TGAATGATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.36
Consensus pattern (31 bp):
GACCAATTCGATAATTTTAGAAAAGTTGAGA
Found at i:12808 original size:11 final size:11
Alignment explanation
Indices: 12792--12823 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
12782 GACTCACTGT
*
12792 AAAAAATTTAA
1 AAAAAATTAAA
12803 AAAAAATTAAA
1 AAAAAATTAAA
12814 AAAAAATTAA
1 AAAAAATTAA
12824 TGCATTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAAATTAAA
Found at i:17532 original size:20 final size:20
Alignment explanation
Indices: 17496--17533 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17486 ATCCTATTCC
**
17496 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
17516 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
17534 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:22508 original size:24 final size:24
Alignment explanation
Indices: 22467--22593 Score: 106
Period size: 24 Copynumber: 5.5 Consensus size: 24
22457 GAATGTTTTA
*
22467 TCTGATTT-TCGATTTGAATTATGT
1 TCTGATTTCT-GATCTGAATTATGT
*
22491 TCTGATTTCTTATCTGAATTA---
1 TCTGATTTCTGATCTGAATTATGT
* *
22512 --TGATTT-TTATCTGAATTTTGT
1 TCTGATTTCTGATCTGAATTATGT
* *
22533 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTATGT
* * *
22557 TATGATATCTGATCTGAATTCTGT
1 TCTGATTTCTGATCTGAATTATGT
*
22581 TTTGATTTCTGAT
1 TCTGATTTCTGAT
22594 ATCTCCGTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
18 11 0.13
19 6 0.07
23 6 0.07
24 61 0.72
25 1 0.01
ACGTcount: A:0.20, C:0.11, G:0.16, T:0.54
Consensus pattern (24 bp):
TCTGATTTCTGATCTGAATTATGT
Found at i:22523 original size:18 final size:19
Alignment explanation
Indices: 22493--22528 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
22483 AATTATGTTC
22493 TGATTTCTTATCTGAATTA
1 TGATTTCTTATCTGAATTA
22512 TGATTT-TTATCTGAATT
1 TGATTTCTTATCTGAATT
22529 TTGTTCTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.56
Consensus pattern (19 bp):
TGATTTCTTATCTGAATTA
Found at i:22548 original size:12 final size:12
Alignment explanation
Indices: 22520--22593 Score: 53
Period size: 12 Copynumber: 6.2 Consensus size: 12
22510 TATGATTTTT
22520 ATCTGAATTT-TG
1 ATCTG-ATTTCTG
*
22532 TTCTGATTTCTG
1 ATCTGATTTCTG
22544 ATCTGGA-TTCTG
1 ATCT-GATTTCTG
* * *
22556 TTATGATATCTG
1 ATCTGATTTCTG
*
22568 ATCTGAATTCTG
1 ATCTGATTTCTG
* *
22580 TTTTGATTTCTG
1 ATCTGATTTCTG
22592 AT
1 AT
22594 ATCTCCGTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
11 6 0.13
12 38 0.83
13 2 0.04
ACGTcount: A:0.19, C:0.12, G:0.18, T:0.51
Consensus pattern (12 bp):
ATCTGATTTCTG
Found at i:25713 original size:124 final size:124
Alignment explanation
Indices: 25492--25740 Score: 471
Period size: 124 Copynumber: 2.0 Consensus size: 124
25482 ACTAATAAAG
25492 CTCATTTTAACATTTGAAAATCTATAAAATAAAATCGATAACTAAATCGATATCAACCAAACTCA
1 CTCATTTTAACATTTGAAAATCTATAAAATAAAATCGATAACTAAATCGATATCAACCAAACTCA
*
25557 TAAATCCATTATAACTTCAAGCTTATCAAAACACTTATGCAATTCCATAAATAATTATT
66 TAAATCCATTATAACTTCAAACTTATCAAAACACTTATGCAATTCCATAAATAATTATT
25616 CTCATTTTAACATTTGAAAATCTATAAAATAAAATCGATAACTAAATCGATATCAACCAAACTCA
1 CTCATTTTAACATTTGAAAATCTATAAAATAAAATCGATAACTAAATCGATATCAACCAAACTCA
* *
25681 TAAATCCATTATAACTTCAAACTTATCGAAACACTTGTGCAATTCCATAAATAATTATT
66 TAAATCCATTATAACTTCAAACTTATCAAAACACTTATGCAATTCCATAAATAATTATT
25740 C
1 C
25741 CCAACATGAT
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 122 1.00
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (124 bp):
CTCATTTTAACATTTGAAAATCTATAAAATAAAATCGATAACTAAATCGATATCAACCAAACTCA
TAAATCCATTATAACTTCAAACTTATCAAAACACTTATGCAATTCCATAAATAATTATT
Found at i:31426 original size:23 final size:23
Alignment explanation
Indices: 31394--31445 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
31384 TAACATCGGT
*
31394 CAACTCACTTAAGTTGAGTTTCA
1 CAACTTACTTAAGTTGAGTTTCA
31417 CAACTTACTTAAGTTGAGTTTCA
1 CAACTTACTTAAGTTGAGTTTCA
31440 CAACTT
1 CAACTT
31446 TTAAGAGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (23 bp):
CAACTTACTTAAGTTGAGTTTCA
Found at i:35636 original size:30 final size:30
Alignment explanation
Indices: 35602--35682 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
35592 AAATGGATTT
* * *
35602 AGTTTAGTGATCAAATTATAAGATTTTG-AA
1 AGTTTAGTGACCAAAATATAA-AATTTGAAA
* *
35632 AGTTTGGTGACCAAAGTATAAAATTTGAAA
1 AGTTTAGTGACCAAAATATAAAATTTGAAA
*
35662 AGTTTAGGGACCAAAATATAA
1 AGTTTAGTGACCAAAATATAA
35683 TTTAAAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 5 0.12
30 38 0.88
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (30 bp):
AGTTTAGTGACCAAAATATAAAATTTGAAA
Found at i:36758 original size:475 final size:475
Alignment explanation
Indices: 35868--36816 Score: 1754
Period size: 475 Copynumber: 2.0 Consensus size: 475
35858 AATATTTTGT
35868 TCATCTTTGACTATTGAAATATGATAAGGTTGTTGTGACTTGATATTAATATAAATATCATGTTC
1 TCATCTTTGACTATTGAAATATGATAAGGTTGTTGTGACTTGATATTAATATAAATATCATGTTC
*
35933 ATTAAGGGTAAATTAGTATGGATATTTTGATTTTAAGTGTAAAGTGGTAATTTGACATTTAATGA
66 ATTAAGGGTAAATTAGTATGGATATTTTGATTTTAAGGGTAAAGTGGTAATTTGACATTTAATGA
*
35998 ATTTTAATTCATTATTAATTAGAAAATATGAAGAAATATCATGCCAAGATGTTCATCTTCTCCAG
131 ATTTTAATTCATTATTAATTAGAAAAGATGAAGAAATATCATGCCAAGATGTTCATCTTCTCCAG
*
36063 CAAAGGACGTGAGATAGCTTGGAGGTAAGGAAAAATATTTGTTTTCCATTTTTGAGTAATTTTCT
196 CAAAGGACGTGAGATAGCTTGGAGGTAAGGAAAAATATTTGTTTTCCATTTTTGAGCAATTTTCT
36128 TTGGATTTTGGGTTATGCCATAAAATAGAAAATTGTTCTACGTGAAAAACACTATCATTTGATAC
261 TTGGATTTTGGGTTATGCCATAAAATAGAAAATTGTTCTACGTGAAAAACACTATCATTTGATAC
* *
36193 AAATATTTCTTTCTAATCTTGTTGGATTTCAAATATCCCAAATCTAAGGGTTTATGTTCATGATA
326 AAATATTTCTTTCTAATCTTGTTAGATTTCAAAGATCCCAAATCTAAGGGTTTATGTTCATGATA
36258 TGATTCATGAAATTGATAAATCTTGATGATTTAGAGGCTGTATATTCATTTTCAAGCTTGATTTA
391 TGATTCATGAAATTGATAAATCTTGATGATTTAGAGGCTGTATATTCATTTTCAAGCTTGATTTA
36323 TGGTTAAAACATGTTCAATA
456 TGGTTAAAACATGTTCAATA
*
36343 TCATCTTTGACTATTGAAATATGATAAGGTTGTTGTGACTTGGTATTAATATAAATATCATGTTC
1 TCATCTTTGACTATTGAAATATGATAAGGTTGTTGTGACTTGATATTAATATAAATATCATGTTC
*
36408 ATTAAGGGTATATTAGTATGGATATTTTGATTTTAAGGGTAAAGTGGTAATTTGACATTTAATGA
66 ATTAAGGGTAAATTAGTATGGATATTTTGATTTTAAGGGTAAAGTGGTAATTTGACATTTAATGA
* *
36473 ATTTTAATTCATTATTAATTAGAAAAGATGAAGAAATATCATGCCTAGATGTTCATCTTCTCTAG
131 ATTTTAATTCATTATTAATTAGAAAAGATGAAGAAATATCATGCCAAGATGTTCATCTTCTCCAG
36538 CAAAGGACGTGAGATAGCTTGGAGGTAAGGAAAAATATTTGTTTTCCATTTTTGAGCAATTTTCT
196 CAAAGGACGTGAGATAGCTTGGAGGTAAGGAAAAATATTTGTTTTCCATTTTTGAGCAATTTTCT
* * * * *
36603 TTGGATTTTGGGTTATGCCGTAAAATAGAAAATTGTTGTATGTGACAAACACTATCATTTTATAC
261 TTGGATTTTGGGTTATGCCATAAAATAGAAAATTGTTCTACGTGAAAAACACTATCATTTGATAC
*
36668 CAATATTTCTTTCTAATCTTGTTAGATTTCAAAGATCCCAAATCTAAGGGTTTATGTTCATGATA
326 AAATATTTCTTTCTAATCTTGTTAGATTTCAAAGATCCCAAATCTAAGGGTTTATGTTCATGATA
*
36733 TGATTCATGAAATTGATAAATCTTGATGATTTAGAGGTTGTATATTCATTTTCAAGCTTGATTTA
391 TGATTCATGAAATTGATAAATCTTGATGATTTAGAGGCTGTATATTCATTTTCAAGCTTGATTTA
36798 TGGTTAAAACATGTTCAAT
456 TGGTTAAAACATGTTCAAT
36817 CTTTCTAGAA
Statistics
Matches: 458, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
475 458 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (475 bp):
TCATCTTTGACTATTGAAATATGATAAGGTTGTTGTGACTTGATATTAATATAAATATCATGTTC
ATTAAGGGTAAATTAGTATGGATATTTTGATTTTAAGGGTAAAGTGGTAATTTGACATTTAATGA
ATTTTAATTCATTATTAATTAGAAAAGATGAAGAAATATCATGCCAAGATGTTCATCTTCTCCAG
CAAAGGACGTGAGATAGCTTGGAGGTAAGGAAAAATATTTGTTTTCCATTTTTGAGCAATTTTCT
TTGGATTTTGGGTTATGCCATAAAATAGAAAATTGTTCTACGTGAAAAACACTATCATTTGATAC
AAATATTTCTTTCTAATCTTGTTAGATTTCAAAGATCCCAAATCTAAGGGTTTATGTTCATGATA
TGATTCATGAAATTGATAAATCTTGATGATTTAGAGGCTGTATATTCATTTTCAAGCTTGATTTA
TGGTTAAAACATGTTCAATA
Found at i:37361 original size:9 final size:9
Alignment explanation
Indices: 37349--37427 Score: 86
Period size: 9 Copynumber: 8.8 Consensus size: 9
37339 GAAATTTCTT
37349 GAATTTATG
1 GAATTTATG
* *
37358 GAATTTCTT
1 GAATTTATG
37367 GAATTTATG
1 GAATTTATG
*
37376 GAATATATG
1 GAATTTATG
*
37385 GAATTTCTG
1 GAATTTATG
*
37394 GAACTTATG
1 GAATTTATG
*
37403 GAATTTCTG
1 GAATTTATG
*
37412 GAATTTTTG
1 GAATTTATG
*
37421 GTATTTA
1 GAATTTA
37428 AAATTTAAGT
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.29, C:0.05, G:0.20, T:0.46
Consensus pattern (9 bp):
GAATTTATG
Found at i:37379 original size:27 final size:27
Alignment explanation
Indices: 37349--37417 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
37339 GAAATTTCTT
* *
37349 GAATTTATGGAATTTCTTGAATTTATG
1 GAATTTATGGAATTTCTGGAACTTATG
*
