Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 42
Found at i:3924598 original size:15 final size:15
Alignment explanation
Indices: 3924578--3924606 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3924568 CTCCTCCTTC
3924578 CTCATCTTCATCCTG
1 CTCATCTTCATCCTG
3924593 CTCATCTTCATCCT
1 CTCATCTTCATCCT
3924607 TAAAGAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.41, G:0.03, T:0.41
Consensus pattern (15 bp):
CTCATCTTCATCCTG
Found at i:3936138 original size:40 final size:41
Alignment explanation
Indices: 3936059--3936139 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
3936049 TTTTCTTTCC
3936059 CAGTGGGTGGGCTCTTTAATAAGTTGATGTTAGTATAAATT
1 CAGTGGGTGGGCTCTTTAATAAGTTGATGTTAGTATAAATT
*
3936100 CAGTGGGTGGGCTCTTTTATAAG-TGATGTTAGTATAAATT
1 CAGTGGGTGGGCTCTTTAATAAGTTGATGTTAGTATAAATT
3936140 GTGTATCTGC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 17 0.44
41 22 0.56
ACGTcount: A:0.26, C:0.07, G:0.27, T:0.40
Consensus pattern (41 bp):
CAGTGGGTGGGCTCTTTAATAAGTTGATGTTAGTATAAATT
Found at i:3941007 original size:16 final size:18
Alignment explanation
Indices: 3940965--3941009 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
3940955 TCACGGAATG
3940965 TAAGATTACCAGTGAGAA
1 TAAGATTACCAGTGAGAA
3940983 TAAAAGATTACCAG-G-GAA
1 T--AAGATTACCAGTGAGAA
3941001 TAAGATTAC
1 TAAGATTAC
3941010 TGGAAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.32
18 5 0.20
19 1 0.04
20 11 0.44
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (18 bp):
TAAGATTACCAGTGAGAA
Found at i:3941226 original size:36 final size:37
Alignment explanation
Indices: 3941156--3941227 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
3941146 TGGAAAATAT
* * *
3941156 TTATATATTTTCTTTAAAAAATTTAAATTCATAAAAC
1 TTATAAATTTTCTTTAAAAAATTAAAAATCATAAAAC
* *
3941193 TTATAAATTTTTTTTACAAAATTAAAAAT-ATAAAA
1 TTATAAATTTTCTTTAAAAAATTAAAAATCATAAAA
3941228 AAAGGTTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 6 0.20
37 24 0.80
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (37 bp):
TTATAAATTTTCTTTAAAAAATTAAAAATCATAAAAC
Found at i:3943450 original size:16 final size:15
Alignment explanation
Indices: 3943419--3943455 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
3943409 ATCATTATCT
3943419 TATG-TAAAAGCATA
1 TATGATAAAAGCATA
3943433 TATGATAAAAGACATA
1 TATGATAAAAG-CATA
3943449 TATGATA
1 TATGATA
3943456 TGATGTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.19
15 6 0.29
16 11 0.52
ACGTcount: A:0.51, C:0.05, G:0.14, T:0.30
Consensus pattern (15 bp):
TATGATAAAAGCATA
Found at i:3952898 original size:29 final size:29
Alignment explanation
Indices: 3952864--3952922 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
3952854 CCTAAATTAA
3952864 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
3952893 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
3952922 T
1 T
3952923 ATGTGAAAAT
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:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:3957558 original size:29 final size:29
Alignment explanation
Indices: 3957524--3957582 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
3957514 CCTAAATTAA
3957524 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
3957553 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
3957582 T
1 T
3957583 AGGTGAAAAT
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:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:3967845 original size:34 final size:33
Alignment explanation
Indices: 3967796--3967862 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
3967786 ATCTTTTTTC
* *
3967796 ACTTGATATTGTGTGATTAAACTTATTTTCATTT
1 ACTTGATATTATGTGATTAAACTT-GTTTCATTT
* *
3967830 ACTTGCTATTATGTGATTGAACTTGTTTCATTT
1 ACTTGATATTATGTGATTAAACTTGTTTCATTT
3967863 CATGGAAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 8 0.28
34 21 0.72
ACGTcount: A:0.24, C:0.10, G:0.13, T:0.52
Consensus pattern (33 bp):
ACTTGATATTATGTGATTAAACTTGTTTCATTT
Found at i:3968424 original size:20 final size:20
Alignment explanation
Indices: 3968399--3968444 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
3968389 AACAAGTTCA
3968399 TAACAGACTCCAACATTCCT
1 TAACAGACTCCAACATTCCT
* *
3968419 TAACAGATTCCAACTTTCCT
1 TAACAGACTCCAACATTCCT
3968439 TAACAG
1 TAACAG
3968445 CCATAACAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (20 bp):
TAACAGACTCCAACATTCCT
Found at i:3968668 original size:36 final size:35
Alignment explanation
Indices: 3968587--3968725 Score: 208
Period size: 35 Copynumber: 3.9 Consensus size: 35
3968577 AAATGAACAA
*
3968587 TTGAATCGAAAGTG-CTTATGCTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGTC-GATGCTTCCTTCCGTTCAC
* *
3968622 TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTC-AC
*
3968658 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCAC
*
3968693 TTGAATCGAAAGTGTCGATGCTTCCTTTCGTTC
1 TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTC
3968726 TTCTTATTCA
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
35 61 0.65
36 33 0.35
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (35 bp):
TTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCAC
Found at i:3968703 original size:71 final size:71
Alignment explanation
Indices: 3968587--3968730 Score: 270
Period size: 71 Copynumber: 2.0 Consensus size: 71
3968577 AAATGAACAA
**
3968587 TTGAATCGAAAGTGCTTATGCTTCCTTCCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTCG
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTCG
3968652 TTCTTC
66 TTCTTC
3968658 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTCG
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTCG
3968723 TTCTTC
66 TTCTTC
3968729 TT
1 TT
3968731 ATTCATCTTC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (71 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCACTTGAATCGAAAGTGTCGATGCTTCCTTTCG
TTCTTC
Found at i:3978344 original size:16 final size:15
Alignment explanation
Indices: 3978295--3978344 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
3978285 TGATAAAGTT
3978295 TAAAT-ATTT-TATAA
1 TAAATAATTTCTA-AA
3978309 TAAAT-ATTTCTAAA
1 TAAATAATTTCTAAA
3978323 -AAATAATTTCTCAAA
1 TAAATAATTTCT-AAA
3978338 TAAATAA
1 TAAATAA
3978345 AAAATAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.12
14 17 0.53
15 5 0.16
16 6 0.19
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATAATTTCTAAA
Found at i:3978478 original size:18 final size:19
Alignment explanation
Indices: 3978447--3978509 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 19
3978437 TAATTTTTTG
*
3978447 ATTAATAGATTAAAATTTA
1 ATTAATAAATTAAAATTTA
*
3978466 ATT-ATAAATTAAAATAAAAGTA
1 ATTAATAAATTAAAAT----TTA
3978488 ATTAATAAATTAAAATTTA
1 ATTAATAAATTAAAATTTA
3978507 ATT
1 ATT
3978510 GGATTCGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 11 0.31
19 8 0.22
22 5 0.14
23 12 0.33
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (19 bp):
ATTAATAAATTAAAATTTA
Found at i:3982396 original size:38 final size:39
Alignment explanation
Indices: 3982353--3982431 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
3982343 TTATGGAAAA
*
3982353 ATCGGT-AATTTT-TACTATTTTCTTTATTTAATTTCATC
1 ATCGGTGAATTTTATACAATTTT-TTTATTTAATTTCATC
* *
3982391 ATCGGTGATTTTTATACAATTTTTTTATTTAATTTCGTC
1 ATCGGTGAATTTTATACAATTTTTTTATTTAATTTCATC
3982430 AT
1 AT
3982432 TGCTTATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
38 6 0.17
39 22 0.61
40 8 0.22
ACGTcount: A:0.24, C:0.11, G:0.08, T:0.57
Consensus pattern (39 bp):
ATCGGTGAATTTTATACAATTTTTTTATTTAATTTCATC
Found at i:3990378 original size:30 final size:30
Alignment explanation
Indices: 3990344--3990400 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
3990334 AGCAAGTGAT
3990344 AAATCACAATTAAGGACCAACTCTTATATA
1 AAATCACAATTAAGGACCAACTCTTATATA
3990374 AAATCACAATTAAGGACCAACTCTTAT
1 AAATCACAATTAAGGACCAACTCTTAT
3990401 TTGATTAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.26
Consensus pattern (30 bp):
AAATCACAATTAAGGACCAACTCTTATATA
Found at i:3990412 original size:15 final size:15
Alignment explanation
Indices: 3990392--3990421 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3990382 ATTAAGGACC
3990392 AACTCTTATTTGATT
1 AACTCTTATTTGATT
3990407 AACTCTTATTTGATT
1 AACTCTTATTTGATT
3990422 GAGTAACAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
AACTCTTATTTGATT
Found at i:3999420 original size:13 final size:14
Alignment explanation
Indices: 3999395--3999421 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3999385 TTGAAACATA
3999395 CAGTTTTTAAAAAT
1 CAGTTTTTAAAAAT
3999409 CAGTTTTTAAAAA
1 CAGTTTTTAAAAA
3999422 ATATATATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (14 bp):
CAGTTTTTAAAAAT
Found at i:3999471 original size:38 final size:38
Alignment explanation
Indices: 3999413--3999624 Score: 240
Period size: 38 Copynumber: 5.7 Consensus size: 38
3999403 AAAAATCAGT
* *
3999413 TTTTAAAAAATATATATAATATATAGTTTTTGAAAATA
1 TTTTGAAATATATATATAATATATAGTTTTTGAAAATA
*
3999451 TTTTGAAATATATATAT-A-ATATAGTTTTTGAAAACA
1 TTTTGAAATATATATATAATATATAGTTTTTGAAAATA
** *
3999487 TTTTGAAAATATATATATAATATATAGTTTTTG-ATTTT
1 TTTTG-AAATATATATATAATATATAGTTTTTGAAAATA
* *
3999525 TTTTGAAA-ATATATATAAAATATAG-TTTTGAAAACA
1 TTTTGAAATATATATATAATATATAGTTTTTGAAAATA
* *
3999561 TTTTTAAAAAATATATATAATATATAG-TTTT-AAAATA
1 -TTTTGAAATATATATATAATATATAGTTTTTGAAAATA
*
3999598 TTTTTGAAAATATATATATTATATATA
1 -TTTTG-AAATATATATATAATATATA
3999625 TATATATATA
Statistics
Matches: 149, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
35 5 0.03
36 39 0.26
37 33 0.22
38 60 0.40
39 12 0.08
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (38 bp):
TTTTGAAATATATATATAATATATAGTTTTTGAAAATA
Found at i:3999473 original size:36 final size:37
Alignment explanation
Indices: 3999419--3999622 Score: 231
Period size: 36 Copynumber: 5.5 Consensus size: 37
3999409 CAGTTTTTAA
3999419 AAAATATATATA-ATATATAGTTTTTGAAAATATTTTG
1 AAAATATATATATA-ATATAGTTTTTGAAAATATTTTG
*
3999456 -AAATATATATATAATATAGTTTTTGAAAACATTTTG
1 AAAATATATATATAATATAGTTTTTGAAAATATTTTG
** *
3999492 AAAATATATATATAATATATAGTTTTTG-ATTTTTTTTG
1 AAAATATATATAT-A-ATATAGTTTTTGAAAATATTTTG
* * *
3999530 AAAATATATATAAAATATAG-TTTTGAAAACATTTTT
1 AAAATATATATATAATATAGTTTTTGAAAATATTTTG
*
3999566 AAAAAATATATATAATATA-TAGTTTT-AAAATATTTTTG
1 AAAATATATATATAATATAGT--TTTTGAAAATA-TTTTG
*
3999604 AAAATATATATATTATATA
1 AAAATATATATATAATATA
3999623 TATATATATA
Statistics
Matches: 141, Mismatches: 17, Indels: 17
0.81 0.10 0.10
Matches are distributed among these distances:
35 5 0.04
36 61 0.43
37 19 0.13
38 44 0.31
39 12 0.09
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.46
Consensus pattern (37 bp):
AAAATATATATATAATATAGTTTTTGAAAATATTTTG
Found at i:3999614 original size:2 final size:2
Alignment explanation
Indices: 3999607--3999649 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
3999597 ATTTTTGAAA
3999607 AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3999648 AT
1 AT
3999650 TTATTTTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4000096 original size:17 final size:19
Alignment explanation
Indices: 4000074--4000113 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
4000064 AAGCAACAAC
4000074 AACAAGCCAA-CAAAG-AA
1 AACAAGCCAAGCAAAGTAA
*
4000091 AACAAGGCAAGCAAAGTAA
1 AACAAGCCAAGCAAAGTAA
4000110 AACA
