Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 104 of 135
Found at i:35713005 original size:10 final size:10
Alignment explanation
Indices: 35712992--35713016 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
35712982 ATGAATGTAT
35712992 ATATGATGAG
1 ATATGATGAG
35713002 ATATGATGAG
1 ATATGATGAG
35713012 ATATG
1 ATATG
35713017 TTAGGGATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (10 bp):
ATATGATGAG
Found at i:35718222 original size:10 final size:10
Alignment explanation
Indices: 35718209--35718236 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
35718199 CTTGTTTCTT
35718209 TAACTAATTA
1 TAACTAATTA
35718219 TAACTAATTA
1 TAACTAATTA
35718229 TAACTAAT
1 TAACTAAT
35718237 GCAATCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (10 bp):
TAACTAATTA
Found at i:35722904 original size:18 final size:18
Alignment explanation
Indices: 35722881--35722937 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
35722871 GATAGAATAA
35722881 AAATTATTAAAAATTAAG
1 AAATTATTAAAAATTAAG
*
35722899 AAATTATATGAAAA-TATA-
1 AAATTAT-TAAAAATTA-AG
35722917 AAATTATTAATAAATT-AG
1 AAATTATTAA-AAATTAAG
35722935 AAA
1 AAA
35722938 ATTTCAACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
17 3 0.09
18 22 0.69
19 7 0.22
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (18 bp):
AAATTATTAAAAATTAAG
Found at i:35725534 original size:20 final size:20
Alignment explanation
Indices: 35725497--35725535 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
35725487 ACATTATTTA
*
35725497 TATTAAAACATTGTTAAAAT
1 TATTAAAACATTGGTAAAAT
35725517 TATTAAAA-ATTTGGTAAAA
1 TATTAAAACA-TTGGTAAAA
35725536 GATTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (20 bp):
TATTAAAACATTGGTAAAAT
Found at i:35725570 original size:25 final size:25
Alignment explanation
Indices: 35725542--35725629 Score: 67
Period size: 25 Copynumber: 3.4 Consensus size: 25
35725532 AAAAGATTAT
35725542 AAAAATAAAAATAGTAATAAAATAC
1 AAAAATAAAAATAGTAATAAAATAC
* *
35725567 AAAATTATAAAAACA-TTATAAAAATAC
1 AAAA--ATAAAAATAGTAAT-AAAATAC
35725594 ATAAAAT-AAAATCCAG-AA-AAAATAC
1 A-AAAATAAAAAT--AGTAATAAAATAC
*
35725619 AAAAATCAAAA
1 AAAAATAAAAA
35725630 GAAAAATTGC
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
24 5 0.10
25 20 0.39
26 5 0.10
27 18 0.35
28 3 0.06
ACGTcount: A:0.70, C:0.08, G:0.02, T:0.19
Consensus pattern (25 bp):
AAAAATAAAAATAGTAATAAAATAC
Found at i:35725602 original size:26 final size:25
Alignment explanation
Indices: 35725542--35725629 Score: 74
Period size: 27 Copynumber: 3.4 Consensus size: 25
35725532 AAAAGATTAT
*
35725542 AAAAATAAAAATAGTAATAAAATAC
1 AAAAATAAAAACAGTAATAAAATAC
*
35725567 AAAATTATAAAAACA-TTATAAAAATAC
1 AAAA--ATAAAAACAGTAAT-AAAATAC
*
35725594 ATAAAATAAAATCCAG-AA-AAAATAC
1 A-AAAATAAAA-ACAGTAATAAAATAC
*
35725619 AAAAATCAAAA
1 AAAAATAAAAA
35725630 GAAAAATTGC
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
24 8 0.16
25 12 0.24
26 9 0.18
27 19 0.37
28 3 0.06
ACGTcount: A:0.70, C:0.08, G:0.02, T:0.19
Consensus pattern (25 bp):
AAAAATAAAAACAGTAATAAAATAC
Found at i:35726232 original size:17 final size:18
Alignment explanation
Indices: 35726210--35726245 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
35726200 TATAGGGTTT
35726210 TCTTCTT-ATTTTTAGAG
1 TCTTCTTGATTTTTAGAG
*
35726227 TCTTCTTGATTTTTTGAG
1 TCTTCTTGATTTTTAGAG
35726245 T
1 T
35726246 AGTTATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.14, C:0.11, G:0.14, T:0.61
Consensus pattern (18 bp):
TCTTCTTGATTTTTAGAG
Found at i:35736466 original size:21 final size:21
Alignment explanation
Indices: 35736442--35736495 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
35736432 CCTATGACAG
* * *
35736442 TTTTACAGATACAAGTGAAGC
1 TTTTACCGATACAAATCAAGC
*
35736463 TTTTACCGAAACAAATCAAGC
1 TTTTACCGATACAAATCAAGC
*
35736484 TTCTACCGATAC
1 TTTTACCGATAC
35736496 TAAAAACTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (21 bp):
TTTTACCGATACAAATCAAGC
Found at i:35741767 original size:21 final size:20
Alignment explanation
Indices: 35741718--35741793 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 20
35741708 ATAGTGCATA
*
35741718 CTTCTACCGATACCTATGACAG
1 CTTCTACCGATA-CAATGA-AG
*
35741740 -TTTTACCGATACAAGTGAAG
1 CTTCTACCGATACAA-TGAAG
* *
35741760 CTTCTACC-ACAACAAATCAAG
1 CTTCTACCGA-TAC-AATGAAG
35741781 CTTCTACCGATAC
1 CTTCTACCGATAC
35741794 TAAAAACTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
20 5 0.12
21 35 0.81
22 3 0.07
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (20 bp):
CTTCTACCGATACAATGAAG
Found at i:35746078 original size:6 final size:6
Alignment explanation
Indices: 35746069--35746103 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
35746059 GGTGGTGGTG
* *
35746069 AGGGCA AGGGTA AGGGTA AGGGTA AGGGTG AGGGT
1 AGGGTA AGGGTA AGGGTA AGGGTA AGGGTA AGGGT
35746104 GAGGTTGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.54, T:0.14
Consensus pattern (6 bp):
AGGGTA
Found at i:35746343 original size:45 final size:45
Alignment explanation
Indices: 35746286--35746389 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 45
35746276 TAGTGATCAT
*
35746286 GAGGAGCTTCAAGATGATATTAACTTATCATATGGTGATGATGAG
1 GAGGAGCTTCAAGATGATATTAACTTATCAGATGGTGATGATGAG
* * * *
35746331 GAGGAGCTTCAAGATGATATTTACTTATCAGGTGGTGATGCTGAT
1 GAGGAGCTTCAAGATGATATTAACTTATCAGATGGTGATGATGAG
35746376 GAGGAGCTTCAAGA
1 GAGGAGCTTCAAGA
35746390 AGCTAGGCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.30
Consensus pattern (45 bp):
GAGGAGCTTCAAGATGATATTAACTTATCAGATGGTGATGATGAG
Found at i:35747844 original size:37 final size:37
Alignment explanation
Indices: 35747803--35747978 Score: 244
Period size: 37 Copynumber: 4.8 Consensus size: 37
35747793 TGTATCTAAA
* *
35747803 TATTCAGGCTATGTGCCTAGTAAGCTTTGTGCAGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
*
35747840 TATTCAGGCTGTGTGCCTAGTAGGCTTTGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* *
35747877 TATTCAGGCTATGTGCATAGTAGGCTTTGTGCTGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* *
35747914 TATTCAGGCTATGTGCCTAGTTGGGTTTGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* * * * *
35747951 TATTCGGGTTGTATGCCTAGTAAGCTTT
1 TATTCAGGCTATGTGCCTAGTAGGCTTT
35747979 AAGCTGGTGA
Statistics
Matches: 122, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 122 1.00
ACGTcount: A:0.15, C:0.16, G:0.32, T:0.38
Consensus pattern (37 bp):
TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
Found at i:35747885 original size:21 final size:21
Alignment explanation
Indices: 35747826--35747930 Score: 68
Period size: 21 Copynumber: 5.5 Consensus size: 21
35747816 TGCCTAGTAA
*
35747826 GCTTTGTGCAGGTGTATTCAG
1 GCTTTGTGCCGGTGTATTCAG
* *
35747847 GCTGTGTGCC----TAGT-AG
1 GCTTTGTGCCGGTGTATTCAG
35747863 GCTTTGTGCCGGTGTATTCAG
1 GCTTTGTGCCGGTGTATTCAG
* * *
35747884 GCTATGTG-C---ATAGT-AG
1 GCTTTGTGCCGGTGTATTCAG
*
35747900 GCTTTGTGCTGGTGTATTCAG
1 GCTTTGTGCCGGTGTATTCAG
*
35747921 GCTATGTGCC
1 GCTTTGTGCC
35747931 TAGTTGGGTT
Statistics
Matches: 60, Mismatches: 14, Indels: 20
0.64 0.15 0.21
Matches are distributed among these distances:
16 20 0.33
17 6 0.10
20 7 0.12
21 27 0.45
ACGTcount: A:0.13, C:0.17, G:0.33, T:0.36
Consensus pattern (21 bp):
GCTTTGTGCCGGTGTATTCAG
Found at i:35751684 original size:37 final size:37
Alignment explanation
Indices: 35751629--35751795 Score: 212
Period size: 37 Copynumber: 4.6 Consensus size: 37
35751619 TGCATCTAAA
* **
35751629 TATTCAGGCTTTGTGCCTAGTAGGCTTTGTTTCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
*
35751666 TATTTAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* * **
35751703 TATTCAGGATATGTGCCTAGTAGGCATTGTGTTGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* * *
35751740 TTTTCAAGTTATGTGCCTAGTAGGCTTTGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
*
35751777 TATTCGGGC--TGTGCCTAGT
1 TATTCAGGCTATGTGCCTAGT
35751796 CGTCTTTAGG
Statistics
Matches: 111, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
35 10 0.09
37 101 0.91
ACGTcount: A:0.14, C:0.16, G:0.31, T:0.40
Consensus pattern (37 bp):
TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
Found at i:35755460 original size:37 final size:37
Alignment explanation
Indices: 35755404--35755531 Score: 195
Period size: 37 Copynumber: 3.5 Consensus size: 37
35755394 TGCATCTAAA
35755404 TATTCAGGCTATG-GTCCTAGTAGGCTTTGTGCCGGTG
1 TATTCAGGCTATGTG-CCTAGTAGGCTTTGTGCCGGTG
* *
35755441 TATTCAAGCTATGTGCCTAGTAAGCTTTGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* *
35755478 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGTCAGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
*
35755515 TATTCAGGCTTTGTGCC
1 TATTCAGGCTATGTGCC
35755532 GGTGTATTCG
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
37 82 0.99
38 1 0.01
ACGTcount: A:0.16, C:0.19, G:0.29, T:0.37
Consensus pattern (37 bp):
TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
Found at i:35755525 original size:21 final size:21
Alignment explanation
Indices: 35755425--35755552 Score: 80
Period size: 21 Copynumber: 6.6 Consensus size: 21
35755415 TGGTCCTAGT
*
35755425 AGGCTTTGTGCCGGTGTATTC
1 AGGCTTTGTGCCAGTGTATTC
* *
35755446 AAGCTATGTGCC--TAGTA---
1 AGGCTTTGTGCCAGT-GTATTC
*
35755463 A-GCTTTGTGCCGGTGTATTC
1 AGGCTTTGTGCCAGTGTATTC
* *
35755483 AGGCTATGTGCC----TAGT-
1 AGGCTTTGTGCCAGTGTATTC
*
35755499 AGGCTTTGTGTCAGTGTATTC
1 AGGCTTTGTGCCAGTGTATTC
*
35755520 AGGCTTTGTGCCGGTGTATTC
1 AGGCTTTGTGCCAGTGTATTC
* *
35755541 GGGCTGTGTGCC
1 AGGCTTTGTGCC
35755553 TTGTAGGTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
16 19 0.23
17 7 0.08
18 1 0.01
19 1 0.01
20 7 0.08
21 48 0.58
ACGTcount: A:0.13, C:0.19, G:0.32, T:0.36
Consensus pattern (21 bp):
AGGCTTTGTGCCAGTGTATTC
Found at i:35756585 original size:22 final size:22
Alignment explanation
Indices: 35756560--35756603 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
35756550 TTAATTTAAC
35756560 TTGTCACTGCACCTTCCAGTGA
1 TTGTCACTGCACCTTCCAGTGA
* *
35756582 TTGTGACTGCACCTTCTAGTGA
1 TTGTCACTGCACCTTCCAGTGA
35756604 CTATGACTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.34
Consensus pattern (22 bp):
TTGTCACTGCACCTTCCAGTGA
Found at i:35756610 original size:22 final size:22
Alignment explanation
Indices: 35756565--35756614 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
35756555 TTAACTTGTC
* *
35756565 ACTGCACCTTCCAGTGATTGTG
1 ACTGCACCTTCCAGTGACTATG
*
35756587 ACTGCACCTTCTAGTGACTATG
1 ACTGCACCTTCCAGTGACTATG
35756609 ACTGCA
1 ACTGCA
35756615 ATAGCACTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTGCACCTTCCAGTGACTATG
Found at i:35773174 original size:15 final size:15
Alignment explanation
Indices: 35773146--35773190 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
35773136 AGGAGAAGGC
35773146 AGAAGAGAAAGAAGA
1 AGAAGAGAAAGAAGA
35773161 AGAA-AGAAAG--GA
1 AGAAGAGAAAGAAGA
* *
35773173 AGATGAGAAAGAGGA
1 AGAAGAGAAAGAAGA
35773188 AGA
1 AGA
35773191 CTTTGTCGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 5 0.19
13 6 0.23
14 6 0.23
15 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (15 bp):
AGAAGAGAAAGAAGA
Found at i:35773630 original size:17 final size:17
Alignment explanation
Indices: 35773583--35773622 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
35773573 TATCATATAG
35773583 TTGTCACTGCATTTTAT
1 TTGTCACTGCATTTTAT
*
35773600 TTGTCTCTGCATTTTAT
1 TTGTCACTGCATTTTAT
35773617 TTGTCA
1 TTGTCA