37376 GAATATATGGAATTTCTGGAACTTATG
1 GAATTTATGGAATTTCTGGAACTTATG
*
37403 GAATTTCTGGAATTT
1 GAATTTATGGAATTT
37418 TTGGTATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.43
Consensus pattern (27 bp):
GAATTTATGGAATTTCTGGAACTTATG
Found at i:38511 original size:31 final size:31
Alignment explanation
Indices: 38468--38746 Score: 456
Period size: 31 Copynumber: 9.1 Consensus size: 31
38458 GAGTCGAGGG
38468 TTACCTATGTTCTTCGGGACATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
* *
38499 TTACATATGTTCTTCGAGACATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
*
38530 CTACCTATGTTCTTC--G-CATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
*
38558 TTACCTATTTTCTTCGGGACATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
*
38589 TTACCTATGTTCTTCGGGACATATGGATAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
* *
38620 TTACCTATGTTATTCGGGACATATGGACAGT
1 TTACCTATGTTCTTCGGGACATATGGACAGA
* *
38651 TTACCTATGTTATTCGCGACATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
38682 TTACCTATGTTCTTCGGGACATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
38713 TTACCTATGTTCTTCGGGACATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
38744 TTA
1 TTA
38747 TTATACGAGT
Statistics
Matches: 230, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
28 25 0.11
29 1 0.00
30 1 0.00
31 203 0.88
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACAGA
Found at i:43660 original size:30 final size:31
Alignment explanation
Indices: 43626--43690 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
43616 TTTAGTCCCT
* * *
43626 AAACTTTTCAAAGT-TTATACTTTGGTCACC
1 AAACTTTTCAAAATCTTATAATTTGATCACC
*
43656 AAAC-TTTCAAAATCTTATAATTTGATCACT
1 AAACTTTTCAAAATCTTATAATTTGATCACC
43686 AAACT
1 AAACT
43691 AAATCCATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.38
Consensus pattern (31 bp):
AAACTTTTCAAAATCTTATAATTTGATCACC
Found at i:43944 original size:31 final size:31
Alignment explanation
Indices: 43906--44094 Score: 279
Period size: 31 Copynumber: 6.1 Consensus size: 31
43896 GAGTCAAAGG
* *
43906 TTACCTATGTTCTTCGGGACATATTGACATA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
*
43937 TTACCTATGTTCTTCGGGGCATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
*
43968 TTACCTATGTTTTTCGGGACATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
** * *
43999 TTACCTATGTTCTTATGGATATATGGACAGT
1 TTACCTATGTTCTTCGGGACATATGGACAGA
*
44030 TTACCTATGTTCTTCGGGATATATGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
* *
44061 TTACCTATGTTCTTCAGGACATACGGACAGA
1 TTACCTATGTTCTTCGGGACATATGGACAGA
44092 TTA
1 TTA
44095 TTATATGAGC
Statistics
Matches: 142, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 142 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACAGA
Found at i:46786 original size:40 final size:40
Alignment explanation
Indices: 46731--46889 Score: 300
Period size: 40 Copynumber: 4.0 Consensus size: 40
46721 TGCAGGGTTA
*
46731 TAATACACTTCGGTGTATATGGTAGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
46771 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
46811 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
46851 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGT
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGT
46890 TTAGCACTAC
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 116 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:47090 original size:45 final size:45
Alignment explanation
Indices: 46997--47151 Score: 188
Period size: 44 Copynumber: 3.5 Consensus size: 45
46987 GTAAGCATGC
* * *
46997 AAATAAGCTTCCGAGCTTATGGAAC-AATGGCAAGTATATTGGTA
1 AAATAAACTTACGAGCTTATGGAACAAATGGTAAGTATATTGGTA
* *
47041 AAATAAACTTACGAGCTTATGGAACAAATGATAAGTATATTGTTA
1 AAATAAACTTACGAGCTTATGGAACAAATGGTAAGTATATTGGTA
* *** *
47086 AAAT-AACTTACGAGTTTATGGGTTAAATGGTAAGTATTTTGGTA
1 AAATAAACTTACGAGCTTATGGAACAAATGGTAAGTATATTGGTA
* *
47130 AAATAAGCTTACAAGCTTATGG
1 AAATAAACTTACGAGCTTATGG
47152 GATAATTGAT
Statistics
Matches: 94, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
44 60 0.64
45 34 0.36
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (45 bp):
AAATAAACTTACGAGCTTATGGAACAAATGGTAAGTATATTGGTA
Found at i:49286 original size:329 final size:329
Alignment explanation
Indices: 48688--49595 Score: 1771
Period size: 329 Copynumber: 2.8 Consensus size: 329
48678 GAATTTAGCA
*
48688 TGCTACAATTATCAAGTTTTCTTATTGAACGATGTGAACATTGAGACTTTCATTTGAAATTGAAA
1 TGCTACAATTATCAAGTTTTCTTATTGAACGATGTGAACATTGAGACTTTCATTTGAGATTGAAA
48753 ATGTTTCAATTGTTCCAAAATATTATCTTTGGAATTGGAAAACGTTATACAGATTTCCTTAAGAA
66 ATGTTTCAATTGTTCCAAAATATTATCTTTGGAATTGGAAAACGTTATACAGATTTCCTTAAGAA
48818 TGAAATAAGGAATTCTAAAGTAGAGATATTCAATTCTACTTGATATCGAGTGATATTATAGCGGA
131 TGAAATAAGGAATTCTAAAGTAGAGATATTCAATTCTACTTGATATCGAGTGATATTATAGCGGA
48883 AGACCCATAGGTCACGGTCATGATATAAGTGTTAGTCGGACAAATAATAAATGTCAGTGTCAAGT
196 AGACCCATAGGTCACGGTCATGATATAAGTGTTAGTCGGACAAATAATAAATGTCAGTGTCAAGT
*
48948 TCGTAATGATAAGAAAAACAGTAAATTTGTTTACTAGTGTGAATTTAGCATTAACTACTATGAAG
261 TCGTAATGATAAGAAAAACAGTAAATTTGTTTACTAGTGTGAATTTAACATTAACTACTATGAAG
49013 TTAT
326 TTAT
49017 TGCTACAATTATCAAGTTTTCTTATTGAACGATGTGAACATTGAGACTTTCATTTGAGATTGAAA
1 TGCTACAATTATCAAGTTTTCTTATTGAACGATGTGAACATTGAGACTTTCATTTGAGATTGAAA
*
49082 ACGTTTCAATTGTTCCAAAATATTATCTTTGGAATTGGAAAACGTTATACAGATTTCCTTAAGAA
66 ATGTTTCAATTGTTCCAAAATATTATCTTTGGAATTGGAAAACGTTATACAGATTTCCTTAAGAA
49147 TGAAATAAGGAATTCTAAAGTAGAGATATTCAATTCTACTTGATATCGAGTGATATTATAGCGGA
131 TGAAATAAGGAATTCTAAAGTAGAGATATTCAATTCTACTTGATATCGAGTGATATTATAGCGGA
*
49212 AGACCCATAAGTCACGGTCATGATATAAGTGTTAGTCGGACAAATAATAAATGTCAGTGTCAAGT
196 AGACCCATAGGTCACGGTCATGATATAAGTGTTAGTCGGACAAATAATAAATGTCAGTGTCAAGT
49277 TCGTAATGATAAGAAAAACAGTAAATTTGTTTACTAGTGTGAATTTAACATTAACTACTATGAAG
261 TCGTAATGATAAGAAAAACAGTAAATTTGTTTACTAGTGTGAATTTAACATTAACTACTATGAAG
49342 TTAT
326 TTAT
*
49346 TGCTACAATTATCAAGTTTTCTTATTGAACAATGTGAACATTGAGACTTTCATTTGAGATTGAAA
1 TGCTACAATTATCAAGTTTTCTTATTGAACGATGTGAACATTGAGACTTTCATTTGAGATTGAAA
49411 ATGTTTCAATTGTTCCAAAATATTATCTTTGGAATTGGAAAACGTTATACAGATTTCCTTAAGAA
66 ATGTTTCAATTGTTCCAAAATATTATCTTTGGAATTGGAAAACGTTATACAGATTTCCTTAAGAA
49476 TGAAATAAGGAATTCTAAAGTAGAGATATTCAATTCTACTTGATATCGAGTGATATTATAGCGGA
131 TGAAATAAGGAATTCTAAAGTAGAGATATTCAATTCTACTTGATATCGAGTGATATTATAGCGGA
49541 AGACCCATAGGTCACGGTCATGATATAAGTGTTAGTCGGACAAATAATAAATGTC
196 AGACCCATAGGTCACGGTCATGATATAAGTGTTAGTCGGACAAATAATAAATGTC
49596 CAATAAAGAT
Statistics
Matches: 572, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
329 572 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (329 bp):
TGCTACAATTATCAAGTTTTCTTATTGAACGATGTGAACATTGAGACTTTCATTTGAGATTGAAA
ATGTTTCAATTGTTCCAAAATATTATCTTTGGAATTGGAAAACGTTATACAGATTTCCTTAAGAA
TGAAATAAGGAATTCTAAAGTAGAGATATTCAATTCTACTTGATATCGAGTGATATTATAGCGGA
AGACCCATAGGTCACGGTCATGATATAAGTGTTAGTCGGACAAATAATAAATGTCAGTGTCAAGT
TCGTAATGATAAGAAAAACAGTAAATTTGTTTACTAGTGTGAATTTAACATTAACTACTATGAAG
TTAT
Found at i:54561 original size:40 final size:40
Alignment explanation
Indices: 54516--54637 Score: 199
Period size: 40 Copynumber: 3.0 Consensus size: 40
54506 TGCAGGGTTA
*
54516 TAATACACTTCGGTGTATATAGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* * *
54556 TAATACACTTTGGTGTATATGGTGGGCATGACCTTATGTA
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
54596 TAATACACTTCGGTGTATATGGTGGGCACAACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
54636 TA
1 TA
54638 GAACTACGAT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:54822 original size:44 final size:45
Alignment explanation
Indices: 54742--54895 Score: 172
Period size: 44 Copynumber: 3.5 Consensus size: 45
54732 GTAAGCATGC
* * *
54742 AAATAAGCTTCCGAGCTTATGGAAC-AATGACAAGTATATTGGTA
1 AAATAAACTTACGAGCTTATGGAACAAATGATAAGTATATTGGTA
* *
54786 AAATAAACTTA-GAGCTTATGGAACAAATGGTAAGTATATTGTTA
1 AAATAAACTTACGAGCTTATGGAACAAATGATAAGTATATTGGTA
* ** *
54830 AAAT-AACTTACGAGTTTATTGG-TTAAATGATAAGTATTTTGGTA
1 AAATAAACTTACGAGCTTA-TGGAACAAATGATAAGTATATTGGTA
* *
54874 AAATAAGCTTACAAGCTTATGG
1 AAATAAACTTACGAGCTTATGG
54896 GATAATTGAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
43 19 0.21
44 59 0.64
45 14 0.15
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (45 bp):
AAATAAACTTACGAGCTTATGGAACAAATGATAAGTATATTGGTA
Found at i:58527 original size:19 final size:20
Alignment explanation
Indices: 58500--58538 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