1 AACA
4000114 TTCGAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 5 0.25
19 6 0.30
ACGTcount: A:0.62, C:0.20, G:0.15, T:0.03
Consensus pattern (19 bp):
AACAAGCCAAGCAAAGTAA
Found at i:4004460 original size:2 final size:2
Alignment explanation
Indices: 4004455--4004533 Score: 151
Period size: 2 Copynumber: 40.0 Consensus size: 2
4004445 ACACACACAC
4004455 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4004496 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4004534 GCAAAACCCA
Statistics
Matches: 76, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.01
2 75 0.99
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4006881 original size:21 final size:21
Alignment explanation
Indices: 4006849--4006888 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
4006839 AATCATGTAT
4006849 CTAAATCATAAATCTTAAATA
1 CTAAATCATAAATCTTAAATA
4006870 CTAAACTC-TAAATCTTAAA
1 CTAAA-TCATAAATCTTAAA
4006889 CAAACAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (21 bp):
CTAAATCATAAATCTTAAATA
Found at i:4011300 original size:31 final size:31
Alignment explanation
Indices: 4011264--4011322 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
4011254 AACTTAAAAG
* *
4011264 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
*
4011295 AGTTTTACGATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
4011323 AAATCTAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:4011360 original size:22 final size:22
Alignment explanation
Indices: 4011335--4011379 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
4011325 ATCTAACTAC
4011335 AATAATATAT-TATTTAAAATAA
1 AATAATATATAT-TTTAAAATAA
*
4011357 AATAATCTATATTTTAAAATAA
1 AATAATATATATTTTAAAATAA
4011379 A
1 A
4011380 TCAATCCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AATAATATATATTTTAAAATAA
Found at i:4011443 original size:80 final size:80
Alignment explanation
Indices: 4011352--4011502 Score: 248
Period size: 80 Copynumber: 1.9 Consensus size: 80
4011342 TATTATTTAA
*
4011352 AATAAAATAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTTTTTAAAATAAATCAAT
1 AATAAAATAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
4011417 TTATACAACTACAAT
66 CTATACAACTACAAT
* ** *
4011432 AATAAATTAATCTATATTTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATTAAT
1 AATAAAATAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
4011497 CTATAC
66 CTATAC
4011503 TCATAAATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.38
Consensus pattern (80 bp):
AATAAAATAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CTATACAACTACAAT
Found at i:4011481 original size:134 final size:133
Alignment explanation
Indices: 4011337--4012107 Score: 544
Period size: 134 Copynumber: 5.6 Consensus size: 133
4011327 CTAACTACAA
*
4011337 TAATATATTATTTAAAATAAAAT-AATCTATATTTTAAAATAAATCAATCCATACTAATAAATTT
1 TAATAAATTATTTAAAAT-AAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTT
* *
4011401 TTTAAAATAAATCAATTTATACAACTACAATAATAAATTAATCTATATTTTAAAATAAATCAATT
65 TTTAAAATAAATCAATCTATA-AAATACAATAATAAATTAATCTATATTTTAAAATAAATCAATT
*
4011466 TATAC
129 CATAC
* ** *
4011471 TAATAAATTATTTAAAATAAATTAATCTATACTCATAAATTATTTAAAATAAATCAATTTATACA
1 TAATAAATTATTTAAAAT--A--AATC-A-A-TC-TATA-T-TTTAAAATAAATCAATCCATACT
** * * * * * **
4011536 AATACAA--TAAT-AATTCAATTCATAT-TTTAAAATA-AATCAATCTATACTAATAAAT-TATT
56 AATA-AATTTTTTAAAAT-AAATCA-ATCTATAAAATACAAT-AA--TAAATTAATCTATAT-TT
*
4011595 TAAAATAAATCAATTCATAT
114 TAAAATAAATCAATTCATAC
* *
4011615 TAATAAATTATTTAAAATAAATCAAT-TCATATTTTAAAATAAATCAATTCATACTAATAAATTA
1 TAATAAATTATTTAAAATAAATCAATCT-ATATTTTAAAATAAATCAATCCATACTAATAAATTT
*
4011679 TTTAAAATATATCAATCTATAAAATTACAATAATAAATTAATCTATATTTTAAAATAAATCAA-T
65 TTTAAAATAAATCAATCTATAAAA-TACAATAATAAATTAATCTATATTTTAAAATAAATCAATT
4011743 CGATAC
129 C-ATAC
*
4011749 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAAT-AATTTA
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTT-
*** * * **
4011813 TTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
65 TTTAAAATAAATCAATCTATAAAATACAAT-AATAAATTAAT-CT-AT--A-T-TTTAAAATAAA
*
4011878 TTAATTCATA-
123 TCAATTCATAC
** * * *
4011888 TTTTAAA--A--T-AAATTAATCCATACTAATAAATTATTTAAAATAAATCAATTCATAC-AACT
1 TAATAAATTATTTAAAATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATACTAA-T
** * * * * * **
4011947 ACAA--TAAT-AAATCAATTCATAT-TTTAAAATA-AATCATTCTATACTAATAAAT-TATTTAA
59 A-AATTTTTTAAAAT-AAATCA-ATCTATAAAATACAAT-A--ATAAATTAATCTATAT-TTTAA
*
4012006 AATAAATCAATCCATAC
117 AATAAATCAATTCATAC
* * * *
4012023 TAATAAATTATTTAAAATAAATAAATCTATATTTTAAAATAAATCAATTCATATTAATAAATTGT
1 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTTT
4012088 TTAAAATAAATCAATCTATA
66 TTAAAATAAATCAATCTATA
4012108 TTTTAAAATA
Statistics
Matches: 498, Mismatches: 79, Indels: 119
0.72 0.11 0.17
Matches are distributed among these distances:
133 15 0.03
134 210 0.42
135 37 0.07
136 18 0.04
137 9 0.02
138 15 0.03
139 25 0.05
140 60 0.12
141 7 0.01
142 15 0.03
143 12 0.02
144 73 0.15
145 2 0.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.38
Consensus pattern (133 bp):
TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTTT
TTAAAATAAATCAATCTATAAAATACAATAATAAATTAATCTATATTTTAAAATAAATCAATTCA
TAC
Found at i:4011488 original size:32 final size:32
Alignment explanation
Indices: 4011449--4011539 Score: 146
Period size: 32 Copynumber: 2.8 Consensus size: 32
4011439 TAATCTATAT
4011449 TTTAAAATAAATCAATTTATACTAATAAATTA
1 TTTAAAATAAATCAATTTATACTAATAAATTA
* * *
4011481 TTTAAAATAAATTAATCTATACTCATAAATTA
1 TTTAAAATAAATCAATTTATACTAATAAATTA
*
4011513 TTTAAAATAAATCAATTTATACAAATA
1 TTTAAAATAAATCAATTTATACTAATA
4011540 CAATAATAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.40
Consensus pattern (32 bp):
TTTAAAATAAATCAATTTATACTAATAAATTA
Found at i:4011489 original size:14 final size:14
Alignment explanation
Indices: 4011449--4011524 Score: 53
Period size: 14 Copynumber: 4.9 Consensus size: 14
4011439 TAATCTATAT
*
4011449 TTTAAAATAAATCAA
1 TTTAAAATAAAT-TA
4011464 TTTATACTAATAAATTA
1 TTTA-A--AATAAATTA
4011481 TTTAAAATAAATTAA
1 TTTAAAATAAATT-A
**
4011496 TCTATACTCATAAATTA
1 T-T-TA-AAATAAATTA
4011513 TTTAAAATAAAT
1 TTTAAAATAAAT
4011525 CAATTTATAC
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
14 14 0.29
15 8 0.16
16 4 0.08
17 9 0.18
18 14 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTAAAATAAATTA
Found at i:4011492 original size:54 final size:54
Alignment explanation
Indices: 4011432--4012154 Score: 569
Period size: 54 Copynumber: 13.2 Consensus size: 54
4011422 CAACTACAAT
*
4011432 AATAAATTAATCTATATTTTAAAATAAATCAATTTATACTAATAAATTATTTAA
1 AATAAATTAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
* * *
4011486 AATAAATTAATCTATACTCATAAATTATTTAAAATAAATCAATTTATACAAATACA--A--T--
1 AATAAATT-A---AT-CT-AT--A-T-TTTAAAATAAATCAATTCATACTAATAAATTATTTAA
4011544 AAT-AATTCAAT-TCATATTTTAAAATAAATCAA-TCTATACTAATAAATTATTTAA
1 AATAAATT-AATCT-ATATTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAA
* ** * ** *
4011598 AATAAATCAATTCATATTAATAAATTATTTAAAATAAATCAATTCATA-TTTTAAAATAAATCA
1 AATAAATTAA-TC----T-AT--A-T-TTTAAAATAAATCAATTCATACTAATAAATTATTTAA
* * * ** * *
4011661 ATTCATACTAATAAAT-TATTTAAAATATATCAA-TC-TA-T-A-AAATTA--CAA
1 AAT-AAATTAATCTATAT-TTTAAAATAAATCAATTCATACTAATAAATTATTTAA
4011709 TAATAAATTAATCTATATTTTAAAATAAATCAA-TCGATACTAATAAATTATTTAA
1 -AATAAATTAATCTATATTTTAAAATAAATCAATTC-ATACTAATAAATTATTTAA
* * * *
4011764 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAATTTATTTAA
1 AATAAATTAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
* *
4011818 AATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATTAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
* *
4011872 AATAAATTAAT-TCATATTTTAAAATAAATTAATCCATACTAATAAATTATTTAA
1 AATAAATTAATCT-ATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
* * * ** * * *
4011926 AATAAATCAATTCATACAACTACAATAATAAATCAATTCATATTTTAAAATAAATCATTCTAT
1 AATAAATTAA-TC-TA-TATTTTAA-AATAAATCAATTCATA--CT--AATAAATTATT-TAA
* * *
4011989 ACT-AA-TAA-AT-TA-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATTAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
* * *
4012038 AATAAATAAATCTATATTTTAAAATAAATCAATTCATATTAATAAATTGTTTAA
1 AATAAATTAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
*
4012092 AATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATTAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
4012146 AATAAATTA
1 AATAAATTA
4012155 TTTTAAAATA
Statistics
Matches: 543, Mismatches: 70, Indels: 112
0.75 0.10 0.15
Matches are distributed among these distances:
47 1 0.00
48 49 0.09
49 8 0.01
50 21 0.04
51 3 0.01
52 11 0.02
53 11 0.02
54 298 0.55
55 12 0.02
56 2 0.00
57 10 0.02
58 22 0.04
59 2 0.00
60 7 0.01
61 2 0.00
62 15 0.03
63 18 0.03
64 49 0.09
65 2 0.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.38
Consensus pattern (54 bp):
AATAAATTAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
Found at i:4011503 original size:112 final size:112
Alignment explanation
Indices: 4011369--4012152 Score: 438
Period size: 112 Copynumber: 7.1 Consensus size: 112
4011359 TAATCTATAT
* * *
4011369 TTTAAAATAAATCAATCCATACTAATAAATTTTTTAAAATAAATCAATTTATACAACTACAATAA
1 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATTTATACAAATACAATAA
*
4011434 TAAATT-AA-TCTATATTTTAAAATAAATCAATTTATACTAATAAATTA
66 T-AATTCAATTC-ATATTTTAAAATAAATCAATCTATACTAATAAATTA
* *
4011481 TTTAAAATAAATTAATCTATACTCATAAATTATTTAAAATAAATCAATTTATACAAATACAATAA
1 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATTTATACAAATACAATAA
4011546 TAATTCAATTCATATTTTAAAATAAATCAATCTATACTAATAAATTA
66 TAATTCAATTCATATTTTAAAATAAATCAATCTATACTAATAAATTA
* * *** *
4011593 TTTAAAATAAATCAAT-TCATATTAATAAATTATTTAAAATAAATCAATTCATA-TTTTAAAATA
1 TTTAAAATAAATCAATCT-ATACTAATAAATTATTTAAAATAAATCAATTTATACAAATACAAT-
* * *
4011656 AATCAATTCATACTAATAAATTATTTAAAATATATCAATC--TA-T-A-AAATTA
64 AAT-AATTCA-ATTCAT--A-T-TTTAAAATAAATCAATCTATACTAATAAATTA
* * ** * * * **
4011706 --CAATAATAAATTAATCTATA-TTTTAAA--A--T-AAATCAATCGATACTAATA-AATTATTT
1 TTTAA-AATAAATCAATCTATACTAATAAATTATTTAAAATAAATC-A-ATTTATACAA--ATAC
* * * *
4011762 AA-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAATTTA
61 AATAATAATTCAATTCATATTTTAAAATAAATCAATCTATACTAATAAATTA
** * * * **
4011813 TTTAAAATAAATCAATCTATA-TTTTAAA--A--T-AAATCAATCCATACTAATA-AATTATTTA
1 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAAT-CA-ATTTATACAA--ATACA
* *
4011871 A-AATAAATT-AATTCATATTTTAAAATAAATTAATCCATACTAATAAATTA
62 ATAAT-AATTCAATTCATATTTTAAAATAAATCAATCTATACTAATAAATTA
* *
4011921 TTTAAAATAAATCAAT-TCATAC-AACTACAA-TA-AT-AAATCAATTCATATTT-TA-AAATA-
1 TTTAAAATAAATCAATCT-ATACTAA-TA-AATTATTTAAAAT-AAATCA-ATTTATACAAATAC
* * * ** *
4011978 AATCATTCTATACTAATAAAT-TATTTAAAATAAATCAATCCATACTAATAAATTA
61 AAT-AAT-AATTC-AATTCATAT-TTTAAAATAAATCAATCTATACTAATAAATTA
* ** * * * **
4012033 TTTAAAATAAATAAATCTATA-TTTTAAA--A--T-AAATCAATTCATATTAATA-AATTGTTTA
1 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAAT-AAATCA-ATTTATACAA--ATACA
*
4012091 A-AATAAATCAA-TCTATATTTTAAAATAAATCAAT-TCATACTAATAAATTA
62 ATAATAATTCAATTC-ATATTTTAAAATAAATCAATCT-ATACTAATAAATTA
4012141 TTTAAAATAAAT
1 TTTAAAATAAAT
4012153 TATTTTAAAA
Statistics
Matches: 558, Mismatches: 68, Indels: 96
0.77 0.09 0.13
Matches are distributed among these distances:
