Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
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: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 59 of 106
Found at i:10465263 original size:21 final size:20
Alignment explanation
Indices: 10465212--10465260 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
10465202 TTATATTTAT
10465212 AATAAATAA-TTAATAATTA
1 AATAAATAATTTAATAATTA
* * *
10465231 AATTTATTAATTTATTAATTA
1 AA-TAAATAATTTAATAATTA
10465252 AATAAATAA
1 AATAAATAA
10465261 ATTATAAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
19 2 0.09
20 10 0.43
21 11 0.48
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATAAATAATTTAATAATTA
Found at i:10465607 original size:21 final size:21
Alignment explanation
Indices: 10465583--10465622 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10465573 TATCAAGAAT
*
10465583 TTAATTATATAATATTTTAAG
1 TTAAATATATAATATTTTAAG
*
10465604 TTAAATATTTAATATTTTA
1 TTAAATATATAATATTTTA
10465623 TTAACAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TTAAATATATAATATTTTAAG
Found at i:10467026 original size:28 final size:27
Alignment explanation
Indices: 10466972--10467040 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 27
10466962 TATTAGCTAA
* *
10466972 AAATTATATTAAAAAATTTATATTATT
1 AAATTATTTTAAAAAAATTATATTATT
**
10466999 TTA-TATTTTAAAAATAATTATTATTATT
1 AAATTATTTTAAAAA-AATTA-TATTATT
10467027 AAATTATTTTAAAA
1 AAATTATTTTAAAA
10467041 TCAAACAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
26 10 0.30
27 5 0.15
28 8 0.24
29 10 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AAATTATTTTAAAAAAATTATATTATT
Found at i:10467041 original size:28 final size:28
Alignment explanation
Indices: 10466972--10467041 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
10466962 TATTAGCTAA
*
10466972 AAATTATATTAAAA-AATTTATATTATT
1 AAATTATTTTAAAATAATTTATATTATT
**
10466999 TTA-TATTTTAAAAATAA-TTATTATTATT
1 AAATTATTTT-AAAATAATTTA-TATTATT
10467027 AAATTATTTTAAAAT
1 AAATTATTTTAAAAT
10467042 CAAACAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
26 5 0.15
27 8 0.24
28 15 0.44
29 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
AAATTATTTTAAAATAATTTATATTATT
Found at i:10467146 original size:25 final size:25
Alignment explanation
Indices: 10467087--10467143 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
10467077 TTTATTATAT
*
10467087 AATAATAAAATTATTTTTATATTAA
1 AATAACAAAATTATTTTTATATTAA
* *
10467112 AGTAACAAAATTATTTTATAATTTTAA
1 AATAACAAAATTATTTT-T-ATATTAA
10467139 AATAA
1 AATAA
10467144 AAAGCTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 15 0.58
26 1 0.04
27 10 0.38
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
AATAACAAAATTATTTTTATATTAA
Found at i:10469378 original size:20 final size:20
Alignment explanation
Indices: 10469341--10469378 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10469331 TTCATATATA
*
10469341 TTGAGAAATTTTTGTTTGGT
1 TTGAGAAATGTTTGTTTGGT
10469361 TTGAGAAAATGTTT-TTTG
1 TTGAG-AAATGTTTGTTTG
10469379 TTCTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (20 bp):
TTGAGAAATGTTTGTTTGGT
Found at i:10470880 original size:19 final size:20
Alignment explanation
Indices: 10470836--10470881 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
10470826 AAATATTTTA
10470836 TTAATTAAAATAATAAAAAT
1 TTAATTAAAATAATAAAAAT
*
10470856 AT-ATTAAAAT-ATAAAAAT
1 TTAATTAAAATAATAAAAAT
10470874 TTAATTAA
1 TTAATTAA
10470882 GCTCGTGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 9 0.39
19 13 0.57
20 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TTAATTAAAATAATAAAAAT
Found at i:10476526 original size:364 final size:362
Alignment explanation
Indices: 10475726--10476974 Score: 1285
Period size: 364 Copynumber: 3.4 Consensus size: 362
10475716 AAAAAAAATT
* * * * * *
10475726 TTGAATCTCACATCGAACATAATAGAAAGGTTACTGGGGTATATAAGAGTTCACATCATCTCTTC
1 TTGAATCTCACATCGAACATAATAGAAAGGTCACTAGGGTATAAAAGGGTTCACACCACCTCTTC
* * *
10475791 TTTATGAGGCACATTTTGTAAGATAAAATCGTGAGG-CTAA-GGGATCAGAGCGGACAATACCTC
66 CTTATGAGGCACCTTTTGTAGGATAAAATCGTGAGGTC-AAGGGGATCAGAGCGGACAATACCTC
* * * * * *
10475854 ATAAAGGTATGAACCGTGACAGAAAGGTTGATCTGAGACT-CCGGATGAGTGAATGCCTGGGTCC
130 ACAAGGGTATGAACCGTGGCAGGAAGGCTGATCTGAGA-TGTCGGATGAGTGAATGCC-GGGTCC
* *
10475918 CGGAG-T-CGTTCAGGTTCAGG-GCTTAAGTCTCGACTTGTGACAAGTGGTATCAGAGCCAACCC
193 CGGAGTTGCG-T-GGGTTC-GGAGCTTAAGTCTCGACTTGTGACAAGTGGTATCAGA-CCAGCCC
* ** * * *
10475980 TATACTATTCGATCCATGTCAAGCGCCTCGAAGGAGGTAGGCAAGGTGGCCAACTGCCTTCGTGA
254 TAAACCGTTCGATCCACGCCAAGCGCCTCGAGGGAGGTAGGCAAGGTGG-C-A--G-CTTCGTGA
* * * *
10476045 CGAGAGCGTCACAAGGTTGGAGAA-TGTCAC--GGACCTAAGGAAGAGTC
314 CGAGGGCGTCACGAGGTT-TAGAAGGGTCACTAGGACCTAAGGAAGAGTC
* * * *
10476092 CTGAATCCCACATCGAACATAATA-AGAGGGTCACTAGGGTATAAAAGGGTTCACACCACCTCTG
1 TTGAATCTCACATCGAACATAATAGA-AAGGTCACTAGGGTATAAAAGGGTTCACACCACCTCTT
* ** * * *
10476156 CCTTGTGAGGTGCCTTTTGTAGGACAAAATCGTGAGGTC-AGGGGGTCAGAGCGGACAAATACTT
65 CCTTATGAGGCACCTTTTGTAGGATAAAATCGTGAGGTCAAGGGGATCAGAGCGGAC-AATACCT
* * * *
10476220 CACAAGGGTTTGAACCGTGGTAGGTAGGCTGATCTGAGATGTCGGATGAGTGGATGCTCGGGTCC
129 CACAAGGGTATGAACCGTGGCAGGAAGGCTGATCTGAGATGTCGGATGAGTGAATGC-CGGGTCC
* *
10476285 TGGAGTTGCGTGGGTTCGGAGCTTAAGTCTCAACTTGTGACAAGTGGTATCAGA-CAGCCCTAAA
193 CGGAGTTGCGTGGGTTCGGAGCTTAAGTCTCGACTTGTGACAAGTGGTATCAGACCAGCCCTAAA
** *
10476349 CCGTTCGATCCACG-CAAG-TACTCGAGGGAGGTAGGCAAGATGGCTAGCTTCTGTGACGAGGGC
258 CCGTTCGATCCACGCCAAGCGCCTCGAGGGAGGTAGGCAAGGTGGC-AGCTTC-GTGACGAGGGC
*
10476412 GTCACGAGGTTTAGAAGGGTCACTAGGGGCCTAAAGGAAGAGTC
321 GTCACGAGGTTTAGAAGGGTCACTA-GGACCT-AAGGAAGAGTC
* * * * *
10476456 TTGAATCTCACATCGAACATAATAGGAGGGTAATTAGGGTATAAAAGGGTTCACACCACCTCTAC
1 TTGAATCTCACATCGAACATAATAGAAAGGTCACTAGGGTATAAAAGGGTTCACACCACCTCTTC
* * * * *
10476521 CTTGTGAGACACCTTTTGTAGGATAAAACCGTGAGGCCAAGGGGATCAGAGCGGACAATACCTTA
66 CTTATGAGGCACCTTTTGTAGGATAAAATCGTGAGGTCAAGGGGATCAGAGCGGACAATACCTCA
* * * * * * * * *
10476586 CAAGAGTATGAATCGTGGCAAGAAGGCTGATCCGAGACGTCGGAAGTGTAAATGCCCGGATCCCG
131 CAAGGGTATGAACCGTGGCAGGAAGGCTGATCTGAGATGTCGGATGAGTGAATG-CCGGGTCCCG
* * * * * *
10476651 GAGTCGCGCGAGTTTGGAGCTTAAGTCTCGACTCGTGACAAGTGGTATCAGAGCCAGCCTTAAAC
195 GAGTTGCGTGGGTTCGGAGCTTAAGTCTCGACTTGTGACAAGTGGTATCAGA-CCAGCCCTAAAC
* * * * *
10476716 CGTTCGACCCACGCCAAGCGCCTCGAGGGAGATAGGCAGGGTGGGCAGCCTCCATGACGAGGGCG
259 CGTTCGATCCACGCCAAGCGCCTCGAGGGAGGTAGGCAAGGT-GGCAG-CTTCGTGACGAGGGCG
**
10476781 TCACGAGGTTAGGTAGGGGAGAATGTCAC--GGACCTAAGGAAGAGTC
322 TCACGAGGTT---TA---GA-AGGGTCACTAGGACCTAAGGAAGAGTC
* *
10476827 -TGAATCTCACATCGAACATAATAGAAAGGTCACTAGGGTATATAAGGGTTCACACCATCTCTTC
1 TTGAATCTCACATCGAACATAATAGAAAGGTCACTAGGGTATAAAAGGGTTCACACCACCTCTTC
* * * * *
10476891 CTTATGAGGCACC-TTTGTAGGATAAAA-CTGTGAAGGTTAGGGGGGTCAAAACGGACAATACCT
66 CTTATGAGGCACCTTTTGTAGGATAAAATC-GTG-AGGTCAAGGGGATCAGAGCGGACAATACCT
*
10476954 CACAAGGGTGTGAACCGTGGC
129 CACAAGGGTATGAACCGTGGC
10476975 TGAATACTAT
Statistics
Matches: 737, Mismatches: 113, Indels: 62
0.81 0.12 0.07
Matches are distributed among these distances:
359 8 0.01
360 26 0.04
362 2 0.00
363 26 0.04
364 207 0.28
365 38 0.05
366 121 0.16
367 104 0.14
368 45 0.06
369 25 0.03
370 109 0.15
371 13 0.02
372 5 0.01
374 2 0.00
375 6 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (362 bp):
TTGAATCTCACATCGAACATAATAGAAAGGTCACTAGGGTATAAAAGGGTTCACACCACCTCTTC
CTTATGAGGCACCTTTTGTAGGATAAAATCGTGAGGTCAAGGGGATCAGAGCGGACAATACCTCA
CAAGGGTATGAACCGTGGCAGGAAGGCTGATCTGAGATGTCGGATGAGTGAATGCCGGGTCCCGG
AGTTGCGTGGGTTCGGAGCTTAAGTCTCGACTTGTGACAAGTGGTATCAGACCAGCCCTAAACCG
TTCGATCCACGCCAAGCGCCTCGAGGGAGGTAGGCAAGGTGGCAGCTTCGTGACGAGGGCGTCAC
GAGGTTTAGAAGGGTCACTAGGACCTAAGGAAGAGTC
Found at i:10478881 original size:18 final size:18
Alignment explanation
Indices: 10478858--10478895 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
10478848 AGAGAATTTC
10478858 ATTGTAAAGCCGTATGCA
1 ATTGTAAAGCCGTATGCA
10478876 ATTGTAAAGCCGTATGCA
1 ATTGTAAAGCCGTATGCA
10478894 AT
1 AT
10478896 GCGTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (18 bp):
ATTGTAAAGCCGTATGCA
Found at i:10484796 original size:22 final size:22
Alignment explanation
Indices: 10484768--10484811 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10484758 ATTTTTTGTC
10484768 CTTAATTATA-AGGATACAAATA
1 CTTAATTATAGA-GATACAAATA
*
10484790 CTTAATTCTAGAGATACAAATA
1 CTTAATTATAGAGATACAAATA
10484812 TAAATATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTAATTATAGAGATACAAATA
Found at i:10488189 original size:25 final size:25
Alignment explanation
Indices: 10488152--10488200 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10488142 TTTCTTTGAA
* *
10488152 AGGGTTCGGCAATGAAGGCCTAAAC
1 AGGGTTCGACAATAAAGGCCTAAAC
10488177 AGGGTTCGACAATAAAGGCCTAAA
1 AGGGTTCGACAATAAAGGCCTAAA
10488201 ATAGAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.29, T:0.16
Consensus pattern (25 bp):
AGGGTTCGACAATAAAGGCCTAAAC
Found at i:10488311 original size:24 final size:26
Alignment explanation
Indices: 10488264--10488313 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
10488254 CTCTGATACC
*
10488264 ATGTGAAAAAATTAAGAAATAAAATT
1 ATGTGAAAAAACTAAGAAATAAAATT
*
10488290 ATGT-AAAAAACTAAGAGA-AAAATT
1 ATGTGAAAAAACTAAGAAATAAAATT
10488314 GAATGTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 6 0.27
25 12 0.55
26 4 0.18
ACGTcount: A:0.62, C:0.02, G:0.12, T:0.24
Consensus pattern (26 bp):
ATGTGAAAAAACTAAGAAATAAAATT
Found at i:10488506 original size:6 final size:6
Alignment explanation
Indices: 10488495--10488525 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
10488485 CTAAAGATAC
10488495 AAATAT AAATAT AAATAT AAATAT AAATAT A
1 AAATAT AAATAT AAATAT AAATAT AAATAT A
10488526 CAGATTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATAT
Found at i:10508158 original size:39 final size:39
