Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 33 of 153
Found at i:11424271 original size:28 final size:28
Alignment explanation
Indices: 11424220--11424274 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
11424210 AGTTTTAAAT
11424220 AATTTTTTTTATTTTTATAAAACTTTTG
1 AATTTTTTTTATTTTTATAAAACTTTTG
*
11424248 AATTTTTTTTATATTTT-TATAACTTTT
1 AATTTTTTTTAT-TTTTATAAAACTTTT
11424275 TTTGAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (28 bp):
AATTTTTTTTATTTTTATAAAACTTTTG
Found at i:11425307 original size:62 final size:62
Alignment explanation
Indices: 11425230--11425354 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
11425220 TTAAGTCATT
*
11425230 TATGTGTTGGTAAGCCATTGCCTCTGAGCACCCAGTTTCGTTCATGTAGCATGTTATTGCGC
1 TATGTGTTGGCAAGCCATTGCCTCTGAGCACCCAGTTTCGTTCATGTAGCATGTTATTGCGC
11425292 TATGTGTTGGCAAGCCATTGCCTCTGAGCACCCAGTTTCGTTCATGTAGCATGTTATTGCGC
1 TATGTGTTGGCAAGCCATTGCCTCTGAGCACCCAGTTTCGTTCATGTAGCATGTTATTGCGC
11425354 T
1 T
11425355 TGCACTTTCG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (62 bp):
TATGTGTTGGCAAGCCATTGCCTCTGAGCACCCAGTTTCGTTCATGTAGCATGTTATTGCGC
Found at i:11427953 original size:30 final size:30
Alignment explanation
Indices: 11427917--11428084 Score: 164
Period size: 30 Copynumber: 5.6 Consensus size: 30
11427907 TGTGTTTTAA
* *
11427917 AAAATTACATTTTGACCCTTAAACATTT-TC
1 AAAATTACATTTTAACCCCTAAAC-TTTCTC
*
11427947 AAAATTACATTTCAACCCCTAAACATTT-T-
1 AAAATTACATTTTAACCCCTAAAC-TTTCTC
* * *
11427976 GAAATTACATTTTGACCCCCAAACTTTCTC
1 AAAATTACATTTTAACCCCTAAACTTTCTC
*
11428006 AAAATTACATTTTAACCCCTAAACTTTCTA
1 AAAATTACATTTTAACCCCTAAACTTTCTC
** * *
11428036 AAAATTATGTTTCAACCCCTGAACTTTCT-
1 AAAATTACATTTTAACCCCTAAACTTTCTC
* *
11428065 AAACATTACGTTTTGACCCC
1 AAA-ATTACATTTTAACCCC
11428085 AAAAGTTTTG
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 3 0.03
29 24 0.21
30 90 0.77
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (30 bp):
AAAATTACATTTTAACCCCTAAACTTTCTC
Found at i:11427990 original size:59 final size:59
Alignment explanation
Indices: 11427918--11428029 Score: 181
Period size: 59 Copynumber: 1.9 Consensus size: 59
11427908 GTGTTTTAAA
**
11427918 AAATTACATTTTGACCCTTAAACATTT-TCAAAATTACATTTCAACCCCTAAACATTTTG
1 AAATTACATTTTGACCCCCAAAC-TTTCTCAAAATTACATTTCAACCCCTAAACATTTTG
*
11427977 AAATTACATTTTGACCCCCAAACTTTCTCAAAATTACATTTTAACCCCTAAAC
1 AAATTACATTTTGACCCCCAAACTTTCTCAAAATTACATTTCAACCCCTAAAC
11428030 TTTCTAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
58 3 0.06
59 46 0.94
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (59 bp):
AAATTACATTTTGACCCCCAAACTTTCTCAAAATTACATTTCAACCCCTAAACATTTTG
Found at i:11428087 original size:89 final size:89
Alignment explanation
Indices: 11427917--11428084 Score: 223
Period size: 89 Copynumber: 1.9 Consensus size: 89
11427907 TGTGTTTTAA
* * * *
11427917 AAAATTACATTTTGACCCTTAAACATTTTCAAAATTACATTTCAACCCCTAAACATTTTGAAATT
1 AAAATTACATTTTAACCCCTAAACATTTTAAAAATTACATTTCAACCCCTAAACATTTTAAAATT
11427982 ACATTTTGACCCCCAAACTTTCTC
66 ACATTTTGACCCCCAAACTTTCTC
** *
11428006 AAAATTACATTTTAACCCCTAAAC-TTTCTAAAAATTATGTTTCAACCCCTGAAC-TTTCTAAAC
1 AAAATTACATTTTAACCCCTAAACATTT-TAAAAATTACATTTCAACCCCTAAACATTT-TAAA-
*
11428069 ATTACGTTTTGACCCC
63 ATTACATTTTGACCCC
11428085 AAAAGTTTTG
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
88 6 0.09
89 47 0.69
90 15 0.22
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (89 bp):
AAAATTACATTTTAACCCCTAAACATTTTAAAAATTACATTTCAACCCCTAAACATTTTAAAATT
ACATTTTGACCCCCAAACTTTCTC
Found at i:11428454 original size:18 final size:18
Alignment explanation
Indices: 11428405--11428463 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
11428395 CCAAAAAGCA
11428405 AAAAAAAAGAGAGAAAGA-
1 AAAAAAAAGAGA-AAAGAG
* * *
11428423 AACAACAAG-CAAAAGAG
1 AAAAAAAAGAGAAAAGAG
11428440 AAAAAAAAGAGAAAAGAAG
1 AAAAAAAAGAGAAAAG-AG
11428459 AAAAA
1 AAAAA
11428464 TGGAGGAAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
16 5 0.16
17 8 0.25
18 12 0.38
19 7 0.22
ACGTcount: A:0.76, C:0.05, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGAGAAAAGAG
Found at i:11428584 original size:4 final size:4
Alignment explanation
Indices: 11428563--11428636 Score: 52
Period size: 4 Copynumber: 19.0 Consensus size: 4
11428553 GGCTGATTGG
*
11428563 GAAA GAAA -AAA -AAGA GAAA GAAAA GAGAA GAAA G-AA GGAA G-AA GAAA
1 GAAA GAAA GAAA GAA-A GAAA G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA
*
11428610 GAAGA AAAA GAAA G-AA -AAA GAAA GAAA
1 GAA-A GAAA GAAA GAAA GAAA GAAA GAAA
11428637 AAAAATTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 18
0.75 0.03 0.23
Matches are distributed among these distances:
3 15 0.25
4 31 0.53
5 13 0.22
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:11428594 original size:14 final size:13
Alignment explanation
Indices: 11428565--11428641 Score: 81
Period size: 14 Copynumber: 5.9 Consensus size: 13
11428555 CTGATTGGGA
11428565 AAGAAA-AAAAAG
1 AAGAAAGAAAAAG
11428577 -AGAAAGAAAAGAG
1 AAGAAAGAAAA-AG
*
11428590 AAGAAAGAAGGAAG
1 AAGAAAGAA-AAAG
11428604 AAGAAAGAAGAAA-
1 AAGAAAGAA-AAAG
11428617 AAGAAAGAAAAAG
1 AAGAAAGAAAAAG
11428630 AAAGAAA-AAAAA
1 -AAGAAAGAAAAA
11428642 TTAATTTAGT
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
11 5 0.09
12 7 0.12
13 16 0.28
14 28 0.49
15 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAGAAAGAAAAAG
Found at i:11428595 original size:10 final size:10
Alignment explanation
Indices: 11428564--11428638 Score: 82
Period size: 10 Copynumber: 7.3 Consensus size: 10
11428554 GCTGATTGGG
*
11428564 AAAGAAAAAA
1 AAAGAAAGAA
11428574 AAGAGAAAG-A
1 AA-AGAAAGAA
11428584 AAAGAGAAGAA
1 AAAGA-AAGAA
*
11428595 AGAAGGAAGAA
1 A-AAGAAAGAA
11428606 GAAAG-AAGAA
1 -AAAGAAAGAA
11428616 AAAGAAAGAA
1 AAAGAAAGAA
11428626 AAAGAAAGAA
1 AAAGAAAGAA
11428636 AAA
1 AAA
11428639 AAATTAATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
9 7 0.12
10 31 0.54
11 15 0.26
12 4 0.07
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:11429283 original size:18 final size:18
Alignment explanation
Indices: 11429262--11429366 Score: 56
Period size: 19 Copynumber: 5.6 Consensus size: 18
11429252 TCGAAAATAC
11429262 TCAAAAAAATTCGTGTTT
1 TCAAAAAAATTCGTGTTT
11429280 TC-AAAAAATTCCCGTGTTT
1 TCAAAAAAATT--CGTGTTT
* ** *
11429299 T--GAAATTTTCGTGTCT
1 TCAAAAAAATTCGTGTTT
11429315 TCAAAAAAAAATTTTC-TCGTATT
1 TC--AAAAAAA--TTCGT-GT-TT
*
11429338 TCAAAAAATATTCGCGTTT
1 TCAAAAAA-ATTCGTGTTT
11429357 TCAAAAAAAT
1 TCAAAAAAAT
11429367 AAGGCAACGA
Statistics
Matches: 66, Mismatches: 9, Indels: 24
0.67 0.09 0.24
Matches are distributed among these distances:
16 7 0.11
17 8 0.12
18 9 0.14
19 18 0.27
20 8 0.12
21 7 0.11
22 6 0.09
23 3 0.05
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (18 bp):
TCAAAAAAATTCGTGTTT
Found at i:11429295 original size:19 final size:17
Alignment explanation
Indices: 11429265--11429322 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
11429255 AAAATACTCA
11429265 AAAAAATTCGTGTTTTC
1 AAAAAATTCGTGTTTTC
11429282 AAAAAATTCCCGTGTTTT-
1 AAAAAATT--CGTGTTTTC
* ** *
11429300 GAAATTTTCGTGTCTTC
1 AAAAAATTCGTGTTTTC
11429317 AAAAAA
1 AAAAAA
11429323 AAATTTTCTC
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 7 0.23
17 11 0.35
18 5 0.16
19 8 0.26
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (17 bp):
AAAAAATTCGTGTTTTC
Found at i:11429365 original size:20 final size:21
Alignment explanation
Indices: 11429319--11429367 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
11429309 GTGTCTTCAA
* *
11429319 AAAAAAATTTTCTCGTATTTC
1 AAAAAAATATTCGCGTATTTC
11429340 -AAAAAATATTCGCGT-TTTC
1 AAAAAAATATTCGCGTATTTC
11429359 AAAAAAATA
1 AAAAAAATA
11429368 AGGCAACGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (21 bp):
AAAAAAATATTCGCGTATTTC
Found at i:11429491 original size:18 final size:20
Alignment explanation
Indices: 11429468--11429507 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
11429458 ATAAAAATTG
*
11429468 AAAAATT-CG-TGTTTTAAA
1 AAAAATTCCGATGTTTCAAA
11429486 AAAAATTCCGATGTTTCAAA
1 AAAAATTCCGATGTTTCAAA
11429506 AA
1 AA
11429508 TTTTCATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 2 0.11
20 10 0.53
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (20 bp):
AAAAATTCCGATGTTTCAAA
Found at i:11429506 original size:17 final size:18
Alignment explanation
Indices: 11429486--11430039 Score: 121
Period size: 18 Copynumber: 31.3 Consensus size: 18
11429476 GTGTTTTAAA
11429486 AAAAATTCCGATG-TTTC
1 AAAAATTCCGATGTTTTC
*
11429503 AAAAATTTTC-ATGTTTTC
1 AAAAA-TTCCGATGTTTTC
11429521 AAAAATTCCCG-TGTTTTC
1 AAAAATT-CCGATGTTTTC
*
11429539 AAAAAATTCC-AT-TTTTT
1 -AAAAATTCCGATGTTTTC
* *
11429556 AAAATTTTTCG-TGTTTTC
1 AAAA-ATTCCGATGTTTTC
* **
11429574 GAAAAATTCCTA-CATTT-
1 -AAAAATTCCGATGTTTTC
* ** *
11429591 AAAAAATCTTTATTTTTTC
1 AAAAATTC-CGATGTTTTC
* *
11429610 AAAAATCTTCG-TGTTTCC
1 AAAAAT-TCCGATGTTTTC
* *
11429628 AAAAATTCCGGTGATTTTA
1 AAAAATTCCGATG-TTTTC
*
11429647 AAAAATTTTCG-TGTTTTC
1 AAAAA-TTCCGATGTTTTC
*
11429665 TAAAAATTTACG-TG-TTTC
1 -AAAAA-TTCCGATGTTTTC
* *
11429683 AAAAATTTTC-AAGTTTTC
1 AAAAA-TTCCGATGTTTTC
11429701 AAAAAATTCTC-ATG-TTTC
1 -AAAAATTC-CGATGTTTTC
* *
11429719 ACAAATTTTCG-TGTTTT-
1 A-AAAATTCCGATGTTTTC
** *
11429736 AAAAATTTTTG-TGTTTTGAA
1 AAAAA-TTCCGATGTTTT--C
11429756 AAAAATTCTCG-TG-TTTC
1 AAAAATTC-CGATGTTTTC
*
11429773 AAAAATTTTCG-TGTTTT-
1 AAAAA-TTCCGATGTTTTC
11429790 AAAAATTTCCG-TG-TTTC
1 AAAAA-TTCCGATGTTTTC
11429807 TAAAAATTTCC-ATGTTTTC
1 -AAAAA-TTCCGATGTTTTC
*
11429826 AAAAATTTTCG-TGTTTTC
1 AAAAA-TTCCGATGTTTTC
*
11429844 TAAAAATTTTCG-TG-TTTC
1 -AAAAA-TTCCGATGTTTTC
*
11429862 AAAAATTTTC-ATGTTTTC
1 AAAAA-TTCCGATGTTTTC
*
11429880 AAAAATTTTCG-TGTTTTC
1 AAAAA-TTCCGATGTTTTC
* *
11429898 AAAATTTTCG-TGTTTTC
1 AAAAATTCCGATGTTTTC
*
11429915 AACAATTCTCG-TG-TTTC
1 AAAAATTC-CGATGTTTTC
* * *
11429932 ACAAATTTTCG-TG-TTTA
1 A-AAAATTCCGATGTTTTC
*** **
11429949 AAAAATTTTTATGTTTAA
1 AAAAATTCCGATGTTTTC
11429967 AAAAATTCTCG-TG-TTTC
1 AAAAATTC-CGATGTTTTC
* *
11429984 AAAAATTGTCG-TGTTTTT
1 AAAAATT-CCGATGTTTTC
* *
11430002 AAAATTTTCG-TG-TTTC
1 AAAAATTCCGATGTTTTC
11430018 AAAAATTCTCG-TG-TTTC
1 AAAAATTC-CGATGTTTTC
11430035 AAAAA
1 AAAAA
11430040 CTTTCTTTTT
Statistics
Matches: 423, Mismatches: 64, Indels: 100
0.72 0.11 0.17
Matches are distributed among these distances:
16 32 0.08
17 144 0.34
18 166 0.39
19 68 0.16
20 13 0.03
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.46
Consensus pattern (18 bp):
AAAAATTCCGATGTTTTC
Found at i:11429520 original size:18 final size:18
Alignment explanation
Indices: 11429499--11430044 Score: 464
Period size: 17 Copynumber: 30.8 Consensus size: 18
11429489 AATTCCGATG
*
11429499 TTTCAAAAATTTTCATGT
1 TTTCAAAAATTTTCGTGT
**
11429517 TTTCAAAAATTCCCGTGT
1 TTTCAAAAATTTTCGTGT
* * *
11429535 TTTCAAAAAATTCCAT-T
1 TTTCAAAAATTTTCGTGT
* *
11429552 TTTTAAAATTTTTCGTGT
1 TTTCAAAAATTTTCGTGT
* **
11429570 TTTCGAAAAA--TTCCTACA
1 TTTC-AAAAATTTTCGT-GT
* * *
11429588 TTTAAAAAATCTTT-ATTT
1 TTTCAAAAAT-TTTCGTGT
*
11429606 TTTCAAAAATCTTCGTGT
1 TTTCAAAAATTTTCGTGT
* *
11429624 TTCCAAAAA-TTCCGGTGAT
1 TTTCAAAAATTTTC-GTG-T
*
11429643 TTTAAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
11429661 TTTCTAAAAATTTACGTG-
1 TTTC-AAAAATTTTCGTGT
**
11429679 TTTCAAAAATTTTCAAGT
1 TTTCAAAAATTTTCGTGT
* *
11429697 TTTCAAAAAATTCTCATG-
1 TTTC-AAAAATTTTCGTGT
*
11429715 TTTCACAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
11429733 TTT-AAAAATTTTTGTGT
1 TTTCAAAAATTTTCGTGT
* *
11429750 TTTGAAAAAAATTCTCGTG-
1 TTT--CAAAAATTTTCGTGT
11429769 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
11429787 TTT-AAAAATTTCCGTG-
1 TTTCAAAAATTTTCGTGT
* *
11429803 TTTCTAAAAATTTCCATGT
1 TTTC-AAAAATTTTCGTGT
11429822 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
