Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 294 of 438
Found at i:92127874 original size:48 final size:48
Alignment explanation
Indices: 92127545--92127864 Score: 317
Period size: 48 Copynumber: 6.7 Consensus size: 48
92127535 GGTGAATTGT
* * * * * * *
92127545 CGATGCCATGTTCCAAACATGTTCTTATACTGGCTCACATGTCGA-GGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGGC
* * * *
92127593 CGATGCCATGTCCCTGACATGGTCTTACACTAGCTCTCATCTCAAT-GT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGGC
* * * *
92127641 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCCTAACGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGC
* * *
92127689 CGATG-CAGGTCCCAGACATGGTCTTACACTAG-TGCACATATCAAT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CTCATATC-ATGGC
* * * * * *
92127736 CGATGCCATATCCTAGACAAGGTCTTACACTGGCTCTCACAACATCGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGC
* * * *
92127784 CAATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGC
92127832 CGATGCCATGTCCCAGACATGGTCTTACACTGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGG
92127865 AACACATATC
Statistics
Matches: 220, Mismatches: 45, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
46 1 0.00
47 39 0.18
48 179 0.81
49 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGC
Found at i:92135520 original size:57 final size:57
Alignment explanation
Indices: 92135440--92135596 Score: 197
Period size: 57 Copynumber: 2.8 Consensus size: 57
92135430 AATTCCTCTC
* *
92135440 AAGCATATGTTACAATTAGGATTTAGCCTGGACTGGTAATCCTAATTGAGCTCTTCT
1 AAGCATATGTTACAAATAGGATTTAGCCTGGACTGGTAATCCTAATTAAGCTCTTCT
* * * * *
92135497 AAGTATATGTTACAAAAAAGATTTAGCCTGGACTGGTAATCCTACTTAAGCTCTTGT
1 AAGCATATGTTACAAATAGGATTTAGCCTGGACTGGTAATCCTAATTAAGCTCTTCT
* ** * * *
92135554 GAGCATATGTTGGAGATAGGATTTAGCCTGAATTGGTAATCCT
1 AAGCATATGTTACAAATAGGATTTAGCCTGGACTGGTAATCCT
92135597 GTTATATAAT
Statistics
Matches: 84, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 84 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (57 bp):
AAGCATATGTTACAAATAGGATTTAGCCTGGACTGGTAATCCTAATTAAGCTCTTCT
Found at i:92144987 original size:28 final size:28
Alignment explanation
Indices: 92144947--92145010 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
92144937 TGGAAAGTAG
* *
92144947 TTGGGCCTGATGGGCCAAATGAATGTGA
1 TTGGGCCTGATGGGCCAAATGAACGAGA
**
92144975 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCAAATGAACGAGA
92145003 TTGGGCCT
1 TTGGGCCT
92145011 AAAGGGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.20, C:0.17, G:0.38, T:0.25
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCAAATGAACGAGA
Found at i:92145364 original size:27 final size:27
Alignment explanation
Indices: 92145326--92145720 Score: 374
Period size: 27 Copynumber: 14.7 Consensus size: 27
92145316 TAATAAAGAG
* *
92145326 AAATTACCGAAATACCCTCGGTTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
92145353 AAATTACTGAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
92145380 AAATAACTGAAATACCCTCGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
92145407 AAATTA-TCAAAATACCCTCGATTTTTA
1 AAATTACT-GAAATACCCTCGATTTGTA
** * * *
92145434 AAATTACCAAAACACCC-CAATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
*
92145460 AAATTACTGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
92145487 AAATTCCTAAAATACCCTCGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
92145514 AAATTA-TCGAAATACCCTTGGTTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
92145541 AAATTATTGAAACACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
92145568 AAATTA-TCGAAATACAACT-GATTTGTA
1 AAATTACT-GAAATAC-CCTCGATTTGTA
** *
92145595 AAATTACCAAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
92145622 AAATTACT-AAGATACCCTCGATTTGTA
1 AAATTACTGAA-ATACCCTCGATTTGTA
* * * *
92145649 AAATTACCGAAACACCTTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
92145676 AAATTA-TCGAAATACCCT-TATAGTATA
1 AAATTACT-GAAATACCCTCGAT-TTGTA
*
92145703 AAATTACCGAAATACCCT
1 AAATTACTGAAATACCCT
92145721 TGTAGTATAA
Statistics
Matches: 304, Mismatches: 50, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
26 31 0.10
27 268 0.88
28 5 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:92145420 original size:54 final size:54
Alignment explanation
Indices: 92145326--92145720 Score: 426
Period size: 54 Copynumber: 7.3 Consensus size: 54
92145316 TAATAAAGAG
** *
92145326 AAATTACCGAAATACCCTCGGTTTGTAAAATTA-CTGAAATATCCTCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATC-GAAATACCCTCGATTTGTA
* * * * * *
92145380 AAATAACTGAAATACCCTCGATTTATAAAATTATCAAAATACCCTCGATTTTTA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTA
* * * *
92145434 AAATTACCAAAACACCC-CAATTTATAAAATTA-CTGAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATC-GAAATACCCTCGATTTGTA
* * * * *
92145487 AAATT-CCTAAAATACCCTCGATTTATAAAATTATCGAAATACCCTTGGTTTGTA
1 AAATTACC-GAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTA
** * *
92145541 AAATTATTGAAACACCCTCAATTTGTAAAATTATCGAAATACAACT-GATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATAC-CCTCGATTTGTA
* *
92145595 AAATTACCAAAATACCCTCAATTTGTAAAATTA-CTAAGATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCGAA-ATACCCTCGATTTGTA
* * * * *
92145649 AAATTACCGAAACACCTTCAATTTGTAAAATTATCGAAATACCCT-TATAGTATA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGAT-TTGTA
92145703 AAATTACCGAAATACCCT
1 AAATTACCGAAATACCCT
92145721 TGTAGTATAA
Statistics
Matches: 287, Mismatches: 43, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
52 3 0.01
53 50 0.17
54 227 0.79
55 7 0.02
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCTCGATTTGTA
Found at i:92145721 original size:27 final size:27
Alignment explanation
Indices: 92145674--92145752 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
92145664 CTTCAATTTG
92145674 TAAAATTATCGAAATACCCTTATAGTA
1 TAAAATTATCGAAATACCCTTATAGTA
* *
92145701 TAAAATTACCGAAATACCCTTGTAGTA
1 TAAAATTATCGAAATACCCTTATAGTA
* * *
92145728 TAAAATGATCGACATACCCCTATAG
1 TAAAATTATCGAAATACCCTTATAG
92145753 GGTGAAATGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCTTATAGTA
Found at i:92148616 original size:28 final size:28
Alignment explanation
Indices: 92148556--92148619 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
92148546 TGAGAAGTAG
* ***
92148556 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATAGGCCATATGAACAAGA
* *
92148584 CTGGGCCTGATAGGCCATGTGAACAAGA
1 TTGGGCCTGATAGGCCATATGAACAAGA
92148612 TTGGGCCT
1 TTGGGCCT
92148620 AAAGGGGCCA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.25
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCATATGAACAAGA
Found at i:92148964 original size:27 final size:27
Alignment explanation
Indices: 92148934--92149168 Score: 267
Period size: 27 Copynumber: 8.7 Consensus size: 27
92148924 ATAATAAAGA
* * *
92148934 AAAAATACCGAAATACCCTTGGTTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
*
92148961 AAAATTACTGAAATACCCTC-AGTTTGT
1 AAAATTACCGAAATACCCTCGA-TTTGT
*** * *
92148988 AAAATTATTAAAACACCCTCAATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* *
92149015 AAAATTATCGAAATACCCTTGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
*
92149042 AAAATTACCAAAATACCCTCGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
92149069 AAAATTACCGAAATACCCTCGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* *
92149096 AAAATTACCGAAACACCCCCGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* * * *
92149123 AAAATTATCAAAATACCCT-TATAGTGT
1 AAAATTACCGAAATACCCTCGAT-TTGT
*
92149150 AAAATTACCAAAATACCCT
1 AAAATTACCGAAATACCCT
92149169 TGTAGTGTAA
Statistics
Matches: 180, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 177 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGATTTGT
Found at i:92149087 original size:81 final size:80
Alignment explanation
Indices: 92148934--92149168 Score: 299
Period size: 81 Copynumber: 2.9 Consensus size: 80
92148924 ATAATAAAGA
* * ** **
92148934 AAAAATACCGAAATACCCTTGGTTTGTAAAATTACTGAAATACCCTCAGTTTGTAAAATTATTAA
1 AAAATTACCGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCA-TTTGTAAAATTACCAA
*
92148999 AACACCCTCAATTTGT
65 AATACCCTCAATTTGT
* *
92149015 AAAATTATCGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTACCGA
1 AAAATTACCGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTC-ATTTGTAAAATTACCAA
*
92149080 AATACCCTCGATTTGT
65 AATACCCTCAATTTGT
* ** * * *
92149096 AAAATTACCGAAACACCCCCGATTTGTAAAATTATCAAAATACCCTTATAGTGTAAAATTACCAA
1 AAAATTACCGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCAT-TTGTAAAATTACCAA
92149161 AATACCCT
65 AATACCCT
92149169 TGTAGTGTAA
Statistics
Matches: 134, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
80 2 0.01
81 131 0.98
82 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
AAAATTACCGAAATACCCTTGATTTGTAAAATTACCAAAATACCCTCATTTGTAAAATTACCAAA
ATACCCTCAATTTGT
Found at i:92149192 original size:27 final size:26
Alignment explanation
Indices: 92149131--92149184 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
92149121 GTAAAATTAT
* *
92149131 CAAAATACCCTTATAGTGTAAAATTAC