Alignment explanation
Indices: 10508104--10508182 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
10508094 TTTTTGGTCC
10508104 TATTTTCTTTAATGATAATTCAAACTAGTGTTGGAATAT
1 TATTTTCTTTAATGATAATTCAAACTAGTGTTGGAATAT
10508143 TATTTTCTTTAATGATAATTCAAACTAGTGTTGGAATAT
1 TATTTTCTTTAATGATAATTCAAACTAGTGTTGGAATAT
10508182 T
1 T
10508183 GAGGGATCTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.47
Consensus pattern (39 bp):
TATTTTCTTTAATGATAATTCAAACTAGTGTTGGAATAT
Found at i:10509973 original size:21 final size:20
Alignment explanation
Indices: 10509948--10509994 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
10509938 AAAAATTTTG
*
10509948 ATTTTATTTAAAT-TAATTAA
1 ATTTTATTGAAATATAA-TAA
10509968 AGTTTTATTGAAATATAATAA
1 A-TTTTATTGAAATATAATAA
10509989 ATTTTA
1 ATTTTA
10509995 AATATAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 15 0.62
22 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
ATTTTATTGAAATATAATAA
Found at i:10514181 original size:66 final size:65
Alignment explanation
Indices: 10514076--10514210 Score: 180
Period size: 66 Copynumber: 2.1 Consensus size: 65
10514066 GTTAATAATG
* * * *
10514076 CCACGTGGCTATGGCTAGAAAGATAAAGTCGGGTTTGGCATGTTTGTCAAGCTTGAAGTAATGTT
1 CCACGTGGCTATCGCTAGAAAGATAAAGTCGGGTATGGCACGTTTGTCAAGCTTGAAGTAACGTT
* * * * *
10514141 CCACGTGGCTATACGTTAGTAAGATAAAGTTGGGTATGGCACGTTTGTCAAGGTTGGAGTAACGT
1 CCACGTGGCTAT-CGCTAGAAAGATAAAGTCGGGTATGGCACGTTTGTCAAGCTTGAAGTAACGT
10514206 T
65 T
10514207 CCAC
1 CCAC
10514211 CCTTTTGGTT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
65 12 0.20
66 48 0.80
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.30
Consensus pattern (65 bp):
CCACGTGGCTATCGCTAGAAAGATAAAGTCGGGTATGGCACGTTTGTCAAGCTTGAAGTAACGTT
Found at i:10515548 original size:8 final size:8
Alignment explanation
Indices: 10515535--10515576 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
10515525 CTACTGTTTG
10515535 TTTTTGTT
1 TTTTTGTT
10515543 TTTTTG-T
1 TTTTTGTT
10515550 TTTTTGTT
1 TTTTTGTT
* *
10515558 TCTGTGTT
1 TTTTTGTT
10515566 TTTTT-TT
1 TTTTTGTT
10515573 TTTT
1 TTTT
10515577 ACATTTCCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 13 0.45
8 16 0.55
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (8 bp):
TTTTTGTT
Found at i:10515556 original size:21 final size:22
Alignment explanation
Indices: 10515531--10515576 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
10515521 GTTTCTACTG
* *
10515531 TTTGTTTTTGT-TTTTTTGTTT
1 TTTGTTTCTGTGTTTTTTTTTT
10515552 TTTGTTTCTGTGTTTTTTTTTT
1 TTTGTTTCTGTGTTTTTTTTTT
10515574 TTT
1 TTT
10515577 ACATTTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (22 bp):
TTTGTTTCTGTGTTTTTTTTTT
Found at i:10529812 original size:187 final size:187
Alignment explanation
Indices: 10529497--10529871 Score: 750
Period size: 187 Copynumber: 2.0 Consensus size: 187
10529487 TTTCTATTCC
10529497 TTTAGATATTTAAGAATACAATTGGCAATCTCAACACTGCGACAAAGAGAAAGTATGTGAACAAA
1 TTTAGATATTTAAGAATACAATTGGCAATCTCAACACTGCGACAAAGAGAAAGTATGTGAACAAA
10529562 GTTGATAACGCACTTTTGTAATCTCTAATTAGAATTTATAAAGTACGTTGTAAAAATCACACATG
66 GTTGATAACGCACTTTTGTAATCTCTAATTAGAATTTATAAAGTACGTTGTAAAAATCACACATG
10529627 CAATCTTTTGATTACTTAACTTCTACAAATCTATTGTTAAACTAATCTTGCTGGTAG
131 CAATCTTTTGATTACTTAACTTCTACAAATCTATTGTTAAACTAATCTTGCTGGTAG
10529684 TTTAGATATTTAAGAATACAATTGGCAATCTCAACACTGCGACAAAGAGAAAGTATGTGAACAAA
1 TTTAGATATTTAAGAATACAATTGGCAATCTCAACACTGCGACAAAGAGAAAGTATGTGAACAAA
10529749 GTTGATAACGCACTTTTGTAATCTCTAATTAGAATTTATAAAGTACGTTGTAAAAATCACACATG
66 GTTGATAACGCACTTTTGTAATCTCTAATTAGAATTTATAAAGTACGTTGTAAAAATCACACATG
10529814 CAATCTTTTGATTACTTAACTTCTACAAATCTATTGTTAAACTAATCTTGCTGGTAG
131 CAATCTTTTGATTACTTAACTTCTACAAATCTATTGTTAAACTAATCTTGCTGGTAG
10529871 T
1 T
10529872 ATTCAACACT
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
187 188 1.00
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (187 bp):
TTTAGATATTTAAGAATACAATTGGCAATCTCAACACTGCGACAAAGAGAAAGTATGTGAACAAA
GTTGATAACGCACTTTTGTAATCTCTAATTAGAATTTATAAAGTACGTTGTAAAAATCACACATG
CAATCTTTTGATTACTTAACTTCTACAAATCTATTGTTAAACTAATCTTGCTGGTAG
Found at i:10533140 original size:21 final size:22
Alignment explanation
Indices: 10533099--10533145 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
10533089 GGACTTTAAG
*
10533099 AATTTGTAGATTTTTTAA-TTT
1 AATTTGTAGATTTTTGAATTTT
*
10533120 AATTTGTTA-ATTTTTGGATTTT
1 AATTTG-TAGATTTTTGAATTTT
10533142 AATT
1 AATT
10533146 GTTTTGCGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.62
Consensus pattern (22 bp):
AATTTGTAGATTTTTGAATTTT
Found at i:10535928 original size:97 final size:98
Alignment explanation
Indices: 10535761--10535955 Score: 338
Period size: 97 Copynumber: 2.0 Consensus size: 98
10535751 ACGAGGTTGA
*
10535761 GTGGGGGAGAATGTCACGGACCTAAGGAAGAAGTCCTGAATCTCACATCGAACATAATAGGAGGG
1 GTGGGGGAGAATGTCACGGACCTAAGGAAGAAGTCCTGAATCCCACATCGAACATAATAGGAGGG
*
10535826 TCACTGGAGTATATAAGGGTTCACACCACCTCC
66 TCACTGGAGTATATAAAGGTTCACACCACCTCC
* *
10535859 GTGGGGGAGAATGTCACGGACTTAAGGAAG-AGTCCTGAATCCCACATTGAACATAATAGGAGGG
1 GTGGGGGAGAATGTCACGGACCTAAGGAAGAAGTCCTGAATCCCACATCGAACATAATAGGAGGG
*
10535923 TCACTGGGGTATATAAAGGTTCACACCACCTCC
66 TCACTGGAGTATATAAAGGTTCACACCACCTCC
10535956 ATCTTGTGAG
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
97 63 0.68
98 29 0.32
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (98 bp):
GTGGGGGAGAATGTCACGGACCTAAGGAAGAAGTCCTGAATCCCACATCGAACATAATAGGAGGG
TCACTGGAGTATATAAAGGTTCACACCACCTCC
Found at i:10538993 original size:59 final size:60
Alignment explanation
Indices: 10538917--10539032 Score: 150
Period size: 59 Copynumber: 1.9 Consensus size: 60
10538907 GATTTTAATT
* *
10538917 TTTTATAAAATTAAAATTTCATGATTTTTA-ATATTAAAAATAA-A-AAAATTATAAAAAAA
1 TTTTATAAAATTAAAATTT-AAGAATTTTAGATATTAAAAA-AATACAAAATTATAAAAAAA
*
10538976 TTTT-TAAAATATAAAATTTAAGAATTTTAGATATTAAAAAAATACATAATTATAAAA
1 TTTTATAAAAT-TAAAATTTAAGAATTTTAGATATTAAAAAAATACAAAATTATAAAA
10539033 TATCTAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
58 16 0.32
59 23 0.46
60 11 0.22
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.39
Consensus pattern (60 bp):
TTTTATAAAATTAAAATTTAAGAATTTTAGATATTAAAAAAATACAAAATTATAAAAAAA
Found at i:10539058 original size:26 final size:26
Alignment explanation
Indices: 10539006--10539061 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
10538996 AGAATTTTAG
* * *
10539006 ATATTAAAAAAATACATAATTATAAA
1 ATATTAAAAAAATAAACAAATATAAA
10539032 ATATCTAAAAAAATAAACAAATA-AAA
1 ATAT-TAAAAAAATAAACAAATATAAA
10539058 ATAT
1 ATAT
10539062 GACGGAAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (26 bp):
ATATTAAAAAAATAAACAAATATAAA
Found at i:10557736 original size:25 final size:25
Alignment explanation
Indices: 10557698--10557746 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
10557688 CTTAAGTTTT
10557698 TGTGAAAAAACTAAAAAATAAAATTG
1 TGTGAAAAAACT-AAAAATAAAATTG
*
10557724 TGTG-AAAAACTAAAAGTAAAATT
1 TGTGAAAAAACTAAAAATAAAATT
10557747 AAATGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
25 7 0.32
26 4 0.18
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.24
Consensus pattern (25 bp):
TGTGAAAAAACTAAAAATAAAATTG
Found at i:10557927 original size:22 final size:22
Alignment explanation
Indices: 10557891--10557934 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10557881 TTTTTTATCC
**
10557891 TTAATTCTATGGATACAAATAT
1 TTAATTCTAAAGATACAAATAT
*
10557913 TTAATTCTAAAGATATAAATAT
1 TTAATTCTAAAGATACAAATAT
10557935 AAATATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (22 bp):
TTAATTCTAAAGATACAAATAT
Found at i:10561883 original size:22 final size:22
Alignment explanation
Indices: 10561846--10561889 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10561836 ATTTTTTGTC
*
10561846 CTTAATTTTAAGGATACAAATA
1 CTTAATTTTAAGGATAAAAATA
10561868 CTTAATTTT-AGAGATAAAAATA
1 CTTAATTTTAAG-GATAAAAATA
10561890 TAAATATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (22 bp):
CTTAATTTTAAGGATAAAAATA
Found at i:10563115 original size:24 final size:24
Alignment explanation
Indices: 10563087--10563133 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10563077 AACTCTGACA
10563087 AACTCAACCAAAG-TAATTGTCATC
1 AACTCAACC-AAGTTAATTGTCATC
*
10563111 AACTCAACCAGGTTAATTGTCAT
1 AACTCAACCAAGTTAATTGTCAT
10563134 TAGTCCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.10
24 19 0.90
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (24 bp):
AACTCAACCAAGTTAATTGTCATC
Found at i:10563983 original size:11 final size:12
Alignment explanation
Indices: 10563938--10563982 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
10563928 TGATTTTCAC
10563938 ATTAAAATTTATT
1 ATTAAAATTT-TT
*
10563951 AATTTGAAATTTTT
1 -A-TTAAAATTTTT
10563965 ATTAAAATTTTT
1 ATTAAAATTTTT
10563977 ATTAAA
1 ATTAAA
10563983 TCATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 16 0.57
13 1 0.04
14 3 0.11
15 8 0.29
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (12 bp):
ATTAAAATTTTT
Found at i:10565503 original size:2 final size:2
Alignment explanation
Indices: 10565496--10565534 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
10565486 TCTTCATCTT
*
10565496 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10565535 TGTTAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10565680 original size:24 final size:24
Alignment explanation
Indices: 10565653--10565698 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
10565643 TTAAACAAAA
*
10565653 ATAATTATCATATA-ATAAATAATC
1 ATAACTAT-ATATATATAAATAATC
*
10565677 ATAACTATTTATATATAAATAA
1 ATAACTATATATATATAAATAA
10565699 ATTATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (24 bp):
ATAACTATATATATATAAATAATC
Found at i:10565906 original size:16 final size:15
Alignment explanation
