Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 165 of 290
Found at i:53412780 original size:24 final size:24
Alignment explanation
Indices: 53412753--53412804 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
53412743 TTAGTAAGTC
*
53412753 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
53412777 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
53412801 AAAT
1 AAAT
53412805 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:53414750 original size:24 final size:24
Alignment explanation
Indices: 53414723--53414774 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
53414713 TTAGTAAGTC
*
53414723 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
53414747 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
53414771 AAAT
1 AAAT
53414775 TTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:53421842 original size:19 final size:19
Alignment explanation
Indices: 53421805--53421843 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
53421795 TAGTACGAAA
*
53421805 AACCAAATTAAAATTAATT
1 AACCAAATTAAAATAAATT
*
53421824 AACCAAATTAACATAAATT
1 AACCAAATTAAAATAAATT
53421843 A
1 A
53421844 TCTAAACTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (19 bp):
AACCAAATTAAAATAAATT
Found at i:53428128 original size:40 final size:40
Alignment explanation
Indices: 53428073--53428260 Score: 349
Period size: 40 Copynumber: 4.7 Consensus size: 40
53428063 GTTCGGATTG
53428073 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
53428113 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
53428153 ATATCCGGGCTAAGTCTCGAAGGTATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
53428193 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
53428233 ATAACCGGGCTAAGTCCCGAAGGCATTT
1 ATAACCGGGCTAAGTCCCGAAGGCATTT
53428261 AAGCTAGTAG
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:53432216 original size:14 final size:14
Alignment explanation
Indices: 53432197--53432230 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
53432187 TTTCTTTCCA
53432197 AACAAACAA-AAAGG
1 AACAAACAATAAA-G
53432211 AACAAACAATAAAG
1 AACAAACAATAAAG
53432225 AACAAA
1 AACAAA
53432231 AGGCCCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.74, C:0.15, G:0.09, T:0.03
Consensus pattern (14 bp):
AACAAACAATAAAG
Found at i:53434982 original size:19 final size:19
Alignment explanation
Indices: 53434960--53435003 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
53434950 AAATAATCTA
* *
53434960 ACACGATTCCACTACTCAG
1 ACACAATTCCACTAATCAG
53434979 ACACAATTCCACTAATCAG
1 ACACAATTCCACTAATCAG
*
53434998 ATACAA
1 ACACAA
53435004 CCATTGAGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.32, G:0.07, T:0.20
Consensus pattern (19 bp):
ACACAATTCCACTAATCAG
Found at i:53437144 original size:47 final size:46
Alignment explanation
Indices: 53437072--53437241 Score: 177
Period size: 47 Copynumber: 3.7 Consensus size: 46
53437062 ATTTTAGCAT
*
53437072 CCGAACTCGTTGAGTTTAGTCCGAGTTCGTGAGATGTAACTAGGCA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
* * * * *
53437118 TTCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC-
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCA
* *
53437165 CCGAACTCGTTGAGTTGAGTCCAAGTTCGTGAGATGTAACTAGGTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
*
53437211 CCCGAACTCGTTGAGTTGAGTCTGAGTTCGT
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCGT
53437242 TTATGGGAGG
Statistics
Matches: 99, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 25 0.25
47 53 0.54
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:53438880 original size:27 final size:26
Alignment explanation
Indices: 53438850--53438900 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
53438840 ACCTAAACCG
53438850 ACCATTCCATTCGTACCATTTCATAAT
1 ACCATTCCATTCGTACC-TTTCATAAT
* * *
53438877 ACCATTTCGTTCTTACCTTTCATA
1 ACCATTCCATTCGTACCTTTCATA
53438901 CCATTACGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.25, C:0.29, G:0.04, T:0.41
Consensus pattern (26 bp):
ACCATTCCATTCGTACCTTTCATAAT
Found at i:53441502 original size:19 final size:18
Alignment explanation
Indices: 53441451--53441502 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
53441441 ATCAAGGATC
*
53441451 AATTTGAAACAAAACAGAA
1 AATTTGGAA-AAAACAGAA
* *
53441470 AATTTTAGAGAAAACATGAA
1 AA-TTTGGAAAAAACA-GAA
53441490 AATTTGGAAAAAA
1 AATTTGGAAAAAA
53441503 ATGGTCACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.21
Consensus pattern (18 bp):
AATTTGGAAAAAACAGAA
Found at i:53441503 original size:20 final size:18
Alignment explanation
Indices: 53441451--53441503 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
53441441 ATCAAGGATC
53441451 AATTTGAAACAAAACAGAA
1 AATTTGAAA-AAAACAGAA
* *
53441470 AATTTTAGAGAAAACATGAA
1 AATTTGA-AAAAAACA-GAA
53441490 AATTTGGAAAAAAA
1 AATTT-GAAAAAAA
53441504 TGGTCACATG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 12 0.44
20 14 0.52
21 1 0.04
ACGTcount: A:0.60, C:0.06, G:0.13, T:0.21
Consensus pattern (18 bp):
AATTTGAAAAAAACAGAA
Found at i:53442095 original size:47 final size:46
Alignment explanation
Indices: 53441998--53442105 Score: 117
Period size: 47 Copynumber: 2.3 Consensus size: 46
53441988 GATTCAGTAA
* * * *
53441998 TTAATATGTCTTAAGTTAATTAATATGTTCTAATTAGTTCAGCTAT
1 TTAATATGTCTTAAGTTAATTAATATGTTCTAATTAATACAACTAC
** * *
53442044 TTAATATGTCTTAAGTTTGTTTAATTTGTTCTAGTTAATACAACTAC
1 TTAATATGTCTTAAG-TTAATTAATATGTTCTAATTAATACAACTAC
* *
53442091 TTAATGTGTCATAAG
1 TTAATATGTCTTAAG
53442106 CTTAGACAAT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
46 15 0.29
47 36 0.71
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (46 bp):
TTAATATGTCTTAAGTTAATTAATATGTTCTAATTAATACAACTAC
Found at i:53445446 original size:13 final size:14
Alignment explanation
Indices: 53445422--53445464 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
53445412 GTAGAAAAAC
53445422 CAAAAGAAAAAGAA
1 CAAAAGAAAAAGAA
53445436 CAAAA-AAAAAGAA
1 CAAAAGAAAAAGAA
*
53445449 TGAGAAAGAAAAAGAA
1 -CA-AAAGAAAAAGAA
53445465 AATAAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 8 0.32
14 6 0.24
15 3 0.12
16 8 0.32
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (14 bp):
CAAAAGAAAAAGAA
Found at i:53448434 original size:21 final size:21
Alignment explanation
Indices: 53448408--53448467 Score: 57
Period size: 25 Copynumber: 2.7 Consensus size: 21
53448398 AATACATCAG
*
53448408 AAATATTAAAAAATTTAAAAT
1 AAATATTAAAAAATTGAAAAT
*
53448429 AAATATTTTCGAATAAATTGAAAAT
1 AAATA--TT--AAAAAATTGAAAAT
*
53448454 AAATTTTAAAAAAT
1 AAATATTAAAAAAT
53448468 ATGTATACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
21 11 0.35
23 4 0.13
25 16 0.52
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (21 bp):
AAATATTAAAAAATTGAAAAT
Found at i:53452525 original size:14 final size:16
Alignment explanation
Indices: 53452506--53452542 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
53452496 TTGAAAAGAG
53452506 TTATTA-GA-TTAATA
1 TTATTACGAGTTAATA
53452520 TTATTACTGAGTTAATA
1 TTATTAC-GAGTTAATA
53452537 TTATTA
1 TTATTA
53452543 TGGGACAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 6 0.30
16 2 0.10
17 12 0.60
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (16 bp):
TTATTACGAGTTAATA
Found at i:53459462 original size:20 final size:19
Alignment explanation
Indices: 53459439--53459490 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
53459429 AAATACGAAA
53459439 AAAAAATAAAAATAGA-TTT
1 AAAAAATAAAAATA-ACTTT
**
53459458 GAAAATGTAAAAATAACTTT
1 -AAAAAATAAAAATAACTTT
53459478 AAGAAAATAAAAA
1 AA-AAAATAAAAA
53459491 AAATGGATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (19 bp):
AAAAAATAAAAATAACTTT
Found at i:53460367 original size:13 final size:13
Alignment explanation
Indices: 53460349--53460404 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
53460339 TAGATTTTTG
53460349 CTAAATATTATCA
1 CTAAATATTATCA
53460362 CTAAATA--ATC-
1 CTAAATATTATCA
53460372 CTAAATATTATCA
1 CTAAATATTATCA
* * * *
53460385 TTGATTATTTTCA
1 CTAAATATTATCA
53460398 CTAAATA
1 CTAAATA
53460405 ATTCAAAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
10 7 0.21
11 3 0.09
12 3 0.09
13 20 0.61
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:53461364 original size:4 final size:4
Alignment explanation
Indices: 53461355--53461383 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
53461345 CTATTAGCAA
53461355 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A
53461384 AACGAGTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:53465811 original size:44 final size:45
Alignment explanation
Indices: 53465651--53465822 Score: 179
Period size: 50 Copynumber: 3.7 Consensus size: 45
53465641 GGTATAATGT
* *
53465651 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTA----ACACATCTC-GTAC
* * *
53465701 CGATGCCATGTCCCAGACATGGTCTTACATTGACACCTCTATACGTAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACATC--T-CGTAC
* *
53465749 CAATGCCATGTCCTAGACATGGTCTT-CACTAACACATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTA-C
53465794 CGATG-CATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
53465823 GGTTTACATC
Statistics
Matches: 105, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 5 0.05
44 21 0.20
45 6 0.06
46 4 0.04
47 9 0.09
48 29 0.28
49 1 0.01
50 30 0.29
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (45 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTAC
Found at i:53465939 original size:48 final size:46
