Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 25 of 163
Found at i:6714871 original size:17 final size:17
Alignment explanation
Indices: 6714787--6714868 Score: 70
Period size: 17 Copynumber: 5.0 Consensus size: 17
6714777 TTTTTAAATT
6714787 TAAATTAAATTTAAAAA
1 TAAATTAAATTTAAAAA
*
6714804 TAAATTTAAA-TTCAAAA
1 TAAA-TTAAATTTAAAAA
6714821 TAAATTTAAA-TT-----
1 TAAA-TTAAATTTAAAAA
6714833 TAAATTAAATTTAAAAA
1 TAAATTAAATTTAAAAA
6714850 TAAATTAAAATTTTAAAAA
1 TAAATT-AAA-TTTAAAAA
6714869 AATGAGTCCA
Statistics
Matches: 55, Mismatches: 1, Indels: 16
0.76 0.01 0.22
Matches are distributed among these distances:
11 5 0.09
12 6 0.11
17 28 0.51
18 8 0.15
19 8 0.15
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATTAAATTTAAAAA
Found at i:6719709 original size:2 final size:2
Alignment explanation
Indices: 6719702--6719742 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
6719692 GCAATGCAAA
* * *
6719702 AT AT AT AT AT AT AC AT AT AT AT AT AT AC AT AA 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 AT A
6719743 CTAAAACATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:6719721 original size:14 final size:14
Alignment explanation
Indices: 6719702--6719743 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
6719692 GCAATGCAAA
6719702 ATATATATATATAC
1 ATATATATATATAC
6719716 ATATATATATATAC
1 ATATATATATATAC
*
6719730 ATAAATATATATAC
1 ATATATATATATAC
6719744 TAAAACATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:6737037 original size:23 final size:23
Alignment explanation
Indices: 6737001--6737168 Score: 109
Period size: 23 Copynumber: 7.4 Consensus size: 23
6736991 AGTGCTGGGT
6737001 AACAGAG-GACACACAAAGTGCTA
1 AACAGAGAG-CACACAAAGTGCTA
*
6737024 AACAGAGAGTACACAAA--G-T-
1 AACAGAGAGCACACAAAGTGCTA
*
6737043 -AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
** * **
6737063 GTCAGAGAGCATATGAAGTGCTAA
1 AACAGAGAGCACACAAAGTGCT-A
*
6737087 TAACAGAGAGCACACGAAGTGCTAA
1 -AACAGAGAGCACACAAAGTGCT-A
* * *
6737112 TAATAGAGAGCACATACAGTGCTA
1 -AACAGAGAGCACACAAAGTGCTA
* *
6737136 ATCAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
6737159 ATCAGAGAGC
1 AACAGAGAGC
6737169 GCGCTAGTGT
Statistics
Matches: 116, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
16 10 0.09
18 3 0.03
19 1 0.01
20 1 0.01
21 2 0.02
23 57 0.49
24 3 0.03
25 39 0.34
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:6737105 original size:25 final size:23
Alignment explanation
Indices: 6737046--6737168 Score: 124
Period size: 23 Copynumber: 5.2 Consensus size: 23
6737036 ACAAAGTACT
* *
6737046 GAGCACACAAAGTGCTAGTCAGA
1 GAGCACACGAAGTGCTAATCAGA
* *
6737069 GAGCATATGAAGTGCTAATAACAGA
1 GAGCACACGAAGTGCTAAT--CAGA
*
6737094 GAGCACACGAAGTGCTAATAATAGA
1 GAGCACACGAAGTGCTAAT--CAGA
*
6737119 GAGCACA-TACAGTGCTAATCAGA
1 GAGCACACGA-AGTGCTAATCAGA
6737142 GAGCACAC-ACAGTGCTAATCAGA
1 GAGCACACGA-AGTGCTAATCAGA
6737165 GAGC
1 GAGC
6737169 GCGCTAGTGT
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
23 44 0.51
24 1 0.01
25 42 0.48
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (23 bp):
GAGCACACGAAGTGCTAATCAGA
Found at i:6737136 original size:50 final size:48
Alignment explanation
Indices: 6737066--6737160 Score: 131
Period size: 48 Copynumber: 1.9 Consensus size: 48
6737056 AGTGCTAGTC
*
6737066 AGAGAGCATATGAAGTGCTAATAACAGAGAGCACACGA-AGTGCTAATAAT
1 AGAGAGCACATGAAGTGCTAAT--CAGAGAGCACAC-ACAGTGCTAATAAT
6737116 AGAGAGCACAT-ACAGTGCTAATCAGAGAGCACACACAGTGCTAAT
1 AGAGAGCACATGA-AGTGCTAATCAGAGAGCACACACAGTGCTAAT
6737161 CAGAGAGCGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
47 1 0.02
48 21 0.50
49 1 0.02
50 19 0.45
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (48 bp):
AGAGAGCACATGAAGTGCTAATCAGAGAGCACACACAGTGCTAATAAT
Found at i:6739805 original size:17 final size:17
Alignment explanation
Indices: 6739780--6739821 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
6739770 GAAAAAAGTA
6739780 GTTACAAGAACATGAAAG
1 GTTA-AAGAACATGAAAG
* *
6739798 GTTAAAGAAGATGGAAG
1 GTTAAAGAACATGAAAG
6739815 GTTAAAG
1 GTTAAAG
6739822 GTTAAGGGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.48, C:0.05, G:0.29, T:0.19
Consensus pattern (17 bp):
GTTAAAGAACATGAAAG
Found at i:6744147 original size:28 final size:28
Alignment explanation
Indices: 6744109--6744163 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
6744099 AAATGAGCAT
*
6744109 CATGACCTTTGGGTTAACAAGGAGTAAG
1 CATGACCTTTGGGTCAACAAGGAGTAAG
*
6744137 CATGACCTTTGGGTCAACAGGGAGTAA
1 CATGACCTTTGGGTCAACAAGGAGTAA
6744164 ATCGAATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (28 bp):
CATGACCTTTGGGTCAACAAGGAGTAAG
Found at i:6744915 original size:21 final size:21
Alignment explanation
Indices: 6744889--6744933 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6744879 TTTAGCATCA
*
6744889 GTAGAAG-CATGACATGTTTCG
1 GTAGAAGTCAT-ACATGTATCG
*
6744910 GTAGAAGTCATACTTGTATCG
1 GTAGAAGTCATACATGTATCG
6744931 GTA
1 GTA
6744934 AAATTGTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (21 bp):
GTAGAAGTCATACATGTATCG
Found at i:6751497 original size:18 final size:16
Alignment explanation
Indices: 6751466--6751507 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 16
6751456 TTTAAATTGT
6751466 ATATTTTTTATTTTTA
1 ATATTTTTTATTTTTA
6751482 ATATTTTATGTATTTTTTA
1 ATATTTT-T-TA-TTTTTA
6751501 A-ATTTTT
1 ATATTTTT
6751508 ATATAGTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 7 0.30
17 2 0.09
18 7 0.30
19 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (16 bp):
ATATTTTTTATTTTTA
Found at i:6752610 original size:18 final size:17
Alignment explanation
Indices: 6752589--6752636 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
6752579 AGCAAGAAAC
*
6752589 AAAAAGAAAAAGGAAAAT
1 AAAAAGAAAAA-CAAAAT
6752607 AAAAATGAAAAACAAAAT
1 AAAAA-GAAAAACAAAAT
6752625 AAAAA-AAAAACA
1 AAAAAGAAAAACA
6752637 CCACATTGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 7 0.25
18 15 0.54
19 6 0.21
ACGTcount: A:0.81, C:0.04, G:0.08, T:0.06
Consensus pattern (17 bp):
AAAAAGAAAAACAAAAT
Found at i:6771060 original size:5 final size:6
Alignment explanation
Indices: 6771043--6771070 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6771033 ACAAGTTCTG
6771043 CTCCCC CTCCCC CTCCCC CTCCCC CTCC
1 CTCCCC CTCCCC CTCCCC CTCCCC CTCC
6771071 ACATCCCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.82, G:0.00, T:0.18
Consensus pattern (6 bp):
CTCCCC
Found at i:6771077 original size:18 final size:18
Alignment explanation
Indices: 6771043--6771077 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6771033 ACAAGTTCTG
* *
6771043 CTCCCCCTCCCCCTCCCC
1 CTCCCCCTCCACATCCCC
6771061 CTCCCCCTCCACATCCC
1 CTCCCCCTCCACATCCC
6771078 AATCCCTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.77, G:0.00, T:0.17
Consensus pattern (18 bp):
CTCCCCCTCCACATCCCC
Found at i:6775179 original size:7 final size:7
Alignment explanation
Indices: 6775167--6775196 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
6775157 ACAAATTAAA
6775167 TTTTGAT
1 TTTTGAT
6775174 TTTTGAT
1 TTTTGAT
6775181 TTTTGAT
1 TTTTGAT
6775188 TTTTGAT
1 TTTTGAT
6775195 TT
1 TT
6775197 ATTAAATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (7 bp):
TTTTGAT
Found at i:6775252 original size:11 final size:11
Alignment explanation
Indices: 6775236--6775261 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6775226 ATAATCATGA
6775236 TATGAAATGGT
1 TATGAAATGGT
6775247 TATGAAATGGT
1 TATGAAATGGT
6775258 TATG
1 TATG
6775262 CCACACTCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.27, T:0.38
Consensus pattern (11 bp):
TATGAAATGGT
Found at i:6785159 original size:91 final size:91
Alignment explanation
Indices: 6785053--6785235 Score: 366
Period size: 91 Copynumber: 2.0 Consensus size: 91
6785043 TAATAATAAA
6785053 TTTGATATTTAATATTTATATATTTTATCAATTTATTCTTATTTTTTTAATTAAATTTGTTCTTT
1 TTTGATATTTAATATTTATATATTTTATCAATTTATTCTTATTTTTTTAATTAAATTTGTTCTTT
6785118 AAATTTTTAAAAAAATTGAATTTAAC
66 AAATTTTTAAAAAAATTGAATTTAAC
6785144 TTTGATATTTAATATTTATATATTTTATCAATTTATTCTTATTTTTTTAATTAAATTTGTTCTTT
1 TTTGATATTTAATATTTATATATTTTATCAATTTATTCTTATTTTTTTAATTAAATTTGTTCTTT
6785209 AAATTTTTAAAAAAATTGAATTTAAC
66 AAATTTTTAAAAAAATTGAATTTAAC
6785235 T
1 T
6785236 ATCAATACTT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (91 bp):
TTTGATATTTAATATTTATATATTTTATCAATTTATTCTTATTTTTTTAATTAAATTTGTTCTTT
AAATTTTTAAAAAAATTGAATTTAAC
Found at i:6785527 original size:31 final size:30
Alignment explanation
Indices: 6785484--6785541 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
6785474 GGTCTAATAA
*
6785484 AAAAAATTATTTAGGACTTTTAAAATTTTT
1 AAAAAATTATTTAGGACTTTAAAAATTTTT
* *
6785514 AAAAATTTAATTTAGTACTTTAAAAATT
1 AAAAAATT-ATTTAGGACTTTAAAAATT
6785542 ATAAAGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (30 bp):
AAAAAATTATTTAGGACTTTAAAAATTTTT
Found at i:6811048 original size:344 final size:345
Alignment explanation
Indices: 6810421--6811115 Score: 1266
Period size: 344 Copynumber: 2.0 Consensus size: 345
6810411 AGATGATGTA
*
6810421 CTAAGACTATTATCTTTTGCATGCAATTCAAAAGGTGATTACATGAATCAACTGGACTAAACTCT
1 CTAAGACTATTATCTATTGCATGCAATTCAAAAGGTGATTACATGAATCAACTGGACTAAACTCT
*
6810486 AAATTGTAGGTAAGTTAGAAACATGAAAGTCTATCGACTAACATACTAAGATTATTATCTATAAG
66 AAATTGTAGGTAAGTTAGAAACATGAAAGTCTAACGACTAACATACTAAGATTATTATCTATAAG
6810551 ATGCCATCTTTTAAAGATGGTTAAATGAACCAATCTAAATTAAACCATGGGTTCATTTTTCTTGT
131 ATGCCATCTTTTAAAGATGGTTAAATGAACCAATCTAAATTAAACCATGGGTTCATTTTTCTTGT