Indices: 10565885--10565920 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
10565875 AAAGTCAAAA
10565885 TTTTTTTTTA-TTAT
1 TTTTTTTTTACTTAT
10565899 CTTTTTTTTTACTTAT
1 -TTTTTTTTTACTTAT
10565915 TTTTTT
1 TTTTTT
10565921 AAATAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTTTTACTTAT
Found at i:10570454 original size:2 final size:2
Alignment explanation
Indices: 10570449--10570480 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10570439 TTTTTCTAAC
10570449 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10570481 GACAAATACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10571700 original size:23 final size:24
Alignment explanation
Indices: 10571665--10571712 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
10571655 ATTGAAATTA
* *
10571665 TATTAAATTATTATTT-TTTATAT
1 TATTAAATAATTATTTAATTATAT
*
10571688 TATTAACTAATTATTTAATTATAT
1 TATTAAATAATTATTTAATTATAT
10571712 T
1 T
10571713 TTCGTTGACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TATTAAATAATTATTTAATTATAT
Found at i:10587534 original size:21 final size:19
Alignment explanation
Indices: 10587491--10587535 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
10587481 GCTCATGAGT
* *
10587491 TTAATCTATTTTTTATATT
1 TTAATATATTTTTTATATA
10587510 TTAATATATATTTTTATTATA
1 TTAATATAT-TTTTTA-TATA
10587531 TTAAT
1 TTAAT
10587536 TAAAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 6 0.27
21 8 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTAATATATTTTTTATATA
Found at i:10589006 original size:49 final size:49
Alignment explanation
Indices: 10588953--10589053 Score: 166
Period size: 49 Copynumber: 2.1 Consensus size: 49
10588943 GATACATAAG
* *
10588953 ATCATGGATAAGATAAAATGATAATTATCCTATATTATATTTAGTTTGT
1 ATCATGAATAAGATAAAATGATAATTATCCTATATTATATTTAGTTTAT
* *
10589002 ATCATGAATAAGATAAAATGATAATTATCTTATATTATGTTTAGTTTAT
1 ATCATGAATAAGATAAAATGATAATTATCCTATATTATATTTAGTTTAT
10589051 ATC
1 ATC
10589054 TAACAAAAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.40, C:0.06, G:0.11, T:0.44
Consensus pattern (49 bp):
ATCATGAATAAGATAAAATGATAATTATCCTATATTATATTTAGTTTAT
Found at i:10590779 original size:21 final size:20
Alignment explanation
Indices: 10590750--10590788 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
10590740 ATAAAGATAA
10590750 CAAAAAATGATAAA-ATAAGT
1 CAAAAAATGA-AAATATAAGT
10590770 CAAAGAAATGAAAATATAA
1 CAAA-AAATGAAAATATAA
10590789 ACAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.67, C:0.05, G:0.10, T:0.18
Consensus pattern (20 bp):
CAAAAAATGAAAATATAAGT
Found at i:10597744 original size:35 final size:35
Alignment explanation
Indices: 10597705--10597775 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
10597695 GATTTTAAAG
10597705 TTATTTATCAAATTATGGGAATTATTAAAATGAAT
1 TTATTTATCAAATTATGGGAATTATTAAAATGAAT
10597740 TTATTTATCAAATTATGGGAATTATTAAAATGAAT
1 TTATTTATCAAATTATGGGAATTATTAAAATGAAT
10597775 T
1 T
10597776 AACTTCTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.44
Consensus pattern (35 bp):
TTATTTATCAAATTATGGGAATTATTAAAATGAAT
Found at i:10604970 original size:2 final size:2
Alignment explanation
Indices: 10604963--10604989 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10604953 CCTAAACTAA
10604963 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
10604990 ATGGATGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10607626 original size:18 final size:20
Alignment explanation
Indices: 10607594--10607640 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
10607584 GGTTTTTTTT
10607594 TTTTCT-TTAAGGGATCGAT-
1 TTTTCTGTTAAGGGATC-ATG
10607613 TTTT-TGTTAA-GGATCATG
1 TTTTCTGTTAAGGGATCATG
10607631 TTTTCTGTTA
1 TTTTCTGTTA
10607641 CCGTTTGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.08
18 10 0.40
19 13 0.52
ACGTcount: A:0.19, C:0.09, G:0.19, T:0.53
Consensus pattern (20 bp):
TTTTCTGTTAAGGGATCATG
Found at i:10609176 original size:12 final size:12
Alignment explanation
Indices: 10609159--10609184 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10609149 TTTTAATTTT
10609159 TTAAAAATCTTA
1 TTAAAAATCTTA
10609171 TTAAAAATCTTA
1 TTAAAAATCTTA
10609183 TT
1 TT
10609185 TTATTGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (12 bp):
TTAAAAATCTTA
Found at i:10611102 original size:131 final size:128
Alignment explanation
Indices: 10610957--10611194 Score: 395
Period size: 131 Copynumber: 1.8 Consensus size: 128
10610947 TTAAATATTT
*
10610957 AAAAATATATAAAATATAAATAATATAATTAAGATATCAAGTTGTAATAAAAAATAATTTTTTAT
1 AAAAATATATAAAATATAAATAATATAATTAAGATATCAAGTTGTAAT-AAAAATAATTTTTAAT
*
10611022 TAAAAAGTGGATAAAATTTAAAATATACAATAAATAATATTGGAGAAAAAATCTAAAAAAAATAA
65 TAAAAA-TGGATAAAATTTAAAATATACAACAAATAATATTGGAGAAAAAATCTAAAAAAAATAA
*
10611087 AAAAGATATATAAAATATAAATAATATAATTAAGATATCAAGTTGTAATAAAAATAGTTTTTAAT
1 AAAA-ATATATAAAATATAAATAATATAATTAAGATATCAAGTTGTAATAAAAATAATTTTTAAT
* **
10611152 TAAAAATTGATAAAATTTAAAATATACGGCAAATAATATTGGA
65 TAAAAATGGATAAAATTTAAAATATACAACAAATAATATTGGA
10611195 CAAAGAAAAA
Statistics
Matches: 101, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
129 33 0.33
130 24 0.24
131 44 0.44
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (128 bp):
AAAAATATATAAAATATAAATAATATAATTAAGATATCAAGTTGTAATAAAAATAATTTTTAATT
AAAAATGGATAAAATTTAAAATATACAACAAATAATATTGGAGAAAAAATCTAAAAAAAATAA
Found at i:10611784 original size:21 final size:21
Alignment explanation
Indices: 10611755--10611796 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10611745 TAAAATAATC
10611755 TAATAATAAAGAAATTAAAAA
1 TAATAATAAAGAAATTAAAAA
*
10611776 TAATGATAAAGAAATTAAAAA
1 TAATAATAAAGAAATTAAAAA
10611797 ATAAAACTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (21 bp):
TAATAATAAAGAAATTAAAAA
Found at i:10612604 original size:30 final size:30
Alignment explanation
Indices: 10612548--10612605 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
10612538 TGATTGATTG
*
10612548 AAAAAATTATTTGCTATATAACTAAAATTT
1 AAAAAATTATTTACTATATAACTAAAATTT
* *
10612578 AAAAAATTATCTTAC-ATGTAATTAAAAT
1 AAAAAATTAT-TTACTATATAACTAAAAT
10612606 AAATTGTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (30 bp):
AAAAAATTATTTACTATATAACTAAAATTT
Found at i:10618223 original size:13 final size:13
Alignment explanation
Indices: 10618199--10618236 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
10618189 GATGTCTAAC
10618199 ATTAAA-AAATTA
1 ATTAAATAAATTA
10618211 ATTAAATAAATTA
1 ATTAAATAAATTA
*
10618224 AATAAAT-AATTA
1 ATTAAATAAATTA
10618236 A
1 A
10618237 AGCTAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATTAAATAAATTA
Found at i:10618688 original size:34 final size:34
Alignment explanation
Indices: 10618646--10618775 Score: 136
Period size: 34 Copynumber: 3.8 Consensus size: 34
10618636 CGGTATTTTA
* * *
10618646 TATATTAATCATGTTTGTATTTGAAAATTATTGT
1 TATATTAATCATATTTGTATTTGAAAAATATTAT
** * *
10618680 TATATTAATTGTATTTGTATCTAAAAAATATTAT
1 TATATTAATCATATTTGTATTTGAAAAATATTAT
**
10618714 TATATTAA-CGATATTTGTATTTGAAAAATACCAT
1 TATATTAATC-ATATTTGTATTTGAAAAATATTAT
* * *
10618748 TATATTAGTAATATTTGTATATGAAAAA
1 TATATTAATCATATTTGTATTTGAAAAA
10618776 CGTCGTTATT
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
34 78 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (34 bp):
TATATTAATCATATTTGTATTTGAAAAATATTAT
Found at i:10618775 original size:68 final size:68
Alignment explanation
Indices: 10618646--10618775 Score: 154
Period size: 68 Copynumber: 1.9 Consensus size: 68
10618636 CGGTATTTTA
* * *** ** *
10618646 TATATTAATCATGTTTGTATTTGAAAATTATTGTTATATTAATTGTATTTGTATCTAAAAAATAT
1 TATATTAATCATATTTGTATTTGAAAAATACCATTATATTAATAATATTTGTATATAAAAAATAT
10618711 TAT
66 TAT
* *
10618714 TATATTAA-CGATATTTGTATTTGAAAAATACCATTATATTAGTAATATTTGTATATGAAAAA
1 TATATTAATC-ATATTTGTATTTGAAAAATACCATTATATTAATAATATTTGTATATAAAAAA
10618776 CGTCGTTATT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
67 1 0.02
68 50 0.98
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (68 bp):
TATATTAATCATATTTGTATTTGAAAAATACCATTATATTAATAATATTTGTATATAAAAAATAT
TAT
Found at i:10624000 original size:21 final size:21
Alignment explanation
Indices: 10623971--10624014 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
10623961 CTTCATCACT
10623971 TTGAATATCAAG-ATCACCAAC
1 TTGAATATC-AGTATCACCAAC
* *
10623992 TTGAGTATCAGTATCACTAAC
1 TTGAATATCAGTATCACCAAC
10624013 TT
1 TT
10624015 ATGTAATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.32
Consensus pattern (21 bp):
TTGAATATCAGTATCACCAAC
Found at i:10627070 original size:187 final size:186
Alignment explanation
Indices: 10626818--10627633 Score: 990
Period size: 187 Copynumber: 4.4 Consensus size: 186
10626808 AAAAATACCA
* * * * **
10626818 TCAATAATTTGCTTTTAAAAATTTTTAAGATTATTAAAGACATCTTCTAGTAAAAAACGCCTTTA
1 TCAATAATTT-CTTTTAAAAATTTTTGAGATTATTAAAGGCGTCTTCTAGTGAAAAATACCTTTA
** * * * * *
10626883 ATATGACAATACTTAAATTTTAATATGGTTAGTAAAGGTATTTATTCTAGAAAAATACCTTCACT
65 ATATTTCAGTACTCAAATTTTAAGATGGTTAGTGAAGGCATTTATTCTAGAAAAATACCTTCACT
* * *
10626948 AATTCCTTTGAATTTATGTACATAATTATTGAAGATGTTTTTTGAGAACAAACGCCT
130 AATTCCTTTTAATTTATGTACATAATTATTGAAGATATTTTTTTAGAACAAACGCCT
*
10627005 TCAATAATTTCTTTCTAAAAATTTTTGAGATTATTAAAGGCGTCTTCGAGTGAAAAATACCTTTA
1 TCAATAATTTCTTT-TAAAAATTTTTGAGATTATTAAAGGCGTCTTCTAGTGAAAAATACCTTTA
* * * * * *
10627070 ATATTTCAGTACTTAAATTTTAAGACGGTTAGTGAAGGCGTTTATTCTAAAAAAATGCTTTCACT
65 ATATTTCAGTACTCAAATTTTAAGATGGTTAGTGAAGGCATTTATTCTAGAAAAATACCTTCACT
* * * * * * * *
10627135 AATT-TTTTTTATTTTTATACATAATTATTGAAGGTATTTTTTTTATAATAAACACCT
130 AATTCCTTTTAATTTATGTACATAATTATTGAAGATA-TTTTTTTAGAACAAACGCCT
* * * * *
10627192 TCAATAATTTTCTTTTAAAAAATTTTGAGATTATTAAAGGCATCTTCTAATGAAAAACACCTTCA
1 TCAATAA-TTTCTTTTAAAAATTTTTGAGATTATTAAAGGCGTCTTCTAGTGAAAAATACCTTTA
* **
10627257 ATATTTCAGTACTCAAATTTTAAGATGGTTAGTGAATG-AGTTTATTCTAGAAAAACCCCTTCAC