Alignment explanation
Indices: 53465651--53465965 Score: 186
Period size: 46 Copynumber: 6.7 Consensus size: 46
53465641 GGTATAATGT
* *
53465651 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CAT-TGTG-GC
* * * *
53465701 CGATGCCATGTCCCAGACATGGTCTTACA-TTGACACCTCTATACGT-AC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-C-TCTC-AT-TGTGGC
* * * * * *
53465749 CAATGCCATGTCCTAGACATGGTCTT-CACTAACACATC-TCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCATTGTGGC
* * * *
53465794 CGATG-CATGTCCCAGACAT-GTCTTACACT-GGTTTACATCTCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CAT-T-GTGGC
* * *
53465840 TGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-T--GTGGC
* *
53465886 TGATGCCATGTCCCAGGCATGGTCTTACACTAGCTCTCATAGTGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT--TGTGGC
* *
53465934 CGATG-CGTGTCCTAGACAT-GTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC
53465966 ACACTAAAAT
Statistics
Matches: 212, Mismatches: 36, Indels: 38
0.74 0.13 0.13
Matches are distributed among these distances:
42 1 0.00
43 6 0.03
44 21 0.10
45 6 0.03
46 54 0.25
47 33 0.16
48 51 0.24
49 4 0.02
50 34 0.16
51 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATTGTGGC
Found at i:53473362 original size:20 final size:18
Alignment explanation
Indices: 53473314--53473367 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 18
53473304 AACAACAAAT
*
53473314 AAAATAAAAATAGATTTG
1 AAAATAAAAATAAATTTG
53473332 AAAATGCAAAAATAAATTTAAG
1 AAAAT--AAAAATAAATTT--G
53473354 AAAAT-AAAATAAAT
1 AAAATAAAAATAAAT
53473368 GGATAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.16
19 9 0.29
20 11 0.35
22 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (18 bp):
AAAATAAAAATAAATTTG
Found at i:53474252 original size:22 final size:21
Alignment explanation
Indices: 53474221--53474277 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 21
53474211 TTATTTTTCC
53474221 TAAATATTATCACTAAAT-AATT
1 TAAATATTAT-A-TAAATAAATT
*
53474243 TAAATTTTATATAAATCAAATT
1 TAAATATTATATAAAT-AAATT
53474265 TAAACTAATTATA
1 TAAA-T-ATTATA
53474278 GAGCTGTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 5 0.17
21 1 0.03
22 17 0.59
23 1 0.03
24 5 0.17
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATATTATATAAATAAATT
Found at i:53474998 original size:24 final size:24
Alignment explanation
Indices: 53474971--53475016 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
53474961 ACCTTCTTAT
* *
53474971 TCCCTACGTTTTATTCTATTTGAG
1 TCCCTACATTTCATTCTATTTGAG
53474995 TCCCTACATTTCATTCTATTTG
1 TCCCTACATTTCATTCTATTTG
53475017 GGCGCCAACA
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:0.17, C:0.24, G:0.09, T:0.50
Consensus pattern (24 bp):
TCCCTACATTTCATTCTATTTGAG
Found at i:53480482 original size:12 final size:12
Alignment explanation
Indices: 53480439--53480507 Score: 50
Period size: 13 Copynumber: 5.5 Consensus size: 12
53480429 AAAACTTATT
*
53480439 TTTTTTTGATAAA
1 TTTTTTT-AAAAA
* *
53480452 TTTATATAAAACA
1 TTTTTTTAAAA-A
53480465 TTTTTTT-AAAA
1 TTTTTTTAAAAA
53480476 TTTTTTTAAAAA
1 TTTTTTTAAAAA
**
53480488 TATTTCATAAAAA
1 T-TTTTTTAAAAA
53480501 TTATTTT
1 TT-TTTT
53480508 CAATTAAATA
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
11 8 0.19
12 12 0.28
13 23 0.53
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (12 bp):
TTTTTTTAAAAA
Found at i:53481300 original size:15 final size:15
Alignment explanation
Indices: 53481280--53481339 Score: 50
Period size: 15 Copynumber: 4.0 Consensus size: 15
53481270 TAATGGTAAT
53481280 AAATATTTAATATTA
1 AAATATTTAATATTA
*
53481295 AAATA-TTAAAATTGA
1 AAATATTTAATATT-A
* * *
53481310 ATATTTTTAATAATA
1 AAATATTTAATATTA
* *
53481325 AATTATTTATTATTA
1 AAATATTTAATATTA
53481340 TATGATTAGA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
14 7 0.21
15 20 0.61
16 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
AAATATTTAATATTA
Found at i:53481408 original size:31 final size:31
Alignment explanation
Indices: 53481373--53481432 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
53481363 ATATGTATGT
53481373 TTAATAATTTTAAAAATTAT-AATATTTTATA
1 TTAAT-ATTTTAAAAATTATAAATATTTTATA
** *
53481404 TTAATATTTTATTAATTTTAAATATTTTA
1 TTAATATTTTAAAAATTATAAATATTTTA
53481433 AAAATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
TTAATATTTTAAAAATTATAAATATTTTATA
Found at i:53482028 original size:22 final size:21
Alignment explanation
Indices: 53482003--53482049 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
53481993 ACTATATTCT
53482003 AAAAATAAAATTTAAAAATAAA
1 AAAAAT-AAATTTAAAAATAAA
* * *
53482025 AAAAATTAATTTTAAAGTAAA
1 AAAAATAAATTTAAAAATAAA
53482046 AAAA
1 AAAA
53482050 TAATGAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAAATAAATTTAAAAATAAA
Found at i:53483061 original size:26 final size:26
Alignment explanation
Indices: 53483025--53483074 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
53483015 TAAAATTTAA
53483025 ACAACACTTTTCAAAAGTACTTTTTC
1 ACAACACTTTTCAAAAGTACTTTTTC
*
53483051 ACAACACTTTTCAAAAGTGCTTTT
1 ACAACACTTTTCAAAAGTACTTTT
53483075 AAAAAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (26 bp):
ACAACACTTTTCAAAAGTACTTTTTC
Found at i:53483082 original size:26 final size:26
Alignment explanation
Indices: 53483020--53483082 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
53483010 ACACTTAAAA
53483020 TTTAAACAACACTTTTCAAAAGTACT
1 TTTAAACAACACTTTTCAAAAGTACT
** *
53483046 TTTTCACAACACTTTTCAAAAGTGCT
1 TTTAAACAACACTTTTCAAAAGTACT
*
53483072 TTTAAAAAACA
1 TTTAAACAACA
53483083 ATATTAAACT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.35
Consensus pattern (26 bp):
TTTAAACAACACTTTTCAAAAGTACT
Found at i:53484480 original size:8 final size:8
Alignment explanation
Indices: 53484461--53484492 Score: 50
Period size: 7 Copynumber: 4.2 Consensus size: 8
53484451 TGACTGCCTA
53484461 ATCTGT-T
1 ATCTGTAT
53484468 ATCTGTAT
1 ATCTGTAT
53484476 ATCTG-AT
1 ATCTGTAT
53484483 ATCTGTAT
1 ATCTGTAT
53484491 AT
1 AT
53484493 AAGCATGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 13 0.57
8 10 0.43
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (8 bp):
ATCTGTAT
Found at i:53484485 original size:15 final size:15
Alignment explanation
Indices: 53484461--53484492 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
53484451 TGACTGCCTA
*
53484461 ATCTGTTATCTGTAT
1 ATCTGATATCTGTAT
53484476 ATCTGATATCTGTAT
1 ATCTGATATCTGTAT
53484491 AT
1 AT
53484493 AAGCATGTTG
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:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (15 bp):
ATCTGATATCTGTAT
Found at i:53488067 original size:24 final size:23
Alignment explanation
Indices: 53488040--53488126 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 23
53488030 TTATTAACAT
*
53488040 TGTTCTTGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCAATTA-A
*
53488064 TGTTCATGAACATGTTCATTTAA
1 TGTTCATGAACATGTTCAATTAA
* *
53488087 TGTTCGTGAACATGTTCGATTAA
1 TGTTCATGAACATGTTCAATTAA
* *
53488110 -GTTAAATGAACTTGTTC
1 TGTT-CATGAACATGTTC
53488127 GTGAATATTA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 3 0.06
23 31 0.57
24 20 0.37
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.43
Consensus pattern (23 bp):
TGTTCATGAACATGTTCAATTAA
Found at i:53488104 original size:12 final size:12
Alignment explanation
Indices: 53488035--53488103 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
53488025 ATTATTTATT
*
53488035 AACATTGTTCTTG
1 AACA-TGTTCATG
53488048 AACATGTTCAAT-
1 AACATGTTC-ATG
* *
53488060 TATATGTTCATG
1 AACATGTTCATG
*
53488072 AACATGTTCATT
1 AACATGTTCATG
* *
53488084 TA-ATGTTCGTG
1 AACATGTTCATG
53488095 AACATGTTC
1 AACATGTTC
53488104 GATTAAGTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 7
0.72 0.17 0.12
Matches are distributed among these distances:
11 10 0.23
12 28 0.65
13 5 0.12
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.42
Consensus pattern (12 bp):
AACATGTTCATG
Found at i:53491009 original size:60 final size:60
Alignment explanation
Indices: 53490944--53491080 Score: 170
Period size: 60 Copynumber: 2.3 Consensus size: 60
53490934 AACTGTGATA
*
53490944 ATATGGGCAAGGCCCAATATA-TCTCA-ACTTGTAATAGGACTACGGCCCAGATTGATACTG
1 ATATGGGCAAGGCCCAATATACTCTCATA-TTGTAA-AGGACTACGGCCCAGATTAATACTG
* * * * * *
53491004 ATATGGGCTAGGCCCAATATACTCTGATATTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCAAGGCCCAATATACTCTCATATTGTAAAGGACTACGGCCCAGATTAATACTG
53491064 ATATGGGCTAAGGCCCA
1 ATATGGGC-AAGGCCCA
53491081 GTTAACTCTG
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
60 48 0.73
61 17 0.26
62 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (60 bp):
ATATGGGCAAGGCCCAATATACTCTCATATTGTAAAGGACTACGGCCCAGATTAATACTG
Found at i:53498950 original size:20 final size:21
Alignment explanation
Indices: 53498905--53498950 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
53498895 ACTGTTTTGT
53498905 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
* *
53498925 -ACGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
53498944 TATGGGC
1 TATGGGC
53498951 AAGGCCCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:53499053 original size:60 final size:60
Alignment explanation
Indices: 53498943--53499090 Score: 169
Period size: 60 Copynumber: 2.5 Consensus size: 60
53498933 AACTGTGTTA
* * * *
53498943 ATATGGGCAAGGCCCAATATA-TCTCGA-CTTGTAATAGGGTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAGTATACTCT-GATATTGTAATAGGGTACGGCCCAGATTAATACTG
* * *
