Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 152 of 189
Found at i:45839223 original size:16 final size:16
Alignment explanation
Indices: 45839204--45839353 Score: 76
Period size: 16 Copynumber: 10.0 Consensus size: 16
45839194 ATACATAGCC
45839204 TACATAACTTACATAA
1 TACATAACTTACATAA
*
45839220 TACACAACTTACATAA
1 TACATAACTTACATAA
45839236 TACATAAC-T---T--
1 TACATAACTTACATAA
* * *
45839246 T-GATAACTAACATTA
1 TACATAACTTACATAA
*
45839261 TACACAACTTACATAA
1 TACATAACTTACATAA
*
45839277 TACATTACTTAC-T--
1 TACATAACTTACATAA
*
45839290 TA-AT-A--TACATAGCC
1 TACATAACTTACATA--A
*
45839304 TACAAAACTTACATAA
1 TACATAACTTACATAA
*
45839320 TACACAACTTACATAA
1 TACATAACTTACATAA
*
45839336 CTTAAATAACTTACATAA
1 --TACATAACTTACATAA
45839354 CTTACTTGTG
Statistics
Matches: 101, Mismatches: 15, Indels: 34
0.67 0.10 0.23
Matches are distributed among these distances:
9 8 0.08
10 2 0.02
11 1 0.01
12 3 0.03
13 3 0.03
14 2 0.02
15 4 0.04
16 58 0.57
18 20 0.20
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:45839232 original size:25 final size:25
Alignment explanation
Indices: 45839155--45839242 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 25
45839145 CTTATATATA
*
45839155 AACTTGCATAACTTACATAATA-AC
1 AACTTACATAACTTACATAATACAC
*
45839179 -A--TA-ATAACTTACATAATACAT
1 AACTTACATAACTTACATAATACAC
* *
45839200 AGCCTACATAACTTACATAATACAC
1 AACTTACATAACTTACATAATACAC
45839225 AACTTACATAA--TACATAA
1 AACTTACATAACTTACATAA
45839243 CTTTGATAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
20 15 0.28
21 2 0.04
23 8 0.15
24 2 0.04
25 26 0.49
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.28
Consensus pattern (25 bp):
AACTTACATAACTTACATAATACAC
Found at i:45839276 original size:25 final size:24
Alignment explanation
Indices: 45839220--45839283 Score: 58
Period size: 25 Copynumber: 2.6 Consensus size: 24
45839210 ACTTACATAA
* * *
45839220 TACACAACTTACATAATACATAACT
1 TACATAAC-TACATTATACACAACT
**
45839245 TTGATAACTAACATTATACACAACT
1 TACATAACT-ACATTATACACAACT
45839270 TACATAA-TACATTA
1 TACATAACTACATTA
45839284 CTTACTTAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
23 6 0.19
24 2 0.06
25 23 0.74
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (24 bp):
TACATAACTACATTATACACAACT
Found at i:45839762 original size:27 final size:27
Alignment explanation
Indices: 45839724--45839777 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
45839714 TATGTTGCGG
45839724 GATGCATTTAATATGCACAATCATGGT
1 GATGCATTTAATATGCACAATCATGGT
45839751 GATGCATTTAATATGCACAATCATGGT
1 GATGCATTTAATATGCACAATCATGGT
45839778 TTTTAGTCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (27 bp):
GATGCATTTAATATGCACAATCATGGT
Found at i:45844893 original size:66 final size:65
Alignment explanation
Indices: 45844786--45844950 Score: 215
Period size: 66 Copynumber: 2.5 Consensus size: 65
45844776 GAGCAAATTA
* * * *
45844786 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATAAAGAACTCCA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATAAAGAACTCCA
45844850 G
65 G
* *
45844851 CTACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATAAAGAACTCCA
45844916 G
65 G
* * *
45844917 CAGCAGCTTAAAGTAGATGCGGCAGCGAGAGAAG
1 CA-CAACTTAAAGCAGATGCAGCAGCGAGAGAAG
45844951 TAGAGGCGAC
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
65 2 0.02
66 82 0.93
67 4 0.05
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATAAAGAACTCCAG
Found at i:45844952 original size:21 final size:21
Alignment explanation
Indices: 45844927--45844997 Score: 88
Period size: 21 Copynumber: 3.4 Consensus size: 21
45844917 CAGCAGCTTA
* *
45844927 AAGTAGATGCGGCAGCGAGAG
1 AAGTAGAGGCGACAGCGAGAG
45844948 AAGTAGAGGCGACAGCGAGAG
1 AAGTAGAGGCGACAGCGAGAG
* * *
45844969 AAGCAGAGGCTACAGCGAGGG
1 AAGTAGAGGCGACAGCGAGAG
*
45844990 AAGCAGAG
1 AAGTAGAG
45844998 CAGCGTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.37, C:0.15, G:0.42, T:0.06
Consensus pattern (21 bp):
AAGTAGAGGCGACAGCGAGAG
Found at i:45845418 original size:44 final size:44
Alignment explanation
Indices: 45845370--45845504 Score: 179
Period size: 43 Copynumber: 3.1 Consensus size: 44
45845360 ACAAAAGTGT
*
45845370 CGCTAAAAGATAAGGGTATTTAGCGGCGTTTGTGGAGAAAGCGC
1 CGCTAAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAGAAAGCGC
*
45845414 CGCT-AAAGATAAGGGTCTTTAGCGGCGTTTGTGGATAAAGCGC
1 CGCTAAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAGAAAGCGC
* * *
45845457 TGCTAAAA-ATCAA-GTTCTTTTGCGGCGTTTGTGCGAG-AAGCGC
1 CGCTAAAAGAT-AAGGGTCTTTAGCGGCGTTTGTG-GAGAAAGCGC
45845500 CGCTA
1 CGCTA
45845505 TAGACCAACA
Statistics
Matches: 81, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
43 70 0.86
44 11 0.14
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (44 bp):
CGCTAAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAGAAAGCGC
Found at i:45845525 original size:43 final size:41
Alignment explanation
Indices: 45845388--45845529 Score: 140
Period size: 43 Copynumber: 3.3 Consensus size: 41
45845378 GATAAGGGTA
* *
45845388 TTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGATAAGGGTC
1 TTTAGCGGCGTTTGTGGAG-AAGCGCCGCTAAAGACAA-GATC
* * * *
45845431 TTTAGCGGCGTTTGTGGATAAAGCGCTGCTAAAAATCAAGTTC
1 TTTAGCGGCGTTTGTGGA-GAAGCGCCGCTAAAGA-CAAGATC
* * * *
45845474 TTTTGCGGCGTTTGTGCGAGAAGCGCCGCTATAGACCAACACC
1 TTTAGCGGCGTTTGTG-GAGAAGCGCCGCTAAAGA-CAAGATC
45845517 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
45845530 ATTTCTAAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
43 77 0.95
44 4 0.05
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (41 bp):
TTTAGCGGCGTTTGTGGAGAAGCGCCGCTAAAGACAAGATC
Found at i:45848264 original size:14 final size:13
Alignment explanation
Indices: 45848239--45848279 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
45848229 GGTAAATAGT
*
45848239 TAATTAAATTATA
1 TAATTTAATTATA
45848252 TAATTTAATTTATA
1 TAATTTAA-TTATA
*
45848266 TTATTTAATTATA
1 TAATTTAATTATA
45848279 T
1 T
45848280 TGTACATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATTTAATTATA
Found at i:45849230 original size:18 final size:18
Alignment explanation
Indices: 45849203--45849244 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
45849193 GTATCACCCA
**
45849203 CCTCCACCTCTCATATAT
1 CCTCCACCTCAAATATAT
*
45849221 CCTCCTCCTCAAATATAT
1 CCTCCACCTCAAATATAT
45849239 CCTCCA
1 CCTCCA
45849245 TATCAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.45, G:0.00, T:0.31
Consensus pattern (18 bp):
CCTCCACCTCAAATATAT
Found at i:45849250 original size:18 final size:18
Alignment explanation
Indices: 45849215--45849256 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
45849205 TCCACCTCTC
*
45849215 ATATATCCTCCTCCTCAA
1 ATATATCCTCCTCATCAA
45849233 ATATATCCTCCAT-ATCAA
1 ATATATCCTCC-TCATCAA
*
45849251 TTATAT
1 ATATAT
45849257 GAAAACCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATATCCTCCTCATCAA
Found at i:45852498 original size:16 final size:16
Alignment explanation
Indices: 45852477--45852509 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45852467 TATATATCCT
45852477 CATAATATACTACTAA
1 CATAATATACTACTAA
45852493 CATAATATACTACTAA
1 CATAATATACTACTAA
45852509 C
1 C
45852510 TTTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (16 bp):
CATAATATACTACTAA
Found at i:45852657 original size:19 final size:19
Alignment explanation
Indices: 45852633--45852670 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
45852623 ACATAATGCA
45852633 ACAATTAGTATATCCATAT
1 ACAATTAGTATATCCATAT
45852652 ACAATTAGTATATCCATAT
1 ACAATTAGTATATCCATAT
45852671 TCTATCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (19 bp):
ACAATTAGTATATCCATAT
Found at i:45857096 original size:16 final size:16
Alignment explanation
Indices: 45857075--45857110 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
45857065 TTTGGTTCGC
*
45857075 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAAG
45857091 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAAG
45857107 TGTA
1 TGTA
45857111 ATAACAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAAG
Found at i:45857382 original size:17 final size:18
Alignment explanation
Indices: 45857349--45857382 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45857339 TATTATTAAT
*
45857349 TATATTTTAATTAAAATA
1 TATAATTTAATTAAAATA
45857367 TATAATTTAA-TAAAAT
1 TATAATTTAATTAAAAT
45857383 TCTTAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TATAATTTAATTAAAATA
Found at i:45857499 original size:163 final size:163
Alignment explanation
Indices: 45857262--45857557 Score: 556
Period size: 163 Copynumber: 1.8 Consensus size: 163
45857252 TGGTAAATGA
* *
45857262 TTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATCATA
1 TTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATA
* *
45857327 TTTAAACATAATTATTATTAATTATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
66 TTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
45857392 TTAGCAGAAATTTATTTTGGTAAATTATTATTG
131 TTAGCAGAAATTTATTTTGGTAAATTATTATTG
45857425 TTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATA
1 TTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATA
45857490 TTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
66 TTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
45857555 TTA
131 TTA
45857558 ATATTCTTAT
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
163 129 1.00
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (163 bp):
TTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATA
TTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAGCAGAAATTTATTTTGGTAAATTATTATTG
Found at i:45857528 original size:16 final size:16
Alignment explanation
Indices: 45857491--45857532 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45857481 TTAATCATAT
*
45857491 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
45857507 TT-AAATATATTATAA
1 TTAAAATATATTATAA
45857522 TTAAAATATAT
1 TTAAAATATAT
45857533 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:45857539 original size:14 final size:15
Alignment explanation
Indices: 45857500--45857541 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45857490 TTTAAACATA
*
45857500 ATTATTATTAAATAT
1 ATTATAATTAAATAT
45857515 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
45857529 A-TATAATTTAATA
1 ATTATAATTAAATA
45857542 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:45857594 original size:83 final size:83
Alignment explanation
Indices: 45857496--45857663 Score: 336
Period size: 83 Copynumber: 2.0 Consensus size: 83
45857486 CATATTTAAA
45857496 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATA
1 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATA
45857561 TTCTTATATGAATTTACT
66 TTCTTATATGAATTTACT
45857579 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATA
1 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATA
45857644 TTCTTATATGAATTTACT
66 TTCTTATATGAATTTACT
45857662 CA
1 CA
45857664 AATCATAATA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 85 1.00
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.46
Consensus pattern (83 bp):
CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATA
TTCTTATATGAATTTACT
Found at i:45857622 original size:14 final size:15
Alignment explanation
