Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 43 of 427
Found at i:10576043 original size:29 final size:30
Alignment explanation
Indices: 10575927--10576043 Score: 148
Period size: 30 Copynumber: 3.9 Consensus size: 30
10575917 CACAGCCATG
* *
10575927 ACACACGGGCCTGTGGTCTACCTGTGTGTC
1 ACACACGGGCGTGTGGTCTACCCGTGTGTC
* *
10575957 ACGCACGGGCGTATGGTCTACCCGTGTGTC
1 ACACACGGGCGTGTGGTCTACCCGTGTGTC
* *
10575987 ACACACGGGCGTGTGGTCTACCCATGTGTT
1 ACACACGGGCGTGTGGTCTACCCGTGTGTC
*
10576017 ACACA-GGGTGTGTGGATC-ACCCGTGTG
1 ACACACGGGCGTGTGG-TCTACCCGTGTG
10576044 GAAGTGCCAA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
29 17 0.22
30 59 0.78
ACGTcount: A:0.15, C:0.27, G:0.32, T:0.25
Consensus pattern (30 bp):
ACACACGGGCGTGTGGTCTACCCGTGTGTC
Found at i:10582438 original size:47 final size:47
Alignment explanation
Indices: 10582374--10582484 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
10582364 GACATTGAGT
*
10582374 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
10582421 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
10582468 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
10582485 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:10588847 original size:12 final size:13
Alignment explanation
Indices: 10588832--10588864 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10588822 GCAAACGTGA
10588832 GAAAGAAAG-AAG
1 GAAAGAAAGAAAG
10588844 GAAAGAAAGAAAG
1 GAAAGAAAGAAAG
*
10588857 AAAAGAAA
1 GAAAGAAA
10588865 AGGGAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (13 bp):
GAAAGAAAGAAAG
Found at i:10588866 original size:5 final size:4
Alignment explanation
Indices: 10588831--10588864 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
10588821 AGCAAACGTG
*
10588831 AGAA AGAA AGAA GGAA AGAA AGAA AGAAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AG-AA AGAA A
10588865 AGGGAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:10589685 original size:47 final size:47
Alignment explanation
Indices: 10589621--10589731 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
10589611 GACATTGAGT
*
10589621 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
10589668 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
10589715 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
10589732 CTTATCCGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:10593852 original size:22 final size:21
Alignment explanation
Indices: 10593822--10593873 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
10593812 TATAAGCAGA
* **
10593822 TAACAAACTAACTAACTGTGTT
1 TAACTAACTAACTAACACT-TT
*
10593844 TAACTAACTAATTAACACTTT
1 TAACTAACTAACTAACACTTT
10593865 TAACTAACT
1 TAACTAACT
10593874 TCATCAGCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (21 bp):
TAACTAACTAACTAACACTTT
Found at i:10597349 original size:25 final size:25
Alignment explanation
Indices: 10597315--10597364 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10597305 AACAATTCAG
10597315 GTTCTTAATTTTGAAGCACCATTAA
1 GTTCTTAATTTTGAAGCACCATTAA
10597340 GTTCTTAATTTTGAAGCACCATTAA
1 GTTCTTAATTTTGAAGCACCATTAA
10597365 CGAAGCTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (25 bp):
GTTCTTAATTTTGAAGCACCATTAA
Found at i:10598369 original size:2 final size:2
Alignment explanation
Indices: 10598362--10598400 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10598352 ATTTAAAAGA
10598362 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10598401 ACTTCCAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10598636 original size:21 final size:21
Alignment explanation
Indices: 10598592--10598637 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10598582 TTAATTCTCG
** *
10598592 ATTTAATCAATTAAATTATTA
1 ATTTAATCAATTAAACAATCA
*
10598613 ATTTAATCAATTCAACAATCA
1 ATTTAATCAATTAAACAATCA
10598634 ATTT
1 ATTT
10598638 GATTTCTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTTAATCAATTAAACAATCA
Found at i:10598886 original size:17 final size:17
Alignment explanation
Indices: 10598864--10598898 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10598854 TCAATGAGTT
10598864 ATTTTGTTTTCATTTAA
1 ATTTTGTTTTCATTTAA
10598881 ATTTTGTTTTCATTTAA
1 ATTTTGTTTTCATTTAA
10598898 A
1 A
10598899 GATAATAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.63
Consensus pattern (17 bp):
ATTTTGTTTTCATTTAA
Found at i:10599845 original size:27 final size:26
Alignment explanation
Indices: 10599815--10599877 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
10599805 AGATAATTAC
10599815 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
10599842 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
10599869 AATATAAAT
1 AATA-AAAT
10599878 AAAATAGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:10599864 original size:15 final size:15
Alignment explanation
Indices: 10599844--10599873 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10599834 ATAATCCTAA
*
10599844 TAATTATCTTAATAT
1 TAATTATCCTAATAT
10599859 TAATTATCCTAATAT
1 TAATTATCCTAATAT
10599874 AAATAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:10600755 original size:2 final size:2
Alignment explanation
Indices: 10600748--10600785 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10600738 TTTTGGCTAA
10600748 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
10600786 GGGACCTCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10601476 original size:2 final size:2
Alignment explanation
Indices: 10601469--10601498 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10601459 ACATGTAAGC
10601469 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10601499 ATGAAGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10602294 original size:19 final size:19
Alignment explanation
Indices: 10602270--10602312 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
10602260 TATGTTACTT
10602270 CATTAATAACTAAAACTAA
1 CATTAATAACTAAAACTAA
** *
10602289 CATTAATAGGTAAAAGTAA
1 CATTAATAACTAAAACTAA
10602308 CATTA
1 CATTA
10602313 TTTAAAATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (19 bp):
CATTAATAACTAAAACTAA
Found at i:10602556 original size:21 final size:21
Alignment explanation
Indices: 10602526--10602574 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
10602516 ATATAAGAAT
10602526 AAATTATATAAATTTATTTATA
1 AAATT-TATAAATTTATTTATA
10602548 AAATTTATAAATTTATTTATA
1 AAATTTATAAATTTATTTATA
10602569 AAATTT
1 AAATTT
10602575 TATATATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AAATTTATAAATTTATTTATA
Found at i:10602574 original size:13 final size:12
Alignment explanation
Indices: 10602532--10602570 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
10602522 GAATAAATTA
10602532 TATAAATTTATT
1 TATAAATTTATT
10602544 TATAAA---ATT
1 TATAAATTTATT
10602553 TATAAATTTATT
1 TATAAATTTATT
10602565 TATAAA
1 TATAAA
10602571 ATTTTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
9 9 0.38
12 15 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TATAAATTTATT
Found at i:10603092 original size:19 final size:19
Alignment explanation
Indices: 10603049--10603098 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
10603039 AGTTTTTTTT
10603049 TTTTATAAATTTTACATATA
1 TTTTA-AAATTTTACATATA
* **
10603069 ATTTAAAATTTTGTATATA
1 TTTTAAAATTTTACATATA
*
10603088 TTTTACAATTT
1 TTTTAAAATTT
10603099 GGAGAACATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTTAAAATTTTACATATA
Found at i:10603140 original size:17 final size:17
Alignment explanation
Indices: 10603110--10603144 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10603100 GAGAACATTG
10603110 ATAAGATGTTTTTTAAT
1 ATAAGATGTTTTTTAAT
10603127 ATAA-ATGTTCTTTTAAT
1 ATAAGATGTT-TTTTAAT
10603144 A
1 A
10603145 GTTCAATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (17 bp):
ATAAGATGTTTTTTAAT
Found at i:10605276 original size:1 final size:1
Alignment explanation
Indices: 10605270--10605296 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
10605260 GTTGGTTTGG
10605270 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
10605297 GCCTTTCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10619813 original size:29 final size:29
Alignment explanation
Indices: 10619766--10619827 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
10619756 ATTAGATTAC
10619766 AAATTTTTAAATTAAAAAAC-AAGAAGATT
1 AAATTTTTAAATTAAAAAACAAAG-AGATT
* ** *
10619795 AAATTTTTAATTTTTAAAATAAAGAGATT
1 AAATTTTTAAATTAAAAAACAAAGAGATT
10619824 AAAT
1 AAAT
10619828 CTCAAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (29 bp):
AAATTTTTAAATTAAAAAACAAAGAGATT
Found at i:10621093 original size:14 final size:16
Alignment explanation
Indices: 10621064--10621095 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
10621054 AATTTTATTT
10621064 TATTAATTCAAAATAA
1 TATTAATTCAAAATAA
10621080 TATT-ATTC-AAATAA
1 TATTAATTCAAAATAA
10621094 TA
1 TA
10621096 ACCAACATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 4 0.25