58490 TTTTCGTAAA
* *
58500 ATTCCATTTCGAT-CCGAAT
1 ATTCAATTTCAATACCGAAT
58519 ATTCAATTTCAATACCGAAT
1 ATTCAATTTCAATACCGAAT
58539 TTTATGGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (20 bp):
ATTCAATTTCAATACCGAAT
Found at i:59065 original size:13 final size:13
Alignment explanation
Indices: 59047--59072 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59037 CAGGTGACCA
59047 TTTTATAATTTTT
1 TTTTATAATTTTT
59060 TTTTATAATTTTT
1 TTTTATAATTTTT
59073 ACAGTCGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTATAATTTTT
Found at i:63497 original size:23 final size:22
Alignment explanation
Indices: 63412--63489 Score: 113
Period size: 22 Copynumber: 3.5 Consensus size: 22
63402 TAAAAGTAAA
*
63412 AAAAATAAT-GATCAACTTTGTC
1 AAAAATAATGGCT-AACTTTGTC
*
63434 AAAAATAGTGGCTAACTTTGTC
1 AAAAATAATGGCTAACTTTGTC
*
63456 AAAAATAGTGGCTAACTTTGTC
1 AAAAATAATGGCTAACTTTGTC
63478 AAAAATAATGGC
1 AAAAATAATGGC
63490 CAAACTTTCG
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
22 50 0.96
23 2 0.04
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (22 bp):
AAAAATAATGGCTAACTTTGTC
Found at i:63737 original size:22 final size:22
Alignment explanation
Indices: 63712--63774 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
63702 TATTGCACCG
* *
63712 AAAGTTTACCACTATTTTTGAT
1 AAAGTTTACCACTATTTTTAAC
**
63734 AAAGTGAACCACTATTTTTAAC
1 AAAGTTTACCACTATTTTTAAC
*
63756 AAA-TTTAGTCACTATTTTT
1 AAAGTTTA-CCACTATTTTT
63775 TACTTTCAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
21 2 0.06
22 31 0.94
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (22 bp):
AAAGTTTACCACTATTTTTAAC
Found at i:64343 original size:14 final size:14
Alignment explanation
Indices: 64326--64362 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
64316 TATATATTCG
64326 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
64340 TTTATGTTCGTTCA
1 TTTATGTTCGTTCA
64354 TTTATGTTC
1 TTTATGTTC
64363 AAACAAAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (14 bp):
TTTATGTTCGTTCA
Found at i:64349 original size:24 final size:24
Alignment explanation
Indices: 64282--64351 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
64272 ACAAAGAGAT
* * *
64282 TGTTCGTTCATTTACGTTTGTGAA
1 TGTTCGTTCATTTATGTTCGTTAA
* * * *
64306 CGTTCGATT-ATATATATTCGTTTA
1 TGTTCG-TTCATTTATGTTCGTTAA
64330 TGTTCGTTCATTTATGTTCGTT
1 TGTTCGTTCATTTATGTTCGTT
64352 CATTTATGTT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
23 2 0.06
24 30 0.88
25 2 0.06
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (24 bp):
TGTTCGTTCATTTATGTTCGTTAA
Found at i:66671 original size:33 final size:34
Alignment explanation
Indices: 66634--66709 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 34
66624 GGTAAGAAAT
* * *
66634 TTATTTTTATGTTAGTAT-TTT-TTTAAATAGTTA
1 TTATTTTTATATTAATATATTTATGTAAATA-TTA
66667 TTATTTTTATATTAATATATTTATGTAAATATTA
1 TTATTTTTATATTAATATATTTATGTAAATATTA
66701 TT-TTTTTAT
1 TTATTTTTAT
66710 TAAAATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 23 0.61
34 8 0.21
35 7 0.18
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.64
Consensus pattern (34 bp):
TTATTTTTATATTAATATATTTATGTAAATATTA
Found at i:66721 original size:34 final size:31
Alignment explanation
Indices: 66665--66742 Score: 86
Period size: 34 Copynumber: 2.4 Consensus size: 31
66655 TTTAAATAGT
*
66665 TATTATTTTTATATTAATATATTTAT-GTAAA
1 TATTATTTTTTTATTAATATATTTATAG-AAA
*
66696 TATTATTTTTTTATTAAAATAATATTTATAGAAT
1 TATTATTTTTTTATT--AAT-ATATTTATAGAAA
*
66730 TATTATTTATTTA
1 TATTATTTTTTTA
66743 GAATTATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
31 14 0.35
33 3 0.08
34 22 0.55
35 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (31 bp):
TATTATTTTTTTATTAATATATTTATAGAAA
Found at i:66905 original size:17 final size:17
Alignment explanation
Indices: 66883--66936 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
66873 AATGTTAATA
66883 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
66900 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
66917 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
66934 TTT
1 TTT
66937 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:68544 original size:21 final size:21
Alignment explanation
Indices: 68518--68590 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
68508 TATGACATCT
*
68518 CCGCAGGGTTACATTCCAAGC
1 CCGCAGGGTTACATTCCTAGC
68539 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
68560 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
68581 CCGCAGGGTT
1 CCGCAGGGTT
68591 TTATACCATA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.19, C:0.34, G:0.26, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:69183 original size:32 final size:33
Alignment explanation
Indices: 69110--69206 Score: 135
Period size: 32 Copynumber: 3.0 Consensus size: 33
69100 GATAAATGTT
69110 TTTAAAATACAAATTATATTATTCGAAATTTAAA
1 TTTAAAATA-AAATTATATTATTCGAAATTTAAA
* * *
69144 ATAAAAATAAAATAATATTATTC-AAATTTAAA
1 TTTAAAATAAAATTATATTATTCGAAATTTAAA
*
69176 TTTAAAAT-AAATTATAGTATTCGAAATTTAA
1 TTTAAAATAAAATTATATTATTCGAAATTTAA
69207 CATTAAATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
31 12 0.22
32 23 0.42
33 13 0.24
34 7 0.13
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (33 bp):
TTTAAAATAAAATTATATTATTCGAAATTTAAA
Found at i:70085 original size:127 final size:128
Alignment explanation
Indices: 69606--70103 Score: 948
Period size: 128 Copynumber: 3.9 Consensus size: 128
69596 TTACCTTATT
69606 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATA-T-TC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
69669 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
69732 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAATATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
69797 TGACGAAATAATGAAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTAAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
69860 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
69925 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
69988 TACTGATATATCTAGTGTCCCCGA-GGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
70052 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
70104 ACTTCGATTA
Statistics
Matches: 364, Mismatches: 6, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
126 59 0.16
127 93 0.26
128 212 0.58
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:70187 original size:8 final size:8
Alignment explanation
Indices: 70174--70214 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
70164 TCACAATCTT
70174 TCAAATTC
1 TCAAATTC
70182 TCAAATTC
1 TCAAATTC
* *
70190 CCAAACTC
1 TCAAATTC
70198 T-AAATTC
1 TCAAATTC
70205 TCAAATTC
1 TCAAATTC
70213 TC
1 TC
70215 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:75499 original size:17 final size:17
Alignment explanation
Indices: 75463--75501 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
75453 CATATATTTA
*
75463 AATTTTAAAATTGATTG
1 AATTTTAAAATTGATGG
75480 AATTTT-AAATTGATAGG
1 AATTTTAAAATTGAT-GG
75497 AATTT
1 AATTT
75502 GTCGCGACCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (17 bp):
AATTTTAAAATTGATGG
Found at i:75859 original size:19 final size:19
Alignment explanation
Indices: 75824--75861 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
75814 TATTAGATTG
*
75824 AAAAAAAAATATTAAATAA
1 AAAAAAAAATATGAAATAA
75843 AAAATAAAAATA-GAAATAA
1 AAAA-AAAAATATGAAATAA
75862 GAATGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (19 bp):
AAAAAAAAATATGAAATAA
Found at i:75956 original size:2 final size:2
Alignment explanation
Indices: 75949--75973 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
75939 AAAGAGAATA
75949 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
75974 ATAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:77101 original size:14 final size:15
Alignment explanation
Indices: 77067--77104 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
77057 ATAAATATTG
*
77067 ATAAAATAATATAACA
1 ATAAAA-AATATAAAA
77083 ATAAAAAAT-TAAAA
1 ATAAAAAATATAAAA
77097 ATAAAAAA
1 ATAAAAAA
77105 ACAAAAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.57
15 3 0.14
16 6 0.29
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAAAAAATATAAAA
Found at i:77122 original size:8 final size:8
Alignment explanation
Indices: 77093--77122 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
77083 ATAAAAAATT
*