Indices: 45857583--45857624 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45857573 TTTACTCATA
*
45857583 ATTATTATTAAATAT
1 ATTATAATTAAATAT
45857598 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
45857612 A-TATAATTTAATA
1 ATTATAATTAAATA
45857625 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:45857694 original size:83 final size:83
Alignment explanation
Indices: 45857496--45857694 Score: 285
Period size: 83 Copynumber: 2.4 Consensus size: 83
45857486 CATATTTAAA
* * * *
45857496 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATA
1 CATAATCATTAATAAATATACTATAATGAAAATATATAATTTAATAAAATTCTTAATAATTAATA
45857561 TTCTTATATGAATTTACT
66 TTCTTATATGAATTTACT
* * * *
45857579 CATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATA
1 CATAATCATTAATAAATATACTATAATGAAAATATATAATTTAATAAAATTCTTAATAATTAATA
45857644 TTCTTATATGAATTTACT
66 TTCTTATATGAATTTACT
*
45857662 CA-AATCA-TAATATATGATACTATAAATGAAAAT
1 CATAATCATTAATAAAT-ATACTAT-AATGAAAAT
45857695 TTGAAATAAT
Statistics
Matches: 109, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
81 6 0.06
82 10 0.09
83 93 0.85
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (83 bp):
CATAATCATTAATAAATATACTATAATGAAAATATATAATTTAATAAAATTCTTAATAATTAATA
TTCTTATATGAATTTACT
Found at i:45857836 original size:24 final size:25
Alignment explanation
Indices: 45857790--45857837 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
45857780 TATGAATTTT
45857790 TATAATTTAAAATAATAATTATTACA
1 TATAATTTAAAAT-ATAATTATTACA
45857816 TATAATTTAATAAT-TAA-TATTA
1 TATAATTTAA-AATATAATTATTA
45857838 AATTTCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 10 0.48
27 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATAATTTAAAATATAATTATTACA
Found at i:45857841 original size:92 final size:92
Alignment explanation
Indices: 45857745--45857954 Score: 232
Period size: 92 Copynumber: 2.3 Consensus size: 92
45857735 TGATTTAATA
* * *
45857745 AAATTT-AAAATAATT-ATAACTAATAAATTATATTTTATGAATTTTTATAATTTAAAATAA-TA
1 AAATTTCAAAA-AATTCATAA-TAATAAATTATATTATATGAATTTATACAATTTAAAATAATTA
*
45857807 ATTATTACATATAATTTAATAATTAATATT
64 A-TATTAAATATAATTTAATAATTAATATT
* * * * *
45857837 AAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAAT
1 AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
* *
45857902 ATTAAATATAATTTAAT-AGTGATA-T
66 ATTAAATATAATTTAATAATTAATATT
* *
45857927 ATAATTTCATAAAATTCTTAATAATAAA
1 A-AATTTCAAAAAATTCATAATAATAAA
45857955 ATGTTCTTAT
Statistics
Matches: 102, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
90 2 0.02
91 30 0.29
92 62 0.61
93 8 0.08
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (92 bp):
AAATTTCAAAAAATTCATAATAATAAATTATATTATATGAATTTATACAATTTAAAATAATTAAT
ATTAAATATAATTTAATAATTAATATT
Found at i:45857962 original size:92 final size:92
Alignment explanation
Indices: 45857780--45857973 Score: 268
Period size: 92 Copynumber: 2.1 Consensus size: 92
45857770 AATTATATTT
* * * *
45857780 TATGAATTTTTATAATTTAAAATAATAATTATTACATATAATTTAATAATTAATATTAAATTTCA
1 TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTTAATAATGAATATTAAATTTCA
* *
45857845 TAAAATTCTTGATAATAAATTTTCTTA
66 TAAAATTCTTAATAATAAATGTTCTTA
*
45857872 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTTAATAGTG-ATA-TATAATTT
1 TATGAATTTATACAATTTAAAATAA-TAATTATTAAATATAATTTAATAATGAATATTA-AATTT
45857934 CATAAAATTCTTAATAATAAAATGTTCTTA
64 CATAAAATTCTTAATAAT-AAATGTTCTTA
*
45857964 TATCAATTTA
1 TATGAATTTA
45857974 GTAAAATCAA
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
90 2 0.02
91 25 0.27
92 61 0.67
93 3 0.03
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATAATTATTAAATATAATTTAATAATGAATATTAAATTTCA
TAAAATTCTTAATAATAAATGTTCTTA
Found at i:45864879 original size:18 final size:16
Alignment explanation
Indices: 45864832--45864883 Score: 50
Period size: 18 Copynumber: 3.0 Consensus size: 16
45864822 TATTTAGATA
*
45864832 ATTAATTATTATTATT
1 ATTACTTATTATTATT
*
45864848 ATTATTGTATTTATTATT
1 ATTACT-TA-TTATTATT
45864866 ACTTACCTTATTATTATT
1 A-TTA-CTTATTATTATT
45864884 TTTATTTACC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 5 0.17
17 2 0.07
18 17 0.57
19 5 0.17
20 1 0.03
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTACTTATTATTATT
Found at i:45865055 original size:18 final size:19
Alignment explanation
Indices: 45865034--45865075 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
45865024 ATATACTTAC
*
45865034 ATATATATAAT-TTTTTAT
1 ATATATATAATAGTTTTAT
*
45865052 ATATATTTAATAGTTTTAT
1 ATATATATAATAGTTTTAT
45865071 A-ATAT
1 ATATAT
45865076 GTATATAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
ATATATATAATAGTTTTAT
Found at i:45865083 original size:19 final size:19
Alignment explanation
Indices: 45865046--45865083 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
45865036 ATATATAATT
*
45865046 TTTTATATATATTTAATAG
1 TTTTATATATATGTAATAG
45865065 TTTTATA-ATATGTATATAG
1 TTTTATATATATGTA-ATAG
45865084 ATATACACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (19 bp):
TTTTATATATATGTAATAG
Found at i:45869602 original size:12 final size:12
Alignment explanation
Indices: 45869587--45869614 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
45869577 AATCAAAGTC
45869587 AAAATGAAAATG
1 AAAATGAAAATG
45869599 AAAATGAAAATG
1 AAAATGAAAATG
45869611 AAAA
1 AAAA
45869615 AATCAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (12 bp):
AAAATGAAAATG
Found at i:45869639 original size:17 final size:18
Alignment explanation
Indices: 45869606--45869638 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45869596 ATGAAAATGA
45869606 AAATGAAAAAATCAAAAT
1 AAATGAAAAAATCAAAAT
45869624 AAAT-AAAAAA-CAAAA
1 AAATGAAAAAATCAAAA
45869639 AGAAGAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (18 bp):
AAATGAAAAAATCAAAAT
Found at i:45870646 original size:13 final size:14
Alignment explanation
Indices: 45870621--45870667 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 14
45870611 CTGAGTCAAA
*
45870621 AAAAATTAAAAAT-
1 AAAAATGAAAAATG
*
45870634 AAGAATGAAAAATG
1 AAAAATGAAAAATG
45870648 AAAAATG-AAAATG
1 AAAAATGAAAAATG
45870661 AAAAATG
1 AAAAATG
45870668 GAGAGGCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 24 0.80
14 6 0.20
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:45870646 original size:20 final size:20
Alignment explanation
Indices: 45870621--45870667 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
45870611 CTGAGTCAAA
*
45870621 AAAAATTAAAAAT-AAGAATG
1 AAAAATGAAAAATGAA-AATG
45870641 AAAAATGAAAAATGAAAATG
1 AAAAATGAAAAATGAAAATG
45870661 AAAAATG
1 AAAAATG
45870668 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (20 bp):
AAAAATGAAAAATGAAAATG
Found at i:45870658 original size:6 final size:7
Alignment explanation
Indices: 45870621--45870667 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
45870611 CTGAGTCAAA
*
45870621 AAAAATT
1 AAAAATG
45870628 AAAAAT-
1 AAAAATG
*
45870634 AAGAATG
1 AAAAATG
45870641 AAAAATG
1 AAAAATG
45870648 AAAAATG
1 AAAAATG
45870655 -AAAATG
1 AAAAATG
45870661 AAAAATG
1 AAAAATG
45870668 GAGAGGCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 11 0.31
7 25 0.69
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (7 bp):
AAAAATG
Found at i:45872007 original size:44 final size:43
Alignment explanation
Indices: 45871910--45873282 Score: 486
Period size: 44 Copynumber: 31.7 Consensus size: 43
45871900 AAGAATTTCA
* **
45871910 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--G
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG
* * **
45871952 GTAGTCCTATCTCCCTAAGATTACAGTGGAGGGGATTAAAATAAAG
1 G-A-TCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAG
* ** * *** *
45871998 GATCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-TCGCATCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAG
* * * ** *
45872040 G-TCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAGAATTTTA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TAAG
* * *
45872085 GATCTTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGAT-AG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG
* * * *
45872128 TAATCCTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAG
* * * *** *
45872173 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGTATCA-
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAG
* * * *
45872214 GATCTTATCTCCCTGCGATTACAGCGGAGCAGATTGAAGA-GAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG
* * *
45872257 TAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAG
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAG
* * * *** *
45872302 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGTATTAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAG
* *
45872344 G-TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAT-AG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG
* * * * *
45872386 TAATCCTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAA
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAG
* * * * *** *
45872431 GATCTTATCTCTCTGA-AGTTATAGTAGAGTAGA-TCGTATCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAG
* ** * * * *
45872473 G-TCTTACCTCCCTGAGATTACAGCAGAGTAGATTCAAGA-CAC
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG
* * * * *
45872515 TATCCTATCTCCCT-AAAGTTACAGTGGAGCGGATTAAAATTTAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAA-TAAG
* * * * ** ** *
45872559 GATCTTATATCTCTGAGGTTACAGTAGAATAGATT-GCATCAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAG
* * ** *
45872601 G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TAAG
* * ***
45872646 GATCTTATCTCCCCGAGATTAC-GTTGGAGCAGATTGAAGCCAG
1 GATCTTATCTCCCTGAGATTACAG-TGGAGCAGATTAAAATAAG
** * * *
45872689 AGATCTTATCTCTTTGAGATTACAGCT-GAGCAGATCCAAGAT-AC
1 -GATCTTATCTCCCTGAGATTACAG-TGGAGCAGAT-TAAAATAAG
* * *
45872733 TATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT-AAG
** * * *** *
45872777 GATCTTATCTTTCTGA-AGTTACAGTAGAGTAGA-TCGCATCAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAG
* * ** *
45872819 G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA--TTAAAA--TAAG
* * ***
45872864 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAG
* * ** *
45872907 AGATCTTATCTCCTTGAGATTACAGCGGAGCAGA-TCCAATACAC
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATA-AG
* * *
45872951 TATCTTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATTTAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAA-TAAG
* * * * *** *
45872995 GATCTTATCTCTCTGAGGTTACAGTAGAGTAGA-TCGCATCAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAG
* * ** *
45873037 G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTTCA-
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TAAG
* * * ***
45873082 GATCTTATCTCCCCGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAG
* * * * *
45873125 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGA-CAC
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGAT-TAAAATAAG
* * * * * *
45873169 TATCCTATCTCCCTGA-AGTTATAGTGGAACGGATTAAAATTTAG
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAA-TAAG
* * * * * *** *
45873213 GATCTTATCTCTCTAAGGTTACAGTAGAGTAGA-TCGCATCAG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAG
*
45873255 G-TCTTATCTCCCTGAGGTTACAGTGGAG
1 GATCTTATCTCCCTGAGATTACAGTGGAG
45873283 TAGACCGAAG