65 ATATTTCAGTACTCAAATTTTAAGATGGTTAGTGAAGGCA-TTTATTCTAGAAAAATACCTTCAC
* * * *
10627321 TAATTCTTTTTTATTTATGTACATAATTATTAAAGGTATTTTTTTAGAACAAACGCCT
129 TAATTCCTTTTAATTTATGTACATAATTATTGAAGATATTTTTTTAGAACAAACGCCT
* * * * * * * *
10627379 TTACTAATTTTTTTTAAAAAATTTTTAAGATTATTAAAGGTGTCTTCTAGTGAAAAATGCATTCA
1 TCAATAATTTCTTTT-AAAAATTTTTGAGATTATTAAAGGCGTCTTCTAGTGAAAAATACCTTTA
* * *
10627444 ATATTTCAGTACTCAAATTTTAAGATGGTTAATGAAGGCGTTTATTCTAGAAAAATACATTCACT
65 ATATTTCAGTACTCAAATTTTAAGATGGTTAGTGAAGGCATTTATTCTAGAAAAATACCTTCACT
* * *
10627509 AATTCCTTTTAATTTTTGTACATAATTTTTGAAGGTATTTTTTTAGAACAAACGCCT
130 AATTCCTTTTAATTTATGTACATAATTATTGAAGATATTTTTTTAGAACAAACGCCT
* * * *
10627566 TCAATAATTTCTTTTAAAAATTTTTTGGGATTATTAAAGACGTCTTTTAGT-ATAAATTACCTTT
1 TCAATAATTTCTTTTAAAAA-TTTTTGAGATTATTAAAGGCGTCTTCTAGTGA-AAAATACCTTT
10627630 AATA
64 AATA
10627634 ATTTTAAAGT
Statistics
Matches: 537, Mismatches: 83, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
186 42 0.08
187 459 0.85
188 36 0.07
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (186 bp):
TCAATAATTTCTTTTAAAAATTTTTGAGATTATTAAAGGCGTCTTCTAGTGAAAAATACCTTTAA
TATTTCAGTACTCAAATTTTAAGATGGTTAGTGAAGGCATTTATTCTAGAAAAATACCTTCACTA
ATTCCTTTTAATTTATGTACATAATTATTGAAGATATTTTTTTAGAACAAACGCCT
Found at i:10627509 original size:374 final size:374
Alignment explanation
Indices: 10626790--10627611 Score: 1096
Period size: 374 Copynumber: 2.2 Consensus size: 374
10626780 AGATGGTTAG
* * * * * *
10626790 TGAAGGCATTTATTCTAGAA-AAATACCATCAATAATTTGCTTTTAAAAATTTTTAAGATTATTA
1 TGAAGGTATTT-TTTTAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTGAGATTATTA
* * * * *
10626854 AAGACATCTTCTAGTAAAAAACGCCTTTAATATGACAATACTTAAATTTTAATATGGTTAGTAAA
65 AAGACATCTTCTAATAAAAAACACCTTCAATATGACAATACTCAAATTTTAAGATGGTTAGTAAA
* *
10626919 GGTATTTATTCTAGAAAAATACCTTCACTAATTCCTTTGAATTTATGTACATAATTATTGAAGAT
130 GGTATTTATTCTAGAAAAACACCTTCACTAATTCCTTTGAATTTATGTACATAATTATTAAAGAT
* *
10626984 GTTTTTTGAGAACAAACGCCTTCAATAATTTCTTTCTAAAAATTTTTGAGATTATTAAAGGCGTC
195 ATTTTTTGAGAACAAACGCCTTCAATAATTTCTTTCTAAAAATTTTTAAGATTATTAAAGGCGTC
* * * *
10627049 TTCGAGTGAAAAATACCTTTAATATTTCAGTACTTAAATTTTAAGACGGTTAGTGAAGGCGTTTA
260 TTCGAGTGAAAAATACATTCAATATTTCAGTACTCAAATTTTAAGACGGTTAATGAAGGCGTTTA
* * * *
10627114 TTCTAAAAAAATGCTTTCACTAATT-TTTTTTATTTTTATACATAATTAT
325 TTCTAAAAAAATACATTCACTAATTCCTTTTAATTTTTATACATAATTAT
* * *
10627163 TGAAGGTATTTTTTTTATAATAAACACCTTCAATAATTTTCTTTTAAAAAATTTTGAGATTATTA
1 TGAAGGTA-TTTTTTTAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTGAGATTATTA
* * ** * *
10627228 AAGGCATCTTCTAATGAAAAACACCTTCAATATTTCAGTACTCAAATTTTAAGATGGTTAGTGAA
65 AAGACATCTTCTAATAAAAAACACCTTCAATATGACAATACTCAAATTTTAAGATGGTTAGTAAA
* * * ** *
10627293 TG-AGTTTATTCTAGAAAAACCCCTTCACTAATTCTTTTTTATTTATGTACATAATTATTAAAGG
130 GGTA-TTTATTCTAGAAAAACACCTTCACTAATTCCTTTGAATTTATGTACATAATTATTAAAGA
* * * * *
10627357 TATTTTTTTAGAACAAACGCCTTTACTAATTT-TTTTTAAAAAATTTTTAAGATTATTAAAGGTG
194 TATTTTTTGAGAACAAACGCCTTCAATAATTTCTTTCT-AAAAATTTTTAAGATTATTAAAGGCG
* * *
10627421 TCTTCTAGTGAAAAATGCATTCAATATTTCAGTACTCAAATTTTAAGATGGTTAATGAAGGCGTT
258 TCTTCGAGTGAAAAATACATTCAATATTTCAGTACTCAAATTTTAAGACGGTTAATGAAGGCGTT
* * *
10627486 TATTCTAGAAAAATACATTCACTAATTCCTTTTAATTTTTGTACATAATTTT
323 TATTCTAAAAAAATACATTCACTAATTCCTTTTAATTTTTATACATAATTAT
* *
10627538 TGAAGGTATTTTTTTAGAACAAACGCCTTCAATAA-TTTCTTTTAAAAATTTTTTGGGATTATTA
1 TGAAGGTATTTTTTTAGAACAAACACCTTCAATAATTTTCTTTTAAAAA-TTTTTGAGATTATTA
*
10627602 AAGACGTCTT
65 AAGACATCTT
10627612 TTAGTATAAA
Statistics
Matches: 388, Mismatches: 55, Indels: 11
0.85 0.12 0.02
Matches are distributed among these distances:
373 31 0.08
374 329 0.85
375 28 0.07
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.42
Consensus pattern (374 bp):
TGAAGGTATTTTTTTAGAACAAACACCTTCAATAATTTTCTTTTAAAAATTTTTGAGATTATTAA
AGACATCTTCTAATAAAAAACACCTTCAATATGACAATACTCAAATTTTAAGATGGTTAGTAAAG
GTATTTATTCTAGAAAAACACCTTCACTAATTCCTTTGAATTTATGTACATAATTATTAAAGATA
TTTTTTGAGAACAAACGCCTTCAATAATTTCTTTCTAAAAATTTTTAAGATTATTAAAGGCGTCT
TCGAGTGAAAAATACATTCAATATTTCAGTACTCAAATTTTAAGACGGTTAATGAAGGCGTTTAT
TCTAAAAAAATACATTCACTAATTCCTTTTAATTTTTATACATAATTAT
Found at i:10631741 original size:35 final size:35
Alignment explanation
Indices: 10631678--10631747 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
10631668 CATATGTAAA
* * * *
10631678 CCAAATGTTTTCTAGGTATAAATATACAATTGACT
1 CCAAATATTTTCTAGGCATAAACATACAACTGACT
* *
10631713 CCAAATATTTTCTGGGCATAAACCTACAACTGACT
1 CCAAATATTTTCTAGGCATAAACATACAACTGACT
10631748 TAACATATAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (35 bp):
CCAAATATTTTCTAGGCATAAACATACAACTGACT
Found at i:10632562 original size:305 final size:304
Alignment explanation
Indices: 10631883--10632588 Score: 692
Period size: 305 Copynumber: 2.3 Consensus size: 304
10631873 ATCAAACCTA
* * * *
10631883 AAAATATATTGTGTGAAATATTACAGGCGTTTTGGGACAAAAGTGCCTTCAAGAATCCGTTTCAA
1 AAAAT-TATTGTGTGAAATATTAAAGGCGTTTTGAGACAAAAATGCCTTCAAGAATCTGTTTCAA
* * * * ** * * * * *
10631948 ATATTTTATATGGATTATTGAAGGCATTTTTGACAAAAATCACCTTTAATAATCTCGATTAAAAT
65 CTTTTTTGTATGGATTATTGAAGGTATTTTAAAAAAAAATCACCTTCAATAATCTCAACTAAAAA
* * * * * *
10632013 TTTAGTGATTTGATTATTGAAGGTGATTTCACCCAAAAACACCTTTAAGAATCTGTTCCATATAT
130 TTAAGTGAATGGATTATTAAAGGCGATTTCACCCAAAAACACCTTTAAGAATCCGTTCCATATAT
* * *
10632078 TTTTCTATGGATTATTAAGGACATATTTAGCAAGAAAACACCTTGAATTATCCATAACAAAATAT
195 TTTTCTATAGATTATTAAGGACATATCTAGCAAGAAAACACCTTGAATAATCCATAACAAAATAT
* * *
10632143 TATTGAAAGCGTTTTTTACCAAAATTACCTTCAATAATCTCACAT
260 TATTGAAAGCATTTTTGACAAAAATTACCTTCAATAATCTCACAT
* * * * * ** * **
10632188 AAAATTTGTTGTGTGGAATATTAAAGGTGTTTTTGCGTCAAAAACACCTTTAAGAAT-TCGTACC
1 AAAA-TTATTGTGTGAAATATTAAAGGCG-TTTTGAGACAAAAATGCCTTCAAGAATCT-GTTTC
*
10632252 AACTTTTTTTGTATGGATTATTG-AGGTATTTTAAAAAAAAAATCGCCTTCAATAATACT-AACT
63 AAC-TTTTTTGTATGGATTATTGAAGGTATTTT-AAAAAAAAATCACCTTCAATAAT-CTCAACT
* * * ** *
10632315 AAAAATTAATTGAATGGATTATTAAAGGCGTTTTCGA-CTAAAAA-TGCTTTAAGAATCCGTTTC
125 AAAAATTAAGTGAATGGATTATTAAAGGCGATTTC-ACCCAAAAACACCTTTAAGAATCCGTTCC
* * * *
10632378 ATAT-TTTTTTTATAGATTATTAAAGG-CATTTATCTA-C-CGAAAACACTTTGAATAATCCTTA
189 ATATATTTTTCTATAGATTATT-AAGGACA--TATCTAGCAAGAAAACACCTTGAATAATCCATA
* * * * *
10632439 ACAAAATGTTATTGAAGGCATTTTTGATAAAAATTGCCTTCAATAATCTGACCATT
251 ACAAAATATTATTGAAAGCATTTTTGACAAAAATTACCTTCAATAATCTCA-CA-T
* * * *
10632495 CAAATTATCGTGTGAAATATTAAAGGCGTTTTGAGCCAAAAATGCCTTCAAAAATCTGTTTCAAC
1 AAAATTATTGTGTGAAATATTAAAGGCGTTTTGAGACAAAAATGCCTTCAAGAATCTGTTTCAAC
* * *
10632560 TTTTGTGTATAGATTATTGAAGGTGTTTT
66 TTTTTTGTATGGATTATTGAAGGTATTTT
10632589 TGACCAAAAC
Statistics
Matches: 319, Mismatches: 68, Indels: 28
0.77 0.16 0.07
Matches are distributed among these distances:
304 17 0.05
305 138 0.43
306 82 0.26
307 79 0.25
308 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (304 bp):
AAAATTATTGTGTGAAATATTAAAGGCGTTTTGAGACAAAAATGCCTTCAAGAATCTGTTTCAAC
TTTTTTGTATGGATTATTGAAGGTATTTTAAAAAAAAATCACCTTCAATAATCTCAACTAAAAAT
TAAGTGAATGGATTATTAAAGGCGATTTCACCCAAAAACACCTTTAAGAATCCGTTCCATATATT
TTTCTATAGATTATTAAGGACATATCTAGCAAGAAAACACCTTGAATAATCCATAACAAAATATT
ATTGAAAGCATTTTTGACAAAAATTACCTTCAATAATCTCACAT
Found at i:10652402 original size:20 final size:21
Alignment explanation
Indices: 10652366--10652407 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
10652356 AAAATAAAAT
*
10652366 TATATTTTGTGGGATATCTAA
1 TATATTTTCTGGGATATCTAA
10652387 TATATTTTCT-GGATATCTAA
1 TATATTTTCTGGGATATCTAA
10652407 T
1 T
10652408 GGATGATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (21 bp):
TATATTTTCTGGGATATCTAA
Found at i:10655271 original size:21 final size:21
Alignment explanation
Indices: 10655247--10655297 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
10655237 AATATTTATT
* *
10655247 TAAATTTTAATGATTAGATTA
1 TAAATTTTAATAATTAAATTA
10655268 TAAATTTTAATAATTAAATTA
1 TAAATTTTAATAATTAAATTA
*
10655289 T-TATTTTAA
1 TAAATTTTAA
10655298 ACGCACAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (21 bp):
TAAATTTTAATAATTAAATTA
Found at i:10658329 original size:20 final size:20
Alignment explanation
Indices: 10658304--10658345 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
10658294 AAAACTCTCT
10658304 CACTTTTCACTATTCTCACC
1 CACTTTTCACTATTCTCACC
*
10658324 CACTTTTCACTCTTCTCACC
1 CACTTTTCACTATTCTCACC
10658344 CA
1 CA
10658346 TAATCCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.19, C:0.43, G:0.00, T:0.38
Consensus pattern (20 bp):
CACTTTTCACTATTCTCACC
Found at i:10661502 original size:47 final size:47
Alignment explanation
Indices: 10661430--10661547 Score: 139
Period size: 47 Copynumber: 2.5 Consensus size: 47
10661420 GTTGACAAAG
* * *
10661430 TAGAAGCTCAATAGC-TTTAAAAATCAAATTAAAATGCTCATCTTAC
1 TAGAAGCTCGATAACATTTGAAAATCAAATTAAAATGCTCATCTTAC
* * * **
10661476 TAGAAGTTCGATAACATTTGAAAATCAATTTGAAATGCTTTTCTTAC
1 TAGAAGCTCGATAACATTTGAAAATCAAATTAAAATGCTCATCTTAC
* *
10661523 TAGAGGCTCGATAACTTTTGAAAAT
1 TAGAAGCTCGATAACATTTGAAAAT
10661548 TTAAAAAGCT
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
46 12 0.20
47 48 0.80
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (47 bp):
TAGAAGCTCGATAACATTTGAAAATCAAATTAAAATGCTCATCTTAC
Found at i:10661650 original size:44 final size:44
Alignment explanation
Indices: 10661524--10661674 Score: 148
Period size: 43 Copynumber: 3.5 Consensus size: 44
10661514 TTTTCTTACT
* * * * * *
10661524 AGAGGCTCGATAACTTTTGAAAATTTAAAAAGCTCCTT-TAAGC
1 AGAGGCTCAACAACTTTTAAAAATTTAAAATGGTTCTTCTAAGC
* * * *
10661567 AGAGGCTCGACAACCTTAAAAAATTT-AAATGGCTT-TTCTAAAC
1 AGAGGCTCAACAACTTTTAAAAATTTAAAATGG-TTCTTCTAAGC
* *
10661610 AGGGGCTCAACAACTTTTAAAAATTTAAAATGGTTCTTCTAAGT
1 AGAGGCTCAACAACTTTTAAAAATTTAAAATGGTTCTTCTAAGC
*
10661654 AGAGGCTTAACAAC-TTTAAAA
1 AGAGGCTCAACAACTTTTAAAA
10661675 TTTTCATCTT