53499002 ATATGGGCTAGGCCCAGTATACTCTGATATTGTAA-GGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAGTATACTCTGATATTGTAATAGGG-TACGGCCCAGATTAATACTG
53499062 ATATGGGCTAAGGCCCAGT-TAACTCTGAT
1 ATATGGGCT-AGGCCCAGTAT-ACTCTGAT
53499091 TTCTGAATAG
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
59 24 0.31
60 36 0.47
61 17 0.22
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAGTATACTCTGATATTGTAATAGGGTACGGCCCAGATTAATACTG
Found at i:53499069 original size:28 final size:27
Alignment explanation
Indices: 53498985--53499083 Score: 76
Period size: 28 Copynumber: 3.4 Consensus size: 27
53498975 AATAGGGTAC
* *
53498985 GGCCCAGATTGATACTGATATGGGCTA
1 GGCCCAGATTAATATTGATATGGGCTA
* *
53499012 GGCCCAGTATACTCTGATATTG-TAAGGGGCTA
1 GGCCCAG---A-T-TAATATTGAT-ATGGGCTA
53499044 TGGCCCAGATTAATATTGATATGGGCTAA
1 -GGCCCAGATTAATATTGATATGGGCT-A
53499073 GGCCCAG-TTAA
1 GGCCCAGATTAA
53499084 CTCTGATTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
27 11 0.19
28 20 0.34
29 3 0.05
30 2 0.03
31 2 0.03
32 14 0.24
33 7 0.12
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (27 bp):
GGCCCAGATTAATATTGATATGGGCTA
Found at i:53505335 original size:16 final size:16
Alignment explanation
Indices: 53505314--53505345 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
53505304 AATTAATTTA
53505314 AATTAAATAATTTTCT
1 AATTAAATAATTTTCT
53505330 AATTAAATAATTTTCT
1 AATTAAATAATTTTCT
53505346 CAACCTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTAAATAATTTTCT
Found at i:53510817 original size:38 final size:38
Alignment explanation
Indices: 53510765--53510942 Score: 178
Period size: 38 Copynumber: 4.7 Consensus size: 38
53510755 TGAATTATAT
* *
53510765 TGTTATTCTAGCTTTGTGCCTAGCAGGCTTAGTGCCAA
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGCCGA
** *
53510803 TGTTATTCGGGCTTTGTGCCTAGCAGGCTTAATGCCGA
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGCCGA
* * * * *
53510841 CGTTAATCAGGCTTTGTGCCTACCAGGCTTAGTGTCGA
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGCCGA
* * * * * *
53510879 TGTTACTCAAGCTTTTTTCCTAGCGGGCTTAGTGTCGG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGCCGA
* *
53510917 TGTTATTC-AGTATTTGTACCTAGCAG
1 TGTTATTCAAG-CTTTGTGCCTAGCAG
53510943 ATTTATTGCT
Statistics
Matches: 116, Mismatches: 23, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
37 2 0.02
38 114 0.98
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (38 bp):
TGTTATTCAAGCTTTGTGCCTAGCAGGCTTAGTGCCGA
Found at i:53518035 original size:39 final size:39
Alignment explanation
Indices: 53517960--53518135 Score: 199
Period size: 39 Copynumber: 4.5 Consensus size: 39
53517950 GAATTCAATC
* * * * * * *
53517960 ACCAACACAAAGCCTACGGGACTTTAAGCCCGGATATAGT
1 ACCAGCACGAAGCCTGC-GGACCTTAAGTCCAGATATAAT
* *
53518000 ACCAGTACGAAGCCTGCGGACCTTAAGTCCAGATATAGT
1 ACCAGCACGAAGCCTGCGGACCTTAAGTCCAGATATAAT
* * *
53518039 ACCAGCACAAAGCCTGCGGATCTTAAGTCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGACCTTAAGTCCAGATATAAT
* *
53518078 TCCAGCACGAAGCCTGCGGACCTTAAGTCCAGATACAAT
1 ACCAGCACGAAGCCTGCGGACCTTAAGTCCAGATATAAT
* *
53518117 TCCAGCATGAAGCCTGCGG
1 ACCAGCACGAAGCCTGCGG
53518136 GTCTTTAAGC
Statistics
Matches: 118, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 105 0.89
40 13 0.11
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (39 bp):
ACCAGCACGAAGCCTGCGGACCTTAAGTCCAGATATAAT
Found at i:53518095 original size:78 final size:79
Alignment explanation
Indices: 53517955--53518163 Score: 269
Period size: 78 Copynumber: 2.6 Consensus size: 79
53517945 ACCCCGAATT
* * * * *
53517955 CAATCACCAACACAAAGCCTACGGGA-CTTTAAGCCCGGATATAGTACCAGTACGAAGCCTGCGG
1 CAAT-ACCAGCACAAAGCCTGC-GGATCTTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGG
53518019 ACCTTAAGTCCAGATA
64 ACCTTAAGTCCAGATA
* * *
53518035 TAGTACCAGCACAAAGCCTGCGGATC-TTAAGTCCGGATATAATTCCAGCACGAAGCCTGCGGAC
1 CAATACCAGCACAAAGCCTGCGGATCTTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGAC
53518099 CTTAAGTCCAGATA
66 CTTAAGTCCAGATA
* ** * *
53518113 CAATTCCAGCATGAAGCCTGCGGGTCTTTAAGCCCGGATATAATTCTAGCA
1 CAATACCAGCACAAAGCCTGCGGATCTTTAAGCCCGGATATAATTCCAGCA
53518164 TATAGCCAGT
Statistics
Matches: 111, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
78 71 0.64
79 38 0.34
80 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (79 bp):
CAATACCAGCACAAAGCCTGCGGATCTTTAAGCCCGGATATAATTCCAGCACGAAGCCTGCGGAC
CTTAAGTCCAGATA
Found at i:53518158 original size:40 final size:40
Alignment explanation
Indices: 53517969--53518192 Score: 197
Period size: 39 Copynumber: 5.7 Consensus size: 40
53517959 CACCAACACA
* * * *
53517969 AAGCCTACGGGACTTTAAGCCCGGATATAGTACCAGTACG
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
* * * * * *
53518009 AAGCCTGC-GGACCTTAAGTCCAGATATAGTACCAGCACA
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
*
53518048 AAGCCTGC-GGA-TCTTAAGTCCGGATATAATTCCAGCACG
1 AAGCCTGCGGGACT-TTAAGCCCGGATATAATTCCAGCACG
* * * * *
53518087 AAGCCTGC-GGACCTTAAGTCCAGATACAATTCCAGCATG
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
* * *
53518126 AAGCCTGCGGGTCTTTAAGCCCGGATATAATTCTAGCA-T
1 AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
* * *
53518165 ATAGCCAGTGGGTCTTTAAGCCCGGATA
1 A-AGCCTGCGGGACTTTAAGCCCGGATA
53518193 CACATCAAAT
Statistics
Matches: 156, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 102 0.65
40 54 0.35
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.22
Consensus pattern (40 bp):
AAGCCTGCGGGACTTTAAGCCCGGATATAATTCCAGCACG
Found at i:53533215 original size:36 final size:36
Alignment explanation
Indices: 53533174--53533245 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
53533164 CGAATAGTTT
*
53533174 GCCTAGCCTATTCACAGTATTCTTGTCATAGTTGAA
1 GCCTAGCCTAATCACAGTATTCTTGTCATAGTTGAA
53533210 GCCTAGCCTAATCACAGTATTCTTGTCATAGTTGAA
1 GCCTAGCCTAATCACAGTATTCTTGTCATAGTTGAA
53533246 CACGTCGCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (36 bp):
GCCTAGCCTAATCACAGTATTCTTGTCATAGTTGAA
Found at i:53533921 original size:27 final size:28
Alignment explanation
Indices: 53533877--53533971 Score: 97
Period size: 28 Copynumber: 3.4 Consensus size: 28
53533867 TTTAGATGAT
*
53533877 GCCACAAAGGCATTCCTT-TTCAGAGATA
1 GCCACAAAGGC-TTCCTTATCCAGAGATA
* * * *
53533905 GCTATAAAGGTTTCCTTATCCAGAGATT
1 GCCACAAAGGCTTCCTTATCCAGAGATA
53533933 GCCACAAAGGCTTCCTTA-CCTAGAGATTA
1 GCCACAAAGGCTTCCTTATCC-AGAGA-TA
53533962 -CCACAAAGGC
1 GCCACAAAGGC
53533972 ATCATTTTTA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
27 8 0.15
28 46 0.84
29 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (28 bp):
GCCACAAAGGCTTCCTTATCCAGAGATA
Found at i:53534037 original size:27 final size:29
Alignment explanation
Indices: 53533989--53534051 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
53533979 TTATTAAGTA
* * *
53533989 CTCACCACTAAGGCTTTCCTTTTAGA-GT
1 CTCATCACAAAGGCTTTCCTTTAAGAGGT
53534017 CTCATCACAAAGG-TTTCCTTTAAGAGGT
1 CTCATCACAAAGGCTTTCCTTTAAGAGGT
53534045 -TCATCAC
1 CTCATCAC
53534052 GAGGGCTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 18 0.58
28 13 0.42
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.33
Consensus pattern (29 bp):
CTCATCACAAAGGCTTTCCTTTAAGAGGT
Found at i:53534131 original size:28 final size:29
Alignment explanation
Indices: 53534055--53534209 Score: 99
Period size: 29 Copynumber: 5.4 Consensus size: 29
53534045 TCATCACGAG
*
53534055 GGCTTACCCTTCTAGAGTTTTGCCACAAA
1 GGCTTACCTTTCTAGAGTTTTGCCACAAA
* * *
53534084 GG-TTGTCCTTT-AACA-TGTTTGCCACAAA
1 GGCTT-ACCTTTCTAGAGT-TTTGCCACAAA
* *
53534112 GGCTTACCTTTCTAGAGTTTTTCCATAAA
1 GGCTTACCTTTCTAGAGTTTTGCCACAAA
** * *
53534141 GGCGTT-TGTTTC-AGAGGTTCT-CGACAAA
1 GGC-TTACCTTTCTAGA-GTTTTGCCACAAA
* * *
53534169 GGCTTACATTTCCAGAGTTTTGCTACAAA
1 GGCTTACCTTTCTAGAGTTTTGCCACAAA
53534198 GGCATT-CCTTTC
1 GGC-TTACCTTTC
53534210 ACTAGTTTTT
Statistics
Matches: 96, Mismatches: 19, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
27 3 0.03
28 41 0.43
29 47 0.49
30 5 0.05
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (29 bp):
GGCTTACCTTTCTAGAGTTTTGCCACAAA
Found at i:53538368 original size:13 final size:11
Alignment explanation
Indices: 53538343--53538382 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
53538333 TTATTTATAA
53538343 TAAAATATTAT
1 TAAAATATTAT
53538354 TAAAATATCTCAT
1 TAAAATAT-T-AT
*
53538367 TAAAATATTAA
1 TAAAATATTAT
53538378 TAAAA
1 TAAAA
53538383 CAATATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 14 0.54
12 2 0.08
13 10 0.38
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
TAAAATATTAT
Found at i:53540671 original size:2 final size:2
Alignment explanation
Indices: 53540666--53540715 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
53540656 TATATATATA
* *
53540666 TG TG TG TG TG TG CG TG TG TG TG TG TG TA TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
53540708 TG TG TG TG
1 TG TG TG TG
53540716 ATTTCAGAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.02, C:0.02, G:0.48, T:0.48
Consensus pattern (2 bp):
TG
Found at i:53544487 original size:46 final size:46
Alignment explanation
Indices: 53544352--53544572 Score: 207
Period size: 47 Copynumber: 4.7 Consensus size: 46
53544342 GCAAGGTGCT
* *
53544352 GATGCAATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGTC
1 GATGC-ATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGCC
* * * * *
53544399 AATGCCATATCCCAGACATGGTATTACACTGAC-TATCATCTCGTAGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTC-AAGCC