11429840 TTTCTAAAAATTTTCGTG-
1 TTTC-AAAAATTTTCGTGT
*
11429858 TTTCAAAAATTTTCATGT
1 TTTCAAAAATTTTCGTGT
11429876 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
11429894 TTTC-AAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
* *
11429911 TTTCAACAATTCTCGTG-
1 TTTCAAAAATTTTCGTGT
*
11429928 TTTCACAAATTTTCGTG-
1 TTTCAAAAATTTTCGTGT
* **
11429945 TTTAAAAAATTTTTATGT
1 TTTCAAAAATTTTCGTGT
** *
11429963 TTAAAAAAATTCTCGTG-
1 TTTCAAAAATTTTCGTGT
*
11429980 TTTCAAAAATTGTCGTGT
1 TTTCAAAAATTTTCGTGT
*
11429998 TTT-TAAAATTTTCGTG-
1 TTTCAAAAATTTTCGTGT
*
11430014 TTTCAAAAATTCTCGTG-
1 TTTCAAAAATTTTCGTGT
*
11430031 TTTCAAAAACTTTC
1 TTTCAAAAATTTTC
11430045 TTTTTTTTAA
Statistics
Matches: 427, Mismatches: 74, Indels: 55
0.77 0.13 0.10
Matches are distributed among these distances:
16 6 0.01
17 188 0.44
18 158 0.37
19 59 0.14
20 16 0.04
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:11429525 original size:35 final size:34
Alignment explanation
Indices: 11429486--11430044 Score: 337
Period size: 36 Copynumber: 15.8 Consensus size: 34
11429476 GTGTTTTAAA
*
11429486 AAAAATTCCGATGTTTCAAAAATTTTCATGTTTTC
1 AAAAATTCCG-TGTTTCAAAAATTTTCGTGTTTTC
* * * *
11429521 AAAAATTCCCGTGTTTTCAAAAAATTCCAT-TTTTT
1 AAAAATT-CCGTG-TTTCAAAAATTTTCGTGTTTTC
* * * ** *
11429556 AAAATTTTTCGTGTTTTCGAAAAA--TTCCTACATTTA
1 AAAA-ATTCCGTG-TTTC-AAAAATTTTCGT-GTTTTC
*** * * *
11429592 AAAAATCTTTATTTTTTCAAAAATCTTCGTGTTTCC
1 AAAAA--TTCCGTGTTTCAAAAATTTTCGTGTTTTC
*
11429628 AAAAATTCCGGTGATTTTAAAAAATTTTCGTGTTTTC
1 AAAAATTCC-GTG--TTTCAAAAATTTTCGTGTTTTC
* **
11429665 TAAAAATTTACGTGTTTCAAAAATTTTCAAGTTTTC
1 -AAAAA-TTCCGTGTTTCAAAAATTTTCGTGTTTTC
* *
11429701 AAAAAATTCTCATGTTTCACAAATTTTCGTGTTTT-
1 -AAAAATTC-CGTGTTTCAAAAATTTTCGTGTTTTC
** * *
11429736 AAAAATTTTTGTGTTTTGAAAAAAATTCTCGTG-TTTC
1 AAAAA-TTCCGTG-TTT--CAAAAATTTTCGTGTTTTC
* * *
11429773 AAAAATTTTCGTGTTTTAAAAATTTCCGTG-TTTC
1 AAAAA-TTCCGTGTTTCAAAAATTTTCGTGTTTTC
*
11429807 TAAAAATTTCCATGTTTTCAAAAATTTTCGTGTTTTC
1 -AAAAA-TTCCGTG-TTTCAAAAATTTTCGTGTTTTC
* *
11429844 TAAAAATTTTCGTGTTTCAAAAATTTTCATGTTTTC
1 -AAAAA-TTCCGTGTTTCAAAAATTTTCGTGTTTTC
*
11429880 AAAAATTTTCGTGTTTTC-AAAATTTTCGTGTTTTC
1 AAAAA-TTCCGTG-TTTCAAAAATTTTCGTGTTTTC
* * *
11429915 AACAATTCTCGTGTTTCACAAATTTTCGTG-TTTA
1 AAAAATTC-CGTGTTTCAAAAATTTTCGTGTTTTC
*** * *
11429949 AAAAATTTTTATGTTTAAAAAAATTCTCGTG-TTTC
1 AAAAA-TTCCGTGTTT-CAAAAATTTTCGTGTTTTC
* **
11429984 AAAAATTGTCGTGTTTTTAAAATTTTCGTG-TTTC
1 AAAAATT-CCGTGTTTCAAAAATTTTCGTGTTTTC
*
11430018 AAAAATTCTCGTGTTTCAAAAACTTTC
1 AAAAATTC-CGTGTTTCAAAAATTTTC
11430045 TTTTTTTTAA
Statistics
Matches: 419, Mismatches: 74, Indels: 63
0.75 0.13 0.11
Matches are distributed among these distances:
34 84 0.20
35 125 0.30
36 133 0.32
37 66 0.16
38 8 0.02
39 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.46
Consensus pattern (34 bp):
AAAAATTCCGTGTTTCAAAAATTTTCGTGTTTTC
Found at i:11429580 original size:54 final size:53
Alignment explanation
Indices: 11429468--11430044 Score: 409
Period size: 54 Copynumber: 10.8 Consensus size: 53
11429458 ATAAAAATTG
* * *
11429468 AAAAA-TT-CGTGTTTTAAAAAAAATTCCGATGTTTCAAAAATTTTCATGTTTTC
1 AAAAATTTCCGTGTTTT-CAAAAAATTCC-ATTTTTCAAAAATTTTCGTGTTTTC
* * *
11429521 AAAAATTCCCGTGTTTTCAAAAAATTCCATTTTTTAAAATTTTTCGTGTTTTC
1 AAAAATTTCCGTGTTTTCAAAAAATTCCATTTTTCAAAAATTTTCGTGTTTTC
** ** * *
11429574 GAAAAA-TTCC-TACATTT-AAAAAATCTTTATTTTTTCAAAAATCTTCGTGTTTCC
1 -AAAAATTTCCGT-GTTTTCAAAAAAT-TCCA-TTTTTCAAAAATTTTCGTGTTTTC
* * *
11429628 AAAAA-TTCCGGTGATTTT-AAAAAATTTTCGTGTTTTCTAAAAATTTACGTG-TTTC
1 AAAAATTTCC-GTG-TTTTCAAAAAA-TTCCAT-TTTTC-AAAAATTTTCGTGTTTTC
* ** * *
11429683 AAAAATTTTCAAGTTTTCAAAAAATTCTCATGTTTCACAAATTTTCGTGTTTT-
1 AAAAATTTCCGTGTTTTCAAAAAATTC-CATTTTTCAAAAATTTTCGTGTTTTC
** * * *
11429736 AAAAATTTTTGTGTTTTGAAAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTT-
1 AAAAATTTCCGTGTTTT-CAAAAAATTC-CATTTTTCAAAAATTTTCGTGTTTTC
*
11429790 AAAAATTTCCGTG-TTTCTAAAAATTTCCATGTTTTCAAAAATTTTCGTGTTTTC
1 AAAAATTTCCGTGTTTTC-AAAAAATTCCAT-TTTTCAAAAATTTTCGTGTTTTC
* * *
11429844 TAAAAATTTTCGTG-TTTCAAAAATTTTCATGTTTTCAAAAATTTTCGTGTTTTC
1 -AAAAATTTCCGTGTTTTCAAAAAATTCCAT-TTTTCAAAAATTTTCGTGTTTTC
* * * * * *
11429898 -AAAATTTTCGTGTTTTC-AACAATTCTCGTGTTTCACAAATTTTCGTG-TTTA
1 AAAAATTTCCGTGTTTTCAAAAAATTC-CATTTTTCAAAAATTTTCGTGTTTTC
*** * * * *
11429949 AAAAATTTTTATG-TTTAAAAAAATTCTCGTGTTTCAAAAATTGTCGTGTTTT-
1 AAAAATTTCCGTGTTTTCAAAAAATTC-CATTTTTCAAAAATTTTCGTGTTTTC
* * * * *
11430001 TAAAATTTTCGTG-TTTC-AAAAATTCTCGTGTTTCAAAAACTTTC
1 AAAAATTTCCGTGTTTTCAAAAAATTC-CATTTTTCAAAAATTTTC
11430045 TTTTTTTTAA
Statistics
Matches: 435, Mismatches: 63, Indels: 54
0.79 0.11 0.10
Matches are distributed among these distances:
51 31 0.07
52 93 0.21
53 109 0.25
54 129 0.30
55 58 0.13
56 15 0.03
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.46
Consensus pattern (53 bp):
AAAAATTTCCGTGTTTTCAAAAAATTCCATTTTTCAAAAATTTTCGTGTTTTC
Found at i:11438723 original size:76 final size:76
Alignment explanation
Indices: 11438453--11439288 Score: 1030
Period size: 76 Copynumber: 10.9 Consensus size: 76
11438443 TCAAGAATTA
* * * *
11438453 TATTTTTCAATTTCTGTTTTTGAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTC
1 TATTTTTCAAATTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
* * *
11438518 GCATGTCGAGG
66 ACACGCCGAGG
* *
11438529 TATTTCTTTTAAATTTCT-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
1 TA-TT-TTTCAAA-TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
*
11438593 GT--CACGCTGAGG
63 GTCACACGCCGAGG
* * * *
11438605 GA-TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGT
1 TATTTTTCAAATTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
11438669 CACACGCTGAGG
65 CACACGCCGAGG
*
11438681 TATTTTTCAAATTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTC
1 TATTTTTCAAATTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
*
11438746 ACACGCCGATG
66 ACACGCCGAGG
* *
11438757 TATTTTTC-AATTGCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGAGT
1 TATTTTTCAAATT-CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* *
11438821 CACATGCCGATG
65 CACACGCCGAGG
* *
11438833 TATTTCTTTTAAATTTCT-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
1 TA-TT-TTTCAAA-TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* **
11438897 GT--TACGCTAAGG
63 GTCACACGCCGAGG
* * *
11438909 TA-TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGT
1 TATTTTTCAAATTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* *
11438973 CACACACTGAGG
65 CACACGCCGAGG
* * *
11438985 TATTTTTC-AATTTTGGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGGCTTGGGT
1 TATTTTTCAAATTCT-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
11439049 CATACGCCGAGG
65 CACACGCCGAGG
*
11439061 TATTTTT-AAATTGCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTCAAATT-CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
11439125 CACATGCCGAGG
65 CACACGCCGAGG
* * * *
11439137 TATTTCTTTTAAATT-TATTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTGG
1 TA-TT-TTTCAAATTCT-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
* *
11439201 GTCGCATGCCGAGG
63 GTCACACGCCGAGG
* *
11439215 TATTCTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 TATT-TTTCAAA-TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
11439280 TCGCACGCC
64 TCACACGCC
11439289 AAGCTATTCT
Statistics
Matches: 673, Mismatches: 60, Indels: 52
0.86 0.08 0.07
Matches are distributed among these distances:
72 8 0.01
73 22 0.03
74 84 0.12
75 4 0.01
76 275 0.41
77 48 0.07
78 216 0.32
79 14 0.02
80 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (76 bp):
TATTTTTCAAATTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
ACACGCCGAGG
Found at i:11439006 original size:304 final size:304
Alignment explanation
Indices: 11438453--11439281 Score: 1322
Period size: 304 Copynumber: 2.7 Consensus size: 304
11438443 TCAAGAATTA
* * *
11438453 TATTTTTCAATTTCTGTTTTTGAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-AGGT
1 TATTTTTCAATTGCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA-GT
* *
11438517 CGCATGTCGAGGTATTTCTTTTAAATTTCTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAG
65 CACATGCCGAGGTATTTCTTTTAAATTTCTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAG
*
11438582 TTGAGCCTCGGGTCACGCTGAGGGATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCG
130 TTGAGCCTCGGGTCACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCG
*
11438647 AGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTCAAATTCTGTTTTTCAAAAATCAA
195 AGAGGTGAGTTGAGCCTCAGGTCACACACTGAGGTATTTTTCAAATTCTGTTTTTCAAAAATCAA
*
11438712 CTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACACGCCGATG
260 CTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACACGCCGAGG
*
11438757 TATTTTTCAATTGCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGAGTC
1 TATTTTTCAATTGCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTC
*
11438822 ACATGCCGATGTATTTCTTTTAAATTTCTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGT
66 ACATGCCGAGGTATTTCTTTTAAATTTCTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGT
* *
11438887 TGAGCCTCGGGTTACGCTAAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGA
131 TGAGCCTCGGGTCACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGA
*
11438952 GAGGTGAGTTGAGCCTCAGGTCACACACTGAGGTATTTTTC-AATTTTGGTTTTTCAAAAATCAA
196 GAGGTGAGTTGAGCCTCAGGTCACACACTGAGGTATTTTTCAAATTCT-GTTTTTCAAAAATCAA
* *
11439016 CTCATATTGCGAGAGGTGAGTTGAGGCTTGGGTCATACGCCGAGG
260 CTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACACGCCGAGG
* * *
11439061 TATTTTTAAATTGCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
1 TATTTTTCAATTGCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTC
* * *
11439126 ACATGCCGAGGTATTTCTTTTAAATTTATTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGT
66 ACATGCCGAGGTATTTCTTTTAAATTTCTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGT
* * * * * *
11439191 TGAGCCTTGGGTCGCATGCCGAGGTATTCTTTTAAATTTCTATTTTTC-AAAAATCAACTCATAT
131 TGAGCCTCGGGT--CACGCTGAGGTA---TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAA
*
11439255 TGCGAGAGGTGAGTTGAGCCTCGGGTC
191 TGCGAGAGGTGAGTTGAGCCTCAGGTC
11439282 GCACGCCAAG
Statistics
Matches: 486, Mismatches: 32, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
303 5 0.01
304 414 0.85
305 1 0.00
306 8 0.02
308 41 0.08
309 17 0.03
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (304 bp):
TATTTTTCAATTGCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTC
ACATGCCGAGGTATTTCTTTTAAATTTCTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGT
TGAGCCTCGGGTCACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATGCGA
GAGGTGAGTTGAGCCTCAGGTCACACACTGAGGTATTTTTCAAATTCTGTTTTTCAAAAATCAAC
TCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACACGCCGAGG
Found at i:11439448 original size:30 final size:30
Alignment explanation
Indices: 11439412--11439547 Score: 143
Period size: 30 Copynumber: 4.6 Consensus size: 30
11439402 GGGCAGTTGT
11439412 AATTACATTTTGACCCCTAAACATTT-TCAA
1 AATTACATTTTGACCCCTAAAC-TTTCTCAA
* ** * * *
11439442 ATTTACATTTCAACCCCTAAACATTAT-GA
1 AATTACATTTTGACCCCTAAACTTTCTCAA
* *
11439471 AATTATATTTTGACCTCTAAACTTTCTCAA
1 AATTACATTTTGACCCCTAAACTTTCTCAA
11439501 AATTACGA-TTTGACCCCTAAACTTTCTCAA
1 AATTAC-ATTTTGACCCCTAAACTTTCTCAA
**
11439531 AATTATGTTTTGACCCC
1 AATTACATTTTGACCCC
11439548 AAAAGTTTTG
Statistics
Matches: 85, Mismatches: 17, Indels: 8
0.77 0.15 0.07
Matches are distributed among these distances:
29 23 0.27
30 61 0.72
31 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.38
Consensus pattern (30 bp):
AATTACATTTTGACCCCTAAACTTTCTCAA
Found at i:11439485 original size:59 final size:60
Alignment explanation
Indices: 11439412--11439547 Score: 161
Period size: 59 Copynumber: 2.3 Consensus size: 60