77093 AAAAATAA
1 AAAAACAA
77101 AAAAACAA
1 AAAAACAA
77109 AAAAACAA
1 AAAAACAA
77117 AAAAAC
1 AAAAAC
77123 TATATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (8 bp):
AAAAACAA
Found at i:77201 original size:38 final size:36
Alignment explanation
Indices: 77117--77481 Score: 389
Period size: 38 Copynumber: 9.7 Consensus size: 36
77107 AAAAAAACAA
*
77117 AAAAACTATAT-A-ATATATATTTTAAAAATATTTT
1 AAAAACTATATAATATATATATTTTAAAAATTTTTT
*
77151 AAAAACTATATATTATATATAAGTTTTGAAAAATATTTTT
1 AAAAACTATATAATATATAT-A-TTTT-AAAAAT-TTTTT
*
77191 AAAAACTATATAATATATAT-TTTTCAAAAATGTTTT
1 AAAAACTATATAATATATATATTTT-AAAAATTTTTT
77227 AAAAACTATAT-AT-TATATATTTTCAAAAAAAAATGTTTTT
1 AAAAACTATATAATATATATATTTT-----AAAAAT-TTTTT
*
77267 AAAAAACTATATAATATATATATTTTAAAAATGTTTT
1 -AAAAACTATATAATATATATATTTTAAAAATTTTTT
*
77304 AAAAACTATATATTATATATAAGTTTTCAAAAATGTTTTT
1 AAAAACTATATAATATATAT-A-TTTT-AAAAAT-TTTTT
*
77344 AAAAACTATATAATATATATATTTTCAAAAATGTTTT
1 AAAAACTATATAATATATATATTTT-AAAAATTTTTT
* * * * *
77381 AAAAAATATATATTATATATATATATTCAAAATGTTCT
1 AAAAACTATATA--ATATATATATTTTAAAAATTTTTT
*
77419 AAAAACTATATAATATATATATTTTTAAAATGTTTTTT
1 AAAAACTATATAATATATATA-TTTTAAAA-ATTTTTT
*
77457 TAAAACTATATAATATATATATTTT
1 AAAAACTATATAATATATATATTTT
77482 CGAAAAAACC
Statistics
Matches: 285, Mismatches: 23, Indels: 43
0.81 0.07 0.12
Matches are distributed among these distances:
34 16 0.06
35 6 0.02
36 49 0.17
37 41 0.14
38 69 0.24
39 31 0.11
40 50 0.18
41 11 0.04
42 2 0.01
43 10 0.04
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (36 bp):
AAAAACTATATAATATATATATTTTAAAAATTTTTT
Found at i:77316 original size:153 final size:152
Alignment explanation
Indices: 77116--77477 Score: 536
Period size: 153 Copynumber: 2.4 Consensus size: 152
77106 CAAAAAAACA
* *
77116 AAAAAACTATAT-A-ATATATATTTTAAAAATATTTTAAAAACTATATATTATATATAAGTTTTG
1 AAAAAACTATATAATATATATATTTTAAAAATGTTTTAAAAACTATATATTATATATAAGTTTTC
*
77179 AAAAATATTTTTAAAAACTATATAATATATAT-TTTTCAAAAATGTTTTAAAAACTATATATTAT
66 AAAAATATTTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAAATATATATTAT
* *
77243 ATAT-TTTCAAAAAAAAATGTTTTT
131 ATATATAT--AAAAAAAATG-TTCT
77267 AAAAAACTATATAATATATATATTTTAAAAATGTTTTAAAAACTATATATTATATATAAGTTTTC
1 AAAAAACTATATAATATATATATTTTAAAAATGTTTTAAAAACTATATATTATATATAAGTTTTC
*
77332 AAAAATGTTTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAAATATATATTAT
66 AAAAATATTTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAAATATATATTAT
***
77397 ATATATATATTCAAAATGTTCT
131 ATATATATAAAAAAAATGTTCT
* * *
77419 -AAAAACTATATAATATATATATTTTTAAAATGTTTTTTTAAAACTATATAATATATATA
1 AAAAAACTATATAATATATATATTTTAAAAATG--TTTTAAAAACTATATATTATATATA
77478 TTTTCGAAAA
Statistics
Matches: 193, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
151 43 0.22
152 4 0.02
153 109 0.56
154 35 0.18
155 2 0.01
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (152 bp):
AAAAAACTATATAATATATATATTTTAAAAATGTTTTAAAAACTATATATTATATATAAGTTTTC
AAAAATATTTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAAATATATATTAT
ATATATATAAAAAAAATGTTCT
Found at i:77489 original size:153 final size:154
Alignment explanation
Indices: 77116--77571 Score: 531
Period size: 153 Copynumber: 3.0 Consensus size: 154
77106 CAAAAAAACA
* *
77116 AAAAAACTATAT-A-ATATATATTTTAAAAAT-ATTTTAAAAACTATATATTATATATAAGTTTT
1 AAAAAACTATATAATATATATATTTTTAAAATGTTTTTAAAAACTATATATTATATATAAGTTTT
* *
77178 -GAAAAATATTTTTAAAAACTATATAATATATATTTTTCAAAAATGTTTTAAAAACTATATATTA
66 CGAAAAATGTTTTTAAAAACTATATAATATATATTTTTCAAAAATGTTTTAAAAAATATATATTA
* * *
77242 TATAT-TTTCAAAAAAAAATGTTTTT
131 TATATATAT--ATAAAAAATGTTTCT
*
77267 AAAAAACTATATAATATATATATTTTAAAAATG-TTTTAAAAACTATATATTATATATAAGTTTT
1 AAAAAACTATATAATATATATATTTTTAAAATGTTTTTAAAAACTATATATTATATATAAGTTTT
77331 C-AAAAATGTTTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAAATATATATT
66 CGAAAAATGTTTTTAAAAACTATATAATATATAT-TTTTCAAAAATGTTTTAAAAAATATATATT
**
77395 ATATATATATATTCAAAATG-TTCT
130 ATATATATATATAAAAAATGTTTCT
* *
77419 -AAAAACTATATAATATATATATTTTTAAAATGTTTTTTTAAAACTATATAATATATAT-A-TTT
1 AAAAAACTATATAATATATATATTTTTAAAATG-TTTTTAAAAACTATATATTATATATAAGTTT
* * * * * * ***
77481 TCGAAAAAACCGTTTTCTGAAAATTATACATTATATTTTTTTCAAAAACACTTTAAAAAAT-TAT
65 TCG-AAAAA-TGTTTT-TAAAAACTATATAATATATATTTTTCAAAAATGTTTTAAAAAATATAT
77545 ACTATATTACTATATATATAATAAAAT
127 A-T-TA-TA-TATATATATAA-AAAAT
77572 AAATAATATA
Statistics
Matches: 267, Mismatches: 21, Indels: 27
0.85 0.07 0.09
Matches are distributed among these distances:
151 48 0.18
152 5 0.02
153 117 0.44
154 61 0.23
155 20 0.07
156 2 0.01
157 9 0.03
158 5 0.02
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.43
Consensus pattern (154 bp):
AAAAAACTATATAATATATATATTTTTAAAATGTTTTTAAAAACTATATATTATATATAAGTTTT
CGAAAAATGTTTTTAAAAACTATATAATATATATTTTTCAAAAATGTTTTAAAAAATATATATTA
TATATATATATAAAAAATGTTTCT
Found at i:78439 original size:85 final size:85
Alignment explanation
Indices: 78151--78854 Score: 969
Period size: 85 Copynumber: 8.3 Consensus size: 85
78141 ATAATAGCTT
* * * * ** *
78151 TTCTCGACTTAAGCTATGCTGTAAATTTGACATGCCCCTGAGCTGAATGGAATCGAACTCGAAGG
1 TTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
* **
78216 TATTTATTGACA-ATAACCC
66 TCTTGGTTGACAGATAACCC
78235 TTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
1 TTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
* * **
78300 TTTTTTGTTGACAGATAGTCC
66 -TCTTGGTTGACAGATAACCC
* * * *
78321 TTCACGCCTTGAGTTATGCTGTAAATTTAATATGCCTCTGAGATGAATGTAATCGAACTCGAAGG
1 TTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
* * *
78386 TCTTTGCTGACGGATAACCC
66 TCTTGGTTGACAGATAACCC
* * *
78406 TTCTCGCCTTGAGTTATGCTATAAATTGGATATGCCTTTGAGCTGAATGTAATCGAACTCGAATG
1 TTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
* * *
78471 TCTTTTGTTGATAGATAGCCC
66 TC-TTGGTTGACAGATAACCC
* * * * *
78492 TTCTCGTCTTGAGCTATGCTGTAAATTTGATATGCCTCTGAGCTGAGTGTAATCAAACTCGAAGG
1 TTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
*
78557 TATTGGTTGACAGATAACCC
66 TCTTGGTTGACAGATAACCC
* * * *
78577 TTCTCGCCTTGAGTTATGTTGTAAATTTGATGTGCCTTTAAGCTGAGTGTAATCGAACTCGAAGG
1 TTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
*
78642 TCTTGGTTGACAGATAGCCC
66 TCTTGGTTGACAGATAACCC
* * *
78662 TTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG
1 TTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
*
78727 TCTTGGTTGATAGATAACCC
66 TCTTGGTTGACAGATAACCC
* * *
78747 TTCTCGCCTTGAGTTATGCTATAAATTTGATATGCCTTTGAGCTGAGTGTAATCGAATTCGAAGG
1 TTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
78812 TCTTGGTTGACAGATAACCC
66 TCTTGGTTGACAGATAACCC
*
78832 TTCTCGCCTTGAGTTATGTTGTA
1 TTCTCGCCTTGAGTTATGCTGTA
78855 CTGATCCGTT
Statistics
Matches: 553, Mismatches: 64, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
84 58 0.10
85 357 0.65
86 138 0.25
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (85 bp):
TTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGG
TCTTGGTTGACAGATAACCC
Found at i:78785 original size:341 final size:340
Alignment explanation
Indices: 78106--78854 Score: 1074
Period size: 341 Copynumber: 2.2 Consensus size: 340
78096 ATGTGTCATC
* * ** *
78106 GAGCTGAATGAAATCGAACTCGACAGT-TTTTGTCGATA-ATAGCTTTTCTCGACTTAAGCTATG
1 GAGCTGAATGTAATCGAACTCGA-AGTCTTTTGTTGATAGATAGCCCTTCTCGACTTGAGCTATG
* *
78169 CTGTAAATTTGACATGCCCCTGAGCTGAATGGAATCGAACTCGAAGGTATTTATTGACAATAACC
65 CTGTAAATTTGACATGCCCCTGAGCTGAATGGAATCAAACTCGAAGGTATTGATTGACAATAACC
*
78234 CTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAG
130 CTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTAAGCTGAATGTAATCGAACTCGAAG
* * * *
78299 GTTTTTTGTTGACAGATAGTCCTTCACGCCTTGAGTTATGCTGTAAATTTAATATGCCTCTGAGA
195 GTTCTTGGTTGACAGATAGCCCTTCACGCCTTGAGCTATGCTGTAAATTTAATATGCCTCTGAGA
* *
78364 TGAATGTAATCGAACTCGAAGGTCTTTGCTGACGGATAACCCTTCTCGCCTTGAGTTATGCTATA
260 TGAATGTAATCGAACTCGAAGGTCTTGGCTGACAGATAACCCTTCTCGCCTTGAGTTATGCTATA
78429 AATTGGATATGCCTTT
325 AATTGGATATGCCTTT
*
78445 GAGCTGAATGTAATCGAACTCGAATGTCTTTTGTTGATAGATAGCCCTTCTCGTCTTGAGCTATG
1 GAGCTGAATGTAATCGAACTCGAA-GTCTTTTGTTGATAGATAGCCCTTCTCGACTTGAGCTATG
* * * * *
78510 CTGTAAATTTGATATGCCTCTGAGCTGAGTGTAATCAAACTCGAAGGTATTGGTTGACAGATAAC
65 CTGTAAATTTGACATGCCCCTGAGCTGAATGGAATCAAACTCGAAGGTATTGATTGACA-ATAAC
* * *
78575 CCTTCTCGCCTTGAGTTATGTTGTAAATTTGATGTGCCTTTAAGCTGAGTGTAATCGAACTCGAA
129 CCTTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTAAGCTGAATGTAATCGAACTCGAA
* * * *