* ** *
53544447 GATGCATGTCCCAGACAT-GTGTTACACTGGCTTATGTCTCGAGACC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAG-CC
* * **
53544493 GATGCATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATGTT
1 GATGCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCAA-GCC
53544539 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCT
53544573 CTCATAATGT
Statistics
Matches: 144, Mismatches: 21, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.01
46 58 0.40
47 64 0.44
48 20 0.14
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGCC
Found at i:53544595 original size:47 final size:45
Alignment explanation
Indices: 53544352--53544614 Score: 181
Period size: 47 Copynumber: 5.6 Consensus size: 45
53544342 GCAAGGTGCT
* * **
53544352 GATGCAATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGTC
1 GATGC-ATGTCCCAGACAT-GTCTTACACTGGCTCTCATATGTAGTC
* * * * * * *
53544399 AATGCCATATCCCAGACATGGTATTACACTGACTATCATCTCGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAT-GTAGTC
* * * *
53544447 GATGCATGTCCCAGACATGTGTTACACTGGCT-T-ATGTCTCGAGACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATGT--AG-TC
* * * ** *
53544493 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATGTA-GTC
*
53544539 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-ATGTAGTC
*
53544587 GATGCATGT-CCGGAACATGTCTTACACT
1 GATGCATGTCCCAG-ACATGTCTTACACT
53544615 AGCCAACAAT
Statistics
Matches: 174, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 3 0.02
46 62 0.36
47 71 0.41
48 33 0.19
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATGTAGTC
Found at i:53544612 original size:140 final size:141
Alignment explanation
Indices: 53544352--53544614 Score: 345
Period size: 140 Copynumber: 1.9 Consensus size: 141
53544342 GCAAGGTGCT
*
53544352 GATGCAATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGTCAATGCCATATCCCAGACA
1 GATGCAATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGTCAATGCCATATCCCAGACA
* *
53544417 TGGTATTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACATGTGTTACACTGGCTTAT
66 TGGTATTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAT
53544482 GTCTCGAGACC
131 GTCTCGAGACC
* * ** *
53544493 GATGC-ATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGTTGATGCCATGTCCCAGAC
1 GATGCAATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAA-GTCAATGCCATATCCCAGAC
* * * * * *
53544556 ATGGTCTTACACTGGCTCTCATAAT-GTGGTCGATGCATGT-CCGGAACATGTCTTACACT
65 ATGGTATTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCCAG-ACATGTCTTACACT
53544615 AGCCAACAAT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
139 24 0.23
140 75 0.71
141 6 0.06
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (141 bp):
GATGCAATGTCCCAGACATGGTCTTACACTAGCTCACATCTCAAGTCAATGCCATATCCCAGACA
TGGTATTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAT
GTCTCGAGACC
Found at i:53546193 original size:19 final size:19
Alignment explanation
Indices: 53546169--53546207 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
53546159 TCGTTTTCCC
53546169 TAAACGCGAACGATTTTCT
1 TAAACGCGAACGATTTTCT
*
53546188 TAAACGCGAATGATTTTCT
1 TAAACGCGAACGATTTTCT
53546207 T
1 T
53546208 TAAATATCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (19 bp):
TAAACGCGAACGATTTTCT
Found at i:53547507 original size:20 final size:21
Alignment explanation
Indices: 53547470--53547515 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
53547460 ATTGAACTCC
53547470 CATTATTTTATATATACATTT
1 CATTATTTTATATATACATTT
53547491 CATTATTTTAT-TATACATTT
1 CATTATTTTATATATACATTT
53547511 -ATTAT
1 CATTAT
53547516 ATAACAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 5 0.20
20 9 0.36
21 11 0.44
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (21 bp):
CATTATTTTATATATACATTT
Found at i:53553002 original size:22 final size:22
Alignment explanation
Indices: 53552977--53553019 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
53552967 TCCCCACAGG
*
53552977 AAGTGTAGGGATGGACGGAGGC
1 AAGTGCAGGGATGGACGGAGGC
* *
53552999 AAGTGCAGGGTTGGATGGAGG
1 AAGTGCAGGGATGGACGGAGG
53553020 TTATCATGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.07, G:0.51, T:0.16
Consensus pattern (22 bp):
AAGTGCAGGGATGGACGGAGGC
Found at i:53553096 original size:20 final size:21
Alignment explanation
Indices: 53553053--53553098 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
53553043 ACTGTTTTGT
53553053 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
53553073 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
53553092 TATGGGC
1 TATGGGC
53553099 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:53553191 original size:60 final size:62
Alignment explanation
Indices: 53553120--53553239 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 62
53553110 TATCTCGACT
* *
53553120 TGTAATAGGGCTACGGCTCAGATTGATACTGACATGGGCT-AGGCCCAG-TATACTCTGATAC
1 TGTAATAGGGCTACGGCCCAGATTAATACTGACATGGGCTAAGGCCCAGTTA-ACTCTGATAC
* * *
53553181 TGTAAT-GGGCTATGGCCCAGATTAATATTGATATGGGCTAAGGCCCAGTTAACTCTGAT
1 TGTAATAGGGCTACGGCCCAGATTAATACTGACATGGGCTAAGGCCCAGTTAACTCTGAT
53553240 TTCTAAATTG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
60 28 0.54
61 22 0.42
62 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (62 bp):
TGTAATAGGGCTACGGCCCAGATTAATACTGACATGGGCTAAGGCCCAGTTAACTCTGATAC
Found at i:53554725 original size:41 final size:40
Alignment explanation
Indices: 53554680--53554757 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
53554670 TTTCATATCT
*
53554680 GAAGCTATTTCAATCTCACACACTAAGTGCCACATATAGCC
1 GAAGCTATTTCAA-CACACACACTAAGTGCCACATATAGCC
* * *
53554721 GAAGCTATTTCGAGACGCACACTAAGTGCCACATATA
1 GAAGCTATTTCAACACACACACTAAGTGCCACATATA
53554758 TTCGATTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
40 21 0.64
41 12 0.36
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (40 bp):
GAAGCTATTTCAACACACACACTAAGTGCCACATATAGCC
Found at i:53555298 original size:322 final size:322
Alignment explanation
Indices: 53554696--53555335 Score: 957
Period size: 322 Copynumber: 2.0 Consensus size: 322
53554686 ATTTCAATCT
* *
53554696 CACACACTAAGTGCCACATATAGCCGAAGCTATTTCGAGACGCACACTAAGTGCCACATATATTC
1 CACACACTAAGTGCCACATATAGCCGAAGCTATTTCAAGACGCACACTAAGTGCCACATATAGTC
* * *
53554761 GATTCATCGTCGTACGCAACCATCATTTTATATATATAATTTATGCACTATTAAAGCATTAAAAC
66 GATTCATCATCGTACGCAACCATCATTTCATATATATAATTTATGCACTATTAAAACATTAAAAC
* * * *
53554826 ATAATTGTAACAATGTTTAACATGTACGAACTTACCTCGGACTTAAAAATGCAAAACTAGCTGAT
131 ATAATTGTAACAATGTTTAACACGTACGAACTTACCTCGAACGTAAAAACGCAAAACTAGCTGAT
*
53554891 TAGTCAAATACTTTGTTCTTACCTCGATCTAAGTCCGAGTTCCTCTTATATTGATCTATATACAT
196 TAGTCAAATACTTTGTTCTTACCTCAATCTAAGTCCGAGTTCCTCTTATATTGATCTATATACAT
* *
53554956 TCGAAATTAACACTTTTATTCATCAACACATTCAATTTAGTCCACAAACACATATTTAAAAA
261 TCAAAATTAACACTTTTATTCATCAACACATTCAATTTAGTACACAAACACATATTTAAAAA
**
53555018 CACACACTAAGTGCC-TTTCATAGCCGAAGCTATTTCAAGACGCACACTAAGTGCCACATATAGT
1 CACACACTAAGTGCCACAT-ATAGCCGAAGCTATTTCAAGACGCACACTAAGTGCCACATATAGT
** *
53555082 CGATTTGTCATCGTACGCAACCATCGTTTCATATATATAATTTATGCACTATTAAAACATTAAAA
65 CGATTCATCATCGTACGCAACCATCATTTCATATATATAATTTATGCACTATTAAAACATTAAAA
*
53555147 CATAATTGTGAA-AATGTTTAACACGTACGAACTTACCTCGAACGTAAAAACGACGAAACTAG-T
130 CATAATTGT-AACAATGTTTAACACGTACGAACTTACCTCGAACGTAAAAACG-CAAAACTAGCT
* * * * * * * *
53555210 CGATTAGTCGAGTGCTTTGTTCTTGCCTTAATCTAAGTCTGGGTTCCTCTTATCTTGATCTATAT
193 -GATTAGTCAAATACTTTGTTCTTACCTCAATCTAAGTCCGAGTTCCTCTTATATTGATCTATAT
*
53555275 ACATTTAAAATTAA-A-TCTTTATTCATCAACACATTCAATTTAGTACACAAACACATATTTA
257 ACATTCAAAATTAACACT-TTTATTCATCAACACATTCAATTTAGTACACAAACACATATTTA
53555336 GGCATTTTTT
Statistics
Matches: 286, Mismatches: 27, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
321 2 0.01
322 207 0.72
323 77 0.27
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.32
Consensus pattern (322 bp):
CACACACTAAGTGCCACATATAGCCGAAGCTATTTCAAGACGCACACTAAGTGCCACATATAGTC
GATTCATCATCGTACGCAACCATCATTTCATATATATAATTTATGCACTATTAAAACATTAAAAC
ATAATTGTAACAATGTTTAACACGTACGAACTTACCTCGAACGTAAAAACGCAAAACTAGCTGAT
TAGTCAAATACTTTGTTCTTACCTCAATCTAAGTCCGAGTTCCTCTTATATTGATCTATATACAT
TCAAAATTAACACTTTTATTCATCAACACATTCAATTTAGTACACAAACACATATTTAAAAA
Found at i:53563584 original size:22 final size:22
Alignment explanation
Indices: 53563556--53563597 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
53563546 CTCACACAAG
53563556 CTGTGAAATAAGTCTACTCATA
1 CTGTGAAATAAGTCTACTCATA
* *
53563578 CTGTGAAATAGGTCTGCTCA
1 CTGTGAAATAAGTCTACTCA
53563598 CACGAGCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (22 bp):
CTGTGAAATAAGTCTACTCATA
Found at i:53573549 original size:14 final size:15
Alignment explanation
Indices: 53573513--53573554 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
53573503 CATTAGTTTC
*
53573513 TTTGTTTTATTTGTT
1 TTTGCTTTATTTGTT
53573528 TTTGCTTTATTTGTT
1 TTTGCTTTATTTGTT
53573543 TTT-CTTTATTTG
1 TTTGCTTTATTTG
53573555 ATTGGGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.07, C:0.05, G:0.12, T:0.76
Consensus pattern (15 bp):
TTTGCTTTATTTGTT
Found at i:53575469 original size:39 final size:39
Alignment explanation
Indices: 53575407--53575481 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
53575397 CATATTACAT
*
53575407 ATATAATCACCTAACATACAAGCATATATCACAATATTC
1 ATATAATCACATAACATACAAGCATATATCACAATATTC
* ** * *
53575446 ATATAATCACATAGCATTTAAGCATATGTCATAATA
1 ATATAATCACATAACATACAAGCATATATCACAATA
53575482 CTTGAAAACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (39 bp):