11439402 GGGCAGTTGT
* * *
11439412 AATTACATTTTGACCCCTAAACATTT-TCAAATTTAC-ATTTCAACCCCTAAACATTAT-GA
1 AATTATATTTTGACCCCTAAAC-TTTCTCAAAATTACGATTT-AACCCCTAAACATTATCAA
* * * *
11439471 AATTATATTTTGACCTCTAAACTTTCTCAAAATTACGATTTGACCCCTAAACTTTCTCAA
1 AATTATATTTTGACCCCTAAACTTTCTCAAAATTACGATTTAACCCCTAAACATTATCAA
*
11439531 AATTATGTTTTGACCCC
1 AATTATATTTTGACCCC
11439548 AAAAGTTTTG
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
58 3 0.05
59 42 0.65
60 20 0.31
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.38
Consensus pattern (60 bp):
AATTATATTTTGACCCCTAAACTTTCTCAAAATTACGATTTAACCCCTAAACATTATCAA
Found at i:11439905 original size:35 final size:35
Alignment explanation
Indices: 11439852--11439919 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 35
11439842 TAACTAGCAA
11439852 AACAACCAAAAAGCAAAAAAAA-AAGAGAGAAAAAT
1 AACAACCAAAAAGCAAAAAAAAGAA-AGAGAAAAAT
*
11439887 AACAAGCAAAAGAG-AAAAAAAAGAAAGAGAAAA
1 AACAACCAAAA-AGCAAAAAAAAGAAAGAGAAAA
11439920 GAAGAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 26 0.87
36 4 0.13
ACGTcount: A:0.75, C:0.09, G:0.15, T:0.01
Consensus pattern (35 bp):
AACAACCAAAAAGCAAAAAAAAGAAAGAGAAAAAT
Found at i:11439926 original size:14 final size:15
Alignment explanation
Indices: 11439868--11439919 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
11439858 CAAAAAGCAA
*
11439868 AAAAAAAAGAGAGA-
1 AAAAAAAAGAAAGAG
11439882 AAAATAACAAGCAAAAGAG
1 AAAA-AA-AAG--AAAGAG
11439901 AAAAAAAAGAAAGAG
1 AAAAAAAAGAAAGAG
11439916 AAAA
1 AAAA
11439920 GAAGAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
14 4 0.12
15 12 0.38
16 3 0.09
17 3 0.09
18 6 0.19
19 4 0.12
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.02
Consensus pattern (15 bp):
AAAAAAAAGAAAGAG
Found at i:11440050 original size:16 final size:15
Alignment explanation
Indices: 11440029--11440106 Score: 68
Period size: 16 Copynumber: 5.0 Consensus size: 15
11440019 GGTTGATTGG
11440029 GAAAGAAAAAAAAAGA
1 GAAAGAAAAAAAAA-A
* *
11440045 GAAAG-AAAAGAGAA
1 GAAAGAAAAAAAAAA
*
11440059 GAAAGAAAGAAAGAAA
1 GAAAGAAA-AAAAAAA
* *
11440075 GAAGGAAGAAGAAAAA
1 GAAAGAA-AAAAAAAA
11440091 GAAAGAAAAAATAAAA
1 GAAAGAAAAAA-AAAA
11440107 AAATTAATTT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
14 6 0.12
15 11 0.23
16 30 0.62
17 1 0.02
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (15 bp):
GAAAGAAAAAAAAAA
Found at i:11440051 original size:4 final size:4
Alignment explanation
Indices: 11440029--11440098 Score: 63
Period size: 4 Copynumber: 17.0 Consensus size: 4
11440019 GGTTGATTGG
*
11440029 GAAA GAAA -AAA AAAGA GAAA GAAAA GAGAA GAAA GAAA GAAA GAAA G-AA
1 GAAA GAAA GAAA GAA-A GAAA G-AAA GA-AA GAAA GAAA GAAA GAAA GAAA
* *
11440078 GGAA GAAGA AAAA GAAA GAAA
1 GAAA GAA-A GAAA GAAA GAAA
11440099 AAATAAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
3 6 0.11
4 36 0.64
5 14 0.25
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:11440062 original size:26 final size:26
Alignment explanation
Indices: 11440031--11440096 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
11440021 TTGATTGGGA
11440031 AAGAAAAAAAAAGAGAAAGAAA-AGAG
1 AAGAAAAAAAAAGAGAAAGAAAGA-AG
* *
11440057 AAGAAAGAAAGAA-AGAAAGAAGGAAG
1 AAGAAA-AAAAAAGAGAAAGAAAGAAG
*
11440083 AAGAAAAAGAAAGA
1 AAGAAAAAAAAAGA
11440097 AAAAATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 4 0.12
26 23 0.70
27 6 0.18
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (26 bp):
AAGAAAAAAAAAGAGAAAGAAAGAAG
Found at i:11440100 original size:11 final size:11
Alignment explanation
Indices: 11440030--11440101 Score: 65
Period size: 11 Copynumber: 6.3 Consensus size: 11
11440020 GTTGATTGGG
*
11440030 AAAGAAAAAAA
1 AAAGAAAGAAA
11440041 AAGAGAAAGAAA
1 AA-AGAAAGAAA
*
11440053 AGAG-AAGAAA
1 AAAGAAAGAAA
11440063 GAAAGAAAGAAA
1 -AAAGAAAGAAA
* *
11440075 GAAGGAAGAAGAA
1 AAAGAAAG-A-AA
11440088 AAAGAAAGAAA
1 AAAGAAAGAAA
11440099 AAA
1 AAA
11440102 TAAAAAAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
10 6 0.12
11 18 0.37
12 17 0.35
13 8 0.16
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAAGAAAGAAA
Found at i:11440167 original size:17 final size:17
Alignment explanation
Indices: 11440141--11440185 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
11440131 GACCCGACCT
11440141 GACCCGACCCAACTGAC
1 GACCCGACCCAACTGAC
* *
11440158 GACTCGACCCGACTGAC
1 GACCCGACCCAACTGAC
*
11440175 GGCCCGACCCA
1 GACCCGACCCA
11440186 GCATCTTCAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.24, C:0.47, G:0.22, T:0.07
Consensus pattern (17 bp):
GACCCGACCCAACTGAC
Found at i:11440769 original size:19 final size:17
Alignment explanation
Indices: 11440739--11440796 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
11440729 AAAATACTCA
11440739 AAAAAATTCGTGTTTTC
1 AAAAAATTCGTGTTTTC
11440756 AAAAAATTCCCGTGTTTT-
1 AAAAAATT--CGTGTTTTC
* ** *
11440774 GAAATTTTCGTGTCTTC
1 AAAAAATTCGTGTTTTC
11440791 AAAAAA
1 AAAAAA
11440797 AATTTTCTCT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 7 0.23
17 11 0.35
18 5 0.16
19 8 0.26
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (17 bp):
AAAAAATTCGTGTTTTC
Found at i:11440980 original size:18 final size:18
Alignment explanation
Indices: 11440959--11441428 Score: 95
Period size: 18 Copynumber: 26.3 Consensus size: 18
11440949 CGCGTTTTAA
11440959 AAAAAATTCCGATG-TTTC
1 AAAAAATTCC-ATGTTTTC
* *
11440977 AAAAATTTTCATGTTTTC
1 AAAAAATTCCATGTTTTC
*
11440995 -AAAAATTCTCGTGTTTTC
1 AAAAAATTC-CATGTTTTC
*
11441013 AAAAAATTCCA--TTTTA
1 AAAAAATTCCATGTTTTC
* *
11441029 AAAAAATTTTTCGTGTTTTC
1 AAAAAA--TTCCATGTTTTC
* * *
11441049 GAAAAATT-CTTGCATTT-
1 AAAAAATTCCATG-TTTTC
* *
11441066 AAAAAATCTTCATTTTTTC
1 AAAAAAT-TCCATGTTTTC
* *
11441085 -AAAAATCTTCGTG-TTTC
1 AAAAAAT-TCCATGTTTTC
*
11441102 CAAAAATTCCAGTGATTTT-
1 AAAAAATTCCA-TG-TTTTC
* *
11441121 AAAAAATTTTCGTGTTTTC
1 AAAAAA-TTCCATGTTTTC
* *
11441140 TAAAAATTTCCGTG-TTTC
1 -AAAAAATTCCATGTTTTC
* *
11441158 AAAAATTTTCATG-TTTC
1 AAAAAATTCCATGTTTTC
*
11441175 AAAAAATTTCA-GTGTTTC
1 AAAAAATTCCATGT-TTTC
* * * *
11441193 ACAAATTTTCGTGTTTT-
1 AAAAAATTCCATGTTTTC
* *** *
11441210 AAAAATTTTTGTGTTTTG
1 AAAAAATTCCATGTTTTC
*
11441228 AAAAAATTCTCCTG-TTTC
1 AAAAAATTC-CATGTTTTC
* *
11441246 -AAAAATTGTCGTGTTTT-
1 AAAAAATT-CCATGTTTTC
* *
11441263 AAAAATTTTCATG-TTTC
1 AAAAAATTCCATGTTTTC
* * *
11441280 TAAAAATTTTCGTGTTTTC
1 -AAAAAATTCCATGTTTTC
* * *
11441299 AAAAATTTTCGTGTTTTC
1 AAAAAATTCCATGTTTTC
** *
11441317 TAAAAGTTTCCGTG-TTT-
1 -AAAAAATTCCATGTTTTC
* *
11441334 AAAAAATTTTCGTGTTTTC
1 AAAAAA-TTCCATGTTTTC
* *
11441353 -AACAATTCTCGTG-TTTC
1 AAAAAATTC-CATGTTTTC
* * *
11441370 ACAAATTTTCATGTTTT-
1 AAAAAATTCCATGTTTTC
* ** *
11441387 AAAAATTTTTATGTTTTAA
1 AAAAAATTCCATGTTTT-C
*
11441406 AAAAAATTCTCGTG-TTTC
1 AAAAAATTC-CATGTTTTC
11441424 AAAAA
1 AAAAA
11441429 TTGTCGTGTT
Statistics
Matches: 350, Mismatches: 63, Indels: 78
0.71 0.13 0.16
Matches are distributed among these distances:
16 18 0.05
17 108 0.31
18 150 0.43
19 52 0.15
20 22 0.06
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (18 bp):
AAAAAATTCCATGTTTTC
Found at i:11440999 original size:35 final size:34
Alignment explanation
Indices: 11440960--11441538 Score: 365
Period size: 35 Copynumber: 16.3 Consensus size: 34
11440950 GCGTTTTAAA
*
11440960 AAAAATTCCGATGTTTCAAAAATTTTCATGTTTTC
1 AAAAATTTCG-TGTTTCAAAAATTTTCATGTTTTC
* * **
11440995 AAAAATTCTCGTGTTTTCAAAAAATTCCAT-TTTAA
1 AAAAATT-TCGTG-TTTCAAAAATTTTCATGTTTTC
*
11441030 AAAAATTTTTCGTGTTTTCGAAAAATTCTTGCA---TTTA
1 AAAAA--TTTCGTG-TTTC-AAAAATT-TT-CATGTTTTC
* * * * *
11441067 AAAAATCTTCATTTTTTCAAAAATCTTCGTGTTTCC
1 AAAAAT-TTC-GTGTTTCAAAAATTTTCATGTTTTC
* * *
11441103 AAAAATTCCAGTGATTTTAAAAAATTTTCGTGTTTTC
1 AAAAATTTC-GTG--TTTCAAAAATTTTCATGTTTTC
11441140 TAAAAATTTCCGTGTTTCAAAAATTTTCATG-TTTC
1 -AAAAATTT-CGTGTTTCAAAAATTTTCATGTTTTC
* *
11441175 AAAAAATTTCAGTGTTTCACAAATTTTCGTGTTTT-
1 -AAAAATTTC-GTGTTTCAAAAATTTTCATGTTTTC
* * * *
11441210 AAAAATTTTTGTGTTTTGAAAAAATTCTCCTG-TTTC
1 AAAAA-TTTCGTG-TTT-CAAAAATTTTCATGTTTTC
*
11441246 AAAAATTGTCGTGTTTTAAAAATTTTCATG-TTTC
1 AAAAATT-TCGTGTTTCAAAAATTTTCATGTTTTC
*
11441280 TAAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTTC
1 -AAAAA-TTTCGTG-TTTCAAAAATTTTCATGTTTTC
* * *
11441317 TAAAAGTTTCCGTGTTTAAAAAATTTTCGTGTTTTC
1 -AAAAATTT-CGTGTTTCAAAAATTTTCATGTTTTC
* *
11441353 AACAATTCTCGTGTTTCACAAATTTTCATGTTTT-
1 AAAAATT-TCGTGTTTCAAAAATTTTCATGTTTTC
** * **
11441387 AAAAATTTTTATGTTTTAAAAAAAATTC-TCGTGTTTC
1 AAAAA-TTTCGTG-TTTCAAAAATTTTCAT-GT-TTTC
***
11441424 AAAAATTGTCGTGTTTTTTAAATTTTCATG-TTTC
1 AAAAATT-TCGTGTTTCAAAAATTTTCATGTTTTC
***
11441458 AAAAATTGTCGTGTTTTTTAAATTTTCATG-TTTC
1 AAAAATT-TCGTGTTTCAAAAATTTTCATGTTTTC
* * *
11441492 AAAAATTTTCGTATTTTCAAAAATTCTCGTG-TTTC
1 AAAAA-TTTCGT-GTTTCAAAAATTTTCATGTTTTC
11441527 AAAAACTTTCGT
1 AAAAA-TTTCGT
11441539 TTTTTTAAAA
Statistics
Matches: 441, Mismatches: 65, Indels: 76
0.76 0.11 0.13
Matches are distributed among these distances:
33 1 0.00
34 81 0.18
35 152 0.34
36 135 0.31
37 58 0.13
38 11 0.02
39 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (34 bp):
AAAAATTTCGTGTTTCAAAAATTTTCATGTTTTC
Found at i:11441385 original size:71 final size:70
Alignment explanation
Indices: 11440959--11441536 Score: 401
Period size: 71 Copynumber: 8.1 Consensus size: 70
11440949 CGCGTTTTAA
* * * * * *
11440959 AAAAAATTCCGATGTTTCAAAAATTTTCATGTTTTCAAAAATTCTCGTGTTTTCAAAAAATTCCA
1 AAAAATTTCCG-TGTTTAAAAAATTTTCGTGTTTTCAAAAATTTTCGTG-TTTCAAAAATTTTCA
**
11441024 T-TTTAA
64 TGTTTCT
* * ** * * * * *
11441030 AAAAATTTTTCGTGTTTTCGAAAAATTCTT-G-CATTTAAAAAATCTTCATTTTTTCAAAAATCT
1 AAAAA-TTTCCGTG-TTT-AAAAAATT-TTCGTGTTTTCAAAAATTTTC-GTGTTTCAAAAATTT
* *
11441093 TCGTGTTTCC
61 TCATGTTTCT
*
11441103 AAAAA-TTCCAGTGATTTTAAAAAATTTTCGTGTTTTCTAAAAATTTCCGTGTTTCAAAAATTTT
1 AAAAATTTCC-GTG--TTTAAAAAATTTTCGTGTTTTC-AAAAATTTTCGTGTTTCAAAAATTTT
*
11441167 CATGTTTCA
62 CATGTTTCT
* * * * * * *
11441176 AAAAATTTCAGTGTTTCACAAATTTTCGTGTTTT-AAAAATTTTTGTGTTTTGAAAAAATTCTCC
1 AAAAATTTCCGTGTTTAAAAAATTTTCGTGTTTTCAAAAATTTTCGTG-TTT-CAAAAATTTTCA
11441240 TGTTTC-
64 TGTTTCT
* *
11441246 AAAAATTGT-CGTGTTTTAAAAATTTTCATG-TTTCTAAAAATTTTCGTGTTTTCAAAAATTTTC
1 AAAAATT-TCCGTGTTTAAAAAATTTTCGTGTTTTC-AAAAATTTTCGTG-TTTCAAAAATTTTC
*
11441309 GTGTTTTCT
63 ATG-TTTCT
* * * *
11441318 AAAAGTTTCCGTGTTTAAAAAATTTTCGTGTTTTCAACAATTCTCGTGTTTCACAAATTTTCATG
1 AAAAATTTCCGTGTTTAAAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTCAAAAATTTTCATG
11441383 TTT-T
66 TTTCT
*** * * ***
11441387 AAAAATTTTTATGTTTTAAAAAAAATTCTCGTG-TTTCAAAAATTGTCGTGTTTTTTAAATTTTC
1 AAAAATTTCCGTG-TTT--AAAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTCAAAAATTTTC
11441451 ATGTTTC-
63 ATGTTTCT
*** * * * *
11441458 AAAAATTGT-CGTGTTTTTTAAATTTTCATG-TTTCAAAAATTTTCGTATTTTCAAAAATTCTCG
1 AAAAATT-TCCGTGTTTAAAAAATTTTCGTGTTTTCAAAAATTTTCGT-GTTTCAAAAATTTTCA
11441521 TGTTTC-
64 TGTTTCT
11441527 AAAAACTTTC
1 AAAAA-TTTC
11441537 GTTTTTTTAA
Statistics
Matches: 402, Mismatches: 76, Indels: 59
0.75 0.14 0.11
Matches are distributed among these distances:
68 24 0.06
69 46 0.11
70 49 0.12
71 124 0.31
72 91 0.23
73 55 0.14
74 13 0.03
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (70 bp):
AAAAATTTCCGTGTTTAAAAAATTTTCGTGTTTTCAAAAATTTTCGTGTTTCAAAAATTTTCATG
TTTCT
Found at i:11441511 original size:18 final size:18
Alignment explanation
Indices: 11440973--11441549 Score: 447
Period size: 17 Copynumber: 32.5 Consensus size: 18
11440963 AATTCCGATG
*
11440973 TTTCAAAAATTTTCATGT
1 TTTCAAAAATTTTCGTGT
*
11440991 TTTCAAAAATTCTCGTGT
1 TTTCAAAAATTTTCGTGT
* * *
11441009 TTTCAAAAAATTCCAT-T
1 TTTCAAAAATTTTCGTGT
**
11441026 TTAAAAAAATTTTTCGTGT
1 TTTCAAAAA-TTTTCGTGT
**
11441045 TTTCGAAAAATTCTT-G-CA
1 TTTC-AAAAATT-TTCGTGT
* * * *
11441063 TTTAAAAAATCTTCATTT