Statistics
Matches: 977, Mismatches: 269, Indels: 171
0.69 0.19 0.12
Matches are distributed among these distances:
41 207 0.21
42 59 0.06
43 147 0.15
44 416 0.43
45 20 0.02
46 128 0.13
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAG
Found at i:45872184 original size:175 final size:175
Alignment explanation
Indices: 45871893--45872227 Score: 553
Period size: 175 Copynumber: 1.9 Consensus size: 175
45871883 CCCCAGGGAA
* * * *
45871893 TAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTGGTAGTC
1 TAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGATAGTAATC
*
45871958 CTATCTCCCTAAGATTACAGTGGAGGGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGC
66 CTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGC
*
45872023 AGAGTAGATCGCATCAGGTCTTATCTCCCTAAGGTTACAGTGGAG
131 AGAGTAGATCGCATCAGATCTTATCTCCCTAAGGTTACAGTGGAG
* * *
45872068 TAGACCGAAGAATTTTAGATCTTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGATAGTAATC
1 TAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGATAGTAATC
* * *
45872133 CTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGT
66 CTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGC
*
45872198 AGAGTAGATCGTATCAGATCTTATCTCCCT
131 AGAGTAGATCGCATCAGATCTTATCTCCCT
45872228 GCGATTACAG
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
175 147 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (175 bp):
TAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGATAGTAATC
CTATCTCCCTAAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGC
AGAGTAGATCGCATCAGATCTTATCTCCCTAAGGTTACAGTGGAG
Found at i:45872236 original size:129 final size:129
Alignment explanation
Indices: 45872087--45873282 Score: 835
Period size: 129 Copynumber: 9.2 Consensus size: 129
45872077 GAATTTTAGA
* ** *
45872087 TCTTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTATA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACA
*
45872152 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGA
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
* *
45872216 TCTTATCTCCCTGCGATTACAGCGGAGCAGATTGAAGAGAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACA
*
45872281 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATTAGG
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
*
45872345 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTATA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACA
* *
45872410 GTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGTATCAGG
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
* * * * * * *
45872474 TCTTACCTCCCTGAGATTACAGCAGAGTAGATTCAAGACACT-ATCCTATCTCCCT-AAAGTTAC
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA-TTAC
** * * * * *
45872537 AGTGGAGCGGATTAAAATTTAGGATCTTATATCTCTGAGGTTACAGTAGAATAGATTGCATCAGG
65 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
* * * ** * * *
45872602 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTTCAGATCTTATCTCCCCGAGATT
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATA-GT-A-ATCCTATCTCCCTGAGATT
* * *** * *
45872666 AC-GTTGGAGCAGATT-GAAGCCAGAGATCTTATCTCTTTG-AGATTACAGCT-GAGCAGATCCA
63 ACAG-TGGAGCGGATTAAAATAAAG-GATCTTATCTCTCTGAAG-TTACAG-TAGAGTAGAT-C-
45872727 AG-ATACTA--
122 -GTAT-C-AGG
* * * * * * **
45872735 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATT-AAAATAAAG-GATCTTATCTTTCTGA-AGT
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGAT--AGTAATCCTATCTCCCTGAGA-T
* ** *** * * * * *
45872796 TACAGTAGAGTAGA-TCGCAT-CAGG-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAA
62 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG----
* *
45872858 ATTTCAGA
123 -TATCAGG
* * ** * *
45872866 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCTTGAGATTAC
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA-ATCCTATCTCCCTGAGATTAC
* * ** * ** * * ** *** *
45872930 AGCGGAGCAGA-TCCAATACACTATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATTTA
65 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCGTA-TCA
45872994 GG
128 GG
* * ** * * * * * *
45872996 ATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCG--CATCAG--GTCTTATCTCCCTGAGGTTA
1 -TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGAT-AGTAATCCTATCTCCCTGAGATTA
** ** ** * * * * * * *
45873057 CAGTGGAGTAGACCAAAGAATTTCA-GATCTTATCTCCCCGAGGTTACAGTGGAGCAGATTGAAG
64 CAGTGGAGCGGA-TTAA-AA-TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA-
*
45873121 CCAGAG
125 TCAG-G
** * *
45873127 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACT-ATCCTATCTCCCTGA-AGTTA
1 -TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA-TTA
* * ** *
45873190 TAGTGGAACGGATTAAAATTTAGGATCTTATCTCTCT-AAGGTTACAGTAGAGTAGATCGCATCA
64 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAA-GTTACAGTAGAGTAGATCGTATCA
45873254 GG
128 GG
* *
45873256 TCTTATCTCCCTGAGGTTACAGTGGAG
1 TCTTATCTCCCTGAGATTACAGCGGAG
45873283 TAGACCGAAG
Statistics
Matches: 858, Mismatches: 156, Indels: 107
0.77 0.14 0.10
Matches are distributed among these distances:
125 1 0.00
127 5 0.01
128 179 0.21
129 284 0.33
130 31 0.04
131 255 0.30
132 18 0.02
133 81 0.09
134 2 0.00
135 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (129 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACA
GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
Found at i:45872765 original size:218 final size:218
Alignment explanation
Indices: 45872474--45873985 Score: 2452
Period size: 218 Copynumber: 7.0 Consensus size: 218
45872464 TCGTATCAGG
* * * * *
45872474 TCTTACCTCCCTGAGATTACAGCAGAGTAGATTCAAGACACTATCCTATCTCCCTAAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAG
* * *
45872539 TGGAGCGGATTAAAATTTAGGATCTTATATCTCTGAGGTTACAGTAGAATAGATTGCATCAGGTC
66 TGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGGTC
*
45872604 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGATTAC-
131 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGGTTACA
45872668 GTTGGAGCAGATTGAAGCCAGAGA
196 G-TGGAGCAGATTGAAGCCAGAGA
** * *
45872692 TCTTATCTCTTTGAGATTACAGCTGAGCAGATCCAAGATACTATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAG
** * *
45872757 TGGAGCGGATTAAAATAAAGGATCTTATCTTTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTC
66 TGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGGTC
* *
45872822 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTACA
131 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGGTTACA
45872887 GTGGAGCAGATTGAAGCCAGAGA
196 GTGGAGCAGATTGAAGCCAGAGA
* * *
45872910 TCTTATCTCCTTGAGATTACAGCGGAGCAGATCCAATACACTATCTTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAG
45872975 TGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGGTC
66 TGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGGTC
*
45873040 TTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTTCAGATCTTATCTCCCCGAGGTTACA
131 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGGTTACA
45873105 GTGGAGCAGATTGAAGCCAGAGA
196 GTGGAGCAGATTGAAGCCAGAGA
*
45873128 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTATAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAG
* *
45873193 TGGAACGGATTAAAATTTAGGATCTTATCTCTCTAAGGTTACAGTAGAGTAGATCGCATCAGGTC
66 TGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGGTC
* *
45873258 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAAATCTTATCTCCCCGAGATTAC-
131 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGGTTACA
*
45873322 GTTGGAGCAGACTGAAGCCAGAGA
196 G-TGGAGCAGATTGAAGCCAGAGA
*
45873346 TCTTATCTCCCTAAGATT--A-C--AGC---T----G------TCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAG
45873393 TGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGGTC
66 TGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGGTC
45873458 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGGTTACA
131 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGGTTACA
* *
45873523 GTGGAGCAGTTTGAAGCTAGAGA
196 GTGGAGCAGATTGAAGCCAGAGA
* * *
45873546 TCTTATCTCCCTAAGATTACAGCTGAGCAGATCCAAGACACTGTCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAG
45873611 TGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGGTC
66 TGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGGTC
45873676 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGGTTACA
131 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGGTTACA
*
45873741 GTGGAGCAGATTGAAGCTAGAGA
196 GTGGAGCAGATTGAAGCCAGAGA
* *
45873764 TCTTATCTCCCTAAGATTACAGCGGAGCAGATCCAAGACACTATCTTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAG
* * ** * *
45873829 TGGAGTGGATTAACATAAAGGATCTCATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTC
66 TGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGGTC
* *
45873894 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTATA
131 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGGTTACA
45873959 GTGGAGCAGATTGAAGCCAGAGA
196 GTGGAGCAGATTGAAGCCAGAGA
45873982 TCTT
1 TCTT
45873986 GTCTTCTTGT
Statistics
Matches: 1211, Mismatches: 62, Indels: 42
0.92 0.05 0.03
Matches are distributed among these distances:
200 183 0.15
201 1 0.00
202 1 0.00
203 1 0.00
205 3 0.00
206 1 0.00
208 1 0.00
210 1 0.00
212 1 0.00
213 3 0.00
215 1 0.00
216 1 0.00
217 1 0.00
218 1011 0.83
219 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (218 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAG
TGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGGTC
TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGGTTACA
GTGGAGCAGATTGAAGCCAGAGA
Found at i:45872868 original size:87 final size:86
Alignment explanation
Indices: 45871893--45873312 Score: 438
Period size: 87 Copynumber: 16.3 Consensus size: 86
45871883 CCCCAGGGAA
* *
45871893 TAGACCGAAGAATTTCAGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGCTGGT-A-
1 TAGACCGAA-AA-TTCAGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAA--T--TCAG
* * *
45871955 GTCCTATCTCCCTAAGATTACAGTGGAG
59 GTCTTATCTCCCTGAGGTTACAGTGGAG
** ** ** * ** * *
45871983 GGGA-TTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA-TCAGGTCTTA
1 TAGACCGAAAATTCA-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAATTCAGGTCTTA
*
45872046 TCTCCCTAAGGTTACAGTGGAG
65 TCTCCCTGAGGTTACAGTGGAG
* * * * * *
45872068 TAGACCGAAGAATTTTAGATCTTATCTCCCTGAGGTTACAATGGAGCAGATTGAAGAT-AGTAAT
1 TAGACCGAA-AA-TTCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAA-TTCAG--GT
* * *
45872132 CCTATCTCCCTGAGATTATAGTGGAG
61 CTTATCTCCCTGAGGTTACAGTGGAG
** ** ** * * * * *
45872158 CGGA-TTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTA-TCAGATCTTA
1 TAGACCGAAAATTCA-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAATTCAGGTCTTA
* * *
45872221 TCTCCCTGCGATTACAGCGGAG
65 TCTCCCTGAGGTTACAGTGGAG
* ** * * * ** **
45872243 CAGATTGAAGAGAGT-A-ATCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAATAAAGGAT
1 TAGACCGAA-A-ATTCAGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGA-TCGAATTCAGG-T
* * *
45872305 CTTATCTCTCTGAAGTTACAGTAGAG
61 CTTATCTCCCTGAGGTTACAGTGGAG
* * * * * * *
45872331 TAGATCG--TATT-AGGTCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGAT-AGTAATC
1 TAGACCGAAAATTCAGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAA-TTCAG--GTC
* * *
45872391 CTATCTCCCTGAGATTATAGTGGAG
62 TTATCTCCCTGAGGTTACAGTGGAG