78640 GG-TCTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATTTGATGTGCCTTTGAG
194 GGTTCTTGGTTGACAGATAGCCCTTCACGCCTTGAGCTATGCTGTAAATTTAATATGCCTCTGAG
* * * *
78704 CTGAGTGTAATCGAACTCGAAGGTCTTGGTTGATAGATAACCCTTCTCGCCTTGAGTTATGCTAT
259 ATGAATGTAATCGAACTCGAAGGTCTTGGCTGACAGATAACCCTTCTCGCCTTGAGTTATGCTAT
*
78769 AAATTTGATATGCCTTT
324 AAATTGGATATGCCTTT
* * * * * * *
78786 GAGCTGAGTGTAATCGAATTCGAAGGTC-TTGGTTGACAGATAACCCTTCTCGCCTTGAGTTATG
1 GAGCTGAATGTAATCGAACTCGAA-GTCTTTTGTTGATAGATAGCCCTTCTCGACTTGAGCTATG
*
78850 TTGTA
65 CTGTA
78855 CTGATCCGTT
Statistics
Matches: 365, Mismatches: 41, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
338 1 0.00
339 24 0.07
340 45 0.12
341 227 0.62
342 68 0.19
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (340 bp):
GAGCTGAATGTAATCGAACTCGAAGTCTTTTGTTGATAGATAGCCCTTCTCGACTTGAGCTATGC
TGTAAATTTGACATGCCCCTGAGCTGAATGGAATCAAACTCGAAGGTATTGATTGACAATAACCC
TTCTCGCCTTGAGTTATGCTGTAAATTTGATATGCCTTTAAGCTGAATGTAATCGAACTCGAAGG
TTCTTGGTTGACAGATAGCCCTTCACGCCTTGAGCTATGCTGTAAATTTAATATGCCTCTGAGAT
GAATGTAATCGAACTCGAAGGTCTTGGCTGACAGATAACCCTTCTCGCCTTGAGTTATGCTATAA
ATTGGATATGCCTTT
Found at i:85240 original size:16 final size:15
Alignment explanation
Indices: 85221--85296 Score: 64
Period size: 16 Copynumber: 4.9 Consensus size: 15
85211 GAAAACAAAG
85221 AAAAAATAAAAAAATT
1 AAAAAATAAAAAAA-T
***
85237 AAAAAA-AATATTGAT
1 AAAAAATAA-AAAAAT
*
85252 AAAATAATATAAAAAT
1 AAAA-AATAAAAAAAT
*
85268 AAAAAATAATAACAAT
1 AAAAAATAA-AAAAAT
85284 AAAAAATAAAAAA
1 AAAAAATAAAAAA
85297 TGTTTCAAAA
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
15 14 0.30
16 31 0.67
17 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.20
Consensus pattern (15 bp):
AAAAAATAAAAAAAT
Found at i:85274 original size:7 final size:7
Alignment explanation
Indices: 85250--85297 Score: 60
Period size: 7 Copynumber: 6.3 Consensus size: 7
85240 AAAAATATTG
85250 ATAAAATA
1 ATAAAA-A
85258 ATATAAAA
1 ATA-AAAA
85266 ATAAAAA
1 ATAAAAA
85273 ATAATAACA
1 ATAA-AA-A
85282 ATAAAAA
1 ATAAAAA
85289 ATAAAAA
1 ATAAAAA
85296 AT
1 AT
85298 GTTTCAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
7 18 0.49
8 11 0.30
9 8 0.22
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (7 bp):
ATAAAAA
Found at i:85428 original size:38 final size:37
Alignment explanation
Indices: 85292--85631 Score: 336
Period size: 38 Copynumber: 8.9 Consensus size: 37
85282 ATAAAAAATA
*
85292 AAAAATGTTTCAAAAACTATA-TA-ATATATATTTTC
1 AAAAATGTTTTAAAAACTATATTATATATATATTTTC
* * *
85327 AAAAATATTTTTTTTAAAAATTATATAATATATATATTTT-
1 -AAAA-A--TGTTTTAAAAACTATATTATATATATATTTTC
85367 AAAAATGTTTTAAAAACTATA-TATTATATATAAGTTTTC
1 AAAAATGTTTTAAAAACTATATTA-TATATAT-A-TTTTC
*
85406 AAAAATGTTTTCAAAAACTATATAATATATATATTTTTTTC
1 AAAAATGTTTT-AAAAACTATAT--TATATATA-TATTTTC
* *
85447 AAAAATGTTTTAGAAACTATA-TAT-TATATATTTTAA
1 AAAAATGTTTTAAAAACTATATTATATATATATTTT-C
* *
85483 AAAAATGTTTTTAAAAAACTATATAATATATATATATT-
1 AAAAATG-TTTT-AAAAACTATATTATATATATATTTTC
* *
85521 AAAAATGTTTCAAAAACTATATATTATATATAGATTTTC
1 AAAAATGTTTTAAAAAC--TATATTATATATATATTTTC
*
85560 AAAAATGTTTTTAAAAACTATATAATATATATA-TTTC
1 AAAAATG-TTTTAAAAACTATATTATATATATATTTTC
*
85597 AAAAATGTTTTAAAAAATATACATTATATATATAT
1 AAAAATGTTTTAAAAACTAT--ATTATATATATAT
85632 ATATATATAT
Statistics
Matches: 255, Mismatches: 23, Indels: 49
0.78 0.07 0.15
Matches are distributed among these distances:
35 6 0.02
36 54 0.21
37 23 0.09
38 61 0.24
39 37 0.15
40 38 0.15
41 27 0.11
42 6 0.02
43 3 0.01
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (37 bp):
AAAAATGTTTTAAAAACTATATTATATATATATTTTC
Found at i:85439 original size:76 final size:74
Alignment explanation
Indices: 85292--85629 Score: 439
Period size: 76 Copynumber: 4.4 Consensus size: 74
85282 ATAAAAAATA
* * *
85292 AAAAATGTTTCAAAAACTATATA--ATATATATTTTCAAAAATATTTTTTTTAAAAATTATATAA
1 AAAAATGTTTTAAAAACTATATATTATATATATTTTC-AAAA-A-TGTTTTTAAAAACTATATAA
85355 TATATATATTTT
63 TATATATATTTT
*
85367 AAAAATGTTTTAAAAACTATATATTATATATAAGTTTTCAAAAATGTTTTCAAAAACTATATAAT
1 AAAAATGTTTTAAAAACTATATATTATATAT-A-TTTTCAAAAATGTTTTTAAAAACTATATAAT
85432 ATATATATTTTTTT
64 ATATATA---TTTT
* **
85446 CAAAAATGTTTTAGAAACTATATATTATATAT-TTTAAAAAAATGTTTTTAAAAAACTATATAAT
1 -AAAAATGTTTTAAAAACTATATATTATATATATTTTCAAAAATGTTTTT-AAAAACTATATAAT
*
85510 ATATATATATT
64 ATATATATTTT
*
85521 AAAAATGTTTCAAAAACTATATATTATATATAGATTTTCAAAAATGTTTTTAAAAACTATATAAT
1 AAAAATGTTTTAAAAACTATATATTATATAT--ATTTTCAAAAATGTTTTTAAAAACTATATAAT
*
85586 ATATATATTTC
64 ATATATATTTT
* *
85597 AAAAATGTTTTAAAAAATATACATTATATATAT
1 AAAAATGTTTTAAAAACTATATATTATATATAT
85630 ATATATATAT
Statistics
Matches: 233, Mismatches: 18, Indels: 25
0.84 0.07 0.09
Matches are distributed among these distances:
74 31 0.13
75 25 0.11
76 76 0.33
77 36 0.15
78 26 0.11
79 9 0.04
80 30 0.13
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (74 bp):
AAAAATGTTTTAAAAACTATATATTATATATATTTTCAAAAATGTTTTTAAAAACTATATAATAT
ATATATTTT
Found at i:85626 original size:2 final size:2
Alignment explanation
Indices: 85621--85649 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
85611 AAATATACAT
85621 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
85650 TTTAAAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85681 original size:56 final size:55
Alignment explanation
Indices: 85578--85685 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 55
85568 TTTTAAAAAC
*
85578 TATATAATATATATATTTCAAAAATGTTTTAAAAAATATACATTATATATATATA
1 TATATAATATATATATTTCAAAAATGTTTTAAAAAATATACAATATATATATATA
* * *
85633 TATATATATATATATATTT-TAAAATGTTTTCAAAAACTATATAATATATATAT
1 TATATA-ATATATATATTTCAAAAATGTTTT-AAAAAATATACAATATATATAT
85686 TTTTGAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
55 16 0.34
56 31 0.66
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (55 bp):
TATATAATATATATATTTCAAAAATGTTTTAAAAAATATACAATATATATATATA
Found at i:85765 original size:130 final size:129
Alignment explanation
Indices: 85502--85770 Score: 334
Period size: 131 Copynumber: 2.1 Consensus size: 129
85492 TTTAAAAAAC
*
85502 TATATA-ATATATATATATTAAAAATGTTTCAAAAACTATATATTATATATAGATTTTCAAAAAT
1 TATATATATATATATATATTAAAAATGTTTCAAAAACTATATAATATATATAGATTTTCAAAAAT
* ** *
85566 GTTTTTAAAAACTATATAATATATATATTTCAAAAATGTTTTAAAAAATATACATTATATATATA
66 GTTTTTAAAAACTATATAATATATATATTTAAAAAACATTTTAAAAAATATACA-TATATATACA
* * *
85631 TATATATATATATATATATTTTAAAATGTTTTCAAAAACTATATAATATATATA-TTTTTGAAAA
1 TATATATATATATATATA-TTAAAAATG-TTTCAAAAACTATATAATATATATAGATTTTCAAAA
* *
85695 ACTGTTTTCTGGAAAA-TATAT-AT-TATATTTTTAAAAAACATTTTAAAAAAGTATAC-TATAT
64 A-TGTTTT-T-AAAAACTATATAATATATATATTTAAAAAACATTTTAAAAAA-TATACATATAT
85756 ATACA
125 ATACA
*
85761 TATATTTATA
1 TATATATATA
85771 ATAAAATAAA
Statistics
Matches: 122, Mismatches: 11, Indels: 13
0.84 0.08 0.09
Matches are distributed among these distances:
129 6 0.05
130 29 0.24
131 40 0.33
132 37 0.30
133 6 0.05
134 4 0.03
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.44
Consensus pattern (129 bp):
TATATATATATATATATATTAAAAATGTTTCAAAAACTATATAATATATATAGATTTTCAAAAAT
GTTTTTAAAAACTATATAATATATATATTTAAAAAACATTTTAAAAAATATACATATATATACA
Found at i:103062 original size:20 final size:21
Alignment explanation
Indices: 103037--103078 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
103027 CCGTTACACA
103037 GGGGGGAATCGGTACCC-CTG
1 GGGGGGAATCGGTACCCTCTG
103057 GGGGGGAATCGGTACCCTCTG
1 GGGGGGAATCGGTACCCTCTG
103078 G
1 G
103079 ACATTCTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.14, C:0.24, G:0.45, T:0.17
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCTCTG
Found at i:106570 original size:19 final size:20
Alignment explanation
Indices: 106546--106585 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
106536 CCGTTACACA
106546 GGGGGAATCGGTACCC-CTG
1 GGGGGAATCGGTACCCTCTG
106565 GGGGGAATCGGTACCCTCTG
1 GGGGGAATCGGTACCCTCTG
106585 G
1 G
106586 ACATTCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.15, C:0.25, G:0.42, T:0.17
Consensus pattern (20 bp):
GGGGGAATCGGTACCCTCTG
Found at i:106904 original size:19 final size:20
Alignment explanation
Indices: 106882--106921 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
106872 AATTAAATCG
*
106882 AATATATAAT-TTAAAATTC
1 AATATAAAATCTTAAAATTC
106901 AATATAAAATCTTAAAATTC
1 AATATAAAATCTTAAAATTC
106921 A
1 A
106922 TTAACACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
AATATAAAATCTTAAAATTC