1 TTTCAAAAATTTTCGTGT
*
11441081 TTTCAAAAATCTTCGTGT
1 TTTCAAAAATTTTCGTGT
* *
11441099 TTCCAAAAA-TTCCAGTGAT
1 TTTCAAAAATTTTC-GTG-T
*
11441118 TTTAAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
11441136 TTTCTAAAAATTTCCGTG-
1 TTTC-AAAAATTTTCGTGT
*
11441154 TTTCAAAAATTTTCATG-
1 TTTCAAAAATTTTCGTGT
*
11441171 TTTCAAAAAATTTCAGTG-
1 TTTCAAAAATTTTC-GTGT
*
11441189 TTTCACAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
*
11441207 TTT-AAAAATTTTTGTGT
1 TTTCAAAAATTTTCGTGT
* * *
11441224 TTTGAAAAAATTCTCCTG-
1 TTT-CAAAAATTTTCGTGT
*
11441242 TTTCAAAAATTGTCGTGT
1 TTTCAAAAATTTTCGTGT
*
11441260 TTT-AAAAATTTTCATG-
1 TTTCAAAAATTTTCGTGT
11441276 TTTCTAAAAATTTTCGTGT
1 TTTC-AAAAATTTTCGTGT
11441295 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
* *
11441313 TTTCTAAAAGTTTCCGTG-
1 TTTC-AAAAATTTTCGTGT
*
11441331 TTTAAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
* *
11441349 TTTCAACAATTCTCGTG-
1 TTTCAAAAATTTTCGTGT
* *
11441366 TTTCACAAATTTTCATGT
1 TTTCAAAAATTTTCGTGT
**
11441384 TTT-AAAAATTTTTATGT
1 TTTCAAAAATTTTCGTGT
* *
11441401 TTTAAAAAAAATTCTCGTG-
1 TTT--CAAAAATTTTCGTGT
*
11441420 TTTCAAAAATTGTCGTGT
1 TTTCAAAAATTTTCGTGT
** *
11441438 TTT-TTAAATTTTCATG-
1 TTTCAAAAATTTTCGTGT
*
11441454 TTTCAAAAATTGTCGTGT
1 TTTCAAAAATTTTCGTGT
** *
11441472 TTT-TTAAATTTTCATG-
1 TTTCAAAAATTTTCGTGT
*
11441488 TTTCAAAAATTTTCGTAT
1 TTTCAAAAATTTTCGTGT
*
11441506 TTTCAAAAATTCTCGTG-
1 TTTCAAAAATTTTCGTGT
* *
11441523 TTTCAAAAACTTTCGTTT
1 TTTCAAAAATTTTCGTGT
*
11441541 TTTTAAAAA
1 TTTCAAAAA
11441550 AATCGTGCTT
Statistics
Matches: 440, Mismatches: 89, Indels: 60
0.75 0.15 0.10
Matches are distributed among these distances:
16 11 0.03
17 181 0.41
18 171 0.39
19 57 0.13
20 20 0.05
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.47
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:11443281 original size:16 final size:18
Alignment explanation
Indices: 11443246--11443283 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11443236 ATCCTTATTT
*
11443246 AAATAAAATACAGTAGTA
1 AAATAAAATACAGAAGTA
11443264 AAATAAAATA-A-AAGTA
1 AAATAAAATACAGAAGTA
11443280 AAAT
1 AAAT
11443284 CCATATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAGAAGTA
Found at i:11456502 original size:19 final size:19
Alignment explanation
Indices: 11456489--11456526 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11456479 AAAAAAACCT
11456489 GAAAAATGAAAAAAAAAAA
1 GAAAAATGAAAAAAAAAAA
*
11456508 GAGAAATGAAAAAAAAAAA
1 GAAAAATGAAAAAAAAAAA
11456527 CTAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (19 bp):
GAAAAATGAAAAAAAAAAA
Found at i:11456524 original size:24 final size:25
Alignment explanation
Indices: 11456488--11456537 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
11456478 AAAAAAAACC
11456488 TGAAAAATGAAAAAAAAAAAGAGAAA
1 TGAAAAA-GAAAAAAAAAAAGAGAAA
**
11456514 TGAAAAA-AAAAAACTAAAGAGAAA
1 TGAAAAAGAAAAAAAAAAAGAGAAA
11456538 AAAAAGTCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
26 7 0.32
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.08
Consensus pattern (25 bp):
TGAAAAAGAAAAAAAAAAAGAGAAA
Found at i:11456851 original size:21 final size:21
Alignment explanation
Indices: 11456827--11456866 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11456817 TTTATCAGTA
* *
11456827 ATTCCATTTCATTTATATTAT
1 ATTCCATATCATATATATTAT
*
11456848 ATTCTATATCATATATATT
1 ATTCCATATCATATATATT
11456867 TTAAAATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTCCATATCATATATATTAT
Found at i:11461334 original size:41 final size:41
Alignment explanation
Indices: 11461273--11461422 Score: 239
Period size: 41 Copynumber: 3.7 Consensus size: 41
11461263 TTTAACATAT
*
11461273 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCA-A
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT-CAGA
* *
11461314 TCACCGGCACTTAGCTTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
11461355 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
11461396 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
11461423 AAGTCCGAAT
Statistics
Matches: 102, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 2 0.02
41 100 0.98
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:11461441 original size:82 final size:82
Alignment explanation
Indices: 11461272--11461471 Score: 241
Period size: 82 Copynumber: 2.4 Consensus size: 82
11461262 ATTTAACATA
* * * *
11461272 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCAATCACCGGCACTTAGCTTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCCAATCACCGGCACTTAGCCTGCTAGA
*
11461337 TTTATAACCTGATTCAG
66 CTTATAACCTGATTCAG
*
11461354 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT-CAGATCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCCA-ATCACCGGCACTTAGCCTGCTAG
*
11461418 ACTTA-AAGTCC-GAATT-AT
65 ACTTATAA--CCTG-ATTCAG
11461436 TTCACCGGC-CTTAAGCCTGCTAGGTTT-TAAACCTGA
1 TTCACCGGCACTT-AGCCTGCTAGGTTTAT-AACCTGA
11461472 AAATTTCAAT
Statistics
Matches: 104, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
81 8 0.08
82 91 0.88
83 5 0.05
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (82 bp):
TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCCAATCACCGGCACTTAGCCTGCTAGA
CTTATAACCTGATTCAG
Found at i:11461740 original size:34 final size:32
Alignment explanation
Indices: 11461668--11461741 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 32
11461658 AGAATTTTAC
*
11461668 ATATATATATTCACCTATTCGAAACTAACTAT
1 ATATATATATTCACCTATTCGAAACTAACCAT
* * *
11461700 ACATATATATTTCTACGTATTC-AATACTACCCAT
1 ATATATATA-TTC-ACCTATTCGAA-ACTAACCAT
11461734 ATATATAT
1 ATATATAT
11461742 GTAAACTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
32 8 0.24
33 5 0.15
34 21 0.62
ACGTcount: A:0.39, C:0.19, G:0.03, T:0.39
Consensus pattern (32 bp):
ATATATATATTCACCTATTCGAAACTAACCAT
Found at i:11465609 original size:10 final size:12
Alignment explanation
Indices: 11465579--11465622 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
11465569 ATGGTTATGC
11465579 ATTTATAATTATA
1 ATTT-TAATTATA
11465592 ATTTTAATTAT-
1 ATTTTAATTATA
*
11465603 A-TTTAATTAAA
1 ATTTTAATTATA
11465614 ATTTTAATT
1 ATTTTAATT
11465623 TTTTAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 8 0.29
11 2 0.07
12 14 0.50
13 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTTTAATTATA
Found at i:11465632 original size:22 final size:23
Alignment explanation
Indices: 11465579--11465629 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
11465569 ATGGTTATGC
*
11465579 ATTTATAATTATAATTTTAATTAT
1 ATTTA-AATTAAAATTTTAATTAT
11465603 ATTT-AATTAAAATTTTAATT-T
1 ATTTAAATTAAAATTTTAATTAT
11465624 -TTTAAA
1 ATTTAAA
11465630 ATTCGATACA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 3 0.12
22 15 0.60
24 4 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTAAATTAAAATTTTAATTAT
Found at i:11470039 original size:123 final size:124
Alignment explanation
Indices: 11469820--11470168 Score: 513
Period size: 123 Copynumber: 2.8 Consensus size: 124
11469810 TAGTTTTGAG
* * *
11469820 TTGACGTTTCTGATCAAATAGTATAAAATCGCTTTTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTA
* *
11469885 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAA-TTTTT
66 AAATCGCGCCCTCGTGGTCGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTTTTT
* ** * **
11469943 TTGACATTTCTGAGCAAATAGTATTTAATCGCTTCTAGAAGGATGCTATTCAAGAAGAATTTGTA
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTA
* *
11470008 AAATTGCGCCCTCGTGGTCGCGCTTTTGCTACAGTCGGTCACGGAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGTCGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTTTTT
* *
11470067 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAAAATTTTTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGT-
* *
11470132 AAAATCGCGCCCTCGTAGAT-GCGTTTTTGCTACAGTA
65 AAAATCGCGCCCTCGT-GGTCGCGCTTTTGCTACAGTA
11470169 ACATGTTTGG
Statistics
Matches: 198, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
123 105 0.53
124 61 0.31
125 30 0.15
126 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTA
AAATCGCGCCCTCGTGGTCGCGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTTTTT
Found at i:11473000 original size:116 final size:116
Alignment explanation
Indices: 11472796--11473039 Score: 418
Period size: 116 Copynumber: 2.1 Consensus size: 116
11472786 TAAGTTAGTG
* *
11472796 AAATTATTAATTGATAAATTGTATTAATGGTTACTAAAAATTATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTACTAAAAATTATCAAATTATAAAAAATTATTAA
** *
11472861 TTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTA
66 TTGTTAGTACCAGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
*
11472912 AAATTATTAATTGATAAATTGTATTAATGATTAGT-AAAATTATCAAATTATAAAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTACTAAAAATTATCAAATTATAAAAAATTATTAA
11472976 TTGTTAGTACCAGGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
66 TTGTTAGTACCA-GAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
11473028 AAATTATTAATT
1 AAATTATTAATT
11473040 TAGTTTAGAG
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
115 40 0.33
116 81 0.67
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (116 bp):
AAATTATTAATTGATAAATTGTATTAATGATTACTAAAAATTATCAAATTATAAAAAATTATTAA
TTGTTAGTACCAGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
Found at i:11473121 original size:22 final size:23
Alignment explanation
Indices: 11473034--11473195 Score: 174
Period size: 23 Copynumber: 7.1 Consensus size: 23
11473024 AGTAAAATTA
* *
11473034 TTAATTTAGTTTAGAGTTTTTAA-
1 TTAA-TTAGGTTAGGGTTTTTAAG
11473057 TTAAATTAGGTGT-GGGTTTTTAAG
1 TT-AATTAGGT-TAGGGTTTTTAAG
* *
11473081 -T--TTAGGGTTTAGGATTTTTAAT
1 TTAATTA-GG-TTAGGGTTTTTAAG
11473103 TTAATTAGGTTAGGG-TTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
11473125 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
* * *
11473148 TTAATGAAGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAAG
11473171 TTAATTAGGTTAGGGTTTTTAAG
1 TTAATTAGGTTAGGGTTTTTAAG
11473194 TT
1 TT
11473196 TAGGGTTTTT
Statistics
Matches: 117, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
20 3 0.03
21 3 0.03
22 31 0.26
23 72 0.62
24 5 0.04
25 3 0.03
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (23 bp):
TTAATTAGGTTAGGGTTTTTAAG
Found at i:11473138 original size:45 final size:46
Alignment explanation
Indices: 11473034--11473197 Score: 176
Period size: 45 Copynumber: 3.6 Consensus size: 46
11473024 AGTAAAATTA
* * *
11473034 TTAATTTAGTTTAGAGTTTTTAATTAAATTAGGTGT-GGGTTTTTAAG
1 TTAA-TTAGGTTAGGGTTTTTAATTTAATTAGGT-TAGGGTTTTTAAG
*
11473081 -T--TTAGGGTTTAGGATTTTTAATTTAATTAGGTTAGGG-TTTTAAG
1 TTAATTA-GG-TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAG
* * * *
11473125 TTAATTAGGTTAGGGTTTTTAAGTTAATGAAGTTAGGGTTTTTAAT
1 TTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAG
11473171 TTAATTAGGTTAGGGTTTTTAAGTTTA
1 TTAATTAGGTTAGGGTTTTTAA-TTTA
11473198 GGGTTTTTAA
Statistics
Matches: 99, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
43 3 0.03
44 9 0.09
45 50 0.51
46 31 0.31
47 6 0.06
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (46 bp):
TTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAG
Found at i:11473200 original size:15 final size:15
Alignment explanation
Indices: 11473180--11473218 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
11473170 TTTAATTAGG
11473180 TTAGGGTTTTTAAGT
1 TTAGGGTTTTTAAGT
11473195 TTAGGGTTTTTAAGT
1 TTAGGGTTTTTAAGT
11473210 TTAGGGTTT
1 TTAGGGTTT
11473219 AGGGTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.54
Consensus pattern (15 bp):
TTAGGGTTTTTAAGT
Found at i:11473221 original size:22 final size:21
Alignment explanation
Indices: 11473193--11473233 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
11473183 GGGTTTTTAA
11473193 GTTTAGGGTTTTTAAGTTTAGG
1 GTTTAGGGTTTTTAA-TTTAGG