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 6 0.07
43 58 0.66
44 24 0.27
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (44 bp):
AGAGGCTCAACAACTTTTAAAAATTTAAAATGGTTCTTCTAAGC
Found at i:10672789 original size:17 final size:17
Alignment explanation
Indices: 10672767--10672799 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10672757 GTGATTAAAA
*
10672767 TTTTTTTTTTTGTTTTG
1 TTTTTTTTTTTATTTTG
10672784 TTTTTTTTTTTATTTT
1 TTTTTTTTTTTATTTT
10672800 TTATTGAAAA
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:0.03, C:0.00, G:0.06, T:0.91
Consensus pattern (17 bp):
TTTTTTTTTTTATTTTG
Found at i:10676678 original size:26 final size:25
Alignment explanation
Indices: 10676649--10676698 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
10676639 GGATTTTATG
10676649 ATTTATAATACTTAAATGAATAGCAA
1 ATTTAT-ATACTTAAATGAATAGCAA
* *
10676675 ATTTCTATGCTTAAATGAATAGCA
1 ATTTATATACTTAAATGAATAGCA
10676699 TATATGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (25 bp):
ATTTATATACTTAAATGAATAGCAA
Found at i:10685665 original size:14 final size:15
Alignment explanation
Indices: 10685641--10685670 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
10685631 AAAAAGAAGA
10685641 AAAAAACTTTTAAAT
1 AAAAAACTTTTAAAT
10685656 AAAAAA-TTTTAAAT
1 AAAAAACTTTTAAAT
10685670 A
1 A
10685671 TAGAAAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAAACTTTTAAAT
Found at i:10686639 original size:11 final size:12
Alignment explanation
Indices: 10686625--10686653 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10686615 AAATATATAT
10686625 ATTAAA-TTTAG
1 ATTAAATTTTAG
10686636 ATTAAATTTTAG
1 ATTAAATTTTAG
10686648 ATTAAA
1 ATTAAA
10686654 GAGTTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (12 bp):
ATTAAATTTTAG
Found at i:10686745 original size:11 final size:11
Alignment explanation
Indices: 10686729--10686772 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
10686719 AATAATAATT
*
10686729 TTATATTTAAA
1 TTATATTAAAA
10686740 TTATATTAAAAA
1 TTATATT-AAAA
10686752 TTATATTAAAA
1 TTATATTAAAA
*
10686763 TAATA-TAAAA
1 TTATATTAAAA
10686773 AAATTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 5 0.17
11 15 0.50
12 10 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TTATATTAAAA
Found at i:10686754 original size:12 final size:12
Alignment explanation
Indices: 10686737--10686762 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10686727 TTTTATATTT
10686737 AAATTATATTAA
1 AAATTATATTAA
10686749 AAATTATATTAA
1 AAATTATATTAA
10686761 AA
1 AA
10686763 TAATATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATTATATTAA
Found at i:10686763 original size:23 final size:23
Alignment explanation
Indices: 10686703--10686774 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
10686693 TATATATTTT
* *
10686703 AAATTTTA-TAAAATAAAATAATA
1 AAATTATATTAAAATAATATAA-A
** * * *
10686726 ATTTTATATTTAAATTATATTAA
1 AAATTATATTAAAATAATATAAA
10686749 AAATTATATTAAAATAATATAAA
1 AAATTATATTAAAATAATATAAA
10686772 AAA
1 AAA
10686775 ATTTAAAAAT
Statistics
Matches: 36, Mismatches: 12, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
23 27 0.75
24 9 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATTATATTAAAATAATATAAA
Found at i:10688118 original size:16 final size:17
Alignment explanation
Indices: 10688086--10688119 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10688076 ATTACATAAA
10688086 TTTAAATTAGAACTTTT
1 TTTAAATTAGAACTTTT
*
10688103 TTTAATTTAGAA-TTTT
1 TTTAAATTAGAACTTTT
10688119 T
1 T
10688120 AAATTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTAAATTAGAACTTTT
Found at i:10688978 original size:31 final size:31
Alignment explanation
Indices: 10688943--10689002 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
10688933 TAAATAAATA
10688943 AAATGTACAATTTACATATTAAACTTTCATC
1 AAATGTACAATTTACATATTAAACTTTCATC
* *
10688974 AAATGTATAATTTACATATTAAATTTTCA
1 AAATGTACAATTTACATATTAAACTTTCA
10689003 AATTATGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.42
Consensus pattern (31 bp):
AAATGTACAATTTACATATTAAACTTTCATC
Found at i:10689015 original size:31 final size:30
Alignment explanation
Indices: 10688951--10689015 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
10688941 TAAAATGTAC
*
10688951 AATTTACATATTAAACTTTCATCAAATGTAT
1 AATTTACATATTAAACTTTCA-CAAATGCAT
*
10688982 AATTTACATATTAAATTTTCA-AATTATGCAT
1 AATTTACATATTAAACTTTCACAA--ATGCAT
10689013 AAT
1 AAT
10689016 ATTGATCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 2 0.07
31 28 0.93
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (30 bp):
AATTTACATATTAAACTTTCACAAATGCAT
Found at i:10693197 original size:317 final size:317
Alignment explanation
Indices: 10692616--10693199 Score: 846
Period size: 317 Copynumber: 1.8 Consensus size: 317
10692606 ATAAGAAATT
* * * *
10692616 AGAAATTAGAAATTTATTTGATGTGGGATAACCCACTTTAACAAGCCTCTATCACGTGTAGGTAA
1 AGAAATTAGAAATTTATTAGATGTGGGATAACCCACTTTAACAAGCCTCTATAACATGTAGGCAA
* * * **
10692681 TGATGGAAGAAGCCCTATACGTGACAAATTAAAAAAGGGTAATGAAAGGAAAATTTTGACTCTGA
66 TAATGAAAGAAGCCCTACACGTGACAAATTAAAAAAGGACAATGAAAGGAAAATTTTGACTCTGA
* ** *
10692746 TGCCATGTTATGCATCCAACTTACTACCAATTGACAATAAAGTGGAGGGGTCCAACCTGAATATA
131 TACCATGTTAAACATCCAACTTACTACCAATTGACAATAAAGAGGAGGGGTCCAACCTGAATATA
* * * *
10692811 AGACTATAGGATATTAAAAATTTATTAGATATGTGATAACTCACTTTAACAGATCCCATCACCTG
196 AGACTATAGGATATTAAAAATTTATTAAATATGTGATAACTCACTTTAACAAACCCCATCACATG
10692876 TAACTATAAAATCGATTGACGATAAGTGAAGGGGTCTAACCTAAATATAAGGTTATA
261 TAACTATAAAATCGATTGACGATAAGTGAAGGGGTCTAACCTAAATATAAGGTTATA
* ** * * *
10692933 AGAAATTAGAAATTTATTAGATGTGTGATAACTTACTTTAACAGGCTTCTATAACATGTAGGCGA
1 AGAAATTAGAAATTTATTAGATGTGGGATAACCCACTTTAACAAGCCTCTATAACATGTAGGCAA
* * *
10692998 TAATGAAAGAAGCCTTACACGTGACAAATTAGAAAAGGACAATGGAAGGAAAATTTTGACTCTGA
66 TAATGAAAGAAGCCCTACACGTGACAAATTAAAAAAGGACAATGAAAGGAAAATTTTGACTCTGA
* * * *
10693063 TACTATGTTAAACATCCAATTTACTACTAATTGGCAATAAAGAGGA-GGGTCCCAACCTGAATAT
131 TACCATGTTAAACATCCAACTTACTACCAATTGACAATAAAGAGGAGGGGT-CCAACCTGAATAT
* * * *
10693127 AAGACTATAGGATGTTAAAAATTTATTAAATATGTGATAACTCACTTTAATAAACCCCATTATAT
195 AAGACTATAGGATATTAAAAATTTATTAAATATGTGATAACTCACTTTAACAAACCCCATCACAT
10693192 GTAACTAT
260 GTAACTAT
10693200 CACTTGGCAA
Statistics
Matches: 232, Mismatches: 34, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
316 4 0.02
317 228 0.98
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.29
Consensus pattern (317 bp):
AGAAATTAGAAATTTATTAGATGTGGGATAACCCACTTTAACAAGCCTCTATAACATGTAGGCAA
TAATGAAAGAAGCCCTACACGTGACAAATTAAAAAAGGACAATGAAAGGAAAATTTTGACTCTGA
TACCATGTTAAACATCCAACTTACTACCAATTGACAATAAAGAGGAGGGGTCCAACCTGAATATA
AGACTATAGGATATTAAAAATTTATTAAATATGTGATAACTCACTTTAACAAACCCCATCACATG
TAACTATAAAATCGATTGACGATAAGTGAAGGGGTCTAACCTAAATATAAGGTTATA
Found at i:10695304 original size:194 final size:192
Alignment explanation
Indices: 10694931--10695316 Score: 700
Period size: 194 Copynumber: 2.0 Consensus size: 192
10694921 ACCAACTTAA
* *
10694931 TCCGAACGACGCTGAGAAAAATTGACTAAAGTCATCCCGTGAATAACCAATCTTTTGTAGAAACC
1 TCCGAACAACGCAGAGAAAAATTGACTAAAGTCATCCCGTGAATAACCAATCTTTTGTAGAAACC
*
10694996 ATTTTCAAAATAACCTTATCCCTATATAATTCATCATCATAATCTGCGGAATTAAATTCACCATC
66 ACTTTCAAAATAACCTTATCCCTATATAATTCATCATCATAATCTGCGGAATTAAATTCACCATC
*
10695061 ACAACCCACTTTAATGCATCTTGCTTCTTTAAAGCAGTAGCCATATCTCCAGGTGTACTACC
131 ACAACCCACTTTAATGCATCTTGCTCCTTTAAAGCAGTAGCCATATCTCCAGGTGTACTACC
*
10695123 TCCGAACAACGCAGAGAAAAATTGACTAAAGTCATCCCGTGAATACCCAATCTTTTGTAGAAACC
1 TCCGAACAACGCAGAGAAAAATTGACTAAAGTCATCCCGTGAATAACCAATCTTTTGTAGAAACC
*
10695188 ACTTTCAAAATAACCTTATCCCTATATAAAATTCATCATCATAATCTGTGGAATTAAATTCACCA
66 ACTTTCAAAATAACCTTATCCCTATAT--AATTCATCATCATAATCTGCGGAATTAAATTCACCA
10695253 TCACAACCCACTTTAATGCATCTTGCTCCTTTAAAGCAGTAGCCATATCTCCAGGTGTACTACC
129 TCACAACCCACTTTAATGCATCTTGCTCCTTTAAAGCAGTAGCCATATCTCCAGGTGTACTACC
10695317 CTCGATTGAG
Statistics
Matches: 186, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
192 88 0.47
194 98 0.53
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.29
Consensus pattern (192 bp):
TCCGAACAACGCAGAGAAAAATTGACTAAAGTCATCCCGTGAATAACCAATCTTTTGTAGAAACC
ACTTTCAAAATAACCTTATCCCTATATAATTCATCATCATAATCTGCGGAATTAAATTCACCATC
ACAACCCACTTTAATGCATCTTGCTCCTTTAAAGCAGTAGCCATATCTCCAGGTGTACTACC
Found at i:10696229 original size:17 final size:17
Alignment explanation
Indices: 10696190--10696324 Score: 62
Period size: 17 Copynumber: 7.9 Consensus size: 17
10696180 CCAAGTTTCA
* *
10696190 CAAAGGTTCTAGATTTG
1 CAAAGTTTCAAGATTTG
*
10696207 CAAAAGTTTCAAGTTTTG
1 C-AAAGTTTCAAGATTTG
* * **
10696225 CAAAGATTCTAGATTCA
1 CAAAGTTTCAAGATTTG
* *
10696242 CAATGTGTCAAG-TTTCG
1 CAAAGTTTCAAGATTT-G
* * *
10696259 CAGAGGTTCTAGATTTG
1 CAAAGTTTCAAGATTTG
* * *
10696276 TAAGGTTCCAAG-TTTCG
1 CAAAGTTTCAAGATTT-G
10696293 CAAAAGTTTCAA-ATTTG
1 C-AAAGTTTCAAGATTTG
10696310 CAAAGGTTTC-AGATT
1 CAAA-GTTTCAAGATT
10696325 CGAAAAAATT
Statistics
Matches: 82, Mismatches: 28, Indels: 16
0.65 0.22 0.13
Matches are distributed among these distances:
16 9 0.11
17 45 0.55
18 28 0.34
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (17 bp):
CAAAGTTTCAAGATTTG
Found at i:10696288 original size:34 final size:34
Alignment explanation
Indices: 10696178--10696296 Score: 116
Period size: 34 Copynumber: 3.5 Consensus size: 34
10696168 TTTGCAAGAA
*
10696178 TTCCAAGTTTCACAAAGGTTCTAGATTTGCAAAAG
1 TTCCAAGTTTCGCAAAGGTTCTAGATTTG-AAAAG
* * * * *
10696213 TTTCAAGTTTTGCAAAGATTCTAGA-TTCACAATG
1 TTCCAAGTTTCGCAAAGGTTCTAGATTTGA-AAAG
* * *
10696247 TGT-CAAGTTTCGCAGAGGTTCTAGATTTGTAAGG
1 T-TCCAAGTTTCGCAAAGGTTCTAGATTTGAAAAG
10696281 TTCCAAGTTTCGCAAA
1 TTCCAAGTTTCGCAAA
10696297 AGTTTCAAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
33 2 0.03
34 41 0.61
35 24 0.36
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (34 bp):