Found at i:109718 original size:2 final size:2
Alignment explanation
Indices: 109711--109735 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
109701 AATAACTTAC
109711 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
109736 AAGATCATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:109984 original size:3 final size:3
Alignment explanation
Indices: 109976--110057 Score: 112
Period size: 3 Copynumber: 27.3 Consensus size: 3
109966 TTCATTTTAA
*
109976 ATT ATT ATT ATT GA-A ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
110021 ATT ATT ATT ATT AAT AGT AAT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
110058 AATATTTATT
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
2 1 0.01
3 69 0.97
4 1 0.01
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:110806 original size:13 final size:13
Alignment explanation
Indices: 110788--110816 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
110778 ACCACCGTTA
110788 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
110801 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
110814 CGG
1 CGG
110817 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:112288 original size:13 final size:15
Alignment explanation
Indices: 112257--112293 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
112247 ATTTATGTCT
112257 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
112272 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
112285 TA-TTTATTT
1 TATTTTATTT
112294 TTCTGCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:116948 original size:13 final size:13
Alignment explanation
Indices: 116932--116961 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
116922 AAATAGAAAA
116932 AAAAACAAAAAGG
1 AAAAACAAAAAGG
*
116945 AAAAAGAAAAAGG
1 AAAAACAAAAAGG
116958 AAAA
1 AAAA
116962 TTGAATCAAG
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:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAGG
Found at i:119180 original size:92 final size:92
Alignment explanation
Indices: 119023--119211 Score: 342
Period size: 92 Copynumber: 2.1 Consensus size: 92
119013 TAAGGAGACC
119023 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTAGCTGATCTGGTTTGGTATGAACCACAGAACCAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTAGCTGATCTGGTTTGGTATGAACCACAGAACCAA
*
119088 TCATTGAATTTGGAAGATAAATGTGCT
66 TCATTGAATTTGGAAGATAAATGTACT
*
119115 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTAGCTGATCTGGTTTGGTATGAACCACAGAACCAA
* *
119180 TCATTGAATTTGGAAGATGAATTTACT
66 TCATTGAATTTGGAAGATAAATGTACT
119207 CATAG
1 CATAG
119212 TAAAAATAAG
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (92 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAGTTAGCTGATCTGGTTTGGTATGAACCACAGAACCAA
TCATTGAATTTGGAAGATAAATGTACT
Found at i:121308 original size:52 final size:54
Alignment explanation
Indices: 121240--121348 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 54
121230 AATGTTTGAT
* * **
121240 AACATCTGAGCGGAAGCCACAA-AAAA-ATGAATGCGTTGTCAAATGTTTTACG
1 AACATCTGAACAGAAGCCACAAGAAAAGATGAATGCACTGTCAAATGTTTTACG
121292 AACATCTGAACAGAAGCCACAAGAAAAGATGAATGCACTGTCAAATGTTTTACG
1 AACATCTGAACAGAAGCCACAAGAAAAGATGAATGCACTGTCAAATGTTTTACG
121346 AAC
1 AAC
121349 CTGCTATTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 20 0.39
53 4 0.08
54 27 0.53
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.21
Consensus pattern (54 bp):
AACATCTGAACAGAAGCCACAAGAAAAGATGAATGCACTGTCAAATGTTTTACG
Found at i:122549 original size:76 final size:76
Alignment explanation
Indices: 122423--123794 Score: 2539
Period size: 76 Copynumber: 18.0 Consensus size: 76
122413 CTATTTCTCA
*
122423 CATCTGTAAGTCCTTCGGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
122488 AACCTTCGGGT
66 AACCTTCGGGT
122499 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
122564 AACCTTCGGGT
66 AACCTTCGGGT
122575 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
122640 AACCTTCGGGT
66 AACCTTCGGGT
122651 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
122716 AACCTTCGGGT
66 AACCTTCGGGT
*
122727 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
122792 ATCCTTCGGGT
66 AACCTTCGGGT
* *
122803 CATCTGTAAGCCCTTCAGTGCAAGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
122868 ATCCTTCGGGT
66 AACCTTCGGGT
122879 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
122944 AACCTTCGGGT
66 AACCTTCGGGT
122955 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
123020 AACCTTCGGGT
66 AACCTTCGGGT
* *
123031 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
123096 ATCCTTCGGGT
66 AACCTTCGGGT
*
123107 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
123172 ATCCTTCGGGT
66 AACCTTCGGGT
123183 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
123248 AACCTTCGGGT
66 AACCTTCGGGT
123259 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
123324 AACCTTCGGGT
66 AACCTTCGGGT
*
123335 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
123400 ATCCTTCGGGT
66 AACCTTCGGGT
*
123411 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
123476 ATCCTTCGGGT
66 AACCTTCGGGT
123487 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
123552 AACCTTCGGGT
66 AACCTTCGGGT
123563 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
123628 AACCTTCGGGT
66 AACCTTCGGGT
*
123639 CATCTGTAAGTCCTTCAGTGCACGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
123704 ATCCTTCGGGT
66 AACCTTCGGGT
* *
123715 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-
1 CATCTGTAAGTCCTTCAGTGCATGATG-TTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
123779 AAACCCTCAGGGT
65 AAACCTTC-GGGT
123792 CAT
1 CAT
123795 TCATAAGACC
Statistics
Matches: 1270, Mismatches: 24, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
76 1228 0.97
77 42 0.03
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTCGGGT
Found at i:123958 original size:3 final size:3
Alignment explanation
Indices: 123950--124022 Score: 94
Period size: 3 Copynumber: 24.3 Consensus size: 3
123940 TTCATTTTAA
*
123950 ATT ATT ATT ATT GA-A ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
123995 ATT AAT AGT AAT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
124023 AATATTTATT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
2 1 0.02
3 60 0.97
4 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:124776 original size:13 final size:13
Alignment explanation
Indices: 124758--124782 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
124748 ACCACCGTTA
124758 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
124771 CGGTGGCCGGCG
1 CGGTGGCCGGCG
124783 ACGGAGTACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.32, G:0.60, T:0.08
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:127496 original size:26 final size:26
Alignment explanation
Indices: 127445--127496 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
127435 TGTAAGAAGC
* * *
127445 CCTTAGACCAACTAACCGCACTTGCT
1 CCTTAGACCAACTAAACACACATGCT
127471 CCTTAGACCAACTAAACACACATGCT
1 CCTTAGACCAACTAAACACACATGCT
127497 ATCATCTTAT
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:0.33, C:0.37, G:0.10, T:0.21
Consensus pattern (26 bp):
CCTTAGACCAACTAAACACACATGCT
Found at i:129778 original size:31 final size:32
Alignment explanation
Indices: 129721--129783 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
129711 TACCATCGTC
*
129721 TATTTGAAAATATATTAATTATTTATT-TATT
1 TATTTGAAAATATATTAATTAGTTATTGTATT
129752 TATTTGAAAATATATATAATT-GTTATTGTATT
1 TATTTGAAAATATAT-TAATTAGTTATTGTATT
129784 GTTAATGAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 20 0.69
32 9 0.31
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (32 bp):
TATTTGAAAATATATTAATTAGTTATTGTATT
Found at i:132958 original size:20 final size:20
Alignment explanation
Indices: 132933--133004 Score: 135
Period size: 20 Copynumber: 3.6 Consensus size: 20
132923 TAGTTGGAAA
132933 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
*
132953 TCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATTTTCCATT
132973 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
132993 TCGCGTTGCGAT
1 TCGCGTTGCGAT
133005 AGTCTACAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:133164 original size:17 final size:17
Alignment explanation
Indices: 133142--133174 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
133132 CGTATTACCA
133142 CGACCACGACCACGACC
1 CGACCACGACCACGACC
*
133159 CGACCACGACGACGAC
1 CGACCACGACCACGAC