11473215 GTTTAGGGTTTTTAATTTA
1 GTTTAGGGTTTTTAATTTA
11473234 ATTAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.54
Consensus pattern (21 bp):
GTTTAGGGTTTTTAATTTAGG
Found at i:11473399 original size:23 final size:23
Alignment explanation
Indices: 11473367--11473785 Score: 378
Period size: 23 Copynumber: 18.1 Consensus size: 23
11473357 AAGTAAAATT
* * *
11473367 ATTAATTTAGTTTAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
11473390 ATTAAATTAGGTCAGGGCTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
11473413 AGT---TTAGGGTTTAGGGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
* *
11473435 ATTTAATTAGGTTAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
11473458 AGTT-AATTAGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
** *
11473481 AGTT-AAGGAAGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
*
11473504 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
11473527 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
*
11473550 ATTTAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
11473573 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
11473596 AGT---TTAGGGTTTAGAGTTTTTA
1 ATTAAATTA-GG-TTAGGGTTTTTA
*
11473618 ATTAAATTAGGTTAGAGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
* *
11473641 ATTTAATTAGGTTAAGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
**
11473664 AGTTTAGGGTTTAAGGTTTAGGGTTTTTA
1 A--TTA--AATT-AGG-TTAGGGTTTTTA
* *
11473693 ATTAAATTAAGTTAAGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
**
11473716 AGTT-AA-GGGGTTAGGGTTTTTA
1 A-TTAAATTAGGTTAGGGTTTTTA
* *
11473738 AGTT---TAAGGTTTAAGGTTTTTA
1 A-TTAAATTAGG-TTAGGGTTTTTA
11473760 ATTAAATTAGGTTAGGGTTTTTA
1 ATTAAATTAGGTTAGGGTTTTTA
11473783 ATT
1 ATT
11473786 TAAGGTATTA
Statistics
Matches: 329, Mismatches: 43, Indels: 48
0.78 0.10 0.11
Matches are distributed among these distances:
20 6 0.02
21 8 0.02
22 55 0.17
23 216 0.66
24 14 0.04
25 10 0.03
27 5 0.02
28 3 0.01
29 12 0.04
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.48
Consensus pattern (23 bp):
ATTAAATTAGGTTAGGGTTTTTA
Found at i:11473678 original size:13 final size:14
Alignment explanation
Indices: 11473660--11473689 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11473650 GGTTAAGGTT
11473660 TTTAA-GTTTAGGG
1 TTTAAGGTTTAGGG
11473673 TTTAAGGTTTAGGG
1 TTTAAGGTTTAGGG
11473687 TTT
1 TTT
11473690 TTAATTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:11473728 original size:22 final size:21
Alignment explanation
Indices: 11473703--11473764 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 21
11473693 ATTAAATTAA
11473703 GTTAAGGTTTTTAAGTTAAGGG
1 GTTAAGGTTTTTAAGTTAA-GG
*
11473725 GTTAGGGTTTTTAAGTTTAAGG
1 GTTAAGGTTTTTAAG-TTAAGG
*
11473747 TTTAAGGTTTTTAA-TTAA
1 GTTAAGGTTTTTAAGTTAA
11473765 ATTAGGTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 4 0.11
22 28 0.78
23 4 0.11
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (21 bp):
GTTAAGGTTTTTAAGTTAAGG
Found at i:11473752 original size:44 final size:45
Alignment explanation
Indices: 11473681--11473801 Score: 133
Period size: 45 Copynumber: 2.7 Consensus size: 45
11473671 GGTTTAAGGT
** *
11473681 TTAGGGTTTTTAA-TTAAATTAAGTTAAGGTTTTTAAGTT-AA-GGGG
1 TTAGGGTTTTTAATTTAAGGT-A-TTAAGGTTTTTAA-TTAAATGAGG
*
11473726 TTAGGGTTTTTAAGTTTAAGGT-TTAAGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAA-TTTAAGGTATTAAGGTTTTTAATTAAATGAGG
11473771 TTAGGGTTTTTAATTTAAGGTATTAATGGTT
1 TTAGGGTTTTTAATTTAAGGTATTAA-GGTT
11473802 AGTAGAATTC
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
43 2 0.03
44 23 0.35
45 32 0.48
46 4 0.06
47 5 0.08
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (45 bp):
TTAGGGTTTTTAATTTAAGGTATTAAGGTTTTTAATTAAATGAGG
Found at i:11473801 original size:23 final size:22
Alignment explanation
Indices: 11473673--11473801 Score: 86
Period size: 23 Copynumber: 5.8 Consensus size: 22
11473663 AAGTTTAGGG
*
11473673 TTTAAGGT-TTAGGGTTTTTAA
1 TTTAAGGTATTAAGGTTTTTAA
**
11473694 -TTAAATTAAGTTAAGGTTTTTAA
1 TTTAAGGT-A-TTAAGGTTTTTAA
* ** *
11473717 GTTAAGGGGTTAGGGTTTTTAA
1 TTTAAGGTATTAAGGTTTTTAA
11473739 GTTTAAGGT-TTAAGGTTTTTAA
1 -TTTAAGGTATTAAGGTTTTTAA
** *
11473761 -TTAAATTAGGTTAGGGTTTTTAA
1 TTTAAGGTA--TTAAGGTTTTTAA
11473784 TTTAAGGTATTAATGGTT
1 TTTAAGGTATTAA-GGTT
11473802 AGTAGAATTC
Statistics
Matches: 81, Mismatches: 17, Indels: 18
0.70 0.15 0.16
Matches are distributed among these distances:
20 10 0.12
22 27 0.33
23 34 0.42
24 10 0.12
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (22 bp):
TTTAAGGTATTAAGGTTTTTAA
Found at i:11473859 original size:25 final size:25
Alignment explanation
Indices: 11473830--11473877 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
11473820 TATAAAAAAT
11473830 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
*
11473855 TTCTATTTTATTACATTAAATAA
1 TTCTATTTTATTACATCAAATAA
11473878 TATCAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:11473879 original size:28 final size:26
Alignment explanation
Indices: 11473821--11473879 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 26
11473811 CTCAAATAAT
* * *
11473821 ATAAAAAATTTCTATTTTATTACATC
1 ATAATAAACTTCTATTTTATTACATA
11473847 A-AATAAACTTCTATTTTATTACATTAA
1 ATAATAAACTTCTATTTTATTACA-T-A
11473874 ATAATA
1 ATAATA
11473880 TCAAAACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 20 0.74
26 2 0.07
27 1 0.04
28 4 0.15
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAATAAACTTCTATTTTATTACATA
Found at i:11474887 original size:7 final size:7
Alignment explanation
Indices: 11474877--11474901 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11474867 TTATATACAT
11474877 AATACTA
1 AATACTA
11474884 AATACTA
1 AATACTA
11474891 AATACTA
1 AATACTA
11474898 AATA
1 AATA
11474902 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:11475109 original size:20 final size:20
Alignment explanation
Indices: 11475072--11475109 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11475062 TTTATTTTTA
*
11475072 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
11475092 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
11475110 TACCACATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:11476602 original size:12 final size:12
Alignment explanation
Indices: 11476585--11476609 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11476575 ATGATATGTT
11476585 AAAATTAATTCA
1 AAAATTAATTCA
11476597 AAAATTAATTCA
1 AAAATTAATTCA
11476609 A
1 A
11476610 GTAAAATGAA
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:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATTCA
Found at i:11477881 original size:29 final size:29
Alignment explanation
Indices: 11477839--11477897 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
11477829 ATGCTGTAAG
11477839 TTGTTTTATGGAAGCTAAAATTTCTTTGT
1 TTGTTTTATGGAAGCTAAAATTTCTTTGT
11477868 TTGTTTTATGGAAGCTAAAATTTCTTTGT
1 TTGTTTTATGGAAGCTAAAATTTCTTTGT
11477897 T
1 T
11477898 GAAGTATCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.53
Consensus pattern (29 bp):
TTGTTTTATGGAAGCTAAAATTTCTTTGT
Found at i:11487966 original size:6 final size:6
Alignment explanation
Indices: 11487955--11487979 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11487945 CCATTGTCGT
11487955 CGTTGC CGTTGC CGTTGC CGTTGC C
1 CGTTGC CGTTGC CGTTGC CGTTGC C
11487980 ATCAACAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.36, G:0.32, T:0.32
Consensus pattern (6 bp):
CGTTGC
Found at i:11488078 original size:25 final size:25
Alignment explanation
Indices: 11488050--11488099 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
11488040 CCCAAGCTTG
*
11488050 TCTTTCCCTTGACCAAGCTTCACCA
1 TCTTTCCCTAGACCAAGCTTCACCA
* *
11488075 TCTTTCCCTAGGCCAAGCTTGACCA
1 TCTTTCCCTAGACCAAGCTTCACCA
11488100 CAGACTCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.38, G:0.12, T:0.30
Consensus pattern (25 bp):
TCTTTCCCTAGACCAAGCTTCACCA
Found at i:11489871 original size:16 final size:16
Alignment explanation
Indices: 11489852--11489882 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11489842 TATCATAATA
11489852 TTAAATTTATATAAAT
1 TTAAATTTATATAAAT
11489868 TTAAATTTATATAAA
1 TTAAATTTATATAAA
11489883 CTTCTATGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAATTTATATAAAT
Found at i:11501347 original size:30 final size:30
Alignment explanation
Indices: 11501313--11501371 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
11501303 GAAACTAATC
11501313 TCAATTACTAATTCTTAGGAAATTAGGATA
1 TCAATTACTAATTCTTAGGAAATTAGGATA
*
11501343 TCAATTACTGATTCTTAGGAAATTAGGAT
1 TCAATTACTAATTCTTAGGAAATTAGGAT
11501372 TTATTTCCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.37
Consensus pattern (30 bp):
TCAATTACTAATTCTTAGGAAATTAGGATA
Found at i:11512598 original size:28 final size:30
Alignment explanation
Indices: 11512561--11512635 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 30
11512551 TTAAAATTAA
11512561 AATTTGATTTCTTTAAAAC-AATAAATTC-AT
1 AATTT-ATTTCTTTAAAACAAAT-AATTCTAT
*
11512591 AA-TTATTT-TTTAAAAGAAATAATTCTAT
1 AATTTATTTCTTTAAAACAAATAATTCTAT
*
11512619 AATTTAATTCTTTAAAA
1 AATTTATTTCTTTAAAA
11512636 AATTTATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 12 0.31
28 11 0.28
29 7 0.18
30 9 0.23
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (30 bp):
AATTTATTTCTTTAAAACAAATAATTCTAT
Found at i:11515476 original size:38 final size:38
Alignment explanation
Indices: 11515434--11515509 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
11515424 GGTGGAGACA
*
11515434 CTCTTTGGCCAAATGCCTAAATTAATTCCGCTATGAAT
1 CTCTTTCGCCAAATGCCTAAATTAATTCCGCTATGAAT
11515472 CTCTTTCGCCAAATGCCTAAATTAATTCCGCTATGAAT
1 CTCTTTCGCCAAATGCCTAAATTAATTCCGCTATGAAT
11515510 TCCTCCACCG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (38 bp):
CTCTTTCGCCAAATGCCTAAATTAATTCCGCTATGAAT
Found at i:11516923 original size:12 final size:12
Alignment explanation
Indices: 11516906--11516930 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11516896 ATTGGGATGT
11516906 TACATTCTTTAC
1 TACATTCTTTAC
11516918 TACATTCTTTAC
1 TACATTCTTTAC
11516930 T
1 T
11516931 TGTAAAATAT
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:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (12 bp):
TACATTCTTTAC
Found at i:11519690 original size:39 final size:38
Alignment explanation
Indices: 11519641--11519771 Score: 129
Period size: 39 Copynumber: 3.4 Consensus size: 38
11519631 TTTAGACTAT
* *
11519641 TGTGGTATATGCTTGAATGTTATGTGATTTTACGAGTAA
1 TGTGATATATGCTTGAA-GTTATGTGATTTTATGAGTAA
* ** *
11519680 TGTGACATATGCTCAAACGTTATGAGATTTTATGAGT-A
1 TGTGATATATGCTTGAA-GTTATGTGATTTTATGAGTAA
* * *
11519718 TGGTGATATATGCTTGTAAGTTAGGTGATTATATGTGTAA
1 T-GTGATATATGCTTG-AAGTTATGTGATTTTATGAGTAA
*
11519758 TATGATATATGCTT
1 TGTGATATATGCTT
11519772 AAAAGTGAAC
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
38 2 0.03
39 68 0.92
40 4 0.05
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (38 bp):
TGTGATATATGCTTGAAGTTATGTGATTTTATGAGTAA
Found at i:11525350 original size:18 final size:17
Alignment explanation
Indices: 11525327--11525360 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
11525317 TAGGAGTTCT
11525327 AATAATTATACATTTAAA
1 AATAATTATA-ATTTAAA
11525345 AATAATTATAATTTAA
1 AATAATTATAATTTAA
11525361 TTTACAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAATTATAATTTAAA
Found at i:11525430 original size:61 final size:61
Alignment explanation
Indices: 11525359--11525480 Score: 208
Period size: 61 Copynumber: 2.0 Consensus size: 61
11525349 ATTATAATTT
*
11525359 AATTTACAACTATTTTTTTACTAATTCGAAATTAAAATTATTATTTGAAGAGAACGATAAG
1 AATTTACAACTATTTTTTTACTAATTCGAAAATAAAATTATTATTTGAAGAGAACGATAAG
* * *
11525420 AATTTACAACTATTTTTTTACTAATTCTAAAATAAAGTTATTATTTGAAGAGAACTATAAG