102 16 0.03
103 1 0.00
104 3 0.01
105 1 0.00
106 12 0.02
107 13 0.02
108 183 0.33
109 19 0.03
110 13 0.02
111 26 0.05
112 227 0.41
113 18 0.03
114 5 0.01
115 1 0.00
116 3 0.01
117 1 0.00
118 16 0.03
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (112 bp):
TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATTTATACAAATACAATAA
TAATTCAATTCATATTTTAAAATAAATCAATCTATACTAATAAATTA
Found at i:4011603 original size:14 final size:14
Alignment explanation
Indices: 4011584--4011636 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
4011574 AATCTATACT
4011584 AATAAATTATTTAA
1 AATAAATTATTTAA
* *
4011598 AATAAATCAATTCATATT
1 AATAAAT-TATT--TA-A
4011616 AATAAATTATTTAA
1 AATAAATTATTTAA
4011630 AATAAAT
1 AATAAAT
4011637 CAATTCATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 14 0.45
15 5 0.16
17 5 0.16
18 7 0.23
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:4011604 original size:166 final size:166
Alignment explanation
Indices: 4011432--4012152 Score: 694
Period size: 166 Copynumber: 4.4 Consensus size: 166
4011422 CAACTACAAT
* *
4011432 AATAAATTAATCTATATTTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATTAAT
1 AATAAATCAATCTATATTTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAAT
* *
4011497 CTATACTCATAAATTATTTAAAATAAATCAATTTATACAAATACAATAAT-AATTCAATTC-ATA
66 CTATACTAATAAATTATTTAAAATAAATCAATCTATA-AAATACAATAATAAATT-AATTCTATA
4011560 TTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
129 TTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
* * * *
4011598 AATAAATCAAT-TCATA--TT--AATAAAT-TATTTAAAATAAATCAATTCATATTTTAAAATAA
1 AATAAATCAATCT-ATATTTTAAAATAAATCAATTTATACT-AAT-AAAT--TA-TTTAAAATAA
*
4011657 ATCAAT-TCATACTAATAAATTATTTAAAATATATCAATCTATAAAATTACAATAATAAATTAA-
60 ATCAATCT-ATACTAATAAATTATTTAAAATAAATCAATCTATAAAA-TACAATAATAAATTAAT
*
4011720 TCTATATTTTAAAATAAATCAATCGATACTAATAAATTATTTAA
123 TCTATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
* ** *
4011764 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAATTTATTTAAAATAAATCAAT
1 AATAAATCAATCTATATTTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAAT
** * * **
4011829 CTATA-TTTTAAA--A--T-AAATCAATCCATACTAATAAATTATTTAA-AATAAATTAATTC-A
66 CTATACTAATAAATTATTTAAAATAAATCAAT-CT-ATAAA--ATACAATAATAAATTAATTCTA
* *
4011886 TATTTTAAAATAAATTAATCCATACTAATAAATTATTTAA
127 TATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
* * **
4011926 AATAAATCAATTCATACAACTACAATAATAAATCAA--T-T-C--AT--A-T-TTTAAAATAAAT
1 AATAAATCAA-TC-TA-TATTTTAA-AATAAATCAATTTATACTAATAAATTATTTAAAATAAAT
* *
4011981 CATTCTATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAA-AATAAA-
62 CAATCTATACTAATAAATTATTTAAAATAAATCAAT-C-TA-T-A-AAA-TA--CAATAATAAAT
* * *
4012044 TAAATCTATATTTTAAAATAAATCAAT-TCATATTAATAAATTGTTTAA
119 TAATTCTATATTTTAAAATAAATCAATCT-ATACTAATAAATTATTTAA
*
4012092 AATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAAT
1 AATAAATCAATCTATATTTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAAT
4012153 TATTTTAAAA
Statistics
Matches: 455, Mismatches: 49, Indels: 96
0.76 0.08 0.16
Matches are distributed among these distances:
156 20 0.04
157 6 0.01
159 1 0.00
160 11 0.02
161 11 0.02
162 97 0.21
163 19 0.04
164 8 0.02
165 28 0.06
166 210 0.46
167 7 0.02
168 4 0.01
169 4 0.01
170 11 0.02
171 6 0.01
172 12 0.03
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.38
Consensus pattern (166 bp):
AATAAATCAATCTATATTTTAAAATAAATCAATTTATACTAATAAATTATTTAAAATAAATCAAT
CTATACTAATAAATTATTTAAAATAAATCAATCTATAAAATACAATAATAAATTAATTCTATATT
TTAAAATAAATCAATCTATACTAATAAATTATTTAA
Found at i:4011651 original size:22 final size:22
Alignment explanation
Indices: 4011625--4011667 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4011615 TAATAAATTA
4011625 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATTCATAT
4011647 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATTCATA
4011668 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATTCATAT
Found at i:4011676 original size:22 final size:22
Alignment explanation
Indices: 4011627--4011675 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
4011617 ATAAATTATT
**
4011627 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATTCATATAA
4011649 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATTCATA-TAA
4011672 TAAA
1 TAAA
4011676 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAATAAATCAATTCATATAA
Found at i:4011785 original size:22 final size:22
Alignment explanation
Indices: 4011759--4011801 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4011749 TAATAAATTA
4011759 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
4011781 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
4011802 CTAATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4011828 original size:220 final size:220
Alignment explanation
Indices: 4011544--4012152 Score: 651
Period size: 242 Copynumber: 2.7 Consensus size: 220
4011534 CAAATACAAT
* * *
4011544 AATAATTCAATTCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAATTTATTTAAAATAAATCAAT
4011609 TCATATTAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATACTAATA
66 TCATATTAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATACTAATA
* * *
4011674 AATTATTTAAAATATATCAA-TCTATAAAATTACAATAATAAATTAA-TCTATATTTTAAAATAA
131 AATTATTTAAAATAAATCAATTC-ATAAAACTACAATAATAAATCAATTC-ATATTTTAAAATAA
4011737 ATCAATCGATACTAATAAATTATTTAA
194 ATCAATCGATACTAATAAATTATTTAA
*
4011764 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAATTTATTTAAAATAAATCAA-
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAATTTATTTAAAATAAATCAAT
* * * * * * **
4011828 TCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATTAATTCATATTTTA
66 TC-ATA--TT--AATAAAT-TAT--TTA-AAATAAATCAATT--CATATTTTAA---A-A---T-
* *
4011893 AAATAAATTAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAATAAA
112 AAATCAATT----CATACTAATAAATTATTTAAAATAAATCAATTCATAAAACTACAATAATAAA
* *
4011958 TCAATTCATATTTTAAAATAAATCATTCTATACTAATAAATTATTTAA
173 TCAATTCATATTTTAAAATAAATCAATCGATACTAATAAATTATTTAA
* * * * *
4012006 AATAAATCAATCCATA--CT--AATAAAT-TATTTAAAATAAATAAATCTATATTTTAAAATAAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACT-AAT-AAT-T-TA-TTTAAAATAAA
*
4012066 TCAATTCATATTAATAAATTGTTTAAAATAAATCAA-TCTATATTTTAAAATAAATCAATTCATA
61 TCAATTCATATTAATAAATTATTTAAAATAAATCAATTC-ATATTTTAAAATAAATCAATTCATA
4012130 CTAATAAATTATTTAAAATAAAT
125 CTAATAAATTATTTAAAATAAAT
4012153 TATTTTAAAA
Statistics
Matches: 322, Mismatches: 35, Indels: 64
0.76 0.08 0.15
Matches are distributed among these distances:
219 2 0.01
220 90 0.28
222 2 0.01
224 15 0.05
225 3 0.01
227 2 0.01
228 11 0.03
229 1 0.00
230 7 0.02
232 7 0.02
233 2 0.01
234 9 0.03
235 2 0.01
237 7 0.02
238 25 0.08
239 3 0.01
240 4 0.01
241 2 0.01
242 122 0.38
243 6 0.02
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (220 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAATTTATTTAAAATAAATCAAT
TCATATTAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATACTAATA
AATTATTTAAAATAAATCAATTCATAAAACTACAATAATAAATCAATTCATATTTTAAAATAAAT
CAATCGATACTAATAAATTATTTAA
Found at i:4011864 original size:22 final size:22
Alignment explanation
Indices: 4011815--4011863 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4011805 ATAATTTATT
* **
4011815 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
4011837 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
4011860 TAAA
1 TAAA
4011864 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:4011882 original size:22 final size:22
Alignment explanation
Indices: 4011857--4011904 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4011847 CAATCCATAC
4011857 TAATAAAT-TATTTAAAATAAAT
1 TAATAAATAT-TTTAAAATAAAT
**
4011879 TAATTCATATTTTAAAATAAAT
1 TAATAAATATTTTAAAATAAAT
4011901 TAAT
1 TAAT
4011905 CCATACTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TAATAAATATTTTAAAATAAAT
Found at i:4011909 original size:22 final size:22
Alignment explanation
Indices: 4011867--4011909 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4011857 TAATAAATTA
*
4011867 TTTAAAATAAATTAATTCATAT
1 TTTAAAATAAATTAATCCATAT
4011889 TTTAAAATAAATTAATCCATA
1 TTTAAAATAAATTAATCCATA
4011910 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTAAAATAAATTAATCCATAT
Found at i:4011918 original size:22 final size:22
Alignment explanation
Indices: 4011869--4011917 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4011859 ATAAATTATT
* **
4011869 TAAAATAAATTAATTCATATTT
1 TAAAATAAATTAATCCATATAA
4011891 TAAAATAAATTAATCCATACTAA
1 TAAAATAAATTAATCCATA-TAA
4011914 TAAA
1 TAAA
4011918 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAAATAAATTAATCCATATAA
Found at i:4011920 original size:40 final size:40
Alignment explanation
Indices: 4011872--4012000 Score: 104
Period size: 40 Copynumber: 3.2 Consensus size: 40
4011862 AATTATTTAA
*
4011872 AATAAATTAATTCATATTTTAAAATAAATTAATCCATACT
1 AATAAATTAATTCATATTTTAAAATAAATTAATCAATACT
*** * *
4011912 AATAAATT-ATT--TAAAAT-AAATCAATTCATACAACTACAAT
1 AATAAATTAATTCATATTTTAAAATAAATTAAT-CAA-TAC--T
* * * *
4011952 AATAAATCAATTCATATTTTAAAATAAATCATTCTATACT
1 AATAAATTAATTCATATTTTAAAATAAATTAATCAATACT
4011992 AATAAATTA
1 AATAAATTA
4012001 TTTAAAATAA
Statistics
Matches: 65, Mismatches: 16, Indels: 16
0.67 0.16 0.16
Matches are distributed among these distances:
36 10 0.15
37 5 0.08
38 3 0.05
39 3 0.05
40 25 0.38
41 3 0.05
42 3 0.05
43 5 0.08
44 8 0.12
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (40 bp):
AATAAATTAATTCATATTTTAAAATAAATTAATCAATACT
Found at i:4011995 original size:18 final size:18
Alignment explanation
Indices: 4011974--4012030 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
4011964 CATATTTTAA
4011974 AATAAATCATTCTATACT
1 AATAAATCATTCTATACT
*
4011992 AATAAATTATT-TA-A--
1 AATAAATCATTCTATACT
* *
4012006 AATAAATCAATCCATACT
1 AATAAATCATTCTATACT
4012024 AATAAAT
1 AATAAAT
4012031 TATTTAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 9 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 17 0.55
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAAATCATTCTATACT
Found at i:4012045 original size:18 final size:19
Alignment explanation
Indices: 4012024--4012071 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
4012014 AATCCATACT
4012024 AATAAATTA-TTTAAAATA
1 AATAAATTATTTTAAAATA
4012042 AATAAATCTATATTTTAAAATA
1 AATAAA--T-TATTTTAAAATA
*
4012064 AATCAATT
1 AATAAATT
4012072 CATATTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.24
19 1 0.04
20 2 0.08
21 2 0.08
22 14 0.56
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (19 bp):
AATAAATTATTTTAAAATA
Found at i:4012152 original size:86 final size:85
Alignment explanation
Indices: 4011835--4012103 Score: 311
Period size: 86 Copynumber: 3.2 Consensus size: 85
4011825 CAATCTATAT
* * * *
4011835 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATTAATTCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATAATTCAAAATAAATAAACT-ATATTTTAAAATAAA
* * *
4011900 TTAATCCATACTAATAAATTA
65 TCATTCTATACTAATAAATTA
* * *
4011921 TTTAAAATAAATCAATTCATAC-AACTACAATAA-T--AAATCAAT--TC-ATATTTTAAAATAA
1 TTTAAAATAAATCAATCCATACTAA-TA-AATAATTCAAAATAAATAAACTATATTTTAAAATAA
4011979 ATCATTCTATACTAATAAATTA
64 ATCATTCTATACTAATAAATTA
* *