35773623 ACGCATTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.55
Consensus pattern (17 bp):
TTGTCACTGCATTTTAT
Found at i:35778597 original size:15 final size:15
Alignment explanation
Indices: 35778577--35778606 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35778567 TACTAGCCCG
*
35778577 TGTGTGTTTGCGAAA
1 TGTGTGTCTGCGAAA
35778592 TGTGTGTCTGCGAAA
1 TGTGTGTCTGCGAAA
35778607 AGGGGTCACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.10, G:0.33, T:0.37
Consensus pattern (15 bp):
TGTGTGTCTGCGAAA
Found at i:35790439 original size:22 final size:22
Alignment explanation
Indices: 35790411--35790465 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
35790401 GAAGTGCTAT
* *
35790411 TGCAGTCATAGTCACTAGAAGG
1 TGCAGTCACAATCACTAGAAGG
*
35790433 TGCAGTCACAATCACTGGAAGG
1 TGCAGTCACAATCACTAGAAGG
*
35790455 TGCAGTGACAA
1 TGCAGTCACAA
35790466 GTTAAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (22 bp):
TGCAGTCACAATCACTAGAAGG
Found at i:35791497 original size:21 final size:21
Alignment explanation
Indices: 35791473--35791561 Score: 73
Period size: 21 Copynumber: 4.5 Consensus size: 21
35791463 AAACCTACAA
*
35791473 GGCACACAGCCCGAATACACC
1 GGCACAAAGCCCGAATACACC
* *
35791494 GGCACAAAGCCTGAATACACT
1 GGCACAAAGCCCGAATACACC
*
35791515 GACACAAAG-CC---TACTA--
1 GGCACAAAGCCCGAATAC-ACC
* *
35791531 GGCACATAGCCTGAATACACC
1 GGCACAAAGCCCGAATACACC
35791552 GGCACAAAGC
1 GGCACAAAGC
35791562 TTACTAGGCA
Statistics
Matches: 52, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
16 7 0.13
17 4 0.08
18 1 0.02
19 1 0.02
20 4 0.08
21 35 0.67
ACGTcount: A:0.37, C:0.34, G:0.19, T:0.10
Consensus pattern (21 bp):
GGCACAAAGCCCGAATACACC
Found at i:35791535 original size:37 final size:37
Alignment explanation
Indices: 35791494--35791621 Score: 195
Period size: 37 Copynumber: 3.5 Consensus size: 37
35791484 CGAATACACC
* * *
35791494 GGCACAAAGCCTGAATACACTGACACAAAGCCTACTA
1 GGCACATAGCCTGAATACACCGGCACAAAGCCTACTA
*
35791531 GGCACATAGCCTGAATACACCGGCACAAAGCTTACTA
1 GGCACATAGCCTGAATACACCGGCACAAAGCCTACTA
*
35791568 GGCACATAGCTTGAATACACCGGCACAAAGCCTACTA
1 GGCACATAGCCTGAATACACCGGCACAAAGCCTACTA
35791605 GG-ACCATAGCCTGAATA
1 GGCA-CATAGCCTGAATA
35791622 TTTAGATGCA
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
36 1 0.01
37 82 0.99
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.16
Consensus pattern (37 bp):
GGCACATAGCCTGAATACACCGGCACAAAGCCTACTA
Found at i:35791594 original size:21 final size:21
Alignment explanation
Indices: 35791531--35791594 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
35791521 AAGCCTACTA
*
35791531 GGCACATAGCCTGAATACACC
1 GGCACATAGCTTGAATACACC
* *
35791552 GGCACAAAGCTT-ACT--A--
1 GGCACATAGCTTGAATACACC
35791568 GGCACATAGCTTGAATACACC
1 GGCACATAGCTTGAATACACC
35791589 GGCACA
1 GGCACA
35791595 AAGCCTACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
16 11 0.33
17 2 0.06
18 1 0.03
19 1 0.03
20 2 0.06
21 16 0.48
ACGTcount: A:0.34, C:0.30, G:0.20, T:0.16
Consensus pattern (21 bp):
GGCACATAGCTTGAATACACC
Found at i:35795295 original size:37 final size:37
Alignment explanation
Indices: 35795247--35795393 Score: 181
Period size: 37 Copynumber: 4.0 Consensus size: 37
35795237 CAGCCCGAAT
* *
35795247 ACACCGGCACAAAGCCTACTAGGCACATAACTTGAAA
1 ACACCGACACAAAGCCTACTAGGCACATAACCTGAAA
* * * *
35795284 ACACCCACACAATGCCTACTAGGCACATATCCTGAAT
1 ACACCGACACAAAGCCTACTAGGCACATAACCTGAAA
* *
35795321 ACACCGGCACAAAGCCTACTAGGCACATAGCCT-AAA
1 ACACCGACACAAAGCCTACTAGGCACATAACCTGAAA
*
35795357 TACACCGAAACAAAGCCTACTAGGCACA-AAGCCTGAA
1 -ACACCGACACAAAGCCTACTAGGCACATAA-CCTGAA
35795394 TATTTAGATG
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
36 3 0.03
37 88 0.95
38 2 0.02
ACGTcount: A:0.39, C:0.32, G:0.15, T:0.14
Consensus pattern (37 bp):
ACACCGACACAAAGCCTACTAGGCACATAACCTGAAA
Found at i:35795327 original size:74 final size:74
Alignment explanation
Indices: 35795229--35795395 Score: 232
Period size: 74 Copynumber: 2.3 Consensus size: 74
35795219 CCTAAAGACG
* *
35795229 ACTAGGCAC--AGCCCGAATACACCGGCACAAAGCCTACTAGGCACATAACTTGAAA-ACACCCA
1 ACTAGGCACAAAGCCTGAATACACCGGCACAAAGCCTACTAGGCACATAACCT-AAATACACCCA
* *
35795291 CACAATGCCT
65 AACAAAGCCT
* * * *
35795301 ACTAGGCACATATCCTGAATACACCGGCACAAAGCCTACTAGGCACATAGCCTAAATACACCGAA
1 ACTAGGCACAAAGCCTGAATACACCGGCACAAAGCCTACTAGGCACATAACCTAAATACACCCAA
35795366 ACAAAGCCT
66 ACAAAGCCT
35795375 ACTAGGCACAAAGCCTGAATA
1 ACTAGGCACAAAGCCTGAATA
35795396 TTTAGATGCA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
72 9 0.11
73 3 0.04
74 71 0.86
ACGTcount: A:0.39, C:0.32, G:0.16, T:0.14
Consensus pattern (74 bp):
ACTAGGCACAAAGCCTGAATACACCGGCACAAAGCCTACTAGGCACATAACCTAAATACACCCAA
ACAAAGCCT
Found at i:35799163 original size:37 final size:37
Alignment explanation
Indices: 35799069--35799211 Score: 195
Period size: 37 Copynumber: 3.9 Consensus size: 37
35799059 CCCGAATAAC
*
35799069 CCGGCACAAA-CCAACTAGGCAC-TAGCCTGAATACA
1 CCGGCACAAAGCCTACTAGGCACATAGCCTGAATACA
* *
35799104 CCAGCACAAAGCC-ACTATGCACATAGCCTGAATACA
1 CCGGCACAAAGCCTACTAGGCACATAGCCTGAATACA
*
35799140 CCGGCCACAAAGCCTACTA-GCACACAGCCTGAATACA
1 CCGG-CACAAAGCCTACTAGGCACATAGCCTGAATACA
* *
35799177 CCTGCACAAAGCTTACTAGGCACATAGCCTGAATA
1 CCGGCACAAAGCCTACTAGGCACATAGCCTGAATA
35799212 TTTAGATACA
Statistics
Matches: 96, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
35 17 0.18
36 31 0.32
37 44 0.46
38 4 0.04
ACGTcount: A:0.36, C:0.34, G:0.16, T:0.14
Consensus pattern (37 bp):
CCGGCACAAAGCCTACTAGGCACATAGCCTGAATACA
Found at i:35807390 original size:21 final size:21
Alignment explanation
Indices: 35807366--35807419 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
35807356 CCTATGACAG
* * *
35807366 TTTTACAGATACAAGTGAAGC
1 TTTTACCGATACAAATCAAGC
*
35807387 TTTTACCGAAACAAATCAAGC
1 TTTTACCGATACAAATCAAGC
*
35807408 TTCTACCGATAC
1 TTTTACCGATAC
35807420 TAAAAACTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (21 bp):
TTTTACCGATACAAATCAAGC
Found at i:35812691 original size:21 final size:20
Alignment explanation
Indices: 35812642--35812717 Score: 57
Period size: 21 Copynumber: 3.6 Consensus size: 20
35812632 ATAGTGCATA
*
35812642 CTTCTACCGATACCTATGACAG
1 CTTCTACCGATA-CAATGA-AG
*
35812664 -TTTTACCGATACAAGTGAAG
1 CTTCTACCGATACAA-TGAAG
* *
35812684 CTTCTACC-ACAACAAATCAAG
1 CTTCTACCGA-TAC-AATGAAG
35812705 CTTCTACCGATAC
1 CTTCTACCGATAC
35812718 TAAAAACTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
20 5 0.12
21 35 0.81
22 3 0.07
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (20 bp):
CTTCTACCGATACAATGAAG
Found at i:35817002 original size:6 final size:6
Alignment explanation
Indices: 35816993--35817027 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
35816983 GGTGGTGGTG
* *
35816993 AGGGCA AGGGTA AGGGTA AGGGTA AGGGTG AGGGT
1 AGGGTA AGGGTA AGGGTA AGGGTA AGGGTA AGGGT
35817028 GAGGTTGATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.54, T:0.14
Consensus pattern (6 bp):
AGGGTA
Found at i:35817267 original size:45 final size:45
Alignment explanation
Indices: 35817210--35817313 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 45
35817200 TAGTGATCAT
*
35817210 GAGGAGCTTCAAGATGATATTAACTTATCATATGGTGATGATGAG
1 GAGGAGCTTCAAGATGATATTAACTTATCAGATGGTGATGATGAG
* * * *
35817255 GAGGAGCTTCAAGATGATATTTACTTATCAGGTGGTGATGCTGAT
1 GAGGAGCTTCAAGATGATATTAACTTATCAGATGGTGATGATGAG
35817300 GAGGAGCTTCAAGA
1 GAGGAGCTTCAAGA
35817314 AGCTAGGCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.30
Consensus pattern (45 bp):
GAGGAGCTTCAAGATGATATTAACTTATCAGATGGTGATGATGAG
Found at i:35818483 original size:34 final size:35
Alignment explanation
Indices: 35818445--35818516 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 35
35818435 CATTTATTTA
35818445 TTACTAATACTATT-AATTTAAATTGACAGCAGAC
1 TTACTAATACTATTAAATTTAAATTGACAGCAGAC
* ** * *
35818479 TTACTTATGTTTTTAAATTTAAATTGACAGTAGAC
1 TTACTAATACTATTAAATTTAAATTGACAGCAGAC
35818514 TTA
1 TTA
35818517 GTATATTGAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
34 10 0.31
35 22 0.69
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.42
Consensus pattern (35 bp):
TTACTAATACTATTAAATTTAAATTGACAGCAGAC
Found at i:35818527 original size:55 final size:55
Alignment explanation
Indices: 35818466--35818668 Score: 309
Period size: 55 Copynumber: 3.7 Consensus size: 55
35818456 ATTAATTTAA
* *
35818466 ATTGACAGCAGACTTACTTATGTTTTTAAATTTAAATTGACAGTAGACTTAGTAT
1 ATTGACAGCAGACTTACTTATGTTTTTTAATTTAAATTGACAGCAGACTTAGTAT
* * *
35818521 ATTGACAGCAGACTTACTTATATTTTTTAATTTAAATTGATAGCAAACTTAGTAT
1 ATTGACAGCAGACTTACTTATGTTTTTTAATTTAAATTGACAGCAGACTTAGTAT
** * * *
35818576 ATTGACAATAGACTTACTTATGTTTTTTAATTTAAATTAACAACGGACTTAGTAT
1 ATTGACAGCAGACTTACTTATGTTTTTTAATTTAAATTGACAGCAGACTTAGTAT
35818631 ATTGACAGCAGACTTACTTAT-TTTTTTAATTTAAATTG
1 ATTGACAGCAGACTTACTTATGTTTTTTAATTTAAATTG
35818669 CAAGGTTTCG
Statistics
Matches: 132, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
54 16 0.12
55 116 0.88
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (55 bp):
ATTGACAGCAGACTTACTTATGTTTTTTAATTTAAATTGACAGCAGACTTAGTAT
Found at i:35819711 original size:162 final size:160
Alignment explanation
Indices: 35819353--35819759 Score: 575
Period size: 162 Copynumber: 2.5 Consensus size: 160
35819343 CAAACAAGAT
* * *
35819353 CCTAACACAACGGGAACACAAGTATATCGTAAACACTTTATCATTATCAATTCCAAAATATAATA
1 CCTAACACAACTGGATCACAAGTATATCGTAAACACTTTCTCATTATCAATTCCAAAATATAATA
* * *
35819418 ATCTAATTTTGGTTCTGATTTTTTGGTCTTAGTTTGGTACGAATACGAGAACTACAACCCAAAAA
66 ATCTAATTTTGGTTCTGATTTTTTGGTCTTAGTCTAGTACGAATACAAGAACTACAACCCAAAAA
* *
35819483 AAGAACGACAGAATACCACCATGCATTAAG
131 AAGAACGACAGAACACCACCATACATTAAG
* * *
35819513 CCTAACACAACTAGATCACAAGTATATCGTAAACACTTTCTCATTGTCAATTCTAAAATATAATA
1 CCTAACACAACTGGATCACAAGTATATCGTAAACACTTTCTCATTATCAATTCCAAAATATAATA
* *
35819578 ATCTAATTTTGGTTCTGATTTTTTTGGTCTTAGTCTAGTATGAGTACAAGAACTACAACCCAAAA
66 ATCTAATTTTGGTTCTGA-TTTTTTGGTCTTAGTCTAGTACGAATACAAGAACTACAACCC-AAA
**
35819643 AAAAGAACGATTGAACACCACCATACATTCAA-
129 AAAAGAACGACAGAACACCACCATACATT-AAG
* * * *
35819675 CCTAACACAACTGGATCACAGGTATATCGTAAACACTTTCTCATTATCAATTTCAAATTAT-TTA
1 CCTAACACAACTGGATCACAAGTATATCGTAAACACTTTCTCATTATCAATTCCAAAATATAAT-
**
35819739 AATCTAATTAGGGTTCTGATT
65 AATCTAATTTTGGTTCTGATT
35819760 GTTGTTCTCA
Statistics
Matches: 219, Mismatches: 24, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
160 77 0.35
161 40 0.18
162 100 0.46
163 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (160 bp):
CCTAACACAACTGGATCACAAGTATATCGTAAACACTTTCTCATTATCAATTCCAAAATATAATA
ATCTAATTTTGGTTCTGATTTTTTGGTCTTAGTCTAGTACGAATACAAGAACTACAACCCAAAAA
AAGAACGACAGAACACCACCATACATTAAG
Found at i:35826710 original size:21 final size:21
Alignment explanation
Indices: 35826686--35826738 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
35826676 GTGTTTTAAG
35826686 TCTCTATTTTTCATCAAATAC
1 TCTCTATTTTTCATCAAATAC
35826707 TCTCTATTTTTCATCAAATAC
1 TCTCTATTTTTCATCAAATAC
*
35826728 TCTCGATTTTT
1 TCTCTATTTTT
35826739 AGTATTTAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.23, G:0.02, T:0.51
Consensus pattern (21 bp):
TCTCTATTTTTCATCAAATAC
Found at i:35827553 original size:3 final size:3
Alignment explanation
Indices: 35827547--35827578 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
35827537 ATTATTATTA
*
35827547 TTG TTG TTG TTG TTG TTG TTG TTG TTA TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