16 4 0.25
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
TATTAATTCAAAATAA
Found at i:10627227 original size:29 final size:29
Alignment explanation
Indices: 10627194--10627262 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 29
10627184 GGGTTTCACG
*
10627194 TGTATAATTACACATTAGATCAAAATTCA
1 TGTATAATTACACATTAAATCAAAATTCA
* *
10627223 TGTATACAATTACACATTAAATCACAATTTA
1 TGTAT--AATTACACATTAAATCAAAATTCA
*
10627254 TATATAATT
1 TGTATAATT
10627263 TTAATATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 9 0.26
31 25 0.74
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (29 bp):
TGTATAATTACACATTAAATCAAAATTCA
Found at i:10630133 original size:25 final size:25
Alignment explanation
Indices: 10630104--10630157 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
10630094 TTACATATAC
10630104 ATATAATTATCATGTTTAAGATATG
1 ATATAATTATCATGTTTAAGATATG
10630129 ATATAATTATCATGTTTAAGATATG
1 ATATAATTATCATGTTTAAGATATG
10630154 ATAT
1 ATAT
10630158 TATACGATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.44
Consensus pattern (25 bp):
ATATAATTATCATGTTTAAGATATG
Found at i:10631844 original size:23 final size:23
Alignment explanation
Indices: 10631818--10631875 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
10631808 ATTTTTTGAG
10631818 TTAAAATTTAATTTTATTA-ATTA
1 TTAAAATTTAATTTTA-TACATTA
*
10631841 TT-AAATTAAAATTTTATACATTA
1 TTAAAATT-TAATTTTATACATTA
*
10631864 TAGAAAATTTAA
1 T-TAAAATTTAA
10631876 ATGAATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
22 7 0.25
23 14 0.50
24 2 0.07
25 5 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAAAATTTAATTTTATACATTA
Found at i:10637243 original size:21 final size:21
Alignment explanation
Indices: 10637219--10637259 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10637209 ATCTGCTCAA
* *
10637219 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
10637240 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
10637260 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:10643341 original size:1 final size:1
Alignment explanation
Indices: 10643335--10643365 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
10643325 ATTGATACAT
*
10643335 AAAAAAAAAAAAAAAAAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10643366 GTGACATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10644337 original size:20 final size:21
Alignment explanation
Indices: 10644298--10644338 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
10644288 TCGAATCTAT
* *
10644298 TTACATACATAAATAAATATA
1 TTACAAACATAAAAAAATATA
10644319 TTACAAACA-AAAAAAATATA
1 TTACAAACATAAAAAAATATA
10644339 AAAAAAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (21 bp):
TTACAAACATAAAAAAATATA
Found at i:10648228 original size:24 final size:24
Alignment explanation
Indices: 10648196--10648242 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
10648186 AATCTTTCAA
10648196 CCCATTTTT-TTCCATTCATATCAG
1 CCCATTTTTGTT-CATTCATATCAG
10648220 CCCATTTTTGTTCATTCATATCA
1 CCCATTTTTGTTCATTCATATCA
10648243 AGTTAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.21, C:0.28, G:0.04, T:0.47
Consensus pattern (24 bp):
CCCATTTTTGTTCATTCATATCAG
Found at i:10650288 original size:21 final size:19
Alignment explanation
Indices: 10650263--10650318 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 19
10650253 TGCCATGTGT
10650263 TTTTTAAATATATTTATAGTA
1 TTTTTAAATATATTTATA--A
10650284 TTTTTAAATATATTTATAA
1 TTTTTAAATATATTTATAA
10650303 TTTAGTTAAATATATT
1 TTT--TTAAATATATT
10650319 ATTTTTGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.12
21 29 0.88
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
TTTTTAAATATATTTATAA
Found at i:10667715 original size:27 final size:27
Alignment explanation
Indices: 10667664--10667715 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
10667654 AACAATATAC
* *
10667664 AAAACAATTTAAAAATAGATTATATTA
1 AAAAAAATTTAAAAATAGATAATATTA
*
10667691 AAAAAAATTTAAAAATAGGTAATAT
1 AAAAAAATTTAAAAATAGATAATAT
10667716 AGGCGAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.31
Consensus pattern (27 bp):
AAAAAAATTTAAAAATAGATAATATTA
Found at i:10667763 original size:30 final size:26
Alignment explanation
Indices: 10667729--10667821 Score: 87
Period size: 26 Copynumber: 3.4 Consensus size: 26
10667719 CGAAAGTTTG
10667729 AAATAAATAATATATGAGGGAAAAAATTTA
1 AAATAAATAATATAT-A---AAAAAATTTA
* *
10667759 AAATAAATAATATGTAAAATAATTTA
1 AAATAAATAATATATAAAAAAATTTA
* ** *
10667785 AGATAAATAATATATAAATGAGTTTA
1 AAATAAATAATATATAAAAAAATTTA
*
10667811 AGATAAATAAT
1 AAATAAATAAT
10667822 TTCAAAACGA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 41 0.73
29 1 0.02
30 14 0.25
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (26 bp):
AAATAAATAATATATAAAAAAATTTA
Found at i:10667782 original size:26 final size:26
Alignment explanation
Indices: 10667749--10667821 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
10667739 TATATGAGGG
* *
10667749 AAAA-AATTTAAAATAAATAATATGT
1 AAAATAATTTAAGATAAATAATATAT
10667774 AAAATAATTTAAGATAAATAATATAT
1 AAAATAATTTAAGATAAATAATATAT
*
10667800 -AAATGAGTTTAAGATAAATAAT
1 AAAAT-AATTTAAGATAAATAAT
10667822 TTCAAAACGA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 8 0.19
26 35 0.81
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (26 bp):
AAAATAATTTAAGATAAATAATATAT
Found at i:10667794 original size:14 final size:14
Alignment explanation
Indices: 10667775--10667823 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
10667765 ATAATATGTA
10667775 AAATAATTTAAGAT
1 AAATAATTTAAGAT
*
10667789 AAATAA--T-ATAT
1 AAATAATTTAAGAT
*
10667800 AAATGAGTTTAAGAT
1 AAAT-AATTTAAGAT
10667815 AAATAATTT
1 AAATAATTT
10667824 CAAAACGAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
11 7 0.26
12 2 0.07
14 11 0.41
15 7 0.26
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATAATTTAAGAT
Found at i:10669170 original size:9 final size:9
Alignment explanation
Indices: 10669155--10669199 Score: 81
Period size: 9 Copynumber: 5.0 Consensus size: 9
10669145 CTTGGCCGGC
10669155 CATAGGAGA
1 CATAGGAGA
*
10669164 TATAGGAGA
1 CATAGGAGA
10669173 CATAGGAGA
1 CATAGGAGA
10669182 CATAGGAGA
1 CATAGGAGA
10669191 CATAGGAGA
1 CATAGGAGA
10669200 TAAGGGAAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.44, C:0.09, G:0.33, T:0.13
Consensus pattern (9 bp):
CATAGGAGA
Found at i:10670171 original size:47 final size:47
Alignment explanation
Indices: 10670102--10670321 Score: 280
Period size: 47 Copynumber: 4.6 Consensus size: 47
10670092 TAAGATGATA
* *
10670102 CGAGATATGAGCCAGTGTAAGACCATGTGAGTTCATAGCATCGACAC
1 CGAGATATGAGCCAGTGTAAGACCATGTGAGTGCATGGCATCGACAC
* *
10670149 CGAGATATGAG-CACTTGTAAGACCATGTGAGTGCATGGCATTGACAC
1 CGAGATATGAGCCA-GTGTAAGACCATGTGAGTGCATGGCATCGACAC
* * *
10670196 TGAGATATGGGCCAATGTAAGACCATGTGAGTGCATGGCATCGACAC
1 CGAGATATGAGCCAGTGTAAGACCATGTGAGTGCATGGCATCGACAC
* * *
10670243 CGAGATATGTGTCAGTATAAGACCATGTGAGTGCATGGCATCGACATC
1 CGAGATATGAGCCAGTGTAAGACCATGTGAGTGCATGGCATCGACA-C
* *
10670291 GAGATGAGTATGAGCCAGTGTAAGTCCATGT
1 -CGA-GA-TATGAGCCAGTGTAAGACCATGT
10670322 CTGGGACATG
Statistics
Matches: 149, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
46 2 0.01
47 121 0.81
48 3 0.02
49 2 0.01
50 2 0.01
51 19 0.13
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
CGAGATATGAGCCAGTGTAAGACCATGTGAGTGCATGGCATCGACAC
Found at i:10672251 original size:54 final size:51
Alignment explanation
Indices: 10672185--10672311 Score: 141
Period size: 51 Copynumber: 2.4 Consensus size: 51
10672175 TTTTTTTTGG
* * ** *
10672185 GGACACTAATGGCCATCACCTCCTTT-TCGAGTATCAAATTTCTTTTTTGTT-TT
1 GGACACTGATGGCCAGCACCAACTTTATC-AG-AT-AAATTT-TTTTTTGTTCTA
*
10672238 GAGACACTGATGGCCAGCACCAACTTTATCAGATTAATTTTTTTTTGTTCTA
1 G-GACACTGATGGCCAGCACCAACTTTATCAGATAAATTTTTTTTTGTTCTA
10672290 GGACACTGATGGCCAGCACCAA
1 GGACACTGATGGCCAGCACCAA
10672312 GTATTAAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
51 30 0.46
52 7 0.11
53 3 0.05
54 23 0.35
55 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (51 bp):
GGACACTGATGGCCAGCACCAACTTTATCAGATAAATTTTTTTTTGTTCTA
Found at i:10675037 original size:9 final size:9
Alignment explanation
Indices: 10675018--10675061 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
10675008 TTAGTACTTA
10675018 TTTTTTCTTC
1 TTTTTT-TTC
10675028 TTTTTTTTC
1 TTTTTTTTC
10675037 -TTTTTTTC
1 TTTTTTTTC
**
10675045 TTTTTTTGA
1 TTTTTTTTC
10675054 TTTTTTTT
1 TTTTTTTT
10675062 AAAATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
8 8 0.27
9 16 0.53
10 6 0.20
ACGTcount: A:0.02, C:0.09, G:0.02, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:10675057 original size:17 final size:17
Alignment explanation
Indices: 10675019--10675060 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
10675009 TAGTACTTAT
**
10675019 TTTTTCTTCTTTTTTTTC
1 TTTTT-TTCTTTTTTTGA
10675037 TTTTTTTCTTTTTTTGA