* * *
6810616 CCTTTTTTCAAGAGAAAAAAGAAGCCTGAATTCTTATTGAGTTTTTCTAGCTCCCATGAAAGACG
196 CCTTTTTTCAAGAGAAAAAAGAAGCATGAATTCTTATTGAGCTTTTCTAGCTCCCATGAAAGACA
6810681 ACAAATTAAGACTACCATGGGATACTACC-TTTTTGAGAGTGGTTACAAGAACCAATAGGATTAA
261 ACAAATTAAGACTACCATGGGATACTACCTTTTTTGAGAGTGGTTACAAGAACCAATAGGATTAA
6810745 ACGAGGTCACTTCGTTTGTC
326 ACGAGGTCACTTCGTTTGTC
* *
6810765 CTAAGACTATTATCTATTGCATGCAATTCAAAAGGTGATTACATGAATCAATTGGATTAAACTCT
1 CTAAGACTATTATCTATTGCATGCAATTCAAAAGGTGATTACATGAATCAACTGGACTAAACTCT
*
6810830 AAATTGTAGGTAAGTTAGAAACATGAAAGTCTAACGACTAACATTCTAAGATTATTATCTATAAG
66 AAATTGTAGGTAAGTTAGAAACATGAAAGTCTAACGACTAACATACTAAGATTATTATCTATAAG
* * *
6810895 ATGCCATCTTTTAAAGATGGTTCAATGAACCAATCTATATTAAACCTTGGGTTCATTTTTCTTGT
131 ATGCCATCTTTTAAAGATGGTTAAATGAACCAATCTAAATTAAACCATGGGTTCATTTTTCTTGT
6810960 CCTTTTTTCAAGAGAAAAAAGAAGCATGAATTCTTATTGAGCTTTTCTAGCTCCCATGAAAGACA
196 CCTTTTTTCAAGAGAAAAAAGAAGCATGAATTCTTATTGAGCTTTTCTAGCTCCCATGAAAGACA
*
6811025 ACATATTAAGACTACCATGGGATACTACCTTTTTTGAGAGTGGTTACAAGAACCAATAGGATTAA
261 ACAAATTAAGACTACCATGGGATACTACCTTTTTTGAGAGTGGTTACAAGAACCAATAGGATTAA
*
6811090 ACGAGTTCACTTCGTTTGTC
326 ACGAGGTCACTTCGTTTGTC
6811110 CTAAGA
1 CTAAGA
6811116 AAAAAAAATG
Statistics
Matches: 337, Mismatches: 13, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
344 277 0.82
345 60 0.18
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (345 bp):
CTAAGACTATTATCTATTGCATGCAATTCAAAAGGTGATTACATGAATCAACTGGACTAAACTCT
AAATTGTAGGTAAGTTAGAAACATGAAAGTCTAACGACTAACATACTAAGATTATTATCTATAAG
ATGCCATCTTTTAAAGATGGTTAAATGAACCAATCTAAATTAAACCATGGGTTCATTTTTCTTGT
CCTTTTTTCAAGAGAAAAAAGAAGCATGAATTCTTATTGAGCTTTTCTAGCTCCCATGAAAGACA
ACAAATTAAGACTACCATGGGATACTACCTTTTTTGAGAGTGGTTACAAGAACCAATAGGATTAA
ACGAGGTCACTTCGTTTGTC
Found at i:6822729 original size:99 final size:99
Alignment explanation
Indices: 6822614--6822808 Score: 390
Period size: 99 Copynumber: 2.0 Consensus size: 99
6822604 TTAGTGTGTT
6822614 TTTTTTTTTCTAATTGTGCAAGTAGATTTTTTTGGGATTTAGTTGTTTTTTTCCAGCATTATGTC
1 TTTTTTTTTCTAATTGTGCAAGTAGATTTTTTTGGGATTTAGTTGTTTTTTTCCAGCATTATGTC
6822679 TAAGGACGAGAAGCTCGTGATTCCAACCGATGTG
66 TAAGGACGAGAAGCTCGTGATTCCAACCGATGTG
6822713 TTTTTTTTTCTAATTGTGCAAGTAGATTTTTTTGGGATTTAGTTGTTTTTTTCCAGCATTATGTC
1 TTTTTTTTTCTAATTGTGCAAGTAGATTTTTTTGGGATTTAGTTGTTTTTTTCCAGCATTATGTC
6822778 TAAGGACGAGAAGCTCGTGATTCCAACCGAT
66 TAAGGACGAGAAGCTCGTGATTCCAACCGAT
6822809 AATCCCTAGT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.45
Consensus pattern (99 bp):
TTTTTTTTTCTAATTGTGCAAGTAGATTTTTTTGGGATTTAGTTGTTTTTTTCCAGCATTATGTC
TAAGGACGAGAAGCTCGTGATTCCAACCGATGTG
Found at i:6823714 original size:22 final size:20
Alignment explanation
Indices: 6823663--6823720 Score: 75
Period size: 18 Copynumber: 2.9 Consensus size: 20
6823653 TACATTAGAG
6823663 TATTCATCTCTAATTTCATA
1 TATTCATCTCTAATTTCATA
*
6823683 T-TT-ATATCTAATTTCATCA
1 TATTCATCTCTAATTTCAT-A
6823702 TGATTCATCTCTAATTTCA
1 T-ATTCATCTCTAATTTCA
6823721 ACACATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 13 0.41
19 4 0.12
20 1 0.03
21 2 0.06
22 12 0.38
ACGTcount: A:0.29, C:0.19, G:0.02, T:0.50
Consensus pattern (20 bp):
TATTCATCTCTAATTTCATA
Found at i:6827826 original size:26 final size:25
Alignment explanation
Indices: 6827792--6827864 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 25
6827782 AAAGAAAATT
6827792 ATTAA-AATATTAAAAATTATGTTA
1 ATTAATAATATTAAAAATTATGTTA
* *
6827816 ATTTAATAATATTAAAAATT-TCTCA
1 A-TTAATAATATTAAAAATTATGTTA
* *
6827841 A-AAATAATATTGAAAATTATGTTA
1 ATTAATAATATTAAAAATTATGTTA
6827865 GAAAAATAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
23 15 0.38
24 4 0.10
25 8 0.20
26 13 0.32
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.41
Consensus pattern (25 bp):
ATTAATAATATTAAAAATTATGTTA
Found at i:6849398 original size:21 final size:24
Alignment explanation
Indices: 6849358--6849402 Score: 69
Period size: 21 Copynumber: 2.0 Consensus size: 24
6849348 TGACAAACAA
6849358 AAATATAAAATTTCATTAAAAATT
1 AAATATAAAATTTCATTAAAAATT
6849382 AAAT-TAAAA-TT-ATTAAAAATT
1 AAATATAAAATTTCATTAAAAATT
6849403 TTGAAAAGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.48
22 2 0.10
23 5 0.24
24 4 0.19
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATATAAAATTTCATTAAAAATT
Found at i:6853828 original size:61 final size:59
Alignment explanation
Indices: 6853659--6853933 Score: 236
Period size: 59 Copynumber: 4.6 Consensus size: 59
6853649 GCTGACACTT
* * * * * * *
6853659 CCTTTTAATCTGATAAAAAA-TCAAA-TTTTTGGGTGTT-GCCATGCAATGGTCAACACTC
1 CCTTTTTA-CTGAAAAAAAATTTAAATTTTTTTGGTGTTGGTCATGCCATGGTCGACAC-C
* * * * *
6853717 CCTTTTTGTCAGATAAAAAATTT-AATTTTTTTGGTGTTGATCATGCCATGGTTGACACC
1 CCTTTTT-ACTGAAAAAAAATTTAAATTTTTTTGGTGTTGGTCATGCCATGGTCGACACC
* * **
6853776 CCTATTTACTGATAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATTACATGGTCGACACC
1 CCTTTTTACTGA-AAAAAAATTT-AAATTTTTTTGGTGTTGGTCATGCCATGGTCGACACC
* * *
6853837 CCTTTTTATCTGAATAAAAATTTAAA-TTTTTGGGTGTTGGTCATGCCATGGCCGACACC
1 CCTTTTTA-CTGAAAAAAAATTTAAATTTTTTTGGTGTTGGTCATGCCATGGTCGACACC
** *
6853896 CCTTTTTTGTCAAATAAAAAATTTGAAATTTTTTTGGT
1 CCTTTTTACT-GAA-AAAAAATTT-AAATTTTTTTGGT
6853934 AAAAAATCAA
Statistics
Matches: 174, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
58 22 0.13
59 65 0.37
60 25 0.14
61 50 0.29
62 12 0.07
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (59 bp):
CCTTTTTACTGAAAAAAAATTTAAATTTTTTTGGTGTTGGTCATGCCATGGTCGACACC
Found at i:6853841 original size:120 final size:120
Alignment explanation
Indices: 6853668--6853933 Score: 303
Period size: 120 Copynumber: 2.2 Consensus size: 120
6853658 TCCTTTTAAT
* * *
6853668 CTGAT-AAAAAA--TCAAA-TTTTTGGGTGTTGCCATGCAATGGTCAACACTCCCTTTTTGTCAG
1 CTGATAAAAAAATTTCAAATTTTTTTGGTGTTGCCATACAATGGTCAACACTCCCTTTTTATCAG
* * **
6853729 -ATAAAAAATTTAATTTTTTTGGTGTTGATCATGCCATGGTTGACACCCCTATTTA
66 AAT-AAAAATTTAAATTTTTGGGTGTTGATCATGCCATGGCCGACACCCCTATTTA
*
6853784 CTGATAAAAAAATTTCAAATTTTTTTGGTGTTGGCCATTAC-ATGGTCGACAC-CCCTTTTTATC
1 CTGATAAAAAAATTTCAAATTTTTTTGGTGTT-GCCA-TACAATGGTCAACACTCCCTTTTTATC
* * * *
6853847 TGAATAAAAATTTAAATTTTTGGGTGTTGGTCATGCCATGGCCGACACCCCTTTTTT
64 AGAATAAAAATTTAAATTTTTGGGTGTTGATCATGCCATGGCCGACACCCCTATTTA
* * * *
6853904 GTCAAATAAAAAATTTGAAATTTTTTTGGT
1 CTGATA-AAAAAATTTCAAATTTTTTTGGT
6853934 AAAAAATCAA
Statistics
Matches: 126, Mismatches: 16, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
116 5 0.04
117 6 0.05
119 5 0.04
120 70 0.56
121 38 0.30
122 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (120 bp):
CTGATAAAAAAATTTCAAATTTTTTTGGTGTTGCCATACAATGGTCAACACTCCCTTTTTATCAG
AATAAAAATTTAAATTTTTGGGTGTTGATCATGCCATGGCCGACACCCCTATTTA
Found at i:6856392 original size:24 final size:24
Alignment explanation
Indices: 6856363--6856420 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
6856353 TGGATCACCT
6856363 AAAACGTTTGAACTTGTTTTGTAA
1 AAAACGTTTGAACTTGTTTTGTAA
6856387 AAAACGTTTGAACTTGTTTTGTAA
1 AAAACGTTTGAACTTGTTTTGTAA
6856411 AAAACGTTTG
1 AAAACGTTTG
6856421 GTCTTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (24 bp):
AAAACGTTTGAACTTGTTTTGTAA
Found at i:6858350 original size:9 final size:9
Alignment explanation
Indices: 6858332--6858390 Score: 57
Period size: 9 Copynumber: 6.2 Consensus size: 9
6858322 GGTGACTCGA
6858332 TTTTATATTT
1 TTTTA-ATTT
6858342 TTTTAATTT
1 TTTTAATTT
6858351 TTTTAATTAT
1 TTTTAATT-T
*
6858361 TATT-ATTT
1 TTTTAATTT
*
6858369 TTCTAATTATT
1 TTTTAA-T-TT
6858380 TTTTAATTT
1 TTTTAATTT
6858389 TT
1 TT
6858391 CAGATGGCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
8 3 0.07
9 20 0.49
10 11 0.27
11 7 0.17
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTAATTT
Found at i:6858530 original size:19 final size:20
Alignment explanation
Indices: 6858506--6858547 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
6858496 TTTTATAATA
*
6858506 TTTTTTTCTATTTTC-AAAT
1 TTTTTTTATATTTTCGAAAT
6858525 TTTTTTTATATTTTCGAAAT
1 TTTTTTTATATTTTCGAAAT
6858545 TTT
1 TTT
6858548 AAAAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTTTATATTTTCGAAAT
Found at i:6858601 original size:21 final size:21
Alignment explanation
Indices: 6858577--6858633 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
6858567 TATTTTTTAC
*
6858577 AAATATTTTTTTACATTTTCG
1 AAATATTTTTTTACATTTTCA
*****
6858598 AAATATAAAAATACATTTTCA
1 AAATATTTTTTTACATTTTCA
6858619 AAATATTTTTTTACA
1 AAATATTTTTTTACA
6858634 AAAAAAAGTT
Statistics
Matches: 25, Mismatches: 11, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (21 bp):
AAATATTTTTTTACATTTTCA
Found at i:6859773 original size:30 final size:30
Alignment explanation
Indices: 6859713--6859780 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
6859703 TCCGTTTACT
* *
6859713 TTTTAAATTTAATTTCTAATTTCTTGTATA
1 TTTTAATTTTAATTTCTAATTTCTTATATA
6859743 TTTTAATTTTAATTTCTAATTT-TCTATATA
1 TTTTAATTTTAATTTCTAATTTCT-TATATA
*
6859773 TTCTAATT
1 TTTTAATT
6859781 ATTATTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 1 0.03
30 33 0.97
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.62
Consensus pattern (30 bp):
TTTTAATTTTAATTTCTAATTTCTTATATA
Found at i:6860800 original size:59 final size:58
Alignment explanation
Indices: 6860583--6860893 Score: 222
Period size: 60 Copynumber: 5.2 Consensus size: 58
6860573 TGAGGGAAAG
* ** * * *
6860583 TTATCAGAT-AAATAGGGGTGTCGATCATGGCATGCCCAACACCCAAAAAATTAAATTTT
1 TTATCAGATAAAAAAGGGGTGTCGGCCATGACATG-CCAACA-CAAAAAAATTTAATTTT
** * * ** *
6860642 TTATTTGACAAAAAAGGGGTGTCGGCCATGACTTGACCAACACCCAAAAATTTGATTTTT