1 CAAAATACCCTTGTAGTGTAAAA-TGC
92149158 CAAAATACCCTTGTAGTGTAAAATGC
1 CAAAATACCCTTGTAGTGTAAAATGC
92149184 C
1 C
92149185 TGACATACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 3 0.12
27 22 0.88
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (26 bp):
CAAAATACCCTTGTAGTGTAAAATGC
Found at i:92155249 original size:46 final size:45
Alignment explanation
Indices: 92155137--92155345 Score: 174
Period size: 46 Copynumber: 4.5 Consensus size: 45
92155127 GGGGTAAGTT
* * * * *
92155137 GCCGATGCCATGTCCCAGACATGGTCTTAGACTGAC-ACATTTC-ATA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCATCTCGA-G
*
92155183 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAG
* * * * * *
92155229 GCCGATGCATGCCCCGGACATGTCTTACACTAACGC-TCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT--GGCTTCATCTCGAG
* *
92155275 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAG
92155323 GCCGATGCATGTCCCAGACATGT
1 GCCGATGCATGTCCCAGACATGT
92155346 AGCTCACACA
Statistics
Matches: 132, Mismatches: 21, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
44 11 0.08
45 14 0.11
46 56 0.42
47 28 0.21
48 22 0.17
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAG
Found at i:92156680 original size:21 final size:21
Alignment explanation
Indices: 92156635--92156680 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
92156625 ATATATTGTT
92156635 TATA-ATTTATTTTAATATCA
1 TATATATTTATTTTAATATCA
*
92156655 CATATATTTATTTTGAATATC-
1 TATATATTTATTTT-AATATCA
92156676 TATAT
1 TATAT
92156681 TTACTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 3 0.14
21 13 0.59
22 6 0.27
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (21 bp):
TATATATTTATTTTAATATCA
Found at i:92160489 original size:14 final size:14
Alignment explanation
Indices: 92160470--92160498 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
92160460 CTAATGCCAA
92160470 AGATATATATATAT
1 AGATATATATATAT
92160484 AGATATATATATAT
1 AGATATATATATAT
92160498 A
1 A
92160499 TGTATGGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
AGATATATATATAT
Found at i:92160630 original size:27 final size:28
Alignment explanation
Indices: 92160595--92160649 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
92160585 GCCGGAGAAG
92160595 AGAGAGAAA-GAGAAGGGAAA-AGAAAAA
1 AGAGAGAAAGGA-AAGGGAAAGAGAAAAA
92160622 AGAGAGAAAGGAAAGGGAAAGAGAAAAA
1 AGAGAGAAAGGAAAGGGAAAGAGAAAAA
92160650 TGGATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (28 bp):
AGAGAGAAAGGAAAGGGAAAGAGAAAAA
Found at i:92161661 original size:21 final size:22
Alignment explanation
Indices: 92161637--92161689 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
92161627 TTTTAACAAT
**
92161637 AATTCTGAAAAAT-TATTAAAA
1 AATTCTGAAAAATATAAGAAAA
*
92161658 AATT-TTAAAAATATAAGAAAA
1 AATTCTGAAAAATATAAGAAAA
*
92161679 AACTCTGAAAA
1 AATTCTGAAAA
92161690 TTCATATTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 7 0.28
21 13 0.52
22 5 0.20
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (22 bp):
AATTCTGAAAAATATAAGAAAA
Found at i:92162107 original size:18 final size:18
Alignment explanation
Indices: 92162069--92162107 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
92162059 TGAACTATAC
*
92162069 AATTCGAATAACTTAAGT
1 AATTCGAATAACTTAAAT
92162087 AATTCGAATAA-TTCAAAT
1 AATTCGAATAACTT-AAAT
92162105 AAT
1 AAT
92162108 AGATTGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (18 bp):
AATTCGAATAACTTAAAT
Found at i:92162218 original size:20 final size:19
Alignment explanation
Indices: 92162175--92162224 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
92162165 CTATTTCTCA
*
92162175 ACAAAAAAATTAAAAATTT
1 ACAAAAAAATTAAAAAATT
92162194 ACAAAAAAATTCAAAATAATT
1 ACAAAAAAATT-AAAA-AATT
*
92162215 -CAAAATAATT
1 ACAAAAAAATT
92162225 TTTAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 13 0.48
21 3 0.11
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (19 bp):
ACAAAAAAATTAAAAAATT
Found at i:92162287 original size:18 final size:18
Alignment explanation
Indices: 92162266--92162305 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
92162256 ATTTTTTTTT
92162266 AAATTATAAAAAATAAAA
1 AAATTATAAAAAATAAAA
* * *
92162284 AAATTCTAAAGAATATAA
1 AAATTATAAAAAATAAAA
92162302 AAAT
1 AAAT
92162306 GCTAGAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (18 bp):
AAATTATAAAAAATAAAA
Found at i:92164360 original size:4 final size:4
Alignment explanation
Indices: 92164338--92164427 Score: 78
Period size: 4 Copynumber: 22.2 Consensus size: 4
92164328 GAAACCCTAG
* *
92164338 TCTT GTCTT TC-T CCTT TCTT TCTT TCTT TCTT TCTT T-TT TTTT TCTTT
1 TCTT -TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TC-TT
* * *
92164386 TCTT TCTT TCCT T-TT TGTT TCATTT TGTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TC--TT TCTT TCTT TCTT TCTT T
92164428 ATTCATTTAC
Statistics
Matches: 71, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
3 7 0.10
4 53 0.75
5 8 0.11
6 3 0.04
ACGTcount: A:0.01, C:0.21, G:0.03, T:0.74
Consensus pattern (4 bp):
TCTT
Found at i:92164400 original size:24 final size:24
Alignment explanation
Indices: 92164356--92164420 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 24
92164346 TTCTCCTTTC
* *
92164356 TTTC-TTTCTTTCTTTCTTTTTTT
1 TTTCTTTTCTTTCTTTCCTTTTTG
92164379 TTTCTTTTCTTTCTTTCCTTTTTG
1 TTTCTTTTCTTTCTTTCCTTTTTG
*
92164403 TTTCATTTTGTTTCTTTC
1 TTTC-TTTTCTTTCTTTC
92164421 TTTCTTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 4 0.11
24 21 0.57
25 12 0.32
ACGTcount: A:0.02, C:0.18, G:0.03, T:0.77
Consensus pattern (24 bp):
TTTCTTTTCTTTCTTTCCTTTTTG
Found at i:92164432 original size:25 final size:23
Alignment explanation
Indices: 92164360--92164435 Score: 82
Period size: 25 Copynumber: 3.1 Consensus size: 23
92164350 CCTTTCTTTC
92164360 TTTCTTTCTTTCTTTTTTTTTTC-T
1 TTTCTTTCTTTC--TTTTTTTTCAT
92164384 TTTCTTTCTTTCCTTTTTGTTTCAT
1 TTTCTTTCTTT-CTTTTT-TTTCAT
*
92164409 TTTGTTTCTTTCTTTCTTTATTCAT
1 TTTCTTTCTTTCTTT-TTT-TTCAT
92164434 TT
1 TT
92164436 ACTTATTTGT
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
23 5 0.11
24 20 0.43
25 21 0.46
ACGTcount: A:0.04, C:0.17, G:0.03, T:0.76
Consensus pattern (23 bp):
TTTCTTTCTTTCTTTTTTTTCAT
Found at i:92174374 original size:6 final size:6
Alignment explanation
Indices: 92174363--92174393 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
92174353 TATATGCCTC
92174363 TCCTTT TCCTTT TCCTTT TCCTTT TCCTTT T
1 TCCTTT TCCTTT TCCTTT TCCTTT TCCTTT T
92174394 ATGCATGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TCCTTT
Found at i:92175265 original size:20 final size:17
Alignment explanation
Indices: 92175229--92175285 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
92175219 AAAAATATCT
*
92175229 TAATTAAAAAAATAAACC
1 TAATTCAAAAAA-AAACC
*
92175247 TAACTATCCAAAAAAAAACT
1 TAA-T-T-CAAAAAAAAACC
92175267 TAATTCAATAAAAAAACC
1 TAATTCAA-AAAAAAACC
92175285 T
1 T
92175286 CTCAATAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 3 0.09
18 13 0.41
19 2 0.06
20 8 0.25
21 6 0.19
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.23
Consensus pattern (17 bp):
TAATTCAAAAAAAAACC
Found at i:92191975 original size:17 final size:17
Alignment explanation
Indices: 92191953--92192043 Score: 82
Period size: 17 Copynumber: 5.4 Consensus size: 17
92191943 TAACTCGCTA
*
92191953 AAAACACGATTTTTATT
1 AAAACACGGTTTTTATT
*
92191970 AAAACAAAGGTTTTCTA--
1 AAAAC-ACGGTTTT-TATT
92191987 AAAACACGGTTTTTATT
1 AAAACACGGTTTTTATT
*
92192004 AAAACAAAGGTTTTCTA--
1 AAAAC-ACGGTTTT-TATT
*
92192021 AAAACACGATTTTTATT
1 AAAACACGGTTTTTATT
92192038 AAAACA
1 AAAACA
92192044 AAGGTTTTCT
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
15 4 0.07
16 13 0.22
17 26 0.43
18 13 0.22
19 4 0.07
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (17 bp):
AAAACACGGTTTTTATT
Found at i:92191993 original size:34 final size:34
Alignment explanation
Indices: 92191950--92192063 Score: 210
Period size: 34 Copynumber: 3.4 Consensus size: 34
92191940 GGATAACTCG
92191950 CTAAAAACACGATTTTTATTAAAACAAAGGTTTT
1 CTAAAAACACGATTTTTATTAAAACAAAGGTTTT
*
92191984 CTAAAAACACGGTTTTTATTAAAACAAAGGTTTT
1 CTAAAAACACGATTTTTATTAAAACAAAGGTTTT
92192018 CTAAAAACACGATTTTTATTAAAACAAAGGTTTT
1 CTAAAAACACGATTTTTATTAAAACAAAGGTTTT
*
92192052 CTAAAAGCACGA
1 CTAAAAACACGA
92192064 ACTGCCTTCT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 77 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (34 bp):
CTAAAAACACGATTTTTATTAAAACAAAGGTTTT
Found at i:92192051 original size:17 final size:17
Alignment explanation
Indices: 92191963--92192051 Score: 83
Period size: 17 Copynumber: 5.2 Consensus size: 17
92191953 AAAACACGAT
92191963 TTTTATTAAAACAAAGG
1 TTTTATTAAAACAAAGG
* * *
92191980 TTTTCTAAAAAC-ACGG
1 TTTTATTAAAACAAAGG
92191996 TTTTTATTAAAACAAAGG
1 -TTTTATTAAAACAAAGG
* * * *
92192014 TTTTCTAAAAAC-ACGAT
1 TTTTATTAAAACAAAG-G
92192031 TTTTATTAAAACAAAGG
1 TTTTATTAAAACAAAGG
92192048 TTTT
1 TTTT
92192052 CTAAAAGCAC
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
16 5 0.09
17 44 0.81
18 5 0.09
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (17 bp):
TTTTATTAAAACAAAGG