** ** ** * * * * *
45872416 CGGA-TTAAAATAAAAGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGTA-TCAGGTCTTA
1 TAGACCGAAAAT-TCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAATTCAGGTCTTA
* * **
45872479 CCTCCCTGAGATTACAGCAGAG
65 TCTCCCTGAGGTTACAGTGGAG
* * * * * * ** *
45872501 TAGATTC-AAGA--CACTATCCTATCTCCCTAAAGTTACAGTGGAGCGGATTAAAATTTAGGATC
1 TAGA-CCGAAAATTCA-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TCGAATTCAGG-TC
* * * *
45872563 TTATATCTCTGAGGTTACAGTAGAA
62 TTATCTCCCTGAGGTTACAGTGGAG
** * * * * * *
45872588 TAGATTG--CA-TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATC
1 TAGACCGAAAATTCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATC---GAA-TTCAGGTC
* *
45872650 TTATCTCCCCGAGATTAC-GTTGGAG
62 TTATCTCCCTGAGGTTACAG-TGGAG
* ** ***** ** * *
45872675 CAGATTGAAGCCAGAGATCTTATCTCTTTG-AGATTACAGCT-GAGCAGATCCAAGATACTA--T
1 TAGACCGAAAATTCAGATCTTATCTCCCTGAAG-TTACAG-TGGAGCAGAT-CGA-ATTC-AGGT
* *
45872736 CCTATCTCCCTGAAGTTACAGTGGAG
61 CTTATCTCCCTGAGGTTACAGTGGAG
** ** ** ** * * *
45872762 CGGA-TTAAAATAAAGGATCTTATCTTTCTGAAGTTACAGTAGAGTAGATCGCA-TCAGGTCTTA
1 TAGACCGAAAATTCA-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAATTCAGGTCTTA
45872825 TCTCCCTGAGGTTACAGTGGAG
65 TCTCCCTGAGGTTACAGTGGAG
* * **
45872847 TAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATC
1 TAGACCG-AAAA-TTCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAATTCAG-G-TC
* * *
45872912 TTATCTCCTTGAGATTACAGCGGAG
62 TTATCTCCCTGAGGTTACAGTGGAG
* * * * ** *
45872937 CAGATCC---AATACACTATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATTTAGGATC
1 TAGA-CCGAAAATTCA-GATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TCGAATTCAGG-TC
* *
45872999 TTATCTCTCTGAGGTTACAGTAGAG
62 TTATCTCCCTGAGGTTACAGTGGAG
* * * * * * *
45873024 TAGATCG--CA-TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTTCAGATC
1 TAGACCGAAAATTCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATC---GAA-TTCAGGTC
*
45873086 TTATCTCCCCGAGGTTACAGTGGAG
62 TTATCTCCCTGAGGTTACAGTGGAG
* ** ***** * * ** ** *
45873111 CAGATTGAAGCCAGAGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCCAAGACACTATCCT
1 TAGACCGAAAATTCAGATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAATTCA-GGTCTT
* * *
45873175 ATCTCCCTGAAGTTATAGTGGAA
64 ATCTCCCTGAGGTTACAGTGGAG
** ** * * * * *
45873198 CGGA-TTAAAATTTAGGATCTTATCTCTCT-AAGGTTACAGTAGAGTAGATCGCA-TCAGGTCTT
1 TAGACCGAAAATTCA-GATCTTATCTCCCTGAA-GTTACAGTGGAGCAGATCGAATTCAGGTCTT
45873260 ATCTCCCTGAGGTTACAGTGGAG
64 ATCTCCCTGAGGTTACAGTGGAG
*
45873283 TAGACCGAAGAATTTCAAATCTTATCTCCC
1 TAGACCGAA-AA-TTCAGATCTTATCTCCC
45873313 CGAGATTACG
Statistics
Matches: 969, Mismatches: 279, Indels: 167
0.68 0.20 0.12
Matches are distributed among these distances:
83 3 0.00
84 37 0.04
85 264 0.27
86 45 0.05
87 342 0.35
88 152 0.16
89 14 0.01
90 108 0.11
91 4 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (86 bp):
TAGACCGAAAATTCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAATTCAGGTCTTAT
CTCCCTGAGGTTACAGTGGAG
Found at i:45872912 original size:131 final size:131
Alignment explanation
Indices: 45872738--45873028 Score: 290
Period size: 131 Copynumber: 2.2 Consensus size: 131
45872728 GATACTATCC
* * * *
45872738 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCT-TTCTGA-AGTTACAG
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCT-TGAGA-TTACAG
* * * * *
45872801 TAGAGTAGATCGC-AT-CA-GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTC
64 CAGAGCAGATC-CAATACACGATCTTATCTCCCTGAAGTTACAGTGGAGCAGA--GAAAAATTT-
45872863 A-GATCT
125 AGGATCT
* * *
45872869 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCTTGAGATTACAGC
1 TATCTCCCTGAGGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCTTGAGATTACAGC
* * * **
45872933 GGAGCAGATCCAATACACTATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATTTAGGAT
65 AGAGCAGATCCAATACACGATCTTATCTCCCTGAAGTTACAGTGGAGCAGAGAAAAATTTAGGAT
45872998 CT
130 CT
* * *
45873000 TATCTCTCTGAGGTTACAGTAGAGTAGAT
1 TATCTCCCTGAGGTTACAGTGGAGCAGAT
45873029 CGCATCAGGT
Statistics
Matches: 133, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
130 4 0.03
131 97 0.73
132 4 0.03
133 28 0.21
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (131 bp):
TATCTCCCTGAGGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCTTGAGATTACAGCA
GAGCAGATCCAATACACGATCTTATCTCCCTGAAGTTACAGTGGAGCAGAGAAAAATTTAGGATC
T
Found at i:45873520 original size:87 final size:87
Alignment explanation
Indices: 45873374--45873969 Score: 371
Period size: 87 Copynumber: 6.9 Consensus size: 87
45873364 ACAGCTGTCC
* ** ** * *
45873374 TATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AATTTAGGATCTTATCTCTCTGAGGTTACAG
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTCA-GATCTTATCTCCCTGAGGTTACAG
* * *
45873437 TAGAGTAGATCGCA-TCAGGTCT
65 TGGAGCAGATCGAATTCAGGTCT
*
45873459 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGGTTACAG
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAA-TTCAGATCTTATCTCCCTGAGGTTACAG
* * *
45873524 TGGAGCAGTTTGAA-GCTAGAGATCT
65 TGGAGCAGATCGAATTC-AG-G-TCT
* * * * * *
45873549 TATCTCCCTAAGATTACAGCT-GAGCAGATCC-AAGACA--CTG-TCCTATCTCCCTGAAGTTAC
1 TATCTCCCTGAGGTTACAG-TGGAGTAGA-CCGAAGA-ATTCAGATCTTATCTCCCTGAGGTTAC
* ** *
45873609 AGTGGAGCGGATTAAAATTTAGGATCT
63 AGTGGAGCAGA-TCGAATTCAGG-TCT
* * * * *
45873636 TATCTCTCTGAGGTTACAGTAGAGTAGATC---GCA-TCAGGTCTTATCTCCCTGAGGTTACAGT
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTCAGATCTTATCTCCCTGAGGTTACAGT
* * *
45873697 GGAGTAGACCGAAGAATTTCAGATCT
66 GGAGCAGATC---GAA-TTCAGGTCT
* * ** * ** * * *
45873723 TATCTCCCCGAGGTTACAGTGGAGCAGATTGAAG-CTAGAGATCTTATCTCCCTAAGATTACAGC
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTCAGATCTTATCTCCCTGAGGTTACAGT
* ** **
45873787 GGAGCAGATCCAAGACACTATCT
66 GGAGCAGATCGAATTCA-GGTCT
* * ** * ** * * *
45873810 TATCTCCCTGAAGTTACAGTGGAGTGGA-TTAA-CATAAAGGATCTCATCTCTCTGAAGTTACAG
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTCA-GATCTTATCTCCCTGAGGTTACAG
* * *
45873873 TAGAGTAGATCGCA-TCAGGTCT
65 TGGAGCAGATCGAATTCAGGTCT
*
45873895 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTATAG
1 TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAA-TTCAGATCTTATCTCCCTGAGGTTACAG
45873960 TGGAGCAGAT
65 TGGAGCAGAT
45873970 TGAAGCCAGA
Statistics
Matches: 389, Mismatches: 94, Indels: 54
0.72 0.18 0.10
Matches are distributed among these distances:
83 1 0.00
84 3 0.01
85 81 0.21
86 16 0.04
87 204 0.52
88 18 0.05
89 1 0.00
90 61 0.16
91 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (87 bp):
TATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTCAGATCTTATCTCCCTGAGGTTACAGT
GGAGCAGATCGAATTCAGGTCT
Found at i:45873714 original size:636 final size:642
Alignment explanation
Indices: 45872474--45873985 Score: 2464
Period size: 636 Copynumber: 2.3 Consensus size: 642
45872464 TCGTATCAGG
* * * * *
45872474 TCTTACCTCCCTGAGATTACAGCAGAGTAGATTCAAGACACTATCCTATCTCCCTAAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAG
* * * *
45872539 TGGAGCGGATTAAAATTTAGGATCTTATATCTCTGAGGTTACAGTAGAATAGATTGCATCAGGTC
66 TGGAGCGGATTAAAATTTAGGATCTTATCTCTCTAAGGTTACAGTAGAGTAGATCGCATCAGGTC
45872604 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGATTACG
131 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGATTACG
** *
45872669 TTGGAGCAGATTGAAGCCAGAGATCTTATCTCTTTGAGATTACAGCTGAGCAGATCCAAGATACT
196 TTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATTA-AGC-GAGC--AT---AG-----
*
45872734 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTTTCTGAAGTTAC
249 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTAC
45872799 AGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCA
314 AGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCA
* * *
45872864 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCTTGAGATTA
379 GATCTTATCTCCCCGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATTA
* *
45872929 CAGCGGAGCAGATCCAATACACTATCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATTTA
444 CAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATTTA
45872994 GGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
509 GGATCTTATCTCTCTGAGGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
45873059 GTGGAGTAGACCAAAGAATTTCAGATCTTATCTCCCCGAGGTTACAGTGGAGCAGATTGAAGCCA
574 GTGGAGTAGACCAAAGAATTTCAGATCTTATCTCCCCGAGGTTACAGTGGAGCAGATTGAAGCCA
45873124 GAGA
639 GAGA
*
45873128 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTATAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAG
*
45873193 TGGAACGGATTAAAATTTAGGATCTTATCTCTCTAAGGTTACAGTAGAGTAGATCGCATCAGGTC
66 TGGAGCGGATTAAAATTTAGGATCTTATCTCTCTAAGGTTACAGTAGAGTAGATCGCATCAGGTC
*
45873258 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAAATCTTATCTCCCCGAGATTACG
131 TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGATTACG
*
45873323 TTGGAGCAGACTGAAGCCAGAGATCTTATCTCCCTAAGATT-A-C-AGC-T-G-TCCTATCTCCC
196 TTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATTAAGCGAGCATAGATCCTATCTCCC
** *
45873382 TGAAGTTACAGTGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTAGAGTAGAT
261 TGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
*
45873447 CGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCC
326 CGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCC
* * *
45873512 CCGAGGTTACAGTGGAGCAGTTTGAAGCTAGAGATCTTATCTCCCTAAGATTACAGCTGAGCAGA
391 CCGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATTACAGCGGAGCAGA
*
45873577 TCCAAGACACTGTCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATTTAGGATCTTATCTC
456 TCCAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATTTAGGATCTTATCTC
45873642 TCTGAGGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACC
521 TCTGAGGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACC
* *
45873707 GAAGAATTTCAGATCTTATCTCCCCGAGGTTACAGTGGAGCAGATTGAAGCTAGAGA
586 AAAGAATTTCAGATCTTATCTCCCCGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
* *
45873764 TCTTATCTCCCTAAGATTACAGCGGAGCAGATCCAAGACACTATCTTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAG
* * ** *
45873829 TGGAGTGGATTAACATAAAGGATCTCATCTCTCTGAA-GTTACAGTAGAGTAGATCGCATCAGGT
66 TGGAGCGGATTAAAATTTAGGATCTTATCTCTCT-AAGGTTACAGTAGAGTAGATCGCATCAGGT
* *
45873893 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTAT
130 CTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGATTA-
*
45873958 AG-TGGAGCAGATTGAAGCCAGAGATCTT
194 CGTTGGAGCAGATTGAAGCCAGAGATCTT
45873986 GTCTTCTTGT
Statistics
Matches: 810, Mismatches: 46, Indels: 22
0.92 0.05 0.03
Matches are distributed among these distances:
636 580 0.72
637 3 0.00
642 1 0.00
646 1 0.00
649 3 0.00
651 1 0.00
652 1 0.00
654 220 0.27
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (642 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCCAAGACACTATCCTATCTCCCTGAAGTTACAG
TGGAGCGGATTAAAATTTAGGATCTTATCTCTCTAAGGTTACAGTAGAGTAGATCGCATCAGGTC
TTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGATTACG
TTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATTAAGCGAGCATAGATCCTATCTCCC
TGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
CGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCC
CCGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTAAGATTACAGCGGAGCAGA
TCCAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATTTAGGATCTTATCTC
TCTGAGGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACC
AAAGAATTTCAGATCTTATCTCCCCGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
Found at i:45873766 original size:131 final size:133
Alignment explanation
Indices: 45873592--45873834 Score: 296
Period size: 131 Copynumber: 1.8 Consensus size: 133
45873582 GACACTGTCC
* * ** * * * *
45873592 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATTTAGGATCTTATCTCTCTGAGGTTACAGTA
1 TATCTCCCCGAAGTTACAGTGGAGCAGATTAAAAGCTAGGATCTTATCTCCCTAAGATTACAGCA
* * * *
45873657 GAGTAGATCGC-A-TCA-GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAG
66 GAGCAGATC-CAAGACACGATCTTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAG
45873719 ATCT
130 ATCT
* *
45873723 TATCTCCCCGAGGTTACAGTGGAGCAGATT-GAAGCTAGAGATCTTATCTCCCTAAGATTACAGC
1 TATCTCCCCGAAGTTACAGTGGAGCAGATTAAAAGCTAG-GATCTTATCTCCCTAAGATTACAGC
* *
45873787 GGAGCAGATCCAAGACACTATCTTATCTCCCTGAAGTTACAGTGGAGT
65 AGAGCAGATCCAAGACACGATCTTATCTCCCTGAAGTTACAGTGGAGT
45873835 GGATTAACAT
Statistics
Matches: 92, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
130 6 0.07
131 57 0.62
132 2 0.02
133 27 0.29
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (133 bp):
TATCTCCCCGAAGTTACAGTGGAGCAGATTAAAAGCTAGGATCTTATCTCCCTAAGATTACAGCA
GAGCAGATCCAAGACACGATCTTATCTCCCTGAAGTTACAGTGGAGTAGACCGAAGAATTTCAGA
TCT
Found at i:45874051 original size:46 final size:46
Alignment explanation
Indices: 45873979--45874251 Score: 343
Period size: 46 Copynumber: 5.9 Consensus size: 46
45873969 TTGAAGCCAG
* * *
45873979 AGATCTTGTCTTCTTGTATTTGGCAGCGAAGTAGATCGAAGAAAGT
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGC
* * * *
45874025 AGATATTGTCTTCCTGTATTTGGCAGC-AGAGGAGATCGAAAATAAC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGA-AGTAGATCGAAGATAGC
*
45874071 AGATCTTATCTTCCTGTATTTGGCAGCGGAAG-AGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGC-GAAGTAGATCGAAGATAGC
* * *
45874117 AGATCTTGTCTTCTTGTATTTGGCAACGAAGTGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGC
* *
45874163 AGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGATAGC
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGC
* * * * * *
45874209 AGATCTTATTTTCCTGTATTTGGCTGTGGAGTGGATCGAAGAT
1 AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGAT
45874252 TGCCAATCCT
Statistics
Matches: 201, Mismatches: 22, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
45 5 0.02
46 193 0.96
47 2 0.01
48 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (46 bp):
AGATCTTGTCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATAGC
Found at i:45874251 original size:138 final size:138
Alignment explanation
Indices: 45873979--45874232 Score: 411
Period size: 138 Copynumber: 1.8 Consensus size: 138
45873969 TTGAAGCCAG
* *
45873979 AGATCTTGTCTTCTTGTATTTGGCAGCGAAGTAGATCGAAGAAAGTAGATATTGTCTTCCTGTAT
1 AGATCTTGTCTTCTTGTATTTGGCAACGAAGTAGATCGAAGAAAGCAGATATTGTCTTCCTGTAT
45874044 TTGGCAGCAGAGGAGATCGAAAATAACAGATCTTATCTTCCTGTATTTGGCAGCGGAAGAGATCG
66 TTGGCAGCAGAGGAGATCGAAAATAACAGATCTTATCTTCCTGTATTTGGCAGCGGAAGAGATCG
45874109 AAGATAGC
131 AAGATAGC
* * *
45874117 AGATCTTGTCTTCTTGTATTTGGCAACGAAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
1 AGATCTTGTCTTCTTGTATTTGGCAACGAAGTAGATCGAAGAAAGCAGATATTGTCTTCCTGTAT
* * * *
45874182 TTGGCAGCGGAGTG-GATCGAAGATAGCAGATCTTATTTTCCTGTATTTGGC
66 TTGGCAGCAGAG-GAGATCGAAAATAACAGATCTTATCTTCCTGTATTTGGC
45874233 TGTGGAGTGG
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
138 105 0.99
139 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (138 bp):
AGATCTTGTCTTCTTGTATTTGGCAACGAAGTAGATCGAAGAAAGCAGATATTGTCTTCCTGTAT
TTGGCAGCAGAGGAGATCGAAAATAACAGATCTTATCTTCCTGTATTTGGCAGCGGAAGAGATCG
AAGATAGC
Found at i:45876022 original size:3 final size:3
Alignment explanation
Indices: 45876016--45876072 Score: 53
Period size: 3 Copynumber: 18.0 Consensus size: 3
45876006 TAGCTAATTA
*
45876016 ATT ATT ATT ATT ATT ATT A-T AGT ATTT ATT ATT ACTT ACCTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT A-TT A--TT ATT ATT
*
45876064 ATT TTT ATT
1 ATT ATT ATT
45876073 TACCCATTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.04
3 36 0.77
4 5 0.11
5 4 0.09
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:45876044 original size:15 final size:15
Alignment explanation
Indices: 45875997--45876049 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 15
45875987 TTTTAGCACT
45875997 TTTATTATT-TAGCTAA
1 TTTATTATTATAG-T-A
*
45876013 TTAATTATTAT--TA
1 TTTATTATTATAGTA
45876026 -TTATTATTATAGTA
1 TTTATTATTATAGTA
45876040 TTTATTATTA
1 TTTATTATTA
45876050 CTTACCTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
12 9 0.29
13 1 0.03
14 3 0.10
15 9 0.29
16 8 0.26
17 1 0.03
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (15 bp):
TTTATTATTATAGTA
Found at i:45876219 original size:33 final size:32
Alignment explanation
Indices: 45876160--45876242 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 32
45876150 ATGTATGCAT
* * *
45876160 ATTTTTTATAATATATATACGAACATATTTTTA
1 ATTTTGTA-AATATATATACGAACATATATATA
**
45876193 ACTTTTGTAAATATATATACTTACATATATATA
1 A-TTTTGTAAATATATATACGAACATATATATA
* *
45876226 ATTTTTTATATATATAT
1 ATTTTGTAAATATATAT
45876243 TTAATAGTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 14 0.33
33 22 0.52
34 6 0.14
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (32 bp):
ATTTTGTAAATATATATACGAACATATATATA
Found at i:45876242 original size:20 final size:22
Alignment explanation
Indices: 45876217--45876267 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
45876207 ATATACTTAC
*
45876217 ATATATATAAT-TTTTTAT-AT
1 ATATATATAATAGTTTTATAAT
*
45876237 ATATATTTAATAGTTTTATAAT
1 ATATATATAATAGTTTTATAAT
*
45876259 ATGTATATA
1 ATATATATA
45876268 GACATACACT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 10 0.40
21 6 0.24
22 9 0.36
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (22 bp):
ATATATATAATAGTTTTATAAT
Found at i:45878583 original size:22 final size:22
Alignment explanation
Indices: 45878556--45878597 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
45878546 AATCAATGCG
45878556 ATAATTATTTAAATAA-AATAGT
1 ATAATTATTT-AATAATAATAGT
45878578 ATAATTATTTAATAATAATA
1 ATAATTATTTAATAATAATA
45878598 ATTTTTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
ATAATTATTTAATAATAATAGT
Found at i:45885867 original size:21 final size:23
Alignment explanation
Indices: 45885824--45885868 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
45885814 TGAGCTAAAT
45885824 TTAATTGATTTTTCTTCAAATTTAC
1 TTAATTGATTTTTCTT--AATTTAC
45885849 TTAATTG-TTTTTCTT-ATTTA
1 TTAATTGATTTTTCTTAATTTA
45885869 ATTGTCTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.25
24 8 0.40
25 7 0.35
ACGTcount: A:0.24, C:0.09, G:0.04, T:0.62
Consensus pattern (23 bp):
TTAATTGATTTTTCTTAATTTAC
Found at i:45892318 original size:6 final size:6
Alignment explanation
Indices: 45892303--45892335 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
45892293 CTTAGTTTAA
*
45892303 AAAAAT AAAAAG AAAAA- AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
45892336 TAATAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:45892323 original size:17 final size:17
Alignment explanation
Indices: 45892301--45892335 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
45892291 GACTTAGTTT
*
45892301 AAAAAAATAAAAAGAAA
1 AAAAAAAGAAAAAGAAA
45892318 AAAAAAAGAAAAAGAAA
1 AAAAAAAGAAAAAGAAA
45892335 A
1 A
45892336 TAATAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.03
Consensus pattern (17 bp):
AAAAAAAGAAAAAGAAA
Found at i:45893638 original size:17 final size:17
Alignment explanation
Indices: 45893616--45893648 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45893606 CCGAGCAATT
45893616 TAACTCCTAATTTTCAG
1 TAACTCCTAATTTTCAG
*
45893633 TAACTCTTAATTTTCA
1 TAACTCCTAATTTTCA
45893649 ATAGATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.21, G:0.03, T:0.45
Consensus pattern (17 bp):
TAACTCCTAATTTTCAG
Found at i:45903082 original size:4 final size:4
Alignment explanation
Indices: 45903075--45903103 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
45903065 CAATCAAAGT
45903075 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
45903104 ACATTTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:45904319 original size:21 final size:20
Alignment explanation
Indices: 45904295--45904345 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
45904285 CCCGGATGCA
45904295 TATAAAATATATTATAAATAT
1 TATAAAATATATTATAAAT-T
* * *
45904316 TATACATTTTATTATAAATT
1 TATAAAATATATTATAAATT
45904336 T-T-AAATATAT
1 TATAAAATATAT
45904346 AAAATCCAAC
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
18 5 0.21
19 1 0.04
20 2 0.08
21 16 0.67
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TATAAAATATATTATAAATT
Found at i:45913809 original size:12 final size:13
Alignment explanation
Indices: 45913787--45913815 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
45913777 GGTTCTTGGT
45913787 TTTTCCATTTTCA
1 TTTTCCATTTTCA
45913800 TTTT-CATTTTCA
1 TTTTCCATTTTCA
45913812 TTTT
1 TTTT
45913816 TTGTTTTGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTCCATTTTCA
Found at i:45918626 original size:3 final size:3
Alignment explanation
Indices: 45918618--45918650 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
45918608 GCTAGGCAGT
45918618 AGA AGA AGA AGA AGA AGA AGA AGA AGA A-A AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
45918651 AAAATTTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:45918835 original size:14 final size:14
Alignment explanation
Indices: 45918816--45918842 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45918806 CATCTCCATT
45918816 TCTTCTTCTTCTTC
1 TCTTCTTCTTCTTC
45918830 TCTTCTTCTTCTT
1 TCTTCTTCTTCTT
45918843 TTTTTGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (14 bp):
TCTTCTTCTTCTTC
Found at i:45919339 original size:29 final size:31
Alignment explanation
Indices: 45919278--45919338 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 31
45919268 GGAGAAGAAG
45919278 AAGTATAAACATATTGGGCTATTTATGTAAA
1 AAGTATAAACATATTGGGCTATTTATGTAAA
45919309 AAGTA-AAA-ATATTGGG-TCATTTAT-TAAA
1 AAGTATAAACATATTGGGCT-ATTTATGTAAA
45919337 AA
1 AA
45919339 ATGGAAAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 7 0.24
29 14 0.48
30 3 0.10
31 5 0.17
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (31 bp):
AAGTATAAACATATTGGGCTATTTATGTAAA
Found at i:45919421 original size:21 final size:21
Alignment explanation
Indices: 45919397--45919438 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
45919387 CAACATGGCA
45919397 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
45919418 AGTTAACTGGCCACATCAGCT
1 AGTTAACTGGCCACATCAGCT
45919439 GTCCCGTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:45919539 original size:30 final size:31
Alignment explanation
Indices: 45919481--45919540 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
45919471 GGGTAACTAA
45919481 TTTGTCATTTTTCAATAATGTTAGTGACTGG
1 TTTGTCATTTTTCAATAATGTTAGTGACTGG
* *
45919512 TTTGTTATTTTTCGA-AAT-TTGAGTGACTG
1 TTTGTCATTTTTCAATAATGTT-AGTGACTG
45919541 AATTGAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.08
30 11 0.42
31 13 0.50
ACGTcount: A:0.22, C:0.08, G:0.20, T:0.50