1 TTATCAGATAAAAAAGGGGTGTCGGCCATGACATG-CCAACACAAAAAAATTT-AATTTT
6860702 TTATTCAGAT-AAAAAGGGGTGTCGGCCATTG-CATGGCCAACACAAAAAAATTTAATTTT
1 TTA-TCAGATAAAAAAGGGGTGTCGGCCA-TGACAT-GCCAACACAAAAAAATTTAATTTT
* ** * * * *
6860761 TTATCATATTAAAAAAGGGGTGTAAGCCACGACATGCCAAATACAAAAAAAATTAAATTT
1 TTATCAGA-TAAAAAAGGGGTGTCGGCCATGACATGCC-AACACAAAAAAATTTAATTTT
* * * * *
6860821 TTATC---TAACAATAAGAGGGTGTCGGCCATGATATAACCAACACCAAAAACTTTAA-ATT
1 TTATCAGATAA-AA-AAG-GGGTGTCGGCCATGACAT-GCCAACACAAAAAAATTTAATTTT
6860879 TTATTCAGATAAAAA
1 TTA-TCAGATAAAAA
6860894 TGGGATTTGA
Statistics
Matches: 199, Mismatches: 36, Indels: 33
0.74 0.13 0.12
Matches are distributed among these distances:
56 3 0.02
57 2 0.01
58 12 0.06
59 57 0.29
60 114 0.57
61 8 0.04
62 3 0.02
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (58 bp):
TTATCAGATAAAAAAGGGGTGTCGGCCATGACATGCCAACACAAAAAAATTTAATTTT
Found at i:6860811 original size:120 final size:120
Alignment explanation
Indices: 6860586--6860811 Score: 260
Period size: 120 Copynumber: 1.9 Consensus size: 120
6860576 GGGAAAGTTA
* * * *
6860586 TCAGATAAATAGGGGTGTCGATCATGGCATGCCCAACACCCAAAAAATTAAATTTTTTATTTGAC
1 TCAGATAAAAAGGGGTGTCGACCATGGCATGCCCAACACCAAAAAAATTAAATTTTTTATATGAC
** * * **
6860651 AAAAAAGGGGTGTCGGCCATGACTTGACCAACACCCAAAAATTTGATTTTTTTAT
66 AAAAAAGGGGTGTAAGCCACGACATGACCAACACAAAAAAATTTGATTTTTTTAT
* * * *
6860706 TCAGATAAAAAGGGGTGTCGGCCATTGCATGGCCAACA-CAAAAAAATTTAATTTTTTATCAT-A
1 TCAGATAAAAAGGGGTGTCGACCATGGCATGCCCAACACCAAAAAAATTAAATTTTTTAT-ATGA
* *
6860769 TTAAAAAAGGGGTGTAAGCCACGACATG-CCAAATACAAAAAAA
65 -CAAAAAAGGGGTGTAAGCCACGACATGACC-AACACAAAAAAA
6860812 ATTAAATTTT
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
119 22 0.25
120 65 0.75
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (120 bp):
TCAGATAAAAAGGGGTGTCGACCATGGCATGCCCAACACCAAAAAAATTAAATTTTTTATATGAC
AAAAAAGGGGTGTAAGCCACGACATGACCAACACAAAAAAATTTGATTTTTTTAT
Found at i:6862073 original size:13 final size:13
Alignment explanation
Indices: 6862055--6862098 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
6862045 ATCCTCAGCG
6862055 TAAATTTTAACTT
1 TAAATTTTAACTT
*
6862068 TAAATTTTATATTT
1 TAAATTTTA-ACTT
*
6862082 TATATTTTAATCTT
1 TAAATTTTAA-CTT
6862096 TAA
1 TAA
6862099 TATATTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (13 bp):
TAAATTTTAACTT
Found at i:6867715 original size:52 final size:52
Alignment explanation
Indices: 6867600--6867718 Score: 175
Period size: 52 Copynumber: 2.3 Consensus size: 52
6867590 TAAATGTAAA
* * * *
6867600 AGGTTTGATGATTACGTGTGATCGTGAGTATATGAATCCTTTCCGGATTATG
1 AGGTTTGATGACTACGTGTCATCGTGAGTATACGAATCCTTTACGGATTATG
**
6867652 AGGTCCGATGACTACGTGTCATCGTGAGTATACGAATCCTTTACGGATTATG
1 AGGTTTGATGACTACGTGTCATCGTGAGTATACGAATCCTTTACGGATTATG
*
6867704 AGGTTTAATGACTAC
1 AGGTTTGATGACTAC
6867719 ATAGATTATA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (52 bp):
AGGTTTGATGACTACGTGTCATCGTGAGTATACGAATCCTTTACGGATTATG
Found at i:6869100 original size:43 final size:43
Alignment explanation
Indices: 6868994--6869240 Score: 309
Period size: 43 Copynumber: 5.8 Consensus size: 43
6868984 AAACTCACGG
*
6868994 ATGGTCTTTAGCGGCGTTTTTCCCATAAACGCCGCTAT-GAAC
1 ATGGTCTTTAGCGGCGTTTTTCCCACAAACGCCGCTATAGAAC
* * *
6869036 ATGGTCTTTAGTGGCGTTTTACCTACAAACGCCGCTATAGAAC
1 ATGGTCTTTAGCGGCGTTTTTCCCACAAACGCCGCTATAGAAC
* * * * * *
6869079 ATAGTCTTTAGCGGTGCTTTACCCACAAACGCCGTTATAGAGC
1 ATGGTCTTTAGCGGCGTTTTTCCCACAAACGCCGCTATAGAAC
* *
6869122 ATGGTTTTTAGCGGCGTTTTTCCCACAAACGCCGCTGTAGAAC
1 ATGGTCTTTAGCGGCGTTTTTCCCACAAACGCCGCTATAGAAC
* *
6869165 ATGGTCTTTAGTGGCGCTTTTT-CCACAAACACCGCTATAGAAC
1 ATGGTCTTTAGCGGCG-TTTTTCCCACAAACGCCGCTATAGAAC
* * * *
6869208 ATGATCTTTAACGACGTTTTTCCCATAAACGCC
1 ATGGTCTTTAGCGGCGTTTTTCCCACAAACGCC
6869241 ACTAACATTA
Statistics
Matches: 173, Mismatches: 29, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
42 39 0.23
43 129 0.75
44 5 0.03
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (43 bp):
ATGGTCTTTAGCGGCGTTTTTCCCACAAACGCCGCTATAGAAC
Found at i:6869238 original size:129 final size:128
Alignment explanation
Indices: 6868994--6869240 Score: 354
Period size: 129 Copynumber: 1.9 Consensus size: 128
6868984 AAACTCACGG
*
6868994 ATGGTCTTTAGCGGCGTTTTTCCCATAAACGCCGCTATGAACATGGTCTTTAGTGGCGTTTTACC
1 ATGGTCTTTAGCGGCGTTTTTCCCACAAACGCCGCTATGAACATGGTCTTTAGTGGCGTTTTACC
* * **
6869059 TACAAACGCCGCTATAGAACATAGTCTTTAGCGGTGCTTTACCCACAAACGCCGTTATAGAGC
66 TACAAACACCGCTATAGAACATAGTCTTTAACGACGCTTTACCCACAAACGCCGTTATAGAGC
* * *
6869122 ATGGTTTTTAGCGGCGTTTTTCCCACAAACGCCGCTGTAGAACATGGTCTTTAGTGGCGCTTTTT
1 ATGGTCTTTAGCGGCGTTTTTCCCACAAACGCCGCTAT-GAACATGGTCTTTAGTGGCG-TTTTA
* * *
6869187 CC-ACAAACACCGCTATAGAACAT-GATCTTTAACGACGTTTTTCCCATAAACGCC
64 CCTACAAACACCGCTATAGAACATAG-TCTTTAACGACGCTTTACCCACAAACGCC
6869241 ACTAACATTA
Statistics
Matches: 105, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
128 36 0.34
129 63 0.60
130 6 0.06
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (128 bp):
ATGGTCTTTAGCGGCGTTTTTCCCACAAACGCCGCTATGAACATGGTCTTTAGTGGCGTTTTACC
TACAAACACCGCTATAGAACATAGTCTTTAACGACGCTTTACCCACAAACGCCGTTATAGAGC
Found at i:6876906 original size:19 final size:20
Alignment explanation
Indices: 6876859--6876906 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
6876849 ATTTCAAACG
* *
6876859 AAATTAACAGAAAAATAACA
1 AAATTAAAAGAAAAATAAAA
* *
6876879 AAATAAAAAG-AAACTAAAA
1 AAATTAAAAGAAAAATAAAA
6876898 AAATTAAAA
1 AAATTAAAA
6876907 AGCGAAATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (20 bp):
AAATTAAAAGAAAAATAAAA
Found at i:6877268 original size:23 final size:23
Alignment explanation
Indices: 6877242--6877300 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
6877232 CAAATGGTAG
* * *
6877242 AAGCGTGCCACAAGACGGAGAAA
1 AAGCGTGTCACAAGACAGAAAAA
* *
6877265 AAGCATGTCACAAGGCAGAAAAA
1 AAGCGTGTCACAAGACAGAAAAA
6877288 AAGCGTGTCACAA
1 AAGCGTGTCACAA
6877301 AAACAGATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.46, C:0.20, G:0.25, T:0.08
Consensus pattern (23 bp):
AAGCGTGTCACAAGACAGAAAAA
Found at i:6877307 original size:24 final size:23
Alignment explanation
Indices: 6877262--6877313 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
6877252 CAAGACGGAG
**
6877262 AAAAAGCATGTCACAAGGCAGAA
1 AAAAAGCATGTCACAAAACAGAA
* *
6877285 AAAAAGCGTGTCACAAAAACAGAT
1 AAAAAGCATGTCAC-AAAACAGAA
6877309 AAAAA
1 AAAAA
6877314 TTAGAATACC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.58, C:0.15, G:0.17, T:0.10
Consensus pattern (23 bp):
AAAAAGCATGTCACAAAACAGAA
Found at i:6879651 original size:42 final size:42
Alignment explanation
Indices: 6879604--6879696 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
6879594 TTTAGTCTTC
*
6879604 TGGGTCGCGGGACAGAGATGATTTTAGATTTTGTACTCGTAA
1 TGGGTCGCGGGACAGAGATAATTTTAGATTTTGTACTCGTAA
** * *
6879646 TGGGTCATGGGACAGAGATAATTTTGGATTTTGTACTTGTAA
1 TGGGTCGCGGGACAGAGATAATTTTAGATTTTGTACTCGTAA
*
6879688 CGGGTCGCG
1 TGGGTCGCG
6879697 AGGCGAGGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.33
Consensus pattern (42 bp):
TGGGTCGCGGGACAGAGATAATTTTAGATTTTGTACTCGTAA
Found at i:6882599 original size:24 final size:24
Alignment explanation
Indices: 6882557--6882615 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
6882547 ATCAAATTTG
6882557 TTATTTAACTTTCAACACCTCATAAT
1 TTATTT-A-TTTCAACACCTCATAAT
*
6882583 TTATTTATTTCATCACCTCATAAT
1 TTATTTATTTCAACACCTCATAAT
6882607 TTATTTATT
1 TTATTTATT
6882616 AATCTTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 25 0.78
25 1 0.03
26 6 0.19
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.51
Consensus pattern (24 bp):
TTATTTATTTCAACACCTCATAAT
Found at i:6883275 original size:18 final size:18
Alignment explanation
Indices: 6883233--6883279 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
6883223 GATTTTCGGT
* *
6883233 TTATTCAAATTATTCGAG
1 TTATTCGAATTATTCAAG
6883251 TTATTCGAATTATTCAAG
1 TTATTCGAATTATTCAAG
*
6883269 TTTTTCGAATT
1 TTATTCGAATT
6883280 TAAAAACTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (18 bp):
TTATTCGAATTATTCAAG
Found at i:6885578 original size:65 final size:67
Alignment explanation
Indices: 6885461--6885587 Score: 159
Period size: 65 Copynumber: 1.9 Consensus size: 67
6885451 TATCAATATT
*** *
6885461 TTTAAATATTCTTTTCACACATATATTTAAGGTCTAATTTTTAGTTTATTAATCAATTATATATA
1 TTTAAATATTCTTTTCACACATATATTTAAGGTCTAATTTTTAAAATATTAATAAATTATATATA
6885526 CA
66 CA
* * * * *
6885528 TTTAAATATT-TTTT-ACCCATGTATTTAGGGTTTAATTTTTAAAATCTTAATAAATTATAT
1 TTTAAATATTCTTTTCACACATATATTTAAGGTCTAATTTTTAAAATATTAATAAATTATAT
6885588 TTTTTTTCGA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 37 0.73
66 4 0.08
67 10 0.20
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (67 bp):
TTTAAATATTCTTTTCACACATATATTTAAGGTCTAATTTTTAAAATATTAATAAATTATATATA
CA
Found at i:6887094 original size:35 final size:35
Alignment explanation
Indices: 6887050--6887159 Score: 123
Period size: 35 Copynumber: 3.0 Consensus size: 35
6887040 CACCCCTTAG
6887050 ATCCATCCCTACCAACTACCATGGTCCCATCCCAT
1 ATCCATCCCTACCAACTACCATGGTCCCATCCCAT
* *
6887085 ATCCTTCCCTGCCAACTACCATGGTCCCATCCCACCCCCT
1 ATCCATCCCTACCAACTACCATGGTCCCATCCCA-----T
* *
6887125 ATTCCATCCCTGCCAACTACCATGAT-CCATCCCAT
1 A-TCCATCCCTACCAACTACCATGGTCCCATCCCAT
6887160 TATATCACTC
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
35 33 0.51
40 10 0.15
41 22 0.34
ACGTcount: A:0.23, C:0.47, G:0.06, T:0.24
Consensus pattern (35 bp):