4012001 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATAAATCTATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAATAATTCAAAATAAATAAA-CTATATTTTAAAATAAA
* *
4012066 TCAATTC-ATATTAATAAATTG
65 TC-ATTCTATACTAATAAATTA
4012087 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
4012104 TATATTTTAA
Statistics
Matches: 158, Mismatches: 14, Indels: 22
0.81 0.07 0.11
Matches are distributed among these distances:
79 4 0.03
80 57 0.36
81 2 0.01
82 7 0.04
84 7 0.04
85 3 0.02
86 70 0.44
87 8 0.05
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (85 bp):
TTTAAAATAAATCAATCCATACTAATAAATAATTCAAAATAAATAAACTATATTTTAAAATAAAT
CATTCTATACTAATAAATTA
Found at i:4012161 original size:15 final size:15
Alignment explanation
Indices: 4012132--4012219 Score: 97
Period size: 15 Copynumber: 5.5 Consensus size: 15
4012122 AATTCATACT
4012132 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
4012146 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
4012161 AATAAATCAATCAATATTTTAT
1 AAT--A--AAT---TATTTTAA
4012183 AATAAATTATTTTAA
1 AATAAATTATTTTAA
4012198 AATAAATTATTTTAA
1 AATAAATTATTTTAA
4012213 AATAAAT
1 AATAAAT
4012220 AATCTTATTA
Statistics
Matches: 64, Mismatches: 2, Indels: 15
0.79 0.02 0.19
Matches are distributed among these distances:
14 9 0.14
15 37 0.58
17 1 0.02
18 3 0.05
19 3 0.05
20 1 0.02
22 10 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:4012171 original size:69 final size:66
Alignment explanation
Indices: 4012078--4012219 Score: 187
Period size: 69 Copynumber: 2.1 Consensus size: 66
4012068 AATTCATATT
* *
4012078 AATAAATTGTTTAAAATAAATCAATCTATATTTTAAAATAAATCAATTCATACTAATAAATTA-T
1 AATAAATTGTTTAAAATAAATCAATCAATATTTTAAAATAAAT-AATT-ATA-AAATAAATTATT
4012142 TTAA
63 TTAA
* * * *
4012146 AATAAATTATTTTAAAATAAATCAATCAATATTTTATAATAAATTATTTTAAAATAAATTATTTT
1 AATAAATT-GTTTAAAATAAATCAATCAATATTTTAAAATAAATAATTATAAAATAAATTATTTT
4012211 AA
65 AA
4012213 AATAAAT
1 AATAAAT
4012220 AATCTTATTA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
66 9 0.14
67 14 0.21
68 11 0.17
69 32 0.48
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.42
Consensus pattern (66 bp):
AATAAATTGTTTAAAATAAATCAATCAATATTTTAAAATAAATAATTATAAAATAAATTATTTTA
A
Found at i:4012178 original size:22 final size:22
Alignment explanation
Indices: 4012087--4012189 Score: 82
Period size: 22 Copynumber: 4.5 Consensus size: 22
4012077 TAATAAATTG
*
4012087 TTTAAAATAAATCAATCTATAT
1 TTTAAAATAAATCAATCAATAT
4012109 TTTAAAATAAATCAATTC-ATACT
1 TTTAAAATAAATCAA-TCAATA-T
** * ** * *
4012132 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCAA-TAT
4012156 TTTAAAATAAATCAATCAATAT
1 TTTAAAATAAATCAATCAATAT
*
4012178 TTTATAATAAAT
1 TTTAAAATAAAT
4012190 TATTTTAAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
22 32 0.52
23 16 0.26
24 11 0.18
25 2 0.03
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTAAAATAAATCAATCAATAT
Found at i:4012642 original size:2 final size:2
Alignment explanation
Indices: 4012635--4012664 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4012625 TTTCTCTAAG
4012635 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4012665 TGATTTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4022664 original size:22 final size:23
Alignment explanation
Indices: 4022639--4022688 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 23
4022629 AACAAACACA
4022639 TTCGTGAACAT-AAATAAATACG
1 TTCGTGAACATAAAATAAATACG
4022661 TTCGTGAACATAAAAATAAATACG
1 TTCGTGAACAT-AAAATAAATACG
4022685 TTCG
1 TTCG
4022689 CAAACATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 11 0.42
24 15 0.58
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (23 bp):
TTCGTGAACATAAAATAAATACG
Found at i:4022694 original size:24 final size:24
Alignment explanation
Indices: 4022650--4022695 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
4022640 TCGTGAACAT
**
4022650 AAATAAATACGTTCGTGAACATAA
1 AAATAAATACGTTCGCAAACATAA
4022674 AAATAAATACGTTCGCAAACAT
1 AAATAAATACGTTCGCAAACAT
4022696 TAAACGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (24 bp):
AAATAAATACGTTCGCAAACATAA
Found at i:4023608 original size:15 final size:16
Alignment explanation
Indices: 4023588--4023631 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
4023578 AGATGAACTC
*
4023588 AAAACTCCAAAGT-TA
1 AAAACTCCAAACTCTA
4023603 AAAACTCCACAACTCTA
1 AAAACTCCA-AACTCTA
*
4023620 AACACTCCAAAC
1 AAAACTCCAAAC
4023632 AGATTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 9 0.36
16 6 0.24
17 10 0.40
ACGTcount: A:0.50, C:0.32, G:0.02, T:0.16
Consensus pattern (16 bp):
AAAACTCCAAACTCTA
Found at i:4025924 original size:20 final size:20
Alignment explanation
Indices: 4025899--4025938 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4025889 TGGGTTTGAG
4025899 TATTGATAATT-GATGAACAA
1 TATTGAT-ATTGGATGAACAA
4025919 TATTGATATTGGATGAACAA
1 TATTGATATTGGATGAACAA
4025939 AGATGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.42, C:0.05, G:0.17, T:0.35
Consensus pattern (20 bp):
TATTGATATTGGATGAACAA
Found at i:4027553 original size:22 final size:22
Alignment explanation
Indices: 4027477--4027553 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
4027467 TCAGTATTTA
*
4027477 TCCCGAAAGACCACTGGATACG
1 TCCCGAAGGACCACTGGATACG
* *
4027499 TCCTGAAGAACCACTGGATACG
1 TCCCGAAGGACCACTGGATACG
4027521 TCCCGAAGGACCACTGGATACG
1 TCCCGAAGGACCACTGGATACG
*
4027543 TCCCGATGGAC
1 TCCCGAAGGAC
4027554 TAATATACCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.29, C:0.31, G:0.25, T:0.16
Consensus pattern (22 bp):
TCCCGAAGGACCACTGGATACG
Found at i:4034402 original size:22 final size:22
Alignment explanation
Indices: 4034374--4034439 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
4034364 TTCAGTATTT
4034374 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
* *
4034396 GTCCCGAATGACCACTGAATAC
1 GTCCCGAAGGACCACTGGATAC
4034418 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
4034440 ATCCTGAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.29, C:0.32, G:0.24, T:0.15
Consensus pattern (22 bp):
GTCCCGAAGGACCACTGGATAC
Found at i:4036424 original size:15 final size:15
Alignment explanation
Indices: 4036401--4036434 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
4036391 TTACCATGTC
*
4036401 TTTAGCATTCATATG
1 TTTAACATTCATATG
4036416 TTTAACATTCATATG
1 TTTAACATTCATATG
4036431 TTTA
1 TTTA
4036435 TGAGACTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (15 bp):
TTTAACATTCATATG
Found at i:4037357 original size:25 final size:25
Alignment explanation
Indices: 4037321--4037378 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
4037311 TGACATATTC
4037321 ATTAACTT-AGACAAAAAAATCAAGT
1 ATTAA-TTCAGACAAAAAAATCAAGT
* *
4037346 ATTAATTCAGACTAATAAATCAAGT
1 ATTAATTCAGACAAAAAAATCAAGT
4037371 -TTAGATTC
1 ATTA-ATTC
4037379 TTAATTAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (25 bp):
ATTAATTCAGACAAAAAAATCAAGT
Found at i:4041392 original size:24 final size:23
Alignment explanation
Indices: 4041365--4041420 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
4041355 TCATAAACGC
*
4041365 TAAACAAACATGTTGACAAACT-T
1 TAAACAAACATGTTCACAAA-TAT
*
4041388 ATAAACGAACATGTTCACAAATAT
1 -TAAACAAACATGTTCACAAATAT
4041412 TAAACAAAC
1 TAAACAAAC
4041421 GCTAAATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.52, C:0.18, G:0.07, T:0.23
Consensus pattern (23 bp):
TAAACAAACATGTTCACAAATAT
Found at i:4045656 original size:2 final size:2
Alignment explanation
Indices: 4045649--4045685 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4045639 ACCAGTCATG
4045649 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4045686 GTGATCCGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4050282 original size:2 final size:2
Alignment explanation
Indices: 4050275--4050308 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4050265 TCCTCGTAGT
4050275 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4050309 GCCATCAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4050324 original size:72 final size:72
Alignment explanation
Indices: 4050236--4050454 Score: 420
Period size: 72 Copynumber: 3.0 Consensus size: 72
4050226 AAACCAATTA
4050236 AGCCATCAAAGTTAGGGACAATTACACCTTCCTCGTAGTCACACACACACACACACACACACACA
1 AGCCATCAAAGTTAGGGACAATTACACCTTCCTCGTAGTCACACACACACACACACACACACACA
4050301 CACACAC
66 CACACAC
4050308 AGCCATCAAAGTTAGGGACAATTACACCTTCCTCGTAGTCACACACACACACACACACACACACA
1 AGCCATCAAAGTTAGGGACAATTACACCTTCCTCGTAGTCACACACACACACACACACACACACA
4050373 CACACAC
66 CACACAC
4050380 AGCCATCAAAGTTAGGGACAATTACACCTTCCTCGTAGTCACACCACACACACACACACACACAC
1 AGCCATCAAAGTTAGGGACAATTACACCTTCCTCGTAGTCACA-CACACACACACACACACACA-
4050445 CACACACAC
64 CACACACAC
4050454 A
1 A
4050455 CACACCACAC
Statistics
Matches: 145, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
72 115 0.79
73 20 0.14
74 10 0.07
ACGTcount: A:0.39, C:0.38, G:0.10, T:0.14
Consensus pattern (72 bp):
AGCCATCAAAGTTAGGGACAATTACACCTTCCTCGTAGTCACACACACACACACACACACACACA
CACACAC
Found at i:4050354 original size:2 final size:2
Alignment explanation
Indices: 4050347--4050380 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4050337 TCCTCGTAGT
4050347 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4050381 GCCATCAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4050431 original size:2 final size:2
Alignment explanation
Indices: 4050419--4051290 Score: 1492
Period size: 2 Copynumber: 449.5 Consensus size: 2
4050409 TCCTCGTAGT
4050419 CA CA C- CA CA CA CA CA CA CA CA CA CA C- CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4050459 C- CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C- CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4050499 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C- CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4050540 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4050582 CA CA CA CA CA CA CA C- CA CA CA CA CA CA CA CA CA CA CA C- CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4050622 CA CA CA CA CA CA CA CA CA CA CA C- CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4050663 CA -A CA CA C- CA CA CA CA CA CA CA CA CA CA C- CA CA CA CA C-
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
4050701 CA CA CC CA CA C- CA CA C- CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
* *
4050741 CA CC CA CA CA CC CA CA CA CA CA -A CA CA CA CA CA CA C- CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
4050781 CA CA CA -A CA C- CA CA CA CA CA CA CA CA CA CA CC CA CA CA -A
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4050820 CA CA CA CA CA CA CA CA CA C- CA CA CA CA CA CA CA CA CA -A CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
4050860 CA CA CA CA CA C- CA CA CA CA CA CA CA CA CA CA CA CC CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4050901 CA CA C- CA CA CA CA CA CA CA C- CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4050941 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C- CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4050982 CA CA C- CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4051023 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4051065 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4051107 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA -A CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