1 AATTTACAACTATTTTTTTACTAATTCGAAAATAAAATTATTATTTGAAGAGAACGATAAG
11525481 CTTTTTTAAG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (61 bp):
AATTTACAACTATTTTTTTACTAATTCGAAAATAAAATTATTATTTGAAGAGAACGATAAG
Found at i:11527678 original size:25 final size:25
Alignment explanation
Indices: 11527625--11527705 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
11527615 TATGCTTATA
* *
11527625 CGAGCTGTA-AACGAGAAGCTCCT-
1 CGAGCTGAATAACGAGAAGCTCATG
*
11527648 CTGAGCTGAATAACGGGAAGCTCATG
1 C-GAGCTGAATAACGAGAAGCTCATG
*
11527674 CGAGCT-AAGTATCGAGAAGCTCATG
1 CGAGCTGAA-TAACGAGAAGCTCATG
*
11527699 AGAGCTG
1 CGAGCTG
11527706 TGGTGTGTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
23 1 0.02
24 9 0.19
25 36 0.77
26 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.30, T:0.19
Consensus pattern (25 bp):
CGAGCTGAATAACGAGAAGCTCATG
Found at i:11528618 original size:20 final size:22
Alignment explanation
Indices: 11528593--11528634 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11528583 TAATATCACT
11528593 TTACCC-AATAATTT-TTAAAA
1 TTACCCTAATAATTTATTAAAA
11528613 TTACCCTTAATAATTTATTAAA
1 TTACCC-TAATAATTTATTAAA
11528635 TTTCCAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
22 8 0.42
23 5 0.26
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (22 bp):
TTACCCTAATAATTTATTAAAA
Found at i:11531346 original size:38 final size:37
Alignment explanation
Indices: 11531302--11531377 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 37
11531292 GTCAGTTAAG
11531302 GAAGAGCATGGGGTTCGCCGAGCTAATGAGCGTCAGT
1 GAAGAGCATGGGGTTCGCCGAGCTAATGAGCGTCAGT
* ** *
11531339 GNAAGAGCGTGGGGTTCGCCGAGCTGGTTAGCGTCAGT
1 G-AAGAGCATGGGGTTCGCCGAGCTAATGAGCGTCAGT
11531377 G
1 G
11531378 CCGCCGGTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
37 1 0.03
38 33 0.97
ACGTcount: A:0.20, C:0.18, G:0.41, T:0.20
Consensus pattern (37 bp):
GAAGAGCATGGGGTTCGCCGAGCTAATGAGCGTCAGT
Found at i:11531639 original size:25 final size:23
Alignment explanation
Indices: 11531610--11531656 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
11531600 CTTGAGTTCC
*
11531610 TCAAATTTTGTAGCTCATAATCATG
1 TCAAATTTAG-AGCTCA-AATCATG
11531635 TCAAATTTAGAGCTCAAATCAT
1 TCAAATTTAGAGCTCAAATCAT
11531657 TGTGTTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 9 0.43
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (23 bp):
TCAAATTTAGAGCTCAAATCATG
Found at i:11537768 original size:52 final size:52
Alignment explanation
Indices: 11537696--11537798 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
11537686 GCGTTTTGAA
11537696 AAGCACCGGAAAAAACGCCGCTAAAGACCGCGTCGCTAACTTTAGCGGCGTG
1 AAGCACCGGAAAAAACGCCGCTAAAGACCGCGTCGCTAACTTTAGCGGCGTG
* *
11537748 AAGCATCGGAAAAAATGCCGCTAAAGACCGCGTCGCTAACTTTAGCGGCGT
1 AAGCACCGGAAAAAACGCCGCTAAAGACCGCGTCGCTAACTTTAGCGGCGT
11537799 TTTTTTCTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.31, C:0.27, G:0.26, T:0.16
Consensus pattern (52 bp):
AAGCACCGGAAAAAACGCCGCTAAAGACCGCGTCGCTAACTTTAGCGGCGTG
Found at i:11537865 original size:43 final size:43
Alignment explanation
Indices: 11537817--11537951 Score: 216
Period size: 43 Copynumber: 3.1 Consensus size: 43
11537807 AAAAACACCG
* *
11537817 CTAAAGACCAAGACCCTTAGCGGCGCTTTTCCCACAAACGCCG
1 CTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCA
*
11537860 CTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCACAAACGCCA
1 CTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCA
* * *
11537903 CTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCAAAAATGCCA
1 CTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCA
11537946 CTAAAG
1 CTAAAG
11537952 GTCACAAAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 85 1.00
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (43 bp):
CTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCA
Found at i:11537915 original size:86 final size:87
Alignment explanation
Indices: 11537787--11537951 Score: 233
Period size: 86 Copynumber: 1.9 Consensus size: 87
11537777 GCGTCGCTAA
* * * * *
11537787 CTTTAGCGGCGTTTTTTTCTAAAAACACCGCTAAAGACCAAGACCCTTAGCGGCGCTTTTCCCAC
1 CTTTAGCGGCGTCTTTTTCCAAAAACACCACTAAAGACCAAGACCCTTAGCGGCGCTTTCCCCAA
*
11537852 AAACGCCGCTAAAGACCAAGAC
66 AAACGCCACTAAAGACCAAGAC
* * *
11537874 CTTTAGCGGCG-CTTTTTCCACAAACGCCACTAAAGACCAAGACCTTTAGCGGCGCTTTCCCCAA
1 CTTTAGCGGCGTCTTTTTCCAAAAACACCACTAAAGACCAAGACCCTTAGCGGCGCTTTCCCCAA
*
11537938 AAATGCCACTAAAG
66 AAACGCCACTAAAG
11537952 GTCACAAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
86 57 0.84
87 11 0.16
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.22
Consensus pattern (87 bp):
CTTTAGCGGCGTCTTTTTCCAAAAACACCACTAAAGACCAAGACCCTTAGCGGCGCTTTCCCCAA
AAACGCCACTAAAGACCAAGAC
Found at i:11538879 original size:23 final size:23
Alignment explanation
Indices: 11538854--11539946 Score: 864
Period size: 23 Copynumber: 47.9 Consensus size: 23
11538844 AATGGAAAGT
* **
11538854 AGCACTTTAACACTTCAATTTAT
1 AGCACTTAAACACTTCAATTTGC
*
11538877 AGCATTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
* **
11538900 AACACTT-AACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTGC
* * * * *
11538922 AACATTTATACACATCAA-TTAC
1 AGCACTTAAACACTTCAATTTGC
*
11538944 AGCGA-TAAAACA-TCTCAATTTGC
1 AGC-ACTTAAACACT-TCAATTTGC
11538967 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
11538990 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
* *
11539013 AGCACTTAAACGCTTCAATTTAC
1 AGCACTTAAACACTTCAATTTGC
* *
11539036 AGCATTTAAATACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
**
11539059 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTGC
* * * * *
11539082 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTGC
* * *
11539104 AGCAATAAAACA-TCTCAATTTCC
1 AGCACTTAAACACT-TCAATTTGC
11539127 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTGC
*
11539150 AACACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
**
11539173 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTGC
* * * * *
11539196 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTGC
* * *
11539218 AGCAATAAAACA-TCTCAATTTCC
1 AGCACTTAAACACT-TCAATTTGC
11539241 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTGC
*
11539264 AACACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
**
11539287 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTGC
* * * * *
11539310 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTGC
* * *
11539332 AGCAATAAAACA-TCTCAATTTCC
1 AGCACTTAAACACT-TCAATTTGC
11539355 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTGC
*
11539378 AACACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
**
11539401 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTGC
* * * * *
11539424 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTGC
** *
11539446 AGCGGTAAAACA-TCTCAATTT-C
1 AGCACTTAAACACT-TCAATTTGC
*
11539468 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTGC
*
11539491 AGCACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTGC
* *
11539514 AGCATTTAAACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTGC
* **
11539537 AGTACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTGC
* * * * *
11539560 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTGC
* *
11539582 AGCTA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTGC
11539605 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTGC
11539628 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
11539651 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
* *
11539674 AGCACTTAACCACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTGC
* *
11539697 AACATTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
11539720 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
* *
11539743 AGCACTTAACCACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTGC
* *
11539766 AACATTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
11539789 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTGC
**
11539812 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTGC
* * * * *
11539835 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTGC
* * *
11539857 AGTGA-TAAAACA-TCTCAATTTCC
1 AG-CACTTAAACACT-TCAATTTGC
* *
11539880 AGCAAC-TAAATACTTTAATTTGC
1 AGC-ACTTAAACACTTCAATTTGC
* *
11539903 AACACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTGC
* * *
11539926 AACATTTAAACACTTAAATTT
1 AGCACTTAAACACTTCAATTT
11539947 ACAAACCCAC
Statistics
Matches: 855, Mismatches: 161, Indels: 108
0.76 0.14 0.10
Matches are distributed among these distances:
21 1 0.00
22 151 0.18
23 694 0.81
24 9 0.01
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.30
Consensus pattern (23 bp):
AGCACTTAAACACTTCAATTTGC
Found at i:11539115 original size:114 final size:115
Alignment explanation
Indices: 11538972--11539854 Score: 933
Period size: 114 Copynumber: 7.7 Consensus size: 115
11538962 TTTGCAGCAC
* * * * * * *
11538972 TTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGC-ACTTAAACGCTTCAATTTAC
1 TTAAACACCTCAA-TTACAGCAATAAAACACTTCAATTTCCAGCAACTTAAACACTTCAATTTGC
* * *
11539036 AGCATTTAAATACTTCAATTTGCAGCACTTAAACATATCAATTAACAACAT
65 AACACTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACAT
*
11539087 TTATACACCTCAATTACAGCAATAAAACA-TCTCAATTTCCAGCAAC-TAAACACTTCAATTTGC
1 TTAAACACCTCAATTACAGCAATAAAACACT-TCAATTTCCAGCAACTTAAACACTTCAATTTGC
11539150 AACACTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACAT
65 AACACTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACAT
*
11539201 TTATACACCTCAATTACAGCAATAAAACA-TCTCAATTTCCAGCAAC-TAAACACTTCAATTTGC
1 TTAAACACCTCAATTACAGCAATAAAACACT-TCAATTTCCAGCAACTTAAACACTTCAATTTGC
11539264 AACACTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACAT
65 AACACTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACAT
*
11539315 TTATACACCTCAATTACAGCAATAAAACA-TCTCAATTTCCAGCAAC-TAAACACTTCAATTTGC
1 TTAAACACCTCAATTACAGCAATAAAACACT-TCAATTTCCAGCAACTTAAACACTTCAATTTGC
11539378 AACACTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACAT
65 AACACTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACAT
* ** *
11539429 TTATACACCTCAATTACAGCGGTAAAACA-TCTCAATTT-CAGCAAC-TAAATACTTCAATTTGC
1 TTAAACACCTCAATTACAGCAATAAAACACT-TCAATTTCCAGCAACTTAAACACTTCAATTTGC
* * * * ** ** *
11539491 AGCACTTAAACACTTCAATTTACAGCATTTAAACACT-TAAATTTGCAGTAC
65 AACACTTAAACACTTCAATTTGCAGCACTTAAACA-TATCAATTAACAACAT
** * * * * * * * * *
11539542 TTAAACATATCAATTAACAACATTTATACACCTCAA-TTACAGCTA-TAAAACA-TCTCAATTTC
1 TTAAACACCTCAATT-ACAGCAATAAAACACTTCAATTTCCAGCAACTTAAACACT-TCAATTTG
* ** * *
11539604 CAGCAAC-TAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTTGCAGCAC
64 CAAC-ACTTAAACACTTCAATTTGCAGCACTTAAACA-TATCAATTAACAACAT
* * * * * * * *
11539656 TTAAACACTTCAATTTGCAGCACTTAACCACTTCAATTTACAAC-ATTTAAACACTTCAATTTGC
1 TTAAACACCTCAA-TTACAGCAATAAAACACTTCAATTTCCAGCAACTTAAACACTTCAATTTGC
* * *
11539720 AGCACTTAAACACTTCAATTTGCAGCACTTAACCACT-TCAATTTACAACAT
65 AACACTTAAACACTTCAATTTGCAGCACTTAAACA-TATCAATTAACAACAT
* * * * * **
11539771 TTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGC-ACTTAAACA-TATCAATTAA
1 TTAAACACCTCAA-TTACAGCAATAAAACACTTCAATTTCCAGCAACTTAAACACT-TCAATTTG
* * *
11539834 CAACATTTATACACCTCAATT
64 CAACACTTAAACACTTCAATT
11539855 ACAGTGATAA
Statistics
Matches: 688, Mismatches: 65, Indels: 30
0.88 0.08 0.04
Matches are distributed among these distances:
113 79 0.11
114 455 0.66
115 153 0.22
116 1 0.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (115 bp):
TTAAACACCTCAATTACAGCAATAAAACACTTCAATTTCCAGCAACTTAAACACTTCAATTTGCA
ACACTTAAACACTTCAATTTGCAGCACTTAAACATATCAATTAACAACAT
Found at i:11543342 original size:41 final size:41
Alignment explanation
Indices: 11543245--11543454 Score: 323
Period size: 41 Copynumber: 5.1 Consensus size: 41
11543235 TCAATTCGGG
* * *
11543245 ATTAGCGGCACTTTTTCAAAAACGCCGCTAAAGACACGAG-