Found at i:92193320 original size:5 final size:5
Alignment explanation
Indices: 92193310--92193335 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
92193300 ATTTTTTCAA
92193310 TGTTT TGTTT TGTTT TGTTT TGTTT T
1 TGTTT TGTTT TGTTT TGTTT TGTTT T
92193336 TCAACCTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TGTTT
Found at i:92193968 original size:14 final size:15
Alignment explanation
Indices: 92193924--92193973 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 15
92193914 AAAAAATAAT
92193924 AATATTGTTAATATT-
1 AATATT-TTAATATTC
* *
92193939 AATATTATAATGTTC
1 AATATTTTAATATTC
92193954 AATATTTTAA-ATTC
1 AATATTTTAATATTC
92193968 AATATT
1 AATATT
92193974 AAAGTATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 15 0.50
15 15 0.50
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (15 bp):
AATATTTTAATATTC
Found at i:92195798 original size:3 final size:3
Alignment explanation
Indices: 92195790--92195856 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
92195780 ATAAAACAGT
92195790 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
92195838 TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
92195857 GTAATAAAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:92196004 original size:15 final size:14
Alignment explanation
Indices: 92195984--92196083 Score: 62
Period size: 15 Copynumber: 6.6 Consensus size: 14
92195974 ATAGAAATAG
92195984 AAATAGAAATATAAT
1 AAATAGAAA-ATAAT
*
92195999 AAATAGGAATATAAT
1 AAATA-GAAAATAAT
92196014 -AATAGTAGAAAT-AT
1 AAATAG-A-AAATAAT
92196028 AAATAGATAAATAA-
1 AAATAGA-AAATAAT
92196042 AAATTAGATAAATAAT
1 AAA-TAGA-AAATAAT
*
92196058 AGAATTAGAAATAAATAT
1 A-AA-TAGAAA-ATA-AT
92196076 AAATAGAA
1 AAATAGAA
92196084 CCATAATAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 19
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.01
14 15 0.21
15 30 0.42
16 11 0.15
17 11 0.15
18 3 0.04
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (14 bp):
AAATAGAAAATAAT
Found at i:92196067 original size:44 final size:45
Alignment explanation
Indices: 92195945--92196070 Score: 106
Period size: 44 Copynumber: 2.8 Consensus size: 45
92195935 AAATACGTAT
* * *
92195945 ATAAA-AAAAATAATGA-AAATAATATTAATATAGAAATAGAAATAG
1 ATAAATAAAAATTAGGATAAATAATA-GAAT-TAGAAATAGAAATAG
*
92195990 A-AATATAATAAA-TAGGAATATAATAATAG---TAGAAATATAAATAG
1 ATAA-ATAA-AAATTAGG-ATA-AATAATAGAATTAGAAATAGAAATAG
92196034 ATAAATAAAAATTA-GATAAATAATAGAATTAGAAATA
1 ATAAATAAAAATTAGGATAAATAATAGAATTAGAAATA
92196071 AATATAAATA
Statistics
Matches: 66, Mismatches: 4, Indels: 23
0.71 0.04 0.25
Matches are distributed among these distances:
41 8 0.12
42 3 0.05
43 4 0.06
44 31 0.47
45 4 0.06
46 4 0.06
47 4 0.06
48 1 0.02
49 7 0.11
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (45 bp):
ATAAATAAAAATTAGGATAAATAATAGAATTAGAAATAGAAATAG
Found at i:92199473 original size:12 final size:12
Alignment explanation
Indices: 92199456--92199485 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
92199446 CTCTTTTTTC
92199456 TTTTTTGTTTGT
1 TTTTTTGTTTGT
*
92199468 TTTTTTTTTTGT
1 TTTTTTGTTTGT
92199480 TTTTTT
1 TTTTTT
92199486 AGAAAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (12 bp):
TTTTTTGTTTGT
Found at i:92199475 original size:16 final size:16
Alignment explanation
Indices: 92199449--92199485 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
92199439 TTGGCCTCTC
92199449 TTTTTTCTTTTTTGTT
1 TTTTTTCTTTTTTGTT
92199465 TGTTTTT-TTTTTTGTT
1 T-TTTTTCTTTTTTGTT
92199481 TTTTT
1 TTTTT
92199486 AGAAAACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 11 0.55
17 5 0.25
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (16 bp):
TTTTTTCTTTTTTGTT
Found at i:92200745 original size:18 final size:18
Alignment explanation
Indices: 92200704--92200739 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
92200694 CCATCCTCAA
92200704 CAAATCAGGAGATAGGCT
1 CAAATCAGGAGATAGGCT
*
92200722 CAAATCAGGAGCTAGGCT
1 CAAATCAGGAGATAGGCT
92200740 ACAATCTCGA
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:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (18 bp):
CAAATCAGGAGATAGGCT
Found at i:92204979 original size:15 final size:15
Alignment explanation
Indices: 92204930--92204967 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
92204920 TCCCTTCAAA
*
92204930 AATAATAGCAATAAT
1 AATAATAACAATAAT
*
92204945 AATAATAACAACAAT
1 AATAATAACAATAAT
92204960 AATAATAA
1 AATAATAA
92204968 TGAATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.24
Consensus pattern (15 bp):
AATAATAACAATAAT
Found at i:92205115 original size:28 final size:27
Alignment explanation
Indices: 92205059--92205124 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
92205049 AATTGTAAAT
92205059 AAATAAATAATAATAATAAGTAAAATAA
1 AAATAAA-AATAATAATAAGTAAAATAA
* *
92205087 AAATAAAAACTAATAA-AAGTTTAATTAA
1 AAATAAAAA-TAATAATAAG-TAAAATAA
*
92205115 AAATTAAAAT
1 AAATAAAAAT
92205125 TAAGCATACC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 6 0.18
28 27 0.82
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (27 bp):
AAATAAAAATAATAATAAGTAAAATAA
Found at i:92205178 original size:3 final size:3
Alignment explanation
Indices: 92205170--92205250 Score: 108
Period size: 3 Copynumber: 27.0 Consensus size: 3
92205160 TAAAAAGGTT
*
92205170 ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* ** * *
92205218 ATA ATA ATA ACA ACG ATG ATA TTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
92205251 CAATAAAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:92205388 original size:29 final size:29
Alignment explanation
Indices: 92205356--92205414 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
92205346 AAAATAACGA
*
92205356 AAATAATATTAATA-TAGAAATAGAAATAG
1 AAAT-ATAATAATAGTAGAAATAGAAATAG
*
92205385 AAATATAATAATAGTAGAAATATAAATAG
1 AAATATAATAATAGTAGAAATAGAAATAG
92205414 A
1 A
92205415 TAAATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (29 bp):
AAATATAATAATAGTAGAAATAGAAATAG
Found at i:92205394 original size:17 final size:19
Alignment explanation
Indices: 92205373--92205439 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 19
92205363 ATTAATATAG
92205373 AAATAGA-AATAGAAATAT
1 AAATAGATAATAGAAATAT
*
92205391 -AATA-ATAGTAGAAATAT
1 AAATAGATAATAGAAATAT
*
92205408 AAATAGATAAATAAAAAT-T
1 AAATAGAT-AATAGAAATAT
* *
92205427 AGATAAATAATAG
1 AAATAGATAATAG
92205440 TATTAGAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 1 0.03
17 14 0.36
18 8 0.21
19 9 0.23
20 7 0.18
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.25
Consensus pattern (19 bp):
AAATAGATAATAGAAATAT
Found at i:92205421 original size:29 final size:27
Alignment explanation
Indices: 92205360--92205429 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 27
92205350 TAACGAAAAT
*
92205360 AATATTAATATAGAAATAGAAATAGAA
1 AATAATAATATAGAAATAGAAATAGAA
*
92205387 ATATAATAATAGTAGAAATATAAATAGATA
1 A-ATAATAATA-TAGAAATAGAAATAGA-A
*
92205417 AATAAAAAT-TAGA
1 AATAATAATATAGA
92205430 TAAATAATAG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 5 0.14
28 8 0.22
29 22 0.59
30 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (27 bp):
AATAATAATATAGAAATAGAAATAGAA
Found at i:92205429 original size:15 final size:14
Alignment explanation
Indices: 92205373--92205436 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 14
92205363 ATTAATATAG
*
92205373 AAATAGAAATAGA-
1 AAATAAAAATAGAT
* *
92205386 AATATAATAATAGTAG
1 AA-ATAAAAATAG-AT
*
92205402 AAATATAAATAGAT
1 AAATAAAAATAGAT
92205416 AAATAAAAATTAGAT
1 AAATAAAAA-TAGAT
92205431 AAATAA
1 AAATAA
92205437 TAGTATTAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
13 2 0.05
14 17 0.41
15 20 0.49
16 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (14 bp):
AAATAAAAATAGAT
Found at i:92206248 original size:14 final size:14
Alignment explanation
Indices: 92206231--92206264 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
92206221 CTACCAAAAA
92206231 ATATATATGTATAT
1 ATATATATGTATAT
92206245 ATATATATGTATAT
1 ATATATATGTATAT
*
92206259 GTATAT
1 ATATAT
92206265 CACTCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (14 bp):
ATATATATGTATAT
Found at i:92214532 original size:35 final size:35
Alignment explanation
Indices: 92214478--92214917 Score: 445
Period size: 35 Copynumber: 12.6 Consensus size: 35
92214468 TCTTCATTGA
* * * *
92214478 AATACTATACCTATGTTTCACAACTCGGTATGGAA
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * ** * *
92214513 AACACCATACCTACTTTTCA-TGCTCGGTATGGAA
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
** * * *
92214547 AATACCATACCTATATTTTATAACTCAGTATGGAC
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * * * * *
92214582 GATGCCATACCTACGTATCATAGCTCAGTATGGACG
1 AATACCATACCTACGTTTCACAACTCAGTATGGA-T
** * * * * * *
92214618 ACGA-CATACTTACATTTCATAGCTCGGTAT-GAA
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
92214651 AATACCATACCTATGTTTCACAACTCGGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
92214686 AATACCATACCTACGTTTCACAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
92214721 GATACCATACCTACGTTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