4051148 CA CA CA CA CA CA CA CA CA CC CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
4051190 CA CA CA CC CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4051232 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4051274 CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA C
4051291 TCTCTCTCTC
Statistics
Matches: 829, Mismatches: 14, Indels: 54
0.92 0.02 0.06
Matches are distributed among these distances:
1 27 0.03
2 802 0.97
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4052127 original size:14 final size:14
Alignment explanation
Indices: 4052108--4052140 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
4052098 GTACGTAATT
4052108 CACACGAACAACCC
1 CACACGAACAACCC
4052122 CACACGAACAACCC
1 CACACGAACAACCC
4052136 CACAC
1 CACAC
4052141 TCTACTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.52, G:0.06, T:0.00
Consensus pattern (14 bp):
CACACGAACAACCC
Found at i:4055229 original size:36 final size:37
Alignment explanation
Indices: 4055158--4055242 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 37
4055148 ATCCCATTAT
*
4055158 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
* *
4055194 TATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
4055230 CATTCTTTCAAAG
1 CATT-TTTCAAAG
4055243 TTGGTTACCA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 15 0.35
37 28 0.65
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (37 bp):
CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
Found at i:4061553 original size:21 final size:22
Alignment explanation
Indices: 4061471--4061553 Score: 64
Period size: 21 Copynumber: 3.9 Consensus size: 22
4061461 GCAGAACCCA
* * *
4061471 GGGGGGTATCGATTCCCCT-GT
1 GGGGGGAATCGATTCCCTTCAT
* *
4061492 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGATT-CCCTTCAT
** *
4061515 ATGGGGAATCGGTT-CCTTCAT
1 GGGGGGAATCGATTCCCTTCAT
4061536 GGGGGG-ATCGATTCCCTT
1 GGGGGGAATCGATTCCCTT
4061554 GCACCAAAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
20 6 0.12
21 26 0.54
22 4 0.08
23 12 0.25
ACGTcount: A:0.14, C:0.23, G:0.35, T:0.28
Consensus pattern (22 bp):
GGGGGGAATCGATTCCCTTCAT
Found at i:4069087 original size:37 final size:36
Alignment explanation
Indices: 4069028--4069147 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
4069018 ATCCCATTAT
* *
4069028 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
4069064 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
4069100 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
4069135 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
4069148 TTGGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
35 35 0.45
36 13 0.17
37 29 0.38
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:4069103 original size:21 final size:21
Alignment explanation
Indices: 4069079--4069139 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
4069069 TTCAAAGAAA
4069079 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
4069100 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
4069114 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
4069135 CATTT
1 CATTT
4069140 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:4069156 original size:35 final size:36
Alignment explanation
Indices: 4069030--4069174 Score: 142
Period size: 35 Copynumber: 4.1 Consensus size: 36
4069020 CCCATTATCA
*
4069030 TTTTTCAACA-AACA-TCTACCAAACTTTGAAAAAC-T
1 TTTTTCAA-AGAACAGT-TACCAAACTTTGAAAACCAT
*
4069065 ATTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA-
1 -TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
*
4069102 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCAT
1 TTTTTCAAAG-AACAGTTACCAAACTTTGAAAACCAT
***
4069138 TTTTTCAAAG-TTGGTTACCAAAC-TTGAAAACCAT
1 TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
4069172 TTT
1 TTT
4069175 AATACTTTCA
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
34 14 0.14
35 45 0.46
36 8 0.08
37 30 0.31
38 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.33
Consensus pattern (36 bp):
TTTTTCAAAGAACAGTTACCAAACTTTGAAAACCAT
Found at i:4071409 original size:17 final size:16
Alignment explanation
Indices: 4071383--4071417 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
4071373 TATTTTATAA
*
4071383 TAAAATATTTTATTTT
1 TAAAATATTTTAGTTT
4071399 TAAATATATTTTAGTTT
1 TAAA-ATATTTTAGTTT
4071416 TA
1 TA
4071418 GCTTTAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
TAAAATATTTTAGTTT
Found at i:4080245 original size:3 final size:3
Alignment explanation
Indices: 4080237--4080263 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4080227 GTTGAAACCT
4080237 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
4080264 ATGGGTAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4080416 original size:87 final size:87
Alignment explanation
Indices: 4080270--4080444 Score: 323
Period size: 87 Copynumber: 2.0 Consensus size: 87
4080260 AGAAATGGGT
4080270 AGTCATTAAATTCAAGGCACAACCTGGAGCAGCATAGTTGTGAGAGAAAGATTTAAGGCACTCCC
1 AGTCATTAAATTCAAGGCACAACCTGGAGCAGCATAGTTGTGAGAGAAAGATTTAAGGCACTCCC
4080335 TTAACCTTATCCCCTTTCTTGG
66 TTAACCTTATCCCCTTTCTTGG
* * *
4080357 AGTCATTAAATTCAAGGCACAGCCTGGAGCATCATAGTTGTGAGAGAAAGATTTAAGGCATTCCC
1 AGTCATTAAATTCAAGGCACAACCTGGAGCAGCATAGTTGTGAGAGAAAGATTTAAGGCACTCCC
4080422 TTAACCTTATCCCCTTTCTTGG
66 TTAACCTTATCCCCTTTCTTGG
4080444 A
1 A
4080445 ACAACAAATG
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (87 bp):
AGTCATTAAATTCAAGGCACAACCTGGAGCAGCATAGTTGTGAGAGAAAGATTTAAGGCACTCCC
TTAACCTTATCCCCTTTCTTGG
Found at i:4080733 original size:156 final size:156
Alignment explanation
Indices: 4080449--4080761 Score: 617
Period size: 156 Copynumber: 2.0 Consensus size: 156
4080439 CTTGGAACAA
*
4080449 CAAATGCCCCTTCTAGTGCCTTGGATAACCTGATATTAATGAAACAATAACCCAGTCTTGGCCTT
1 CAAATGCCCCTTCTAGTGCCTTGGATAACCTAATATTAATGAAACAATAACCCAGTCTTGGCCTT
4080514 CCATTCATCTTTTTTCCAGGTTTTTCCCTTTCCCCACGAAAAAGCTCATCAATGCAAACGCCATT
66 CCATTCATCTTTTTTCCAGGTTTTTCCCTTTCCCCACGAAAAAGCTCATCAATGCAAACGCCATT
4080579 AATGTCCCCCGTTGTATGGTCTCAGT
131 AATGTCCCCCGTTGTATGGTCTCAGT
4080605 CAAATGCCCCTTCTAGTGCCTTGGATAACCTAATATTAATGAAACAATAACCCAGTCTTGGCCTT
1 CAAATGCCCCTTCTAGTGCCTTGGATAACCTAATATTAATGAAACAATAACCCAGTCTTGGCCTT
4080670 CCATTCATCTTTTTTCCAGGTTTTTCCCTTTCCCCACGAAAAAGCTCATCAATGCAAACGCCATT
66 CCATTCATCTTTTTTCCAGGTTTTTCCCTTTCCCCACGAAAAAGCTCATCAATGCAAACGCCATT
4080735 AATGTCCCCCGTTGTATGGTCTCAGT
131 AATGTCCCCCGTTGTATGGTCTCAGT
4080761 C
1 C
4080762 TGTACACATG
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 156 1.00
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (156 bp):
CAAATGCCCCTTCTAGTGCCTTGGATAACCTAATATTAATGAAACAATAACCCAGTCTTGGCCTT
CCATTCATCTTTTTTCCAGGTTTTTCCCTTTCCCCACGAAAAAGCTCATCAATGCAAACGCCATT
AATGTCCCCCGTTGTATGGTCTCAGT
Found at i:4081258 original size:26 final size:24
Alignment explanation
Indices: 4081227--4081277 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
4081217 TCGAACTGAA
*
4081227 TCGATTAATAATTAAACAAAAATAAT
1 TCGATTAACAA-TAAA-AAAAATAAT
*
4081253 TCGATTAACAATAAAAAAATTAAT
1 TCGATTAACAATAAAAAAAATAAT
4081277 T
1 T
4081278 AATTTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 4 0.17
26 10 0.43
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.31
Consensus pattern (24 bp):
TCGATTAACAATAAAAAAAATAAT
Found at i:4081546 original size:15 final size:15
Alignment explanation
Indices: 4081523--4081559 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
4081513 TGAGACATTA
*
4081523 CCCGTCCCGCATCCG
1 CCCGCCCCGCATCCG
4081538 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
4081553 CCCGCCC
1 CCCGCCC
4081560 GCCCCACATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.05, C:0.68, G:0.19, T:0.08
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:4081559 original size:19 final size:19
Alignment explanation
Indices: 4081535--4081574 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
4081525 CGTCCCGCAT
*
4081535 CCGCCCGCCCCGCATCCGC
1 CCGCCCGCCCCACATCCGC
4081554 CCGCCCGCCCCACATCCGC
1 CCGCCCGCCCCACATCCGC
4081573 CC
1 CC
4081575 ACCCAGCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.07, C:0.70, G:0.17, T:0.05
Consensus pattern (19 bp):
CCGCCCGCCCCACATCCGC
Found at i:4084136 original size:24 final size:23
Alignment explanation
Indices: 4084109--4084153 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
4084099 ATTATTACTT
*
4084109 TAATTAACATATAAATTATTAAAA
1 TAATTAAAATAT-AATTATTAAAA
*
4084133 TAATTAAAATATATTTATTAA
1 TAATTAAAATATAATTATTAA
4084154 TAAAAACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATTAAAATATAATTATTAAAA
Found at i:4090622 original size:113 final size:112
Alignment explanation
Indices: 4090490--4090695 Score: 313
Period size: 113 Copynumber: 1.8 Consensus size: 112
4090480 CGATTTTGGA
*
4090490 GCAACAATAATGGCGTTTTTTTAAAAAAAACGTCGCAATAGGTCCATCTATAGTGGTGTTTATTG
1 GCAACAATAATGGCGTTTTTTTAAAAAAAACGTCGCAATAGGTCCATCTATAGTGGCGTTTATT-
*
4090555 GAAAAACGCCACTATATATATACTTTTTTTGGGATTTTTTGGGCCTAC
65 AAAAAACGCCACTATATATATACTTTTTTTGGGATTTTTTGGGCCTAC
* * * * * *
4090603 GCAATAATAGTGGCGTTTTTTTGAGAAAAACGTCGTAATATGTCCATCTATAGTGGCGTTTATTA
1 GCAACAATAATGGCGTTTTTTTAAAAAAAACGTCGCAATAGGTCCATCTATAGTGGCGTTTATTA
* *
4090668 AAAAATGTCACTATATATATACTTTTTT
66 AAAAACGCCACTATATATATACTTTTTT
4090696 GGGGCCCCAT
Statistics
Matches: 83, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
112 26 0.31
113 57 0.69
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (112 bp):
GCAACAATAATGGCGTTTTTTTAAAAAAAACGTCGCAATAGGTCCATCTATAGTGGCGTTTATTA
AAAAACGCCACTATATATATACTTTTTTTGGGATTTTTTGGGCCTAC
Found at i:4090835 original size:41 final size:41
Alignment explanation
Indices: 4090790--4090874 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
4090780 GTACCAACTC
** *
4090790 AATCGCTTGAATATGTCACATTAGACTACTGTGACTATAGT
1 AATCGCTTGAATATACCACATTAGACTACTGTGACTATAAT
* *
4090831 AATCGCTTGAATATACCACATTAGATTATTGTGACTATAAT
1 AATCGCTTGAATATACCACATTAGACTACTGTGACTATAAT
4090872 AAT
1 AAT
4090875 GTTTGTTAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (41 bp):
AATCGCTTGAATATACCACATTAGACTACTGTGACTATAAT
Found at i:4095071 original size:14 final size:14
Alignment explanation
Indices: 4095052--4095168 Score: 55
Period size: 14 Copynumber: 8.4 Consensus size: 14
4095042 TTAAAGTTAT
*
4095052 GATTTAGATTTTAG
1 GATTTAGAGTTTAG
*
4095066 GATTTATAGTTTAG
1 GATTTAGAGTTTAG
*
4095080 GATTT-GAGGTTCA-
1 GATTTAGA-GTTTAG
*
4095093 GATTTTATGA-TTTAA
1 GA-TTTA-GAGTTTAG
4095108 GA-TTAGAGTTTAG
1 GATTTAGAGTTTAG
* *
4095121 GATATATG-TTTTAG
1 GATTTA-GAGTTTAG
* * *
4095135 GGTTTAGGATTTTAA
1 GATTTA-GAGTTTAG
*
4095150 GATTTAAAGTTTAG
1 GATTTAGAGTTTAG
*
4095164 AATTT
1 GATTT
4095169 GAGATTGAGA
Statistics
Matches: 77, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
12 2 0.03
13 12 0.16
14 48 0.62
15 13 0.17
16 2 0.03
ACGTcount: A:0.30, C:0.01, G:0.22, T:0.47
Consensus pattern (14 bp):
GATTTAGAGTTTAG
Found at i:4105074 original size:17 final size:16
Alignment explanation
Indices: 4105052--4105084 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
4105042 ATCTTTCTCT
4105052 TTGATTCTTGTTGATTG
1 TTGATTCTTGTT-ATTG
4105069 TTGATTCTTGTTATTG
1 TTGATTCTTGTTATTG
4105085 ATCAATAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.12, C:0.06, G:0.21, T:0.61
Consensus pattern (16 bp):
TTGATTCTTGTTATTG