ATATAATCACATAACATACAAGCATATATCACAATATTC
Found at i:53578949 original size:33 final size:33
Alignment explanation
Indices: 53578912--53578977 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
53578902 GCCATTTCCA
*
53578912 AAGTACTTTTACGAGAGCTATGCTTTTATTTCT
1 AAGTACTTTCACGAGAGCTATGCTTTTATTTCT
53578945 AAGTACTTTCACGAGAGCTATGCTTTTATTTCT
1 AAGTACTTTCACGAGAGCTATGCTTTTATTTCT
53578978 CAACTGTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (33 bp):
AAGTACTTTCACGAGAGCTATGCTTTTATTTCT
Found at i:53583617 original size:15 final size:15
Alignment explanation
Indices: 53583597--53583644 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
53583587 TTTTTAATGT
53583597 ATTAGTAAAGGTTAA
1 ATTAGTAAAGGTTAA
* *
53583612 ATTAGTGAAATGTAAA
1 ATTAGT-AAAGGTTAA
* *
53583628 ATAAGTAAAGATTAA
1 ATTAGTAAAGGTTAA
53583643 AT
1 AT
53583645 AAAGCAAAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (15 bp):
ATTAGTAAAGGTTAA
Found at i:53584605 original size:23 final size:23
Alignment explanation
Indices: 53584555--53584691 Score: 129
Period size: 23 Copynumber: 5.8 Consensus size: 23
53584545 CCGATATATT
*
53584555 AGCTC-GTAAGAGCTTACTATTTTC
1 AGCTCAGT-AGAGCTTACT-GTTTC
*
53584579 AGCTCATTAGAGCTTACTGTTTC
1 AGCTCAGTAGAGCTTACTGTTTC
*
53584602 AGCTC-GTATGAGCTTACCG-TTC
1 AGCTCAGTA-GAGCTTACTGTTTC
*
53584624 AGCTC-GATAGAGCTTACCGTTTC
1 AGCTCAG-TAGAGCTTACTGTTTC
*
53584647 AGCTCAATAGAGCTTACTGTTCATC
1 AGCTCAGTAGAGCTTACTGTT--TC
*
53584672 AGCTCAGGAAGAGCTTACTG
1 AGCTCA-GTAGAGCTTACTG
53584692 ATCATGGCTC
Statistics
Matches: 97, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
22 21 0.22
23 41 0.42
24 15 0.15
25 9 0.09
26 11 0.11
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (23 bp):
AGCTCAGTAGAGCTTACTGTTTC
Found at i:53584638 original size:45 final size:45
Alignment explanation
Indices: 53584576--53584669 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
53584566 GCTTACTATT
* *
53584576 TTCAGCTCATTAGAGCTTACTGTTTCAGCTC-GTATGAGCTTACCG
1 TTCAGCTCATTAGAGCTTACCGTTTCAGCTCAATA-GAGCTTACCG
*
53584621 TTCAGCTCGA-TAGAGCTTACCGTTTCAGCTCAATAGAGCTTACTG
1 TTCAGCTC-ATTAGAGCTTACCGTTTCAGCTCAATAGAGCTTACCG
53584666 TTCA
1 TTCA
53584670 TCAGCTCAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
45 41 0.93
46 3 0.07
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.34
Consensus pattern (45 bp):
TTCAGCTCATTAGAGCTTACCGTTTCAGCTCAATAGAGCTTACCG
Found at i:53584663 original size:68 final size:72
Alignment explanation
Indices: 53584528--53584676 Score: 191
Period size: 68 Copynumber: 2.1 Consensus size: 72
53584518 GGACTCACCA
* * *
53584528 CAGCTCGTATGAGCTTACCGATATATTAGCTCGTAAGAGCTTACTATTTTCAGCTCATTAGAGCT
1 CAGCTCGTATGAGCTTACCG--ATATCAGCTCGTAAGAGCTTACTAGTTTCAGCTCAATAGAGCT
53584593 TACTGTT-T
64 TACTGTTAT
*
53584601 CAGCTCGTATGAGCTTACCG-T-TCAGCTCG-ATAGAGCTTAC-CGTTTCAGCTCAATAGAGCTT
1 CAGCTCGTATGAGCTTACCGATATCAGCTCGTA-AGAGCTTACTAGTTTCAGCTCAATAGAGCTT
53584662 ACTGTTCAT
65 ACTGTT-AT
53584671 CAGCTC
1 CAGCTC
53584677 AGGAAGAGCT
Statistics
Matches: 69, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
68 25 0.36
69 16 0.23
70 8 0.12
73 20 0.29
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (72 bp):
CAGCTCGTATGAGCTTACCGATATCAGCTCGTAAGAGCTTACTAGTTTCAGCTCAATAGAGCTTA
CTGTTAT
Found at i:53592253 original size:19 final size:19
Alignment explanation
Indices: 53592220--53592256 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
53592210 GTTTTATCTG
**
53592220 TGTTTATTTTTGTTTTTAA
1 TGTTTATTTCAGTTTTTAA
53592239 TGTTTATTTCAGTTTTTA
1 TGTTTATTTCAGTTTTTA
53592257 TGCCTTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.11, T:0.70
Consensus pattern (19 bp):
TGTTTATTTCAGTTTTTAA
Found at i:53592914 original size:18 final size:19
Alignment explanation
Indices: 53592892--53592941 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
53592882 TTAAAATCAT
53592892 TAAAAATTATAAAAATATA
1 TAAAAATTATAAAAATATA
** *
53592911 -AAAAATCGTAAAACTATA
1 TAAAAATTATAAAAATATA
53592929 TAAAAATTA-AAAA
1 TAAAAATTATAAAA
53592942 TTTTAAAACA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAAAATTATAAAAATATA
Found at i:53592948 original size:26 final size:28
Alignment explanation
Indices: 53592884--53592954 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
53592874 TTTTATATTT
*
53592884 AAAATCATTAAAAAT-TATAAAAATATAA
1 AAAATC-TTAAAACTATATAAAAATATAA
*
53592912 AAAATCGTAAAACTATATAAAAAT-T-A
1 AAAATCTTAAAACTATATAAAAATATAA
*
53592938 AAAATTTTAAAAC-ATAT
1 AAAATCTTAAAACTATAT
53592955 TGAAGTGCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
25 4 0.11
26 12 0.32
27 7 0.18
28 15 0.39
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (28 bp):
AAAATCTTAAAACTATATAAAAATATAA
Found at i:53593028 original size:17 final size:17
Alignment explanation
Indices: 53592969--53593029 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
53592959 GTGCAAAAGG
* *
53592969 TATAAAAATATAGAAATT
1 TATAAAAATATATAAA-C
53592987 TATTAAAAATAT-TATAAC
1 TA-TAAAAATATATA-AAC
**
53593005 TGGAAAAATATATAAAC
1 TATAAAAATATATAAAC
53593022 TATAAAAA
1 TATAAAAA
53593030 AATAATTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
17 17 0.50
18 6 0.18
19 11 0.32
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (17 bp):
TATAAAAATATATAAAC
Found at i:53593586 original size:18 final size:17
Alignment explanation
Indices: 53593544--53593599 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
53593534 ACTTTTCTAT
53593544 ATTTTTATAATATTTATA-
1 ATTTTTAT-ATATTT-TAC
53593562 ATATTTTATATATCTTTAC
1 AT-TTTTATATAT-TTTAC
*
53593581 ATTTTTCATAAATTTTAC
1 ATTTTT-ATATATTTTAC
53593599 A
1 A
53593600 ATTATTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 18 0.55
19 15 0.45
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTTATATATTTTAC
Found at i:53593653 original size:19 final size:19
Alignment explanation
Indices: 53593608--53593703 Score: 61
Period size: 19 Copynumber: 4.9 Consensus size: 19
53593598 CAATTATTTT
53593608 ATTTTTTATAATTTATATA
1 ATTTTTTATAATTTATATA
* * *
53593627 GTTATTTATTATGTTA-ATA
1 ATTTTTTATAAT-TTATATA
* * *
53593646 ATTTTTTAATATTTTTCTGTA
1 ATTTTTT-ATA-ATTTATATA
*
53593667 ATTTTTTAATAATTTTTA-A
1 ATTTTTT-ATAATTTATATA
* *
53593686 ATTTTTTGTCATTTATAT
1 ATTTTTTATAATTTATAT
53593704 TAAATATTAT
Statistics
Matches: 57, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
18 7 0.12
19 25 0.44
20 11 0.19
21 14 0.25
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (19 bp):
ATTTTTTATAATTTATATA
Found at i:53593656 original size:11 final size:11
Alignment explanation
Indices: 53593640--53593683 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
53593630 ATTTATTATG
53593640 TTAATAATTTT
1 TTAATAATTTT
53593651 TTAAT-ATTTT
1 TTAATAATTTT
*
53593661 TCT-GTAATTTT
1 T-TAATAATTTT
53593672 TTAATAATTTT
1 TTAATAATTTT
53593683 T
1 T
53593684 AAATTTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 8 0.29
11 20 0.71
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (11 bp):
TTAATAATTTT
Found at i:53597622 original size:19 final size:19
Alignment explanation
Indices: 53597598--53597634 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
53597588 TACAAAAATT
*
53597598 AAATACTAATAAATTAATA
1 AAATACTAATAAAATAATA
53597617 AAATACTAATAAAATAAT
1 AAATACTAATAAAATAAT
53597635 TATTAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATACTAATAAAATAATA
Found at i:53603769 original size:29 final size:29
Alignment explanation
Indices: 53603737--53603833 Score: 81
Period size: 29 Copynumber: 3.2 Consensus size: 29
53603727 GAAATTTTAA
53603737 ATTTTTTTATATTTAAAAAATTATTTTTT
1 ATTTTTTTATATTTAAAAAATTATTTTTT
* * *
53603766 ATTTTTTGA-ATTTTAAAGAACT-TTTTTT
1 ATTTTTTTATA-TTTAAAAAATTATTTTTT
* * *
53603794 ATAATTTTTATTTTTAAAAAAAGATAATTTTTT
1 AT-TTTTTTATATTT--AAAAA-ATTATTTTTT
53603827 ATTTTTT
1 ATTTTTT
53603834 AAACATAATT
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
28 9 0.18
29 25 0.49
31 4 0.08
32 5 0.10
33 8 0.16
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (29 bp):
ATTTTTTTATATTTAAAAAATTATTTTTT
Found at i:53604639 original size:10 final size:10
Alignment explanation
Indices: 53604624--53604665 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
53604614 TTAAACTCTT
53604624 AAATATTAAA
1 AAATATTAAA
53604634 AAATATATAAA
1 AAATAT-TAAA
*
53604645 AAAAATTAAA
1 AAATATTAAA
53604655 AAATA-TAAA
1 AAATATTAAA
53604664 AA
1 AA
53604666 GTTCCAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 6 0.21
10 14 0.48
11 9 0.31
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAATATTAAA
Found at i:53609724 original size:93 final size:93
Alignment explanation
Indices: 53609615--53609785 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
53609605 GCCCCTAAGT
* * * *
53609615 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53609680 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
53609708 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53609773 CGAGTTCGGATGC
66 CGAGTTCGGATGC
53609786 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:53609782 original size:46 final size:46
Alignment explanation
Indices: 53609610--53609782 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
53609600 AACCCGCCCC
* * * *
53609610 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
53609656 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
53609704 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