133175 GGCGGCGGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.48, G:0.21, T:0.00
Consensus pattern (17 bp):
CGACCACGACCACGACC
Found at i:133175 original size:6 final size:6
Alignment explanation
Indices: 133138--133174 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
133128 GACACGTATT
*
133138 ACCACG ACCACG ACCACG ACC-CG ACCACG ACGACG AC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG AC
133175 GGCGGCGGCG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.32, C:0.49, G:0.19, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:133691 original size:6 final size:6
Alignment explanation
Indices: 133662--133721 Score: 81
Period size: 6 Copynumber: 10.5 Consensus size: 6
133652 TCGTCTCGTC
*
133662 TCGT-G TCGT-G TCGT-G TCATGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
*
133707 TCATGG TCGTGG TCG
1 TCGTGG TCGTGG TCG
133722 AAACGTGTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
5 13 0.26
6 37 0.74
ACGTcount: A:0.03, C:0.18, G:0.43, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:136197 original size:26 final size:27
Alignment explanation
Indices: 136168--136219 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
136158 AGGTGTCAGA
*
136168 CTGTTAAAG-AACATGCACGTGTATTG
1 CTGTTAAAGAAACATGCACATGTATTG
*
136194 CTGTTAAAGAAATATGCACATGTATT
1 CTGTTAAAGAAACATGCACATGTATT
136220 AAGCAGTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (27 bp):
CTGTTAAAGAAACATGCACATGTATTG
Found at i:137862 original size:36 final size:36
Alignment explanation
Indices: 137815--138027 Score: 331
Period size: 36 Copynumber: 5.9 Consensus size: 36
137805 TGAATAAGAA
*
137815 GAACGAAAGGAAGCATCAGCACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
*
137851 GAACGAAAGGAAGCATCGGCACTTTCGATTC-AAGAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAG-T
137887 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
* * *
137923 GAACGGAAGGAAGCATCCGCACTTTCGATTC-AAGAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAG-T
137959 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
* *
137995 GAACGGAAGGAAGCATCCGCACTTTCGATTCAA
1 GAACGAAAGGAAGCATCGGCACTTTCGATTCAA
138028 TTGTTCATCT
Statistics
Matches: 162, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
35 6 0.04
36 150 0.93
37 6 0.04
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (36 bp):
GAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGT
Found at i:137927 original size:72 final size:72
Alignment explanation
Indices: 137810--138027 Score: 409
Period size: 72 Copynumber: 3.0 Consensus size: 72
137800 GAAGGTGAAT
* * *
137810 AAGAAGAACGAAAGGAAGCATCAGCACTTTCGATTCAAAGTGAACGAAAGGAAGCATCGGCACTT
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
137875 TCGATTC
66 TCGATTC
137882 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
137947 TCGATTC
66 TCGATTC
137954 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
1 AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
138019 TCGATTC
66 TCGATTC
138026 AA
1 AA
138028 TTGTTCATCT
Statistics
Matches: 143, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 143 1.00
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (72 bp):
AAGAAGAACGAAAGGAAGCATCGGCACTTTCGATTCAAAGTGAACGGAAGGAAGCATCCGCACTT
TCGATTC
Found at i:141691 original size:10 final size:10
Alignment explanation
Indices: 141662--141707 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
141652 ACACAAACTC
*
141662 AAAGCAAAAG
1 AAAGGAAAAG
*
141672 AAA-AAAAAG
1 AAAGGAAAAG
141681 AAAGGAAAAG
1 AAAGGAAAAG
*
141691 AAAGGAAAAA
1 AAAGGAAAAG
141701 AAAGGAA
1 AAAGGAA
141708 GTCATGGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
9 8 0.25
10 24 0.75
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (10 bp):
AAAGGAAAAG
Found at i:142011 original size:18 final size:19
Alignment explanation
Indices: 141983--142024 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
141973 AATATTATTT
141983 TAATAGATTTATAATTT-AA
1 TAATAGATTTAT-ATTTAAA
142002 TAAT-GATTTATATTTAAA
1 TAATAGATTTATATTTAAA
142020 TAATA
1 TAATA
142025 ATTAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.19
18 13 0.62
19 4 0.19
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (19 bp):
TAATAGATTTATATTTAAA
Found at i:142059 original size:29 final size:31
Alignment explanation
Indices: 142005--142062 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
141995 AATTTAATAA
142005 TGATTTATATTTAAATAATAATTAATTTTAG
1 TGATTTATATTTAAATAATAATTAATTTTAG
**
142036 TGATTTA-ATTTATTTAA-AATTAATTTT
1 TGATTTATATTTAAATAATAATTAATTTT
142063 TTTAAATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.40
30 8 0.32
31 7 0.28
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (31 bp):
TGATTTATATTTAAATAATAATTAATTTTAG
Found at i:142560 original size:35 final size:35
Alignment explanation
Indices: 142493--142560 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
142483 TGTTATTTAC
* *
142493 AATAAGTCATGTTACTTGGTGAATAGATTTATTAT
1 AATAAGTCATGTCACTTGGTGAATAGACTTATTAT
*
142528 AATAAGTTATGTCACTTGGTGAATTA-ACTTATT
1 AATAAGTCATGTCACTTGGTGAA-TAGACTTATT
142561 TTTTAGTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 27 0.93
36 2 0.07
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (35 bp):
AATAAGTCATGTCACTTGGTGAATAGACTTATTAT
Found at i:143069 original size:14 final size:15
Alignment explanation
Indices: 143045--143089 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
143035 TTCGTTCGAT
*
143045 TATATTTTATTATTA
1 TATATTATATTATTA
143060 -ATATTATATTA-TA
1 TATATTATATTATTA
143073 TATATTATTATTATTA
1 TATATTA-TATTATTA
143089 T
1 T
143090 CTCGGATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 2 0.08
14 16 0.62
15 5 0.19
16 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATATTATATTATTA
Found at i:143911 original size:81 final size:79
Alignment explanation
Indices: 143790--143958 Score: 248
Period size: 81 Copynumber: 2.1 Consensus size: 79
143780 ACTGAACCAA
* * *
143790 ATTAACCGATTTTGTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCAAACCGAAA
1 ATTAACCGATTTTGTTATTTAACATTAATCGAACCAAAATTATTTGACCGTTAATCAAACCCAAA
143855 TTTATTTGAAAATT
66 TTTATTTGAAAATT
* ** **
143869 ATTAACCGATTTTTTTTATTTAACCATTAATCGAACCAAAATTATTTTTCCGTTAATTGAACCCA
1 ATTAACCGA-TTTTGTTATTTAA-CATTAATCGAACCAAAATTATTTGACCGTTAATCAAACCCA
143934 AATTTATTTGAAAATT
64 AATTTATTTGAAAATT
143950 ATTAACCGA
1 ATTAACCGA
143959 ATTAACCGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 9 0.11
80 11 0.14
81 60 0.75
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (79 bp):
ATTAACCGATTTTGTTATTTAACATTAATCGAACCAAAATTATTTGACCGTTAATCAAACCCAAA
TTTATTTGAAAATT
Found at i:144101 original size:95 final size:94
Alignment explanation
Indices: 143991--144177 Score: 261
Period size: 95 Copynumber: 2.0 Consensus size: 94
143981 TTTTTTAACC
* *
143991 GTTAATCGAACCGAAATTTATTTCAAAATTATTAACCGAA-ACAAATCAACCGATTATTTTTCTT
1 GTTAATCGAACCGAAATTTATTTCAAAATTATTAACCGAATA-AAAT-AAACGATT-TTTTTCCT
*
144055 TAACCATTAATCGAACTGAAA-TTATTTGACT
63 TAACCATTAATCGAACCGAAATTTATTTGACT
* * **
144086 GTTAATCGAATCGAAATTTATTTGAAAATTATTAACCGAATAAAATAAATTATTTTTTTCCTTAA
1 GTTAATCGAACCGAAATTTATTTCAAAATTATTAACCGAATAAAATAAACGATTTTTTTCCTTAA
*
144151 CCGTTAATCGAACCGAAATTTATTTGA
66 CCATTAATCGAACCGAAATTTATTTGA
144178 AAATTATTAA
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
93 26 0.32
94 13 0.16
95 42 0.51
96 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.37
Consensus pattern (94 bp):
GTTAATCGAACCGAAATTTATTTCAAAATTATTAACCGAATAAAATAAACGATTTTTTTCCTTAA
CCATTAATCGAACCGAAATTTATTTGACT
Found at i:144103 original size:247 final size:239
Alignment explanation
Indices: 143679--144378 Score: 671
Period size: 247 Copynumber: 2.8 Consensus size: 239
143669 TTTTCTTTAA
* * * *
143679 CCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAAACCAAATTAACCAAAATTATTTGA
1 CCGTTAATCGAACCCAAATTTATTTGAAAATTATTAACCAAACCAAATAAAACAAAATTATTTAA
* * * * * *
143744 TCGTTAATTGAACCAAAATTTATTTGAAAATTATTAACTGAACCAAATTAACCGATTTTGTTCTT
66 CCGTTAATCGAACCAAAATTTATTTCAAAATTATTAACCGAAACAAATCAACCGATTTTGTTCTT
143809 TAACATTAATCGAACCGAAATTATTTGACCGTTAATCAAACCGAAATTTATTTGAAAATTATTAA
131 TAACATTAATCGAACCGAAATTATTTGACCGTTAATCAAACCGAAATTTATTTGAAAATTATTAA
143874 CCGATTTTTTTTATTTAACCATTAATCGAACCAAAATTATTTTT
196 CCGATTTTTTTTATTTAACCATTAATCGAACCAAAATTATTTTT
* * *
143918 CCGTTAATTGAACCCAAATTTATTTGAAAATTATTAACCGAATTAACCGAATAAAATAAATTATT