Found at i:4105348 original size:63 final size:63
Alignment explanation
Indices: 4105281--4105401 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 63
4105271 TGGAACACTT
*
4105281 AGTGCATC-AGTGCA-CCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAGCCTG
1 AGTGCATCGA-TGCATCCAAGTGTGCATCGATGCATAAAATACATTCGATG-TTTGAAAAGCCTG
*****
4105344 AGTGCATCGATGCATGGTCTTGTGCATCGATGCATAAAATACATTCGATGTTTGAAAA
1 AGTGCATCGATGCATCCAAGTGTGCATCGATGCATAAAATACATTCGATGTTTGAAAA
4105402 ATTAATTGGT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 20 0.40
64 30 0.60
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (63 bp):
AGTGCATCGATGCATCCAAGTGTGCATCGATGCATAAAATACATTCGATGTTTGAAAAGCCTG
Found at i:4105788 original size:17 final size:17
Alignment explanation
Indices: 4105768--4105800 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4105758 CTTCTCCCTT
4105768 AAAAAAACTTAATTACA
1 AAAAAAACTTAATTACA
4105785 AAAAAAACTTAATTAC
1 AAAAAAACTTAATTAC
4105801 TTTGACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAAACTTAATTACA
Found at i:4118372 original size:5 final size:5
Alignment explanation
Indices: 4118362--4118388 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4118352 CTCTTTATTA
4118362 AGATT AGATT AGATT AGATT AGATT AG
1 AGATT AGATT AGATT AGATT AGATT AG
4118389 TAGTTGGGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (5 bp):
AGATT
Found at i:4119377 original size:43 final size:42
Alignment explanation
Indices: 4119313--4119488 Score: 189
Period size: 43 Copynumber: 4.2 Consensus size: 42
4119303 AAAAATGATT
*
4119313 AAATTAGGGTCTAAATTATAAAAGTAAAAAGTATGATTAAAA
1 AAATTAGGGTCTAAATTATAAAAGTAAAAAGTAGGATTAAAA
* *
4119355 AAATTAGGGATCTCAATTAT-AAAGATAAAAAGTGGGATTAAAA
1 AAATTAGGG-TCTAAATTATAAAAG-TAAAAAGTAGGATTAAAA
* * ** * *
4119398 AAATTAGGGTCTCAATT-TTAAAGTAGGAA-TTGAGATTGAAA
1 AAATTAGGGTCTAAATTATAAAAGTAAAAAGTAG-GATTAAAA
* *
4119439 AAATTAAGGGTCTAAATTATATAAGTAAAAAGTAGGATT-GAA
1 AAATT-AGGGTCTAAATTATAAAAGTAAAAAGTAGGATTAAAA
4119481 AAATTAGG
1 AAATTAGG
4119489 ATTGAAAAAT
Statistics
Matches: 113, Mismatches: 14, Indels: 15
0.80 0.10 0.11
Matches are distributed among these distances:
40 2 0.02
41 20 0.18
42 43 0.38
43 46 0.41
44 2 0.02
ACGTcount: A:0.49, C:0.03, G:0.19, T:0.28
Consensus pattern (42 bp):
AAATTAGGGTCTAAATTATAAAAGTAAAAAGTAGGATTAAAA
Found at i:4119488 original size:14 final size:14
Alignment explanation
Indices: 4119465--4119501 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4119455 TTATATAAGT
*
4119465 AAAAAGTAGGATTG
1 AAAAATTAGGATTG
4119479 AAAAATTAGGATTG
1 AAAAATTAGGATTG
4119493 AAAAATTAG
1 AAAAATTAG
4119502 AGGCCTCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (14 bp):
AAAAATTAGGATTG
Found at i:4119523 original size:56 final size:57
Alignment explanation
Indices: 4119431--4119544 Score: 146
Period size: 56 Copynumber: 2.0 Consensus size: 57
4119421 TAGGAATTGA
* *
4119431 GATTGAAAAAATTAAGGGTCTAAATTATATAAGTAAAAAGT-AGGATTGAAAAATTAG
1 GATTGAAAAAATTAAGGGCCTAAATTATATAAGTAAAAAGTGA-GATTAAAAAATTAG
*
4119488 GATTG-AAAAATT-AGAGGCCTCAATTATA-AAGGTAAAAAGTGAGATTAAAAAATTAG
1 GATTGAAAAAATTAAG-GGCCTAAATTATATAA-GTAAAAAGTGAGATTAAAAAATTAG
4119544 G
1 G
4119545 GGCATCAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
55 4 0.08
56 41 0.80
57 6 0.12
ACGTcount: A:0.50, C:0.04, G:0.20, T:0.26
Consensus pattern (57 bp):
GATTGAAAAAATTAAGGGCCTAAATTATATAAGTAAAAAGTGAGATTAAAAAATTAG
Found at i:4119555 original size:98 final size:98
Alignment explanation
Indices: 4119396--4119588 Score: 225
Period size: 98 Copynumber: 2.0 Consensus size: 98
4119386 GTGGGATTAA
* * ** * *
4119396 AAAAATTAGGGTCTCAATTTTAAAGTAGGAATTGAGATTGAAAAAATTAAGGGTCTAAATTATAT
1 AAAAATTAGGGCCTCAATTATAAAGTAAAAAGTGAGATTGAAAAAATTAAGGGGCTAAATTATA-
*
4119461 AA-GTAAAAAGT-AGGA-TTGAAAAATTAGGATTG
65 AAGGTAAAAAGTGA-GACTTAAAAAATTAGGATTG
*
4119493 AAAAATTAGAGGCCTCAATTATAAAGGTAAAAAGTGAGATT-AAAAAATT-AGGGGCATCAATTA
1 AAAAATTAG-GGCCTCAATTATAAA-GTAAAAAGTGAGATTGAAAAAATTAAGGGGC-TAAATTA
*
4119556 TAAAGGTAGAAAGTGAGACTTAAAAAATTAGGA
63 TAAAGGTAAAAAGTGAGACTTAAAAAATTAGGA
4119589 GCTCAATTAT
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
97 16 0.20
98 39 0.48
99 26 0.32
ACGTcount: A:0.48, C:0.05, G:0.21, T:0.26
Consensus pattern (98 bp):
AAAAATTAGGGCCTCAATTATAAAGTAAAAAGTGAGATTGAAAAAATTAAGGGGCTAAATTATAA
AGGTAAAAAGTGAGACTTAAAAAATTAGGATTG
Found at i:4119621 original size:42 final size:41
Alignment explanation
Indices: 4119488--4119731 Score: 163
Period size: 42 Copynumber: 5.7 Consensus size: 41
4119478 GAAAAATTAG
*
4119488 GATTGAAAAATTA-GAGGCCTCAATTATAAAGGTAAAAAGTGA
1 GATTAAAAAATTAGGA-G-CTCAATTATAAAGGTAAAAAGTGA
* *
4119530 GATTAAAAAATTAGGGGCATCAATTATAAAGGTAGAAAGTGA
1 GATTAAAAAATTAGGAGC-TCAATTATAAAGGTAAAAAGTGA
* *
4119572 GACTTAAAAAATTAGGAGCTCAATTATAAAAGTACAAAGTG-
1 GA-TTAAAAAATTAGGAGCTCAATTATAAAGGTAAAAAGTGA
* * ** * *
4119613 GAATTTAAAAACTTAAGATTATCAATCATAAATGTAAAAAAGT-A
1 G-A-TTAAAAAATTAGGA-GCTCAATTATAAAGGT-AAAAAGTGA
* ** * * *
4119657 TGATTGAAAAAAATAAAAGACTCGATTATAAAGATAAATAGT-A
1 -GATT-AAAAAATTAGGAG-CTCAATTATAAAGGTAAAAAGTGA
* *
4119700 TGATTACGAAAATTAGTGACCTCAATTATAAA
1 -GATTA-AAAAATTAG-GAGCTCAATTATAAA
4119732 TATAAAAAAA
Statistics
Matches: 160, Mismatches: 30, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
41 2 0.01
42 71 0.44
43 59 0.37
44 27 0.17
45 1 0.01
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.26
Consensus pattern (41 bp):
GATTAAAAAATTAGGAGCTCAATTATAAAGGTAAAAAGTGA
Found at i:4119623 original size:140 final size:141
Alignment explanation
Indices: 4119353--4119632 Score: 349
Period size: 140 Copynumber: 2.0 Consensus size: 141
4119343 GTATGATTAA
* * * *
4119353 AAAAATTAGGGATCTCAATTATAAAGATAAAAAGTGGGATTAAAAAAATTAGGGTCTCAATTTTA
1 AAAAATTAGGGACCTCAATTATAAAGATAAAAAGTGAGATTAAAAAAATTAGGGGCTCAATTATA
* * *
4119418 AAGTAGGAATTGAGATTGAAAAAATTAAGGGTCTAAATTATATAAGTAAAAAGTAGGATTGAAAA
66 AAGTAGAAAGTGAGATTGAAAAAATTAAGGGTCTAAATTATAAAAGTAAAAAGTAGGATTGAAAA
*
4119483 A-TTAGGATTG
131 ACTTAAGATTG
*
4119493 AAAAATTAGAGG-CCTCAATTATAAAGGTAAAAAGTGAGATT-AAAAAATTAGGGGCATCAATTA
1 AAAAATTAG-GGACCTCAATTATAAAGATAAAAAGTGAGATTAAAAAAATTAGGGGC-TCAATTA
* *
4119556 TAAAGGTAGAAAGTGAGACTT-AAAAAATT-AGGAG-CTCAATTATAAAAGTACAAAGT-GGAAT
64 TAAA-GTAGAAAGTGAGA-TTGAAAAAATTAAGG-GTCTAAATTATAAAAGTAAAAAGTAGG-AT
*
4119617 TTAAAAACTTAAGATT
125 TGAAAAACTTAAGATT
4119633 ATCAATCATA
Statistics
Matches: 121, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
139 15 0.12
140 75 0.62
141 29 0.24
142 2 0.02
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (141 bp):
AAAAATTAGGGACCTCAATTATAAAGATAAAAAGTGAGATTAAAAAAATTAGGGGCTCAATTATA
AAGTAGAAAGTGAGATTGAAAAAATTAAGGGTCTAAATTATAAAAGTAAAAAGTAGGATTGAAAA
ACTTAAGATTG
Found at i:4119667 original size:85 final size:83
Alignment explanation
Indices: 4119479--4119667 Score: 177
Period size: 85 Copynumber: 2.2 Consensus size: 83
4119469 AGTAGGATTG
* * *
4119479 AAAAATTAGGATTGAAAAATTAGAGGCCTCAATTATAAAGGTAAAAAGTGAGATTAAAAAATTAG
1 AAAAAGTA-GATTGAAAAATTAGAGGCCTCAATTATAAAAGTAAAAAGTGAGATTAAAAAATTAA
* *
4119544 GGGCATCAATTATAAAGGT
65 GAGCATCAATCATAAAGGT
* * * *
4119563 AGAAAGTGAGACTTAAAAAATTAG-GAG-CTCAATTATAAAAGTACAAAGTG-GAATTTAAAAAC
1 AAAAAGT-AGA-TTGAAAAATTAGAG-GCCTCAATTATAAAAGTAAAAAGTGAG-A-TTAAAAAA
** *
4119625 TTAAGATTATCAATCATAAATGT
61 TTAAGAGCATCAATCATAAAGGT
4119648 AAAAAAGTATGATTGAAAAA
1 -AAAAAGTA-GATTGAAAAA
4119668 AATAAAAGAC
Statistics
Matches: 84, Mismatches: 14, Indels: 13
0.76 0.13 0.12
Matches are distributed among these distances:
83 1 0.01
84 30 0.36
85 45 0.54
86 8 0.10
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.25
Consensus pattern (83 bp):
AAAAAGTAGATTGAAAAATTAGAGGCCTCAATTATAAAAGTAAAAAGTGAGATTAAAAAATTAAG
AGCATCAATCATAAAGGT
Found at i:4120068 original size:31 final size:31
Alignment explanation
Indices: 4120032--4120090 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
4120022 AACTTAAAAG
*
4120032 AGTTTTGCAATACCGAGA-TTTAAATAATTTT
1 AGTTTTACAATACCGA-ATTTTAAATAATTTT
*
4120063 AGTTTTACAATACTGAATTTTAAATAAT
1 AGTTTTACAATACCGAATTTTAAATAAT
4120091 CCATACAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACCGAATTTTAAATAATTTT
Found at i:4120141 original size:22 final size:22
Alignment explanation
Indices: 4120115--4120157 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4120105 TAATAAATTA
4120115 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
4120137 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
4120158 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4120166 original size:22 final size:22
Alignment explanation
Indices: 4120117--4120165 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
4120107 ATAAATTATT
**
4120117 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
4120139 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
4120162 TAAA
1 TAAA
4120166 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:4120169 original size:54 final size:54
Alignment explanation
Indices: 4120105--4121121 Score: 693
Period size: 54 Copynumber: 18.6 Consensus size: 54
4120095 ACAACTACAA
4120105 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * ** *
4120159 TAATAAATTATTTAAAATAAATCAATACATACAACTACAATAATAAATCAATCCATATTT
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATA--C
* * * * * * *
4120219 TAAAATAAATCAATCTATACT-AATAAAT---TA-TTTAAAATAAATCAATTCATATTT
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATA--C
* * * * *
4120273 TAAAATAAATCAATTCATACT-AATAAAT---TA-TTTAAAATAAATCAATCCATAC
1 T--AATAAAT-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
4120325 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
4120373 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
*
4120437 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCGATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
4120491 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
4120545 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCATTC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
4120599 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * * * **
4120656 TTTTAAAATAAAT-CAATCCATTCTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAAT-AAATC-AATCCATAT-TTTAAAATAAATCAATCCATAC
4120711 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
4120765 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
4120822 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
** * ** * * **
4120876 TTTTAAAATAAAT-CAATCAATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
* *
4120931 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATACATAC
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
4120979 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** **
4121036 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
4121091 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
4121122 CAACTACAAT
Statistics
Matches: 788, Mismatches: 106, Indels: 137
0.76 0.10 0.13
Matches are distributed among these distances:
43 2 0.00
44 6 0.01
47 3 0.00
48 54 0.07
49 8 0.01
50 11 0.01
51 1 0.00
52 2 0.00
53 1 0.00
54 440 0.56
55 38 0.05
56 23 0.03
57 45 0.06
58 79 0.10
59 1 0.00
60 4 0.01
62 14 0.02
63 8 0.01
64 48 0.06
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:4120210 original size:80 final size:83
Alignment explanation