92214756 AATACCATATCTACGTTTCACAACTCAGTATGGCT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* * *
92214791 GATACCATACCTACATTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
92214826 AATACCATACCTACGTTTCACAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
92214861 GATACCATACCTACGTTTCACAATTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
92214896 GATACCATACCTACATTTCACA
1 AATACCATACCTACGTTTCACA
92214918 CTTTGCCATG
Statistics
Matches: 341, Mismatches: 60, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
33 2 0.01
34 51 0.15
35 288 0.84
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:92218188 original size:41 final size:42
Alignment explanation
Indices: 92218124--92218202 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
92218114 CTCGAACCCC
* *
92218124 TTTAATTATTTTTGCCTTCA-TTTTCCTTGAAAAATTACTCT
1 TTTAATTATTTTTGCCTTCATTTTTACTTCAAAAATTACTCT
* *
92218165 TTTAATTATTTTT-CATTTTATTTTTACTTCAAAAATTA
1 TTTAATTATTTTTGC-CTTCATTTTTACTTCAAAAATTA
92218203 TTCATGTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 1 0.03
41 16 0.50
42 15 0.47
ACGTcount: A:0.28, C:0.13, G:0.03, T:0.57
Consensus pattern (42 bp):
TTTAATTATTTTTGCCTTCATTTTTACTTCAAAAATTACTCT
Found at i:92218528 original size:39 final size:36
Alignment explanation
Indices: 92218431--92218537 Score: 144
Period size: 36 Copynumber: 2.9 Consensus size: 36
92218421 AAATCTTCAG
* *
92218431 AACAAAGAACCCAACACATTCAAAAAACAAATAACA
1 AACAAAGAACCCAAAACATTCAAAAAATAAATAACA
92218467 AACAAAGAACCCAAAACATTCAAAAAATAAATAACA
1 AACAAAGAACCCAAAACATTCAAAAAATAAATAACA
92218503 AACAATAAAGAACCCAAAATC-TTCAAAAAAATAAA
1 AAC---AAAGAACCCAAAA-CATTC-AAAAAATAAA
92218538 AAAAGAACCC
Statistics
Matches: 64, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
36 37 0.58
39 16 0.25
40 11 0.17
ACGTcount: A:0.65, C:0.21, G:0.03, T:0.11
Consensus pattern (36 bp):
AACAAAGAACCCAAAACATTCAAAAAATAAATAACA
Found at i:92218535 original size:36 final size:35
Alignment explanation
Indices: 92218431--92218549 Score: 124
Period size: 36 Copynumber: 3.4 Consensus size: 35
92218421 AAATCTTCAG
*
92218431 AACAAAGAACCCAACACATTCAAAAAACAAATAACA
1 AACAAAGAACCCAAAACATTC-AAAAACAAATAACA
*
92218467 AACAAAGAACCCAAAACATTCAAAAAATAAATAACA
1 AACAAAGAACCCAAAACATTC-AAAAACAAATAACA
92218503 AACAATAAAGAACCCAAAATC-TTC-AAAA-AAAT-A-A
1 AAC---AAAGAACCCAAAA-CATTCAAAAACAAATAACA
92218537 AA-AAAGAACCCAA
1 AACAAAGAACCCAA
92218550 TATATTCTCA
Statistics
Matches: 77, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
30 11 0.14
34 3 0.04
35 1 0.01
36 41 0.53
37 4 0.05
39 16 0.21
40 1 0.01
ACGTcount: A:0.66, C:0.21, G:0.03, T:0.10
Consensus pattern (35 bp):
AACAAAGAACCCAAAACATTCAAAAACAAATAACA
Found at i:92227443 original size:15 final size:15
Alignment explanation
Indices: 92227420--92227449 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
92227410 AGGATTTGGT
*
92227420 AAAGGAGAAGAAGAA
1 AAAGAAGAAGAAGAA
92227435 AAAGAAGAAGAAGAA
1 AAAGAAGAAGAAGAA
92227450 GAAGTGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (15 bp):
AAAGAAGAAGAAGAA
Found at i:92227722 original size:13 final size:14
Alignment explanation
Indices: 92227704--92227732 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
92227694 AATAAATTTT
92227704 AAATTT-AATTATA
1 AAATTTAAATTATA
92227717 AAATTTAAATTATA
1 AAATTTAAATTATA
92227731 AA
1 AA
92227733 TTAAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATTTAAATTATA
Found at i:92227733 original size:13 final size:13
Alignment explanation
Indices: 92227696--92227739 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
92227686 AATAAAAAAA
*
92227696 TAAATTTTAAATT
1 TAAATTATAAATT
92227709 T-AATTATAAAATT
1 TAAATTAT-AAATT
92227722 TAAATTATAAATT
1 TAAATTATAAATT
*
92227735 AAAAT
1 TAAAT
92227740 ATTTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 5 0.19
13 16 0.59
14 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAATTATAAATT
Found at i:92227737 original size:19 final size:19
Alignment explanation
Indices: 92227695--92227739 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
92227685 TAATAAAAAA
* *
92227695 ATAAATTTTAAATTTAATT
1 ATAAAATTTAAATTTAAAT
92227714 ATAAAATTTAAATTATAAAT
1 ATAAAATTTAAATT-TAAAT
92227734 -TAAAAT
1 ATAAAAT
92227740 ATTTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAAAATTTAAATTTAAAT
Found at i:92228783 original size:29 final size:29
Alignment explanation
Indices: 92228721--92228776 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
92228711 CCGAAAAATA
* *
92228721 AAAAAATTATTAGAATAGGTCTATTTTTG
1 AAAAAATTATGAGAATAAGTCTATTTTTG
92228750 AAAAAATTATGAGAATAAGTC-ATTTTT
1 AAAAAATTATGAGAATAAGTCTATTTTT
92228777 ACGAAAACGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (29 bp):
AAAAAATTATGAGAATAAGTCTATTTTTG
Found at i:92228950 original size:11 final size:11
Alignment explanation
Indices: 92228934--92228967 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
92228924 TCTGACATAT
92228934 TCTCAAATCTC
1 TCTCAAATCTC
*
92228945 TCTCAAATTTC
1 TCTCAAATCTC
*
92228956 TCTCAATTCTC
1 TCTCAAATCTC
92228967 T
1 T
92228968 GTTAAAATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.44
Consensus pattern (11 bp):
TCTCAAATCTC
Found at i:92232234 original size:41 final size:41
Alignment explanation
Indices: 92232174--92232272 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 41
92232164 AAAATAAAAG
* * * ** *
92232174 AGAAAGCGCTTCCAACTGGAAGCGTTTTTAGGTGACTTGGT
1 AGAAAGCGCATCCAACTGGAAACGCTTCCAGGTGACTTGGC
* *
92232215 AGAAAGCTCATCCAGCTGGAAACGCTTCCAGGTGACTTGGC
1 AGAAAGCGCATCCAACTGGAAACGCTTCCAGGTGACTTGGC
**
92232256 AGAAAGCGTGTCCAACT
1 AGAAAGCGCATCCAACT
92232273 AGAAGCGTTT
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (41 bp):
AGAAAGCGCATCCAACTGGAAACGCTTCCAGGTGACTTGGC
Found at i:92232866 original size:20 final size:20
Alignment explanation
Indices: 92232824--92232866 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
92232814 TTTTGAGCAA
*
92232824 TTTAATTTTTTTTATATTCT
1 TTTAATTTTTTTTATATTAT
*
92232844 TTTAACTTTTTTTTCT-TTAT
1 TTTAA-TTTTTTTTATATTAT
92232864 TTT
1 TTT
92232867 CTATTCTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTAATTTTTTTTATATTAT
Found at i:92233136 original size:16 final size:16
Alignment explanation
Indices: 92233117--92233158 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
92233107 AAAGAAAGTT
*
92233117 AAAAGAATATAAAA-G
1 AAAAAAATATAAAATG
92233132 AAAAAAATGA-AAAATG
1 AAAAAAAT-ATAAAATG
92233148 AAAAAAATATA
1 AAAAAAATATA
92233159 GGGACCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (16 bp):
AAAAAAATATAAAATG
Found at i:92233936 original size:10 final size:10
Alignment explanation
Indices: 92233921--92234081 Score: 99
Period size: 10 Copynumber: 16.5 Consensus size: 10
92233911 AACTTTTGAT
92233921 TAAAAAATTA
1 TAAAAAATTA
92233931 TAAAAAATTA
1 TAAAAAATTA
*
92233941 -AAAAGATTA
1 TAAAAAATTA
92233950 TAAAAAATTTA
1 TAAAAAA-TTA
92233961 TTAAAAAA-TA
1 -TAAAAAATTA
92233971 T-AAAAATTA
1 TAAAAAATTA
* *
92233980 TTAAATATT-
1 TAAAAAATTA
92233989 TAAAAAA-TA
1 TAAAAAATTA
* *
92233998 T-GAAACTTGA
1 TAAAAAATT-A
* * *
92234008 TATAAACTCA
1 TAAAAAATTA
92234018 T-AAAAATTA
1 TAAAAAATTA
92234027 T-AAAAA-TA
1 TAAAAAATTA
* *
92234035 TAAAAAAAGTC
1 T-AAAAAATTA
92234046 TAATAAAA-TA
1 TAA-AAAATTA
*
92234056 TAATAAATTA
1 TAAAAAATTA
92234066 TAAAAATATTA
1 TAAAAA-ATTA
92234077 TAAAA
1 TAAAA
92234082 GTAATAAAAC
Statistics
Matches: 120, Mismatches: 16, Indels: 29
0.73 0.10 0.18
Matches are distributed among these distances:
8 12 0.10
9 33 0.28
10 45 0.38
11 23 0.19
12 7 0.06
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:92233949 original size:19 final size:18
Alignment explanation
Indices: 92233919--92234081 Score: 80
Period size: 19 Copynumber: 8.4 Consensus size: 18
92233909 ACAACTTTTG
92233919 ATTAAAAAATTATAAAAA
1 ATTAAAAAATTATAAAAA
92233937 ATTAAAAAGATTATAAAAA
1 ATTAAAAA-ATTATAAAAA
*
92233956 ATTTATTAAAAAATAT-AAAA
1 A-TTA--AAAAATTATAAAAA
*
92233976 ATTATTAAATATT-TAAAAA
1 ATTA--AAAAATTATAAAAA
* * *
92233995 A-TATGAAACTTGATATAAA
1 ATTA-AAAAATT-ATAAAAA
* *
92234014 CTCATAAAAATTATAAAAA
1 ATTA-AAAAATTATAAAAA
* * *
92234033 TATAAAAAAAGTCTAATAAA
1 -ATTAAAAAATTATAA-AAA
*
92234053 ATATAATAAATTATAAAAA
1 AT-TAAAAAATTATAAAAA
92234072 TATTATAAAA
1 -ATTA-AAAA
92234082 GTAATAAAAC
Statistics
Matches: 111, Mismatches: 21, Indels: 24
0.71 0.13 0.15
Matches are distributed among these distances:
17 5 0.05
18 11 0.10
19 53 0.48
20 34 0.31
21 4 0.04
22 4 0.04
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
ATTAAAAAATTATAAAAA
Found at i:92233955 original size:12 final size:11
Alignment explanation
Indices: 92233922--92233976 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
92233912 ACTTTTGATT
92233922 AAAAAATTAT-
1 AAAAAATTATA
92233932 AAAAAA-T-TA
1 AAAAAATTATA
*
92233941 AAAAGATTATA
1 AAAAAATTATA
* *
92233952 AAAAATTTATT
1 AAAAAATTATA
92233963 AAAAAA-TATA
1 AAAAAATTATA
92233973 AAAA
1 AAAA
92233977 TTATTAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
8 1 0.03
9 6 0.17
10 14 0.39
11 15 0.42