35827579 TAAATAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.28, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:35827928 original size:19 final size:19
Alignment explanation
Indices: 35827904--35827945 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
35827894 TAAAAAGTAC
*
35827904 TTTTTT-ATAATTCTTTTAT
1 TTTTTTAATAATT-TTTAAT
35827923 TTTTTTAATAATTTTTAAT
1 TTTTTTAATAATTTTTAAT
35827942 TTTT
1 TTTT
35827946 AAAATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTAATAATTTTTAAT
Found at i:35831493 original size:19 final size:18
Alignment explanation
Indices: 35831452--35831492 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
35831442 AAAGTTTTTA
* *
35831452 TTTTTGTTAGGTTTAAGG
1 TTTTTGGTAGGGTTAAGG
*
35831470 TTTTTGGTAGGGTTATGG
1 TTTTTGGTAGGGTTAAGG
35831488 TTTTT
1 TTTTT
35831493 TAAAAGGGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.00, G:0.29, T:0.59
Consensus pattern (18 bp):
TTTTTGGTAGGGTTAAGG
Found at i:35834189 original size:4 final size:4
Alignment explanation
Indices: 35834180--35834313 Score: 196
Period size: 4 Copynumber: 33.5 Consensus size: 4
35834170 TAATTTTAAT
35834180 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * *
35834228 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGCA TGGA TGCA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * *
35834276 TGCA TGTA TGCA AGGA TGCA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
35834314 GAGCTTTTAT
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 118 1.00
ACGTcount: A:0.25, C:0.04, G:0.27, T:0.44
Consensus pattern (4 bp):
TGTA
Found at i:35835684 original size:72 final size:72
Alignment explanation
Indices: 35835600--35835764 Score: 276
Period size: 72 Copynumber: 2.3 Consensus size: 72
35835590 AATGGGCAAA
*
35835600 CATTTATCAAAACGACGTAGTTCTGTCTTTTAACTTAATGTTTTCTTACTTTTAACTTTAGAAAA
1 CATTTATCAAAACGACGTAGTTCTGCCTTTTAACTTAATGTTTTCTTACTTTTAACTTTAGAAAA
35835665 AAGTAAG
66 AAGTAAG
** * *
35835672 CATTTATCAAAACGGTGTAGTTTTGCCTTTTAACTTAATGTTTTTTTACTTTTAACTTTAGAAAA
1 CATTTATCAAAACGACGTAGTTCTGCCTTTTAACTTAATGTTTTCTTACTTTTAACTTTAGAAAA
35835737 AAGTAAG
66 AAGTAAG
*
35835744 CATTTATCAAAATGACGTAGT
1 CATTTATCAAAACGACGTAGT
35835765 GAATTTAAGA
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 85 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (72 bp):
CATTTATCAAAACGACGTAGTTCTGCCTTTTAACTTAATGTTTTCTTACTTTTAACTTTAGAAAA
AAGTAAG
Found at i:35836922 original size:26 final size:26
Alignment explanation
Indices: 35836848--35836922 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
35836838 AATAAAAGCG
* *
35836848 GGGTAGTCCGCTAGGACGATAAACAT
1 GGGTAGTCCGCCAGGACGATAAAAAT
* *
35836874 GGGATAGTCCGTC-GAGACAATAAAAAT
1 GGG-TAGTCCGCCAG-GACGATAAAAAT
*
35836901 GGGTAGTCTGCCAGGACGATAA
1 GGGTAGTCCGCCAGGACGATAA
35836923 TTATGGAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
26 18 0.46
27 21 0.54
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (26 bp):
GGGTAGTCCGCCAGGACGATAAAAAT
Found at i:35845327 original size:14 final size:15
Alignment explanation
Indices: 35845299--35845329 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35845289 AATTAAGTTA
35845299 ATTTTAAAGTTTTTT
1 ATTTTAAAGTTTTTT
*
35845314 ATTTTAAATTTTTTT
1 ATTTTAAAGTTTTTT
35845329 A
1 A
35845330 AATTATTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
ATTTTAAAGTTTTTT
Found at i:35850340 original size:36 final size:38
Alignment explanation
Indices: 35850293--35850401 Score: 136
Period size: 37 Copynumber: 3.0 Consensus size: 38
35850283 AGGAATACCA
*
35850293 ATACTGGCTCGCTTGAGAATACTGGCTCGTAAAG-GC-
1 ATACTGGCTCGCTTGAGCATACTGGCTCGTAAAGAGCG
* *
35850329 ATACTAGCTCGCTTGAGCATACTGGCTTGT-AAGAGCG
1 ATACTGGCTCGCTTGAGCATACTGGCTCGTAAAGAGCG
* * *
35850366 ATATTGGATCGTTTGAGCATACTGGCTCGT-AAGAGC
1 ATACTGGCTCGCTTGAGCATACTGGCTCGTAAAGAGC
35850402 AAATTACTGA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
35 3 0.05
36 29 0.46
37 31 0.49
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (38 bp):
ATACTGGCTCGCTTGAGCATACTGGCTCGTAAAGAGCG
Found at i:35850364 original size:18 final size:18
Alignment explanation
Indices: 35850293--35850402 Score: 82
Period size: 18 Copynumber: 6.1 Consensus size: 18
35850283 AGGAATACCA
* *
35850293 ATACTGGCTCGCT-TGAGA
1 ATACTGGCTCG-TAAGAGC
35850311 ATACTGGCTCGTAA-AGGC
1 ATACTGGCTCGTAAGA-GC
* *
35850329 ATACTAGCTCGCT-TGAGC
1 ATACTGGCTCG-TAAGAGC
*
35850347 ATACTGGCTTGTAAGAGC
1 ATACTGGCTCGTAAGAGC
* * **
35850365 GATATTGGATCGTTTGAGC
1 -ATACTGGCTCGTAAGAGC
35850384 ATACTGGCTCGTAAGAGC
1 ATACTGGCTCGTAAGAGC
35850402 A
1 A
35850403 AATTACTGAT
Statistics
Matches: 70, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
17 3 0.04
18 52 0.74
19 15 0.21
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (18 bp):
ATACTGGCTCGTAAGAGC
Found at i:35857222 original size:24 final size:24
Alignment explanation
Indices: 35857194--35857252 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
35857184 TAGACTAATA
**
35857194 AGAGTTTGGCTCAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
* *
35857218 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTCAAACAAATAAAC
35857242 AGAGTTTAACT
1 AGAGTTTAACT
35857253 GAAAGATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAC
Found at i:35857255 original size:24 final size:24
Alignment explanation
Indices: 35857206--35857256 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
35857196 AGTTTGGCTC
*
35857206 AAACAAATAAACAGAGTTTAATTG
1 AAACAAATAAACAGAGTTTAACTG
35857230 AAACAAATAAACAGAGTTTAACTG
1 AAACAAATAAACAGAGTTTAACTG
35857254 AAA
1 AAA
35857257 GATTATTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.22
Consensus pattern (24 bp):
AAACAAATAAACAGAGTTTAACTG
Found at i:35877113 original size:6 final size:6
Alignment explanation
Indices: 35877102--35877134 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
35877092 AAGAGAAGAG
35877102 AGTGAC AGTGAC AGTGAC AGTGAC AGTGAC AGT
1 AGTGAC AGTGAC AGTGAC AGTGAC AGTGAC AGT
35877135 TATGAATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.18
Consensus pattern (6 bp):
AGTGAC
Found at i:35878150 original size:5 final size:5
Alignment explanation
Indices: 35878140--35878175 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
35878130 ATTTTTTAAC
35878140 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
35878176 ATGAAGTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:35881676 original size:23 final size:25
Alignment explanation
Indices: 35881649--35881694 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35881639 CTAATTAGGG
35881649 AATTAT-TGTTTAG-ATTTAATTCA
1 AATTATCTGTTTAGAATTTAATTCA
*
35881672 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
35881695 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCA
Found at i:35883551 original size:49 final size:49
Alignment explanation
Indices: 35883495--35883639 Score: 191
Period size: 49 Copynumber: 3.0 Consensus size: 49
35883485 TACGGAGGAA
* * * *
35883495 GTATCTGGCAGTAAATTTGTATTATCTGGTGACTTGTCCACAATATTCT
1 GTATCTGGCAGTAAATTTGCATTATTTGGTGGCTTGTCCACAATATTAT
*
35883544 GTATCTGGCAGTAAATTTGCACTATTTGGTGGCTTGTCCACAATATTAT
1 GTATCTGGCAGTAAATTTGCATTATTTGGTGGCTTGTCCACAATATTAT
*** * * *
35883593 GTATCTTATAGTAAATCTGCATTATTTGGTGGCTAGTCCATAATATT
1 GTATCTGGCAGTAAATTTGCATTATTTGGTGGCTTGTCCACAATATT
35883640 GGTATGTTAT
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 84 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (49 bp):
GTATCTGGCAGTAAATTTGCATTATTTGGTGGCTTGTCCACAATATTAT
Found at i:35883853 original size:3 final size:3
Alignment explanation
Indices: 35883847--35883899 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
35883837 ATAATAATAA
*
35883847 TAT TAT TAT TTT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
35883895 TAT TA
1 TAT TA
35883900 GTAACCCACA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:35884245 original size:21 final size:21
Alignment explanation
Indices: 35884203--35884246 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
35884193 ATCAATAGGG
* * *
35884203 ATGATTTCAAAATTTAATACT
1 ATGATTTCAAAACTCAACACT
*
35884224 ATGATTTCAAAACTCGACACT
1 ATGATTTCAAAACTCAACACT
35884245 AT
1 AT
35884247 CTACTCACGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (21 bp):
ATGATTTCAAAACTCAACACT
Found at i:35889209 original size:8 final size:8
Alignment explanation
Indices: 35889189--35889226 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
35889179 AAAATTTTCA
35889189 TTTAAATTT
1 TTTAAA-TT
35889198 TTTAAATT
1 TTTAAATT
*
35889206 TTTAAATA
1 TTTAAATT
35889214 TTTAAATT
1 TTTAAATT
35889222 TTTAA
1 TTTAA
35889227 TGATAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 21 0.78
9 6 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTTAAATT
Found at i:35889355 original size:82 final size:82
Alignment explanation
Indices: 35889172--35889328 Score: 201
Period size: 82 Copynumber: 1.9 Consensus size: 82
35889162 TTGCTTCTTT
* * * * * * *
35889172 AAAATAA-AAAATTTTCATTTAAATTTTTTAAATTTTTAAATATTTAAATTTTTAATGATAAAAT
1 AAAATAATAAAAATTTAATTTAAATTTTTTAAAATTATAAATATATAAATTTTAAATAATAAAAT
35889236 TATATTTTAACACTCAA
66 TATATTTTAACACTCAA
35889253 AAAATAATAAAAATTTAATTT-AATTTTTTAAAAATTATAAATATATAAATTATTAAAATAATAA
1 AAAATAATAAAAATTTAATTTAAATTTTTT-AAAATTATAAATATATAAATT-TT-AAATAATAA
*
35889317 AATTGTATTTTA
63 AATTATATTTTA
35889329 CTATCATAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
81 15 0.23
82 29 0.45
83 2 0.03
84 18 0.28
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (82 bp):
AAAATAATAAAAATTTAATTTAAATTTTTTAAAATTATAAATATATAAATTTTAAATAATAAAAT
TATATTTTAACACTCAA
Found at i:35889847 original size:14 final size:14
Alignment explanation
Indices: 35889818--35889846 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35889808 AAATCAACAA
35889818 TTAATTAACATTTT
1 TTAATTAACATTTT
35889832 TTAATTAAC-TTTT
1 TTAATTAACATTTT
35889845 TT
1 TT
35889847 TTGTAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (14 bp):
TTAATTAACATTTT
Found at i:35890575 original size:20 final size:18
Alignment explanation
Indices: 35890550--35890588 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
35890540 TTACAAGTAA
35890550 AAAAATAATTATATAAAAAT
1 AAAAATAA-TAT-TAAAAAT
*
35890570 AAAAATTATATTAAAAAT
1 AAAAATAATATTAAAAAT
35890588 A
1 A
35890589 CTCAATATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 3 0.17
20 7 0.39
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAATAATATTAAAAAT
Found at i:35890586 original size:18 final size:17
Alignment explanation
Indices: 35890547--35890588 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
35890537 AATTTACAAG
*
35890547 TAAAAA-AATAATTATA
1 TAAAAATAAAAATTATA
35890563 TAAAAATAAAAATTATA
1 TAAAAATAAAAATTATA
35890580 TTAAAAATA
1 -TAAAAATA
35890589 CTCAATATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.26
17 9 0.39
18 8 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAAATAAAAATTATA
Found at i:35894031 original size:53 final size:55
Alignment explanation
Indices: 35893972--35894084 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 55
35893962 CAGATCATTT
* * *
35893972 TCATTTTTCATTTTGGAGAAAATCACATTCATTT-ACAAATGATT-TCATTTCTC
1 TCATTTTTCATTTTGGAGAAAACCACAATCATTTCACAAATGATTCTCATTTATC
* *
35894025 TCA-TTTTCATTTTGGAGAAAACCATAATCATTTCACAAATGTTTCTCATTTATC
1 TCATTTTTCATTTTGGAGAAAACCACAATCATTTCACAAATGATTCTCATTTATC
35894079 -CATTTT
1 TCATTTT
35894085 CCCCATTTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