Indices: 4120105--4121251 Score: 823
Period size: 80 Copynumber: 13.9 Consensus size: 83
4120095 ACAACTACAA
*
4120105 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTAT
*
4120170 TTAAAATAAATCAATACATAC
63 TTAAAATAAATCAATCCATAC
* *
4120191 -AACTACA-A-T-AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTT
1 TAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTT
*
4120252 AAAATAAATCAATTCATA-
65 AAAATAAATCAATCCATAC
** * * * *
4120270 TTTTAAA-A-TAAATCAATTC-ATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTAC
1 TAATAAATATTAAAT-AAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCAATACTAA-TAA
4120331 A--A--T--AATAAATCAATCCATA-
58 ATTATTTAAAATAAATCAATCCATAC
** * * * *
4120350 TTTTAAA-A-TAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAAT
1 TAATAAATATTAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCAATACTAATAAAT
4120413 TATTTAAAATAAATCAATCCATAC
60 TATTTAAAATAAATCAATCCATAC
*
4120437 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCGATACTAATAAATTAT
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTAT
4120502 TTAAAATAAATCAATCCATA-
63 TTAAAATAAATCAATCCATAC
* ** * ** * * **
4120522 T--T---T-TAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TATT
1 TAATAAATATTAAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCAATACTAATAAATTA-T
* *
4120578 TTAAAATAAATCAATTCATTC
63 TTAAAATAAATCAATCCATAC
*** * * *
4120599 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-
1 TAATAAA-TA-TT-AAATAAATCAATCCATA-TTTTAAAATAAATCAATCAATACTAATAAATTA
*
4120657 TTTAAAATAAATCAATCCATTC
62 TTTAAAATAAATCAATCCATAC
** * ** * * **
4120679 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-T
1 TAATAAA-TA-TT-AAATAAATCAATCCATA-TTTTAAAATAAAT-CAATCAATACTAATAAATT
4120741 ATTTTAAAATAAATCAATCCATAC
61 A-TTTAAAATAAATCAATCCATAC
*** * * *
4120765 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-
1 TAATAAA-TA-TT-AAATAAATCAATCCATA-TTTTAAAATAAATCAATCAATACTAATAAATTA
4120823 TTTAAAATAAATCAATCCATAC
62 TTTAAAATAAATCAATCCATAC
4120845 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTAT
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTAT
4120910 TTAAAATAAATCAATCCATAC
63 TTAAAATAAATCAATCCATAC
*
4120931 -AACTACA-A-T-AATAAATCAATCCATATTTTAAAATAAATCAAT-ACATACTAATAAATTATT
1 TAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCA-ATACTAATAAATTATT
4120991 TAAAATAAATCAATCCATAC
64 TAAAATAAATCAATCCATAC
* *
4121011 -AACTACA-A-T-AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
1 TAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTT
4121072 AAAATAAATCAATCCATAC
65 AAAATAAATCAATCCATAC
*** * * *
4121091 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT--A-T-
1 TAATAAA-TA-TT-AAATAAATCAATCCATA-TTTTAAAATAAATCAATCAATACTAATAAATTA
*
4121149 TTTAAAATAAATCAATACATAC
62 TTTAAAATAAATCAATCCATAC
* **
4121171 TAATAAATTATTTAAAATAAATCAATCGATATTTTAAAATAAATCAATCCGTACTAATAAATTAT
1 TAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTAT
4121236 TTAAAATAAATCAATC
63 TTAAAATAAATCAATC
4121252 TATATTTTAT
Statistics
Matches: 905, Mismatches: 87, Indels: 138
0.80 0.08 0.12
Matches are distributed among these distances:
75 2 0.00
76 40 0.04
77 11 0.01
78 5 0.01
79 21 0.02
80 470 0.52
81 13 0.01
82 26 0.03
83 2 0.00
84 32 0.04
85 14 0.02
86 242 0.27
87 11 0.01
88 1 0.00
89 1 0.00
90 2 0.00
91 2 0.00
92 10 0.01
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (83 bp):
TAATAAATATTAAATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTA
AAATAAATCAATCCATAC
Found at i:4120253 original size:134 final size:134
Alignment explanation
Indices: 4120105--4121089 Score: 817
Period size: 134 Copynumber: 7.2 Consensus size: 134
4120095 ACAACTACAA
4120105 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* * *
4120170 TTAAAATAAATCAATACATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCT
66 TTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
4120235 ATAC
131 ATAC
* *
4120239 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
4120304 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
4120369 ATAC
131 ATAC
4120373 TAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACT
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACT
*** * * *
4120438 AATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCGATACTAATAAATTAT
56 AATAAATTATTTAAAATAAATCAATCCATACAACTAAAAT-AATAAATCAAT-C-CAT--A-T-T
4120502 TTAAAATAAATCAATCCATA-
114 TTAAAATAAATCAATCCATAC
** * ** * ** ** **
4120522 TTTTAAAATAAAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA-TTTTAAA-
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAAT
* * * * * * **
4120583 -A--T-AAATCAATTCATTCTAATA-AATTATTTAA-AATAAATCAATCCATACAACTACAATAA
63 TATTTAAAAT-AAATCAATC-CATACAACTA--AAATAATAAATCAATCCAT---ATTTTAA-AA
4120642 TAAATCAATCCATA-
120 TAAATCAATCCATAC
** * ** * * * **
4120656 TTTTAAAATAAAT-CAATCCATTCTAATAAAT-TATTTAAAATAAATCAATCCATACTAATAAAT
1 TAATAAATTATTTAAAAT-AAATC-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAAT
*** * * *
4120719 TATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAAT
63 TATTTAAAATAAATCAATCCATACAACTAAAAT-AATAAATCAAT-C-CAT--A-T-TTTAAAAT
4120783 AAATCAATCCATAC
121 AAATCAATCCATAC
*
4120797 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
*** * *
4120855 TTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAA
65 TTTAAAATAAATCAATCCATACAACTAAAAT-AATAAATCAAT-C-CAT--A-T-TTTAAAATAA
4120919 ATCAATCCATAC
123 ATCAATCCATAC
* *
4120931 -AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTA
1 TAA-TAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
*
4120989 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATC
65 TTTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCCATATTTTAAAATAAATCAATC
4121054 CATAC
130 CATAC
4121059 TAATAAATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
4121090 CTAATAAATT
Statistics
Matches: 731, Mismatches: 71, Indels: 98
0.81 0.08 0.11
Matches are distributed among these distances:
128 25 0.03
129 3 0.00
130 2 0.00
132 3 0.00
133 4 0.01
134 443 0.61
135 27 0.04
136 20 0.03
137 3 0.00
138 18 0.02
139 17 0.02
140 47 0.06
141 6 0.01
142 1 0.00
143 6 0.01
144 63 0.09
145 1 0.00
146 2 0.00
148 6 0.01
149 10 0.01
150 24 0.03
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (134 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTAAAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATAC
Found at i:4120265 original size:18 final size:19
Alignment explanation
Indices: 4120244--4120287 Score: 54
Period size: 22 Copynumber: 2.2 Consensus size: 19
4120234 TATACTAATA
4120244 AATTA-TTTAAAATAAATC
1 AATTATTTTAAAATAAATC
4120262 AATTCATATTTTAAAATAAATC
1 AA-T--TATTTTAAAATAAATC
4120284 AATT
1 AATT
4120288 CATACTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
18 2 0.09
19 2 0.09
21 3 0.14
22 15 0.68
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTATTTTAAAATAAATC
Found at i:4120275 original size:22 final size:22
Alignment explanation
Indices: 4120249--4120291 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4120239 TAATAAATTA
4120249 TTTAAAATAAATCAATTCATAT
1 TTTAAAATAAATCAATTCATAT
4120271 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATTCATA
4120292 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAAAATAAATCAATTCATAT
Found at i:4120297 original size:18 final size:18
Alignment explanation
Indices: 4120222--4120300 Score: 51
Period size: 22 Copynumber: 4.4 Consensus size: 18
4120212 CATATTTTAA
4120222 AATAAATCAA-TCTATACT
1 AATAAATCAATTC-ATACT
* *
4120240 AATAAAT-TATT--TA-A
1 AATAAATCAATTCATACT
*
4120254 AATAAATCAATTCATATTTT
1 AATAAATCAATTCATA--CT
4120274 AAAATAAATCAATTCATACT
1 --AATAAATCAATTCATACT
4120294 AATAAAT
1 AATAAAT
4120301 TATTTAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 18
0.67 0.07 0.26
Matches are distributed among these distances:
14 7 0.15
15 5 0.11
17 3 0.06
18 15 0.32
20 1 0.02
22 16 0.34
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (18 bp):
AATAAATCAATTCATACT
Found at i:4120300 original size:22 final size:22
Alignment explanation
Indices: 4120251--4120299 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
4120241 ATAAATTATT
**
4120251 TAAAATAAATCAATTCATATTT
1 TAAAATAAATCAATTCATATAA
4120273 TAAAATAAATCAATTCATACTAA
1 TAAAATAAATCAATTCATA-TAA
4120296 TAAA
1 TAAA
4120300 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAATAAATCAATTCATATAA
Found at i:4120380 original size:22 final size:23
Alignment explanation
Indices: 4120305--4120379 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
4120295 ATAAATTATT
4120305 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
4120327 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
4120353 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
4120376 TAAA
1 TAAA
4120380 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:4120498 original size:22 final size:22
Alignment explanation
Indices: 4120449--4120497 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4120439 ATAAATTATT
**
4120449 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
4120471 TAAAATAAATCAATCGATACTAA
1 TAAAATAAATCAATCCATA-TAA
4120494 TAAA
1 TAAA
4120498 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:4120527 original size:22 final size:22
Alignment explanation
Indices: 4120501--4120543 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4120491 TAATAAATTA
4120501 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
4120523 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
4120544 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4120552 original size:22 final size:22
Alignment explanation
Indices: 4120503--4120551 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
4120493 ATAAATTATT
**
4120503 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
4120525 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
4120548 TAAA
1 TAAA
4120552 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:4120606 original size:22 final size:22
Alignment explanation
Indices: 4120558--4120606 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
4120548 TAAATTATTT
* *
4120558 AAAATAAATCAATCCATATTTT
1 AAAATAAATCAATCCATATCTA
*
4120580 AAAATAAATCAATTCAT-TCTA
1 AAAATAAATCAATCCATATCTA
4120601 ATAAAT
1 A-AAAT
4120607 TATTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAATAAATCAATCCATATCTA
Found at i:4120686 original size:22 final size:22
Alignment explanation
Indices: 4120612--4120686 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 22
4120602 TAAATTATTT
*
4120612 AAAATAAATCAATCCATACAACTA
1 AAAATAAATCAATCCAT--ATCTA
* *
4120636 CAATAATAAATCAATCCATATTTT
1 -AA-AATAAATCAATCCATATCTA
4120660 AAAATAAATCAATCCAT-TCTA
1 AAAATAAATCAATCCATATCTA
4120681 ATAAAT
1 A-AAAT
4120687 TATTTAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
21 3 0.07
22 19 0.44
23 2 0.05
24 2 0.05
25 2 0.05
26 15 0.35
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAAATCAATCCATATCTA
Found at i:4120747 original size:22 final size:22
Alignment explanation
Indices: 4120721--4120763 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4120711 TAATAAATTA
4120721 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
4120743 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
4120764 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4120772 original size:22 final size:22