1 TTTTTTTCTTTTTTTGA
10675054 TTTTTTT
1 TTTTTTT
10675061 TAAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.86
Consensus pattern (17 bp):
TTTTTTTCTTTTTTTGA
Found at i:10676192 original size:27 final size:27
Alignment explanation
Indices: 10676133--10676193 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
10676123 GAATTTCAAT
* * *
10676133 AAAAAAAAGAAAGTGAGAATTATATGA
1 AAAAAAAAGAAAGTGAAAATCAAATGA
* *
10676160 AAAAAAGAGAAAGTGAAAATCAAATTA
1 AAAAAAAAGAAAGTGAAAATCAAATGA
*
10676187 ATAAAAA
1 AAAAAAA
10676194 TAAAACTATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.67, C:0.02, G:0.15, T:0.16
Consensus pattern (27 bp):
AAAAAAAAGAAAGTGAAAATCAAATGA
Found at i:10676743 original size:2 final size:2
Alignment explanation
Indices: 10676736--10676764 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10676726 AGAAAGTTTA
10676736 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10676765 CTGTGTACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10677007 original size:26 final size:26
Alignment explanation
Indices: 10676977--10677029 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
10676967 CTTCATCTCA
10676977 GAGAAATTTCCAACTTTCATTTATTT
1 GAGAAATTTCCAACTTTCATTTATTT
10677003 GAGAAATTTCCAACTTTCATTTATTT
1 GAGAAATTTCCAACTTTCATTTATTT
10677029 G
1 G
10677030 TCTTTCATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.45
Consensus pattern (26 bp):
GAGAAATTTCCAACTTTCATTTATTT
Found at i:10679248 original size:2 final size:2
Alignment explanation
Indices: 10679241--10679269 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10679231 CTAATATGAT
10679241 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10679270 TTACGCATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10690832 original size:14 final size:14
Alignment explanation
Indices: 10690824--10690863 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 14
10690814 TTGCATATTG
10690824 CAACTTGCAAATCA
1 CAACTTGCAAATCA
10690838 CAACTTGCACAATATCA
1 CAACTTG--CAA-ATCA
10690855 CAACTTGCA
1 CAACTTGCA
10690864 CAATTAGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 7 0.30
15 2 0.09
16 3 0.13
17 11 0.48
ACGTcount: A:0.40, C:0.30, G:0.07, T:0.23
Consensus pattern (14 bp):
CAACTTGCAAATCA
Found at i:10690856 original size:17 final size:17
Alignment explanation
Indices: 10690834--10690867 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10690824 CAACTTGCAA
10690834 ATCACAACTTGCACAAT
1 ATCACAACTTGCACAAT
10690851 ATCACAACTTGCACAAT
1 ATCACAACTTGCACAAT
10690868 TAGGTAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.29, G:0.06, T:0.24
Consensus pattern (17 bp):
ATCACAACTTGCACAAT
Found at i:10692476 original size:136 final size:136
Alignment explanation
Indices: 10692233--10692517 Score: 509
Period size: 136 Copynumber: 2.1 Consensus size: 136
10692223 TATTGGGCCT
**
10692233 AAGCCCATTCAGGTAACAGTGGTACAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTTA
1 AAGCCCATTTGGGTAACAGTGGTACAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTTA
10692298 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AAC
66 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
10692362 ATATGC
131 ATATGC
* *
10692368 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTAC-AGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
*
10692433 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
65 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
10692498 CATATGC
130 CATATGC
10692505 AAGCCCATTTGGG
1 AAGCCCATTTGGG
10692518 GAGACTACTC
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
135 23 0.16
136 98 0.69
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTTA
GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
ATATGC
Found at i:10694377 original size:26 final size:25
Alignment explanation
Indices: 10694295--10694402 Score: 171
Period size: 25 Copynumber: 4.2 Consensus size: 25
10694285 ACATGAATTC
10694295 TTATCATGAAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
10694320 TTATCATGAAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
* *
10694345 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
10694371 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
10694397 TTATCA
1 TTATCA
10694403 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 45 0.58
26 33 0.42
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:10694386 original size:51 final size:51
Alignment explanation
Indices: 10694295--10694402 Score: 173
Period size: 51 Copynumber: 2.1 Consensus size: 51
10694285 ACATGAATTC
10694295 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
* * *
10694345 TTATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCATTATCATGAAACATTTACCTAACCCA
10694397 TTATCA
1 TTATCA
10694403 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
50 20 0.38
51 24 0.45
52 9 0.17
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (51 bp):
TTATCATGAAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
Found at i:10698353 original size:136 final size:135
Alignment explanation
Indices: 10698154--10698437 Score: 507
Period size: 136 Copynumber: 2.1 Consensus size: 135
10698144 TATTGGGCCT
**
10698154 AAGCCCATTCAGGTAACAGTGGTACAGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTAG
1 AAGCCCATTTGGGTAACAGTGGTACAGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTAG
10698219 CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AACA
66 CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACA
10698283 TATGC
131 TATGC
*
10698288 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTAC-AGGCCAGAGCCCTTTTCA-ATTACAATAAACTGGGCCTT
*
10698353 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
64 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
10698418 CATATGC
129 CATATGC
10698425 AAGCCCATTTGGG
1 AAGCCCATTTGGG
10698438 GAGACTACTC
Statistics
Matches: 143, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
134 23 0.16
135 17 0.12
136 81 0.57
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (135 bp):
AAGCCCATTTGGGTAACAGTGGTACAGGCCAGAGCCCTTTTCAATTACAATAAACTGGGCCTTAG
CCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAACA
TATGC
Found at i:10700251 original size:26 final size:26
Alignment explanation
Indices: 10700215--10700324 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
10700205 TATGAATTTC
*
10700215 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
10700241 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
10700267 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
10700293 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
10700319 TTATCA
1 TTATCA
10700325 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10709068 original size:26 final size:26
Alignment explanation
Indices: 10709039--10709146 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
10709029 TGATACAAAT
10709039 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10709065 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10709091 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10709117 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10709143 TGAT
1 TGAT
10709147 GGGAATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10713442 original size:131 final size:131
Alignment explanation
Indices: 10713198--10713442 Score: 427
Period size: 131 Copynumber: 1.9 Consensus size: 131
10713188 AAAAAAAGGG
* * * *
10713198 GGGAGATAATTGGATGCATACAGGGGGAGTGGAGTGTTTTGGTTTATTTGTTTGCTGAAAGCTGA
1 GGGAGATAATAGGATGCATACAGGAGGAGTGGAGTGTTTTGGTTTATTTGTTTGATGAAAGCCGA
* *
10713263 TTATATGTATGTTTCTATTGAGAAATTTGAACTTGTGTTGTCGGTTCTGGATTTCAATTAAAAAA
66 TTATATGTATGTTTCTATTGAGAAATTTGAACTTGTGCTGTCGATTCTGGATTTCAATTAAAAAA
10713328 T
131 T
10713329 GGGAGATAATAGGATGCATACAGGAGGAGTGGAGTGTTTTGGTTTATTTGTTTGATGAAAGCCGA
1 GGGAGATAATAGGATGCATACAGGAGGAGTGGAGTGTTTTGGTTTATTTGTTTGATGAAAGCCGA
*
10713394 TTATATGTATGTTTCTATTGAGAAATTTGAACTTGTGCTGTTGATTCTG
66 TTATATGTATGTTTCTATTGAGAAATTTGAACTTGTGCTGTCGATTCTG
10713443 AATGGATATT
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
131 107 1.00
ACGTcount: A:0.26, C:0.07, G:0.28, T:0.39
Consensus pattern (131 bp):
GGGAGATAATAGGATGCATACAGGAGGAGTGGAGTGTTTTGGTTTATTTGTTTGATGAAAGCCGA
TTATATGTATGTTTCTATTGAGAAATTTGAACTTGTGCTGTCGATTCTGGATTTCAATTAAAAAA
T
Found at i:10714061 original size:10 final size:10
Alignment explanation
Indices: 10714046--10714075 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
10714036 CCTAACCCAA
10714046 AAAAAAAAAG
1 AAAAAAAAAG
10714056 AAAAAAAAAG
1 AAAAAAAAAG
10714066 AAAAAGAAAA
1 AAAAA-AAAA
10714076 CCTACCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:10714063 original size:16 final size:16
Alignment explanation
Indices: 10714044--10714075 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10714034 AACCTAACCC
10714044 AAAAAAAAAAAGAAAA
1 AAAAAAAAAAAGAAAA
*
10714060 AAAAAGAAAAAGAAAA
1 AAAAAAAAAAAGAAAA