ATCCATCCCTACCAACTACCATGGTCCCATCCCAT
Found at i:6903057 original size:21 final size:23
Alignment explanation
Indices: 6903031--6903076 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
6903021 AAAAGCATCT
*
6903031 AAAATATTA-AATTT-AAAATTA
1 AAAATAATATAATTTAAAAATTA
*
6903052 AAAATAATATATTTTAAAAATTA
1 AAAATAATATAATTTAAAAATTA
6903075 AA
1 AA
6903077 TGGATGAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 4 0.19
23 9 0.43
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAATAATATAATTTAAAAATTA
Found at i:6905340 original size:41 final size:41
Alignment explanation
Indices: 6905290--6905515 Score: 265
Period size: 41 Copynumber: 5.5 Consensus size: 41
6905280 CACCCCACGC
**
6905290 AACTACCATGGTCCCATCCCACCTTCGGATCCA-CCCTTGCG
1 AACTACCATGGTCCCATCCCACCCCCGGATCCATCCC-TGCG
* * *
6905331 AACTGCCATGGTCCCATCTCACCCCCGAATCCATCCCTGCG
1 AACTACCATGGTCCCATCCCACCCCCGGATCCATCCCTGCG
* * *
6905372 AACTACCATGGTCCCATCCTACCTCCAGATCCATCCCTGCG
1 AACTACCATGGTCCCATCCCACCCCCGGATCCATCCCTGCG
* * * * ** * *
6905413 AACTTCTATTGTCCCATCCGACCCTGGGATCCATCCCCGCA
1 AACTACCATGGTCCCATCCCACCCCCGGATCCATCCCTGCG
* **
6905454 AACTACCATGATCCCATCCCACCCCCGGATCCATCCCTATG
1 AACTACCATGGTCCCATCCCACCCCCGGATCCATCCCTGCG
6905495 AACTACCATGGTCCCATCCCA
1 AACTACCATGGTCCCATCCCA
6905516 TTATATCACT
Statistics
Matches: 151, Mismatches: 33, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
41 148 0.98
42 3 0.02
ACGTcount: A:0.22, C:0.44, G:0.13, T:0.21
Consensus pattern (41 bp):
AACTACCATGGTCCCATCCCACCCCCGGATCCATCCCTGCG
Found at i:6907811 original size:15 final size:15
Alignment explanation
Indices: 6907779--6907824 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
6907769 GCATTTAATT
* *
6907779 TTTATTTATTACTT-
1 TTTATTCATTATTTA
6907793 TTTATTCATTATTTA
1 TTTATTCATTATTTA
*
6907808 TTTATTCATTTTTTA
1 TTTATTCATTATTTA
6907823 TT
1 TT
6907825 ATTTACATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTATTCATTATTTA
Found at i:6907891 original size:64 final size:67
Alignment explanation
Indices: 6907801--6907969 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 67
6907791 TTTTTATTCA
** *
6907801 TTATTTATTTATTCATTTTT-TATTATTTACATGC-TTGCTTGTATTTAATTTTTATCAA-T-TG
1 TTATTTATTCGTT-ATTTTTATGTTATTTACAT-CTTTGCTTGTATTTAATTTTTATCAATTATG
6907862 T-TT
64 TATT
*
6907865 TTATTTATTCGTTATTTTTATGTTATTTACATCTTTGCTTGTATTTAATTTTTATTAATTGTCTT
1 TTATTTATTCGTTATTTTTATGTTATTTACATCTTTGCTTGTATTTAATTTTTATCAA------T
6907930 TATGTATT
60 TATGTATT
6907938 TTATTTATTCGTTATTTTTATGTTATTTACAT
1 TTATTTATTCGTTATTTTTATGTTATTTACAT
6907970 TTTACCTTTA
Statistics
Matches: 90, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
63 7 0.08
64 45 0.50
71 1 0.01
72 3 0.03
73 34 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (67 bp):
TTATTTATTCGTTATTTTTATGTTATTTACATCTTTGCTTGTATTTAATTTTTATCAATTATGTA
TT
Found at i:6908013 original size:73 final size:74
Alignment explanation
Indices: 6907862--6908014 Score: 199
Period size: 73 Copynumber: 2.1 Consensus size: 74
6907852 TTATCAATTG
* * *
6907862 TTTTTATTTATTCGTTATTTTTATGTTATTTACATCTTTGCTTGTATTTAATTTTTATTAATTGT
1 TTTTTATTTATTCGTTATTTTTATGTTATTTACATCTTTCCTTGTAATTAATTTTAATTAATTGT
*
6907927 CTTTATGTA
66 ATTTATGTA
6907936 -TTTTATTTATTCGTTATTTTTATGTTATTTACAT-TTTACCTT-TAATTAATTAATTAATTAA-
1 TTTTTATTTATTCGTTATTTTTATGTTATTTACATCTTT-CCTTGTAATTAATT--TTAATTAAT
*
6907997 T-TATTTATTTA
63 TGTATTTATGTA
6908008 TTTTTAT
1 TTTTTAT
6908015 ATGTTGGTAT
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
72 19 0.27
73 44 0.63
74 7 0.10
ACGTcount: A:0.24, C:0.06, G:0.05, T:0.65
Consensus pattern (74 bp):
TTTTTATTTATTCGTTATTTTTATGTTATTTACATCTTTCCTTGTAATTAATTTTAATTAATTGT
ATTTATGTA
Found at i:6908346 original size:17 final size:17
Alignment explanation
Indices: 6908324--6908356 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6908314 TGTTAATAAT
6908324 TGTATTTATTA-TATTTA
1 TGTATTT-TTATTATTTA
6908341 TGTATTTTTATTATTT
1 TGTATTTTTATTATTT
6908357 TGTCATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (17 bp):
TGTATTTTTATTATTTA
Found at i:6909575 original size:21 final size:21
Alignment explanation
Indices: 6909534--6909577 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6909524 TTATGTATTG
* *
6909534 ATTATATTTTATATTATATTT
1 ATTATATTTAATATTAAATTT
6909555 ATTATATTTAAT-TTAAAATTT
1 ATTATATTTAATATT-AAATTT
6909576 AT
1 AT
6909578 ATTTATGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTATATTTAATATTAAATTT
Found at i:6909847 original size:13 final size:14
Alignment explanation
Indices: 6909831--6909867 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
6909821 CATCAATTTA
*
6909831 ATTTAACAATA-AT
1 ATTTAAAAATATAT
6909844 ATTTAAAAATATAT
1 ATTTAAAAATATAT
6909858 A-TTAAAAATA
1 ATTTAAAAATA
6909868 AAAAACATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 19 0.86
14 3 0.14
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
ATTTAAAAATATAT
Found at i:6917230 original size:2 final size:2
Alignment explanation
Indices: 6917225--6917255 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6917215 AAGAGATAAC
6917225 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
6917256 GAAAAGAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6928049 original size:3 final size:3
Alignment explanation
Indices: 6928043--6928071 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6928033 TATAATGATG
6928043 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
6928072 GCTTGAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:6936031 original size:200 final size:198
Alignment explanation
Indices: 6935663--6936319 Score: 940
Period size: 200 Copynumber: 3.3 Consensus size: 198
6935653 GTAGTTCAAC
* *
6935663 AAGACAGCGAATTAAAAAGTGATGCGGTCATCTTCCTGATGAGATATAGAGAAGTATACCAACTC
1 AAGA-AGCGAATTAAAAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTC
*
6935728 AACGCTCAAAGCGAGCAAATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAA
65 AACGCTCAAAGCGAGCAAATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAG
* * *
6935793 CAATAAAATGGTTAGCTTCTTGATGAGATACAGAGAAGTGGACCAAATTCATCTTTCTGAGGAGA
130 CAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTTCTGAGGAGA
6935858 TCCA
195 TCCA
* *
6935862 AAGAAGCGAATTGAAACAAATGAGGCGGTCATCTTCCTGATGAGATGCAGAGAAGTATACCAACT
1 AAGAAGCGAATT-AAA-AAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACT
6935927 CAACGCTCAAAGCGAGCAAATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAA
64 CAACGCTCAAAGCGAGCAAATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAA
6935992 GCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTC-TTCTTGAGGA
129 GCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTTC-TGAGGA
6936056 GATCCA
193 GATCCA
* * * * * * *
6936062 GAGAAGCGAATTAAAAAGTGATGCGGTCATCTTCCTGATGAGACACTGAGAAGAAGACCAAATCA
1 AAGAAGCGAATTAAAAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTC-
* ** * *
6936127 AACCCAGGCTCAATGCGAGCAAATCTTCAAACCGAGCTTCCTGATGAGACACTAAGAAGCAGGTC
65 AA--C--GCTCAAAGCGAGCAAATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTC
* * * *
6936192 GAAGCAAT-AAATGGTTATCTTCCTGATGAGACACTGAGAAGTGGACCAAATTTGTCTTCCTGAG
126 GAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTTCTGAG
6936256 GAGATCCA
191 GAGATCCA
* * ***
6936264 GAGAAGCAAATTAAAACAACCAAGGCGGTCATCTTCCTGATGAGATACAGAGAAGT
1 AAGAAGCGAATT-AAA-AAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGT
6936320 GGACCAAATT
Statistics
Matches: 413, Mismatches: 34, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
198 49 0.12
199 15 0.04
200 182 0.44
201 1 0.00
202 68 0.16
203 66 0.16
204 32 0.08
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.21
Consensus pattern (198 bp):
AAGAAGCGAATTAAAAAGTGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCA
ACGCTCAAAGCGAGCAAATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGC
AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTTCTGAGGAGAT
CCA
Found at i:6936317 original size:86 final size:87
Alignment explanation
Indices: 6936208--6936405 Score: 290
Period size: 86 Copynumber: 2.3 Consensus size: 87
6936198 ATAAATGGTT
* *
6936208 ATCTTCCTGATGAGACACTGAGAAGTGGACCAAATTTGTCTTCCTGAGGAGATCCAGAGAAGCAA
1 ATCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCAA
*
6936273 ATTAAAACA-ACCAAGGCGGTC
66 AGTAAAACAGACCAAGGCGGTC
* * * *
6936294 ATCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCTAGAGAGGCGA
1 ATCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCAA
* **
6936359 AGTAAAACAGACGATTGCGGTC
66 AGTAAAACAGACCAAGGCGGTC
*
6936381 ATCTTCCTGATAAGACACAGAGAAG
1 ATCTTCCTGATGAGACACAGAGAAG
6936406 AAGACCAGGT
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 67 0.68
87 32 0.32
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (87 bp):
ATCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCAA
AGTAAAACAGACCAAGGCGGTC
Found at i:6937269 original size:26 final size:24
Alignment explanation
Indices: 6937212--6937294 Score: 85
Period size: 26 Copynumber: 3.3 Consensus size: 24
6937202 TGTAAGGGGT
*
6937212 TACAAACCCTGTTCTGAAAATCAA
1 TACAAACCCGGTTCTGAAAATCAA
*
6937236 TACAAACCCGGTTCTTAAAATTCGAA
1 TACAAACCCGGTTCTGAAAA-TC-AA
***
6937262 TACAAACCCAACTCTTGAAAAATCAA
1 TACAAACCCGGTTC-TG-AAAATCAA
6937288 TACAAAC
1 TACAAAC
6937295 AGATTTGTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
24 18 0.37
25 2 0.04
26 22 0.45
27 3 0.06
28 4 0.08
ACGTcount: A:0.45, C:0.25, G:0.07, T:0.23
Consensus pattern (24 bp):
TACAAACCCGGTTCTGAAAATCAA
Found at i:6937611 original size:21 final size:20