Consensus pattern (31 bp):
TTTGTCATTTTTCAATAATGTTAGTGACTGG
Found at i:45922280 original size:4 final size:4
Alignment explanation
Indices: 45922273--45922313 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
45922263 CCAACCTAGG
45922273 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA T
45922314 TTTTTCCCGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:45926137 original size:13 final size:13
Alignment explanation
Indices: 45926121--45926146 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45926111 AAAGATAGAG
45926121 ATAAAACTAAACC
1 ATAAAACTAAACC
45926134 ATAAAACTAAACC
1 ATAAAACTAAACC
45926147 CCCAAAACCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAACTAAACC
Found at i:45931265 original size:17 final size:17
Alignment explanation
Indices: 45931211--45931267 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
45931201 TTGGAAAAAA
* *
45931211 TAATTTAATTGAGAAAT
1 TAATTTAATTAATAAAT
* * *
45931228 TAATGTAGTTAAGTCAAT
1 TAATTTAATTAA-TAAAT
*
45931246 TAATTTAATTAATTAAT
1 TAATTTAATTAATAAAT
45931263 TAATT
1 TAATT
45931268 AATATTTTGG
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
17 18 0.58
18 13 0.42
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.46
Consensus pattern (17 bp):
TAATTTAATTAATAAAT
Found at i:45933863 original size:12 final size:12
Alignment explanation
Indices: 45933846--45933870 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45933836 TTTCCATCTA
45933846 TCTTCTTTATTT
1 TCTTCTTTATTT
45933858 TCTTCTTTATTT
1 TCTTCTTTATTT
45933870 T
1 T
45933871 ATTTTTTTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTCTTTATTT
Found at i:45934346 original size:15 final size:17
Alignment explanation
Indices: 45934317--45934349 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
45934307 AAAAAGGTGA
45934317 AAAAAAATTAGAAAAAT
1 AAAAAAATTAGAAAAAT
45934334 AAAAAAA-TA-AAAAAT
1 AAAAAAATTAGAAAAAT
45934349 A
1 A
45934350 TTCTGTGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 2 0.12
17 7 0.44
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAAAAATTAGAAAAAT
Found at i:45935341 original size:21 final size:20
Alignment explanation
Indices: 45935313--45935354 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
45935303 AATCAATCAA
45935313 TTTGAAAT-CTCGCCAAATCT
1 TTTGAAATCCT-GCCAAATCT
45935333 TTTGTAAATCCTGCCAAATCT
1 TTTG-AAATCCTGCCAAATCT
45935354 T
1 T
45935355 GATAACAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 14 0.70
22 2 0.10
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (20 bp):
TTTGAAATCCTGCCAAATCT
Found at i:45940187 original size:21 final size:21
Alignment explanation
Indices: 45940157--45940202 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
45940147 TTCGCTTGTT
* *
45940157 ACACGGCCGTGTAACCGTTCC
1 ACACGACCGTGTAACCCTTCC
45940178 ACACGACCGTGTAACCCTTCC
1 ACACGACCGTGTAACCCTTCC
45940199 ACAC
1 ACAC
45940203 AACCTTAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.41, G:0.17, T:0.17
Consensus pattern (21 bp):
ACACGACCGTGTAACCCTTCC
Found at i:45941095 original size:23 final size:22
Alignment explanation
Indices: 45941064--45941111 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
45941054 TCTTGAATTC
*
45941064 ACTTCAATTCAGC-TGAATAAATG
1 ACTTCAATT--GCTTGAAAAAATG
*
45941087 ACTTTAATTGCTTGAAAAAATG
1 ACTTCAATTGCTTGAAAAAATG
45941109 ACT
1 ACT
45941112 CTTGAGTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 12 0.55
23 8 0.36
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (22 bp):
ACTTCAATTGCTTGAAAAAATG
Found at i:45943227 original size:19 final size:20
Alignment explanation
Indices: 45943187--45943227 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
45943177 TTAATGTATC
45943187 AATTCAAATATTATAATAAAA
1 AATTCAAATA-TATAATAAAA
45943208 AATTCAAATA-ATAATTAAAA
1 AATTCAAATATATAA-TAAAA
45943228 CATTTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
21 10 0.53
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTCAAATATATAATAAAA
Found at i:45944892 original size:21 final size:21
Alignment explanation
Indices: 45944868--45944908 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
45944858 TTACACGGCC
*
45944868 GTGTAACCGTTCCACACGACT
1 GTGTAACCCTTCCACACGACT
45944889 GTGTAACCCTTCCACACGAC
1 GTGTAACCCTTCCACACGAC
45944909 CTTAAGCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.37, G:0.17, T:0.22
Consensus pattern (21 bp):
GTGTAACCCTTCCACACGACT
Found at i:45946937 original size:6 final size:6
Alignment explanation
Indices: 45946904--45946928 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
45946894 TTCCTCTTCC
45946904 TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT T
45946929 TTCTTTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:45947779 original size:42 final size:42
Alignment explanation
Indices: 45947710--45947819 Score: 159
Period size: 42 Copynumber: 2.6 Consensus size: 42
45947700 TAACATTTTA
45947710 GAACCACAC-AGACAGAGGACATGGGCGTGTACCCAGGCCATGT
1 GAACCACACGAG-CA-AGGACATGGGCGTGTACCCAGGCCATGT
* * *
45947753 GAACCACACGAGCAAGGGCATGGGCGTGTGCCTAGGCCATGT
1 GAACCACACGAGCAAGGACATGGGCGTGTACCCAGGCCATGT
*
45947795 GAGCCACACGAGCAAGGACATGGGC
1 GAACCACACGAGCAAGGACATGGGC
45947820 ATTTTTCCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
42 48 0.79
43 11 0.18
44 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.34, T:0.11
Consensus pattern (42 bp):
GAACCACACGAGCAAGGACATGGGCGTGTACCCAGGCCATGT
Found at i:45960379 original size:46 final size:47
Alignment explanation
Indices: 45960324--45960443 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 47
45960314 GCCACCAGAG
**
45960324 TTGCAGTTAAACTACCAGATTAGATATATGTGGTCAAGCCACTAT-A
1 TTGCAGTTAAACTACCAGAACAGATATATGTGGTCAAGCCACTATAA
* * *
45960370 TTGCAGTTAAGA-TGCCAGAACAGATATGTGTGGTCGAGCCACTATAA
1 TTGCAGTTAA-ACTACCAGAACAGATATATGTGGTCAAGCCACTATAA
* * * *
45960417 TTGAAGTCAAACTGCCAAAACAGATAT
1 TTGCAGTTAAACTACCAGAACAGATAT
45960444 GTGGTTAAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
46 39 0.62
47 24 0.38
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (47 bp):
TTGCAGTTAAACTACCAGAACAGATATATGTGGTCAAGCCACTATAA
Found at i:45960446 original size:47 final size:46
Alignment explanation
Indices: 45960345--45960446 Score: 134
Period size: 47 Copynumber: 2.2 Consensus size: 46
45960335 CTACCAGATT
* * * *
45960345 AGATATATGTGGTCAAGCCACTATATTGCAGTTAAGATGCCAGAAC
1 AGATATGTGTGGTCAAGCCACTATATTGAAGTCAAGATGCCAAAAC
*
45960391 AGATATGTGTGGTCGAGCCACTATAATTGAAGTCAA-ACTGCCAAAAC
1 AGATATGTGTGGTCAAGCCACTAT-ATTGAAGTCAAGA-TGCCAAAAC
45960438 AGATATGTG
1 AGATATGTG
45960447 GTTAAACCAC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
46 23 0.47
47 26 0.53
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (46 bp):
AGATATGTGTGGTCAAGCCACTATATTGAAGTCAAGATGCCAAAAC
Found at i:45970473 original size:39 final size:43
Alignment explanation
Indices: 45970370--45970477 Score: 125
Period size: 45 Copynumber: 2.6 Consensus size: 43
45970360 ATTAGAGGTA
45970370 TAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAATG
1 TAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--ATG
* * ***
45970415 TAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-TG
1 TAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTATG
45970455 -AATGGAATAGAGGTGTAATAGCA
1 TAATGGAATAGAGGTGTAATAGCA
45970478 TAATGGAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 21 0.38
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (43 bp):
TAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTATG
Found at i:45970640 original size:16 final size:16
Alignment explanation
Indices: 45970603--45970644 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45970593 TTAATCATAT
*
45970603 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
45970619 TT-AAATATATTATAA
1 TTAAAATATATTATAA
45970634 TTAAAATATAT
1 TTAAAATATAT
45970645 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:45970651 original size:14 final size:15
Alignment explanation
Indices: 45970612--45970653 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45970602 TTTAAACATA
*
45970612 ATTATTATTAAATAT
1 ATTATAATTAAATAT
45970627 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
45970641 A-TATAATTTAATA
1 ATTATAATTAAATA
45970654 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:45974439 original size:17 final size:18
Alignment explanation
Indices: 45974399--45974439 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
45974389 ATTCAATTGT
*
45974399 TAGTTAGTTAGTTAAAAG
1 TAGTTAGTTAGTGAAAAG
45974417 TAGTTAG-TAGCTGAAAA-
1 TAGTTAGTTAG-TGAAAAG
45974434 TAGTTA
1 TAGTTA
45974440 CTGTTAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (18 bp):
TAGTTAGTTAGTGAAAAG
Found at i:45975781 original size:39 final size:37
Alignment explanation
Indices: 45975738--45975836 Score: 108
Period size: 39 Copynumber: 2.6 Consensus size: 37
45975728 GAATCATAAT
* *
45975738 AATTATAATTACCATAATTATAATAATGTTTGACCGAAA
1 AATTATAATTA-CATAATTATAATAATATTGGACCG-AA
* * * *
45975777 AATTACAATTATAATAATTATAATAATATTGGATCGTA
1 AATTATAATTA-CATAATTATAATAATATTGGACCGAA
*
45975815 AATTATAATTACAAAATTATAA
1 AATTATAATTACATAATTATAA
45975837 AAAGGTTTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
37 9 0.18
38 11 0.22
39 30 0.60
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.37
Consensus pattern (37 bp):
AATTATAATTACATAATTATAATAATATTGGACCGAA
Found at i:45978894 original size:3 final size:3
Alignment explanation
Indices: 45978881--45978953 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
45978871 ATTTCCTACC
*
45978881 TCT TAT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
45978929 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
45978954 TTGATACTGA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:45984418 original size:11 final size:11
Alignment explanation
Indices: 45984402--45984426 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45984392 AATCAACCCC
45984402 AAAACTCAATT
1 AAAACTCAATT
45984413 AAAACTCAATT
1 AAAACTCAATT
45984424 AAA
1 AAA
45984427 TCACGAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAACTCAATT
Found at i:45984567 original size:36 final size:36
Alignment explanation
Indices: 45984484--45984569 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 36
45984474 TGTGGGTAGG
* * * *
45984484 CCATGTGGGGCACATGGTTGTTTGAAATCATGTAGA
1 CCATGTGGGGCACATGGTCGTGTAAAATCATGCAGA
* *
45984520 CCGTGTGGGGCACATGGTCGTGTAAAATCATGCAGG
1 CCATGTGGGGCACATGGTCGTGTAAAATCATGCAGA
* *
45984556 TCATGTAGGGCACA
1 CCATGTGGGGCACA
45984570 CGGGCAAGTG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (36 bp):
CCATGTGGGGCACATGGTCGTGTAAAATCATGCAGA
Found at i:45986299 original size:19 final size:19
Alignment explanation
Indices: 45986264--45986314 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
45986254 TTCCAAAAAA
*
45986264 AAAATTCAAATTAATTTTG
1 AAAATTCAAAATAATTTTG
* * *
45986283 AACATTTAAAATAATTTTT
1 AAAATTCAAAATAATTTTG
45986302 AAAATTCAAAATA
1 AAAATTCAAAATA
45986315 TTTCTAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTG
Found at i:45986322 original size:18 final size:19
Alignment explanation
Indices: 45986264--45986325 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
45986254 TTCCAAAAAA
*
45986264 AAAATTCAAATTAATTT-T