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:92234053 original size:11 final size:10
Alignment explanation
Indices: 92234029--92234104 Score: 50
Period size: 10 Copynumber: 7.7 Consensus size: 10
92234019 AAAAATTATA
*
92234029 AAAATATAAA
1 AAAATATAAT
*
92234039 AAAAGTCTAAT
1 AAAA-TATAAT
92234050 AAAATATAAT
1 AAAATATAAT
*
92234060 AAATTAT-A-
1 AAAATATAAT
*
92234068 AAAATATTAT
1 AAAATATAAT
*
92234078 AAAA-GTAAT
1 AAAATATAAT
* *
92234087 AAAACATATTT
1 AAAATATA-AT
92234098 AAAATAT
1 AAAATAT
92234105 TTAAAATTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
8 6 0.12
9 9 0.18
10 21 0.41
11 15 0.29
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (10 bp):
AAAATATAAT
Found at i:92234064 original size:39 final size:36
Alignment explanation
Indices: 92234017--92234090 Score: 103
Period size: 39 Copynumber: 2.0 Consensus size: 36
92234007 ATATAAACTC
92234017 ATAAAAATTATAAAAATATAAAAAAAGTCTAATAAAAT
1 ATAAAAATTATAAAAATATAAAAAAAG--TAATAAAAT
* *
92234055 ATAATAAATTATAAAAATATTATAAAAGTAATAAAA
1 ATAA-AAATTATAAAAATATAAAAAAAGTAATAAAA
92234091 CATATTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 8 0.24
38 4 0.12
39 21 0.64
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (36 bp):
ATAAAAATTATAAAAATATAAAAAAAGTAATAAAAT
Found at i:92234129 original size:21 final size:20
Alignment explanation
Indices: 92234096--92234141 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
92234086 TAAAACATAT
* *
92234096 TTAAAATATTTAAAATTTTA
1 TTAAAACATTTAAAATTCTA
92234116 TTAAAACATATTAAAATTCTA
1 TTAAAACAT-TTAAAATTCTA
92234137 -TAAAA
1 TTAAAA
92234142 GTCATAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAACATTTAAAATTCTA
Found at i:92234695 original size:9 final size:9
Alignment explanation
Indices: 92234660--92234769 Score: 77
Period size: 9 Copynumber: 11.8 Consensus size: 9
92234650 TACGTTTTTT
92234660 TAATTTTAA
1 TAATTTTAA
92234669 GT-ATTTTAAA
1 -TAATTTT-AA
92234679 TAAGTTTTAA
1 TAA-TTTTAA
92234689 TAATTTT-A
1 TAATTTTAA
*
92234697 TAA-TTTAT
1 TAATTTTAA
*
92234705 TATATTTTTA
1 TA-ATTTTAA
92234715 TAATATTT-A
1 TAAT-TTTAA
*
92234724 TAAGTTTTTA
1 TAA-TTTTAA
92234734 T-ATTTTATTA
1 TAATTTTA--A
92234744 TAATTTTTAA
1 TAA-TTTTAA
92234754 TAATTTTAA
1 TAATTTTAA
92234763 TAATTTT
1 TAATTTT
92234770 CTATTTTTTA
Statistics
Matches: 83, Mismatches: 4, Indels: 27
0.73 0.04 0.24
Matches are distributed among these distances:
7 3 0.04
8 10 0.12
9 34 0.41
10 26 0.31
11 5 0.06
12 5 0.06
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (9 bp):
TAATTTTAA
Found at i:92234707 original size:10 final size:9
Alignment explanation
Indices: 92234678--92234786 Score: 100
Period size: 10 Copynumber: 11.9 Consensus size: 9
92234668 AGTATTTTAA
*
92234678 ATAAGTTTTA
1 ATAA-TTTTT
92234688 ATAA-TTTT
1 ATAATTTTT
92234696 ATAATTTATT
1 ATAATTT-TT
92234706 AT-ATTTTT
1 ATAATTTTT
*
92234714 ATAATATTT
1 ATAATTTTT
92234723 ATAAGTTTTT
1 ATAA-TTTTT
*
92234733 ATATTTTATT
1 ATAATTT-TT
92234743 ATAATTTTT
1 ATAATTTTT
*
92234752 AATAATTTTA
1 -ATAATTTTT
92234762 ATAATTTTCT
1 ATAATTTT-T
92234772 AT--TTTTT
1 ATAATTTTT
92234779 ATAATTTT
1 ATAATTTT
92234787 CTTGATGAGA
Statistics
Matches: 83, Mismatches: 7, Indels: 19
0.76 0.06 0.17
Matches are distributed among these distances:
7 3 0.04
8 15 0.18
9 32 0.39
10 33 0.40
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (9 bp):
ATAATTTTT
Found at i:92234711 original size:37 final size:36
Alignment explanation
Indices: 92234671--92234786 Score: 121
Period size: 37 Copynumber: 3.1 Consensus size: 36
92234661 AATTTTAAGT
92234671 ATTTTAAATAAGTTTTAATAATTTTATAATTTATTAT-
1 ATTTT-AATAA-TTTTAATAATTTTATAATTTATTATA
* *
92234708 ATTTTTATAATATTT-ATAAGTTTTTATATTTTATTATA
1 ATTTTAATAAT-TTTAATAA--TTTTATAATTTATTATA
* *
92234746 ATTTTTAATAATTTTAATAATTTTCT-ATTTTTTATA
1 A-TTTTAATAATTTTAATAATTTTATAATTTATTATA
92234782 ATTTT
1 ATTTT
92234787 CTTGATGAGA
Statistics
Matches: 67, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
35 9 0.13
36 16 0.24
37 25 0.37
38 4 0.06
39 13 0.19
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (36 bp):
ATTTTAATAATTTTAATAATTTTATAATTTATTATA
Found at i:92234713 original size:27 final size:25
Alignment explanation
Indices: 92234683--92234786 Score: 93
Period size: 29 Copynumber: 3.8 Consensus size: 25
92234673 TTTAAATAAG
*
92234683 TTTTAATAATTTTATAATTTATTATA
1 TTTTTATAATTTTATAATTT-TTATA
92234709 TTTTTATAATATTTATAAGTTTTTATA
1 TTTTTATAAT-TTTATAA-TTTTTATA
*
92234736 TTTTATTATAATTTTTAATAATTTTAATAA
1 -TTT-TTATAA-TTTT-ATAATTTTTAT-A
*
92234766 TTTTCTAT-TTTTTATAATTTT
1 TTTT-TATAATTTTATAATTTT
92234787 CTTGATGAGA
Statistics
Matches: 67, Mismatches: 3, Indels: 16
0.78 0.03 0.19
Matches are distributed among these distances:
26 17 0.25
27 16 0.24
28 7 0.10
29 21 0.31
30 6 0.09
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (25 bp):
TTTTTATAATTTTATAATTTTTATA
Found at i:92234718 original size:29 final size:27
Alignment explanation
Indices: 92234686--92234786 Score: 84
Period size: 27 Copynumber: 3.7 Consensus size: 27
92234676 AAATAAGTTT
92234686 TAATAATTTTATAATTTATTATATTTT-
1 TAATAATTTTATAATTT-TTATATTTTA
92234713 T-ATAATATTTATAAGTTTTTATATTTTA
1 TAATAAT-TTTATAA-TTTTTATATTTTA
* * *
92234741 TTATAATTTTTAATAATTTTAATAATTTTC
1 TAATAA-TTTT-ATAATTTTTAT-ATTTTA
*
92234771 T-AT-TTTTTATAATTTT
1 TAATAATTTTATAATTTT
92234787 CTTGATGAGA
Statistics
Matches: 64, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
26 13 0.20
27 21 0.33
28 4 0.06
29 15 0.23
30 11 0.17
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (27 bp):
TAATAATTTTATAATTTTTATATTTTA
Found at i:92234724 original size:20 final size:19
Alignment explanation
Indices: 92234692--92234761 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
92234682 GTTTTAATAA
92234692 TTTTATAA-TTTATTATAT
1 TTTTATAATTTTATTATAT
92234710 TTTTATAATATTTA-TA-AGT
1 TTTTATAAT-TTTATTATA-T
92234729 TTTTAT-ATTTTATTATAAT
1 TTTTATAATTTTATTAT-AT
92234748 TTTTAATAATTTTA
1 TTTT-ATAATTTTA
92234762 ATAATTTTCT
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
17 4 0.09
18 13 0.30
19 14 0.32
20 7 0.16
21 6 0.14
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTATTATAT
Found at i:92244500 original size:14 final size:15
Alignment explanation
Indices: 92244466--92244503 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
92244456 GTTTGCGAGT
92244466 AAAAT-ATTTTTCGA
1 AAAATAATTTTTCGA
92244480 AAAATAATTTTT-GA
1 AAAATAATTTTTCGA
92244494 AAAATAATTT
1 AAAATAATTT
92244504 GTTTTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (15 bp):
AAAATAATTTTTCGA
Found at i:92244527 original size:18 final size:19
Alignment explanation
Indices: 92244487--92244528 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
92244477 CGAAAAATAA
**
92244487 TTTTTGAAAAATAATTTGT
1 TTTTTGAAAAATAATTTAC
*
92244506 TTTTTG-AAAATGATTTAC
1 TTTTTGAAAAATAATTTAC
92244524 TTTTT
1 TTTTT
92244529 CTGGTGTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TTTTTGAAAAATAATTTAC
Found at i:92244527 original size:19 final size:19
Alignment explanation
Indices: 92244487--92244528 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
92244477 CGAAAAATAA
*
92244487 TTTTTGAAAAATAATTTGT
1 TTTTTGAAAAATAATTTCT
*
92244506 TTTTTG-AAAATGATTTACT
1 TTTTTGAAAAATAATTT-CT
92244525 TTTT
1 TTTT
92244529 CTGGTGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TTTTTGAAAAATAATTTCT
Found at i:92245246 original size:40 final size:40
Alignment explanation
Indices: 92245201--92245281 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
92245191 TTGTTAGTAG
*
92245201 TTCTACAGGCAAAATAGCTGCCAAAGAGTCTTGCTAACTA
1 TTCTACAGGCAAAATAGCTGCCAAAGAGTCTTACTAACTA
92245241 TTCTACAGGCAAAATAGCTGCCAAAGAGTCTTACTAACTA
1 TTCTACAGGCAAAATAGCTGCCAAAGAGTCTTACTAACTA
92245281 T
1 T
92245282 CTTCCAACTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (40 bp):
TTCTACAGGCAAAATAGCTGCCAAAGAGTCTTACTAACTA
Found at i:92251177 original size:17 final size:17
Alignment explanation
Indices: 92251127--92251217 Score: 64
Period size: 17 Copynumber: 5.4 Consensus size: 17
92251117 GCTAAGTGCA
* *
92251127 AACTATGTTATTATGCG
1 AACTATATTGTTATGCG
*
92251144 AACCTAT-TCTG-TGTGCG
1 AA-CTATAT-TGTTATGCG
92251161 AACTATATTGTTATGCG
1 AACTATATTGTTATGCG
*
92251178 AACT-TACGTT-TTATGTG
1 AACTATA--TTGTTATGCG
* *
92251195 AACTATGTTGTTATGCA
1 AACTATATTGTTATGCG
92251212 AACTAT
1 AACTAT
92251218 GCTAGGTACA
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
16 10 0.17
17 41 0.69
18 8 0.14
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (17 bp):
AACTATATTGTTATGCG
Found at i:92257619 original size:6 final size:6
Alignment explanation
Indices: 92257608--92257643 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
92257598 TTAGTAGTTT
*
92257608 AATATA AATATA AATATA AATATA TATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA
92257644 TATAATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AATATA
Found at i:92257644 original size:12 final size:12
Alignment explanation
Indices: 92257609--92257647 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
92257599 TAGTAGTTTA
*
92257609 ATATAAATATAA
1 ATATAAATATAT
92257621 ATATAAATATAT