10714076 CCTACCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGAAAA
Found at i:10714088 original size:13 final size:15
Alignment explanation
Indices: 10714072--10714103 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10714062 AAAGAAAAAG
10714072 AAAACCT-A-CCAAA
1 AAAACCTAACCCAAA
10714085 AAAACCTAACCCAAA
1 AAAACCTAACCCAAA
10714100 AAAA
1 AAAA
10714104 AAAAAGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 1 0.06
15 9 0.53
ACGTcount: A:0.66, C:0.28, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAACCTAACCCAAA
Found at i:10714675 original size:15 final size:15
Alignment explanation
Indices: 10714655--10714686 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10714645 TGTCGAGGTA
10714655 TTTTCAAAATCTGTT
1 TTTTCAAAATCTGTT
*
10714670 TTTTCAAATTCTGTT
1 TTTTCAAAATCTGTT
10714685 TT
1 TT
10714687 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.59
Consensus pattern (15 bp):
TTTTCAAAATCTGTT
Found at i:10714746 original size:89 final size:89
Alignment explanation
Indices: 10714599--10714762 Score: 231
Period size: 89 Copynumber: 1.8 Consensus size: 89
10714589 TATTTTTCAA
* * * *
10714599 AAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
10714664 TCTGTTTTTTCAAATTCTGTTTTC
66 TCTGTTTTTTCAAATTCTGTTTTC
* * * *
10714688 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTG-CTGAGCTATTTTCAAT
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTC-GAGCTATTTTCAAA
*
10714752 TTCTGTTTTTT
65 ATCTGTTTTTT
10714763 TTTCAAAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
88 1 0.02
89 64 0.98
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (89 bp):
AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTCAAAA
TCTGTTTTTTCAAATTCTGTTTTC
Found at i:10714822 original size:30 final size:30
Alignment explanation
Indices: 10714786--10714847 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
10714776 CAACTCATAT
10714786 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
10714816 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
10714846 TG
1 TG
10714848 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:10715677 original size:10 final size:10
Alignment explanation
Indices: 10715662--10715692 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
10715652 CCTAACCCAA
10715662 AAAAAAAAAG
1 AAAAAAAAAG
10715672 AAAAAAAAAG
1 AAAAAAAAAG
10715682 AAAAAGAAAAG
1 AAAAA-AAAAG
10715693 CCTACCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.75
11 5 0.25
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:10715679 original size:16 final size:16
Alignment explanation
Indices: 10715660--10715691 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10715650 AACCTAACCC
10715660 AAAAAAAAAAAGAAAA
1 AAAAAAAAAAAGAAAA
*
10715676 AAAAAGAAAAAGAAAA
1 AAAAAAAAAAAGAAAA
10715692 GCCTACCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGAAAA
Found at i:10716312 original size:2 final size:2
Alignment explanation
Indices: 10716307--10716339 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10716297 TAAATACTAT
*
10716307 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10716340 TTAAATACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10718322 original size:12 final size:12
Alignment explanation
Indices: 10718305--10718340 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
10718295 ATCCATTTGA
10718305 CATTCATGCATT
1 CATTCATGCATT
10718317 CATTCATGCATT
1 CATTCATGCATT
*
10718329 CATTCATACATT
1 CATTCATGCATT
10718341 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:10727511 original size:31 final size:30
Alignment explanation
Indices: 10727439--10727511 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 30
10727429 TTAAGAAAAA
*
10727439 AAAATATATATATATATAAATAATAGTATT
1 AAAATATATATATATATAAATAATAATATT
* *
10727469 AGAAATCATATAGTATATATAACTGATAATATT
1 A-AAAT-ATATA-TATATATAAATAATAATATT
10727502 AAAATATATA
1 AAAATATATA
10727512 CATAATATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 1 0.03
31 9 0.24
32 9 0.24
33 18 0.49
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (30 bp):
AAAATATATATATATATAAATAATAATATT
Found at i:10727736 original size:3 final size:3
Alignment explanation
Indices: 10727728--10727766 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
10727718 ACAAGGATAT
10727728 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10727767 TTGAAACACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10727888 original size:3 final size:3
Alignment explanation
Indices: 10727882--10727930 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
10727872 TAACAACAAC
10727882 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10727930 A
1 A
10727931 TTGAAACGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10728453 original size:11 final size:11
Alignment explanation
Indices: 10728408--10728453 Score: 76
Period size: 11 Copynumber: 4.2 Consensus size: 11
10728398 AGGAAAAAAA
10728408 AGAGAG-AGGG
1 AGAGAGAAGGG
10728418 AAGAGAGAAGGG
1 -AGAGAGAAGGG
10728430 AGAGAGAAGGG
1 AGAGAGAAGGG
10728441 AGAGAGAAGGG
1 AGAGAGAAGGG
10728452 AG
1 AG
10728454 GGGAATCCGG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 30 0.88
12 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (11 bp):
AGAGAGAAGGG
Found at i:10728563 original size:12 final size:12
Alignment explanation
Indices: 10728546--10728585 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
10728536 AAAAGGTAAT
10728546 TTTTTTTATATA
1 TTTTTTTATATA
*
10728558 TTTTTTTGTATA
1 TTTTTTTATATA
*
10728570 TTTTTGTATAT-
1 TTTTTTTATATA
10728581 TTTTT
1 TTTTT
10728586 ATGTTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (12 bp):
TTTTTTTATATA
Found at i:10728592 original size:9 final size:10
Alignment explanation
Indices: 10728560--10728584 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10728550 TTTATATATT
10728560 TTTTTGTATA
1 TTTTTGTATA
10728570 TTTTTGTATA
1 TTTTTGTATA
10728580 TTTTT
1 TTTTT
10728585 TATGTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (10 bp):
TTTTTGTATA
Found at i:10729008 original size:35 final size:35
Alignment explanation
Indices: 10728963--10729031 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
10728953 GAGTGTGTGA
*
10728963 TGGTGTTGGTGGCAGACAGCATGGGAGAATGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
*
10728998 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
10729032 AGAGGCAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.22, C:0.10, G:0.49, T:0.19
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
Found at i:10729402 original size:77 final size:74
Alignment explanation
Indices: 10729306--10729587 Score: 381
Period size: 74 Copynumber: 3.7 Consensus size: 74
10729296 GTGATCTGAA
10729306 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
*
10729371 ATGTGAACCGAG
65 A-GTG-TCCGAG
* *
10729383 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAAC-
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCA
*
10729447 GTGTCTTGAG
66 GTGTC-CGAG
** * *
10729457 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTT-AACAAAAGAAATTGAAATTACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA-AACAGAAATTGAAAATACCTCAGC
10729521 -GTGTCCTGAG
65 AGTGTCC-GAG
* *
10729531 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG-AAAACAGAAATTGAAAA
10729588 GCAGAAATTG
Statistics
Matches: 183, Mismatches: 16, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
73 3 0.02
74 96 0.52
75 8 0.04
76 34 0.19
77 42 0.23
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (74 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCA
GTGTCCGAG
Found at i:10729674 original size:73 final size:73
Alignment explanation
Indices: 10729581--10729733 Score: 238
Period size: 73 Copynumber: 2.1 Consensus size: 73
10729571 AAAATATAAA
10729581 TTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATG
10729645 AGTTGATTT
65 AGTTGATTT
* ** *
10729654 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATG
1 TTGA-AAAGCAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
10729718 AGTTGATTT
65 AGTTGATTT
10729727 TTGAAAA
1 TTGAAAA
10729734 ATAGATTGAA
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
72 3 0.04
73 66 0.89
74 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.31
Consensus pattern (73 bp):
TTGAAAAGCAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:10729801 original size:158 final size:160
Alignment explanation
Indices: 10729418--10730044 Score: 874
Period size: 158 Copynumber: 3.9 Consensus size: 160
10729408 GTTGATTTTT
* **
10729418 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
10729483 TTGATTTTTTTAACAAA-AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
66 TTGA-TTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
*
10729547 GCAATATGAGTTGAATTTTTTTGAAAAATATAAA
130 GCAATATGAGTTG-A--TTTTTGAAAAACATAAA
*
10729581 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
* **