Alignment explanation
Indices: 4120723--4120771 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
4120713 ATAAATTATT
**
4120723 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
4120745 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
4120768 TAAA
1 TAAA
4120772 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:4120852 original size:22 final size:23
Alignment explanation
Indices: 4120777--4120851 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
4120767 ATAAATTATT
4120777 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
4120799 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
4120825 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
4120848 TAAA
1 TAAA
4120852 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:4120906 original size:22 final size:22
Alignment explanation
Indices: 4120857--4120905 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4120847 ATAAATTATT
* **
4120857 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCAATATAA
4120879 TAAAATAAATCAATCAATACTAA
1 TAAAATAAATCAATCAATA-TAA
4120902 TAAA
1 TAAA
4120906 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCAATATAA
Found at i:4120986 original size:22 final size:22
Alignment explanation
Indices: 4120914--4120986 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 22
4120904 AATTATTTAA
* *
4120914 AATAAATCAATCCATACA-ACT
1 AATAAATAAATCAATACATACT
*
4120935 ACA-ATAATAAATCAATCCATA-T
1 A-ATA-AATAAATCAATACATACT
**
4120957 TTTAAAATAAATCAATACATACT
1 AAT-AAATAAATCAATACATACT
4120980 AATAAAT
1 AATAAAT
4120987 TATTTAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 11
0.67 0.14 0.19
Matches are distributed among these distances:
21 2 0.05
22 32 0.84
23 4 0.11
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAAATAAATCAATACATACT
Found at i:4121066 original size:22 final size:23
Alignment explanation
Indices: 4120991--4121065 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
4120981 ATAAATTATT
4120991 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
4121013 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
4121039 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
4121062 TAAA
1 TAAA
4121066 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:4121158 original size:134 final size:136
Alignment explanation
Indices: 4120271--4121251 Score: 699
Period size: 134 Copynumber: 7.1 Consensus size: 136
4120261 CAATTCATAT
* * **
4120271 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCAT---ATTTTAA-AA
*
4120336 TAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
59 TAAATCAATCCATACTTTTAAAATAAATCAATCCATAC-AATACA-TATTTAAAATAAATCAATC
4120400 CATACTAATAAATTA
122 CATACTAATAAATTA
4120415 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAA
* ** * ** * ** *
4120480 TCAATCGATACTAATAAATTATTTAAAATAAAT-CAATCCATATTTTAAAATAAATCAATCCATA
63 TCAATCCATACTTTTAAAATAAAT-CAATCCATACAATACATA-TTTAAAATAAATCAATCCATA
4120544 CTAATAAATTA
126 CTAATAAATTA
** * * *
4120555 TTTAAAATAAATCAATCCATA-TTTTAAA-A-TAAATCAATTCATTCTAATAAATTATTTAAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATATTAAAT-AAATCAATC-CAT--A-T-TTTAAAAT
*** * *
4120617 AAATCAATCCATACAACTACAAT-AAT-AA---AT-CAATCCATATTTTAAAATAAATCAATCCA
60 AAATCAATCCATACTTTTAAAATAAATCAATCCATACAATACATA-TTTAAAATAAATCAATCCA
*
4120676 TTCTAATAAATTA
124 TACTAATAAATTA
4120689 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAA
4120754 TCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACA-A--T--AATAAATC
63 TCAATCCATAC--------T-TTTAAAATAAATCAATCCATACAA-TACATATTTAAAATAAATC
4120814 AAT-C---C--AT--A-T-
118 AATCCATACTAATAAATTA
4120823 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCATATTTTAAAATAAA
*
4120888 TCAATCAATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACA-A--T--AATAAATC
63 TCAATC----C--AT--ACT-TTTAAAATAAATCAATCCATACAA-TACATATTTAAAATAAATC
4120948 AAT-C---C--AT--A-T-
118 AATCCATACTAATAAATTA
* * **
4120957 TTTAAAATAAATCAATACATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAA-TA-TT-AAATAAATCAATCCAT---ATTTTAA-AA
*
4121022 TAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
59 TAAATCAATCCATACTTTTAAAATAAATCAATCCATAC-AATACA-TATTTAAAATAAATCAATC
4121086 CATACTAATAAATTA
122 CATACTAATAAATTA
*
4121101 TTTAAAATAAATCAATCCATAC-AACTACA-A-T-AATAAATCAATCCATATTTTAAAATAAATC
1 TTTAAAATAAATCAATCCATACTAA-TAAATATTAAATAAATCAATCCATATTTTAAAATAAATC
* ** * ** * ** *
4121162 AATACATACTAATAAATTATTTAAAATAAAT-CAAT-CGATATTTTAAAATAAATCAATCCGTAC
65 AATCCATACTTTTAAAATAAAT-CAATCCATACAATAC-ATA-TTTAAAATAAATCAATCCATAC
4121225 TAATAAATTA
127 TAATAAATTA
4121235 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
4121252 TATATTTTAT
Statistics
Matches: 712, Mismatches: 60, Indels: 140
0.78 0.07 0.15
Matches are distributed among these distances:
128 25 0.04
129 3 0.00
130 2 0.00
132 3 0.00
133 2 0.00
134 341 0.48
135 29 0.04
136 9 0.01
137 8 0.01
138 34 0.05
139 17 0.02
140 108 0.15
141 13 0.02
142 8 0.01
143 9 0.01
144 89 0.12
145 2 0.00
146 1 0.00
148 2 0.00
149 4 0.01
150 3 0.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (136 bp):
TTTAAAATAAATCAATCCATACTAATAAATATTAAATAAATCAATCCATATTTTAAAATAAATCA
ATCCATACTTTTAAAATAAATCAATCCATACAATACATATTTAAAATAAATCAATCCATACTAAT
AAATTA
Found at i:4121178 original size:22 final size:22
Alignment explanation
Indices: 4121106--4121178 Score: 53
Period size: 22 Copynumber: 3.3 Consensus size: 22
4121096 AATTATTTAA
* *
4121106 AATAAATCAATCCATACA-ACT
1 AATAAATAAATCAATACATACT
*
4121127 ACA-ATAATAAATCAATCCATA-T
1 A-ATA-AATAAATCAATACATACT
**
4121149 TTTAAAATAAATCAATACATACT
1 AAT-AAATAAATCAATACATACT
4121172 AATAAAT
1 AATAAAT
4121179 TATTTAAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 11
0.67 0.14 0.19
Matches are distributed among these distances:
21 2 0.05
22 32 0.84
23 4 0.11
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAAATAAATCAATACATACT
Found at i:4121203 original size:54 final size:54
Alignment explanation
Indices: 4120200--4121268 Score: 572
Period size: 54 Copynumber: 19.5 Consensus size: 54
4120190 CAACTACAAT
*
4120200 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
4120254 AATAAATCAATTCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** ** * ** *
4120308 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
** **
4120364 AATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** * ** * ** **
4120420 AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAA
** * ** *
4120474 AATAAATCAATCGATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATC----C--AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** ** ** * ** *
4120536 AATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCA
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* * * ** *
4120591 ATTCATTCTAATAAAT-TATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAATC-AATCCATAT-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
*
4120640 AATAAATCAATCCATATTTTAAAATAAATCAATCCATTCTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
** * ** * ** **
4120694 AATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C-AATCCA-TATTTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAAT-CAATCCATACTAATAAATTA-TTTAA
*
4120748 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
4120806 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
4120860 AATAAATCAATCCATATTTTAAAATAAATCAATCAATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* ** ** * ** *
4120914 AATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAAATAAAT-C
1 AATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAATTATTTAA
* ** *
4120970 AATACATACTAATAAAT-TATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
4121020 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
4121074 AATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC-AACTACA--A--T--
1 AATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATACTAA-TAAATTATTTAA
*
4121132 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
4121186 AATAAATCAATCGATATTTTAAAATAAATCAATCCGTACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
4121240 AATAAATCAATCTATATTTTATAATAAAT
1 AATAAATCAATCCATATTTTAAAATAAAT
4121269 TATTTTAAAA
Statistics
Matches: 793, Mismatches: 128, Indels: 188
0.72 0.12 0.17
Matches are distributed among these distances:
48 108 0.14
49 18 0.02
50 12 0.02
51 2 0.00
52 8 0.01
53 6 0.01
54 386 0.49
55 44 0.06
56 27 0.03
57 28 0.04
58 67 0.08
60 8 0.01
62 21 0.03
63 25 0.03
64 33 0.04
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:4121274 original size:15 final size:15
Alignment explanation
Indices: 4121254--4121358 Score: 156
Period size: 15 Copynumber: 7.0 Consensus size: 15
4121244 AATCAATCTA
*
4121254 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
4121269 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
*
4121284 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
4121299 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
*
4121314 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
* *
4121329 TGTTTTAAAACAAAT
1 TATTTTAAAATAAAT
*
4121344 TGTTTTAAAATAAAT
1 TATTTTAAAATAAAT
4121359 AACCTTATTA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 82 1.00
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (15 bp):
TATTTTAAAATAAAT
Found at i:4121288 original size:30 final size:30
Alignment explanation
Indices: 4121254--4121358 Score: 174
Period size: 30 Copynumber: 3.5 Consensus size: 30
4121244 AATCAATCTA
4121254 TATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
4121284 TATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
* *
4121314 TATTTTATAATAAATTGTTTTAAAACAAAT
1 TATTTTATAATAAATTATTTTAAAATAAAT
* *
4121344 TGTTTTAAAATAAAT
1 TATTTTATAATAAAT
4121359 AACCTTATTA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 71 1.00
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (30 bp):
TATTTTATAATAAATTATTTTAAAATAAAT
Found at i:4122154 original size:60 final size:59
Alignment explanation
Indices: 4122017--4122154 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
4122007 GAACATATGA
* * *
4122017 ATAGTCGGGTGACCATTTTGTAACTTTTAATAATTAAGGGACTCAACAAAGCAACGCCAT
1 ATAGTCGGG-GACCATTTTGCAACTTTTAATAATTAAGAGACTCAACAAAGCAACACCAT
* * * * * *
4122077 ATAGTCATGGGATCATTTTGCAACTTTTAATAGTTGAGAGACTCAATACAA-CAACACCCT
1 ATAGTC-GGGGACCATTTTGCAACTTTTAATAATTAAGAGACTCAACA-AAGCAACACCAT
4122137 ATAGTCGGAGGACCATTT
1 ATAGTCGG-GGACCATTT
4122155 GTGTAGTATA
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
59 1 0.02
60 59 0.92
61 4 0.06
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (59 bp):
ATAGTCGGGGACCATTTTGCAACTTTTAATAATTAAGAGACTCAACAAAGCAACACCAT
Found at i:4126358 original size:18 final size:18
Alignment explanation
Indices: 4126337--4126438 Score: 96
Period size: 18 Copynumber: 5.7 Consensus size: 18
4126327 GTGGGCTTTG
*
4126337 GGCTTCTCGGGTTCCTTC
1 GGCTTTTCGGGTTCCTTC
** *
4126355 GGCTTTTCGGGCACTTTC
1 GGCTTTTCGGGTTCCTTC
* *
4126373 GGTTTTTCGGGTTCCTTT
1 GGCTTTTCGGGTTCCTTC
** * *
4126391 GGCTTTTCGGGCGCTTTG
1 GGCTTTTCGGGTTCCTTC
*
4126409 GGTTTTTCGGGTTCCTTC
1 GGCTTTTCGGGTTCCTTC
*
4126427 GGCTTCTCGGGT
1 GGCTTTTCGGGT
4126439 ACTTTGGGTT
Statistics
Matches: 63, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.01, C:0.25, G:0.31, T:0.43
Consensus pattern (18 bp):
GGCTTTTCGGGTTCCTTC
Done.