52 27 0.52
53 14 0.27
54 11 0.21
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (55 bp):
TCATTTTTCATTTTGGAGAAAACCACAATCATTTCACAAATGATTCTCATTTATC
Found at i:35897774 original size:34 final size:34
Alignment explanation
Indices: 35897734--35897801 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
35897724 CATTAACGAC
*
35897734 TCAATGATTAAAATATTACAATACGATAAGACAA
1 TCAATGATTAAAATATTACAATACGATAACACAA
35897768 TCAATGATTAAAATATTACAATACGATAACACAA
1 TCAATGATTAAAATATTACAATACGATAACACAA
35897802 ATGATTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.26
Consensus pattern (34 bp):
TCAATGATTAAAATATTACAATACGATAACACAA
Found at i:35897789 original size:17 final size:17
Alignment explanation
Indices: 35897735--35897789 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
35897725 ATTAACGACT
35897735 CAATGATTAAAATATTA
1 CAATGATTAAAATATTA
* * *
35897752 CAATACGA-TAAGACAAT-
1 CAAT--GATTAAAATATTA
35897769 CAATGATTAAAATATTA
1 CAATGATTAAAATATTA
35897786 CAAT
1 CAAT
35897790 ACGATAACAC
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
15 2 0.07
16 6 0.21
17 12 0.43
18 6 0.21
19 2 0.07
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.29
Consensus pattern (17 bp):
CAATGATTAAAATATTA
Found at i:35902208 original size:15 final size:16
Alignment explanation
Indices: 35902169--35902210 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
35902159 AGTTTTTTAA
*
35902169 TTAATTCAAATAATTT
1 TTAATTAAAATAATTT
35902185 TT-ATATAAAAT-ATTT
1 TTAAT-TAAAATAATTT
35902200 TTAATTAAAAT
1 TTAATTAAAAT
35902211 TTTAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATTAAAATAATTT
Found at i:35907487 original size:147 final size:147
Alignment explanation
Indices: 35907298--35907813 Score: 618
Period size: 146 Copynumber: 3.5 Consensus size: 147
35907288 TTGGGAAATG
* *
35907298 TTTTGATTTTTTTTAACAATTTTGAAATAAAAATTTTGATTTTTAAGAAAAATAGTGATTTTCTT
1 TTTTGA-TTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAAAATAGTGATTTTCTT
*
35907363 TTAAAAAAAGAAAGTTTAGATTTTTAAAAATAAAAATATATTTTTTAGTCTTTTTAAAGAAAAAA
65 TTAAAAAAAGAAAATTTAGATTTTTAAAAATAAAAATATATTTTTTAGTCTTTTTAAAGAAAAAA
35907428 TTTAAATTTTTAAACAAA
130 TTTAAATTTTTAAACAAA
* *
35907446 GTTTTTA-TTTTTTAACTATTTCGAAAT-AAAAGTTTGAATTTTTAA-ATAAAATAGTGATTTTC
1 -TTTTGATTTTTTTAACTATTTCGAAATAAAAATTTTG-ATTTTTAAGA-AAAATAGTGATTTTC
* ** * *
35907508 -ATTAAAAAAAGAAAATTTAGATTTAAAAAAAAATAAAAATATATTTTTTAATCATTTT--A-AA
63 TTTTAAAAAAAGAAAATTTAGATTT--TTAAAAATAAAAATATATTTTTTAGTCTTTTTAAAGAA
*
35907569 AAAATTTAAAATTTTAAACAAAA
126 AAAATTTAAATTTTTAAAC-AAA
* * * * * *
35907592 TTTTGATTTTTTTAACTGTTTCAAAATAAAAATTTTAATTTTTAAGTAAAGTAGTG-TTTTTTTT
1 TTTTGATTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAAAATAGTGATTTTCTTT
* * * * *
35907656 TAAAAAAAAAGAAATTTTAGATTTTTAAAAATAAAAAATCTGTTTTTTAGACATTTTAAAAGAAA
66 T--AAAAAAAGAAAATTTAGATTTTTAAAAAT-AAAAATATATTTTTTAGTC-TTTTTAAAGAAA
*
35907721 AAGTTT-AATTTTTAAACAAA
127 AAATTTAAATTTTTAAACAAA
* * * * *
35907741 ATTTGATTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTGAAGTAAAGTAGTGATTTTGTTT
1 TTTTGATTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAAAATAGTGATTTTCTTT
35907806 TAAAAAAA
66 TAAAAAAA
35907814 AGATAACTTT
Statistics
Matches: 313, Mismatches: 37, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
145 29 0.09
146 77 0.25
147 63 0.20
148 58 0.19
149 59 0.19
150 19 0.06
151 8 0.03
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (147 bp):
TTTTGATTTTTTTAACTATTTCGAAATAAAAATTTTGATTTTTAAGAAAAATAGTGATTTTCTTT
TAAAAAAAGAAAATTTAGATTTTTAAAAATAAAAATATATTTTTTAGTCTTTTTAAAGAAAAAAT
TTAAATTTTTAAACAAA
Found at i:35907673 original size:22 final size:21
Alignment explanation
Indices: 35907648--35907704 Score: 51
Period size: 25 Copynumber: 2.5 Consensus size: 21
35907638 TAAAGTAGTG
35907648 TTTTTTTTTAAAAAAAAAGAAA
1 TTTTTTTTTAAAAAAAAA-AAA
*
35907670 TTTTAGATTTTTAAAAATAAAAAA
1 TTTT---TTTTTAAAAAAAAAAAA
*
35907694 TCTGTTTTTTA
1 T-TTTTTTTTA
35907705 GACATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
22 10 0.34
24 4 0.14
25 15 0.52
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (21 bp):
TTTTTTTTTAAAAAAAAAAAA
Found at i:35908385 original size:21 final size:21
Alignment explanation
Indices: 35908361--35908402 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
35908351 TTTATTCACG
*
35908361 CTTATATAATTTTTATTTATT
1 CTTATATAATCTTTATTTATT
* *
35908382 CTTATTTCATCTTTATTTATT
1 CTTATATAATCTTTATTTATT
35908403 TTCATGTCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (21 bp):
CTTATATAATCTTTATTTATT
Found at i:35910878 original size:20 final size:20
Alignment explanation
Indices: 35910855--35910893 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35910845 TATTTTAATA
*
35910855 TTATTTTATCAATATTAAAG
1 TTATTATATCAATATTAAAG
* *
35910875 TTATTATCTTAATATTAAA
1 TTATTATATCAATATTAAA
35910894 TTAAACATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (20 bp):
TTATTATATCAATATTAAAG
Found at i:35917360 original size:21 final size:21
Alignment explanation
Indices: 35917312--35917363 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
35917302 GGAGTTTTTA
* *
35917312 GTATTGGTAGAAGTATGACAT
1 GTATCGGTAGAAGTATCACAT
* * *
35917333 GTTTCGGTAGAAGTCTCACTT
1 GTATCGGTAGAAGTATCACAT
35917354 GTATCGGTAG
1 GTATCGGTAG
35917364 TACTGCTTGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.35
Consensus pattern (21 bp):
GTATCGGTAGAAGTATCACAT
Found at i:35917954 original size:14 final size:14
Alignment explanation
Indices: 35917895--35917955 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
35917885 TCAAAATTTG
*
35917895 ATTCTCGATTTATT
1 ATTCTCGATTTTTT
*
35917909 ATTCTCGATTTGTT
1 ATTCTCGATTTTTT
* * * **
35917923 ATTCTCAACTGTCA
1 ATTCTCGATTTTTT
35917937 ATTCTCGATTTTTT
1 ATTCTCGATTTTTT
35917951 ATTCT
1 ATTCT
35917956 AAATTCCCAA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.54
Consensus pattern (14 bp):
ATTCTCGATTTTTT
Found at i:35917966 original size:28 final size:28
Alignment explanation
Indices: 35917909--35917968 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
35917899 TCGATTTATT
* **
35917909 ATTCTCGATTTGTTATTCTCAACTGTCA
1 ATTCTCGATTTGTTATTCTAAACTCCCA
* *
35917937 ATTCTCGATTTTTTATTCTAAATTCCCA
1 ATTCTCGATTTGTTATTCTAAACTCCCA
35917965 ATTC
1 ATTC
35917969 CAAAGGCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.22, G:0.07, T:0.48
Consensus pattern (28 bp):
ATTCTCGATTTGTTATTCTAAACTCCCA
Found at i:35919525 original size:30 final size:30
Alignment explanation
Indices: 35919491--35919644 Score: 161
Period size: 30 Copynumber: 5.1 Consensus size: 30
35919481 TAAAACCAGA
35919491 TCAAATTTGAATTTTT-GAAAACTTTAGGGG
1 TCAAATTTGAATTTTTGGAAAA-TTTAGGGG
* * * *
35919521 TCAAATTAGAAATTTTAGAAAGTTT-GAGGG
1 TCAAATTTGAATTTTTGGAAAATTTAG-GGG
* * *
35919551 TTAAATTGGAATTTTTGGAAAATTTAGGGT
1 TCAAATTTGAATTTTTGGAAAATTTAGGGG
*
35919581 TTAAATTTGAATTTTTGGAAAATTT-GAGGG
1 TCAAATTTGAATTTTTGGAAAATTTAG-GGG
** *
35919611 TCAAATTCAAATTTTTGGAAAATTTACGGG
1 TCAAATTTGAATTTTTGGAAAATTTAGGGG
35919641 TCAA
1 TCAA
35919645 TTTTTTTTTA
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
29 2 0.02
30 97 0.93
31 5 0.05
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.39
Consensus pattern (30 bp):
TCAAATTTGAATTTTTGGAAAATTTAGGGG
Found at i:35919567 original size:60 final size:60
Alignment explanation
Indices: 35919491--35919644 Score: 193
Period size: 60 Copynumber: 2.6 Consensus size: 60
35919481 TAAAACCAGA
* *
35919491 TCAAATTTGAATTTTT-GAAAACTTTAGGGGTCAAATTAGAAATTTTAGAAAGTTTGAGGG
1 TCAAATTCGAATTTTTGGAAAA-TTTAGGGGTCAAATTAGAAATTTTAGAAAATTTGAGGG
* * * * * * *
35919551 TTAAATTGGAATTTTTGGAAAATTTAGGGTTTAAATTTGAATTTTTGGAAAATTTGAGGG
1 TCAAATTCGAATTTTTGGAAAATTTAGGGGTCAAATTAGAAATTTTAGAAAATTTGAGGG
* *
35919611 TCAAATTCAAATTTTTGGAAAATTTACGGGTCAA
1 TCAAATTCGAATTTTTGGAAAATTTAGGGGTCAA
35919645 TTTTTTTTTA
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
60 74 0.94
61 5 0.06
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.39
Consensus pattern (60 bp):
TCAAATTCGAATTTTTGGAAAATTTAGGGGTCAAATTAGAAATTTTAGAAAATTTGAGGG
Found at i:35921178 original size:40 final size:40
Alignment explanation
Indices: 35921114--35921927 Score: 702
Period size: 40 Copynumber: 20.6 Consensus size: 40
35921104 ATAACTTTAG
*
35921114 GGGTAAAAGATTGGATTGT-TTCAATCTGCCCCATGGTCA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGGTCA
* * * *
35921153 GGGTAAGAGATCTGG-TGGTCTTCAATCTGGCCTC-TAGTTA
1 GGGTAAAAGAT-TGGATGGTCTTCAATCT-GCCCCATGGTCA
* * ** * * *
35921193 GGGTAAAAGATTGGAT-TTCTTCAATGTTTCTCATGATCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGGTCA
* * * *
35921232 GGGTAAAAGATCGGATGGCCTTCAATCTACCCTC-TGGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCC-CATGGTCA
* *
35921272 GGGTAAAAGATTGGATTG-CTTCAATCTGCCCCATGGTCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGGTCA
* * *
35921311 GGGTAAGAGATCGGATGGTCTTCAATCTGCCCTC-TGGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCC-CATGGTCA
* * * *
35921351 AGGTAAAAGATTGGATTG-CTTCAATCTACCCCATGGTCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGGTCA
* ** * *
35921390 GGGTAAGAGATCAGATGGTCTTCAATCTGCCCTC-TAGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCC-CATGGTCA
* * * *
35921430 GGGTAAAAGATTGGATTG-CTTTAATCTGCCCCACGGTCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGGTCA
* * * *
35921469 GGGTAAAAGATTGGAT--TCTTCAATTTTCCCCATGATCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGGTCA
**
35921507 GGGTAAAAGATCAGATGGTCTTCAATCTGCCCTC-TGGTC-
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCC-CATGGTCA
* * *
35921546 GAGGTAAAAGATCGGATAGTCTTCAATCTGCCCCATGGTCG
1 G-GGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGGTCA
* * * ** *
35921587 GGGTAAAAGATTGAAT-TTCTTCAATTTGCCCTTTGGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGGTCA
* *
35921626 GGGTAAAAGATTGGATTG-CTTCAATCTGCCCCATGGTCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGGTCA
* * * * *
35921665 GGGTAAGAGATCGGATGATCTTCAATTTGCCCTC-TGGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCC-CATGGTCA
* *
35921705 AGGTAAAAGATTGGAT--TACTTCAATCTGCCCCATGGTCG
1 GGGTAAAAGATTGGATGGT-CTTCAATCTGCCCCATGGTCA
* * * ** *
35921744 GGGTAAGAGATCGGATGGTCTTCAATTTGCCCTTTGGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGGTCA
* * *
35921784 GGGTAAAAGATTAGATGGTTTTCAATCTGCCCTC-TGGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCC-CATGGTCA
* * *
35921824 GGGTAAAGGATTGGATTG-CTTCAATCTGCCCCATGGTCG
1 GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGGTCA
* * *
35921863 GGGTAAGAA-ATTGGATGATCTTCAATCTGCCCTC-TGATTA
1 GGGTAA-AAGATTGGATGGTCTTCAATCTGCCC-CATGGTCA
35921903 GGGTAAAAGATTGGATGGTCTTCAA
1 GGGTAAAAGATTGGATGGTCTTCAA
35921928 AAAGATCTGA
Statistics
Matches: 615, Mismatches: 126, Indels: 67
0.76 0.16 0.08
Matches are distributed among these distances:
38 39 0.06
39 256 0.42
40 308 0.50
41 12 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (40 bp):
GGGTAAAAGATTGGATGGTCTTCAATCTGCCCCATGGTCA
Found at i:35921255 original size:79 final size:79
Alignment explanation
Indices: 35921114--35921927 Score: 704
Period size: 79 Copynumber: 10.3 Consensus size: 79
35921104 ATAACTTTAG
* *
35921114 GGGTAAAAGATTGGATTGTTTCAATCTGCCCCATGGTCAGGGTAAGAGATCTGG-TGGTCTTCAA
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATC-GGATGGTCTTCAA
*
35921178 TCTGGCCTCTAGTTA
65 TCTGCCCTCTAGTTA
* * ** * * * *