53609749 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53609783 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:53612984 original size:18 final size:18
Alignment explanation
Indices: 53612958--53612996 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
53612948 TTTAAATTGT
*
53612958 TGTTTTTATTATTATATG
1 TGTTATTATTATTATATG
53612976 TGTTATTATTATTATATG
1 TGTTATTATTATTATATG
53612994 TGT
1 TGT
53612997 ATGGAAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (18 bp):
TGTTATTATTATTATATG
Found at i:53613279 original size:44 final size:44
Alignment explanation
Indices: 53613188--53613279 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
53613178 TGTTTAGGGA
* * * *
53613188 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTCGTATTGT
1 TACTTCAACCTTGAGTCGATGAGGCACTATAAGCGTCGTACTAT
**
53613232 TACTTCAACCTTGAGTCGATGAGGCACCT-TGTGCGTCGTACTAT
1 TACTTCAACCTTGAGTCGATGAGGCA-CTATAAGCGTCGTACTAT
53613276 TACT
1 TACT
53613280 GTTACTTCGG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 39 0.95
45 2 0.05
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (44 bp):
TACTTCAACCTTGAGTCGATGAGGCACTATAAGCGTCGTACTAT
Found at i:53619790 original size:27 final size:27
Alignment explanation
Indices: 53619760--53619811 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
53619750 ATATCAGAAT
53619760 ACGTGGCAAAGCCACTAGAACAGTAAA
1 ACGTGGCAAAGCCACTAGAACAGTAAA
*
53619787 ACGTGGCAAAGCCACTAGTACAGTA
1 ACGTGGCAAAGCCACTAGAACAGTA
53619812 CTTCCTCCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.13
Consensus pattern (27 bp):
ACGTGGCAAAGCCACTAGAACAGTAAA
Found at i:53636990 original size:47 final size:47
Alignment explanation
Indices: 53636929--53637323 Score: 664
Period size: 47 Copynumber: 8.4 Consensus size: 47
53636919 CAGCCAAGAC
53636929 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
53636976 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
53637023 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
53637070 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
53637117 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
53637164 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
53637211 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
53637258 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
53637305 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
53637324 TCCCGAAGGG
Statistics
Matches: 331, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 331 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:53637497 original size:37 final size:37
Alignment explanation
Indices: 53637441--53637519 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
53637431 CCGAGCTCTA
* *
53637441 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
53637478 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53637515 AAGAC
1 AAGAC
53637520 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53639423 original size:43 final size:43
Alignment explanation
Indices: 53639375--53639477 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
53639365 TTGGTTTTCA
53639375 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
53639418 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
53639461 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
53639478 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:53639494 original size:29 final size:29
Alignment explanation
Indices: 53639459--53639532 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
53639449 GTTGTGAGAT
* *
53639459 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
53639488 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
53639517 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53639533 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:53639962 original size:39 final size:39
Alignment explanation
Indices: 53639877--53640033 Score: 163
Period size: 39 Copynumber: 4.0 Consensus size: 39
53639867 CTAAGTGACC
* ** * *
53639877 ATATCCGGACTAAGATCCGAAG-GCATTGGTGCGAGTTACT
1 ATATCCGGGCTAA-ATCCGAAGAGCATTCATGCTAGTGA-T
* *
53639917 AAATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGAT
1 ATATCCGGGCTAAATCCGAAGAGCATTCATGCTAGTGAT
* * *
53639956 GTATCCGGGCTAATTCCGAAGAGCATTCGTGCTAGTGAT
1 ATATCCGGGCTAAATCCGAAGAGCATTCATGCTAGTGAT
* * *
53639995 ATATCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 ATATCCGGGCTAAAT-CCGAAGAGCATTCATGCTAGTGA
53640034 CGTGTATTCG
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
39 55 0.56
40 43 0.44
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAATCCGAAGAGCATTCATGCTAGTGAT
Found at i:53640015 original size:79 final size:79
Alignment explanation
Indices: 53639878--53640033 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
53639868 TAAGTGACCA
* * * *
53639878 TATCCGGACTAAGATCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGAGCAT
1 TATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGCTAAATCCGAAGAGCAA
53639943 TCATGCTAGTGATG
66 TCATGCTAGTGATG
* * * * *
53639957 TATCCGGGCTAA-TTCCGAAGAGCATTCGTGCTAGTGA-TATATCCGTGCTAAATCCCGAAGAGC
1 TATCCGGACTAAGATCCGAAG-GCATTCGTGCGAGTGACTAAATCCGGGCTAAAT-CCGAAGAGC
*
53640020 AATCATGCTGGTGA
64 AATCATGCTAGTGA
53640034 CGTGTATTCG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
78 20 0.31
79 45 0.69
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
TATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTGACTAAATCCGGGCTAAATCCGAAGAGCAA
TCATGCTAGTGATG
Found at i:53643468 original size:47 final size:47
Alignment explanation
Indices: 53643407--53643847 Score: 731
Period size: 47 Copynumber: 9.4 Consensus size: 47
53643397 CAGCCAAGAC
*
53643407 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
53643454 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
53643501 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
53643548 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
53643595 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
53643642 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
53643689 AGTGTATATATGTAATAAGGCCTAAT-GGCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
53643735 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * *
53643782 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
53643829 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
53643848 TCCCGAAGGG
Statistics
Matches: 373, Mismatches: 20, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 44 0.12
47 329 0.88
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:53644022 original size:37 final size:37
Alignment explanation
Indices: 53643966--53644044 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
53643956 CCGAGCTCTA
* *
53643966 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
53644003 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53644040 AAGAC
1 AAGAC
53644045 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53647507 original size:6 final size:6
Alignment explanation
Indices: 53647486--53647525 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
53647476 GTTTAAAGAC
* *
53647486 TTTTTA TTTATTA TTTTTA TTTTTA CTTTTA TCTTTA TTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
53647526 ATCTTCTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:53652573 original size:44 final size:44
Alignment explanation
Indices: 53652493--53652584 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 44
53652483 TGTTCAGGGA
* * *
53652493 TACTTCGACCTTGAGTTGATGAGACACTATAAGTGTCGTACTGT
1 TACTTCAACCTTGAGTCGATGAGACACTATAAGTGTCATACTGT
* * ** *
53652537 TACTTCAACCTTGAGTCGATGAGGCACTTTGTGTGTCATATTGT
1 TACTTCAACCTTGAGTCGATGAGACACTATAAGTGTCATACTGT
53652581 TACT
1 TACT
53652585 GTTACTTCGG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (44 bp):
TACTTCAACCTTGAGTCGATGAGACACTATAAGTGTCATACTGT
Found at i:53652751 original size:8 final size:8
Alignment explanation
Indices: 53652738--53652764 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
53652728 AAACTTTTGC
53652738 ACTGAATG
1 ACTGAATG
53652746 ACTGAATG
1 ACTGAATG
53652754 ACTGAATG
1 ACTGAATG
53652762 ACT
1 ACT
53652765 ATATTACTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (8 bp):
ACTGAATG
Found at i:53658651 original size:22 final size:19
Alignment explanation
Indices: 53658612--53658653 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
53658602 TGCAAAGTTG
53658612 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
53658631 ATAATATATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
53658653 A
1 A
53658654 ATTATCATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:53668011 original size:40 final size:40
Alignment explanation
Indices: 53667966--53668042 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
53667956 ACACACTATG
53667966 TGGGGATAAAATCAACCCACCC-AGCCCTACACACCAAGTA
1 TGGGGATAAAATCAACCCACCCGA-CCCTACACACCAAGTA
*
53668006 TGGGGATAAAATCAACCCATCCGACCCTACACACCAA
1 TGGGGATAAAATCAACCCACCCGACCCTACACACCAA
53668043 ATGGTACCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 34 0.97
41 1 0.03
ACGTcount: A:0.38, C:0.35, G:0.14, T:0.13
Consensus pattern (40 bp):
TGGGGATAAAATCAACCCACCCGACCCTACACACCAAGTA
Found at i:53677313 original size:12 final size:12
Alignment explanation
Indices: 53677292--53677326 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
53677282 AAAAGTAATC
53677292 AAAATTAATTAT
1 AAAATTAATTAT
*
53677304 AAAGTTAATTAT
1 AAAATTAATTAT
53677316 AAAATTAATTA
1 AAAATTAATTA
53677327 AAATTCAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (12 bp):