1 ATATAAATATAT
92257633 ATATAAATATAT
1 ATATAAATATAT
92257645 ATA
1 ATA
92257648 ATTATTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATAAATATAT
Found at i:92257679 original size:29 final size:29
Alignment explanation
Indices: 92257631--92257695 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
92257621 ATATAAATAT
92257631 ATATATAAATATATATAATTATTATT-TAAC
1 ATATATAAATATATATAATT-TT-TTATAAC
*
92257661 ATATATAATTA-ATATAATTTTTTATAAC
1 ATATATAAATATATATAATTTTTTATAAC
92257689 ATGATAT
1 AT-ATAT
92257696 TTCCGTTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 2 0.06
28 8 0.25
29 12 0.38
30 10 0.31
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATATAAATATATATAATTTTTTATAAC
Found at i:92267250 original size:66 final size:66
Alignment explanation
Indices: 92267144--92267273 Score: 197
Period size: 66 Copynumber: 2.0 Consensus size: 66
92267134 TAGGTCGATG
*
92267144 GATAGTGTGAGTAATCTCCACCAATGCTTCCAGTCCAACGAGCTTCCAAATTACTATAGAACAAT
1 GATAGTGTGAGTAATCTCCACCAATGCTTCCAATCCAACGAGCTTCCAAATTACTATAGAACAAT
92267209 A
66 A
* * * * **
92267210 GATAGTGTGAGTGATCTCTATCGATGCTTCCAATCCAACGAGCTTCTGAATTACTATAGAACAA
1 GATAGTGTGAGTAATCTCCACCAATGCTTCCAATCCAACGAGCTTCCAAATTACTATAGAACAA
92267274 GGGAAAATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (66 bp):
GATAGTGTGAGTAATCTCCACCAATGCTTCCAATCCAACGAGCTTCCAAATTACTATAGAACAAT
A
Found at i:92274027 original size:12 final size:12
Alignment explanation
Indices: 92274006--92274043 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
92273996 GTGAAAATTA
92274006 AAATTTAATGTG
1 AAATTTAATGTG
*
92274018 AAATTGAATGTG
1 AAATTTAATGTG
92274030 AAATATTAATGTG
1 AAAT-TTAATGTG
92274043 A
1 A
92274044 TTTAATTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (12 bp):
AAATTTAATGTG
Found at i:92274731 original size:43 final size:43
Alignment explanation
Indices: 92274683--92274768 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
92274673 TATGTGATTG
*
92274683 ATATTGAAATGGAAAAGATGAGAAATGAATATGAGTTGAGAAA
1 ATATTGAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAA
* * *
92274726 ATATTGAAATGGCAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAA
92274769 TGAAATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.50, C:0.01, G:0.24, T:0.24
Consensus pattern (43 bp):
ATATTGAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:92278857 original size:29 final size:29
Alignment explanation
Indices: 92278798--92278900 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
92278788 GTGACGAGAT
* * * *
92278798 TGGCACTGAGTGTGTGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
92278827 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
92278856 TGGCACTATGTGTGCGGGCTT-GAATCACA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
92278885 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
92278901 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.16, G:0.33, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:92281615 original size:46 final size:46
Alignment explanation
Indices: 92281210--92281616 Score: 555
Period size: 46 Copynumber: 8.8 Consensus size: 46
92281200 TTTGACATGA
* * * * * *
92281210 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGT
* * * **
92281256 TGTCATGGTATCTTTCAGCCATGGTCTTGTTCATTTCATGTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
** * *
92281302 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTTATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
** *
92281348 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTTACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
*
92281394 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
*
92281440 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* * *
92281486 TTCCATGGTATCTTTCAACTATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* *
92281532 CGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
**
92281578 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
92281617 TTCAGAAAGC
Statistics
Matches: 330, Mismatches: 30, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.01
46 326 0.99
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
Found at i:92283709 original size:30 final size:31
Alignment explanation
Indices: 92283654--92283712 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
92283644 CACCCTTAAA
* * *
92283654 ATATTTGCACTATTAGTCCTTCAAATTTTTT
1 ATATTTACACTATTAATCCCTCAAATTTTTT
92283685 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
92283713 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.29, C:0.19, G:0.03, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTT
Found at i:92283720 original size:30 final size:31
Alignment explanation
Indices: 92283654--92283722 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
92283644 CACCCTTAAA
* * * *
92283654 ATATTTGCACTATTAGTCCTTCAAATTTTTT
1 ATATTTACACTATTAATCCCTCAAATTTTTG
92283685 ATATTTACACT-TTAATCCCTCAAA-TTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTTG
92283714 AGTATTTAC
1 A-TATTTAC
92283723 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 18 0.55
31 10 0.30
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTG
Found at i:92294089 original size:15 final size:13
Alignment explanation
Indices: 92294047--92294081 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
92294037 ATCTTGTTCT
92294047 ATTTATATTT-TGA
1 ATTTATATTTAT-A
92294060 ATTTATATTTATA
1 ATTTATATTTATA
92294073 ATTTATATT
1 ATTTATATT
92294082 AATATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 20 0.95
14 1 0.05
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (13 bp):
ATTTATATTTATA
Found at i:92295552 original size:2 final size:2
Alignment explanation
Indices: 92295545--92295576 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
92295535 AAGATCTCCA
92295545 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92295577 TTAAAGCTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92302951 original size:18 final size:19
Alignment explanation
Indices: 92302918--92303024 Score: 62
Period size: 19 Copynumber: 5.6 Consensus size: 19
92302908 AATAAATTTT
92302918 AAAATTTAAAATATTTATA
1 AAAATTTAAAATATTTATA
*
92302937 AAAATTTTAAA-ATTTAT-
1 AAAATTTAAAATATTTATA
** * *
92302954 -ATTTTTAAAAAATATATA
1 AAAATTTAAAATATTTATA
92302972 AAAATTCTAAAAATATATTA-A
1 AAAATT-T-AAAATAT-TTATA
* * *
92302993 AAAAGTTAAGAT-TTTTTA
1 AAAATTTAAAATATTTATA
92303011 AAAGATTTTAAAAT
1 AAA-A-TTTAAAAT
92303025 TATAATTTTG
Statistics
Matches: 65, Mismatches: 14, Indels: 17
0.68 0.15 0.18
Matches are distributed among these distances:
16 7 0.11
17 7 0.11
18 11 0.17
19 18 0.28
20 8 0.12
21 12 0.18
22 2 0.03
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (19 bp):
AAAATTTAAAATATTTATA
Found at i:92320293 original size:8 final size:8
Alignment explanation
Indices: 92320276--92320308 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
92320266 TCTCTTATTC
92320276 ATAAAG-A
1 ATAAAGAA
*
92320283 ATAATGAA
1 ATAAAGAA
92320291 ATAAAGAA
1 ATAAAGAA
92320299 ATAAAGAA
1 ATAAAGAA
92320307 AT
1 AT
92320309 GGAGCGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 5 0.22
8 18 0.78
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (8 bp):
ATAAAGAA
Found at i:92334297 original size:49 final size:49
Alignment explanation
Indices: 92334131--92334363 Score: 286
Period size: 49 Copynumber: 4.7 Consensus size: 49
92334121 TGAGGTCGCA
* * * * * *
92334131 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTATGATTACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
92334182 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
*
92334232 TGTGTAGTACTAAGTGCAGGCTATTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
92334281 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * * *
92334330 TGTATAGTACCATGTGCAGGCTACTATGTGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC
92334364 AGTTAGCTTT
Statistics
Matches: 160, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
49 84 0.52
50 43 0.27
51 33 0.21
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:92334310 original size:99 final size:101
Alignment explanation
Indices: 92334131--92334312 Score: 287
Period size: 99 Copynumber: 1.8 Consensus size: 101
92334121 TGAGGTCGCA
* * *
92334131 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTATGATTACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGAAAACTATGATCACGTGTGTAGTACTAAG
92334196 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
66 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
* * * *
92334232 TGTGTAGTACTAAGTGCAGGCTATTACGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGAAAACTATGATCACGTGTGTAGTACTAAG
92334295 TGCAGGCTACTACGTGTA
66 TGCAGGCTACTACGTGTA
92334313 CCGGATAATT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
99 38 0.51
100 1 0.01
101 35 0.47
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGAAAACTATGATCACGTGTGTAGTACTAAG
TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
Found at i:92344815 original size:40 final size:40
Alignment explanation
Indices: 92344761--92344839 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