35921193 GGGTAAAAGATTGGATTTCTTCAATGTTTCTCATGATCGGGGTAAAAGATCGGATGGCCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAT
* *
35921258 CTACCCTCTGGTTA
66 CTGCCCTCTAGTTA
35921272 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAT
*
35921337 CTGCCCTCTGGTTA
66 CTGCCCTCTAGTTA
* * *
35921351 AGGTAAAAGATTGGATTGCTTCAATCTACCCCATGGTCGGGGTAAGAGATCAGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAT
35921416 CTGCCCTCTAGTTA
66 CTGCCCTCTAGTTA
* * * *
35921430 GGGTAAAAGATTGGATTGCTTTAATCTGCCCCACGGTCGGGGTAAAAGATTGGAT--TCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAT
* * **
35921493 TTTCCC-C-ATGATCG
66 CTGCCCTCTA-G-TTA
** * * * *
35921507 GGGTAAAAGATCAGATGGTCTTCAATCTGCCCTC-TGGTCGAGGTAAAAGATCGGATAGTCTTCA
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCCC-CATGGTCGGGGTAAGAGATCGGATGGTCTTCA
* **
35921571 ATCTGCCC-CATGGTCG
64 ATCTGCCCTC-TAGTTA
* * * ** ** * * *
35921587 GGGTAAAAGATTGAATTTCTTCAATTTGCCCTTTGGTTAGGGTAAAAGATTGGATTG-CTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAT
* **
35921651 CTGCCC-CATGGTCG
66 CTGCCCTC-TAGTTA
* * * *** * *
35921665 GGGTAAGAGATCGGA-TGATCTTCAATTTGCCCTC-TGGTTAAGGTAAAAGATTGGAT--TACTT
1 GGGTAAAAGATTGGATTG--CTTCAATCTGCCC-CATGGTCGGGGTAAGAGATCGGATGGT-CTT
* **
35921726 CAATCTGCCC-CATGGTCG
62 CAATCTGCCCTC-TAGTTA
* * * * ** ** * ** *
35921744 GGGTAAGAGATCGGATGGTCTTCAATTTGCCCTTTGGTTAGGGTAAAAGATTAGATGGTTTTCAA
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAA
*
35921809 TCTGCCCTCTGGTTA
65 TCTGCCCTCTAGTTA
* * * *
35921824 GGGTAAAGGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAAATTGGATGATCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAT
35921889 CTGCCCTCT-GATTA
66 CTGCCCTCTAG-TTA
*
35921903 GGGTAAAAGATTGGATGGTCTTCAA
1 GGGTAAAAGATTGGATTG-CTTCAA
35921928 AAAGATCTGA
Statistics
Matches: 625, Mismatches: 88, Indels: 43
0.83 0.12 0.06
Matches are distributed among these distances:
75 1 0.00
76 2 0.00
77 29 0.05
78 67 0.11
79 457 0.73
80 66 0.11
81 3 0.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (79 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAT
CTGCCCTCTAGTTA
Found at i:35921407 original size:158 final size:158
Alignment explanation
Indices: 35921114--35921927 Score: 801
Period size: 158 Copynumber: 5.2 Consensus size: 158
35921104 ATAACTTTAG
* *
35921114 GGGTAAAAGATTGGATTGTTTCAATCTGCCCCATGGTCAGGGTAAGAGATCTGG-TGGTCTTCAA
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCAGGGTAAAAGAT-TGGATGGTCTTCAA
* * * * ** * *
35921178 TCTGGCCTCTAGTTAGGGTAAAAGATTGGATTTCTTCAATGTTTCTCATGATCGGGGTAAAAGAT
65 TCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAAAGAT
* *
35921243 CGGATGGCCTTCAATCTACCCTCTGGTTA
130 CGGATGGTCTTCAATCTGCCCTCTGGTTA
* * *
35921272 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGGATGGTCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCAGGGTAAAAGATTGGATGGTCTTCAAT
* * *
35921337 CTGCCCTCTGGTTAAGGTAAAAGATTGGATTGCTTCAATCTACCCCATGGTCGGGGTAAGAGATC
66 CTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAAAGATC
* *
35921402 AGATGGTCTTCAATCTGCCCTCTAGTTA
131 GGATGGTCTTCAATCTGCCCTCTGGTTA
* * *
35921430 GGGTAAAAGATTGGATTGCTTTAATCTGCCCCACGGTCGGGGTAAAAGATTGGAT--TCTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCAGGGTAAAAGATTGGATGGTCTTCAAT
* * * ** ** * *
35921493 TTTCCC-CATGATCGGGGTAAAAGATCAGATGGTCTTCAATCTGCCCTC-TGGTCGAGGTAAAAG
66 CTGCCCTC-TGGTTAGGGTAAAAGATTGGATTG-CTTCAATCTGCCC-CATGGTCGGGGTAAAAG
* **
35921556 ATCGGATAGTCTTCAATCTGCCC-CATGGTCG
128 ATCGGATGGTCTTCAATCTGCCCTC-TGGTTA
* * * ** * *
35921587 GGGTAAAAGATTGAATTTCTTCAATTTGCCCTTTGGTTAGGGTAAAAGATTGGATTG-CTTCAAT
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCAGGGTAAAAGATTGGATGGTCTTCAAT
** * * * ***
35921651 CTGCCC-CATGGTCGGGGTAAGAGATCGGA-TGATCTTCAATTTGCCCTC-TGGTTAAGGTAAAA
66 CTGCCCTC-TGGTTAGGGTAAAAGATTGGATTG--CTTCAATCTGCCC-CATGGTCGGGGTAAAA
* **
35921713 GATTGGAT--TACTTCAATCTGCCC-CATGGTCG
127 GATCGGATGGT-CTTCAATCTGCCCTC-TGGTTA
* * * * ** * * *
35921744 GGGTAAGAGATCGGATGGTCTTCAATTTGCCCTTTGGTTAGGGTAAAAGATTAGATGGTTTTCAA
1 GGGTAAAAGATTGGATTG-CTTCAATCTGCCCCATGGTCAGGGTAAAAGATTGGATGGTCTTCAA
*
35921809 TCTGCCCTCTGGTTAGGGTAAAGGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAA-A
65 TCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAA-AAGA
* * *
35921873 TTGGATGATCTTCAATCTGCCCTCTGATTA
129 TCGGATGGTCTTCAATCTGCCCTCTGGTTA
*
35921903 GGGTAAAAGATTGGATGGTCTTCAA
1 GGGTAAAAGATTGGATTG-CTTCAA
35921928 AAAGATCTGA
Statistics
Matches: 559, Mismatches: 79, Indels: 35
0.83 0.12 0.05
Matches are distributed among these distances:
155 1 0.00
156 31 0.06
157 133 0.24
158 320 0.57
159 69 0.12
160 5 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (158 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCAGGGTAAAAGATTGGATGGTCTTCAAT
CTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAATCTGCCCCATGGTCGGGGTAAAAGATC
GGATGGTCTTCAATCTGCCCTCTGGTTA
Found at i:35921932 original size:20 final size:20
Alignment explanation
Indices: 35921907--35921947 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
35921897 TGATTAGGGT
35921907 AAAAGAT-TGGATGGTCTTCA
1 AAAAGATCT-GATGGTCTTCA
35921927 AAAAGATCTGATGGTCTTCA
1 AAAAGATCTGATGGTCTTCA
35921947 A
1 A
35921948 TCTGCCCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (20 bp):
AAAAGATCTGATGGTCTTCA
Found at i:35921972 original size:40 final size:40
Alignment explanation
Indices: 35921927--35922094 Score: 250
Period size: 40 Copynumber: 4.2 Consensus size: 40
35921917 ATGGTCTTCA
35921927 AAAAGATCTG-ATGGTCTTCAATCTGCCCTCTGATTAGGGT
1 AAAAGAT-TGAATGGTCTTCAATCTGCCCTCTGATTAGGGT
* * *
35921967 AAAAGATTGAATGGTCTTCAATCTGTCCTTTGATTAGGTT
1 AAAAGATTGAATGGTCTTCAATCTGCCCTCTGATTAGGGT
* * *
35922007 AAAAGATCTG-ATGGTCTTCAATTTGCCCTTTGATTAAGGT
1 AAAAGAT-TGAATGGTCTTCAATCTGCCCTCTGATTAGGGT
35922047 AAAAGATTGAATGGTCTTCAATCTGCCCTCTGATTAGGGT
1 AAAAGATTGAATGGTCTTCAATCTGCCCTCTGATTAGGGT
35922087 AAAAGATT
1 AAAAGATT
35922095 AGATGATTAT
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
39 4 0.03
40 109 0.95
41 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (40 bp):
AAAAGATTGAATGGTCTTCAATCTGCCCTCTGATTAGGGT
Found at i:35922060 original size:80 final size:80
Alignment explanation
Indices: 35921927--35922093 Score: 280
Period size: 80 Copynumber: 2.1 Consensus size: 80
35921917 ATGGTCTTCA
*
35921927 AAAAGATCTGATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAATGGTCTTCAATCTG
1 AAAAGATCTGATGGTCTTCAATCTGCCCTCTGATTAAGGTAAAAGATTGAATGGTCTTCAATCTG
* * *
35921992 TCCTTTGATTAGGTT
66 CCCTCTGATTAGGGT
* *
35922007 AAAAGATCTGATGGTCTTCAATTTGCCCTTTGATTAAGGTAAAAGATTGAATGGTCTTCAATCTG
1 AAAAGATCTGATGGTCTTCAATCTGCCCTCTGATTAAGGTAAAAGATTGAATGGTCTTCAATCTG
35922072 CCCTCTGATTAGGGT
66 CCCTCTGATTAGGGT
35922087 AAAAGAT
1 AAAAGAT
35922094 TAGATGATTA
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (80 bp):
AAAAGATCTGATGGTCTTCAATCTGCCCTCTGATTAAGGTAAAAGATTGAATGGTCTTCAATCTG
CCCTCTGATTAGGGT
Found at i:35922061 original size:140 final size:139
Alignment explanation
Indices: 35921788--35922067 Score: 350
Period size: 140 Copynumber: 2.0 Consensus size: 139
35921778 TGGTTAGGGT
* * * * *
35921788 AAAAGATTAGATGGTTTTCAATCTGCCCTCTGGTTAGGGTAAAGGATTGGATTGCTTCAATCTGC
1 AAAAGATTAGATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAATGGCTTCAATCTGC
* * * *
35921853 CCCATGGTCGGGGTAAGAAATTGGATGATCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGA
66 CCCATGATCAGGGTAAGAAATTGGATGATCTTCAATCTGCCCTCTGATTAAGGTAAAAGATTGAA
35921918 TGGTCTTCA
131 TGGTCTTCA
35921927 AAAAGATCT-GATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAATGGTCTTCAATCT
1 AAAAGAT-TAGATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAATGG-CTTCAATCT
* ** * * * * *
35921991 GTCCTTTGATTAGGTTAA-AAGATCT-GATGGTCTTCAATTTGCCCTTTGATTAAGGTAAAAGAT
64 GCCCCATGATCAGGGTAAGAA-AT-TGGATGATCTTCAATCTGCCCTCTGATTAAGGTAAAAGAT
35922054 TGAATGGTCTTCA
127 TGAATGGTCTTCA
35922067 A
1 A
35922068 TCTGCCCTCT
Statistics
Matches: 120, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
139 49 0.41
140 70 0.58
141 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (139 bp):
AAAAGATTAGATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGAATGGCTTCAATCTGC
CCCATGATCAGGGTAAGAAATTGGATGATCTTCAATCTGCCCTCTGATTAAGGTAAAAGATTGAA
TGGTCTTCA
Found at i:35923415 original size:16 final size:16
Alignment explanation
Indices: 35923392--35923456 Score: 78
Period size: 16 Copynumber: 4.0 Consensus size: 16
35923382 CTCGACCTCC
*
35923392 CCTTTTTTCTTTTCTT
1 CCTTTTTTCTTTTTTT
*
35923408 CTTTTTTTCCTTTTTTT
1 CCTTTTTT-CTTTTTTT
35923425 CCTTTTCTT-TTTTTTT
1 CCTTTT-TTCTTTTTTT
*
35923441 CCTTTTTTGTTTTTTT
1 CCTTTTTTCTTTTTTT
35923457 TGGTGAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
15 2 0.05
16 27 0.63
17 12 0.28
18 2 0.05
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (16 bp):
CCTTTTTTCTTTTTTT
Found at i:35923422 original size:10 final size:9
Alignment explanation
Indices: 35923394--35923448 Score: 64
Period size: 9 Copynumber: 6.6 Consensus size: 9
35923384 CGACCTCCCC
35923394 TTTTTT-CT
1 TTTTTTCCT
*
35923402 TTTCTT-CT
1 TTTTTTCCT
35923410 TTTTTTCCT
1 TTTTTTCCT
35923419 TTTTTTCCT
1 TTTTTTCCT
*
35923428 TTTCTT--T
1 TTTTTTCCT
35923435 TTTTTTCCT
1 TTTTTTCCT
35923444 TTTTT
1 TTTTT
35923449 GTTTTTTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
7 6 0.15
8 12 0.30
9 22 0.55
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTCCT
Found at i:35923429 original size:33 final size:33
Alignment explanation
Indices: 35923392--35923457 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
35923382 CTCGACCTCC
*
35923392 CCTTTT-TTCTTTTCTTCTTTTTTTCCTTTTTTT
1 CCTTTTCTT-TTTTCTTCCTTTTTTCCTTTTTTT
* **
35923425 CCTTTTCTTTTTTTTTCCTTTTTTGTTTTTTTT
1 CCTTTTCTTTTTTCTTCCTTTTTTCCTTTTTTT
35923458 GGTGAAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (33 bp):
CCTTTTCTTTTTTCTTCCTTTTTTCCTTTTTTT
Found at i:35923455 original size:25 final size:26
Alignment explanation
Indices: 35923394--35923448 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 26
35923384 CGACCTCCCC
35923394 TTTTTT-CTTTTCTTCTTTTTTTCCT
1 TTTTTTCCTTTTCTTCTTTTTTTCCT
35923419 TTTTTTCCTTTTCTT-TTTTTTTCCT
1 TTTTTTCCTTTTCTTCTTTTTTTCCT
35923444 TTTTT
1 TTTTT
35923449 GTTTTTTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 21 0.72
26 8 0.28
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTTTCCTTTTCTTCTTTTTTTCCT
Found at i:35924551 original size:30 final size:29
Alignment explanation
Indices: 35924462--35924614 Score: 137
Period size: 30 Copynumber: 5.1 Consensus size: 29
35924452 CAATAAAATC
* *
35924462 GGGTTAAATTTGAATTTTTGAAAACTTTAT
1 GGGTTAAATTGGAATTTTTGAAAA-TTTAA
* * * * *
35924492 GGGTCAAATAGGAAATTCTAGAAAGTTTAA
1 GGGTTAAATTGG-AATTTTTGAAAATTTAA
*
35924522 GGATTAAATTGGAATTTTTGGAAAATTTAA
1 GGGTTAAATTGGAATTTTT-GAAAATTTAA
* * *
35924552 TGGTTAAATT-CAATTTTTTGGAAAATTTGA
1 GGGTTAAATTGGAA-TTTTT-GAAAATTTAA
* *
35924582 GGGTCAAATTTGAATTTTTGAAAATTTAA
1 GGGTTAAATTGGAATTTTTGAAAATTTAA
35924611 GGGT
1 GGGT
35924615 CAAAAAACAA
Statistics
Matches: 98, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
29 20 0.20
30 67 0.68
31 11 0.11
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (29 bp):
GGGTTAAATTGGAATTTTTGAAAATTTAA
Found at i:35924626 original size:29 final size:30
Alignment explanation
Indices: 35924534--35924628 Score: 104
Period size: 29 Copynumber: 3.2 Consensus size: 30
35924524 ATTAAATTGG
* *
35924534 AATTTTTGGAAAATTTAATGGT-TAAATTC
1 AATTTTTGGAAAATTTAAGGGTCAAAATTC
* * *