1 AAAATTCAAAATAATTTCT
* * *
45986282 GAACATTTAAAATAATTTTT
1 -AAAATTCAAAATAATTTCT
45986302 AAAATTCAAAAT-ATTTCT
1 AAAATTCAAAATAATTTCT
45986320 AAAATT
1 AAAATT
45986326 TCCAAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 11 0.31
19 24 0.67
20 1 0.03
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (19 bp):
AAAATTCAAAATAATTTCT
Found at i:45989489 original size:122 final size:123
Alignment explanation
Indices: 45989145--45989518 Score: 547
Period size: 125 Copynumber: 3.0 Consensus size: 123
45989135 TAGGGTTTTG
* * *
45989145 AGGTCCTGGAAGAAATAATTTTGAGTTGACGTTTCTGA-TCAAATAGTATAAAATCGCTTCTAGC
1 AGGTCATGGAAGAAATAATTTT--TTTGACGTTTCTGAGT-AAATAGTATAAAATCGCTTCTAAC
*
45989209 TGGATGCTATTTGAGAAGAATTTGTGAAATCACGCCCTCGTGGACGCGCTTTTGCTACAGT
63 TGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * * *
45989270 AGGTCATAGAAGAAATAATTTTTTTTTGATGTTTCTGAGAAAATAGTATAAAATTGCTTCTAGA-
1 AGGTCATGGAAGAAATAA--TTTTTTTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTA-AC
*
45989334 TGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCTTCGTGGACGCGCTTTTGCTACAGT
63 TGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* *
45989395 AGGTCATGGAAGAAATAATTTTTTTGACGTTTCTGAGTAAAT-TTATAAAATCGCTTCTAACAGG
1 AGGTCATGGAAGAAATAATTTTTTTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTAACTGG
* * *
45989459 ATGCTATTTGAGAAGAATTAGTGAAATCGCGCCCTCATGGAAGCGCTTTTGCTACAGT
66 ATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
45989517 AG
1 AG
45989519 CATGTTTGGG
Statistics
Matches: 225, Mismatches: 19, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
121 1 0.00
122 73 0.32
123 22 0.10
125 125 0.56
127 4 0.02
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (123 bp):
AGGTCATGGAAGAAATAATTTTTTTGACGTTTCTGAGTAAATAGTATAAAATCGCTTCTAACTGG
ATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
Found at i:45992606 original size:64 final size:65
Alignment explanation
Indices: 45992525--45992723 Score: 258
Period size: 64 Copynumber: 3.0 Consensus size: 65
45992515 ATATTTTTTC
*
45992525 AATTATTTGTACAAATTAATTAAGCTCATGTTATTACATCGAATAATATCAAAATAACTCAAAAA
1 AATTATTTGTACAAATTAATTAAGCTCATGTTATTACATCAAATAATATCAAAATAACTCAAAAA
*
45992590 AA-TATTTGTACAAATTAATTAAGCTCATGTTATTACATCAAATAATATCAAAATAACGCAAAAA
1 AATTATTTGTACAAATTAATTAAGCTCATGTTATTACATCAAATAATATCAAAATAACTC-AAAA
45992654 A
65 A
* * * * * *
45992655 AATTCTATTT-TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTC
1 AA-T-TATTTGTA-CAAATTAATTAAGC-TC-ATGTTATTACATCAAATAATATCAAAATAACTC
45992719 AAAAA
61 AAAAA
45992724 TTTTTTTATT
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
64 55 0.47
65 9 0.08
67 2 0.02
68 14 0.12
69 7 0.06
70 31 0.26
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.34
Consensus pattern (65 bp):
AATTATTTGTACAAATTAATTAAGCTCATGTTATTACATCAAATAATATCAAAATAACTCAAAAA
Found at i:45992702 original size:25 final size:25
Alignment explanation
Indices: 45992648--45992704 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
45992638 CAAAATAACG
*
45992648 CAAAAAAAATTCTATTTTATTACAT
1 CAAATAAAATTCTATTTTATTACAT
*
45992673 CAAATAAACTTCTATTTTATTACAT
1 CAAATAAAATTCTATTTTATTACAT
45992698 CAAATAA
1 CAAATAA
45992705 TATCAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (25 bp):
CAAATAAAATTCTATTTTATTACAT
Found at i:45992710 original size:70 final size:70
Alignment explanation
Indices: 45992619--45992749 Score: 208
Period size: 70 Copynumber: 1.9 Consensus size: 70
45992609 TAAGCTCATG
*
45992619 TTATTACATCAAATAATATCAAAATAACGCAAAAAAAATTCTATTTTATTACATCAAATAAACTT
1 TTATTACATCAAATAATATCAAAATAACGCAAAAAAAATTCTATTTTATTACATAAAATAAACTT
45992684 CTATT
66 CTATT
* *** *
45992689 TTATTACATCAAATAATATCAAAATAACTCAAAAATTTTTTTATTTTATTACATAAAATAA
1 TTATTACATCAAATAATATCAAAATAACGCAAAAAAAATTCTATTTTATTACATAAAATAA
45992750 TATCAAAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 55 1.00
ACGTcount: A:0.49, C:0.12, G:0.01, T:0.38
Consensus pattern (70 bp):
TTATTACATCAAATAATATCAAAATAACGCAAAAAAAATTCTATTTTATTACATAAAATAAACTT
CTATT
Found at i:45992721 original size:45 final size:45
Alignment explanation
Indices: 45992672--45992759 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
45992662 TTTTATTACA
*
45992672 TCAAATAA-ACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAA-AATACTTCTATTTTATTACATAAAATAATATCAAAATAAC
** *
45992717 TCAAAAATTTTTTTATTTTATTACATAAAATAATATCAAAATA
1 TCAAAAATACTTCTATTTTATTACATAAAATAATATCAAAATA
45992760 TTCAAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 2 0.05
45 36 0.95
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (45 bp):
TCAAAAATACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:45993201 original size:18 final size:18
Alignment explanation
Indices: 45993178--45993217 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
45993168 GACTCGGAAA
*
45993178 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGCT
45993196 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
45993214 AGGA
1 AGGA
45993218 AACGCACCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:45994089 original size:21 final size:20
Alignment explanation
Indices: 45994056--45994094 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
45994046 TTTATTTTTA
*
45994056 AAAATCTACATAATATTTGT
1 AAAATCTACATAAAATTTGT
*
45994076 AAAATCTAATATAAAATTT
1 AAAATCT-ACATAAAATTT
45994095 ACCTCGTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAATCTACATAAAATTTGT
Found at i:45995051 original size:11 final size:12
Alignment explanation
Indices: 45995037--45995079 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
45995027 TTAAATATGG
45995037 ATTTGAGA-GAA
1 ATTTGAGAGGAA
45995048 ATTTTGA-AGGAA
1 A-TTTGAGAGGAA
45995060 A-TTGAGAGGAA
1 ATTTGAGAGGAA
45995071 ATTTGAGAG
1 ATTTGAGAG
45995080 AGGATTAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 4 0.14
11 8 0.29
12 16 0.57
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.28
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:45996058 original size:25 final size:24
Alignment explanation
Indices: 45996030--45996149 Score: 93
Period size: 25 Copynumber: 4.8 Consensus size: 24
45996020 TCATTAGGGA
45996030 TTACCGATTCTCAGCTCGTATAAGC
1 TTACCGATTCT-AGCTCGTATAAGC
*
45996055 TTACCGATTGTAGCTC--ATGAGAGC
1 TTACCGATTCTAGCTCGTAT-A-AGC
*
45996079 TTACCGATTCTTAGCTCGTATGAGC
1 TTACCGATTC-TAGCTCGTATAAGC
* * *
45996104 TTACCAATTTATAGCTCGTGA-AAAC
1 TTACCGA-TTCTAGCTCGT-ATAAGC
* *
45996129 ATACCGATTCATAGCTTGTAT
1 TTACCGATTC-TAGCTCGTAT
45996150 GAGCATACAT
Statistics
Matches: 75, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
22 2 0.03
23 1 0.01
24 20 0.27
25 47 0.63
26 3 0.04
27 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (24 bp):
TTACCGATTCTAGCTCGTATAAGC
Found at i:45996105 original size:49 final size:50
Alignment explanation
Indices: 45996030--45996153 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
45996020 TCATTAGGGA
* * * * * *
45996030 TTACCGATTCTCAGCTCGTATAAGCTTACCGA-TTGTAGCTCATGAGAGC
1 TTACCGATTCTTAGCTCGTATGAGCTTACCAATTTATAGCTCATGAAAAC
*
45996079 TTACCGATTCTTAGCTCGTATGAGCTTACCAATTTATAGCTCGTGAAAAC
1 TTACCGATTCTTAGCTCGTATGAGCTTACCAATTTATAGCTCATGAAAAC
* * *
45996129 ATACCGATTCATAGCTTGTATGAGC
1 TTACCGATTCTTAGCTCGTATGAGC
45996154 ATACATGTAT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
49 29 0.45
50 35 0.55
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (50 bp):
TTACCGATTCTTAGCTCGTATGAGCTTACCAATTTATAGCTCATGAAAAC
Found at i:45996335 original size:30 final size:30
Alignment explanation
Indices: 45996296--45996357 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
45996286 TACATGAGAT
45996296 ACATGGAAAT-GAT-ATTACATGATATATTAAA
1 ACATGGAAATGGATGA-TACATG-TATA-TAAA
45996327 ACAT-GAAATGGATGATACATGTATATAAA
1 ACATGGAAATGGATGATACATGTATATAAA
45996356 AC
1 AC
45996358 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.48, C:0.08, G:0.15, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATAAA
Found at i:46001534 original size:3 final size:3
Alignment explanation
Indices: 46001526--46001557 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
46001516 AGGGTTTTAA
46001526 AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A
46001558 TACAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:46001626 original size:13 final size:12
Alignment explanation
Indices: 46001608--46001637 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
46001598 AAAATAACTA
46001608 ATATATTAATACT
1 ATATATTAAT-CT
46001621 ATATATTAATCT
1 ATATATTAATCT
46001633 ATATA
1 ATATA
46001638 AGTAGTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATTAATCT
Found at i:46001664 original size:18 final size:18
Alignment explanation
Indices: 46001637--46001671 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46001627 TAATCTATAT
*
46001637 AAGTAGTATATATAAAAG
1 AAGTAATATATATAAAAG
46001655 AAGTAATATATATAAAA
1 AAGTAATATATATAAAA
46001672 TGGAGAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (18 bp):
AAGTAATATATATAAAAG
Found at i:46002002 original size:16 final size:15
Alignment explanation
Indices: 46001977--46002017 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
46001967 AAAGAGGAAT
*
46001977 TTTAAAATAAATTAA
1 TTTAAAATAAATAAA
46001992 TTTAAAGATAAATAAA
1 TTTAAA-ATAAATAAA
46002008 TTTTAAAATA
1 -TTTAAAATA
46002018 TTATATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 11 0.48
17 6 0.26
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (15 bp):
TTTAAAATAAATAAA
Found at i:46007140 original size:18 final size:18
Alignment explanation
Indices: 46007108--46007153 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
46007098 TATGCGACCA
* *
46007108 CTCGGGCTTTGGCTCGGG
1 CTCGGGCTCTAGCTCGGG
*
46007126 CTCGGGCTCTAGCTCTGG
1 CTCGGGCTCTAGCTCGGG
*
46007144 CTCTGGCTCT
1 CTCGGGCTCT
46007154 TGCCCGGCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.02, C:0.33, G:0.35, T:0.30
Consensus pattern (18 bp):
CTCGGGCTCTAGCTCGGG
Found at i:46009367 original size:23 final size:24
Alignment explanation
Indices: 46009339--46009395 Score: 64
Period size: 27 Copynumber: 2.3 Consensus size: 24
46009329 TCCTAATTTA
46009339 TCTCAT-AAATTCCA-ACTCAATGG
1 TCTCATCAAATTCCATA-TCAATGG
46009362 TCTCATTCACAAATTCCATATCAATGG
1 TCTCA-T--CAAATTCCATATCAATGG
46009389 TCTCATC
1 TCTCATC
46009396 TTTTACCTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
23 5 0.17
24 2 0.07
26 1 0.03
27 20 0.69
28 1 0.03
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (24 bp):
TCTCATCAAATTCCATATCAATGG
Found at i:46010078 original size:31 final size:30
Alignment explanation
Indices: 46010028--46010097 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 30
46010018 TTATGGAGAT
46010028 GGCGTGACCGGTGGTGCCGCCTCTGCCCTA
1 GGCGTGACCGGTGGTGCCGCCTCTGCCCTA
*
46010058 GGCGTGACCAAGG-GGTGCCGCCTCTTCCCTA
1 GGCGTGACC--GGTGGTGCCGCCTCTGCCCTA
46010089 GGCGTGACC
1 GGCGTGACC
46010098 TCTTGTGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
30 9 0.24
31 26 0.70
32 2 0.05
ACGTcount: A:0.10, C:0.36, G:0.36, T:0.19
Consensus pattern (30 bp):
GGCGTGACCGGTGGTGCCGCCTCTGCCCTA
Found at i:46011652 original size:20 final size:20
Alignment explanation
Indices: 46011627--46011667 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
46011617 AAAATAACAC
46011627 TCAGTTATTTTCAGTATATA