AAAATTAATTAT
Found at i:53682313 original size:56 final size:56
Alignment explanation
Indices: 53682227--53682346 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
53682217 ACAAGGGATG
53682227 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
53682283 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
53682339 ATGGGCAA
1 ATGGGCAA
53682347 TAAACTCATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:53683906 original size:47 final size:47
Alignment explanation
Indices: 53683852--53684209 Score: 526
Period size: 47 Copynumber: 7.6 Consensus size: 47
53683842 TATTTGAATA
*
53683852 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
53683899 AATGTGAA-AGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53683948 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53683995 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53684042 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
53684089 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
53684136 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
53684183 GATGTGGAA-GTGTATAAATGTGATAAG
1 AATGT-GAACATGTATATATGTGATAAG
53684210 TCCCGAAGGG
Statistics
Matches: 286, Mismatches: 20, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 237 0.83
48 3 0.01
49 44 0.15
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
AATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:53684087 original size:22 final size:22
Alignment explanation
Indices: 53684060--53684181 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
53684050 CATGTGTATG
53684060 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
53684082 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
53684107 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
53684129 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
53684154 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
53684176 TGTGAT
1 TGTGAT
53684182 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:53686592 original size:39 final size:40
Alignment explanation
Indices: 53686491--53686754 Score: 227
Period size: 40 Copynumber: 6.6 Consensus size: 40
53686481 TCGAATGATG
* * *
53686491 TCCGGGCTAAGTCCCGAAGGC-TTTGTTGTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCAAGTTACTATA
* *
53686531 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTATA
53686570 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
* ** * * *
53686610 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTA
1 TCCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA
** * * *
53686650 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTA
1 TCCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA
** * * *
53686690 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTA
1 TCCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA
53686730 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
53686755 CATGTGAAAG
Statistics
Matches: 203, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
39 35 0.17
40 151 0.74
41 17 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA
Found at i:53686634 original size:80 final size:80
Alignment explanation
Indices: 53686491--53686754 Score: 288
Period size: 80 Copynumber: 3.3 Consensus size: 80
53686481 TCGAATGATG
* * *
53686491 TCCGGGCTAAGTCCCGAAGGC-TTTGTTGTAAGTGACCATATCCGGACTAAGAT-CCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGGCATTTG-TGCAAGTGACTATATCCGGGCTAAG-TCCCGAAGAGCA
** *
53686553 TTTGTGCGAGTTACTA-A
64 TTCATGCGAGTGA-TATA
* *
53686570 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGAGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGAGCAT
* *
53686634 TCATGCTAGTGATGTA
65 TCATGCGAGTGATATA
** * *
53686650 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAGTCCCGAAGAGCAT
1 TCCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGAGCAT
* *
53686714 TCATGCTAGTGATGTA
65 TCATGCGAGTGATATA
53686730 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
53686755 CATGTGAAAG
Statistics
Matches: 162, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 47 0.29
80 102 0.63
81 12 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGAGCATT
CATGCGAGTGATATA
Found at i:53686655 original size:40 final size:40
Alignment explanation
Indices: 53686571--53686758 Score: 299
Period size: 40 Copynumber: 4.7 Consensus size: 40
53686561 AGTTACTAAT
** * * *
53686571 TCCGGGCTAAG-CCCGAAG-GCATTTGTGCAAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTA
*
53686610 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
53686650 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
53686690 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
53686730 TCCGGGCTAAGTCCCGAAGAGCATTCATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATG
53686759 TGAAAGCCCT
Statistics
Matches: 140, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 10 0.07
40 118 0.84
41 12 0.09
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
Found at i:53689398 original size:47 final size:46
Alignment explanation
Indices: 53689346--53689653 Score: 392
Period size: 47 Copynumber: 6.6 Consensus size: 46
53689336 GATAATTGTG
* *
53689346 ATGTGAATGTATATATATGTGATAAGGCCTAATGCCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATG-CCGATGTGATGA
*
53689393 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTAATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGA
*
53689440 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGA
53689487 ATGTGAAAGTGTATA-ATGTGATTAAGGCCTAATAGCCGATGTGTGATGA
1 ATGTGAAAGTGTATATATGTGA-TAAGGCCTAAT-GCCGA--TGTGATGA
*
53689536 ATGTGAAAGTGTATATA-GTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGA
* * **
53689582 ATGTGAAAGTGTATATATGTGA-CAGAGCCTGAGTGGCC-AACTGATG-
1 ATGTGAAAGTGTATATATGTGATAAG-GCCT-AAT-GCCGATGTGATGA
*
53689628 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
53689654 TCCCGAAGGG
Statistics
Matches: 236, Mismatches: 16, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
46 54 0.23
47 132 0.56
48 22 0.09
49 27 0.11
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (46 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGA
Found at i:53689446 original size:94 final size:96
Alignment explanation
Indices: 53689346--53689603 Score: 434
Period size: 94 Copynumber: 2.7 Consensus size: 96
53689336 GATAATTGTG
* * * *
53689346 ATGTGAATGTATATATATGTGATAAGGCCTAATGCCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
53689411 GTGA-TAAGGCCTAATAGCCGA-TGTAATGA
66 GTGATTAAGGCCTAATAGCCGAGTGTAATGA
53689440 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA-AT
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
53689504 GTGATTAAGGCCTAATAGCCGATGTGTGATGA
66 GTGATTAAGGCCTAATAGCCGA-GTGTAATGA
53689536 ATGTGAAAGTGTATATA-GTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
53689600 GTGA
66 GTGA
53689604 CAGAGCCTGA
Statistics
Matches: 155, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
93 6 0.04
94 75 0.48
95 44 0.28
96 30 0.19
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.31
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATTAAGGCCTAATAGCCGAGTGTAATGA
Found at i:53689596 original size:142 final size:140
Alignment explanation
Indices: 53689344--53689650 Score: 426
Period size: 142 Copynumber: 2.2 Consensus size: 140
53689334 TGGATAATTG
* *
53689344 TGATGTGAATGTATATATATGTGA-TAAGGCCTAATGCCCGATGTGATGAATGTGAAAGTGTATA
1 TGATGTGAAAGTGTATA-ATGTGATTAAGGCCTAATGCCCGATGTGATGAATGTGAAAGTGTATA
*
53689408 TATGTGATAAGGCCTAATAGCCGATGTAATGAATGTGAAAGTGTATATATGTGA-TGAGGCCT-A
65 TATGTGATAAGGCCTAATAGCCGATGTAATGAATGTGAAAGTGTATATATGTGACAGA-GCCTGA
**
53689471 ATGGCCGATGTGA
129 ATGGCC-AACTGA
53689484 TGAATGTGAAAGTGTATAATGTGATTAAGGCCTAATAG-CCGATGTGTGATGAATGTGAAAGTGT
1 TG-ATGTGAAAGTGTATAATGTGATTAAGGCCTAAT-GCCCGA--TGTGATGAATGTGAAAGTGT
* * *
53689548 ATATA-GTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGAGCCT
62 ATATATGTGATAAGGCCTAATAGCCGATGTAATGAATGTGAAAGTGTATATATGTGACAGAGCCT
*
53689612 GAGTGGCCAACTGA
127 GAATGGCCAACTGA
53689626 TGATGTGAAAGTGTATAAATGTGAT
1 TGATGTGAAAGTGTAT-AATGTGAT
53689651 AAGTCCCGAA
Statistics
Matches: 150, Mismatches: 9, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
140 8 0.05
141 42 0.28
142 67 0.45
143 33 0.22
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (140 bp):
TGATGTGAAAGTGTATAATGTGATTAAGGCCTAATGCCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCGATGTAATGAATGTGAAAGTGTATATATGTGACAGAGCCTGAAT
GGCCAACTGA
Found at i:53694273 original size:44 final size:46
Alignment explanation
Indices: 53694222--53694561 Score: 312
Period size: 44 Copynumber: 7.7 Consensus size: 46
53694212 AGCTATGCCA
*
53694222 GTGATGAATGTAAAGTGTATATATGTGATAAGGCCTAAT-GCC-AT
1 GTGATGAATGTAAAGTGTATATATGTGATAAGGCCGAATGGCCAAT
*
53694266 GTGATGAATGTGAAGTGTATATATAGTGATAAGG--GAAT-G-CAAT
1 GTGATGAATGTAAAGTGTATATAT-GTGATAAGGCCGAATGGCCAAT
* * *
53694309 GTGATGAATGTAAACATGTGTATGTGTGAATAAGG-CGAATGGCCAAT
1 GTGATGAATGTAAA-GTGTATATATGTG-ATAAGGCCGAATGGCCAAT
* *
53694356 GTGATG-ATGTGAAA-TGCA-ATATTGAGATAA-GCCGAATGGCCAAT
1 GTGATGAATGT-AAAGTGTATATA-TGTGATAAGGCCGAATGGCCAAT
*
53694400 GTGATGAATGTGAACA-TG--TATGTGTGATAAGGCCGAATGGCCAAT
1 GTGATGAATGT-AA-AGTGTATATATGTGATAAGGCCGAATGGCCAAT
* *
53694445 GTGATGAATGTAACA-TG--CATATG-AATAAGGCCGAATGGCCAAT
1 GTGATGAATGTAA-AGTGTATATATGTGATAAGGCCGAATGGCCAAT
*
53694488 GTGATGAA-GTGAAGTGTATATATGTGATAAGGCCGAAT-GCC-A-
1 GTGATGAATGTAAAGTGTATATATGTGATAAGGCCGAATGGCCAAT
* * *
53694530 -TGATGGATGTGGAAGTGTATAAATGTGATAAG