TTCCAAGTTTCGCAAAGGTTCTAGATTTGAAAAG
Found at i:10696374 original size:16 final size:16
Alignment explanation
Indices: 10696350--10696397 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
10696340 GCAAAAATGA
10696350 AAAATTCATAAGAATT
1 AAAATTCATAAGAATT
* *
10696366 CATATTCATAAGAATT
1 AAAATTCATAAGAATT
*
10696382 AAAATTCGTAAGAATT
1 AAAATTCATAAGAATT
10696398 TCAGTTTCAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.33
Consensus pattern (16 bp):
AAAATTCATAAGAATT
Found at i:10697777 original size:12 final size:13
Alignment explanation
Indices: 10697760--10697791 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
10697750 AAGTCTTTCT
10697760 TTTTTTTTTCA-A
1 TTTTTTTTTCATA
10697772 TTTTTTTTTCATA
1 TTTTTTTTTCATA
10697785 TTTTTTT
1 TTTTTTT
10697792 CTTATTTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTTTTTCATA
Found at i:10697868 original size:17 final size:17
Alignment explanation
Indices: 10697827--10697871 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
10697817 TCAGTGACAC
10697827 TTTATTCAACAATCTCAA
1 TTTA-TCAACAATCTCAA
** *
10697845 TAAATCAACAATCTTAA
1 TTTATCAACAATCTCAA
10697862 TTTATCAACA
1 TTTATCAACA
10697872 TGAATGATGT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (17 bp):
TTTATCAACAATCTCAA
Found at i:10700715 original size:16 final size:16
Alignment explanation
Indices: 10700694--10700726 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10700684 TAGTATACAC
*
10700694 ATAATATATACAAAGA
1 ATAATAAATACAAAGA
10700710 ATAATAAATACAAAGA
1 ATAATAAATACAAAGA
10700726 A
1 A
10700727 CAACATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (16 bp):
ATAATAAATACAAAGA
Found at i:10702098 original size:14 final size:14
Alignment explanation
Indices: 10702079--10702118 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
10702069 AACAACTATA
*
10702079 ATAAATATTAAAAT
1 ATAAATATAAAAAT
10702093 ATAAATATAAAAAT
1 ATAAATATAAAAAT
*
10702107 A-ATATATAAAAA
1 ATAAATATAAAAA
10702119 GCCAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 10 0.42
14 14 0.58
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAATATAAAAAT
Found at i:10702108 original size:12 final size:12
Alignment explanation
Indices: 10702078--10702139 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 12
10702068 AAACAACTAT
10702078 AATAAATATTAAA
1 AATAAATA-TAAA
10702091 ATATAAATATAAA
1 A-ATAAATATAAA
10702104 AATAATATATAAA
1 AATAA-ATATAAA
*
10702117 AAGCCAAATA-AAA
1 AA--TAAATATAAA
10702130 AATAAA-ATAA
1 AATAAATATAA
10702140 GAAAATAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
10 1 0.02
11 5 0.12
12 4 0.10
13 20 0.48
14 10 0.24
15 2 0.05
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (12 bp):
AATAAATATAAA
Found at i:10702108 original size:26 final size:25
Alignment explanation
Indices: 10702078--10702139 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
10702068 AAACAACTAT
* * *
10702078 AATAAATATTAAAATATAAATATAAA
1 AATAAATATAAAAAGACAAATA-AAA
*
10702104 AATAATATATAAAAAGCCAAATAAAA
1 AATAA-ATATAAAAAGACAAATAAAA
10702130 AATAAA-ATAA
1 AATAAATATAA
10702140 GAAAATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 4 0.13
25 1 0.03
26 13 0.42
27 13 0.42
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (25 bp):
AATAAATATAAAAAGACAAATAAAA
Found at i:10702144 original size:13 final size:12
Alignment explanation
Indices: 10702088--10702174 Score: 56
Period size: 12 Copynumber: 7.2 Consensus size: 12
10702078 AATAAATATT
10702088 AAAATATAAATATA
1 AAAATA-AAATA-A
10702102 AAAATAATATATAA
1 AAAATAA-A-ATAA
***
10702116 AAAGCCAAATAA
1 AAAATAAAATAA
10702128 AAAATAAAATAA
1 AAAATAAAATAA
10702140 GAAAAT--AA-AA
1 -AAAATAAAATAA
**
10702150 AAAATAAAGCAA
1 AAAATAAAATAA
10702162 AAAATAAAA-AA
1 AAAATAAAATAA
10702173 AA
1 AA
10702175 TCTACGATCG
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
9 5 0.08
10 2 0.03
11 7 0.12
12 23 0.39
13 7 0.12
14 12 0.20
15 3 0.05
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.16
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:10702152 original size:21 final size:20
Alignment explanation
Indices: 10702122--10702173 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
10702112 ATAAAAAGCC
*
10702122 AAAT-AAAAAATAAAATAAGA
1 AAATAAAAAAATAAAACAA-A
*
10702142 AAATAAAAAAAATAAAGCAAA
1 AAAT-AAAAAAATAAAACAAA
10702163 AAATAAAAAAA
1 AAATAAAAAAA
10702174 ATCTACGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 11 0.39
21 5 0.18
22 12 0.43
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.12
Consensus pattern (20 bp):
AAATAAAAAAATAAAACAAA
Found at i:10702174 original size:21 final size:22
Alignment explanation
Indices: 10702126--10702175 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
10702116 AAAGCCAAAT
*
10702126 AAAAAATAAAATAAGAAAATAA
1 AAAAAATAAAACAAGAAAATAA
*
10702148 AAAAAATAAAGCAA-AAAATAA
1 AAAAAATAAAACAAGAAAATAA
10702169 AAAAAAT
1 AAAAAAT
10702176 CTACGATCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 14 0.54
22 12 0.46
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.12
Consensus pattern (22 bp):
AAAAAATAAAACAAGAAAATAA
Found at i:10702562 original size:29 final size:29
Alignment explanation
Indices: 10702519--10702575 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
10702509 GAGCTTCACT
10702519 AAAAAATTCATAAAACAAACCC-AAAAATA
1 AAAAAATTCATAAAA-AAACCCTAAAAATA
10702548 AAAAAATTC-TAAAAAAACCCCTAAAAAT
1 AAAAAATTCATAAAAAAA-CCCTAAAAAT
10702576 TTAAATTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 3 0.12
28 8 0.31
29 15 0.58
ACGTcount: A:0.67, C:0.18, G:0.00, T:0.16
Consensus pattern (29 bp):
AAAAAATTCATAAAAAAACCCTAAAAATA
Found at i:10702690 original size:14 final size:14
Alignment explanation
Indices: 10702654--10702703 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
10702644 AAATCAAAAT
10702654 AATTCAAAAATC-A
1 AATTCAAAAATCAA
**
10702667 AATTTGAAAATCAA
1 AATTCAAAAATCAA
*
10702681 AATTCAAAAA-GAA
1 AATTCAAAAATCAA
10702694 AATTTCAAAA
1 AA-TTCAAAA
10702704 CCAAACCAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 14 0.47
14 16 0.53
ACGTcount: A:0.62, C:0.10, G:0.04, T:0.24
Consensus pattern (14 bp):
AATTCAAAAATCAA
Found at i:10702696 original size:27 final size:27
Alignment explanation
Indices: 10702654--10702708 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
10702644 AAATCAAAAT
** * *
10702654 AATTCAAAAATCAAATTTGAAAATCAA
1 AATTCAAAAAGAAAATTTCAAAACCAA
10702681 AATTCAAAAAGAAAATTTCAAAACCAA
1 AATTCAAAAAGAAAATTTCAAAACCAA
10702708 A
1 A
10702709 CCAGAAATCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.62, C:0.13, G:0.04, T:0.22
Consensus pattern (27 bp):
AATTCAAAAAGAAAATTTCAAAACCAA
Found at i:10703247 original size:18 final size:19
Alignment explanation
Indices: 10703189--10703239 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
10703179 CCTTTGACTA
*
10703189 TAAAAATAATAAAACTAGAAT
1 TAAAAACAA-AAAA-TAGAAT
*
10703210 TAAAAACAAAAAATCGAAT
1 TAAAAACAAAAAATAGAAT
*
10703229 TAAAACCAAAA
1 TAAAAACAAAA
10703240 TTAGAATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 15 0.56
20 4 0.15
21 8 0.30
ACGTcount: A:0.69, C:0.10, G:0.04, T:0.18
Consensus pattern (19 bp):
TAAAAACAAAAAATAGAAT
Found at i:10713958 original size:18 final size:18
Alignment explanation
Indices: 10713935--10713969 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10713925 CCCTTATTCT
*
10713935 TCATCAGAATCTTCATTA
1 TCATCAAAATCTTCATTA
10713953 TCATCAAAATCTTCATT
1 TCATCAAAATCTTCATT
10713970 GTTAGAAGAT
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:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (18 bp):
TCATCAAAATCTTCATTA
Found at i:10719886 original size:7 final size:7
Alignment explanation
Indices: 10719876--10719958 Score: 66
Period size: 7 Copynumber: 12.3 Consensus size: 7
10719866 TTAGATTTTC
10719876 TTGATTT
1 TTGATTT
10719883 TTGATTT
1 TTGATTT
10719890 TT--TTGT
1 TTGATT-T
10719896 TT--TTT
1 TTGATTT
*
10719901 TTTATTT
1 TTGATTT
*
10719908 TCGATTT
1 TTGATTT
*
10719915 TCGATTT
1 TTGATTT
*
10719922 TCGATTT
1 TTGATTT
*
10719929 TCGATTT
1 TTGATTT
*
10719936 TCGATTT
1 TTGATTT
10719943 TTGATTT
1 TTGATTT
*
10719950 TTAATTT
1 TTGATTT
10719957 TT
1 TT
10719959 TTAATTAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
5 5 0.07
6 5 0.07
7 59 0.86
ACGTcount: A:0.13, C:0.06, G:0.11, T:0.70
Consensus pattern (7 bp):
TTGATTT
Found at i:10719890 original size:25 final size:25
Alignment explanation
Indices: 10719862--10719936 Score: 68
Period size: 25 Copynumber: 3.2 Consensus size: 25
10719852 TTGCTTTTTC
*
10719862 TTTTTTAGATTTTCTTGATTTTTGA
1 TTTTTTAGATTTTCTTGATTTTCGA
* * * *
10719887 TTTTTTTGTTTTTTTTTATTTTCGA
1 TTTTTTAGATTTTCTTGATTTTCGA
*
10719912 --TTTTCGATTTTC--GATTTTCGA
1 TTTTTTAGATTTTCTTGATTTTCGA
10719933 TTTT
1 TTTT
10719937 CGATTTTTGA
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 8 0.21
23 11 0.28
25 20 0.51
ACGTcount: A:0.12, C:0.07, G:0.11, T:0.71
Consensus pattern (25 bp):
TTTTTTAGATTTTCTTGATTTTCGA
Found at i:10719928 original size:21 final size:21
Alignment explanation
Indices: 10719904--10719950 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
10719894 GTTTTTTTTT
10719904 ATTTTCGATTTTCGATTTTCG
1 ATTTTCGATTTTCGATTTTCG
*
10719925 ATTTTCGATTTTCGATTTTTG
1 ATTTTCGATTTTCGATTTTCG
10719946 ATTTT
1 ATTTT
10719951 TAATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.11, G:0.13, T:0.62
Consensus pattern (21 bp):
ATTTTCGATTTTCGATTTTCG
Found at i:10719958 original size:14 final size:14
Alignment explanation
Indices: 10719904--10719950 Score: 85
Period size: 14 Copynumber: 3.4 Consensus size: 14
10719894 GTTTTTTTTT
10719904 ATTTTCGATTTTCG
1 ATTTTCGATTTTCG
10719918 ATTTTCGATTTTCG
1 ATTTTCGATTTTCG
*
10719932 ATTTTCGATTTTTG
1 ATTTTCGATTTTCG
10719946 ATTTT
1 ATTTT