35924563 AATTTTTTGGAAAATTTGAGGGTCAAATTTG
1 AA-TTTTTGGAAAATTTAAGGGTCAAAATTC
**
35924594 AATTTTT-GAAAATTTAAGGGTCAAAAAAC
1 AATTTTTGGAAAATTTAAGGGTCAAAATTC
35924623 AATTTT
1 AATTTT
35924629 AAAATAAAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
29 25 0.46
30 23 0.43
31 6 0.11
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (30 bp):
AATTTTTGGAAAATTTAAGGGTCAAAATTC
Found at i:35924626 original size:60 final size:60
Alignment explanation
Indices: 35924462--35924628 Score: 158
Period size: 60 Copynumber: 2.8 Consensus size: 60
35924452 CAATAAAATC
* * ** * *
35924462 GGGTTAAATTTGAATTTTTGAAAACTTTATGGGTCAAATAGGAA-ATTCTAGAAAGTTTAA
1 GGGTTAAATTTGAATTTTTGAAAA-TTTAAGGGTCAAAAAACAATTTTCTAGAAAATTTAA
* * * * ** * * *
35924522 GGATTAAATTGGAATTTTTGGAAAATTTAATGGT-TAAATTCAATTTTTTGGAAAATTTGA
1 GGGTTAAATTTGAATTTTT-GAAAATTTAAGGGTCAAAAAACAATTTTCTAGAAAATTTAA
*
35924582 GGGTCAAATTTGAATTTTTGAAAATTTAAGGGTCAAAAAACAATTTT
1 GGGTTAAATTTGAATTTTTGAAAATTTAAGGGTCAAAAAACAATTTT
35924629 AAAATAAAGT
Statistics
Matches: 83, Mismatches: 21, Indels: 6
0.75 0.19 0.05
Matches are distributed among these distances:
59 17 0.20
60 61 0.73
61 5 0.06
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.39
Consensus pattern (60 bp):
GGGTTAAATTTGAATTTTTGAAAATTTAAGGGTCAAAAAACAATTTTCTAGAAAATTTAA
Found at i:35926017 original size:4 final size:4
Alignment explanation
Indices: 35926010--35926034 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
35926000 ATAAGGTAAA
35926010 AAAC AAAC AAAC AAAC AAAC AAAC A
1 AAAC AAAC AAAC AAAC AAAC AAAC A
35926035 TTGTTGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:35928710 original size:43 final size:43
Alignment explanation
Indices: 35928495--35928951 Score: 363
Period size: 43 Copynumber: 10.7 Consensus size: 43
35928485 TATACTGAAA
* * * * ** *
35928495 CACACATAGTGCATCATCGGATATACCGAAGTATGTATATTGG
1 CACACACAGTGCATCATCGAATAAACCGAAGCAACTATACTGG
** * * * ** *
35928538 CACGTACAGTGCATCACCGGATAAA-CTAAAAAAATATACTGG
1 CACACACAGTGCATCATCGAATAAACCGAAGCAACTATACTGG
* * * * * *** *
35928580 CACACACAGTGCATCATCGGATATATCAAACCCTGTATACTAG
1 CACACACAGTGCATCATCGAATAAACCGAAGCAACTATACTGG
** ** ** *
35928623 CACGTACAGTGCATCATCGAATAAACC-AAAAAAAAATTATTGG
1 CACACACAGTGCATCATCGAATAAACCGAAGCAACTA-TACTGG
*
35928666 CACACACAGTGCAACATCGAATAAACCGAAGCAACTATACTGG
1 CACACACAGTGCATCATCGAATAAACCGAAGCAACTATACTGG
* * * *
35928709 --CACACATTGCATCATCGGATAAACTGAAGCAACTATACTGA
1 CACACACAGTGCATCATCGAATAAACCGAAGCAACTATACTGG
* * * *
35928750 CACACACAGTGTATCATCGGATAAATCGAAGTAACTATACTGG
1 CACACACAGTGCATCATCGAATAAACCGAAGCAACTATACTGG
*
35928793 CACACACAGTGCATCATCCG-ATAAACCGAAACAACTATACTGG
1 CACACACAGTGCATCAT-CGAATAAACCGAAGCAACTATACTGG
* * *
35928836 CACACATAATGCATCATC-AGATAAATCGAAGCAACTATACT-G
1 CACACACAGTGCATCATCGA-ATAAACCGAAGCAACTATACTGG
* * *
35928878 CACACACAGTGCACCATC-AGATAAACCAAAGCAACTATACTAG
1 CACACACAGTGCATCATCGA-ATAAACCGAAGCAACTATACTGG
* * * *
35928921 CACGCATACTGCATCATCGAATATACCGAAG
1 CACACACAGTGCATCATCGAATAAACCGAAG
35928952 TATCTCCTGT
Statistics
Matches: 331, Mismatches: 73, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
41 36 0.11
42 73 0.22
43 214 0.65
44 8 0.02
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (43 bp):
CACACACAGTGCATCATCGAATAAACCGAAGCAACTATACTGG
Found at i:35928766 original size:127 final size:128
Alignment explanation
Indices: 35928572--35928907 Score: 369
Period size: 127 Copynumber: 2.6 Consensus size: 128
35928562 ACTAAAAAAA
* * * * * *** **
35928572 TATACTGGCACACACAGTGCATCATCGGATATATCAAACCCTGTATACTAGCACGTACAGTGCAT
1 TATACTGGCACACATA-TGCATCATCAGATAAATCGAAGCAACTATACT-GCACACACAGTGCAT
* *
35928637 CATCGAATAAACCAAAAAAAAAT-TATTGGCACACACAGTGCAACAT-CGAATAAACCGAAGCAA
64 CATCGAATAAACCAAAAAAAAATATACTGGCACACACAGTGCAACATCCG-ATAAACCGAAACAA
35928700 C
128 C
* *
35928701 TATACTGGCACACAT-TGCATCATCGGATAAA-CTGAAGCAACTATACTGACACACACAGTGTAT
1 TATACTGGCACACATATGCATCATCAGATAAATC-GAAGCAACTATACTG-CACACACAGTGCAT
* * * ** * *
35928764 CATCGGATAAATC-GAAGTAACTATACTGGCACACACAGTGCATCATCCGATAAACCGAAACAAC
64 CATCGAATAAACCAAAAAAAAATATACTGGCACACACAGTGCAACATCCGATAAACCGAAACAAC
*
35928828 TATACTGGCACACATAATGCATCATCAGATAAATCGAAGCAACTATACTGCACACACAGTGCACC
1 TATACTGGCACACAT-ATGCATCATCAGATAAATCGAAGCAACTATACTGCACACACAGTGCATC
35928893 ATC-AGATAAACCAAA
65 ATCGA-ATAAACCAAA
35928908 GCAACTATAC
Statistics
Matches: 173, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
126 7 0.04
127 96 0.55
128 24 0.14
129 45 0.26
130 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (128 bp):
TATACTGGCACACATATGCATCATCAGATAAATCGAAGCAACTATACTGCACACACAGTGCATCA
TCGAATAAACCAAAAAAAAATATACTGGCACACACAGTGCAACATCCGATAAACCGAAACAAC
Found at i:35928839 original size:170 final size:169
Alignment explanation
Indices: 35928495--35928918 Score: 440
Period size: 170 Copynumber: 2.5 Consensus size: 169
35928485 TATACTGAAA
* * * ** * *
35928495 CACACATAGTGCATCATCGGATATACCGAAGTATGTATATTGGCACGTACAGTGCATCACCGGAT
1 CACACATAGTGCATCATCGAATAAACCGAAGCAACTATACTGGCAC--ACAGTGCATCATCGGAT
** * * * ***
35928560 AAACTAAAAAAATATACTGGCACACACAGTGCATCATCGGATATATCAAACCCTGTATACTAGCA
64 AAACTAAGCAACTATACTGACACACACAGTGCATCATCGGATAAATCAAACCAACTATACTAGCA
** *
35928625 CGTACAGTGCATCATCGAATAAACCAAAAAAAAATTATTGG
129 CACACAGTGCATCATCGAATAAACCAAAAAAAAATTACTGG
* * *
35928666 CACACACAGTGCAACATCGAATAAACCGAAGCAACTATACTGGCACACATTGCATCATCGGATAA
1 CACACATAGTGCATCATCGAATAAACCGAAGCAACTATACTGGCACACAGTGCATCATCGGATAA
* * ** *
35928731 ACTGAAGCAACTATACTGACACACACAGTGTATCATCGGATAAATCGAAGTAACTATACTGGCAC
66 ACT-AAGCAACTATACTGACACACACAGTGCATCATCGGATAAATCAAACCAACTATACTAGCAC
* * *
35928796 ACACAGTGCATCATCCG-ATAAACC-GAAACAACTATACTGG
130 ACACAGTGCATCAT-CGAATAAACCAAAAAAAAAT-TACTGG
* * * * *
35928836 CACACATAATGCATCATC-AGATAAATCGAAGCAACTATACTGCACACACAGTGCACCATCAGAT
1 CACACATAGTGCATCATCGA-ATAAACCGAAGCAACTATACTG-GCACACAGTGCATCATCGGAT
*
35928900 AAACCAAAGCAACTATACT
64 AAA-CTAAGCAACTATACT
35928919 AGCACGCATA
Statistics
Matches: 209, Mismatches: 38, Indels: 12
0.81 0.15 0.05
Matches are distributed among these distances:
169 27 0.13
170 108 0.52
171 73 0.35
172 1 0.00
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (169 bp):
CACACATAGTGCATCATCGAATAAACCGAAGCAACTATACTGGCACACAGTGCATCATCGGATAA
ACTAAGCAACTATACTGACACACACAGTGCATCATCGGATAAATCAAACCAACTATACTAGCACA
CACAGTGCATCATCGAATAAACCAAAAAAAAATTACTGG
Found at i:35928951 original size:255 final size:256
Alignment explanation
Indices: 35928485--35928951 Score: 548
Period size: 255 Copynumber: 1.8 Consensus size: 256
35928475 CCAACATAAT
* * ** * **
35928485 TATACTGAAACACACATAGTGCATCATCGGATATACCGAAGTATGTATATTGGCACGTACAGTGC
1 TATACTG-AACACACACAGTGCATCATCGGATAAACCGAAGTAACTATACTGGCACACACAGTGC
* * * * ***
35928550 ATCACCGGATAAACTAAAAAAATATACTGGCACACACAGTGCATCATCGGATATATCAAACCCTG
65 ATCACCGGATAAACGAAAAAAATATACTGGCACACACAATGCATCATCAGATAAATCAAACCAAC
** * * * *
35928615 TATACTAGCACGTACAGTGCATCATCGAATAAACCAAAAAAAAATTATTGGCACACACAGTGCAA
130 TATACTAGCACACACAGTGCACCATCGAATAAACCAAAAAAAAATTACTAGCACACACACTGCAA
35928680 CATCGAATAAACCGAAGCAACTATACTGGCACACATTGCATCATCGGATAAACTGAAGCAAC
195 CATCGAATAAACCGAAGCAACTATACTGGCACACATTGCATCATCGGATAAACTGAAGCAAC
* *
35928742 TATACTG-ACACACACAGTGTATCATCGGATAAATCGAAGTAACTATACTGGCACACACAGTGCA
1 TATACTGAACACACACAGTGCATCATCGGATAAACCGAAGTAACTATACTGGCACACACAGTGCA
* * * * *
35928806 TCATCC-GATAAACCGAAACAACTATACTGGCACACATAATGCATCATCAGATAAATCGAAGCAA
66 TCA-CCGGATAAA-CGAAAAAAATATACTGGCACACACAATGCATCATCAGATAAATCAAACCAA
** * * *
35928870 CTATACT-GCACACACAGTGCACCATC-AGATAAACC-AAAGCAACTATACTAGCACGCATACTG
129 CTATACTAGCACACACAGTGCACCATCGA-ATAAACCAAAAAAAAAT-TACTAGCACACACACTG
* *
35928932 CATCATCGAATATACCGAAG
192 CAACATCGAATAAACCGAAG
35928952 TATCTCCTGT
Statistics
Matches: 172, Mismatches: 34, Indels: 10
0.80 0.16 0.05
Matches are distributed among these distances:
254 7 0.04
255 110 0.64
256 48 0.28
257 7 0.04
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.20
Consensus pattern (256 bp):
TATACTGAACACACACAGTGCATCATCGGATAAACCGAAGTAACTATACTGGCACACACAGTGCA
TCACCGGATAAACGAAAAAAATATACTGGCACACACAATGCATCATCAGATAAATCAAACCAACT
ATACTAGCACACACAGTGCACCATCGAATAAACCAAAAAAAAATTACTAGCACACACACTGCAAC
ATCGAATAAACCGAAGCAACTATACTGGCACACATTGCATCATCGGATAAACTGAAGCAAC
Found at i:35935678 original size:56 final size:54
Alignment explanation
Indices: 35935516--35935678 Score: 155
Period size: 57 Copynumber: 2.9 Consensus size: 54
35935506 AACAATTTAT
* * * * * *
35935516 ACACCCTTATTGATAGCCTAATTCCAATAATAAATAACAATGGACAGCAGTTATTAA
1 ACACCCTTTTTGACAACTTAATTCCAATAATAAATAACAAT-GACAGCA--AACTAA
* * * *
35935573 ACACCCTTTTTGACAGCTTAATCCCAATAATAAAGAACAATGAATAGCAAACTAA
1 ACACCCTTTTTGACAACTTAATTCCAATAATAAATAACAATG-ACAGCAAACTAA
* * *
35935628 ACACCCATTTTTGACAATTTGATTCCAATAATAGATAACAAATGACAGCAA
1 ACACCC-TTTTTGACAACTTAATTCCAATAATAAATAAC-AATGACAGCAA
35935679 CACTTAAATC
Statistics
Matches: 88, Mismatches: 15, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
55 10 0.11
56 33 0.38
57 45 0.51
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.26
Consensus pattern (54 bp):
ACACCCTTTTTGACAACTTAATTCCAATAATAAATAACAATGACAGCAAACTAA
Found at i:35939841 original size:23 final size:23
Alignment explanation
Indices: 35939806--35940711 Score: 826
Period size: 23 Copynumber: 39.4 Consensus size: 23
35939796 ATCTTAATTC
35939806 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
35939829 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
35939852 TTTAAGCACAAATCACAATAATA
1 TTTAAGCACAAATCACATTAATA
* **
35939875 TTTGAGCACAAATCATGTTAATA
1 TTTAAGCACAAATCACATTAATA
* *
35939898 TTTAAACACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* * **
35939921 TTTGAGCATAAATCTTATTAATA
1 TTTAAGCACAAATCACATTAATA
35939944 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
35939967 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
35939990 TTTGAGCACAAAT--C--TAATA
1 TTTAAGCACAAATCACATTAATA
*
35940009 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
35940032 TTTGAGCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
35940055 TTTAAGGACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
35940078 TTTAAGCATAAATTACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
35940101 TTTAAGTACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
** * *
35940124 TTTAATTATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
** * ** *
35940147 TTTAAGCACGGAT-ATAAGAACA
1 TTTAAGCACAAATCACATTAATA
* * * * *
35940169 CTTACA-CTCGAAATTTAGAGTAGGAT-
1 TTTA-AGCAC-AAA-TCACATTA--ATA
* * ** * ***
35940195 TTTATGC-TATCTCTAAATTCGCA
1 TTTAAGCACAAATC-ACATTAATA
** * *
35940218 AAT-A-CACAATATTACATCTTAATTC
1 TTTAAGCACAA-ATCACA--TTAA-TA
35940243 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
35940266 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
35940289 TTTAAGTACAAATCACATTAGTA
1 TTTAAGCACAAATCACATTAATA
* *
35940312 TTTGAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
35940335 TTTGAGAACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
35940358 TTTAAGCACAAATTACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
35940381 TTTGACCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
35940404 TTTGAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
35940427 TTTAAGCATAAAACACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * **
35940450 TTTTAGCATAGTTCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* **
35940473 TTTTAGCACAAATCGTATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