Alignment explanation
Indices: 6937587--6937638 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
6937577 AAGGGCAGTT
*
6937587 ATAATGATAATTGCTTTAATA
1 ATAAT-ATAATTGCATTAATA
*
6937608 ATAATATTAAATGCATTAATA
1 ATAATA-TAATTGCATTAATA
6937629 ATAATATAAT
1 ATAATATAAT
6937639 AATAATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.40
Consensus pattern (20 bp):
ATAATATAATTGCATTAATA
Found at i:6938646 original size:29 final size:31
Alignment explanation
Indices: 6938614--6938694 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 31
6938604 CTAAAACTTT
6938614 AAAATTCACATTTTAACCCCGAAA-CTTCCA
1 AAAATTCACATTTTAACCCCGAAATCTTCCA
* *
6938644 AAAATT-ACCATTTT-ACCCCTAAATTTTCC-
1 AAAATTCA-CATTTTAACCCCGAAATCTTCCA
6938673 AAAATTC-CATTTTTAACCCCGA
1 AAAATTCACA-TTTTAACCCCGA
6938695 TTTCACCTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
28 2 0.05
29 19 0.44
30 22 0.51
ACGTcount: A:0.37, C:0.28, G:0.02, T:0.32
Consensus pattern (31 bp):
AAAATTCACATTTTAACCCCGAAATCTTCCA
Found at i:6938677 original size:59 final size:58
Alignment explanation
Indices: 6938602--6938927 Score: 275
Period size: 59 Copynumber: 5.6 Consensus size: 58
6938592 ATATTTTTGA
*
6938602 CCCTAAAAC-TTT-AAAATTCACATTTTAACCCCGAAACTTCCAAAAATTACCATTTTAC
1 CCCT-AAACTTTTCAAAATTCACATTTTAACCCCG-AATTTCCAAAAATTACCATTTTAC
*
6938660 CCCTAAA-TTTTCCAAAATTC-CATTTTTAACCCCG-ATTTCACCTAAAATTACCATTTTAC
1 CCCTAAACTTTT-CAAAATTCACA-TTTTAACCCCGAATTT--CCAAAAATTACCATTTTAC
* * * *
6938719 CCCTAAACTTTTTAAAATTCTA-TTTTTAA-CCCTAATTTCACCTAAAATTACCATTTTAC
1 CCCTAAACTTTTCAAAATTC-ACATTTTAACCCCGAATTT--CCAAAAATTACCATTTTAC
6938778 CCCTAAACTTTTCAAAATTC-CATTTTTAACCCCG-ATTTCACTAAAAATTACCATTTTA-
1 CCCTAAACTTTTCAAAATTCACA-TTTTAACCCCGAATTTC-C-AAAAATTACCATTTTAC
* *** * * *
6938836 CCCTCGAACTTCAAAAAATT-ACATTTTGACCCCAAAACTTCCAAAAATTACCATTTTTA-
1 CCCT-AAACTTTTCAAAATTCACATTTTAACCCC-GAATTTCCAAAAATTACCA-TTTTAC
*
6938895 CCCTCAAACCTTTT-AAAA-TCCCATTTTAACCCC
1 CCCT-AAA-CTTTTCAAAATTCACATTTTAACCCC
6938928 TAAATTTTTC
Statistics
Matches: 225, Mismatches: 21, Indels: 43
0.78 0.07 0.15
Matches are distributed among these distances:
57 10 0.04
58 35 0.16
59 166 0.74
60 14 0.06
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (58 bp):
CCCTAAACTTTTCAAAATTCACATTTTAACCCCGAATTTCCAAAAATTACCATTTTAC
Found at i:6938854 original size:118 final size:117
Alignment explanation
Indices: 6938614--6938927 Score: 367
Period size: 118 Copynumber: 2.7 Consensus size: 117
6938604 CTAAAACTTT
*
6938614 AAAATTCACATTTT-AACCCCGAAACTTCCAAAAATTACCATTTTACCCCTAAA-TTTTCCAAAA
1 AAAATT-ACATTTTGAA-CCCAAAACTTCCAAAAATTACCATTTTACCCCTAAACTTTT-CAAAA
***
6938677 TTCCATTTTTAACCCCGATTTCACCTAAAATTACCATTTTACCCCTAAACTTTTT
63 TTCCATTTTTAACCCCGATTTCACCTAAAATTACCATTTTACCCCTAAACTTCAA
* * * *
6938732 AAAATT-CTATTTTTAACCC-TAATTTCACCTAAAATTACCATTTTACCCCTAAACTTTTCAAAA
1 AAAATTAC-ATTTTGAACCCAAAACTT--CCAAAAATTACCATTTTACCCCTAAACTTTTCAAAA
*
6938795 TTCCATTTTTAACCCCGATTTCA-CTAAAAATTACCATTTTA-CCCTCGAACTTCAA
63 TTCCATTTTTAACCCCGATTTCACCT-AAAATTACCATTTTACCCCT-AAACTTCAA
*
6938850 AAAATTACATTTTGACCCCAAAACTTCCAAAAATTACCATTTTTA-CCCTCAAACCTTTT-AAAA
1 AAAATTACATTTTGAACCCAAAACTTCCAAAAATTACCA-TTTTACCCCT-AAA-CTTTTCAAAA
*
6938913 TCCCA-TTTTAACCCC
63 TTCCATTTTTAACCCC
6938928 TAAATTTTTC
Statistics
Matches: 171, Mismatches: 13, Indels: 25
0.82 0.06 0.12
Matches are distributed among these distances:
116 5 0.03
117 40 0.23
118 112 0.65
119 14 0.08
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (117 bp):
AAAATTACATTTTGAACCCAAAACTTCCAAAAATTACCATTTTACCCCTAAACTTTTCAAAATTC
CATTTTTAACCCCGATTTCACCTAAAATTACCATTTTACCCCTAAACTTCAA
Found at i:6938913 original size:30 final size:30
Alignment explanation
Indices: 6938762--6938903 Score: 111
Period size: 29 Copynumber: 4.8 Consensus size: 30
6938752 AATTTCACCT
***
6938762 AAAATTACCA-TTTTACCC-CTAAACTTTTC
1 AAAATTACCATTTTTACCCTC-AAACTTCAA
* *
6938791 AAAATT-CCATTTTTAACCC-C-GATTTCACTA
1 AAAATTACCATTTTT-ACCCTCAAACTTCA--A
*
6938821 AAAATTACCA-TTTTACCCTCGAACTTCAA
1 AAAATTACCATTTTTACCCTCAAACTTCAA
* *
6938850 AAAATTA-CATTTTGACCC-CAAAACTTCCA
1 AAAATTACCATTTTTACCCTC-AAACTTCAA
6938879 AAAATTACCATTTTTACCCTCAAAC
1 AAAATTACCATTTTTACCCTCAAAC
6938904 CTTTTAAAAT
Statistics
Matches: 91, Mismatches: 11, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
28 9 0.10
29 43 0.47
30 30 0.33
31 9 0.10
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAATTACCATTTTTACCCTCAAACTTCAA
Found at i:6940537 original size:34 final size:34
Alignment explanation
Indices: 6940489--6940591 Score: 125
Period size: 34 Copynumber: 3.0 Consensus size: 34
6940479 AAGAATATGA
* * *
6940489 AAAGTTAAGAAAGATGAAAGGTTAAAGATCAAGG
1 AAAGTTAAGGAAGATGGAAGGTTAAAGATCAAAG
* * *
6940523 GAGGTTAAGGAAGATGGAAGGTTAAAGGTCAAAG
1 AAAGTTAAGGAAGATGGAAGGTTAAAGATCAAAG
* *
6940557 AAAGTTAAGGAAAATGGAAGGTTAAAAGATGAAAG
1 AAAGTTAAGGAAGATGGAAGGTT-AAAGATCAAAG
6940592 GTTGAACATC
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
34 48 0.84
35 9 0.16
ACGTcount: A:0.50, C:0.02, G:0.31, T:0.17
Consensus pattern (34 bp):
AAAGTTAAGGAAGATGGAAGGTTAAAGATCAAAG
Found at i:6940544 original size:17 final size:17
Alignment explanation
Indices: 6940492--6940594 Score: 54
Period size: 17 Copynumber: 6.2 Consensus size: 17
6940482 AATATGAAAA
* *
6940492 GTTAAGAAAGATGAAAG
1 GTTAAGGAAGATGGAAG
* ** * *
6940509 GTTAAAGATCAAGGGAG
1 GTTAAGGAAGATGGAAG
6940526 GTTAAGGAAGATGGAAG
1 GTTAAGGAAGATGGAAG
*
6940543 GTTAAAGGTCAA-A--GAAA
1 GTT-AAGG--AAGATGGAAG
*
6940560 GTTAAGGAAAATGGAAG
1 GTTAAGGAAGATGGAAG
*
6940577 GTTAA--AAGATGAAAG
1 GTTAAGGAAGATGGAAG
6940592 GTT
1 GTT
6940595 GAACATCCAT
Statistics
Matches: 64, Mismatches: 16, Indels: 14
0.68 0.17 0.15
Matches are distributed among these distances:
14 2 0.03
15 12 0.19
16 4 0.06
17 39 0.61
18 4 0.06
19 1 0.02
20 2 0.03
ACGTcount: A:0.47, C:0.02, G:0.32, T:0.19
Consensus pattern (17 bp):
GTTAAGGAAGATGGAAG
Found at i:6942925 original size:16 final size:17
Alignment explanation
Indices: 6942894--6942927 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6942884 TGATAATTCA
6942894 TTCCAATCTATTTATTT
1 TTCCAATCTATTTATTT
*
6942911 TTCCAA-CTGTTTATTT
1 TTCCAATCTATTTATTT
6942927 T
1 T
6942928 CTCCCTCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.21, C:0.18, G:0.03, T:0.59
Consensus pattern (17 bp):
TTCCAATCTATTTATTT
Found at i:6946035 original size:34 final size:34
Alignment explanation
Indices: 6945987--6946089 Score: 125
Period size: 34 Copynumber: 3.0 Consensus size: 34
6945977 AAGAATATGA
* * *
6945987 AAAGTTAAGAAAGATGAAAGGTTAAAGATCAAGG
1 AAAGTTAAGGAAGATGGAAGGTTAAAGATCAAAG
* *
6946021 GAAGTTAAGGAAGATGGAAGGTTAAAGGTCAAAG
1 AAAGTTAAGGAAGATGGAAGGTTAAAGATCAAAG
* * *
6946055 AAAGTTAAGGAAAATGGAATGTTAAAAGATGAAAG
1 AAAGTTAAGGAAGATGGAAGGTT-AAAGATCAAAG
6946090 GTTGAATATC
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
34 49 0.84
35 9 0.16
ACGTcount: A:0.50, C:0.02, G:0.29, T:0.18
Consensus pattern (34 bp):
AAAGTTAAGGAAGATGGAAGGTTAAAGATCAAAG
Found at i:6946078 original size:17 final size:16
Alignment explanation
Indices: 6946020--6946079 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
6946010 AAAGATCAAG
*
6946020 GGAAGTTAAGGAAGAT
1 GGAAGTTAAGGAAAAT
*
6946036 GGAAGGTTAAAGGTCAAA-
1 GGAA-GTT-AAGG-AAAAT
*
6946054 GAAAGTTAAGGAAAAT
1 GGAAGTTAAGGAAAAT
6946070 GGAATGTTAA
1 GGAA-GTTAA
6946080 AAGATGAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
15 3 0.09
16 11 0.32
17 11 0.32
18 7 0.21
19 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.32, T:0.20
Consensus pattern (16 bp):
GGAAGTTAAGGAAAAT
Found at i:6946723 original size:14 final size:14
Alignment explanation
Indices: 6946704--6946733 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
6946694 AACAATTTGT
6946704 AGGGATGCAAATTG
1 AGGGATGCAAATTG
6946718 AGGGATGCAAATTG
1 AGGGATGCAAATTG
6946732 AG
1 AG
6946734 TGAAAAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.37, T:0.20
Consensus pattern (14 bp):
AGGGATGCAAATTG
Found at i:6951835 original size:31 final size:31
Alignment explanation
Indices: 6951799--6951871 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
6951789 ACTTAATGGA
* *
6951799 GAGTGATTAAAATAGAAACAATCTAAAACGT
1 GAGTGACTAAAATAGAAACAACCTAAAACGT
* **
6951830 GAGTGACCAAAATAGAAATGACCTAAAACGT
1 GAGTGACTAAAATAGAAACAACCTAAAACGT
*
6951861 TAGTGACTAAA
1 GAGTGACTAAA
6951872 TCAATAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (31 bp):
GAGTGACTAAAATAGAAACAACCTAAAACGT
Found at i:6959528 original size:10 final size:9
Alignment explanation
Indices: 6959515--6959717 Score: 74
Period size: 9 Copynumber: 21.2 Consensus size: 9
6959505 TGATACAAAA
6959515 ATAAAAAGTT
1 ATAAAAA-TT
6959525 ATAAAAATT
1 ATAAAAATT
6959534 ATAAAAATT
1 ATAAAAATT
**
6959543 ATTAAATTTT
1 A-TAAAAATT
6959553 AATAAAAATAT
1 -ATAAAAAT-T
* *
6959564 TTAAAATTT
1 ATAAAAATT
*
6959573 ATTAAAATT
1 ATAAAAATT
* *
6959582 AGAAAAAAAAT
1 --ATAAAAATT
6959593 ATAAAAATCGT
1 ATAAAAAT--T
*
6959604 A-AAAAAAT
1 ATAAAAATT
**
6959612 ATAAAAAAAC
1 AT-AAAAATT
6959622 ATAAAAGGA-T
1 ATAAAA--ATT
*
6959632 AGAAAAATT
1 ATAAAAATT
*
6959641 ATAAAACTT
1 ATAAAAATT
*
6959650 -TATAAAATC
1 ATA-AAAATT
6959659 ATAAGAAAATT
1 AT-A-AAAATT
6959670 ATAAAAATGT
1 ATAAAAAT-T
6959680 A-AAGAAA-T
1 ATAA-AAATT
*
6959688 ATAAAATTT
1 ATAAAAATT
*
6959697 GTAAAAAATT
1 AT-AAAAATT
*
6959707 ATAAAATTT
1 ATAAAAATT
6959716 AT
1 AT
6959718 CGTACCGAAA
Statistics
Matches: 144, Mismatches: 29, Indels: 41
0.67 0.14 0.19
Matches are distributed among these distances:
8 9 0.06
9 60 0.42
10 56 0.39
11 19 0.13
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:6959537 original size:19 final size:19
Alignment explanation
Indices: 6959515--6959717 Score: 94
Period size: 19 Copynumber: 10.6 Consensus size: 19
6959505 TGATACAAAA
6959515 ATAAAAAGTTAT-AAAAATT
1 ATAAAAA-TTATAAAAAATT
* **
6959534 ATAAAAATTATTAAATTTT
1 ATAAAAATTATAAAAAATT
* *
6959553 AATAAAAA-TATTTAAAATTT
1 -ATAAAAATTA-TAAAAAATT
* * *
6959573 ATTAAAATTAGAAAAAAAAT
1 ATAAAAATTA-TAAAAAATT
** *
6959593 ATAAAAATCGTAAAAAAAT
1 ATAAAAATTATAAAAAATT
** *
6959612 ATAAAAAAACATAAAAGGA-T
1 AT-AAAAATTATAAAA-AATT
* **
6959632 AGAAAAATTATAAAACTTT
1 ATAAAAATTATAAAAAATT
*
6959651 AT-AAAATCATAAGAAAATT
1 ATAAAAATTATAA-AAAATT
*
6959670 ATAAAAATGTA-AAGAAA-T
1 ATAAAAAT-TATAAAAAATT
* *
6959688 ATAAAATTTGTAAAAAATT
1 ATAAAAATTATAAAAAATT
*
6959707 ATAAAATTTAT
1 ATAAAAATTAT
6959718 CGTACCGAAA
Statistics
Matches: 141, Mismatches: 31, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
17 1 0.01
18 26 0.18
19 63 0.45
20 49 0.35
21 2 0.01
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (19 bp):
ATAAAAATTATAAAAAATT
Found at i:6959557 original size:20 final size:20
Alignment explanation
Indices: 6959534--6959579 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
6959524 TATAAAAATT
*
6959534 ATAAAAAT-TATTAAATTTTA
1 ATAAAAATAT-TTAAAATTTA
6959554 ATAAAAATATTTAAAATTTA
1 ATAAAAATATTTAAAATTTA
*
6959574 TTAAAA
1 ATAAAA
6959580 TTAGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAAAAATATTTAAAATTTA
Found at i:6959691 original size:29 final size:29
Alignment explanation
Indices: 6959635--6959691 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
6959625 AAAGGATAGA
* * *
6959635 AAAATTATAAAACTTTATAAAATCATAAG
1 AAAATTATAAAAATGTAAAAAATCATAAG
6959664 AAAATTATAAAAATGTAAAGAAAT-ATAA
1 AAAATTATAAAAATGTAAA-AAATCATAA
6959692 AATTTGTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (29 bp):
AAAATTATAAAAATGTAAAAAATCATAAG
Found at i:6959845 original size:7 final size:7
Alignment explanation
Indices: 6959833--6959857 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6959823 GTTGTTAACT
6959833 TTAATGG
1 TTAATGG
6959840 TTAATGG
1 TTAATGG
6959847 TTAATGG
1 TTAATGG
6959854 TTAA
1 TTAA
6959858 AAGGTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (7 bp):
TTAATGG
Found at i:6959886 original size:9 final size:9
Alignment explanation
Indices: 6959885--6959926 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
6959875 TTTATAATTT
*
6959885 TTTTTATGA
1 TTTTTATAA
6959894 TTTTTATAAA
1 TTTTTAT-AA
*
6959904 ATTTTATAA
1 TTTTTATAA
6959913 TTTTTATAA
1 TTTTTATAA
6959922 TTTTT
1 TTTTT
6959927 TTACAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:6959925 original size:28 final size:28
Alignment explanation
Indices: 6959885--6960009 Score: 96
Period size: 28 Copynumber: 4.3 Consensus size: 28
6959875 TTTATAATTT
*
6959885 TTTTTATGATTTTTATAAAATTTTATAA
1 TTTTTATAATTTTTATAAAATTTTATAA
*
6959913 TTTTTATAATTTTTTTACAAATTTT-TAA
1 TTTTTATAATTTTTATA-AAATTTTATAA
* *
6959941 GTTTTTTTCTAA--TTTATAATAAGTTTTAAATA
1 ---TTTTTATAATTTTTATAA-AA-TTTTATA-A
* *
6959973 TTTTTAT-ATTTTTATTAAAATTTAATAT
1 TTTTTATAATTTTTA-TAAAATTTTATAA
6960001 TTTTTATAA
1 TTTTTATAA
6960010 ATCTTATTGA
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
28 27 0.36
29 26 0.34
30 10 0.13
31 12 0.16
32 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTTATAATTTTTATAAAATTTTATAA
Found at i:6959927 original size:19 final size:19
Alignment explanation
Indices: 6959874--6960009 Score: 64
Period size: 19 Copynumber: 6.9 Consensus size: 19
6959864 TTTTTATGCA
*
6959874 TTTTATAATTTTTTTTATGAT
1 TTTTATAA--TTTTTTATAAT
**
6959895 TTTTATAAAATTTTATAAT
1 TTTTATAATTTTTTATAAT
*
6959914 TTTTATAATTTTTTTACAAAT
1 TTTTATAA-TTTTTTA-TAAT
* *
6959935 TTTTA-AGTTTTTTTCTAAT
1 TTTTATA-ATTTTTTATAAT
* * *
6959954 TTATAATAA-GTTTTAAATAT
1 TT-TTATAATTTTTTATA-AT
* *
6959974 TTTTATATTTTTATTA-AAA
1 TTTTATAATTTT-TTATAAT
*
6959993 TTTAAT-ATTTTTTATAA
1 TTTTATAATTTTTTATAA
6960010 ATCTTATTGA
Statistics
Matches: 86, Mismatches: 20, Indels: 21
0.68 0.16 0.17
Matches are distributed among these distances:
17 3 0.03
18 6 0.07
19 36 0.42
20 21 0.24
21 20 0.23
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTTATAAT
Found at i:6959937 original size:10 final size:10
Alignment explanation
Indices: 6959874--6959939 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
6959864 TTTTTATGCA
*
6959874 TTTTATAATT
1 TTTTATAAAT
* *
6959884 TTTTTTATGAT
1 TTTTATA-AAT
*
6959895 TTTTATAAAA
1 TTTTATAAAT
6959905 TTTTAT-AAT
1 TTTTATAAAT
*
6959914 TTTTATAATTT
1 TTTTATAA-AT
*
6959925 TTTTACAAAT
1 TTTTATAAAT
6959935 TTTTA
1 TTTTA
6959940 AGTTTTTTTC
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
9 8 0.19
10 20 0.47
11 15 0.35
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:6961182 original size:59 final size:59
Alignment explanation
Indices: 6961087--6961206 Score: 213
Period size: 59 Copynumber: 2.0 Consensus size: 59
6961077 GTCCTTGGCA
* *
6961087 TTTTGATTGATCCGAAGAGTCTAGCTCCCTCACATCTGTTCTTTACTAATGATGTGTTC
1 TTTTGATTGATCCGAAGAGTCTAGCTCCCACACATCTGTTCTTTACTAATGACGTGTTC
*
6961146 TTTTGATTGATCCGAAGAGTCTAGCTCCCACTCATCTGTTCTTTACTAATGACGTGTTC
1 TTTTGATTGATCCGAAGAGTCTAGCTCCCACACATCTGTTCTTTACTAATGACGTGTTC
6961205 TT
1 TT
6961207 ACTTGTTGGG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.41
Consensus pattern (59 bp):
TTTTGATTGATCCGAAGAGTCTAGCTCCCACACATCTGTTCTTTACTAATGACGTGTTC
Found at i:6966892 original size:29 final size:29
Alignment explanation
Indices: 6966827--6966892 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
6966817 TAATTTTTCA
* *
6966827 AAAAAAATTATAAAAATATTTATTTTTAT
1 AAAATAATTATAAAAATATTTATTTTAAT
6966856 AAATATAATTATAAAAATA-TTATTTTAAT
1 AAA-ATAATTATAAAAATATTTATTTTAAT
6966885 GAAAATAA
1 -AAAATAA
6966893 AAAATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (29 bp):
AAAATAATTATAAAAATATTTATTTTAAT
Found at i:6970265 original size:17 final size:17
Alignment explanation
Indices: 6970243--6970279 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
6970233 GATCGAGAGA
6970243 TGGCAAACTCCAGCTAG
1 TGGCAAACTCCAGCTAG
6970260 TGGCAAACTCCAGCTAG
1 TGGCAAACTCCAGCTAG
6970277 TGG
1 TGG
6970280 AATATATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (17 bp):
TGGCAAACTCCAGCTAG
Found at i:6974243 original size:20 final size:20
Alignment explanation
Indices: 6974218--6974272 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
6974208 CAAATGCTCT
6974218 TTTGAATCGATTCATTATTA
1 TTTGAATCGATTCATTATTA
* **
6974238 TTTGAATCAATTGTTTATTA
1 TTTGAATCGATTCATTATTA
6974258 TTTGAATCGATTCAT
1 TTTGAATCGATTCAT
6974273 CTTGGTTTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.51
Consensus pattern (20 bp):
TTTGAATCGATTCATTATTA
Found at i:6980426 original size:25 final size:26
Alignment explanation
Indices: 6980382--6980432 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
6980372 CAAATATGAA
6980382 AAAAAAATTATAATAAAATTAATGTT
1 AAAAAAATTATAATAAAATTAATGTT
* * *
6980408 AAAAAAA-TATGATAGAATTTATGTT
1 AAAAAAATTATAATAAAATTAATGTT
6980433 TTTGATCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (26 bp):
AAAAAAATTATAATAAAATTAATGTT
Found at i:6987434 original size:55 final size:55
Alignment explanation
Indices: 6987369--6987478 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 55
6987359 TGCATGCCTT
* *
6987369 AGTTTCATATTTTCTTTTGCAAACATGACTGCTGTCATATTCTAGAATGGGTAGC
1 AGTTTCATATTTTCTTTTGCAAACAGGACTGCTGTCATATTCTAGAACGGGTAGC
* *
6987424 AGTTTCATATTTTCTTTTGCAGACAGGACTGCTGTCATGTTCTAGAACGGGTAGC
1 AGTTTCATATTTTCTTTTGCAAACAGGACTGCTGTCATATTCTAGAACGGGTAGC
6987479 CCAGCATTGC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (55 bp):
AGTTTCATATTTTCTTTTGCAAACAGGACTGCTGTCATATTCTAGAACGGGTAGC
Found at i:6992690 original size:3 final size:3
Alignment explanation
Indices: 6992663--6992715 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
6992653 TGGGGAATGA
* * * *
6992663 AAT AAT TAT AAT TAT AAT TAT AAT AAT AAT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6992711 AAT AA
1 AAT AA
6992716 AGGGTTTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:6994168 original size:17 final size:17
Alignment explanation
Indices: 6994158--6994207 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
6994148 AATTAATTTT
*
6994158 AAATTTAAATTTAATTA
1 AAATTTAAACTTAATTA
**
6994175 AAATTTAAACTTAAAAGA
1 AAATTTAAACTT-AATTA
6994193 AAAGTTTAAACTTAA
1 AAA-TTTAAACTTAA
6994208 ACTAAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 11 0.39
18 8 0.29
19 9 0.32
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (17 bp):
AAATTTAAACTTAATTA
Found at i:6995361 original size:20 final size:20
Alignment explanation
Indices: 6995323--6995375 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
6995313 GTCTTTAAGT
* * *
6995323 TATCGATAGAACTGTAGTTG
1 TATCGGTAGAAGTGGAGTTG
*
6995343 TATCGGTAGAAGTGGAGTTT
1 TATCGGTAGAAGTGGAGTTG
6995363 TA-CTGGTAGAAGT
1 TATC-GGTAGAAGT
6995376 CTCACTGGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.28, C:0.08, G:0.30, T:0.34
Consensus pattern (20 bp):
TATCGGTAGAAGTGGAGTTG
Found at i:6998182 original size:20 final size:20
Alignment explanation
Indices: 6998144--6998182 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6998134 GCATTCAAGA
* *
6998144 TATCAGTAGAACTGTAGTTG
1 TATCAGTAGAACAGGAGTTG
*
6998164 TATCAGTAGAAGAGGAGTT
1 TATCAGTAGAACAGGAGTT