10729646 GTTGA-TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTC
65 GTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
* *
10729710 GTAATATGAGTTGATTTTTG-AAAA-ATAGA
130 GCAATATGAGTTGATTTTTGAAAAACATAAA
* * * **
10729739 TTGAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
* *
10729804 GTTGA-TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTC
65 GTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
*
10729868 GCAATATAAGTTGATTTTTGAAAAACATAAA
130 GCAATATGAGTTGATTTTTGAAAAACATAAA
* ** * *
10729899 TTG--AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATTTGAG
1 TTGAAAACAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* ** *
10729962 TTGATTTTTTGA-AATGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTC
66 TTGATTTTTTGACAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
10730026 GCAATATGAGTTGATTTTT
130 GCAATATGAGTTGATTTTT
10730045 TTGAAACAGA
Statistics
Matches: 420, Mismatches: 37, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
157 55 0.13
158 210 0.50
159 9 0.02
160 13 0.03
162 11 0.03
163 64 0.15
164 58 0.14
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (160 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTTGAAAAACATAAA
Found at i:10729858 original size:73 final size:73
Alignment explanation
Indices: 10729739--10730044 Score: 360
Period size: 73 Copynumber: 4.0 Consensus size: 73
10729729 GAAAAATAGA
* * * * * **
10729739 TTGAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
10729804 GTTGATTT
66 GTTGATTT
* *
10729812 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATAA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
10729877 GTTGATTT
66 GTTGATTT
**
10729885 TTGAAAAACATAAATTGAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
1 TTG--------AAA---AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* *
10729950 TCGTAATTTGAGTTGATTTT
55 TCGCAATATGAGTTGA-TTT
** *
10729970 TTGAAATGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
10730035 GTTGATTT
66 GTTGATTT
10730043 TT
1 TT
10730045 TTGAAACAGA
Statistics
Matches: 201, Mismatches: 20, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
73 74 0.37
74 57 0.28
77 3 0.01
81 3 0.01
84 58 0.29
85 6 0.03
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (73 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTT
Found at i:10730026 original size:74 final size:73
Alignment explanation
Indices: 10729902--10730057 Score: 242
Period size: 74 Copynumber: 2.1 Consensus size: 73
10729892 ACATAAATTG
** * *
10729902 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGTAATTTGAGTTGA-
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
10729966 TTTTTTGA
66 TTTTTTGA
*
10729974 AATGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AA--CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
10730039 ATTTTTTTGA
64 ATTTTTTTGA
10730049 AACAGAAAT
1 AACAGAAAT
10730058 AAAAACATCA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
72 2 0.03
73 7 0.09
74 57 0.75
75 10 0.13
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (73 bp):
AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTGA
Found at i:10742573 original size:20 final size:20
Alignment explanation
Indices: 10742531--10742586 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
10742521 CCTTTTTTAG
* * *
10742531 AATAATAATTAAATATACGAA
1 AATAAT-ATTATATACACAAA
10742552 AATAATATTATATACACAAA
1 AATAATATTATATACACAAA
*
10742572 AAT-GTA-TATATACAC
1 AATAATATTATATACAC
10742587 TTATGGTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 9 0.29
19 2 0.06
20 14 0.45
21 6 0.19
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (20 bp):
AATAATATTATATACACAAA
Found at i:10742753 original size:17 final size:19
Alignment explanation
Indices: 10742731--10742765 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10742721 TATAAAATAT
10742731 ATACATA-A-TATATATAA
1 ATACATATATTATATATAA
10742748 ATACATATATTATATATA
1 ATACATATATTATATATA
10742766 TACGTATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (19 bp):
ATACATATATTATATATAA
Found at i:10742768 original size:17 final size:17
Alignment explanation
Indices: 10742727--10742768 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
10742717 ACAATATAAA
10742727 ATATATACATAATATAT
1 ATATATACATAATATAT
*
10742744 ATAAATACAT-ATATTAT
1 ATATATACATAATA-TAT
10742761 ATATATAC
1 ATATATAC
10742769 GTATTAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATATACATAATATAT
Found at i:10743315 original size:18 final size:18
Alignment explanation
Indices: 10743288--10743335 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
10743278 AAAGAAAAAA
*
10743288 AGAAGAGAGAGGGAAGAG
1 AGAAGGGAGAGGGAAGAG
* *
10743306 AGAAGGGAGAGAGAAGGG
1 AGAAGGGAGAGGGAAGAG
*
10743324 AGAGGGGA-AGGG
1 AGAAGGGAGAGGG
10743336 GAATCTGGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (18 bp):
AGAAGGGAGAGGGAAGAG
Found at i:10743325 original size:11 final size:11
Alignment explanation
Indices: 10743291--10743327 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
10743281 GAAAAAAAGA
10743291 AGAGAG-AGGG
1 AGAGAGAAGGG
10743301 AAGAGAGAAGGG
1 -AGAGAGAAGGG
10743313 AGAGAGAAGGG
1 AGAGAGAAGGG
10743324 AGAG
1 AGAG
10743328 GGGAAGGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 21 0.84
12 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (11 bp):
AGAGAGAAGGG
Found at i:10743504 original size:18 final size:18
Alignment explanation
Indices: 10743482--10743522 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10743472 ACGGAAAAAA
*
10743482 ATAAAAATAA-AAATAAG
1 ATAAAAATAATAAAGAAG
10743499 AGT-AAAATAATAAAGAAG
1 A-TAAAAATAATAAAGAAG
10743517 ATAAAA
1 ATAAAA
10743523 TCACCTTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
ATAAAAATAATAAAGAAG
Found at i:10743505 original size:17 final size:17
Alignment explanation
Indices: 10743485--10743523 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
10743475 GAAAAAAATA
*
10743485 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
10743502 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
10743519 AAAAT
1 AAAAT
10743524 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:10745177 original size:30 final size:30
Alignment explanation
Indices: 10745135--10745223 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 30
10745125 ATATGTCATC
*
10745135 AATTATTTTAAAAAATAAAAAATATATAAAA
1 AATTA-TTTAAAAATTAAAAAATATATAAAA
*
10745166 AATTATTTAAAAATTCAAAAATA-A-AATAA
1 AATTATTTAAAAATTAAAAAATATATAA-AA
*
10745195 AAGGTATTT-AAAATTAAAAAATATATAAA
1 AA-TTATTTAAAAATTAAAAAATATATAAA
10745224 TTATTAAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
28 2 0.04
29 18 0.36
30 23 0.46
31 7 0.14
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.31
Consensus pattern (30 bp):
AATTATTTAAAAATTAAAAAATATATAAAA
Found at i:10749295 original size:23 final size:22
Alignment explanation
Indices: 10749269--10749339 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 22
10749259 AATAATAAGG
*
10749269 ATAAAATATATACACGAAATAGT
1 ATAAAATATATACAC-AAATAAT
*
10749292 ATAAAA-ATATA-ACTAATAAT
1 ATAAAATATATACACAAATAAT
*
10749312 ATTAAAAATATATACA-TAAT-AT
1 A-T-AAAATATATACACAAATAAT
10749334 ATAAAA
1 ATAAAA
10749340 CCACACACAC
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
20 10 0.24
21 4 0.10
22 12 0.29
23 15 0.36
24 1 0.02
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.30
Consensus pattern (22 bp):
ATAAAATATATACACAAATAAT
Found at i:10749319 original size:21 final size:21
Alignment explanation
Indices: 10749271--10749339 Score: 70
Period size: 21 Copynumber: 3.1 Consensus size: 21
10749261 TAATAAGGAT
*
10749271 AAAATATATACACGAAATAGTATA
1 AAAATATATACA--TAATA-TATA
10749295 AAAATATA-AC-TAATAATATTA
1 AAAATATATACATAAT-ATA-TA
10749316 AAAATATATACATAATATATA
1 AAAATATATACATAATATATA
10749337 AAA
1 AAA
10749340 CCACACACAC
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
20 5 0.12
21 16 0.40
22 5 0.12
23 6 0.15
24 8 0.20
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (21 bp):
AAAATATATACATAATATATA
Found at i:10749588 original size:19 final size:20
Alignment explanation
Indices: 10749554--10749591 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10749544 ATAATGTATT
10749554 AATAAGAATGATAATAATAA
1 AATAAGAATGATAATAATAA
*
10749574 AATAAG-ATTATAATAATA
1 AATAAGAATGATAATAATA
10749592 GTATTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (20 bp):
AATAAGAATGATAATAATAA
Found at i:10750331 original size:2 final size:2
Alignment explanation
Indices: 10750326--10750362 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10750316 TTTTTTCTTT
10750326 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10750363 TTTAAAGGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10751865 original size:162 final size:162
Alignment explanation
Indices: 10751440--10751974 Score: 715
Period size: 162 Copynumber: 3.3 Consensus size: 162
10751430 GTGATCTTGA