10719951 TAATTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.15, C:0.11, G:0.13, T:0.62
Consensus pattern (14 bp):
ATTTTCGATTTTCG
Found at i:10719966 original size:13 final size:13
Alignment explanation
Indices: 10719950--10719975 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10719940 TTTTTGATTT
10719950 TTAATTTTTTTAA
1 TTAATTTTTTTAA
10719963 TTAATTTTTTTAA
1 TTAATTTTTTTAA
10719976 AATAAATAAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTAATTTTTTTAA
Found at i:10720795 original size:24 final size:23
Alignment explanation
Indices: 10720740--10720797 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
10720730 TTCTTAAATT
*
10720740 TTGGATATCACCATCAAAAGTAA
1 TTGGATATCACCATCAAAAGAAA
* *
10720763 TTCGAATATCACCATCGAAAGAAA
1 TT-GGATATCACCATCAAAAGAAA
10720787 CTTGGATATCA
1 -TTGGATATCA
10720798 TTACCAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 2 0.07
24 25 0.86
25 2 0.07
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (23 bp):
TTGGATATCACCATCAAAAGAAA
Found at i:10721098 original size:23 final size:23
Alignment explanation
Indices: 10721072--10721121 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
10721062 GGGTACTAGG
10721072 TAATCTT-GGCTTAAAGTGCCAGC
1 TAATCTTGGGCTT-AAGTGCCAGC
* *
10721095 TAAT-TTGGGCTTAGGTGGCAGC
1 TAATCTTGGGCTTAAGTGCCAGC
10721117 TAATC
1 TAATC
10721122 GTGCTAAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (23 bp):
TAATCTTGGGCTTAAGTGCCAGC
Found at i:10721237 original size:32 final size:32
Alignment explanation
Indices: 10721146--10721246 Score: 94
Period size: 32 Copynumber: 3.2 Consensus size: 32
10721136 ACTAATTTAA
* * * * *
10721146 GCTTCAAATTTGATCGATGCAAGCTAAATTTG
1 GCTTGAAATCTGATCGATGCCAGTTAAATTAG
* * * * * *
10721178 GCTTGAAATCTAATTGGTGACAATTAAACTAG
1 GCTTGAAATCTGATCGATGCCAGTTAAATTAG
*
10721210 GCTTGAAATCTGATCGATGCCAGTTAAATTGG
1 GCTTGAAATCTGATCGATGCCAGTTAAATTAG
10721242 GCTTG
1 GCTTG
10721247 GTGCTAGTTA
Statistics
Matches: 51, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (32 bp):
GCTTGAAATCTGATCGATGCCAGTTAAATTAG
Found at i:10723343 original size:15 final size:14
Alignment explanation
Indices: 10723323--10723354 Score: 55
Period size: 14 Copynumber: 2.2 Consensus size: 14
10723313 TATTTTTCTA
10723323 TTTTTTTGTGTTTTT
1 TTTTTTTG-GTTTTT
10723338 TTTTTTTGGTTTTT
1 TTTTTTTGGTTTTT
10723352 TTT
1 TTT
10723355 GCATGATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (14 bp):
TTTTTTTGGTTTTT
Found at i:10728095 original size:12 final size:12
Alignment explanation
Indices: 10728078--10728110 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
10728068 TTAGATATTT
10728078 TATTTTATTACA
1 TATTTTATTACA
*
10728090 TTTTTTATTACA
1 TATTTTATTACA
10728102 TATTTTATT
1 TATTTTATT
10728111 GTTTTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTTATTACA
Found at i:10728741 original size:3 final size:3
Alignment explanation
Indices: 10728735--10728794 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
10728725 ATTGTTGTTG
10728735 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10728783 TTA TTA TTA TTA
1 TTA TTA TTA TTA
10728795 CCACCACCAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10730480 original size:30 final size:30
Alignment explanation
Indices: 10730390--10730503 Score: 99
Period size: 30 Copynumber: 3.8 Consensus size: 30
10730380 AAATAGTCAT
* *
10730390 TTAAGTTTTT-AATATTT-TATTATAATTAA
1 TTAAATTTTTAAATATTTAT-TTTTAATTAA
* * * *
10730419 TAAAATTTTAAAATTTTTA-TTTTAGACTAA
1 TTAAATTTTTAAATATTTATTTTTA-ATTAA
*
10730449 TTAAATTTTTAAATATTTATTTTTATTTAA
1 TTAAATTTTTAAATATTTATTTTTAATTAA
* * *
10730479 TTAAACTTTTAAACATTGATTTTTA
1 TTAAATTTTTAAATATTTATTTTTA
10730504 TTCAAATTAA
Statistics
Matches: 67, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
29 11 0.16
30 51 0.76
31 5 0.07
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (30 bp):
TTAAATTTTTAAATATTTATTTTTAATTAA
Found at i:10731240 original size:22 final size:22
Alignment explanation
Indices: 10731193--10731240 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
10731183 TTATCTAATT
* *
10731193 AAAAATAAAAAATAAAATGAAC
1 AAAAACAAAAAATAAAATGAAA
10731215 AAAAACAAAAAATAAAAAT-AAA
1 AAAAACAAAAAAT-AAAATGAAA
10731237 AAAA
1 AAAA
10731241 TTTATGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.10
Consensus pattern (22 bp):
AAAAACAAAAAATAAAATGAAA
Found at i:10732300 original size:19 final size:19
Alignment explanation
Indices: 10732260--10732306 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
10732250 GTATCCCATT
*
10732260 AAAAAAATTTAAAATCTAA
1 AAAAAAATTTAAAATATAA
10732279 AAAAAAATTTTAAAA-ATGAA
1 AAAAAAA-TTTAAAATAT-AA
10732299 AAAGAAAA
1 AAA-AAAA
10732307 ATGGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 8 0.33
20 12 0.50
21 4 0.17
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.21
Consensus pattern (19 bp):
AAAAAAATTTAAAATATAA
Found at i:10732300 original size:20 final size:19
Alignment explanation
Indices: 10732260--10732306 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
10732250 GTATCCCATT
*
10732260 AAAAAAATTTAAAATCTAA
1 AAAAAAATTTAAAATCGAA
10732279 AAAAAAATTTTAAAAAT-GAA
1 AAAAAAA-TTT-AAAATCGAA
10732299 AAAGAAAA
1 AAA-AAAA
10732307 ATGGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 8 0.33
21 9 0.38
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.21
Consensus pattern (19 bp):
AAAAAAATTTAAAATCGAA
Found at i:10732367 original size:9 final size:9
Alignment explanation
Indices: 10732355--10732388 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
10732345 AAAAAAGCAA
10732355 TAAAAATTT
1 TAAAAATTT
*
10732364 TAAAAAATT
1 TAAAAATTT
10732373 TAGAAAATTT
1 TA-AAAATTT
10732383 TAAAAA
1 TAAAAA
10732389 ATGAAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (9 bp):
TAAAAATTT
Found at i:10732369 original size:10 final size:10
Alignment explanation
Indices: 10732356--10732390 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
10732346 AAAAAGCAAT
10732356 AAAAATTTTA
1 AAAAATTTTA
10732366 AAAAA-TTTA
1 AAAAATTTTA
*
10732375 GAAAATTTTA
1 AAAAATTTTA
10732385 AAAAAT
1 AAAAAT
10732391 GAAAAGTTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (10 bp):
AAAAATTTTA
Found at i:10732572 original size:18 final size:18
Alignment explanation
Indices: 10732541--10732585 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
10732531 AAAAAAATTG
*
10732541 AAAAAAGTTATAAATTTAAA
1 AAAAAAATTA-AAA-TTAAA
10732561 AAAAAAATTAAAATTAAA
1 AAAAAAATTAAAATTAAA
10732579 AAAAAAA
1 AAAAAAA
10732586 GGGCAACTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 12 0.50
19 3 0.12
20 9 0.38
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAAAAATTAAAATTAAA
Found at i:10742018 original size:20 final size:19
Alignment explanation
Indices: 10741995--10742033 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
10741985 GTAATAATTT
10741995 TATAAATAAAATAATAAAAA
1 TATAAATAAAATAA-AAAAA
*
10742015 TATATATAAAATAAAAAAA
1 TATAAATAAAATAAAAAAA
10742034 CTCGATTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
TATAAATAAAATAAAAAAA
Found at i:10743403 original size:202 final size:199
Alignment explanation
Indices: 10743060--10743462 Score: 544
Period size: 202 Copynumber: 2.0 Consensus size: 199
10743050 TCATTTATGC
* * *
10743060 AAAGAACTAATCTGTCAACTGAGTTTAGGTGTAACTTTGGAAAATTTTCTATACTTGTATGGATG
1 AAAGAACTAATATGTCAACTGAGTTTAAGTGTAACTTTGGAAAATTTTCTATACTTGTATCGATG
* *
10743125 GAATTTGAAGCTAATTTTTTAAAATTAAAAATCCATTAGTTAGGAATCTAACAAAAAATTTTGGC
66 GAATTTGAAGCTAATTTTTTAAAATTAAAAATCCATGAGTTAGGAATCTAACAAAAAAATTTGGC
* * * * *
10743190 TTAAAACAAGTTGGAATTCATGAAGAACTAATCCAAAAACCACAAAGAGGTCAAAATCATGAATT
131 TCAAAACAAGTTGAAATTCATCAAGAACTAATCCAAAAACCACAAAGAGGTCAAAACCATAAATT
*
10743255 TTAA
196 TCAA
* * * *
10743259 AAAGAACTAATATGTCAACTGAGTTTAAGTGTCA-TTT-GAGAATTTT-TGT-CTTTGTGTCGAT
1 AAAGAACTAATATGTCAACTGAGTTTAAGTGTAACTTTGGAAAATTTTCTATAC-TTGTATCGAT
* *
10743320 GGAATTTGAAGCTAATTTTTTTTTTTCAGAATTAAAAATCTATGAGTTAGGAATCTAACAAAAAA
65 GGAATTTGAAGCTAA-----TTTTTT-AAAATTAAAAATCCATGAGTTAGGAATCTAACAAAAAA
* *
10743385 ATTTGGCTCAAAACAAGTTGAAATTCATCAAGAATTGATCCAAAAACCACAAAGAGGTCAAAACC
124 ATTTGGCTCAAAACAAGTTGAAATTCATCAAGAACTAATCCAAAAACCACAAAGAGGTCAAAACC
10743450 ATAAATTTCAA
189 ATAAATTTCAA
10743461 AA
1 AA
10743463 TAGATTTGAA
Statistics
Matches: 178, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
195 1 0.01
196 25 0.14
197 8 0.04
198 3 0.02
199 31 0.17
201 6 0.03
202 104 0.58
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (199 bp):
AAAGAACTAATATGTCAACTGAGTTTAAGTGTAACTTTGGAAAATTTTCTATACTTGTATCGATG
GAATTTGAAGCTAATTTTTTAAAATTAAAAATCCATGAGTTAGGAATCTAACAAAAAAATTTGGC
TCAAAACAAGTTGAAATTCATCAAGAACTAATCCAAAAACCACAAAGAGGTCAAAACCATAAATT
TCAA
Found at i:10747908 original size:3 final size:3
Alignment explanation
Indices: 10747900--10747926 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10747890 TTGGTCCTGC
10747900 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
10747927 CATCATCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10749518 original size:11 final size:11
Alignment explanation
Indices: 10749504--10749563 Score: 75
Period size: 11 Copynumber: 5.5 Consensus size: 11
10749494 ATATCTGGTC
*
10749504 AATCTCAAATA
1 AATCTCAAACA
*
10749515 AATCTCTAACA
1 AATCTCAAACA
* *
10749526 AATCCCAAATA
1 AATCTCAAACA
*
10749537 AATCTCTAACA
1 AATCTCAAACA
10749548 AATCTCAAACA
1 AATCTCAAACA
10749559 AATCT
1 AATCT
10749564 TTTATAAGAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 40 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (11 bp):
AATCTCAAACA
Found at i:10749529 original size:22 final size:22
Alignment explanation
Indices: 10749504--10749563 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
10749494 ATATCTGGTC
10749504 AATCTCAAATAAATCTCTAACA
1 AATCTCAAATAAATCTCTAACA