6998183 CTACCGGTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (20 bp):
TATCAGTAGAACAGGAGTTG
Found at i:7008889 original size:7 final size:7
Alignment explanation
Indices: 7008877--7008913 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
7008867 TATCTGTATG
7008877 ATTGTGA
1 ATTGTGA
7008884 ATTGTGA
1 ATTGTGA
7008891 ATTGTGA
1 ATTGTGA
7008898 ATTGCT-A
1 ATTG-TGA
7008905 ATTGT-A
1 ATTGTGA
7008911 ATT
1 ATT
7008914 TTATTAGAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 5 0.17
7 23 0.79
8 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.46
Consensus pattern (7 bp):
ATTGTGA
Found at i:7010554 original size:17 final size:17
Alignment explanation
Indices: 7010532--7010565 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7010522 ATATTTTCTC
7010532 TTTTATTCATATAAATT
1 TTTTATTCATATAAATT
7010549 TTTTATTCATATAAATT
1 TTTTATTCATATAAATT
7010566 ATCAGTTGAG
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:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTATTCATATAAATT
Found at i:7011279 original size:18 final size:18
Alignment explanation
Indices: 7011256--7011291 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7011246 TTCGATTAAC
7011256 CGATCGATTAACCGAATT
1 CGATCGATTAACCGAATT
*
7011274 CGATCGGTTAACCGAATT
1 CGATCGATTAACCGAATT
7011292 AATTCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (18 bp):
CGATCGATTAACCGAATT
Found at i:7011405 original size:21 final size:21
Alignment explanation
Indices: 7011381--7011445 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
7011371 TTTTAAACAT
7011381 TAATATAATTATTTTAATTAA
1 TAATATAATTATTTTAATTAA
* *
7011402 TAATATAA-AATATTAATATAA
1 TAATATAATTATTTTAAT-TAA
*
7011423 TAATTTTAATTATATATTAATTA
1 TAA-TATAATTAT-T-TTAATTA
7011446 TTTTATCTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 7 0.21
21 14 0.41
22 4 0.12
23 2 0.06
24 2 0.06
25 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATATAATTATTTTAATTAA
Found at i:7012811 original size:21 final size:21
Alignment explanation
Indices: 7012785--7012825 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7012775 ATAACAAAAT
* *
7012785 AAAGGGGTAAAACGGAATAAA
1 AAAGGGGGAAAAAGGAATAAA
7012806 AAAGGGGGAAAAAGGAATAA
1 AAAGGGGGAAAAAGGAATAA
7012826 GGAATGGAAT
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:0.59, C:0.02, G:0.32, T:0.07
Consensus pattern (21 bp):
AAAGGGGGAAAAAGGAATAAA
Found at i:7016109 original size:93 final size:93
Alignment explanation
Indices: 7015970--7016504 Score: 883
Period size: 93 Copynumber: 5.8 Consensus size: 93
7015960 TGACCCAGTG
* *
7015970 CAAAATGAAGATAGTGCTTGTGGGGTAAATGCTTTGCCTATGATTTCCATCCCAAGAGACGTGGA
1 CAAAATGAAGATAGTGCTTGTGGGGTAAATGCTTTGCCTATAATTTCCATCCCAAGAGATGTGGA
7016035 GAATGTTGGAGAAAAGACTGCCCTGATA
66 GAATGTTGGAGAAAAGACTGCCCTGATA
7016063 CAAAATGAAGATAGTGCTTGTGGGGTAAATGCTTTGCCTATAATTTCCATCCCAAGAGATGTGGA
1 CAAAATGAAGATAGTGCTTGTGGGGTAAATGCTTTGCCTATAATTTCCATCCCAAGAGATGTGGA
7016128 GAATGTTGGAGAAAAGACTGCCCTGATA
66 GAATGTTGGAGAAAAGACTGCCCTGATA
* * **
7016156 CAAAATGAAGAGAGTGCTTGTGGGGTAAATGCTTTGCCTATAATTTCCAACCTGAGAGATGTGGA
1 CAAAATGAAGATAGTGCTTGTGGGGTAAATGCTTTGCCTATAATTTCCATCCCAAGAGATGTGGA
7016221 GAATGTTGGAGAAAAGACTGCCCTGATA
66 GAATGTTGGAGAAAAGACTGCCCTGATA
* * * *
7016249 CAAAATGAAGAAAGTGCTTGTGGGGTAAATGCTTTGTCTATAATTTCCAACCCGAGAGATGTGGA
1 CAAAATGAAGATAGTGCTTGTGGGGTAAATGCTTTGCCTATAATTTCCATCCCAAGAGATGTGGA
7016314 GAATGTTGGAGAAAAGACTGCCCTGATA
66 GAATGTTGGAGAAAAGACTGCCCTGATA
*
7016342 CAAAATGAAGAGAGTGCTTGTGGGGTAAATGCTTTGCCTATAATTTCCATCCCAAGAGATGTGGA
1 CAAAATGAAGATAGTGCTTGTGGGGTAAATGCTTTGCCTATAATTTCCATCCCAAGAGATGTGGA
*
7016407 GAATGTTGGAGAAAAGACTGCCTTGATA
66 GAATGTTGGAGAAAAGACTGCCCTGATA
* * * * * * *
7016435 CAAACTAAAGATAGCT-CTTGTGGCGTAAATGCCTTGCCTATGATTTCCATCTCAAGAGATGTAG
1 CAAAATGAAGATAG-TGCTTGTGGGGTAAATGCTTTGCCTATAATTTCCATCCCAAGAGATGTGG
7016499 AGAATG
65 AGAATG
7016505 GTGGTGGACA
Statistics
Matches: 419, Mismatches: 22, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
93 418 1.00
94 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (93 bp):
CAAAATGAAGATAGTGCTTGTGGGGTAAATGCTTTGCCTATAATTTCCATCCCAAGAGATGTGGA
GAATGTTGGAGAAAAGACTGCCCTGATA
Found at i:7025038 original size:23 final size:25
Alignment explanation
Indices: 7025012--7025057 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7025002 CCAATTAGGA
7025012 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
7025035 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
7025058 TGAATCTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:7027030 original size:2 final size:2
Alignment explanation
Indices: 7027023--7027047 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7027013 CATTAAAGCG
7027023 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 A
7027048 CTTGAACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7043381 original size:9 final size:9
Alignment explanation
Indices: 7043367--7043416 Score: 59
Period size: 10 Copynumber: 5.6 Consensus size: 9
7043357 ATTAAATGAT
7043367 TTTTTATAA
1 TTTTTATAA
7043376 TTTTTAT--
1 TTTTTATAA
*
7043383 TTTTTAAAA
1 TTTTTATAA
7043392 TTTATTATAA
1 TTT-TTATAA
7043402 TTTTTATAAA
1 TTTTTAT-AA
7043412 TTTTT
1 TTTTT
7043417 TTGTGAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
7 6 0.17
9 14 0.40
10 15 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTATAA
Found at i:7043584 original size:30 final size:30
Alignment explanation
Indices: 7043549--7043643 Score: 105
Period size: 29 Copynumber: 3.3 Consensus size: 30
7043539 TTGCTATGAT
7043549 TTTTTATAAAATTTTAAATATATTTCATTA-A
1 TTTTTATAAAATTTTAAATA-ATTT-ATTAGA
7043580 -TTTTATAAAATTTT-AATAATTTATTAGA
1 TTTTTATAAAATTTTAAATAATTTATTAGA
*
7043608 TTTTTATAATATTTATAAAT--TTTA-T-GA
1 TTTTTATAAAATTT-TAAATAATTTATTAGA
7043635 TTTTTATAA
1 TTTTTATAA
7043644 GTTAATATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 12
0.82 0.01 0.17
Matches are distributed among these distances:
27 15 0.25
28 6 0.10
29 20 0.34
30 15 0.25
31 3 0.05
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (30 bp):
TTTTTATAAAATTTTAAATAATTTATTAGA
Found at i:7043599 original size:19 final size:18
Alignment explanation
Indices: 7043577--7043631 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
7043567 TATATTTCAT
7043577 TAATTTTATAAAATTTTAA
1 TAATTTTAT-AAATTTTAA
* *
7043596 TAA-TTTATTAGATTTTTA
1 TAATTTTA-TAAATTTTAA
7043614 TAATATTTATAAATTTTA
1 TAAT-TTTATAAATTTTA
7043632 TGATTTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
18 14 0.48
19 11 0.38
20 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TAATTTTATAAATTTTAA
Found at i:7043613 original size:29 final size:29
Alignment explanation
Indices: 7043549--7043643 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 29
7043539 TTGCTATGAT
7043549 TTTTTATAAAATTTTAAATATATTTCATTA-A
1 TTTTTATAAAATTTT-AATA-ATTT-ATTAGA
7043580 -TTTTATAAAATTTTAATAATTTATTAGA
1 TTTTTATAAAATTTTAATAATTTATTAGA
* *
7043608 TTTTTATAATA-TTT-ATAAATT-TTATGA
1 TTTTTATAAAATTTTAATAATTTATTA-GA
7043635 TTTTTATAA
1 TTTTTATAA
7043644 GTTAATATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
26 3 0.05
27 21 0.36
28 8 0.14
29 13 0.22
30 14 0.24
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTTTATAAAATTTTAATAATTTATTAGA
Found at i:7043630 original size:18 final size:18
Alignment explanation
Indices: 7043577--7043643 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
7043567 TATATTTCAT
*
7043577 TAAT-TTTATAAAATTT-
1 TAATATTTATAAATTTTA
*
7043593 TAATAATTTATTAGATTTTTA
1 TAAT-ATTTA-TA-AATTTTA
7043614 TAATATTTATAAATTTTA
1 TAATATTTATAAATTTTA
* *
7043632 TGATTTTTATAA
1 TAATATTTATAA
7043644 GTTAATATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 4 0.10
18 20 0.49
19 4 0.10
20 9 0.22
21 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TAATATTTATAAATTTTA
Found at i:7043790 original size:9 final size:9
Alignment explanation
Indices: 7043774--7043823 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
7043764 TTATTATTTA
7043774 TTTT-ATAT
1 TTTTAATAT
7043782 TTTTAATAT
1 TTTTAATAT
*
7043791 TTTTATATCAA
1 TTTTA-AT-AT
7043802 TTTTAATAT
1 TTTTAATAT
*
7043811 TTTAAATAT
1 TTTTAATAT
7043820 TTTT
1 TTTT
7043824 TATCAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 4 0.11
9 21 0.60
10 4 0.11
11 6 0.17
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTAATAT
Found at i:7043794 original size:29 final size:29
Alignment explanation
Indices: 7043773--7043849 Score: 97
Period size: 27 Copynumber: 2.8 Consensus size: 29
7043763 TTTATTATTT
*
7043773 ATTTT-ATATTTTTAATATTTTTATATCA
1 ATTTTAATATTTTAAATATTTTTATATCA
7043801 ATTTTAATATTTTAAATATTTTT-TATCA
1 ATTTTAATATTTTAAATATTTTTATATCA
***
7043829 A-AAAAATATTTTAAATATTTT
1 ATTTTAATATTTTAAATATTTT
7043850 CATTTTAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 17 0.39
28 11 0.25
29 16 0.36
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (29 bp):
ATTTTAATATTTTAAATATTTTTATATCA
Found at i:7047854 original size:23 final size:23
Alignment explanation
Indices: 7047828--7047948 Score: 147
Period size: 23 Copynumber: 5.2 Consensus size: 23
7047818 ACACTAGCGC
7047828 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
7047851 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
7047874 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
7047899 GCTTTCTGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
* *
7047922 GCTCTCTGCTTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
7047945 GCTC
1 GCTC
7047949 AGTACTTTGT
Statistics