** * * *
10751440 GCTCAACTCATTTCTCGCAATATGAGTTGACTCTTT-AAAAACAGATATT--AAAAATAGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATA-ATTGAAAAAATAGAAATT
* * * * *
10751502 GAAAATAGCTCAGCACGTGAGCC-AAGGTTCAACTCACTTCTCGCAATATGAGTT-AGTTTTTGA
64 GAAAATACCTCAG--CGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT--
* ** * *
10751565 AACTT-AAAATCAGATTTTGAAAATACCTC-GACATGTGACCCGAG
123 ---TTGAAAAGCAGAAATTGAAAATACCTCAG-C--GTGTCCTGAG
* *
10751609 GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAACAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAT-AATTGAAAAAATAGAAATTG
10751674 AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
65 AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
10751739 GCAGAAATTGAAAATACCTCAGCGTGTCCTGAG
130 GCAGAAATTGAAAATACCTCAGCGTGTCCTGAG
*
10751772 GCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAATATAATTGAAAAAATAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAATTGAAAAAATAGAAATTGA
*
10751837 AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATCTGAGTTGATTTTTTTGAAAAG
66 AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAG
10751902 CAGAAATTGAAAATACCTCAGCGTGTCCTGAG
131 CAGAAATTGAAAATACCTCAGCGTGTCCTGAG
10751934 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
10751975 CAGAAATTGA
Statistics
Matches: 338, Mismatches: 20, Indels: 23
0.89 0.05 0.06
Matches are distributed among these distances:
162 156 0.46
163 52 0.15
164 2 0.01
165 22 0.07
166 1 0.00
168 6 0.02
169 73 0.22
170 2 0.01
171 24 0.07
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (162 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAATTGAAAAAATAGAAATTGA
AAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAG
CAGAAATTGAAAATACCTCAGCGTGTCCTGAG
Found at i:10751960 original size:75 final size:75
Alignment explanation
Indices: 10751660--10751806 Score: 276
Period size: 75 Copynumber: 2.0 Consensus size: 75
10751650 TATAAATTGA
10751660 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
10751725 GATTTTTTTG
66 GATTTTTTTG
* *
10751735 AAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
10751800 GATTTTT
66 GATTTTT
10751807 GAAAAATATA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (75 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTG
Found at i:10752014 original size:73 final size:73
Alignment explanation
Indices: 10751822--10752046 Score: 326
Period size: 73 Copynumber: 3.1 Consensus size: 73
10751812 ATATAATTGA
* *
10751822 AAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATCTGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
10751887 GATTTTTTTG
66 GA--TTTTTG
*
10751897 AAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
10751962 GATTTTTG
66 GATTTTTG
* * * * * *
10751970 AAAAACAGAAATTGAAATTACCTCAGCATGGCCTAAGG-TCCAACTCGCCTCTCGCAATACGAGT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCT-CAACTCACCTCTCGCAATATGAGT
*
10752034 TGAATTTTG
65 TGATTTTTG
10752043 AAAA
1 AAAA
10752047 TAGAAATAAA
Statistics
Matches: 138, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
72 1 0.01
73 73 0.53
75 64 0.46
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (73 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTG
Found at i:10758293 original size:18 final size:19
Alignment explanation
Indices: 10758262--10758297 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10758252 TGTCAGAGGC
*
10758262 GCATACTTCTCTTTTGTTG
1 GCATACTTCCCTTTTGTTG
10758281 GCAT-CTTCCCTTTTGTT
1 GCATACTTCCCTTTTGTT
10758298 AAGGACCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.08, C:0.25, G:0.14, T:0.53
Consensus pattern (19 bp):
GCATACTTCCCTTTTGTTG
Found at i:10764171 original size:24 final size:25
Alignment explanation
Indices: 10764144--10764204 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
10764134 ATATGTACGT
* *
10764144 AAAAATAATATAAAATAA-AGACGA
1 AAAAATAATATAAAATAATAAAAGA
*
10764168 AAAAATAATGATAATATAATAAAAGA
1 AAAAATAAT-ATAAAATAATAAAAGA
10764194 AAAAA-AATATA
1 AAAAATAATATA
10764205 TATATACATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 12 0.38
25 11 0.34
26 9 0.28
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (25 bp):
AAAAATAATATAAAATAATAAAAGA
Found at i:10764598 original size:19 final size:20
Alignment explanation
Indices: 10764564--10764601 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10764554 ATAATGTATT
10764564 AATAAGAATGATAATAATAA
1 AATAAGAATGATAATAATAA
*
10764584 AATAAG-ATTATAATAATA
1 AATAAGAATGATAATAATA
10764602 GTATTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (20 bp):
AATAAGAATGATAATAATAA
Found at i:10765441 original size:2 final size:2
Alignment explanation
Indices: 10765423--10765471 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
10765413 AGGGTTTTTT
* *
10765423 TA TA TT TA TA T- TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10765464 TA TA TA TA
1 TA TA TA TA
10765472 GAATGTATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:10768543 original size:21 final size:21
Alignment explanation
Indices: 10768519--10768560 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
10768509 AAATAAAAAT
*
10768519 AAAAAAATGAAAT-GAAATAA
1 AAAAAAAGGAAATGGAAATAA
10768539 AAAAAAAGGAAATGGAAATAA
1 AAAAAAAGGAAATGGAAATAA
10768560 A
1 A
10768561 CAATCAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (21 bp):
AAAAAAAGGAAATGGAAATAA
Found at i:10769944 original size:183 final size:183
Alignment explanation
Indices: 10769546--10770061 Score: 695
Period size: 183 Copynumber: 2.8 Consensus size: 183
10769536 TTCAGTCTGC
* * ** * * * * *
10769546 TCCACTGTAACTTCAGGGAGATAAGA-CT-TGGCTTTAATC-AGCTCCACTGTAGCTTCAAGGAG
1 TCCACTGCAACTTCAAGGAGATAAGATCTGTAACTTCAATCTA-CTCCTCTGCAACTTCAGGGAG
* ** * *
10769608 ATAAGATTTG-TACTTCAACCTTCCCCACTGCAACTTTAGGGAGACAAGATTCGT-CATGGTGAT
65 ATAAGATTCGCGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGACAAGATTC-TCCATGGTGAT
* * *
10769671 TTCCATCCGTCCTACTGCATCTTCA-GGGAATAAGGTTTGCTATCTTCGATCTAT
129 TTCAATCCATCCCACTGCATCTTCAGGGGAATAAGGTTTGCTATCTTCGATCTAT
* *
10769725 TTCACTGCAACTTCAAGGAGATAAGATCTGTAACTTCAATCTACTTCTCTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAAGGAGATAAGATCTGTAACTTCAATCTACTCCTCTGCAACTTCAGGGAGA
*
10769790 TAAGATTCGCGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGACAAGATTCTCCATGATGATTT
66 TAAGATTCGCGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGACAAGATTCTCCATGGTGATTT
* *
10769855 CAATCCATCCCACTGCATCTTCAGGGGAATATGGTTTGCTATCTTTGATCTAT
131 CAATCCATCCCACTGCATCTTCAGGGGAATAAGGTTTGCTATCTTCGATCTAT
* *
10769908 TCCACTGCAACTTCAGGGCGATAAGATCTGTAACTTCAATCTACTCCTCTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAAGGAGATAAGATCTGTAACTTCAATCTACTCCTCTGCAACTTCAGGGAGA
* * * * *
10769973 TAAGATTCACGGCTTCAATCTGCTCCACTACAACTTTAGGGAGACAAGATTCGCTATGGTGATTT
66 TAAGATTCGCGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGACAAGATTCTCCATGGTGATTT
10770038 CAAT-CAGTCCCACTGCATCTTCAG
131 CAATCCA-TCCCACTGCATCTTCAG
10770062 AGGTGTAGGA
Statistics
Matches: 298, Mismatches: 32, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
179 23 0.08
180 2 0.01
181 34 0.11
182 71 0.24
183 168 0.56
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (183 bp):
TCCACTGCAACTTCAAGGAGATAAGATCTGTAACTTCAATCTACTCCTCTGCAACTTCAGGGAGA
TAAGATTCGCGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGACAAGATTCTCCATGGTGATTT
CAATCCATCCCACTGCATCTTCAGGGGAATAAGGTTTGCTATCTTCGATCTAT
Found at i:10769978 original size:44 final size:44
Alignment explanation
Indices: 10769268--10770022 Score: 288
Period size: 44 Copynumber: 16.8 Consensus size: 44
10769258 TTGCAGCTTT
* * *
10769268 AATCTGCTCCACTACAACTTCAGAGAGATAAGA-CTTGTAACTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATC-TGTAACTTC
* * *
10769312 AACCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTTGTAACGTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATC-TGTAACTTC
* * **
10769356 AACCTACTCCACTGCAACTTCAGGGAGATAAGGT-TAGTGGCTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATCT-GTAACTTC
* * * * *
10769400 GATCTACTCTATTGCAACTTTAGGGAGATAAGATTCGCCTTGGTAGA-TTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGA-T---C-T-GTA-ACTTC
* * ** * * * * * * *
10769450 GATCCGAC-CTGCTGCAACTTTAGAGG-TATAGGATTTATAGCTTT
1 AAT-CTACTCCACTGCAACTTCAG-GGAGATAAGATCTGTAACTTC
* * * * *
10769494 AATCTGCTCTATTGCAACTTCAGAGAGATAAGAT-TCGCTATCTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATCT-G-TAACTTC
* * * ** *
10769539 AGTCTGCTCCACTGTAACTTCAGGGAGATAAGA-CT-TGGCTTT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATCTGTAACTTC
* * * *
10769581 AATC-AGCTCCACTGTAGCTTCAAGGAGATAAGATTTGT-ACTTC
1 AATCTA-CTCCACTGCAACTTCAGGGAGATAAGATCTGTAACTTC
* * * * * * *
10769624 AACCTTCCCCACTGCAACTTTAGGGAGACAAGATTCGTCATGGTGATTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGA----TC-T-GTAACTTC
* * * * *
10769674 CATC--CGTCCTACTGCATCTTCAGGGA-ATAAGGTTTGCTATCTTC