1 CCGTTAATCGAACCCAAATTTATTTGAAAATTATTAACC--A--AACCAAATAAAACAAA--ATT
* *
143983 TTTTAACCGTTAATCGAACCGAAATTTATTTCAAAATTATTAACCGAAACAAATCAACCGATTAT
60 ATTTAACCGTTAATCGAACCAAAATTTATTTCAAAATTATTAACCGAAACAAATCAACCGATT-T
* * * * *
144048 TTTTCTTTAACCATTAATCGAACTGAAATTATTTGACTGTTAATCGAATCGAAATTTATTTGAAA
124 TGTTCTTTAA-CATTAATCGAACCGAAATTATTTGACCGTTAATCAAACCGAAATTTATTTGAAA
* * * **
144113 ATTATTAACCGAATAAAATAAATTATTTTTTTCCTTAACCGTTAATCGAACCGAAATTTATTTGA
188 ATTATTAACCG------AT---TT-TTTTTAT--TTAACCATTAATCGAACC-AAAATTATTTTT
*** * * * * ** * *
144178 AAATT-AT-TAA-CC-AATTGAATT-AACCGAATT-TT-TCTTTAACCATTAATCGAACCAAAAT
1 CCGTTAATCGAACCCAAATTTATTTGAA---AATTATTAAC-CAAACCA--AAT-AAAACAAAAT
* * * * *
144236 TATTTGACCGTTAATCTAACCAAAATGTATTTGAAAATTATTAACC-AAACCAAATTAACCGAAT
59 TATTTAACCGTTAATCGAACCAAAATTTATTTCAAAATTATTAACCGAAA-CAAATCAACCG-AT
* *
144300 TTT-TTCTTTAACATTAATCAAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGAA
122 TTTGTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCAAACCGAAATTTATTTGAA
*
144364 AATTATTAATCGATT
187 AATTATTAACCGATT
144379 AATGATTAAT
Statistics
Matches: 381, Mismatches: 50, Indels: 56
0.78 0.10 0.11
Matches are distributed among these distances:
239 37 0.10
241 1 0.00
243 13 0.03
245 57 0.15
246 12 0.03
247 61 0.16
252 60 0.16
253 17 0.04
254 54 0.14
255 8 0.02
256 15 0.04
257 10 0.03
258 6 0.02
259 19 0.05
260 11 0.03
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (239 bp):
CCGTTAATCGAACCCAAATTTATTTGAAAATTATTAACCAAACCAAATAAAACAAAATTATTTAA
CCGTTAATCGAACCAAAATTTATTTCAAAATTATTAACCGAAACAAATCAACCGATTTTGTTCTT
TAACATTAATCGAACCGAAATTATTTGACCGTTAATCAAACCGAAATTTATTTGAAAATTATTAA
CCGATTTTTTTTATTTAACCATTAATCGAACCAAAATTATTTTT
Found at i:144105 original size:166 final size:160
Alignment explanation
Indices: 143872--144281 Score: 547
Period size: 166 Copynumber: 2.5 Consensus size: 160
143862 GAAAATTATT
* * ** * *
143872 AACCGATTTTTTTTATTTAACCATTAATCGAACCAAAATTATTTTTCCGTTAATTGAACCCAAAT
1 AACCGATTATTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCAAAAT
143937 TTATTTGAAAATTATTAACCGAATTAACCGAATAAAATAAATTATTTT-TTAACCGTTAATCGAA
66 TTATTTGAAAATTATTAACCGAA-TAA---AAT-AAAT-AATTATTTTCTTAACCGTTAATCGAA
144001 CCGAAATTTATTTCAAAATTATTAACCGAAACAAATC
125 CCGAAATTTATTTCAAAATTATTAACC-AAACAAATC
** * * *
144038 AACCGATTATTTTTCTTTAACCATTAATCGAACTGAAATTATTTGACTGTTAATCGAATCGAAAT
1 AACCGATTATTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCAAAAT
* *
144103 TTATTTGAAAATTATTAACCGAATAAAATAAATTATTTTTTTCCTTAACCGTTAATCGAACCGAA
66 TTATTTGAAAATTATTAACCGAATAAAATAAATAATTATTTT-CTTAACCGTTAATCGAACCGAA
* *** *
144168 ATTTATTTGAAAATTATTAACCAATTGAATT
130 ATTTATTTCAAAATTATTAACCAAACAAATC
*
144199 AACCGA--ATTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCTAACCAAAAT
1 AACCGATTATTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCAAAAT
*
144262 GTATTTGAAAATTATTAACC
66 TTATTTGAAAATTATTAACC
144282 AAACCAAATT
Statistics
Matches: 218, Mismatches: 24, Indels: 11
0.86 0.09 0.04
Matches are distributed among these distances:
159 70 0.32
160 7 0.03
161 15 0.07
162 45 0.21
165 3 0.01
166 78 0.36
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (160 bp):
AACCGATTATTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCAAAAT
TTATTTGAAAATTATTAACCGAATAAAATAAATAATTATTTTCTTAACCGTTAATCGAACCGAAA
TTTATTTCAAAATTATTAACCAAACAAATC
Found at i:144210 original size:67 final size:66
Alignment explanation
Indices: 144086--144242 Score: 192
Period size: 67 Copynumber: 2.4 Consensus size: 66
144076 TTATTTGACT
* ** *
144086 GTTAATCGAATCGAAATTTATTTGAAAATTATTAACCGAATAAAATAAATTATTTTTTTCCTTAA
1 GTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAATAAAATAAACGA-ATTTTTCCTTAA
144151 CC
65 CC
* * * *
144153 GTTAATCGAACCGAAATTTATTTGAAAATTATTAACC-AATTGAATTAACCGAATTTTTCTTTAA
1 GTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAA-TAAAATAAACGAATTTTTCCTTAA
144217 CC
65 CC
* *
144219 ATTAATCGAACC-AAAATTATTTGA
1 GTTAATCGAACCGAAATTTATTTGA
144243 CCGTTAATCT
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 11 0.14
66 25 0.32
67 43 0.54
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (66 bp):
GTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAATAAAATAAACGAATTTTTCCTTAAC
C
Found at i:144303 original size:159 final size:161
Alignment explanation
Indices: 143872--144335 Score: 519
Period size: 159 Copynumber: 2.9 Consensus size: 161
143862 GAAAATTATT
* * ** *
143872 AACCGATTTTTTTTATTTAACCATTAATCGAACCAAAATTATTTTTCCGTTAAT-TGAACCCAAA
1 AACCGA-TATTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCT-AACCAAAA
* *
143936 TTTATTTGAAAATTATTAACCGAATTAACCGAATAAAATAAATTATTT-TTTAACCGTTAATCGA
64 TTTATTTGAAAATTATTAACC--A--AACCAAATTAAATAAATT-TTTCTTTAACCGTTAATCGA
*
144000 ACCGAAATTTATTTCAAAATTATTAACCGAAACAAATC
124 ACCGAAATTTATTTGAAAATTATTAACCGAAACAAATC
** * * * *
144038 AACCGATTATTTTTCTTTAACCATTAATCGAACTGAAATTATTTGACTGTTAATCGAATCGAAAT
1 AACCGA-TATTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCTAACCAAAAT
* * * ** *
144103 TTATTTGAAAATTATTAACCGAA-TAAAATAAATTATTTTTTTCCTTAACCGTTAATCGAACCGA
65 TTATTTGAAAATTATTAACCAAACCAAATTAAA-TAAATTTTTCTTTAACCGTTAATCGAACCGA
*** *
144167 AATTTATTTGAAAATTATTAACC-AATTGAATT
129 AATTTATTTGAAAATTATTAACCGAAACAAATC
*
144199 AACCGA-ATTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCTAACCAAAATG
1 AACCGATATTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCTAACCAAAATT
** * * *
144263 TATTTGAAAATTATTAACCAAACCAAATTAACCGAATTTTTTCTTTAA-CATTAATCAAACCGAA
66 TATTTGAAAATTATTAACCAAACCAAATTAA-ATAAATTTTTCTTTAACCGTTAATCGAACCGAA
144327 A-TTATTTGA
130 ATTTATTTGA
144336 CCGTTAATCG
Statistics
Matches: 254, Mismatches: 39, Indels: 18
0.82 0.13 0.06
Matches are distributed among these distances:
158 8 0.03
159 87 0.34
160 18 0.07
161 19 0.07
162 48 0.19
166 74 0.29
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.37
Consensus pattern (161 bp):
AACCGATATTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCTAACCAAAATT
TATTTGAAAATTATTAACCAAACCAAATTAAATAAATTTTTCTTTAACCGTTAATCGAACCGAAA
TTTATTTGAAAATTATTAACCGAAACAAATC
Found at i:144331 original size:93 final size:92
Alignment explanation
Indices: 144150--144372 Score: 349
Period size: 93 Copynumber: 2.4 Consensus size: 92
144140 TTTTTCCTTA
***
144150 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAATTGAATTAACCGAATTTTTCTTT
1 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAACCAAATTAACCGAATTTTTCTTT
*
144215 AACCATTAATCGAACCAAAATTATTTG
66 AACCATTAATCAAACCAAAATTATTTG
* * *
144242 ACCGTTAATCTAACCAAAATGTATTTGAAAATTATTAACCAAACCAAATTAACCGAATTTTTTCT
1 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACC-AACCAAATTAACCGAA-TTTTTCT
*
144307 TTAA-CATTAATCAAACCGAAATTATTTG
64 TTAACCATTAATCAAACCAAAATTATTTG
144335 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAA
1 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAA
144373 TCGATTAATG
Statistics
Matches: 118, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
92 37 0.31
93 70 0.59
94 11 0.09
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (92 bp):
ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAACCAAATTAACCGAATTTTTCTTT
AACCATTAATCAAACCAAAATTATTTG
Found at i:148973 original size:20 final size:21
Alignment explanation
Indices: 148939--148978 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
148929 GAGGTATCTA
148939 ATATTTAAAAATA-TTAAAAT
1 ATATTTAAAAATATTTAAAAT
* *
148959 ATATTTAATATTATTTAAAA
1 ATATTTAAAAATATTTAAAA
148979 GAATTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATATTTAAAAATATTTAAAAT
Found at i:148978 original size:21 final size:21
Alignment explanation
Indices: 148939--148995 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
148929 GAGGTATCTA
* * *
148939 ATATTTAAAAATA-TTAAAAT
1 ATATTTAATATTATTTAAAAG
148959 ATATTTAATATTATTTAAAAG
1 ATATTTAATATTATTTAAAAG
*
148980 A-ATTTTATTATTATTT
1 ATA-TTTAATATTATTT
148996 TTTAAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 12 0.39
21 19 0.61
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATTTAATATTATTTAAAAG
Found at i:150686 original size:18 final size:18
Alignment explanation
Indices: 150663--150698 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
150653 TATTGGCATT
* *
150663 GACATTTTCATTTGCCAC
1 GACATTTCCATCTGCCAC
150681 GACATTTCCATCTGCCAC
1 GACATTTCCATCTGCCAC
150699 ATTGAAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.33
Consensus pattern (18 bp):
GACATTTCCATCTGCCAC
Done.