92344751 ATAAAGAAGA
* *
92344761 AAGAAAAGGGTTCATGCCATTTAGGGTTTCAGCACTATGG
1 AAGAAAAGGATTCATGCCATTTAGGGTTTCAACACTATGG
92344801 AAGAAAAGGATTCATGCCATTTAGGGTTTCAACACTATG
1 AAGAAAAGGATTCATGCCATTTAGGGTTTCAACACTATG
92344840 AAAGCTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (40 bp):
AAGAAAAGGATTCATGCCATTTAGGGTTTCAACACTATGG
Found at i:92351896 original size:23 final size:23
Alignment explanation
Indices: 92351840--92351909 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
92351830 TCATTAACAT
* *
92351840 TGTTTGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCGATTA-A
* *
92351864 TGTTCATGAACATGTTCGTTTAA
1 TGTTCGTGAACATGTTCGATTAA
*
92351887 TGTTCGTGAACATATTCGATTAA
1 TGTTCGTGAACATGTTCGATTAA
92351910 GTTAAATGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 21 0.54
24 18 0.46
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:92357389 original size:18 final size:18
Alignment explanation
Indices: 92357349--92357389 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
92357339 CTAATCTTTA
92357349 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTTT
*
92357366 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTT-ATTTT
92357385 -TTTAT
1 ATTTAT
92357390 CTGACTTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTATTTATTTTATTTT
Found at i:92357805 original size:3 final size:3
Alignment explanation
Indices: 92357797--92357829 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
92357787 GAGTTTACGA
92357797 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
92357830 TTCAATTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:92370629 original size:13 final size:13
Alignment explanation
Indices: 92370613--92370643 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
92370603 TAAACCAAAT
92370613 TTTTTAAAAATAC
1 TTTTTAAAAATAC
92370626 TTTTTAAAAATAC
1 TTTTTAAAAATAC
92370639 TTTTT
1 TTTTT
92370644 CATATCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTTTAAAAATAC
Found at i:92372126 original size:90 final size:90
Alignment explanation
Indices: 92371973--92372151 Score: 349
Period size: 90 Copynumber: 2.0 Consensus size: 90
92371963 GATCTGAACA
92371973 CCGACAGTTGGACAAGAGGGCGTTTTGCCCGCATGGTTGTGTATGTTAGTCTGGATAAGCCTCTA
1 CCGACAGTTGGACAAGAGGGCGTTTTGCCCGCATGGTTGTGTATGTTAGTCTGGATAAGCCTCTA
92372038 ATATCCAAGGTTTTGGTTAATGGCT
66 ATATCCAAGGTTTTGGTTAATGGCT
*
92372063 CCGACAGTTGGACAAGATGGCGTTTTGCCCGCATGGTTGTGTATGTTAGTCTGGATAAGCCTCTA
1 CCGACAGTTGGACAAGAGGGCGTTTTGCCCGCATGGTTGTGTATGTTAGTCTGGATAAGCCTCTA
92372128 ATATCCAAGGTTTTGGTTAATGGC
66 ATATCCAAGGTTTTGGTTAATGGC
92372152 AAACCACAGA
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (90 bp):
CCGACAGTTGGACAAGAGGGCGTTTTGCCCGCATGGTTGTGTATGTTAGTCTGGATAAGCCTCTA
ATATCCAAGGTTTTGGTTAATGGCT
Found at i:92373136 original size:21 final size:21
Alignment explanation
Indices: 92373084--92373138 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
92373074 ATCGTTGTTT
* *
92373084 CTAATCTCACCGCTATAGTAT
1 CTAATCTCACTGCTATAGTAA
* *
92373105 CCAATCTCACTTCTATAGTAA
1 CTAATCTCACTGCTATAGTAA
92373126 CTAATCTCACTGC
1 CTAATCTCACTGC
92373139 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.33
Consensus pattern (21 bp):
CTAATCTCACTGCTATAGTAA
Found at i:92378495 original size:23 final size:25
Alignment explanation
Indices: 92378469--92378515 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
92378459 TATCATTCAT
*
92378469 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
92378492 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
92378516 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:92378835 original size:46 final size:45
Alignment explanation
Indices: 92378775--92379070 Score: 328
Period size: 38 Copynumber: 7.0 Consensus size: 45
92378765 TTTGACGTGA
* * * * * *
92378775 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGT
*
92378821 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTTATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAT-TTCTATCAGGT
92378867 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C-A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
92378905 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGT
92378951 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C-A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
*
92378989 TGCCATGGTATCTTTCAACCATGGTCTT--TCA---C-A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
*
92379027 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAG
92379071 AGAGCACACT
Statistics
Matches: 222, Mismatches: 11, Indels: 34
0.83 0.04 0.13
Matches are distributed among these distances:
38 102 0.46
39 2 0.01
40 5 0.02
41 1 0.00
43 2 0.01
44 6 0.03
45 3 0.01
46 101 0.45
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGT
Found at i:92378960 original size:84 final size:84
Alignment explanation
Indices: 92378819--92379059 Score: 392
Period size: 84 Copynumber: 3.0 Consensus size: 84
92378809 TTTCTGTCAT
92378819 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTTATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTTATATCAGGTTGCCATGGTATCTTTCA
92378884 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
92378903 GTTGCCATGGTATCTTTCAACCATGGTCTTACACAT-TTCATATCAGGTTGCCATGGTATCTTTC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTT-ATATCAGGTTGCCATGGTATCTTTC
92378967 AACCATGGTCTTACACACAG
65 AACCATGGTCTTACACACAG
* *
92378987 GTTGCCATGGTATCTTTCAACCATGGTCTT-----TC--ACA-CAGGTTGTCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTTATATCAGGTTGCCATGGTATCTTTCA
92379044 ACCATGGTCTTACACA
66 ACCATGGTCTTACACA
92379060 TTTCATATCA
Statistics
Matches: 153, Mismatches: 2, Indels: 12
0.92 0.01 0.07
Matches are distributed among these distances:
76 37 0.24
77 2 0.01
79 1 0.01
83 2 0.01
84 111 0.73
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (84 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTTATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACACAG
Found at i:92384361 original size:2 final size:2
Alignment explanation
Indices: 92384354--92384383 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
92384344 ACATGATAAA
92384354 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
92384384 TCAATTGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92384638 original size:35 final size:35
Alignment explanation
Indices: 92384589--92384692 Score: 163
Period size: 35 Copynumber: 3.0 Consensus size: 35
92384579 TCTCTGTTTA
*
92384589 GCGTGTTTCAGTTGGACTAGCTCTTGTGAGCATTG
1 GCGTGTTTCGGTTGGACTAGCTCTTGTGAGCATTG
*
92384624 GCGTGTTTCGGTTGGACTAGCTCTTATGAGCATTG
1 GCGTGTTTCGGTTGGACTAGCTCTTGTGAGCATTG
* * *
92384659 GCATGTTTCGGTTGGACTAACTCTTGTGAACATT
1 GCGTGTTTCGGTTGGACTAGCTCTTGTGAGCATT
92384693 TGGTGTGGCT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 63 1.00
ACGTcount: A:0.16, C:0.17, G:0.29, T:0.38
Consensus pattern (35 bp):
GCGTGTTTCGGTTGGACTAGCTCTTGTGAGCATTG
Found at i:92391289 original size:96 final size:96
Alignment explanation
Indices: 92391121--92391304 Score: 253
Period size: 96 Copynumber: 1.9 Consensus size: 96
92391111 TGCTGTTCAA
* * * * **
92391121 ACAAGCTGTCGAGTATTCACAACTAATGTTGGACCTCAACCATTGATAGGACATTCAAGACCAGT
1 ACAAGCTGTCAAGTATTCACAACTAATGCTGGAACTCAACCATAGATAGGACATTCAAGACCAAC
*
92391186 ACCCGAAACATGGTAACCTTGATCTGCTCAC
66 ACCCGAAACATGGTAACCCTGATCTGCTCAC
* * *
92391217 ACAAGCTGTCAAGTA-TCTGCAACTAATGCTGGAACTCAACGATAGGTAGGACATTCAAGACCAA
1 ACAAGCTGTCAAGTATTC-ACAACTAATGCTGGAACTCAACCATAGATAGGACATTCAAGACCAA
*
92391281 CACTCGAAACATGGTAACCCTGAT
65 CACCCGAAACATGGTAACCCTGAT
92391305 GACATGTCAT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
95 2 0.03
96 74 0.97
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (96 bp):
ACAAGCTGTCAAGTATTCACAACTAATGCTGGAACTCAACCATAGATAGGACATTCAAGACCAAC
ACCCGAAACATGGTAACCCTGATCTGCTCAC
Found at i:92393555 original size:20 final size:20
Alignment explanation
Indices: 92393532--92393570 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
92393522 ATAATTTCAA
92393532 AAATAAATATATATTTTTTT
1 AAATAAATATATATTTTTTT
*
92393552 AAATAAATTTATATTTTTT
1 AAATAAATATATATTTTTT
92393571 AATTATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
AAATAAATATATATTTTTTT
Found at i:92393673 original size:15 final size:16
Alignment explanation
Indices: 92393638--92393670 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
92393628 TGTGGGAAAG
92393638 AAAT-ATATATTTCTA
1 AAATAATATATTTCTA
*
92393653 AAATAATATATTTTTA
1 AAATAATATATTTCTA
92393669 AA
1 AA
92393671 TAAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATAATATATTTCTA
Found at i:92394705 original size:20 final size:20
Alignment explanation
Indices: 92394680--92394728 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
92394670 AAAAATAAAT
*
92394680 TTACAAATAAATATAAAAAA
1 TTACAAAAAAATATAAAAAA
*
92394700 TTACAAAAAAAAATATAAAAGA
1 TTAC--AAAAAAATATAAAAAA
92394722 TTACAAA
1 TTACAAA
92394729 GATTATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 7 0.28
22 18 0.72
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.22
Consensus pattern (20 bp):
TTACAAAAAAATATAAAAAA