1 AATCTAC-TCC-ACTGCAACTTCAGGGAGATAAGATCTG-TAACTTC
* * * *
10769718 GATCTATTTCACTGCAACTTCAAGGAGATAAGATCTGTAACTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATCTGTAACTTC
* * ***
10769762 AATCTACTTCTCTGCAACTTCAGGGAGATAAGAT-TCGCGGCTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATCT-GTAACTTC
* * * * * *
10769806 AACCTGCTCCACTGCAACTTTAGGGAGACAAGATTCTCCATGATGATTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGA---T-C-TG-TAACTTC
* * * * * * *
10769856 AATCCA-TCCCACTGCATCTTCAGGG-GAATATGGTTTGCTATCTTT
1 AATCTACT-CCACTGCAACTTCAGGGAG-ATAAGATCTG-TAACTTC
* * *
10769901 GATCTATTCCACTGCAACTTCAGGGCGATAAGATCTGTAACTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATCTGTAACTTC
* * *
10769945 AATCTACTCCTCTGCAACTTCAGGGAGATAAGAT-T-CACGGCTTC
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGATCTGTA--ACTTC
* * * *
10769989 AATCTGCTCCACTACAACTTTAGGGAGACAAGAT
1 AATCTACTCCACTGCAACTTCAGGGAGATAAGAT
10770023 TCGCTATGGT
Statistics
Matches: 531, Mismatches: 132, Indels: 96
0.70 0.17 0.13
Matches are distributed among these distances:
42 33 0.06
43 36 0.07
44 287 0.54
45 79 0.15
46 2 0.00
47 3 0.01
48 2 0.00
49 12 0.02
50 72 0.14
51 5 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTACTCCACTGCAACTTCAGGGAGATAAGATCTGTAACTTC
Found at i:10772177 original size:50 final size:50
Alignment explanation
Indices: 10772101--10772277 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
10772091 CCATGGCAAC
*
10772101 AAGTGATAAGTGATAGCTTCGACTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
10772151 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
10772201 AAGTGATAAGTGATAGCTTCGGCTACACTCATCTGATCAATGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
10772251 CTAA-TGAAAAGTGGTAGCTTTGGCTAC
1 --AAGTGATAAGTGATAGCTTCGGCTAC
10772278 CTGGTCAGTG
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
50 93 0.81
51 20 0.17
52 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:10772293 original size:31 final size:31
Alignment explanation
Indices: 10772255--10772401 Score: 222
Period size: 31 Copynumber: 4.7 Consensus size: 31
10772245 AAATGACTAA
* *
10772255 TGAAAAGTGGTAGCTTTGGCTACCTGGTCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
10772286 TGAAAAGTGGTAGCTTCTGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
10772317 TGAAAAGTGGTAGCTCCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
* *
10772348 TGAAAAGTGGTAGCTCCGACTACCTGATCAG
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
*
10772379 TGAATAGTGGTAGCTTCGGCTAC
1 TGAAAAGTGGTAGCTTCGGCTAC
10772402 AAGTGACAAG
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
Found at i:10779488 original size:44 final size:45
Alignment explanation
Indices: 10779393--10779507 Score: 144
Period size: 44 Copynumber: 2.6 Consensus size: 45
10779383 ACAGGACAGA
*
10779393 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGATTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGATTTGGAG
* *
10779439 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCA-TTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGG-ATTTGGAG
* **
10779483 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
10779508 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
44 34 0.56
45 1 0.02
46 26 0.43
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGATTTGGAG
Found at i:10783917 original size:25 final size:25
Alignment explanation
Indices: 10783872--10783919 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
10783862 TATAAAAGTG
*
10783872 TAAAATAAATAATATGTAAATAACC
1 TAAAATAAATAATATGAAAATAACC
10783897 TAAAATAAATAATAAT-AAAATAA
1 TAAAATAAATAAT-ATGAAAATAA
10783920 TTTGAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (25 bp):
TAAAATAAATAATATGAAAATAACC
Found at i:10783968 original size:25 final size:24
Alignment explanation
Indices: 10783940--10784007 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
10783930 GTAAAAAGGG
10783940 TTTAAAATAAAGTATATAAAAT-AA
1 TTTAAAAT-AAGTATATAAAATCAA
*
10783964 TTTTAAAATAAGTAATATATAAGTCAA
1 -TTTAAAATAAGT-ATATA-AAATCAA
10783991 TTTAAAATAA-TATATAA
1 TTTAAAATAAGTATATAA
10784008 CAAGTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
23 1 0.03
24 9 0.23
25 14 0.36
26 13 0.33
27 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (24 bp):
TTTAAAATAAGTATATAAAATCAA
Found at i:10783992 original size:27 final size:23
Alignment explanation
Indices: 10783903--10784020 Score: 79
Period size: 21 Copynumber: 5.2 Consensus size: 23
10783893 AACCTAAAAT
*
10783903 AAATAA-TA-ATAAAATAATTTG
1 AAATAAGTATATAAAATAATTTA
***
10783924 AAATAAG--TA-AAAAGGGTTTA
1 AAATAAGTATATAAAATAATTTA
10783944 AAATAAAGTATATAAAATAATTTTA
1 AAAT-AAGTATATAAAATAA-TTTA
*
10783969 AAATAAGTAATATATAAGTCAATTTA
1 AAATAAGT-ATATA-AAAT-AATTTA
* *
10783995 AAATAA-TATATAACA-AGTTTA
1 AAATAAGTATATAAAATAATTTA
10784016 AAATA
1 AAATA
10784021 TATAATATGT
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
20 11 0.14
21 20 0.26
23 3 0.04
24 13 0.17
25 14 0.18
26 13 0.17
27 2 0.03
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (23 bp):
AAATAAGTATATAAAATAATTTA
Found at i:10784023 original size:20 final size:21
Alignment explanation
Indices: 10783976--10784024 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
10783966 TTAAAATAAG
10783976 TAATATATAAGTCAATTTAAAA
1 TAATATATAAG-CAATTTAAAA
10783998 TAATATATAA-CAAGTTTAAAA
1 TAATATATAAGCAA-TTTAAAA
10784019 T-ATATA
1 TAATATA
10784025 ATATGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.31
21 8 0.31
22 10 0.38
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
TAATATATAAGCAATTTAAAA
Found at i:10784025 original size:25 final size:25
Alignment explanation
Indices: 10783997--10784055 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
10783987 TCAATTTAAA
* *
10783997 ATAATATATAACAAG-TTTAAAATAT
1 ATAATATATAA-AAGATTAAAAATAG
*
10784022 ATAATATGTAAAAGAATTAAAAATAG
1 ATAATATATAAAAG-ATTAAAAATAG
10784048 ATAATATA
1 ATAATATA
10784056 AATATATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 3 0.11
25 10 0.36
26 15 0.54
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (25 bp):
ATAATATATAAAAGATTAAAAATAG
Found at i:10785182 original size:18 final size:18
Alignment explanation
Indices: 10785157--10785199 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
10785147 AAAAAAATAA
10785157 AAATAAAAAAGGAAAT-G
1 AAATAAAAAAGGAAATGG
10785174 AAATGAAAAAAGGAAATGG
1 AAAT-AAAAAAGGAAATGG
10785193 AAATAAA
1 AAATAAA
10785200 CAGTCAACCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.17
18 15 0.62
19 5 0.21
ACGTcount: A:0.70, C:0.00, G:0.19, T:0.12
Consensus pattern (18 bp):
AAATAAAAAAGGAAATGG
Found at i:10787838 original size:15 final size:15
Alignment explanation
Indices: 10787814--10787857 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
10787804 TTTGTTATCT
*
10787814 TATTATTTTTATTTA
1 TATTAATTTTATTTA
10787829 TATTAATTTT-TTTA
1 TATTAATTTTATTTA
*
10787843 TTTTGAATTTTATTT
1 TATT-AATTTTATTT
10787858 TAACCAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.28
15 15 0.60
16 3 0.12
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (15 bp):
TATTAATTTTATTTA
Found at i:10789259 original size:32 final size:32
Alignment explanation
Indices: 10789223--10789291 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
10789213 TTTTCGGATG
10789223 AACAAACAACAATTGATTAGAAAGGCCAATAC
1 AACAAACAACAATTGATTAGAAAGGCCAATAC
10789255 AACAAACAACAATTGATTAGAAAGGCCAATAC
1 AACAAACAACAATTGATTAGAAAGGCCAATAC
*
10789287 CACAA
1 AACAA
10789292 TCTTTTGCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.54, C:0.20, G:0.12, T:0.14
Consensus pattern (32 bp):
AACAAACAACAATTGATTAGAAAGGCCAATAC
Found at i:10794226 original size:18 final size:18
Alignment explanation
Indices: 10794189--10794227 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10794179 CATTGGTTTT
*
10794189 AACTTCCTCTTTGTTCTC
1 AACTTCCTCTTTGTTATC
* *
10794207 AACTTTCTCTTTTTTATC
1 AACTTCCTCTTTGTTATC
10794225 AAC
1 AAC
10794228 CCCAATTGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.28, G:0.03, T:0.51
Consensus pattern (18 bp):
AACTTCCTCTTTGTTATC
Found at i:10795489 original size:13 final size:13
Alignment explanation
Indices: 10795471--10795495 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10795461 AAAAAAAAAG
10795471 AAGAAGAAGAAGA
1 AAGAAGAAGAAGA
10795484 AAGAAGAAGAAG
1 AAGAAGAAGAAG
10795496 GTTAGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (13 bp):
AAGAAGAAGAAGA
Found at i:10795539 original size:17 final size:17
Alignment explanation
Indices: 10795512--10795552 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
10795502 AAATTTTTAT
*
10795512 AATTATTTTAAAATTA-
1 AATTATTTTTAAATTAG
*
10795528 AATTATTTTTAATTTAG
1 AATTATTTTTAAATTAG
10795545 AATTATTT
1 AATTATTT
10795553 GATAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
AATTATTTTTAAATTAG
Found at i:10796533 original size:296 final size:300
Alignment explanation