1 ATTAGCGGCGCCTTTTCAAAAACGCCGCTAAAGACCCGAGC
*
11543285 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGC
1 ATTAGCGGCGCCTTTTCAAAAACGCCGCTAAAGACCCGAGC
*
11543326 ATTAGCGGTGCCTTTTCAAAAACGCCGCTAAAGACCCGAGC
1 ATTAGCGGCGCCTTTTCAAAAACGCCGCTAAAGACCCGAGC
* * * *
11543367 ATTAGTGGTGCCTTTTCAAAAACACCACTAAAGACCCGAGC
1 ATTAGCGGCGCCTTTTCAAAAACGCCGCTAAAGACCCGAGC
*
11543408 ATTAGCGGCGCCTTTTCAAAAACGCCGCTAAAGACCCAAGC
1 ATTAGCGGCGCCTTTTCAAAAACGCCGCTAAAGACCCGAGC
11543449 ATTAGC
1 ATTAGC
11543455 AAAAACGCCG
Statistics
Matches: 157, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 38 0.24
41 119 0.76
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (41 bp):
ATTAGCGGCGCCTTTTCAAAAACGCCGCTAAAGACCCGAGC
Found at i:11543460 original size:30 final size:30
Alignment explanation
Indices: 11543424--11543482 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
11543414 GGCGCCTTTT
11543424 CAAAAACGCCGCTAAAGACCCAAGCATTAG
1 CAAAAACGCCGCTAAAGACCCAAGCATTAG
*
11543454 CAAAAACGCCGCTAAAGACCCGAGCATTA
1 CAAAAACGCCGCTAAAGACCCAAGCATTA
11543483 ACAGCGCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.42, C:0.31, G:0.17, T:0.10
Consensus pattern (30 bp):
CAAAAACGCCGCTAAAGACCCAAGCATTAG
Found at i:11543599 original size:39 final size:40
Alignment explanation
Indices: 11543542--11543618 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 40
11543532 TGGGCTTAGG
* *
11543542 TTTTTTGCGGCGTTTTTCCAAAAAACGTCGCTAATGCTTA
1 TTTTTCGCGGCGTCTTTCCAAAAAACGTCGCTAATGCTTA
*** *
11543582 TTTTTCGCGGCG-CTTTCCTGGAAGCGTCGCTAATGCT
1 TTTTTCGCGGCGTCTTTCCAAAAAACGTCGCTAATGCT
11543619 CGATCTTTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
39 20 0.65
40 11 0.35
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (40 bp):
TTTTTCGCGGCGTCTTTCCAAAAAACGTCGCTAATGCTTA
Found at i:11544216 original size:23 final size:21
Alignment explanation
Indices: 11544187--11544233 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 21
11544177 TGTTTTTAGA
11544187 TTATATATATATTTTATGAATTT
1 TTATATATATATTTTAT--ATTT
*
11544210 TTATATATTTATTTTATATTT
1 TTATATATATATTTTATATTT
11544231 TTA
1 TTA
11544234 AGGTTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.30
23 16 0.70
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTATATATATATTTTATATTT
Found at i:11557590 original size:23 final size:21
Alignment explanation
Indices: 11557541--11557592 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
11557531 AAAGAAATAT
*
11557541 AAAAAAATATATAAAAATTTC
1 AAAAAAATATATAAAAATTGC
* *
11557562 AGAAAAATATATATAAAATCTGG
1 AAAAAAATATATA-AAAAT-TGC
11557585 AAAAAAAT
1 AAAAAAAT
11557593 CAATTATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 12 0.48
22 5 0.20
23 8 0.32
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (21 bp):
AAAAAAATATATAAAAATTGC
Found at i:11558069 original size:10 final size:8
Alignment explanation
Indices: 11558047--11558090 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
11558037 AAGTCAATAG
11558047 AATTTTTT
1 AATTTTTT
11558055 AATTTTTT
1 AATTTTTT
*
11558063 AA-TATTT
1 AATTTTTT
* *
11558070 AATATTAT
1 AATTTTTT
11558078 AATTTTTT
1 AATTTTTT
11558086 AATTT
1 AATTT
11558091 AAATTTAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
AATTTTTT
Found at i:11558090 original size:21 final size:19
Alignment explanation
Indices: 11558052--11558112 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 19
11558042 AATAGAATTT
11558052 TTTAATTTTTTAATATTTAATA
1 TTTAATTTTTT-A-ATTTAA-A
11558074 TTATAATTTTTTAATTTAAA
1 TT-TAATTTTTTAATTTAAA
11558094 TTTAATATTTTT-ATTTAAA
1 TTTAAT-TTTTTAATTTAAA
11558113 ATAAATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
19 11 0.30
20 8 0.22
21 6 0.16
22 3 0.08
23 9 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTAATTTTTTAATTTAAA
Found at i:11562109 original size:17 final size:17
Alignment explanation
Indices: 11562087--11562120 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11562077 ATCCACTAAT
*
11562087 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
11562104 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
11562121 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:11566748 original size:17 final size:17
Alignment explanation
Indices: 11566726--11566759 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11566716 ATCCACTAAT
*
11566726 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
11566743 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
11566760 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:11573126 original size:2 final size:2
Alignment explanation
Indices: 11573119--11573154 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
11573109 TCCTATTTAT
*
11573119 AG AG AG AG AG AG AG AG AG AG AG AG AG TG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11573155 GGGAAAGGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.50, T:0.03
Consensus pattern (2 bp):
AG
Found at i:11573999 original size:31 final size:31
Alignment explanation
Indices: 11573942--11574017 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
11573932 CTCATTGGGG
* * *
11573942 GAATAGTTTAATGACTTAGATAAAAACTTTT
1 GAATAATTTAGTGACTTAAATAAAAACTTTT
* * *
11573973 GCATAATTTTGTGACTTAAATGAAAACTTTT
1 GAATAATTTAGTGACTTAAATAAAAACTTTT
11574004 GAATAATTTAGTGA
1 GAATAATTTAGTGA
11574018 ATGATTTGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (31 bp):
GAATAATTTAGTGACTTAAATAAAAACTTTT
Found at i:11580622 original size:16 final size:16
Alignment explanation
Indices: 11580601--11580646 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
11580591 ATATGTGACA
11580601 AAAAATTAAAAAAAAT
1 AAAAATTAAAAAAAAT
11580617 AAAAA-TAAAAATAAAT
1 AAAAATTAAAAA-AAAT
*
11580633 AAAAGTTATAAAAA
1 AAAAATTA-AAAAA
11580647 TTATTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 6 0.23
16 13 0.50
17 3 0.12
18 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (16 bp):
AAAAATTAAAAAAAAT
Found at i:11580682 original size:18 final size:19
Alignment explanation
Indices: 11580656--11580692 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11580646 ATTATTAAAT
11580656 TTTAAT-AAAAATAGAAAA
1 TTTAATAAAAAATAGAAAA
*
11580674 TTTATTAAAAAATAGAAAA
1 TTTAATAAAAAATAGAAAA
11580693 AAAATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
TTTAATAAAAAATAGAAAA
Found at i:11580699 original size:19 final size:20
Alignment explanation
Indices: 11580660--11580705 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
11580650 TTAAATTTTA
***
11580660 ATAAAAATAGAAAATTTATT
1 ATAAAAATAGAAAAAAAATT
11580680 A-AAAAATAGAAAAAAAATT
1 ATAAAAATAGAAAAAAAATT
11580699 ATAAAAA
1 ATAAAAA
11580706 CTTTAAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (20 bp):
ATAAAAATAGAAAAAAAATT
Found at i:11581399 original size:9 final size:9
Alignment explanation
Indices: 11581385--11581440 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
11581375 TTTCGGTAAG
11581385 ATAATTTTT
1 ATAATTTTT
11581394 ATAATTTTTT
1 ATAA-TTTTT
11581404 ATGAA-TTTT
1 AT-AATTTTT
*
11581413 ATATTTCTTT
1 ATAATT-TTT
* *
11581423 ACATTTTTT
1 ATAATTTTT
11581432 ATAATTTTT
1 ATAATTTTT
11581441 TACGACTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 21 0.54
10 15 0.38
11 2 0.05
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.66
Consensus pattern (9 bp):
ATAATTTTT
Found at i:11581410 original size:11 final size:10
Alignment explanation
Indices: 11581385--11581442 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
11581375 TTTCGGTAAG
11581385 ATAA-TTTTT
1 ATAATTTTTT
11581394 ATAATTTTTT
1 ATAATTTTTT
11581404 ATGAA--TTTT
1 AT-AATTTTTT
11581413 AT-ATTTCTTT
1 ATAATTT-TTT
*
11581423 A-CATTTTTT
1 ATAATTTTTT
11581432 ATAATTTTTT
1 ATAATTTTTT
11581442 A
1 A
11581443 CGACTTTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
7 1 0.02
9 15 0.37
10 23 0.56
11 2 0.05
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:11581414 original size:19 final size:19
Alignment explanation
Indices: 11581390--11581443 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
11581380 GTAAGATAAT
*
11581390 TTTTATAATTTTTTATGA-A
1 TTTTATAATTTTTTA-CATA
*
11581409 TTTTAT-ATTTCTTTACATT
1 TTTTATAATTT-TTTACATA
11581428 TTTTATAATTTTTTAC
1 TTTTATAATTTTTTAC
11581444 GACTTTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 5 0.17
19 21 0.70
20 4 0.13
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATAATTTTTTACATA
Found at i:11581526 original size:62 final size:62
Alignment explanation
Indices: 11581457--11581574 Score: 143
Period size: 62 Copynumber: 1.9 Consensus size: 62
11581447 TTTATAAAAT
** *
11581457 TTTATAATTGTTTCTAT-ATTTCT-ATAT-ATTTTATAAATATATTTTTATGATTTTTTGTAGAA
1 TTTATAATT-TTTCTATGATTTCTAATATAAAATT-TAAATAT-TTTTTATAATTTTTTGTAGAA
* *
11581519 TTTATAATTTTTTTATGATTTTTAATATAAAATTTAAATATTTTTTATAATTTTTT
1 TTTATAATTTTTCTATGATTTCTAATATAAAATTTAAATATTTTTTATAATTTTTT
11581575 ATTTTTATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
61 6 0.12
62 28 0.58
63 11 0.23
64 3 0.06
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (62 bp):
TTTATAATTTTTCTATGATTTCTAATATAAAATTTAAATATTTTTTATAATTTTTTGTAGAA
Found at i:11581563 original size:32 final size:30
Alignment explanation
Indices: 11581490--11581576 Score: 104
Period size: 32 Copynumber: 2.8 Consensus size: 30
11581480 ATATATTTTA
* *
11581490 TAAATATATTTTTATGATTTTTTGTAGAATT
1 TAAATAT-TTTTTATGATTTTTTATAAAATT
11581521 TATAAT-TTTTTTATGATTTTTAATATAAAATT
1 TA-AATATTTTTTATGATTTTT--TATAAAATT
*
11581553 TAAATATTTTTTATAATTTTTTAT
1 TAAATATTTTTTATGATTTTTTAT
11581577 TTTTATTATC
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
30 17 0.35
31 6 0.12
32 26 0.53
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (30 bp):
TAAATATTTTTTATGATTTTTTATAAAATT
Found at i:11583333 original size:24 final size:22
Alignment explanation
Indices: 11583288--11583335 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
11583278 ACTAGAAAAT
11583288 AAAGAAAAAAAAGAAAAAGTTA
1 AAAGAAAAAAAAGAAAAAGTTA
* *
11583310 AAAGAATATAAAAGAGAAATGTTA
1 AAAGAA-AAAAAAGA-AAAAGTTA
11583334 AA
1 AA
11583336 TTGCTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 7 0.32
24 9 0.41
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (22 bp):
AAAGAAAAAAAAGAAAAAGTTA
Found at i:11588629 original size:31 final size:30
Alignment explanation
Indices: 11588591--11588648 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
11588581 AACAATCCAA
*
11588591 TGACTTAACT-AAAAATATTTGAATAGTTCAC
1 TGACTTAA-TGAAAAAT-TTTGAACAGTTCAC
11588622 TGACTTAATGAAAAATTTTGAACAGTT
1 TGACTTAATGAAAAATTTTGAACAGTT
11588649 TAGTAACCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.36
Consensus pattern (30 bp):
TGACTTAATGAAAAATTTTGAACAGTTCAC
Found at i:11590682 original size:19 final size:19
Alignment explanation
Indices: 11590645--11590696 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
11590635 TTTTAAAGTA
*
11590645 TATAAA-ATTTTGAACTTT
1 TATAAATATTTTTAACTTT
*
11590663 TATAAATATTTTTAATTTT
1 TATAAATATTTTTAACTTT
*
11590682 TAAAAATTATTTTTA
1 TATAAA-TATTTTTA
11590697 TTTATTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 6 0.21
19 15 0.52
20 8 0.28
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TATAAATATTTTTAACTTT
Found at i:11601826 original size:16 final size:16
Alignment explanation
Indices: 11601805--11601840 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11601795 GTTGAACCGC
*
11601805 TTTTTATTTTTTAATA
1 TTTTTATTTTATAATA
*
11601821 TTTTTATTTTATAATC
1 TTTTTATTTTATAATA
11601837 TTTT
1 TTTT
11601841 AATAATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTTATTTTATAATA
Found at i:11622541 original size:9 final size:8
Alignment explanation
Indices: 11622529--11622580 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
11622519 ATTTGTTGAA
11622529 TTTTTACTT
1 TTTTTA-TT
11622538 TTTTTATT