Found at i:92394738 original size:28 final size:26
Alignment explanation
Indices: 92394707--92394764 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
92394697 AAATTACAAA
92394707 AAAAAATA-TAAAAGATTACAAAGATTAT
1 AAAAAATATTAAAA-A-TACAAA-ATTAT
* *
92394735 AAAAATTATTAAAAATAGAAAATTAT
1 AAAAAATATTAAAAATACAAAATTAT
92394761 AAAA
1 AAAA
92394765 TTATAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 9 0.33
27 5 0.19
28 8 0.30
29 5 0.19
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (26 bp):
AAAAAATATTAAAAATACAAAATTAT
Found at i:92394749 original size:10 final size:9
Alignment explanation
Indices: 92394707--92394771 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
92394697 AAATTACAAA
*
92394707 AAAAAATAT
1 AAAAATTAT
*
92394716 AAAAGATTAC
1 AAAA-ATTAT
*
92394726 AAAGATTAT
1 AAAAATTAT
92394735 AAAAATTATT
1 AAAAATTA-T
92394745 AAAAA-TA-
1 AAAAATTAT
*
92394752 GAAAATTAT
1 AAAAATTAT
92394761 -AAAATTAT
1 AAAAATTAT
92394769 AAA
1 AAA
92394772 TTACAAAAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
7 4 0.09
8 10 0.22
9 19 0.42
10 12 0.27
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:92394787 original size:26 final size:25
Alignment explanation
Indices: 92394753--92394819 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
92394743 TTAAAAATAG
*
92394753 AAAATTATAAAATTATAAA-TTACAA
1 AAAAATATAAAA-TATAAAGTTACAA
*
92394778 AAACAATATAAAA-ATAAAGTTACTA
1 AAA-AATATAAAATATAAAGTTACAA
*
92394803 AAAAATTTAAAAATATA
1 AAAAATAT-AAAATATA
92394820 GTAAAATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
24 9 0.26
25 15 0.43
26 11 0.31
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.28
Consensus pattern (25 bp):
AAAAATATAAAATATAAAGTTACAA
Found at i:92394794 original size:24 final size:24
Alignment explanation
Indices: 92394753--92394817 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 24
92394743 TTAAAAATAG
*
92394753 AAAATTATAAAATTATAAA-TTACAA
1 AAAAATATAAAA--ATAAAGTTACAA
*
92394778 AAACAATATAAAAATAAAGTTACTA
1 AAA-AATATAAAAATAAAGTTACAA
*
92394803 AAAAATTTAAAAATA
1 AAAAATATAAAAATA
92394818 TAGTAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 16 0.46
25 11 0.31
26 8 0.23
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAAATATAAAAATAAAGTTACAA
Found at i:92397609 original size:40 final size:39
Alignment explanation
Indices: 92397444--92397627 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
92397434 AAATTGAATG
* * *
92397444 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
92397484 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
92397524 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
92397564 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
92397603 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
92397628 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:92397652 original size:80 final size:81
Alignment explanation
Indices: 92397484--92397672 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
92397474 GCTGGAAATT
* * * *
92397484 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
92397549 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
92397565 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
92397628 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
92397644 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
92397673 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:92405730 original size:40 final size:39
Alignment explanation
Indices: 92405565--92405748 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
92405555 AAATTGAATG
* * *
92405565 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
92405605 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
92405645 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
92405685 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
92405724 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
92405749 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:92405773 original size:80 final size:81
Alignment explanation
Indices: 92405605--92405793 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
92405595 GCTGGAAATT
* * * *
92405605 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
92405670 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
92405686 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
92405749 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
92405765 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
92405794 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:92407299 original size:15 final size:15
Alignment explanation
Indices: 92407275--92407305 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
92407265 ATTATTTTTT
*
92407275 AAAATTATAAAAATA
1 AAAATAATAAAAATA
92407290 AAAATAATAAAAATA
1 AAAATAATAAAAATA
92407305 A
1 A
92407306 TTTGAAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATAATAAAAATA
Found at i:92415984 original size:21 final size:21
Alignment explanation
Indices: 92415959--92416000 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
92415949 TCAAGTTTTT
92415959 TGTTCTTGAGGTATCAAGACA
1 TGTTCTTGAGGTATCAAGACA
* *
92415980 TGTTCTTGATGTATCTAGACA
1 TGTTCTTGAGGTATCAAGACA
92416001 CTAGCCCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.38
Consensus pattern (21 bp):
TGTTCTTGAGGTATCAAGACA
Found at i:92419085 original size:43 final size:41
Alignment explanation
Indices: 92418918--92419102 Score: 243
Period size: 40 Copynumber: 4.6 Consensus size: 41
92418908 AACCCAAGTA
*
92418918 CCTTCGGGATTTAG-CCGGATATAGCA-ACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCACACTCGCACAAATG
* * * * * *
92418957 CCTTAGGGTCTTAGCCCGAATATAG-TCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCACACTCGCACAAATG
*
92418997 CCTTCGGGACTTAGCCCGGATATAG-TCACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCACACTCGCACAAATG
*
92419037 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-AC-ACTCGCACAAATG
92419080 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
92419103 CATCCGAATA
Statistics
Matches: 126, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 11 0.09
40 79 0.63
42 1 0.01
43 35 0.28
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGCACACTCGCACAAATG
Found at i:92423844 original size:26 final size:24
Alignment explanation
Indices: 92423799--92423848 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
92423789 TTGTAAATCA
*
92423799 GAAAAATATCTTTAGAAATTTTCT
1 GAAAAATATCTTCAGAAATTTTCT
*
92423823 GAAATAATCTCTTCAGAGAATTTTCT
1 GAAA-AATATCTTCAGA-AATTTTCT
92423849 CTCTACAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (24 bp):
GAAAAATATCTTCAGAAATTTTCT
Found at i:92426213 original size:19 final size:21
Alignment explanation
Indices: 92426189--92426233 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
92426179 ACATCATTTT
92426189 CAGAAGC-C-TGAAAGCTAAA
1 CAGAAGCTCATGAAAGCTAAA
*
92426208 CAGAAGCTCATGAGAGCTAAA
1 CAGAAGCTCATGAAAGCTAAA
92426229 CAGAA
1 CAGAA
92426234 ATCCGTAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.30
20 1 0.04
21 15 0.65
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.11
Consensus pattern (21 bp):
CAGAAGCTCATGAAAGCTAAA
Found at i:92426251 original size:21 final size:21
Alignment explanation
Indices: 92426227--92426296 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
92426217 ATGAGAGCTA
* *
92426227 AACAGAAATCCGTAAGGGTTG
1 AACAGAAACCCATAAGGGTTG
* * *
92426248 AACA-AAAGCTCATAAGAGATG
1 AACAGAAA-CCCATAAGGGTTG
* *
92426269 AACGGAAACCCATAAGGGTTA
1 AACAGAAACCCATAAGGGTTG
92426290 AACAGAA
1 AACAGAA
92426297 GCTCAATAGG
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
20 3 0.08
21 30 0.83
22 3 0.08
ACGTcount: A:0.47, C:0.16, G:0.23, T:0.14
Consensus pattern (21 bp):
AACAGAAACCCATAAGGGTTG
Found at i:92426313 original size:42 final size:42
Alignment explanation
Indices: 92426204--92426360 Score: 154
Period size: 42 Copynumber: 3.7 Consensus size: 42
92426194 GCCTGAAAGC
* * * * *
92426204 TAAACAGAAGCTCATGAGAGCTAAACAGAAATCCGTAAGGGT
1 TAAACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGT
* * *
92426246 TGAACAAAAGCTCATAAGAGATGAACGGAAACCCATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGT
* * * *
92426288 TAAACAGAAGCTCA-ATAGGGCTGAACGGAAACTCATATGAGT
1 TAAACAGAAGCTCATA-AGAGCTGAACGGAAACCCATAAGGGT
* * * *
92426330 TTAACAGAAGCTCGTGAGAGCTAAACGGAAA
1 TAAACAGAAGCTCATAAGAGCTGAACGGAAA
92426361 GTAAACATGA
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
41 1 0.01
42 92 0.99
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.17
Consensus pattern (42 bp):
TAAACAGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGT
Found at i:92426322 original size:21 final size:22
Alignment explanation
Indices: 92426267--92426322 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 22
92426257 TCATAAGAGA
* *
92426267 TGAACGGAAAC-CCATAAGGGT
1 TGAACGGAAACTCAATAAGGGC
* * *
92426288 TAAACAGAAGCTCAAT-AGGGC
1 TGAACGGAAACTCAATAAGGGC
92426309 TGAACGGAAACTCA
1 TGAACGGAAACTCA
92426323 TATGAGTTTA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (22 bp):
TGAACGGAAACTCAATAAGGGC
Done.