Indices: 10796062--10796733 Score: 1208
Period size: 296 Copynumber: 2.2 Consensus size: 300
10796052 ATTTATATTA
*
10796062 TTATTTATTTATTTGATAATTTTTATTGATTGATTAAAATTTTGATTAAATTTGTTGTTATACAA
1 TTATTTATTTATTTGATAATTTTTATTGATTGATTAAAATTTTGATTAAATTTGTTGTTATATAA
10796127 TTTTATAGGTTGTGTGAAAGAAACTACTTAGGTATGTTTCAATTTCAATTATTTTTAATTCATAT
66 TTTTATAGGTTGTGTGAAAGAAACTACTTAGGTATGTTTCAATTTCAATTATTTTTAATTCATAT
10796192 GTTTTTTAATCTTTAGATAATTTATATTTATTTTTTATTGTATGTAAATGATGGGAAATTATAAA
131 GTTTTTTAATCTTTAGATAATTTATATTTATTTTTTATTGTATGTAAATGATGGGAAATTATAAA
10796257 ATTAATTTTTAAAATAGTTGTGCAAT-AAA-A-TTA-GTGTATTAGTGTATTGTGATTTTTTTGA
196 ATTAATTTTTAAAATAGTTGTGCAATAAAATATTTATGTGTATTAGTGTATTGTGATTTTTTTGA
10796318 TAATGTATTTTAAAAAAATGATTAGGTTATATAAATTTAT
261 TAATGTATTTTAAAAAAATGATTAGGTTATATAAATTTAT
* *
10796358 TTATTTATTTATTTGATAATTTTTATTGATTGATTAAAATTTTGATTAAATTTATTATTATATAA
1 TTATTTATTTATTTGATAATTTTTATTGATTGATTAAAATTTTGATTAAATTTGTTGTTATATAA
10796423 TTTTATAGGTTGTGTGAAAGAAACTACTTAGGTATGTTTCAATTTCAATTATTTTTAATTCATAT
66 TTTTATAGGTTGTGTGAAAGAAACTACTTAGGTATGTTTCAATTTCAATTATTTTTAATTCATAT
*
10796488 GTTTTTTAATCTTTAGATAATTTATATTTATTTTTTATTGTATGTAAATGATGGGGAATTATAAA
131 GTTTTTTAATCTTTAGATAATTTATATTTATTTTTTATTGTATGTAAATGATGGGAAATTATAAA
*
10796553 ATTAATTTTTAAAATGGTTGTGCAATAAAATTATTTTTTAGTTGTGTATTAGTGTATTGTGATTT
196 ATTAATTTTTAAAATAGTTGTGCAATAAAA-TA---TTTA--TGTGTATTAGTGTATTGTGATTT
*
10796618 TTTTGATAATGTATTTTTAAAAAATGATTAGGTTATATAAATTTAT
255 TTTTGATAATGTATTTTAAAAAAATGATTAGGTTATATAAATTTAT
10796664 TTATTTATTTATTTGATAATTTTTATTGATTGATTAAAATTTTGATTAAATTTGTTGTTATATAA
1 TTATTTATTTATTTGATAATTTTTATTGATTGATTAAAATTTTGATTAAATTTGTTGTTATATAA
10796729 TTTTA
66 TTTTA
10796734 ATTGCAGATT
Statistics
Matches: 358, Mismatches: 8, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
296 216 0.60
297 3 0.01
299 1 0.00
303 3 0.01
306 135 0.38
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (300 bp):
TTATTTATTTATTTGATAATTTTTATTGATTGATTAAAATTTTGATTAAATTTGTTGTTATATAA
TTTTATAGGTTGTGTGAAAGAAACTACTTAGGTATGTTTCAATTTCAATTATTTTTAATTCATAT
GTTTTTTAATCTTTAGATAATTTATATTTATTTTTTATTGTATGTAAATGATGGGAAATTATAAA
ATTAATTTTTAAAATAGTTGTGCAATAAAATATTTATGTGTATTAGTGTATTGTGATTTTTTTGA
TAATGTATTTTAAAAAAATGATTAGGTTATATAAATTTAT
Found at i:10798327 original size:6 final size:6
Alignment explanation
Indices: 10798319--10798370 Score: 77
Period size: 6 Copynumber: 8.7 Consensus size: 6
10798309 GGTAGACCCA
* * *
10798319 GAGCCA GAGCCG GAGCCG GAGCCG GAGCCG GATCCG GAGCCA GAGCCG
1 GAGCCG GAGCCG GAGCCG GAGCCG GAGCCG GAGCCG GAGCCG GAGCCG
10798367 GAGC
1 GAGC
10798371 TACATCTGGG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.21, C:0.33, G:0.44, T:0.02
Consensus pattern (6 bp):
GAGCCG
Found at i:10798346 original size:18 final size:18
Alignment explanation
Indices: 10798319--10798370 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
10798309 GGTAGACCCA
10798319 GAGCCAGAGCCGGAGCCG
1 GAGCCAGAGCCGGAGCCG
* *
10798337 GAGCCGGAGCCGGATCCG
1 GAGCCAGAGCCGGAGCCG
10798355 GAGCCAGAGCCGGAGC
1 GAGCCAGAGCCGGAGC
10798371 TACATCTGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.21, C:0.33, G:0.44, T:0.02
Consensus pattern (18 bp):
GAGCCAGAGCCGGAGCCG
Found at i:10798622 original size:20 final size:21
Alignment explanation
Indices: 10798582--10798631 Score: 93
Period size: 20 Copynumber: 2.4 Consensus size: 21
10798572 GGTTTTGTAT
10798582 TGTAAATTACTTTATTTTTTA
1 TGTAAATTACTTTATTTTTTA
10798603 TGTAAATTACTTTA-TTTTTA
1 TGTAAATTACTTTATTTTTTA
10798623 TGTAAATTA
1 TGTAAATTA
10798632 TTTTTTGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (21 bp):
TGTAAATTACTTTATTTTTTA
Found at i:10810990 original size:3 final size:3
Alignment explanation
Indices: 10810968--10811098 Score: 108
Period size: 3 Copynumber: 44.3 Consensus size: 3
10810958 TTAAAAAATG
* * * * *
10810968 ATA ATA AAA ATA ATT GTA ATA ATA ATA CTA ATA ATA CT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
10811015 ATG ATA GTA GTG ATA A-A ATA ATA ATA ATA ATA GTG ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
10811062 ATA ATA ATA GA-A ATA ATA ATA CTGA A-A ATA ATA ATA A
1 ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA A
10811099 ATATAAAACT
Statistics
Matches: 100, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
2 6 0.06
3 92 0.92
4 2 0.02
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:10811117 original size:24 final size:26
Alignment explanation
Indices: 10811061--10811117 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
10811051 TAATAATAAT
*
10811061 AATAATAATAGAAATAATAATACTGAA
1 AATAATAATA-AAATAATAAAACTGAA
*
10811088 AATAATAAT-AAAT-ATAAAACTTAA
1 AATAATAATAAAATAATAAAACTGAA
*
10811112 ATTAAT
1 AATAAT
10811118 TAATTTAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 14 0.52
25 4 0.15
27 9 0.33
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (26 bp):
AATAATAATAAAATAATAAAACTGAA
Found at i:10811615 original size:5 final size:5
Alignment explanation
Indices: 10811607--10811654 Score: 60
Period size: 5 Copynumber: 9.0 Consensus size: 5
10811597 CTAATTTAAT
*
10811607 AATAA AATAA AATAA AATAA AATAAA AACAAA AATAAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AAT-AA AA-TAA AAT-AA AATAA AATAA
10811655 TATCTTCCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 25 0.66
6 13 0.34
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:10811639 original size:6 final size:6
Alignment explanation
Indices: 10811610--10811651 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
10811600 ATTTAATAAT
*
10811610 AAAAT- AAAAT- AAAAT- AAAATA AAAACA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
10811652 TAATATCTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 15 0.44
6 19 0.56
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:10812200 original size:89 final size:88
Alignment explanation
Indices: 10812067--10812451 Score: 346
Period size: 89 Copynumber: 4.3 Consensus size: 88
10812057 CTTCGATCTA
* * * * * * *
10812067 CTCCGCTGGAACTTCAAGGAGGTAAGAGTTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAAGGAGATAAGACTTGCT-ACTTCAACCTGCTCCACTGCAACTTCAGAGA
*
10812132 GATAAGGTTTGTGGTCTTTAGTCTG
65 GATAAGGTTTGT-ATCTTTAGTCTG
* * * *
10812157 CTCCACTGCAACTTTAAAGAGATAAAACTTGCTACTTCAACCTGCTCTACTGCAACTTCAGAGAG
1 CTCCACTGCAACTTCAAGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAGAGAG
* *
10812222 ATAAGGTTTGTTATC-TTCGATCTA
66 ATAAGGTTTG-TATCTTTAG-TCTG
* * * * * * *
10812246 TTCCGCTGCAACTTCAAGGAGATAAGATTTGCTATCCTCAATCTGCTCCACTGCAACTTTAGGGA
1 CTCCACTGCAACTTCAAGGAGATAAGACTTGCTA-CTTCAACCTGCTCCACTGCAACTTCAGAGA
*** *
10812311 GATAAGACCTGCTAT-TTTCAGTTTG
65 GATAAGGTTTG-TATCTTT-AGTCTG
* * * * * *
10812336 CTCCACTACAACTTCAGGGAGATAAGACTTGTTACTTCAACCTGCTCTACTACAACTTCAGAGAA
1 CTCCACTGCAACTTCAAGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAGAGAG
*
10812401 ATAAGGTTT-TCCAT-TTTCGATCTG
66 ATAAGGTTTGT--ATCTTTAG-TCTG
**
10812425 CTCCGTTGCAACTTCAAGGAGATAAGA
1 CTCCACTGCAACTTCAAGGAGATAAGA
10812452 TCTACTATTT
Statistics
Matches: 233, Mismatches: 54, Indels: 17
0.77 0.18 0.06
Matches are distributed among these distances:
87 1 0.00
88 4 0.02
89 133 0.57
90 94 0.40
91 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (88 bp):
CTCCACTGCAACTTCAAGGAGATAAGACTTGCTACTTCAACCTGCTCCACTGCAACTTCAGAGAG
ATAAGGTTTGTATCTTTAGTCTG
Found at i:10812360 original size:179 final size:179
Alignment explanation
Indices: 10812054--10812452 Score: 509
Period size: 179 Copynumber: 2.2 Consensus size: 179
10812044 AAGAGATTTA
* * * * *
10812054 TATCTTCGATCTACTCCGCTGGAACTTCAAGGAGGTAAGAGTTGGTAATTTCAACCTGCTCCACT
1 TATCTTCGATCTACTCCGCTGCAACTTCAAGGAGATAAGATTTGCTAATCTCAACCTGCTCCACT
*** * * *
10812119 GCAACTTCAGGGAGATAAGGTTTGTGGTCTTTAGTCTGCTCCACTGCAACTTTAAAGAGATAAAA
66 GCAACTTCAGGGAGATAAGACCTGTGATCTTTAGTCTGCTCCACTACAACTTCAAAGAGATAAAA
* *
10812184 CTTGCTACTTCAACCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGT-
131 CTTGCTACTTCAACCTGCTCTACTACAACTTCAGAGAAATAAGGTTT-TC
* *
10812233 TATCTTCGATCTATTCCGCTGCAACTTCAAGGAGATAAGATTTGCT-ATCCTCAATCTGCTCCAC
1 TATCTTCGATCTACTCCGCTGCAACTTCAAGGAGATAAGATTTGCTAAT-CTCAACCTGCTCCAC
* * **
10812297 TGCAACTTTAGGGAGATAAGACCTGCT-AT-TTTCAGTTTGCTCCACTACAACTTCAGGGAGATA
65 TGCAACTTCAGGGAGATAAGACCTG-TGATCTTT-AGTCTGCTCCACTACAACTTCAAAGAGATA
* *
10812360 AGACTTGTTACTTCAACCTGCTCTACTACAACTTCAGAGAAATAAGGTTTTC
128 AAACTTGCTACTTCAACCTGCTCTACTACAACTTCAGAGAAATAAGGTTTTC
* * * *
10812412 CATTTTCGATCTGCTCCGTTGCAACTTCAAGGAGATAAGAT
1 TATCTTCGATCTACTCCGCTGCAACTTCAAGGAGATAAGAT
10812453 CTACTATTTT
Statistics
Matches: 190, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
178 6 0.03
179 183 0.96
180 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (179 bp):
TATCTTCGATCTACTCCGCTGCAACTTCAAGGAGATAAGATTTGCTAATCTCAACCTGCTCCACT
GCAACTTCAGGGAGATAAGACCTGTGATCTTTAGTCTGCTCCACTACAACTTCAAAGAGATAAAA
CTTGCTACTTCAACCTGCTCTACTACAACTTCAGAGAAATAAGGTTTTC
Done.