35940496 TTTAAGTATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* **
35940519 TTTGAGCACAAATCGTATTAATA
1 TTTAAGCACAAATCACATTAATA
35940542 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * * *
35940565 TTTGAGAACAAATCATATTAACA
1 TTTAAGCACAAATCACATTAATA
*
35940588 TTTAAGCACAAATCAAATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
35940611 TTAAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
35940634 TTTAAGCATC-AATCACATTAATA
1 TTTAAGCA-CAAATCACATTAATA
*
35940657 TTTAAGCACAAATCACATTAATT
1 TTTAAGCACAAATCACATTAATA
* * *
35940680 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
35940703 TTTAAGCAC
1 TTTAAGCAC
35940712 GGATATAAGA
Statistics
Matches: 706, Mismatches: 155, Indels: 44
0.78 0.17 0.05
Matches are distributed among these distances:
19 16 0.02
21 3 0.00
22 15 0.02
23 641 0.91
24 11 0.02
25 4 0.01
26 10 0.01
27 6 0.01
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:35948758 original size:16 final size:16
Alignment explanation
Indices: 35948736--35948773 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
35948726 TTTAAAAAAT
*
35948736 TATATTATATTATTTTA
1 TATATTA-ATAATTTTA
35948753 -ATATTAATAATTTTA
1 TATATTAATAATTTTA
35948768 TATATT
1 TATATT
35948774 TTTTTATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TATATTAATAATTTTA
Found at i:35948773 original size:24 final size:24
Alignment explanation
Indices: 35948740--35948795 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
35948730 AAAAATTATA
35948740 TTATATTATTTTAATATTAATAATT
1 TTATA-TATTTTAATATTAATAATT
** **
35948765 TTATATATTTTTTTATTAATTGTT
1 TTATATATTTTAATATTAATAATT
35948789 TTATATA
1 TTATATA
35948796 GTCATCTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
TTATATATTTTAATATTAATAATT
Found at i:35949427 original size:13 final size:12
Alignment explanation
Indices: 35949400--35949424 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35949390 TAAATTAATT
35949400 ATATTTTATAAA
1 ATATTTTATAAA
35949412 ATATTTTATAAA
1 ATATTTTATAAA
35949424 A
1 A
35949425 ATAAATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATTTTATAAA
Found at i:35962540 original size:20 final size:20
Alignment explanation
Indices: 35962515--35962554 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
35962505 ATGGAAAAGA
35962515 AACATTATCACATATGTCAT
1 AACATTATCACATATGTCAT
35962535 AACATTATCACATATGTCAT
1 AACATTATCACATATGTCAT
35962555 GGAGAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (20 bp):
AACATTATCACATATGTCAT
Found at i:35966229 original size:41 final size:40
Alignment explanation
Indices: 35966159--35966526 Score: 337
Period size: 41 Copynumber: 8.9 Consensus size: 40
35966149 TTTAAATAAA
* *
35966159 TTAGCGGCGTTTTTCACATAAGCAG-CGCTAAT-ACTCTGACCT
1 TTAGCGGCG--TTTCCCATAAGC-GCCGCTATTGA-TCTGACCT
* *
35966201 TTAGCAGCGTTTACCCATAAGCGCCGCTATTGCTCTGACCT
1 TTAGCGGCGTTT-CCCATAAGCGCCGCTATTGATCTGACCT
* * *
35966242 TTAACGGCGCTTTTCCATAAGTGCCGCTATTGATCTGACCT
1 TTAGCGGCG-TTTCCCATAAGCGCCGCTATTGATCTGACCT
* *
35966283 TTAGCGGCGCTCTCCCATAAGCGTCGCTATTGATCTGACCT
1 TTAGCGGCG-TTTCCCATAAGCGCCGCTATTGATCTGACCT
* * * *
35966324 TTAGCGGTGCTTGCCCATAAGCGCCGCTATTGATTTGAACT
1 TTAGCGGCG-TTTCCCATAAGCGCCGCTATTGATCTGACCT
* * *
35966365 TTAGCGACGCTTTCCCATAAGCGCCGCTATCGCTCTGACCT
1 TTAGCGGCG-TTTCCCATAAGCGCCGCTATTGATCTGACCT
** * *
35966406 TTAGCGGC-TCTTGATCATAAGCGTCGCTATTGATCTCACCT
1 TTAGCGGCGT-TT-CCCATAAGCGCCGCTATTGATCTGACCT
* * * *
35966447 TTAGCGGCGCTTGCCAATAAGCGCCGCTATTGCTCTAACCT
1 TTAGCGGCG-TTTCCCATAAGCGCCGCTATTGATCTGACCT
* * * * *
35966488 TTAGCGGTGCTTTCCAATAAGCGTCGTTATTGCTCTGAC
1 TTAGCGGCG-TTTCCCATAAGCGCCGCTATTGATCTGAC
35966527 AAGAGCCGCT
Statistics
Matches: 272, Mismatches: 46, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.00
40 6 0.02
41 252 0.93
42 12 0.04
43 1 0.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (40 bp):
TTAGCGGCGTTTCCCATAAGCGCCGCTATTGATCTGACCT
Found at i:35966301 original size:82 final size:83
Alignment explanation
Indices: 35966159--35966526 Score: 401
Period size: 82 Copynumber: 4.5 Consensus size: 83
35966149 TTTAAATAAA
* * *
35966159 TTAGCGGCGTTTTTCACATAAGCAG-CGCTAAT-ACTCTGACCTTTAGCAGCG-TTTACCCATAA
1 TTAGCGGCGCTTTTC-CATAAGC-GCCGCTATTGA-TCTGACCTTTAGCGGCGCTTTACCCATAA
35966221 GCGCCGCTATTGCTCTGACCT
63 GCGCCGCTATTGCTCTGACCT
* * *
35966242 TTAACGGCGCTTTTCCATAAGTGCCGCTATTGATCTGACCTTTAGCGGCGCTCT-CCCATAAGCG
1 TTAGCGGCGCTTTTCCATAAGCGCCGCTATTGATCTGACCTTTAGCGGCGCTTTACCCATAAGCG
* *
35966306 TCGCTATTGATCTGACCT
66 CCGCTATTGCTCTGACCT
* ** * * *
35966324 TTAGCGGTGCTTGCCCATAAGCGCCGCTATTGATTTGAACTTTAGCGACGCTTT-CCCATAAGCG
1 TTAGCGGCGCTTTTCCATAAGCGCCGCTATTGATCTGACCTTTAGCGGCGCTTTACCCATAAGCG
*
35966388 CCGCTATCGCTCTGACCT
66 CCGCTATTGCTCTGACCT
* * * * * *
35966406 TTAGCGGCTCTTGAT-CATAAGCGTCGCTATTGATCTCACCTTTAGCGGCGC-TTGCCAATAAGC
1 TTAGCGGCGCTT-TTCCATAAGCGCCGCTATTGATCTGACCTTTAGCGGCGCTTTACCCATAAGC
*
35966469 GCCGCTATTGCTCTAACCT
65 GCCGCTATTGCTCTGACCT
* * * *
35966488 TTAGCGGTGC-TTTCCAATAAGCGTCGTTATTGCTCTGAC
1 TTAGCGGCGCTTTTCC-ATAAGCGCCGCTATTGATCTGAC
35966527 AAGAGCCGCT
Statistics
Matches: 240, Mismatches: 38, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
80 1 0.00
81 5 0.02
82 218 0.91
83 16 0.07
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (83 bp):
TTAGCGGCGCTTTTCCATAAGCGCCGCTATTGATCTGACCTTTAGCGGCGCTTTACCCATAAGCG
CCGCTATTGCTCTGACCT
Found at i:35966342 original size:123 final size:123
Alignment explanation
Indices: 35966193--35966526 Score: 438
Period size: 123 Copynumber: 2.7 Consensus size: 123
35966183 GCGCTAATAC
* * * *
35966193 TCTGACCTTTAGCAGCGTTTACCCATAAGCGCCGCTATTGCTCTGACCTTTAACGGCGCTTTTCC
1 TCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTTTCC
* * *
35966258 ATAAGTGCCGCTATTGATCTGACCTTTAGCGGCGCTCT-CCCATAAGCGTCGCTATTGA
66 ATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCT-TGACCATAAGCGTCGCTATTGA
* * * * * *
35966316 TCTGACCTTTAGCGGTGCTTGCCCATAAGCGCCGCTATTGATTTGAACTTTAGCGACGCTTTCCC
1 TCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTTTCC
* * *
35966381 ATAAGCGCCGCTATCGCTCTGACCTTTAGCGGCTCTTGATCATAAGCGTCGCTATTGA
66 ATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGACCATAAGCGTCGCTATTGA
* * * *
35966439 TCTCACCTTTAGCGGCGCTTGCCAATAAGCGCCGCTATTGCTCTAACCTTTAGCGGTGC-TTTCC
1 TCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTTTCC
* *
35966503 AATAAGCGTCGTTATTGCTCTGAC
66 -ATAAGCGCCGCTATTGCTCTGAC
35966527 AAGAGCCGCT
Statistics
Matches: 180, Mismatches: 29, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
122 5 0.03
123 175 0.97
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (123 bp):
TCTGACCTTTAGCGGCGCTTGCCCATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTTTCC
ATAAGCGCCGCTATTGCTCTGACCTTTAGCGGCGCTTGACCATAAGCGTCGCTATTGA
Found at i:35974654 original size:496 final size:496
Alignment explanation
Indices: 35973718--35974712 Score: 1954
Period size: 496 Copynumber: 2.0 Consensus size: 496
35973708 CGTAGATTTC
35973718 CAAAAACCTTAAAATATATTAACATGAATCGGATTTTTTGTGGTCCAAGTCATGGAATTAGGTTT
1 CAAAAACCTTAAAATATATTAACATGAATCGGATTTTTTGTGGTCCAAGTCATGGAATTAGGTTT
35973783 TTATTATTATTATTTTTATAAAAAATTCACTTATTTATTTGTTTTTGTTTTTCGGTCTTGTAGAA
66 TTATTATTATTATTTTTATAAAAAATTCACTTATTTATTTGTTTTTGTTTTTCGGTCTTGTAGAA
35973848 TTAGGTATTTTAATTTAAAATTTTTTATTTTTTTACTTATTTAGTTTTTAATTTTCACTTTTATA
131 TTAGGTATTTTAATTTAAAATTTTTTATTTTTTTACTTATTTAGTTTTTAATTTTCACTTTTATA
35973913 TGAAGTATTGGAAGTCTTGGTGAAAATGGAGGATGGGAGATAGTTCAATGTGTTCTGTAAGGGGA
196 TGAAGTATTGGAAGTCTTGGTGAAAATGGAGGATGGGAGATAGTTCAATGTGTTCTGTAAGGGGA
35973978 GCTCACTTTTATACTACAGAAGATGGAGTTCGAATAAAGACATGGTAGGTAATTAAAATTTTCAT
261 GCTCACTTTTATACTACAGAAGATGGAGTTCGAATAAAGACATGGTAGGTAATTAAAATTTTCAT
35974043 TAAATGTATTTTATAATTAAATTTTTTACGTTATATTTAACTTATTTCCATATTATGTGTACAAG
326 TAAATGTATTTTATAATTAAATTTTTTACGTTATATTTAACTTATTTCCATATTATGTGTACAAG
35974108 GAGGACATGGATATGCAAGACATGTAATGTTTGAACTTATATCATTTAGTAAAGTAATTAGACCT
391 GAGGACATGGATATGCAAGACATGTAATGTTTGAACTTATATCATTTAGTAAAGTAATTAGACCT
*
35974173 ATTATTATTGATCAGTATAGTTGTCCTCCTCATCAACATTG
456 ATTATTATTGATCAGTACAGTTGTCCTCCTCATCAACATTG
35974214 CAAAAACCTTAAAATATATTAACATGAATCGGATTTTTTGTGGTCCAAGTCATGGAATTAGGTTT
1 CAAAAACCTTAAAATATATTAACATGAATCGGATTTTTTGTGGTCCAAGTCATGGAATTAGGTTT
35974279 TTATTATTATTATTTTTATAAAAAATTCACTTATTTATTTGTTTTTGTTTTTCGGTCTTGTAGAA
66 TTATTATTATTATTTTTATAAAAAATTCACTTATTTATTTGTTTTTGTTTTTCGGTCTTGTAGAA
35974344 TTAGGTATTTTAATTTAAAATTTTTTATTTTTTTACTTATTTAGTTTTTAATTTTCACTTTTATA
131 TTAGGTATTTTAATTTAAAATTTTTTATTTTTTTACTTATTTAGTTTTTAATTTTCACTTTTATA
35974409 TGAAGTATTGGAAGTCTTGGTGAAAATGGAGGATGGGAGATAGTTCAATGTGTTCTGTAAGGGGA
196 TGAAGTATTGGAAGTCTTGGTGAAAATGGAGGATGGGAGATAGTTCAATGTGTTCTGTAAGGGGA
35974474 GCTCACTTTTATACTACAGAAGATGGAGTTCGAATAAAGACATGGTAGGTAATTAAAATTTTCAT
261 GCTCACTTTTATACTACAGAAGATGGAGTTCGAATAAAGACATGGTAGGTAATTAAAATTTTCAT
*
35974539 TAAATGTATTTTATAATTAATTTTTTTACGTTATATTTAACTTATTTCCATATTATGTGTACAAG
326 TAAATGTATTTTATAATTAAATTTTTTACGTTATATTTAACTTATTTCCATATTATGTGTACAAG
*
35974604 GAGGACATGGATATGCAAGACATGTAATGTTTGAACTTATATCGTTTAGTAAAGTAATTAGACCT
391 GAGGACATGGATATGCAAGACATGTAATGTTTGAACTTATATCATTTAGTAAAGTAATTAGACCT
*
35974669 ATTATTATTGATCAGTACAGTTGTCCTCCTCATCAACGTTG
456 ATTATTATTGATCAGTACAGTTGTCCTCCTCATCAACATTG
35974710 CAA
1 CAA
35974713 GAATTACGTA
Statistics
Matches: 495, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
496 495 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.43
Consensus pattern (496 bp):
CAAAAACCTTAAAATATATTAACATGAATCGGATTTTTTGTGGTCCAAGTCATGGAATTAGGTTT
TTATTATTATTATTTTTATAAAAAATTCACTTATTTATTTGTTTTTGTTTTTCGGTCTTGTAGAA
TTAGGTATTTTAATTTAAAATTTTTTATTTTTTTACTTATTTAGTTTTTAATTTTCACTTTTATA
TGAAGTATTGGAAGTCTTGGTGAAAATGGAGGATGGGAGATAGTTCAATGTGTTCTGTAAGGGGA
GCTCACTTTTATACTACAGAAGATGGAGTTCGAATAAAGACATGGTAGGTAATTAAAATTTTCAT
TAAATGTATTTTATAATTAAATTTTTTACGTTATATTTAACTTATTTCCATATTATGTGTACAAG
GAGGACATGGATATGCAAGACATGTAATGTTTGAACTTATATCATTTAGTAAAGTAATTAGACCT
ATTATTATTGATCAGTACAGTTGTCCTCCTCATCAACATTG
Found at i:35993125 original size:197 final size:197
Alignment explanation
Indices: 35992790--35993185 Score: 729
Period size: 197 Copynumber: 2.0 Consensus size: 197
35992780 TTGTAATTTG
*
35992790 AATTGTAAAATATTTTAGTTAGTATCTCTAACTGACACCAAAATATAAGAATAGATTATAAATTA
1 AATTGTAAAATATTTTAGTTAGTATCACTAACTGACACCAAAATATAAGAATAGATTATAAATTA
35992855 ATATTTATTATCAAGAAAGTTAAAATTTGTGAAATTATTTCAGTCATCCATTCAACTTAATACGT
66 ATATTTATTATCAAGAAAGTTAAAATTTGTGAAATTATTTCAGTCATCCATTCAACTTAATACGT
35992920 TGAACTGTTGGTAAAGCTCGATAACTCGGATCCAACAATCGGGTAGGTTATAGGGCGTTACAAAA
131 TGAACTGTTGGTAAAGCTCGATAACTCGGATCCAACAATCGGGTAGGTTATAGGGCGTTACAAAA
35992985 CA
196 CA
35992987 AATTGTAAAATATTTTAGTTAGTATCACTAACTGACACCAAAATATAAGAATAGATTATAAATTA
1 AATTGTAAAATATTTTAGTTAGTATCACTAACTGACACCAAAATATAAGAATAGATTATAAATTA
* * *
35993052 ATATTTATTATCAAGAAAGTTCAAATTTGTGAGATTATTTCAGTCATCCATTCAACTTAATATGT
66 ATATTTATTATCAAGAAAGTTAAAATTTGTGAAATTATTTCAGTCATCCATTCAACTTAATACGT
* * *
35993117 TGAACTGTTGGTAAAGCTCGATAACTTGGATCCAACGATCGGGTCGGTTATAGGGCGTTACAAAA
131 TGAACTGTTGGTAAAGCTCGATAACTCGGATCCAACAATCGGGTAGGTTATAGGGCGTTACAAAA
35993182 CA
196 CA
35993184 AA
1 AA
35993186 CTAATAAATT
Statistics
Matches: 192, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
197 192 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (197 bp):
AATTGTAAAATATTTTAGTTAGTATCACTAACTGACACCAAAATATAAGAATAGATTATAAATTA
ATATTTATTATCAAGAAAGTTAAAATTTGTGAAATTATTTCAGTCATCCATTCAACTTAATACGT