1 GTGATGAATGT-AAAGTGTATATATGTGATAAG
53694562 TCCCGAAGGG
Statistics
Matches: 256, Mismatches: 20, Indels: 41
0.81 0.06 0.13
Matches are distributed among these distances:
41 7 0.03
42 8 0.03
43 71 0.28
44 85 0.33
45 64 0.25
46 8 0.03
47 13 0.05
ACGTcount: A:0.35, C:0.09, G:0.29, T:0.28
Consensus pattern (46 bp):
GTGATGAATGTAAAGTGTATATATGTGATAAGGCCGAATGGCCAAT
Found at i:53701452 original size:26 final size:26
Alignment explanation
Indices: 53701423--53701478 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
53701413 TGATAAAAAT
53701423 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53701449 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53701475 TGAT
1 TGAT
53701479 GGGCATTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:53702991 original size:26 final size:26
Alignment explanation
Indices: 53702962--53703014 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
53702952 TTTACAGTTT
53702962 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCCTAGG-GATAAATTGACCAAAA
* *
53702988 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCAAAA
53703014 T
1 T
53703015 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCAAAA
Found at i:53714835 original size:48 final size:48
Alignment explanation
Indices: 53714774--53714894 Score: 172
Period size: 48 Copynumber: 2.5 Consensus size: 48
53714764 AAACCATCTG
*
53714774 ATATGCATGGCCCGAAGTCAAATCAGTATAATACGCAC-CTGAAGTGCTA
1 ATAT-CATGGCCCGAAGCCAAATCAGTATAATACGCACTC-GAAGTGCTA
* *
53714823 ATATCATGGCCCGAAGCCAAATCGGTATAATACTCACTCGAAGTGCTA
1 ATATCATGGCCCGAAGCCAAATCAGTATAATACGCACTCGAAGTGCTA
* *
53714871 ATATCATGGCCTGAAACCAAATCA
1 ATATCATGGCCCGAAGCCAAATCA
53714895 ACGTATCACC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
48 60 0.92
49 5 0.08
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (48 bp):
ATATCATGGCCCGAAGCCAAATCAGTATAATACGCACTCGAAGTGCTA
Found at i:53726958 original size:20 final size:20
Alignment explanation
Indices: 53726933--53726984 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
53726923 TGGGTAAGGG
*
53726933 ACACGGGCGTGTCCCAATGC
1 ACACGGGAGTGTCCCAATGC
53726953 ACACGGGAGTGTCCCAATGC
1 ACACGGGAGTGTCCCAATGC
53726973 ACACGGGAGTGT
1 ACACGGGAGTGT
53726985 GCATTGCCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.23, C:0.29, G:0.33, T:0.15
Consensus pattern (20 bp):
ACACGGGAGTGTCCCAATGC
Found at i:53729114 original size:24 final size:24
Alignment explanation
Indices: 53729082--53729127 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
53729072 ATGAGCTGGG
53729082 AATCAGTAAGCTC-TCACGAGCTAC
1 AATCAGTAAGCTCAT-ACGAGCTAC
*
53729106 AATCGGTAAGCTCATACGAGCT
1 AATCAGTAAGCTCATACGAGCT
53729128 GTGGTGTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (24 bp):
AATCAGTAAGCTCATACGAGCTAC
Found at i:53732262 original size:16 final size:16
Alignment explanation
Indices: 53732241--53732274 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
53732231 CCGGCAAATC
53732241 CCGAAATGTC-GAAAAG
1 CCGAAATG-CGGAAAAG
53732257 CCGAAATGCGGAAAAG
1 CCGAAATGCGGAAAAG
53732273 CC
1 CC
53732275 AAAAGTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.41, C:0.24, G:0.26, T:0.09
Consensus pattern (16 bp):
CCGAAATGCGGAAAAG
Found at i:53732531 original size:28 final size:28
Alignment explanation
Indices: 53732498--53732611 Score: 131
Period size: 28 Copynumber: 4.1 Consensus size: 28
53732488 GACTATGAGC
* *
53732498 GTGATTGGGCCTGACGGGCCATATGAAA
1 GTGATTGGGCCTGATGGGCCATATGAAT
*
53732526 GTGATTAGGCCTGATGGGCCATATGAAT
1 GTGATTGGGCCTGATGGGCCATATGAAT
* **
53732554 GTGATTGGTCCCCATGGGCCATATGAAT
1 GTGATTGGGCCTGATGGGCCATATGAAT
* * *
53732582 GAGATTGGGCCT-AGTGGACCATATGCAT
1 GTGATTGGGCCTGA-TGGGCCATATGAAT
53732610 GT
1 GT
53732612 ATGTAGACTT
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
27 1 0.01
28 71 0.99
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (28 bp):
GTGATTGGGCCTGATGGGCCATATGAAT
Found at i:53738010 original size:23 final size:25
Alignment explanation
Indices: 53737969--53738057 Score: 101
Period size: 27 Copynumber: 3.5 Consensus size: 25
53737959 AATGAAAAGG
* * *
53737969 GCACTATGTGTGCGAATGG-GGC-A
1 GCACTATGTGTGAGTATGGAAGCTA
53737992 GCACTATGTGTGAGTATGGAAAAGCTA
1 GCACTATGTGTGAGTATGG--AAGCTA
53738019 GCACTATGTGTGAGTATGGAAAAGCTA
1 GCACTATGTGTGAGTATGG--AAGCTA
53738046 GCACTATGTGTG
1 GCACTATGTGTG
53738058 TGAATTTATT
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
23 17 0.29
26 2 0.03
27 40 0.68
ACGTcount: A:0.28, C:0.13, G:0.33, T:0.26
Consensus pattern (25 bp):
GCACTATGTGTGAGTATGGAAGCTA
Found at i:53738021 original size:27 final size:27
Alignment explanation
Indices: 53737991--53738057 Score: 134
Period size: 27 Copynumber: 2.5 Consensus size: 27
53737981 CGAATGGGGC
53737991 AGCACTATGTGTGAGTATGGAAAAGCT
1 AGCACTATGTGTGAGTATGGAAAAGCT
53738018 AGCACTATGTGTGAGTATGGAAAAGCT
1 AGCACTATGTGTGAGTATGGAAAAGCT
53738045 AGCACTATGTGTG
1 AGCACTATGTGTG
53738058 TGAATTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.27
Consensus pattern (27 bp):
AGCACTATGTGTGAGTATGGAAAAGCT
Found at i:53741659 original size:22 final size:22
Alignment explanation
Indices: 53741634--53741677 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
53741624 TACAATCCAA
*
53741634 AACCGAATAATAATAA-TAAAAT
1 AACCGAAAAAT-ATAATTAAAAT
*
53741656 AACCTAAAAATATAATTAAAAT
1 AACCGAAAAATATAATTAAAAT
53741678 GAAATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (22 bp):
AACCGAAAAATATAATTAAAAT
Found at i:53745439 original size:42 final size:42
Alignment explanation
Indices: 53745392--53745617 Score: 229
Period size: 42 Copynumber: 5.4 Consensus size: 42
53745382 ACTCAAACCT
** *
53745392 CATGAGCTTAAGTGATAAGTTGCATATCAGCAAAGCTCCCTA
1 CATGAGCTTAAGTGATAAGTTGTGTATCAGCGAAGCTCCCTA
* * *
53745434 CATGAGCTTAAGGGATAAGTTGCGTATCAACGAAGCTCCCTA
1 CATGAGCTTAAGTGATAAGTTGTGTATCAGCGAAGCTCCCTA
* * * * *
53745476 CGTGAGCTTAAGTGACAAGCTGTGTATCAGTGAAGCTCTCTA
1 CATGAGCTTAAGTGATAAGTTGTGTATCAGCGAAGCTCCCTA
** * * * *
53745518 TTTAAGTTTAAGTGAGAAGTTGTGTATCAGTGAAGCTCCCCT-
1 CATGAGCTTAAGTGATAAGTTGTGTATCAGCGAAGCT-CCCTA
* * *
53745560 CATGAGCTTAAGTGACAAGTTGTGTATCAGCAAAGCTCCCGA
1 CATGAGCTTAAGTGATAAGTTGTGTATCAGCGAAGCTCCCTA
***
53745602 TGCGAGCTTAAGTGAT
1 CATGAGCTTAAGTGAT
53745618 TGTGCTCCTT
Statistics
Matches: 151, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
41 3 0.02
42 145 0.96
43 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (42 bp):
CATGAGCTTAAGTGATAAGTTGTGTATCAGCGAAGCTCCCTA
Found at i:53745613 original size:84 final size:83
Alignment explanation
Indices: 53745389--53745616 Score: 258
Period size: 84 Copynumber: 2.7 Consensus size: 83
53745379 CCAACTCAAA
* ** * * *
53745389 CCTCATGAGCTTAAGTGATAAGTTGCATATCAGCAAAGCTCCCTACATGAGCTTAAGGGATAAGT
1 CCTCATGAGCTTAAGTGACAAGTTGTGTATCAGCAAAGCTCCCTATATGAGCTTAAGTGAGAAGT
53745454 TGCGTATCAACGAAGCTC
66 TGCGTATCAACGAAGCTC
* * ** * * * *
53745472 CCTACGTGAGCTTAAGTGACAAGCTGTGTATCAGTGAAGCTCTCTATTTAAGTTTAAGTGAGAAG
1 CCT-CATGAGCTTAAGTGACAAGTTGTGTATCAGCAAAGCTCCCTATATGAGCTTAAGTGAGAAG
* **
53745537 TTGTGTATCAGTGAAGCTCC
65 TTGCGTATCAACGAAGCT-C
* **
53745557 CCTCATGAGCTTAAGTGACAAGTTGTGTATCAGCAAAGCTCCCGATGCGAGCTTAAGTGA
1 CCTCATGAGCTTAAGTGACAAGTTGTGTATCAGCAAAGCTCCCTATATGAGCTTAAGTGA
53745617 TTGTGCTCCT
Statistics
Matches: 116, Mismatches: 27, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
83 3 0.03
84 109 0.94
85 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (83 bp):
CCTCATGAGCTTAAGTGACAAGTTGTGTATCAGCAAAGCTCCCTATATGAGCTTAAGTGAGAAGT
TGCGTATCAACGAAGCTC
Found at i:53748041 original size:43 final size:41
Alignment explanation
Indices: 53747961--53748041 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 41
53747951 GAAACACATA
* * *
53747961 TATCACATACAATGCCATATCCCAGATATGGTTTTACATGT
1 TATCACATACAATGCCATATCCCAGACAGGGTCTTACATGT
* *
53748002 TATCACATATCGATGCCTATGTCCCAGACAGGGTCTTACA
1 TATCACATA-CAATGCC-ATATCCCAGACAGGGTCTTACA
53748042 CGAATCCATA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 9 0.27
42 6 0.18
43 18 0.55
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (41 bp):
TATCACATACAATGCCATATCCCAGACAGGGTCTTACATGT
Found at i:53748081 original size:24 final size:24
Alignment explanation
Indices: 53748049--53748095 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
53748039 ACACGAATCC
53748049 ATATCACATACAATGCCATGTCCT
1 ATATCACATACAATGCCATGTCCT
53748073 ATATCACATACAATGCCATGTCC
1 ATATCACATACAATGCCATGTCC
53748096 CAGATATGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.30, G:0.09, T:0.28
Consensus pattern (24 bp):
ATATCACATACAATGCCATGTCCT
Found at i:53756861 original size:30 final size:28
Alignment explanation
Indices: 53756827--53756893 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
53756817 TCAAATCATC
* *
53756827 AAAATTAATATCAAGTGATAAAATTTAAT
1 AAAATTAAAATCAA-TGACAAAATTTAAT
*
53756856 AAAAATTAAAATTAATGACAAAATTTAAT
1 -AAAATTAAAATCAATGACAAAATTTAAT
53756885 AAAATTAAA
1 AAAATTAAA
53756894 GCTTAGTGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 9 0.26
29 13 0.38
30 12 0.35
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.31
Consensus pattern (28 bp):
AAAATTAAAATCAATGACAAAATTTAAT
Found at i:53760183 original size:4 final size:4
Alignment explanation
Indices: 53760174--53760199 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
53760164 TTCTCAAGGA
53760174 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
53760200 TTAAGGATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Done.