Matches: 85, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
22 4 0.05
23 61 0.72
24 1 0.01
25 16 0.19
26 3 0.04
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.41
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:7047897 original size:48 final size:46
Alignment explanation
Indices: 7047828--7047948 Score: 163
Period size: 48 Copynumber: 2.6 Consensus size: 46
7047818 ACACTAGCGC
*
7047828 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACGTCGT-GT
* *
7047874 GCTCTCTGTTATTAGCACTGTGTGTGCTTTCTGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCTGATTAGCACGTCGTGT
* *
7047922 GCTCTCTGCTTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
7047949 AGTACTTTGT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
46 24 0.36
48 41 0.62
49 1 0.02
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.41
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCTGATTAGCACGTCGTGT
Found at i:7047977 original size:39 final size:39
Alignment explanation
Indices: 7047913--7047987 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
7047903 TCTGATTAGC
*
7047913 ACTTCGTGTGCTCTCTGCTTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGCTTAGCACTTTGTGTGCTCAGT
* *
7047952 ACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGCTTAGCACTTTGTGTGCTC
7047988 TCTGTTGCCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGCTTAGCACTTTGTGTGCTCAGT
Found at i:7051795 original size:20 final size:19
Alignment explanation
Indices: 7051766--7051805 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
7051756 GCCTTTTTTT
*
7051766 TATATATTATTAATTATATA
1 TATATATTATAAATTA-ATA
*
7051786 TATATTTTATAAATTAATA
1 TATATATTATAAATTAATA
7051805 T
1 T
7051806 TTTAATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATATTATAAATTAATA
Found at i:7052860 original size:21 final size:20
Alignment explanation
Indices: 7052833--7052879 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
7052823 TTTATTTAAT
*
7052833 AATTTTTTTAAAAAAATTATG
1 AATTTTTATAAAAAAA-TATG
*
7052854 TATTTTTATAAAAAAATATG
1 AATTTTTATAAAAAAATATG
7052874 AATTTT
1 AATTTT
7052880 AATTTTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (20 bp):
AATTTTTATAAAAAAATATG
Found at i:7052866 original size:20 final size:19
Alignment explanation
Indices: 7052837--7052879 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
7052827 TTTAATAATT
* *
7052837 TTTTTAAAAAAATTATGTA
1 TTTTTAAAAAAAATATGAA
7052856 TTTTTATAAAAAAATATGAA
1 TTTTTA-AAAAAAATATGAA
7052876 TTTT
1 TTTT
7052880 AATTTTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTTTAAAAAAAATATGAA
Found at i:7053323 original size:21 final size:20
Alignment explanation
Indices: 7053299--7053384 Score: 61
Period size: 21 Copynumber: 4.2 Consensus size: 20
7053289 ATTAATTTAA
7053299 TATTAAATTAAATTAAATATT
1 TATT-AATTAAATTAAATATT
* * *
7053320 TATT-TTTAGA-TAAATAATC
1 TATTAATTAAATTAAAT-ATT
* *
7053339 TATTAATTTAATAAAAT-TT
1 TATTAATTAAATTAAATATT
7053358 AATATTAAATTAAATTAAATATT
1 --TATT-AATTAAATTAAATATT
7053381 TATT
1 TATT
7053385 TTAATAAGTA
Statistics
Matches: 48, Mismatches: 10, Indels: 14
0.67 0.14 0.19
Matches are distributed among these distances:
18 5 0.10
19 11 0.23
20 3 0.06
21 16 0.33
22 11 0.23
23 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (20 bp):
TATTAATTAAATTAAATATT
Found at i:7053366 original size:61 final size:59
Alignment explanation
Indices: 7053292--7053410 Score: 193
Period size: 61 Copynumber: 2.0 Consensus size: 59
7053282 ATATTTTATT
*
7053292 AATTTAATATTAAATTAAATTAAATATTTATTTTTAGATAAATAATCTATTAATTTAATAA
1 AATTTAATATTAAATTAAATTAAATATTTA-TTTTA-ATAAATAATATATTAATTTAATAA
* *
7053353 AATTTAATATTAAATTAAATTAAATATTTATTTTAATAAGTATTATATTAATTTAATA
1 AATTTAATATTAAATTAAATTAAATATTTATTTTAATAAATAATATATTAATTTAATA
7053411 TTAAAGTGAT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 20 0.36
60 5 0.09
61 30 0.55
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.49
Consensus pattern (59 bp):
AATTTAATATTAAATTAAATTAAATATTTATTTTAATAAATAATATATTAATTTAATAA
Found at i:7061190 original size:41 final size:38
Alignment explanation
Indices: 7061090--7061193 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
7061080 TTCGAAGCAA
* *
7061090 TAAAGTGACACCCAGTGTCTCATCG-GCCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
7061127 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
7061165 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
7061194 CTCGAGGTCG
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 21 0.41
38 10 0.20
40 2 0.04
41 18 0.35
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:7062056 original size:3 final size:3
Alignment explanation
Indices: 7062048--7062088 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
7062038 ATATATTAGT
* *
7062048 TAA TAA TAA TAA TAA TAA -AA TAA TAC TAA TTA -AA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
7062089 TTATATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 3 0.09
3 29 0.91
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:7062071 original size:17 final size:14
Alignment explanation
Indices: 7062052--7062088 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
7062042 ATTAGTTAAT
*
7062052 AATAATAATAATAA
1 AATAATAATAATTA
*
7062066 AATAATACTAATTA
1 AATAATAATAATTA
7062080 AATAATAAT
1 AATAATAAT
7062089 TTATATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
AATAATAATAATTA
Found at i:7062111 original size:13 final size:13
Alignment explanation
Indices: 7062067--7062124 Score: 59
Period size: 13 Copynumber: 4.6 Consensus size: 13
7062057 TAATAATAAA
*
7062067 ATAATACTAA-TT
1 ATAATATTAATTT
*
7062079 A-AATAATAATTT
1 ATAATATTAATTT
*
7062091 ATATTATT-ATATT
1 ATAATATTAAT-TT
7062104 ATAATATTAATTT
1 ATAATATTAATTT
7062117 ATAATATT
1 ATAATATT
7062125 TTAAATCATG
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 7 0.18
12 6 0.16
13 23 0.61
14 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (13 bp):
ATAATATTAATTT
Found at i:7062115 original size:26 final size:25
Alignment explanation
Indices: 7062067--7062124 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
7062057 TAATAATAAA
*
7062067 ATAATACTA-ATTAAATAATAATTT
1 ATAATATTATATTAAATAATAATTT
* *
7062091 ATATTATTATATTATAATATTAATTT
1 ATAATATTATATTA-AATAATAATTT
7062117 ATAATATT
1 ATAATATT
7062125 TTAAATCATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 7 0.25
25 4 0.14
26 17 0.61
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
ATAATATTATATTAAATAATAATTT
Found at i:7066398 original size:2 final size:2
Alignment explanation
Indices: 7066391--7066417 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7066381 CATTAAAGCG
7066391 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 A
7066418 CTTGAACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7072681 original size:26 final size:28
Alignment explanation
Indices: 7072652--7072705 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
7072642 TTTTATAATA
* *
7072652 TTATAAGTTTTTAT-TTTTTAA-ATTTT
1 TTATAAGTTTATATAATTTTAATATTTT
7072678 TTATAAGTTTATATAATTTTAATATTTT
1 TTATAAGTTTATATAATTTTAATATTTT
7072706 CAAATCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.54
27 6 0.25
28 5 0.21
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (28 bp):
TTATAAGTTTATATAATTTTAATATTTT
Found at i:7072698 original size:34 final size:33
Alignment explanation
Indices: 7072630--7072734 Score: 81
Period size: 34 Copynumber: 3.0 Consensus size: 33
7072620 TTTTTTTTGT
* *
7072630 TTTTATTACATTTTTTATAATATTATA-AGTTTTTA
1 TTTT-TTAAATTTTTTATAAT-TTATATA-ATTTTA
7072665 TTTTTTAAATTTTTTATAAGTTTATATAATTTTAA
1 TTTTTTAAATTTTTTATAA-TTTATATAATTTT-A
* *
7072700 TATTTTCAAATCTTTTT-T-ATTTTTAATAATTTTA
1 T-TTTTTAAAT-TTTTTATAATTTAT-ATAATTTTA
7072734 T
1 T
7072735 AATTTTTATG
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
34 29 0.48
35 17 0.28
36 9 0.15
37 5 0.08
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (33 bp):
TTTTTTAAATTTTTTATAATTTATATAATTTTA
Found at i:7072741 original size:9 final size:9
Alignment explanation
Indices: 7072641--7072743 Score: 60
Period size: 9 Copynumber: 11.8 Consensus size: 9
7072631 TTTATTACAT
7072641 TTTTTATAA
1 TTTTTATAA
*
7072650 -TATTATAA
1 TTTTTATAA
7072658 GTTTTTAT--
1 -TTTTTATAA
7072666 TTTTTA-AA
1 TTTTTATAA
7072674 TTTTTTATAA
1 -TTTTTATAA
*
7072684 GTTTATATAA
1 -TTTTTATAA
*
7072694 TTTTAAT-A
1 TTTTTATAA
*
7072702 TTTTCA-AA
1 TTTTTATAA
*
7072710 TCTTTT-TTA
1 T-TTTTATAA
7072719 TTTTTAATAA
1 TTTTT-ATAA
7072729 -TTTTATAA
1 TTTTTATAA
7072737 TTTTTAT
1 TTTTTAT
7072744 GGAAGACTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 24
0.68 0.09 0.23
Matches are distributed among these distances:
7 6 0.08
8 23 0.32
9 26 0.36
10 17 0.24
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:7072741 original size:26 final size:26
Alignment explanation
Indices: 7072639--7072741 Score: 70
Period size: 26 Copynumber: 3.9 Consensus size: 26
7072629 TTTTTATTAC
* * *
7072639 ATTTTTTATAATATTATAA-GTTTTT
1 ATTTTTAATAATTTTATAATTTTTTT
* * *
7072664 ATTTTTTAA-ATTTTTTATAAGTTTATAT
1 A-TTTTTAATA-ATTTTATAA-TTTTTTT
*
7072692 AATTTTAAT-ATTTTCA-AATCTTTTTT
1 ATTTTTAATAATTTT-ATAAT-TTTTTT
7072718 ATTTTTAATAATTTTATAATTTTT
1 ATTTTTAATAATTTTATAATTTTT
7072742 ATGGAAGACT
Statistics
Matches: 58, Mismatches: 11, Indels: 17
0.67 0.13 0.20
Matches are distributed among these distances:
25 3 0.05
26 36 0.62
27 15 0.26
28 4 0.07
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (26 bp):
ATTTTTAATAATTTTATAATTTTTTT
Done.