1 TCAGTTATTTTCAGTATATA
46011647 TCAGTTATTTTCAGTATATA
1 TCAGTTATTTTCAGTATATA
46011667 T
1 T
46011668 GATCTTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.51
Consensus pattern (20 bp):
TCAGTTATTTTCAGTATATA
Found at i:46013422 original size:44 final size:44
Alignment explanation
Indices: 46013359--46013443 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
46013349 TCACATTTAA
*
46013359 TATTGCTATCACATTTAATCTCA-TCGTTAATGCTGTTTTTATAG
1 TATTGCTATCACATTTAATCTCACT-GTTAACGCTGTTTTTATAG
* *
46013403 TATTGCTATCGCATTTAATCTTACTGTTAACGCTGTTTTTA
1 TATTGCTATCACATTTAATCTCACTGTTAACGCTGTTTTTA
46013444 CATTCATTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 36 0.97
45 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (44 bp):
TATTGCTATCACATTTAATCTCACTGTTAACGCTGTTTTTATAG
Found at i:46014934 original size:22 final size:22
Alignment explanation
Indices: 46014888--46014934 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
46014878 TCATACTTTC
*
46014888 AAAATAATTTTAATAATTTTTA
1 AAAATAATTTTAATAATTTTAA
46014910 AAAATAAATTTTTAA-AA-TTTAA
1 AAAAT-AA-TTTTAATAATTTTAA
46014932 AAA
1 AAA
46014935 TTTAATTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 12 0.55
23 4 0.18
24 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATAATTTTAATAATTTTAA
Found at i:46026606 original size:40 final size:39
Alignment explanation
Indices: 46026542--46026753 Score: 246
Period size: 40 Copynumber: 5.3 Consensus size: 39
46026532 TCTTCGGAAT
* * *
46026542 TTAG-CCGGATATAACCACAAGCACAAATGCCCTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
46026581 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
46026621 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
46026661 TTATCCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * * *
46026701 TTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
46026741 TTAGCCCGGATAT
1 TTAGCCCGGATAT
46026754 CATTCAAATG
Statistics
Matches: 145, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 10 0.07
40 128 0.88
41 7 0.05
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:46026669 original size:80 final size:80
Alignment explanation
Indices: 46026542--46026753 Score: 327
Period size: 80 Copynumber: 2.7 Consensus size: 80
46026532 TCTTCGGAAT
* * * * * *
46026542 TTAG-CCGGATATAACCACAAGCACAAATGCCCTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
46026606 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
46026621 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTATCCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
46026686 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
46026701 TTGGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
46026754 CATTCAAATG
Statistics
Matches: 120, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 4 0.03
80 116 0.97
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:46031290 original size:23 final size:22
Alignment explanation
Indices: 46031263--46031313 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
46031253 AACAAAAAGA
*
46031263 AAGAAAGAAAACGTGAAAGTTG
1 AAGAAAGAAAACGTGAAAATTG
* *
46031285 AGAGAAA-AGAATGTGAAAATTG
1 A-AGAAAGAAAACGTGAAAATTG
46031307 AAGAAAG
1 AAGAAAG
46031314 GAAATTTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 5 0.21
22 14 0.58
23 5 0.21
ACGTcount: A:0.57, C:0.02, G:0.27, T:0.14
Consensus pattern (22 bp):
AAGAAAGAAAACGTGAAAATTG
Found at i:46034194 original size:38 final size:37
Alignment explanation
Indices: 46034125--46034197 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
46034115 TTTTCATAAT
* *
46034125 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
46034162 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
46034198 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:46034228 original size:23 final size:22
Alignment explanation
Indices: 46034185--46034228 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
46034175 TTTCAAGTCA
46034185 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
46034208 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
46034229 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:46034353 original size:23 final size:23
Alignment explanation
Indices: 46034327--46034402 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
46034317 ATAAGTGCCA
*
46034327 CACTGATATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
46034350 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46034373 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46034396 CACTGAT
1 CACTGAT
46034403 CAATAACACT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:46034903 original size:30 final size:30
Alignment explanation
Indices: 46034855--46034913 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
46034845 TCCTTGACTC
*
46034855 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTGGCCCCT
* * * *
46034885 AAACTTTTGCATATTTACACTTTGGCCCC
1 AAACTTTGGCAAAATTACAATTTGGCCCC
46034914 AAAGCTCGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTGGCCCCT
Found at i:46036171 original size:21 final size:22
Alignment explanation
Indices: 46036146--46036186 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
46036136 TTATTTTATA
*
46036146 TTAAAATACAATAT-AAAATTT
1 TTAAAAAACAATATGAAAATTT
*
46036167 TTAAAAAATAATATGAAAAT
1 TTAAAAAACAATATGAAAAT
46036187 AATAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (22 bp):
TTAAAAAACAATATGAAAATTT
Found at i:46036622 original size:17 final size:17
Alignment explanation
Indices: 46036600--46036639 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
46036590 AAATTTATTA
*
46036600 TAATTTATAAA-AACAAT
1 TAATTTA-AAATAAAAAT
46036617 TAATTTAAAATAAAAAT
1 TAATTTAAAATAAAAAT
46036634 TAATTT
1 TAATTT
46036640 TCCAAGTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
TAATTTAAAATAAAAAT
Found at i:46037992 original size:42 final size:42
Alignment explanation
Indices: 46037844--46038094 Score: 262
Period size: 42 Copynumber: 6.0 Consensus size: 42
46037834 CACTTACACA
* * * *
46037844 AGAAAACGCCGCTAAAGAACATTTTCTTTAGCGGCGCTAAGA
1 AGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * * *
46037886 AAATAAACGCCGCTAAAGATCATGTTATTTAGCGACACTTAGG
1 AGA-AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* *
46037929 AAGAAAACGCCGCTAACGATCATGTTCTTTAACGGCGCTTAGG
1 -AGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* * *
46037972 AGAAAACGTCGCTAAAGATCATGTTCTTTAGCGGCGTTTGGG
1 AGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
* *
46038014 A-AAAACGCCGCTAAA-AGTAATGTTCTATAGCGGCGCTT-GG
1 AGAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAGG
46038054 TCA-AAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTTA
1 --AGAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGCTTA
46038095 TTTCACAAAC
Statistics
Matches: 178, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
40 3 0.02
41 32 0.18
42 75 0.42
43 66 0.37
44 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (42 bp):
AGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
Found at i:46038051 original size:83 final size:82
Alignment explanation
Indices: 46037843--46038090 Score: 243
Period size: 83 Copynumber: 2.9 Consensus size: 82
46037833 GCACTTACAC
* * * *
46037843 AAGAAAACGCCGCTAAAGAACATTTTCTTTAGCGGCGCTAAGAAAATAAACGCCGCTAAAGATCA
1 AAGAAAACGCCGCTAAAGTA-ATGTTCTTTAGCGGCGCTTAG-GAA-AAACGCCGCTAAAGATCA
* * *
46037908 TGTTATTTAGCGACACTTAGG
63 TGTTCTTTAGCGGC-GTTAGG
* * * *
46037929 AAGAAAACGCCGCTAACGATCATGTTCTTTAACGGCGCTTAGGAGAAAACGTCGCTAAAGATCAT
1 AAGAAAACGCCGCTAAAG-TAATGTTCTTTAGCGGCGCTTAGGA-AAAACGCCGCTAAAGATCAT
*
46037994 GTTCTTTAGCGGCGTTTGG
64 GTTCTTTAGCGGCGTTAGG
* *
46038013 GA-AAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTT-GGTCAAAAACGCCGCTAAA-AGT-
1 AAGAAAACGCCGCT-AAAGTAATGTTCTTTAGCGGCGCTTAGG--AAAAACGCCGCTAAAGA-TC
46038074 AGTGTTCTTTAGCGGCG
62 A-TGTTCTTTAGCGGCG
46038091 CTTATTTCAC
Statistics
Matches: 137, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
82 4 0.03
83 58 0.42
84 9 0.07
85 30 0.22
86 36 0.26
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (82 bp):
AAGAAAACGCCGCTAAAGTAATGTTCTTTAGCGGCGCTTAGGAAAAACGCCGCTAAAGATCATGT
TCTTTAGCGGCGTTAGG
Found at i:46038527 original size:12 final size:12
Alignment explanation
Indices: 46038510--46038547 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
46038500 TTTTGAACCT
46038510 CTGCTTCTATCG
1 CTGCTTCTATCG
*
46038522 CTGCTTCTCTCG
1 CTGCTTCTATCG
*
46038534 CTGCTTCTTTCG
1 CTGCTTCTATCG
46038546 CT
1 CT
46038548 ATAGCCTCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.03, C:0.37, G:0.16, T:0.45
Consensus pattern (12 bp):
CTGCTTCTATCG
Found at i:46044130 original size:9 final size:9
Alignment explanation
Indices: 46044108--46044472 Score: 404
Period size: 9 Copynumber: 41.3 Consensus size: 9
46044098 AGTAAGGAAG
46044108 GTTATGT-A
1 GTTATGTAA
46044116 -TTATGTAA
1 GTTATGTAA
46044124 GTTATGTAA
1 GTTATGTAA
46044133 GTTATGTAA
1 GTTATGTAA
*
46044142 TTTATGTAA
1 GTTATGTAA
*
46044151 GTTACGTAA
1 GTTATGTAA
46044160 GTTATGTAA
1 GTTATGTAA
* *
46044169 ATTATTTAA
1 GTTATGTAA
*
46044178 TTTATGTAA
1 GTTATGTAA
*
46044187 TTTATGTAA
1 GTTATGTAA
*
46044196 GATATGTAA
1 GTTATGTAA
*
46044205 GTTATTTAA
1 GTTATGTAA
46044214 GTTATGTAA
1 GTTATGTAA
46044223 GTTATGTAA
1 GTTATGTAA
*
46044232 GTTATTTAA
1 GTTATGTAA
*
46044241 TTTATGTAA
1 GTTATGTAA
*
46044250 GTTATATAA
1 GTTATGTAA
*
46044259 TTTATGTAA
1 GTTATGTAA
46044268 GTTATGT-A
1 GTTATGTAA
***
46044276 -TTAAACAA
1 GTTATGTAA
*
46044284 -TAATGTAA
1 GTTATGTAA
* *
46044292 G-TAAGGAA
1 GTTATGTAA
46044300 GGTTATGT-A
1 -GTTATGTAA
46044309 -TTATGTAA
1 GTTATGTAA
46044317 GTTATGTAA
1 GTTATGTAA
46044326 GTTATGTAA
1 GTTATGTAA
46044335 GTTATGTAA
1 GTTATGTAA
*
46044344 TTTATGTAA
1 GTTATGTAA
46044353 GTTATGTAA
1 GTTATGTAA
46044362 GTTATGTAA
1 GTTATGTAA
*
46044371 GTTATTTAA
1 GTTATGTAA
*
46044380 TTTATGTAA
1 GTTATGTAA
46044389 GTTATGTAA
1 GTTATGTAA
*
46044398 GATATGTAA
1 GTTATGTAA
*
46044407 GTTATTTAA
1 GTTATGTAA
*
46044416 TTTATGTAA
1 GTTATGTAA
*
46044425 GTTATATAA
1 GTTATGTAA
*
46044434 TTTATGTAA
1 GTTATGTAA
46044443 GTTATGTAA
1 GTTATGTAA
* *
46044452 TTTATATAA
1 GTTATGTAA
*
46044461 GTTATGCAA
1 GTTATGTAA
46044470 GTT
1 GTT
46044473 TATATATAAG
Statistics
Matches: 295, Mismatches: 54, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
7 15 0.05
8 12 0.04
9 265 0.90
10 3 0.01
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.47
Consensus pattern (9 bp):
GTTATGTAA
Found at i:46044658 original size:9 final size:9
Alignment explanation
Indices: 46044644--46044682 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
46044634 TAAATATTTA
46044644 TAAGTTATG
1 TAAGTTATG
*
46044653 TAAGTTATA
1 TAAGTTATG
*
46044662 TAATTTATG
1 TAAGTTATG
46044671 TAAGTTATG
1 TAAGTTATG
46044680 TAA
1 TAA
46044683 TTTAAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:46044669 original size:18 final size:18
Alignment explanation
Indices: 46044642--46044686 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
46044632 TATAAATATT
*
46044642 TATAAGTTATGTAAGTTA
1 TATAATTTATGTAAGTTA
46044660 TATAATTTATGTAAGTTA
1 TATAATTTATGTAAGTTA
*
46044678 TGTAATTTA
1 TATAATTTA
46044687 AAAATTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (18 bp):
TATAATTTATGTAAGTTA
Done.