1 TTTTTATT
*
11622546 TTTTT-TA
1 TTTTTATT
11622553 TTTTTATT
1 TTTTTATT
*
11622561 TTTAATATT
1 TTT-TTATT
11622570 TTTTTAATT
1 TTTTT-ATT
11622579 TT
1 TT
11622581 ATAGAATTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 6 0.17
8 12 0.33
9 18 0.50
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTATT
Found at i:11622555 original size:24 final size:24
Alignment explanation
Indices: 11622527--11622580 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
11622517 CAATTTGTTG
*
11622527 AATTTTTACTTTTT-TTATTTTTTT
1 AATTTTTA-TTTTTAATATTTTTTT
*
11622551 TATTTTTATTTTTAATATTTTTTT
1 AATTTTTATTTTTAATATTTTTTT
11622575 AATTTT
1 AATTTT
11622581 ATAGAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (24 bp):
AATTTTTATTTTTAATATTTTTTT
Found at i:11622569 original size:15 final size:15
Alignment explanation
Indices: 11622528--11622572 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
11622518 AATTTGTTGA
* *
11622528 ATTTTTACTTTTTTT
1 ATTTTTAATATTTTT
**
11622543 ATTTTTTTTATTTTT
1 ATTTTTAATATTTTT
11622558 ATTTTTAATATTTTT
1 ATTTTTAATATTTTT
11622573 TTAATTTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (15 bp):
ATTTTTAATATTTTT
Found at i:11623409 original size:21 final size:21
Alignment explanation
Indices: 11623384--11623425 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11623374 TTACATGTGG
*
11623384 AAAATAATAAAATAAATAAAC
1 AAAATAATAAAATAAAAAAAC
*
11623405 AAAATAATAAATTAAAAAAAC
1 AAAATAATAAAATAAAAAAAC
11623426 TCTTAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAATAATAAAATAAAAAAAC
Found at i:11634213 original size:15 final size:15
Alignment explanation
Indices: 11634170--11634217 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
11634160 ACACGTTAAA
11634170 ATAAATAATTAAAAT
1 ATAAATAATTAAAAT
* * * *
11634185 GTAACT-TTTTAAAT
1 ATAAATAATTAAAAT
11634199 ATAAATAATTAAAAT
1 ATAAATAATTAAAAT
11634214 ATAA
1 ATAA
11634218 TTTAAGTTAA
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAATAATTAAAAT
Found at i:11636339 original size:36 final size:36
Alignment explanation
Indices: 11636298--11636367 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
11636288 AGCATTTAAA
11636298 ATTTATATATTT-TTA-TATC-TTATATATTTTATTTT
1 ATTT-TATATTTGTTATTATCATTAT-TATTTTATTTT
*
11636333 ATTTTATCTTTGTTATTATCATTATTATTTTATTT
1 ATTTTATATTTGTTATTATCATTATTATTTTATTT
11636368 ATTCATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
34 6 0.19
35 7 0.23
36 14 0.45
37 4 0.13
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (36 bp):
ATTTTATATTTGTTATTATCATTATTATTTTATTTT
Found at i:11643977 original size:30 final size:31
Alignment explanation
Indices: 11643936--11643995 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
11643926 TTCTTATGCC
* *
11643936 AATATTTTGATACCCGTATCTTTGACTTTCT
1 AATATTTTGATACCCATACCTTTGACTTTCT
*
11643967 AATA-TTTGATACCCATACCTTTGGCTTTC
1 AATATTTTGATACCCATACCTTTGACTTTC
11643996 CGATGATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.45
Consensus pattern (31 bp):
AATATTTTGATACCCATACCTTTGACTTTCT
Found at i:11648921 original size:225 final size:227
Alignment explanation
Indices: 11648510--11648953 Score: 694
Period size: 225 Copynumber: 2.0 Consensus size: 227
11648500 TTATCCTTCA
*
11648510 TATCAACATCATCAGGAATCACATCATTATCATAATGACCAGAAACGCCTCCGGCACTGCCATCA
1 TATCAACATCATCAGGAATCACATCATTATCATAATGACCAGAAACGCCTCCGCCACTGCCATCA
* * * * *
11648575 TCATCCCCCTCCCCATCTTCATCTTCACCATCAAAGTCATCGTCTTTACCAACAACATCATCATT
66 CCATCACCCT-CCCATCCTCATCTTCACCATCAAAGTCATCGTCCTTACCAACAACATCATCATC
** *
11648640 ATTATTAACATTATCTTGATTAAAACCAGCATCCTCTGATAATCCGTTATCATTGCCATCTATAT
130 ATTATTAACATTATCTTGATTAAAACCAGCATCCTCTGATAATCCGGAATCATTGCCATCTATAC
*
11648705 GATATTCTTCATTAGCTTCATCCTCATCCCCCT
195 GACATTCTTCATTAGCTTCATCCTCATCCCCCT
*
11648738 TATCAACATCATCAGGAATCACATCATTATCATAATGGCCAGAAACGCCTCCGCCACTGCCATCA
1 TATCAACATCATCAGGAATCACATCATTATCATAATGACCAGAAACGCCTCCGCCACTGCCATCA
* * * *
11648803 CCATCAGCCT-CC-TCCTCATCTTCATCATCAAATTCATCGTCCTTACCACCAACATCATCATCA
66 CCATCACCCTCCCATCCTCATCTTCACCATCAAAGTCATCGTCCTTACCAACAACATCATCATCA
* * * *
11648866 TTATTAACTTTATCTTGATTAAAACCGGCATCCTCTGATACTCCGGAATCATTGCCATTTATACG
131 TTATTAACATTATCTTGATTAAAACCAGCATCCTCTGATAATCCGGAATCATTGCCATCTATACG
11648931 ACATTCTTCATTAGCTTCATCCT
196 ACATTCTTCATTAGCTTCATCCT
11648954 GTACCAAAAT
Statistics
Matches: 197, Mismatches: 19, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
225 125 0.63
226 2 0.01
228 70 0.36
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (227 bp):
TATCAACATCATCAGGAATCACATCATTATCATAATGACCAGAAACGCCTCCGCCACTGCCATCA
CCATCACCCTCCCATCCTCATCTTCACCATCAAAGTCATCGTCCTTACCAACAACATCATCATCA
TTATTAACATTATCTTGATTAAAACCAGCATCCTCTGATAATCCGGAATCATTGCCATCTATACG
ACATTCTTCATTAGCTTCATCCTCATCCCCCT
Found at i:11664522 original size:23 final size:23
Alignment explanation
Indices: 11664495--11664630 Score: 161
Period size: 23 Copynumber: 6.0 Consensus size: 23
11664485 GGCTTTACCG
*
11664495 ATCAGGCACTTTATGTGTCGTAC
1 ATCAGGCACTTTATGTGTCGTAT
11664518 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
11664541 TTCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* * **
11664564 TTCAGGCACCTCGTGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* * * *
11664587 TTTAGGCACATCATGTGTCG--T
1 ATCAGGCACTTTATGTGTCGTAT
11664608 ATCAGGCAC-TTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
11664630 A
1 A
11664631 CTGATCAGGT
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
20 9 0.09
21 8 0.08
22 2 0.02
23 81 0.81
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:11674177 original size:26 final size:26
Alignment explanation
Indices: 11674093--11674178 Score: 95
Period size: 26 Copynumber: 3.3 Consensus size: 26
11674083 AGCCATATCG
*
11674093 GGAAGCTC-TGAAGAGCCATTAATCA
1 GGAAGCTCACGAAGAGCCATTAATCA
* * * *
11674118 GGAAGCCCACAAAGAGCCTTTAATCG
1 GGAAGCTCACGAAGAGCCATTAATCA
11674144 GGAAGCTCACGAAGAGCCATATAAT-A
1 GGAAGCTCACGAAGAGCCAT-TAATCA
*
11674170 GGACGCTCA
1 GGAAGCTCA
11674179 TAAGAGCTAT
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
25 7 0.14
26 38 0.78
27 4 0.08
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.16
Consensus pattern (26 bp):
GGAAGCTCACGAAGAGCCATTAATCA
Found at i:11676634 original size:105 final size:105
Alignment explanation
Indices: 11676452--11676660 Score: 409
Period size: 105 Copynumber: 2.0 Consensus size: 105
11676442 ACATCTATGT
11676452 TATTTAAAGATATAGTTTATAAATTATTGAGCTGAATTTTATGTGGATTCTATATACAAATATGA
1 TATTTAAAGATATAGTTTATAAATTATTGAGCTGAATTTTATGTGGATTCTATATACAAATATGA
11676517 GATACAACTTCTGTGAATTGAGATTTTTTTTAAAGCTTAC
66 GATACAACTTCTGTGAATTGAGATTTTTTTTAAAGCTTAC
*
11676557 TATTTAAATATATAGTTTATAAATTATTGAGCTGAATTTTATGTGGATTCTATATACAAATATGA
1 TATTTAAAGATATAGTTTATAAATTATTGAGCTGAATTTTATGTGGATTCTATATACAAATATGA
11676622 GATACAACTTCTGTGAATTGAGATTTTTTTTAAAGCTTA
66 GATACAACTTCTGTGAATTGAGATTTTTTTTAAAGCTTA
11676661 GTACCAATCA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 103 1.00
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (105 bp):
TATTTAAAGATATAGTTTATAAATTATTGAGCTGAATTTTATGTGGATTCTATATACAAATATGA
GATACAACTTCTGTGAATTGAGATTTTTTTTAAAGCTTAC
Found at i:11676751 original size:41 final size:41
Alignment explanation
Indices: 11676706--11676855 Score: 230
Period size: 41 Copynumber: 3.6 Consensus size: 41
11676696 GACTTTACGT
11676706 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
** *
11676747 CTAGCAGGCTAAGTTTCGGTGATCTGAATCAAGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
*
11676788 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
*
11676829 CTAGCAGG-TGAAGTGCCAGTGAATCTG
1 CTAGCAGGCT-AAGTGCCGGTG-ATCTG
11676856 TTTAAATTAA
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 93 0.95
42 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
Found at i:11679344 original size:58 final size:57
Alignment explanation
Indices: 11679282--11679404 Score: 147
Period size: 57 Copynumber: 2.1 Consensus size: 57
11679272 AAAGAAATGG
* * * **
11679282 TGAAAATGGCGAAATGAGAAACATTTGGAAATGATTATGGTTTTCTCGAAAATGAAAA
1 TGAAAATGGAGAAATG-GAAACATTTGGAAATGAATATGGTTTTCTCCAAAACCAAAA
* * * * *
11679340 TGAAACTAGAGAAATGGAATCATTTGGAAATTAATGTGGTTTTCTCCAAAACCAAAA
1 TGAAAATGGAGAAATGGAAACATTTGGAAATGAATATGGTTTTCTCCAAAACCAAAA
11679397 TGAAAATG
1 TGAAAATG
11679405 ACATGTAAAT
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
57 40 0.75
58 13 0.25
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (57 bp):
TGAAAATGGAGAAATGGAAACATTTGGAAATGAATATGGTTTTCTCCAAAACCAAAA
Found at i:11679370 original size:57 final size:58
Alignment explanation
Indices: 11679292--11679401 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 58
11679282 TGAAAATGGC
* * **
11679292 GAAATGAGAAACATTTGGAAATGATTATGGTTTTCTCGAAAATGAAAATGAAACTAGA
1 GAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAACCAAAATGAAACTAGA
* * *
11679350 GAAATG-GAATCATTTGGAAATTAATGTGGTTTTCTCCAAAACCAAAATGAAA
1 GAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAACCAAAATGAAA
11679402 ATGACATGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 39 0.87
58 6 0.13
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (58 bp):
GAAATGAGAAACATTTGGAAATGAATATGGTTTTCTCCAAAACCAAAATGAAACTAGA
Found at i:11687561 original size:14 final size:17
Alignment explanation
Indices: 11687532--11687567 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
11687522 ATAAAATATA
11687532 AAAAATTAGAAATTTT-
1 AAAAATTAGAAATTTTC
11687548 AAAAA-TAG-AATTTTC
1 AAAAATTAGAAATTTTC
11687563 AAAAA
1 AAAAA
11687568 GTATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.32
15 8 0.42
16 5 0.26
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (17 bp):
AAAAATTAGAAATTTTC
Found at i:11687978 original size:16 final size:17
Alignment explanation
Indices: 11687959--11688008 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
11687949 TATATATATA
11687959 TTTTCAATTTTATA-CT
1 TTTTCAATTTTATATCT
*
11687975 TTTT-AATTTTTAATATTT
1 TTTTCAA-TTTT-ATATCT
11687993 TCTTTCAATTTTATAT
1 T-TTTCAATTTTATAT
11688009 TATTTTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
15 2 0.07
16 8 0.29
17 3 0.11
18 6 0.21
19 7 0.25
20 2 0.07
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTCAATTTTATATCT
Found at i:11688002 original size:35 final size:37
Alignment explanation
Indices: 11687960--11688032 Score: 105
Period size: 35 Copynumber: 2.0 Consensus size: 37
11687950 ATATATATAT
11687960 TTTCAATTTTATACT-TTTTAAT-TTTTAATATTTTC
1 TTTCAATTTTATACTATTTTAATATTTTAATATTTTC
*
11687995 TTTCAATTTTATATTATTTTAATAAATTTTAATATTTT
1 TTTCAATTTTATACTATTTTAAT--ATTTTAATATTTT
11688033 AATAAATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
35 14 0.42
36 7 0.21
39 12 0.36
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (37 bp):
TTTCAATTTTATACTATTTTAATATTTTAATATTTTC
Found at i:11688023 original size:10 final size:10
Alignment explanation
Indices: 11688010--11688046 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
11688000 ATTTTATATT
11688010 ATTTTAATAA
1 ATTTTAATAA
11688020 ATTTTAAT--
1 ATTTTAATAA
11688028 ATTTTAATAA
1 ATTTTAATAA
11688038 ATTTATAAT
1 ATTT-TAAT
11688047 TTTTTTCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.33
10 12 0.50
11 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATTTTAATAA
Found at i:11688032 original size:18 final size:18
Alignment explanation
Indices: 11687999--11688050 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
11687989 ATTTTCTTTC
11687999 AATTTTATATTATTTTAATA
1 AATTTTA-A-TATTTTAATA
11688019 AATTTTAATATTTTAATA
1 AATTTTAATATTTTAATA
11688037 AATTTATAAT-TTTT
1 AATTT-TAATATTTT
11688051 TTCCATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 19 0.61
19 5 0.16
20 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
AATTTTAATATTTTAATA
Done.