TGAACTGTTGGTAAAGCTCGATAACTCGGATCCAACAATCGGGTAGGTTATAGGGCGTTACAAAA
CA
Found at i:36013834 original size:13 final size:12
Alignment explanation
Indices: 36013818--36013847 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
36013808 AAAAATTGAG
36013818 AAAAAGAAAGAAA
1 AAAAAG-AAGAAA
36013831 AAAAAGAAGAAA
1 AAAAAGAAGAAA
36013843 AAAAA
1 AAAAA
36013848 TTTATTGCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAAGAAGAAA
Found at i:36013841 original size:22 final size:22
Alignment explanation
Indices: 36013802--36013844 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
36013792 GTCACTTGAA
*
36013802 AAAGAAAAAAATTGAGAAAAAG
1 AAAGAAAAAAATAGAGAAAAAG
36013824 AAAGAAAAAAA-AGAAGAAAAA
1 AAAGAAAAAAATAG-AGAAAAA
36013845 AAATTTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (22 bp):
AAAGAAAAAAATAGAGAAAAAG
Found at i:36016648 original size:7 final size:7
Alignment explanation
Indices: 36016636--36016705 Score: 70
Period size: 7 Copynumber: 9.9 Consensus size: 7
36016626 ATTTCACCCA
36016636 AAAAAAG
1 AAAAAAG
36016643 AAAAAA-
1 AAAAAAG
*
36016649 AAGAAAG
1 AAAAAAG
36016656 AAAAGGAAG
1 AAAA--AAG
*
36016665 AAGAAAG
1 AAAAAAG
*
36016672 AAGAAAG
1 AAAAAAG
*
36016679 AAAAAAT
1 AAAAAAG
36016686 AAAAAAG
1 AAAAAAG
*
36016693 AAAAAGG
1 AAAAAAG
36016700 AAAAAA
1 AAAAAA
36016706 AAGAGAAAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
6 5 0.10
7 41 0.79
9 6 0.12
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:36016679 original size:23 final size:22
Alignment explanation
Indices: 36016640--36016682 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
36016630 CACCCAAAAA
36016640 AAGAAAAAAAAGAAAGAAAAGG
1 AAGAAAAAAAAGAAAGAAAAGG
*
36016662 AAGAAGAAAGAAGAAAGAAAA
1 AAGAA-AAAAAAGAAAGAAAA
36016683 AATAAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (22 bp):
AAGAAAAAAAAGAAAGAAAAGG
Found at i:36016679 original size:36 final size:36
Alignment explanation
Indices: 36016639--36016713 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
36016629 TCACCCAAAA
* *
36016639 AAAGAAAAAA-AAGAAAG-AAAAGGAAGAAGAAAGAAG
1 AAAGAAAAAATAAAAAAGAAAAAGGAA-AAAAAAG-AG
36016675 AAAGAAAAAATAAAAAAGAAAAAGGAAAAAAAAGAG
1 AAAGAAAAAATAAAAAAGAAAAAGGAAAAAAAAGAG
36016711 AAA
1 AAA
36016714 AGGTGAGGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 15 0.43
37 12 0.34
38 8 0.23
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (36 bp):
AAAGAAAAAATAAAAAAGAAAAAGGAAAAAAAAGAG
Found at i:36016703 original size:14 final size:13
Alignment explanation
Indices: 36016637--36016714 Score: 61
Period size: 13 Copynumber: 5.8 Consensus size: 13
36016627 TTTCACCCAA
36016637 AAAAAGAAAAAA-
1 AAAAAGAAAAAAG
36016649 AAGAAAGAAAAGGAAG
1 AA-AAAGAAAA--AAG
*
36016665 AAGAAAGAAGAAAG
1 AA-AAAGAAAAAAG
*
36016679 AAAAAATAAAAAAG
1 -AAAAAGAAAAAAG
*
36016693 AAAAAGGAAAAA-
1 AAAAAGAAAAAAG
*
36016705 AAAGAGAAAA
1 AAAAAGAAAA
36016715 GGTGAGGTCG
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
12 10 0.19
13 18 0.33
14 12 0.22
15 4 0.07
16 10 0.19
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.01
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:36017798 original size:49 final size:50
Alignment explanation
Indices: 36017658--36017914 Score: 141
Period size: 50 Copynumber: 5.2 Consensus size: 50
36017648 ACCAAAGAAA
* * * * ** **
36017658 CATGAAGATATGAAGGAAAAGG-TTAAGGTCGCATTGGCGAACCTTGTAC
1 CATGAAGATATAAAGGGAAAGGATTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * *
36017707 CTTAGAAGATATGATGGG-AAGGATTGAGACCGTAACGACGAACCCGGTAC
1 CAT-GAAGATATAAAGGGAAAGGATTGAGGCCGCAACGGCGAACCCGGTAC
**
36017757 CATGGAA-ATATAAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCTTGTAC
1 CAT-GAAGATATAAAGGGAAAGGATTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * * * *
36017806 CTTAAAAGATGTGATA-GG-AAGGATTGAGGCTGTAAAGGCGAATCCAGTAC
1 CAT-GAAGATAT-AAAGGGAAAGGATTGAGGCCGCAACGGCGAACCCGGTAC
* * * * *
36017856 CATGAATATATGAGGGGAAAGG-TTGAGGCCGCAATGGCGAACCCGATAC
1 CATGAAGATATAAAGGGAAAGGATTGAGGCCGCAACGGCGAACCCGGTAC
*
36017905 CTTAGAAGAT
1 CAT-GAAGAT
36017915 GTGATGATTT
Statistics
Matches: 152, Mismatches: 47, Indels: 17
0.70 0.22 0.08
Matches are distributed among these distances:
49 74 0.49
50 76 0.50
51 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.19
Consensus pattern (50 bp):
CATGAAGATATAAAGGGAAAGGATTGAGGCCGCAACGGCGAACCCGGTAC
Found at i:36017846 original size:50 final size:50
Alignment explanation
Indices: 36017693--36017919 Score: 162
Period size: 49 Copynumber: 4.6 Consensus size: 50
36017683 AGGTCGCATT
* *
36017693 GGCGAACCTTGTACCTTAGAAGATATGATGGGAAGGATTGAGACCGTAAC
1 GGCGAACCTTGTACCTTAGAAGATATGATAGGAAGGATTGAGGCCGTAAC
* ** * * * *
36017743 GACGAACCCGGTACCATGGAA-ATAT-AAAGGGAAAGG-TTGAGGCCGCAAC
1 GGCGAACCTTGTACCTTAGAAGATATGATA-GG-AAGGATTGAGGCCGTAAC
* * * *
36017792 GGCGAACCTTGTACCTTAAAAGATGTGATAGGAAGGATTGAGGCTGTAAA
1 GGCGAACCTTGTACCTTAGAAGATATGATAGGAAGGATTGAGGCCGTAAC
* * * ** * *
36017842 GGCGAATCC-AGTACCAT-GAATATATGAGGGGAAAGG-TTGAGGCCGCAAT
1 GGCGAA-CCTTGTACCTTAGAAGATATGATAGG-AAGGATTGAGGCCGTAAC
* *
36017891 GGCGAACC-CGATACCTTAGAAGATGTGAT
1 GGCGAACCTTG-TACCTTAGAAGATATGAT
36017920 GATTTCTAAT
Statistics
Matches: 133, Mismatches: 35, Indels: 18
0.72 0.19 0.10
Matches are distributed among these distances:
48 4 0.03
49 66 0.50
50 59 0.44
51 4 0.03
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.19
Consensus pattern (50 bp):
GGCGAACCTTGTACCTTAGAAGATATGATAGGAAGGATTGAGGCCGTAAC
Found at i:36017856 original size:99 final size:99
Alignment explanation
Indices: 36017658--36017919 Score: 330
Period size: 99 Copynumber: 2.6 Consensus size: 99
36017648 ACCAAAGAAA
* * * * * * *
36017658 CATGAAGATATGAAGGAAAAGGTTAAGGTCGCATTGGCGAACCTTGTACCTTAGAAGATATGATG
1 CATGAATATATGAAGGGAAAGGTTGAGGCCGCAATGGCGAACCTTGTACCTTAGAAGATGTGATA
* *
36017723 GGAAGGATTGAGACCGTAACGACGAACCCGGTAC
66 GGAAGGATTGAGACCGTAAAGACGAACCCAGTAC
* * *
36017757 CATGGAA-ATATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCTTGTACCTTAAAAGATGTGAT
1 CAT-GAATATATGAAGGGAAAGGTTGAGGCCGCAATGGCGAACCTTGTACCTTAGAAGATGTGAT
* * * *
36017821 AGGAAGGATTGAGGCTGTAAAGGCGAATCCAGTAC
65 AGGAAGGATTGAGACCGTAAAGACGAACCCAGTAC
* *
36017856 CATGAATATATGAGGGGAAAGGTTGAGGCCGCAATGGCGAACC-CGATACCTTAGAAGATGTGAT
1 CATGAATATATGAAGGGAAAGGTTGAGGCCGCAATGGCGAACCTTG-TACCTTAGAAGATGTGAT
36017920 GATTTCTAAT
Statistics
Matches: 140, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
98 4 0.03
99 133 0.95
100 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (99 bp):
CATGAATATATGAAGGGAAAGGTTGAGGCCGCAATGGCGAACCTTGTACCTTAGAAGATGTGATA
GGAAGGATTGAGACCGTAAAGACGAACCCAGTAC
Found at i:36022236 original size:29 final size:29
Alignment explanation
Indices: 36022202--36022258 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
36022192 TTTCCAATGC
*
36022202 AAAGTAAATGTGCTTATTTCCAGTAGTAT
1 AAAGTAAACGTGCTTATTTCCAGTAGTAT
36022231 AAAGTAAACGTGCTTATTTCCAGTAGTA
1 AAAGTAAACGTGCTTATTTCCAGTAGTA
36022259 GATTTTCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (29 bp):
AAAGTAAACGTGCTTATTTCCAGTAGTAT
Found at i:36037324 original size:6 final size:6
Alignment explanation
Indices: 36037313--36037351 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
36037303 TGATCAAAAT
* * *
36037313 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
36037352 TATGAATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:36042447 original size:25 final size:23
Alignment explanation
Indices: 36042419--36042464 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
36042409 GTTGGATCCA
36042419 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
36042444 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
36042465 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:36053334 original size:2 final size:2
Alignment explanation
Indices: 36053327--36053354 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36053317 TCAATTTAAC
36053327 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36053355 TGCAATGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36055243 original size:19 final size:19
Alignment explanation
Indices: 36055193--36055243 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
36055183 TTATTTTATT
*
36055193 AATATTAAACATAAAATAA
1 AATATTAAATATAAAATAA
*
36055212 AATAATTAAAATATAACAT-A
1 AAT-ATT-AAATATAAAATAA
36055232 AATATTAGAATA
1 AATATTA-AATA
36055244 GCATGGTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 1 0.04
19 10 0.37
20 7 0.26
21 9 0.33
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (19 bp):
AATATTAAATATAAAATAA
Found at i:36060402 original size:22 final size:22
Alignment explanation
Indices: 36060320--36060403 Score: 55
Period size: 22 Copynumber: 3.9 Consensus size: 22
36060310 GGCTTGTTCG
* * *
36060320 CATACTTCTGGTGGCTTGTCCA
1 CATATTTCTGGTAGCTTATCCA
* * ** **
36060342 CATATTTTTGGCAATTTATCTG
1 CATATTTCTGGTAGCTTATCCA
* *
36060364 CATA--TCTGGTGGTTTATCCA
1 CATATTTCTGGTAGCTTATCCA
36060384 CATATTTCTGGTAGCTTATC
1 CATATTTCTGGTAGCTTATC
36060404 TACAAATACT
Statistics
Matches: 43, Mismatches: 17, Indels: 4
0.67 0.27 0.06
Matches are distributed among these distances:
20 14 0.33
22 29 0.67
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.43
Consensus pattern (22 bp):
CATATTTCTGGTAGCTTATCCA
Found at i:36067507 original size:23 final size:25
Alignment explanation
Indices: 36067481--36067526 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
36067471 CCAATTAGGG
36067481 AATTAT-TGTTTAG-ATTTAATTCA
1 AATTATCTGTTTAGAATTTAATTCA
*
36067504 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
36067527 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCA
Found at i:36068230 original size:6 final size:6
Alignment explanation
Indices: 36068219--36068247 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
36068209 AAAAACATCC
36068219 ATAAAA ATAAAA ATAAAA ATAAAA ATAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAA
36068248 TATATAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:36069389 original size:7 final size:7
Alignment explanation
Indices: 36069377--36069472 Score: 66
Period size: 7 Copynumber: 13.7 Consensus size: 7
36069367 CTCGAAAAAA
36069377 GTCAACG
1 GTCAACG
36069384 GTCAACG
1 GTCAACG
* *
36069391 ATCAACT
1 GTCAACG
*
36069398 ATCAACG
1 GTCAACG
* **
36069405 ATCAATA
1 GTCAACG
*
36069412 GTCAACT
1 GTCAACG
*
36069419 GTCAATG
1 GTCAACG
36069426 GTCAACG
1 GTCAACG
* *
36069433 GTCAGCT
1 GTCAACG
36069440 GTCAACG
1 GTCAACG
* *
36069447 ATCAATG
1 GTCAACG
* *
36069454 ATCAACT
1 GTCAACG
36069461 GTCAACG
1 GTCAACG
36069468 GTCAA
1 GTCAA
36069473 TAGGTCGGGT
Statistics
Matches: 68, Mismatches: 21, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 68 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (7 bp):
GTCAACG
Found at i:36069473 original size:21 final size:21
Alignment explanation
Indices: 36069377--36069473 Score: 106
Period size: 21 Copynumber: 4.6 Consensus size: 21
36069367 CTCGAAAAAA
*
36069377 GTCAACGGTCAACGATCAACT
1 GTCAACGGTCAATGATCAACT
* *
36069398 ATCAACGATCAAT-AGTCAACT
1 GTCAACGGTCAATGA-TCAACT
* * * *
36069419 GTCAATGGTCAACGGTCAGCT
1 GTCAACGGTCAATGATCAACT
*
36069440 GTCAACGATCAATGATCAACT
1 GTCAACGGTCAATGATCAACT
36069461 GTCAACGGTCAAT
1 GTCAACGGTCAAT
36069474 AGGTCGGGTC
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
20 1 0.02
21 58 0.98
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (21 bp):
GTCAACGGTCAATGATCAACT
Done.