*
10749526 AATCCCAAATAAATCTCTAACA
1 AATCTCAAATAAATCTCTAACA
*
10749548 AATCTCAAACAAATCT
1 AATCTCAAATAAATCT
10749564 TTTATAAGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (22 bp):
AATCTCAAATAAATCTCTAACA
Found at i:10755411 original size:26 final size:26
Alignment explanation
Indices: 10755382--10755432 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10755372 CACCACAAAC
*
10755382 CAAGAAAAGA-AGAGGGAAAAAAGAAG
1 CAAGAAAA-ATAGAGAGAAAAAAGAAG
*
10755408 CAAGAAAAATAGAGAGATAAAAGAA
1 CAAGAAAAATAGAGAGAAAAAAGAA
10755433 AAAGAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.67, C:0.04, G:0.25, T:0.04
Consensus pattern (26 bp):
CAAGAAAAATAGAGAGAAAAAAGAAG
Found at i:10757448 original size:142 final size:142
Alignment explanation
Indices: 10757168--10757668 Score: 434
Period size: 142 Copynumber: 3.6 Consensus size: 142
10757158 ATTTGAACAC
* * * **
10757168 TTGAAAATC-TGATTGGACCTCAAGAATG-GTGAAATTACTAAAATACCCTTT-GTGAAATTTTC
1 TTGAAAATCTTGATTGCACCTCAAAAATGAGTGAAATTACTAAAATACCCTTTAGGGGTATTTTC
* ** * * * * * * *
10757230 GTCATTTGATGTTTTCAAAGTTGGTTTTTGGTGAAAAACTCCATATCAACTTTAAATATTATTTC
66 GTAATTTGACCTTTT-TAAGTT--TTTTTCGTGAAAAGCTTCAAATCATCTTTGAATATTATTTC
* *
10757295 ATAAACTTTGATGCA
128 ATGAATTTTGATGCA
* * * * *
10757310 TTGAAAATATTGATTGGACCTCAAAAATG-GTGAAATTACCAAAATATCCTTTAGGGGTATTTTT
1 TTGAAAATCTTGATTGCACCTCAAAAATGAGTGAAATTACTAAAATACCCTTTAGGGGTATTTTC
* * *
10757374 GTCATTTGACCTTTTTGAGTCTTTTTTCGTGAAAAGCTTCAAATCATGTTTGAATATTATTTCAT
66 GTAATTTGACCTTTTTAAGT-TTTTTTCGTGAAAAGCTTCAAATCATCTTTGAATATTATTTCAT
10757439 GAATTTTGATGCA
130 GAATTTTGATGCA
** * ** * *
10757452 TTGAAAATCTTGATTGCATATTAAAAA-GAGTGAAATTAAGAAAATCCCCTTTAGAGGTATTTTC
1 TTGAAAATCTTGATTGCACCTCAAAAATGAGTGAAATTACTAAAATACCCTTTAGGGGTATTTTC
* * * * *
10757516 ATAATTTGA-CTTTTTCAAG----TTTCATGAAAAGCTTCAGATC-TTTGTTGAATATTATTTAA
66 GTAATTTGACCTTTTT-AAGTTTTTTTCGTGAAAAGCTTCAAATCATCT-TTGAATATTATTTCA
*
10757575 TGAATTTTAATGCA
129 TGAATTTTGATGCA
* * * * ** * *
10757589 TTTAGAATCTTGATTGCACCTC--AAAGGAGTTAAATTACTAAAATGTCCTTTAAGGTTATTTTC
1 TTGAAAATCTTGATTGCACCTCAAAAATGAGTGAAATTACTAAAATACCCTTTAGGGGTATTTTC
*
10757652 GTAATTTAACCTTTTTA
66 GTAATTTGACCTTTTTA
10757669 TGTCAGTTTT
Statistics
Matches: 296, Mismatches: 55, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
135 3 0.01
136 39 0.13
137 69 0.23
141 7 0.02
142 115 0.39
143 42 0.14
144 21 0.07
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.41
Consensus pattern (142 bp):
TTGAAAATCTTGATTGCACCTCAAAAATGAGTGAAATTACTAAAATACCCTTTAGGGGTATTTTC
GTAATTTGACCTTTTTAAGTTTTTTTCGTGAAAAGCTTCAAATCATCTTTGAATATTATTTCATG
AATTTTGATGCA
Found at i:10757666 original size:137 final size:137
Alignment explanation
Indices: 10757398--10757667 Score: 330
Period size: 137 Copynumber: 2.0 Consensus size: 137
10757388 TTGAGTCTTT
* * *
10757398 TTTCGTGAAAAGCTTCAAATCATGTTTGAATATTATTTCATGAATTTTGATGCATTGAAAATCTT
1 TTTCATGAAAAGCTTCAAATCATGTTTGAATATTATTTAATGAATTTTAATGCATTGAAAATCTT
* *
10757463 GATTGCATATTAAAAAGAGTGAAATTAAGAAAATCCCCTTTAGAGGTATTTTCATAATTTGACTT
66 GATTGCATACTAAAAAGAGTGAAATTAAGAAAATCCCCTTTAGAGGTATTTTCATAATTTAACTT
10757528 TTTCAAG
131 TTTCAAG
* * * *
10757535 TTTCATGAAAAGCTTCAGATC-TTTGTTGAATATTATTTAATGAATTTTAATGCATTTAGAATCT
1 TTTCATGAAAAGCTTCAAATCATGT-TTGAATATTATTTAATGAATTTTAATGCATTGAAAATCT
* * * * ** ** *
10757599 TGATTGCA-CCTCAAAGGAGTTAAATTACTAAAATGTCCTTTA-AGGTTATTTTCGTAATTTAAC
65 TGATTGCATACTAAAAAGAGTGAAATTAAGAAAATCCCCTTTAGAGG-TATTTTCATAATTTAA-
10757662 CTTTTT
128 CTTTTT
10757668 ATGTCAGTTT
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
135 3 0.03
136 41 0.37
137 68 0.61
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.41
Consensus pattern (137 bp):
TTTCATGAAAAGCTTCAAATCATGTTTGAATATTATTTAATGAATTTTAATGCATTGAAAATCTT
GATTGCATACTAAAAAGAGTGAAATTAAGAAAATCCCCTTTAGAGGTATTTTCATAATTTAACTT
TTTCAAG
Found at i:10759340 original size:25 final size:25
Alignment explanation
Indices: 10759276--10759365 Score: 76
Period size: 25 Copynumber: 3.5 Consensus size: 25
10759266 AAATTCTAAG
* * *
10759276 CCAAAACCCTAAAACCAAACCTTAAT
1 CCAAACCCCT-AAACCAAATCATAAT
* * *
10759302 GCAAACCTCAAAACCAAATCATAAT
1 CCAAACCCCTAAACCAAATCATAAT
10759327 CCAAACCCCTAAACCCAAAGTCA-AAT
1 CCAAACCCCTAAA-CCAAA-TCATAAT
10759353 CCTAAA-CCCTAAA
1 CC-AAACCCCTAAA
10759366 GTCAAACTTT
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
25 23 0.44
26 23 0.44
27 6 0.12
ACGTcount: A:0.49, C:0.34, G:0.02, T:0.14
Consensus pattern (25 bp):
CCAAACCCCTAAACCAAATCATAAT
Found at i:10759366 original size:20 final size:19
Alignment explanation
Indices: 10759328--10759457 Score: 127
Period size: 20 Copynumber: 6.6 Consensus size: 19
10759318 AATCATAATC
10759328 CAAACCCCTAAACCCAAAGT
1 CAAA-CCCTAAACCCAAAGT
*
10759348 CAAATCCTAAACCCTAAAGT
1 CAAACCCTAAACCC-AAAGT
** *
10759368 CAAACTTTAAAACCAAAGT
1 CAAACCCTAAACCCAAAGT
*
10759387 CAAACCCTAAACCCAAATT
1 CAAACCCTAAACCCAAAGT
*
10759406 TAAACCCTTAAACCCTAAAGT
1 CAAACCC-TAAACCC-AAAGT
* *
10759427 C-AACCCTTAAACCATAAAAT
1 CAAACCC-TAAACC-CAAAGT
10759447 CAAACCCTAAA
1 CAAACCCTAAA
10759458 GGGGCTTTTG
Statistics
Matches: 91, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
19 35 0.38
20 47 0.52
21 9 0.10
ACGTcount: A:0.48, C:0.32, G:0.03, T:0.18
Consensus pattern (19 bp):
CAAACCCTAAACCCAAAGT
Found at i:10759371 original size:26 final size:26
Alignment explanation
Indices: 10759258--10759365 Score: 80
Period size: 26 Copynumber: 4.2 Consensus size: 26
10759248 ACCCTAAAAT
* *
10759258 TAAACCCAAAATTC-TAAGCCAAAACCC
1 TAAACCC-AAA-TCATAATCCAAACCCC
* * * * *
10759285 TAAAACCAAACCTTAATGCAAACCTC
1 TAAACCCAAATCATAATCCAAACCCC
*
10759311 -AAAACCAAATCATAATCCAAACCCC
1 TAAACCCAAATCATAATCCAAACCCC
10759336 TAAACCCAAAGTCA-AATCCTAAA-CCC
1 TAAACCCAAA-TCATAATCC-AAACCCC
10759362 TAAA
1 TAAA
10759366 GTCAAACTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
25 22 0.33
26 32 0.48
27 12 0.18
ACGTcount: A:0.49, C:0.32, G:0.03, T:0.16
Consensus pattern (26 bp):
TAAACCCAAATCATAATCCAAACCCC
Found at i:10759417 original size:39 final size:40
Alignment explanation
Indices: 10759328--10759454 Score: 143
Period size: 39 Copynumber: 3.2 Consensus size: 40
10759318 AATCATAATC
* *
10759328 CAAACCCCTAAACCCAAAGTCAAATCCTAAACCCTAAAGT
1 CAAACCCTTAAACCCAAAGTCAAACCCTAAACCCTAAAGT
* * *
10759368 CAAA-CTTTAAAACCAAAGTCAAACCCTAAACCC-AAATT
1 CAAACCCTTAAACCCAAAGTCAAACCCTAAACCCTAAAGT
* * *
10759406 TAAACCCTTAAACCCTAAAGTC-AACCCTTAAACCATAAAAT
1 CAAACCCTTAAACCC-AAAGTCAAACCC-TAAACCCTAAAGT
10759447 CAAACCCT
1 CAAACCCT
10759455 AAAGGGGCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
38 7 0.10
39 38 0.53
40 16 0.22
41 11 0.15
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.18
Consensus pattern (40 bp):
CAAACCCTTAAACCCAAAGTCAAACCCTAAACCCTAAAGT
Found at i:10759937 original size:15 final size:15
Alignment explanation
Indices: 10759917--10759947 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10759907 ACTTAATTAC
10759917 TTATTTTCATTTAAA
1 TTATTTTCATTTAAA
10759932 TTATTTTCATTTAAA
1 TTATTTTCATTTAAA
10759947 T
1 T
10759948 AAACATCGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTTTCATTTAAA
Found at i:10760195 original size:147 final size:145
Alignment explanation
Indices: 10759968--10760252 Score: 358
Period size: 147 Copynumber: 2.0 Consensus size: 145
10759958 ATTGACAAAG
* *** * *
10759968 AAACGTTGTAATTAACTTAACAAAAATGGTGTAATTAACAAAAATTTTAAAATACTTAATTACAG
1 AAACGTTGTAATTAACTTAACAAAAACGACATAAATAACAAAAATTTTAAAATACTCAATTACAG
** *
10760033 TGTTTTAATGAAAAAAAAGCTATAATTGATTGCAAAATTTTAAAATTTTAACAAAGAAATGCCAT
66 CATTTTAATGAAAAAAAA-CTATAATTGATTGCAAAATTTTAAAATTTTAA-AAAGAAATACCAT
10760098 AATTGACAAAAAAAAAA
129 AATTGACAAAAAAAAAA
* * **
10760115 AAACGTTGTAATTGACTTAACAAAAACGACATAAAT-GCAAAAATTTTAAAAATACTCAATTATG
1 AAACGTTGTAATTAACTTAACAAAAACGACATAAATAACAAAAATTTT-AAAATACTCAATTACA
* * * **
10760179 GCATTTTAATTG-AAAAACACTATAATTGATTGTAAAATTTTTAAATTTTAAAAAGAAATACTGT
65 GCATTTTAA-TGAAAAAAAACTATAATTGATTGCAAAATTTTAAAATTTTAAAAAGAAATACCAT
10760243 AATTGACAAA
129 AATTGACAAA
10760253 TAAATGTTGT
Statistics
Matches: 118, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
145 20 0.17
146 40 0.34
147 56 0.47
148 2 0.02
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (145 bp):
AAACGTTGTAATTAACTTAACAAAAACGACATAAATAACAAAAATTTTAAAATACTCAATTACAG
CATTTTAATGAAAAAAAACTATAATTGATTGCAAAATTTTAAAATTTTAAAAAGAAATACCATAA
TTGACAAAAAAAAAA
Found at i:10760263 original size:20 final size:20
Alignment explanation
Indices: 10760229--10760296 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 20
10760219 TTAAATTTTA
*
10760229 AAAAGAAATACTGTAATTGAC
1 AAAA-AAATGCTGTAATTGAC
* *
10760250 AAATAAATGTTGTAATTGAC
1 AAAAAAATGCTGTAATTGAC
10760270 AGTAAAAAAATGCTGTAATTGAC
1 ---AAAAAAATGCTGTAATTGAC
10760293 AAAA
1 AAAA
10760297 TTTTAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 18 0.46
21 3 0.08
23 18 0.46
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAAATGCTGTAATTGAC
Found at i:10760286 original size:23 final size:21
Alignment explanation
Indices: 10760228--10760296 Score: 77
Period size: 23 Copynumber: 3.2 Consensus size: 21
10760218 TTTAAATTTT
*
10760228 AAAAAGAAATACTGTAATTGAC
1 AAAAA-AAATGCTGTAATTGAC
* *
10760250 -AAATAAATGTTGTAATTGAC
1 AAAAAAAATGCTGTAATTGAC
10760270 AGTAAAAAAATGCTGTAATTGAC
1 A--AAAAAAATGCTGTAATTGAC
10760293 AAAA
1 AAAA
10760297 TTTTAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 14 0.36
21 6 0.15
23 19 0.49
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.26
Consensus pattern (21 bp):
AAAAAAAATGCTGTAATTGAC
Found at i:10760905 original size:18 final size:18
Alignment explanation
Indices: 10760882--10760932 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
10760872 CCCCAAAATA
*
10760882 TAACCTAACTCTAAACCC
1 TAACCTAACCCTAAACCC
*
10760900 TAACCTAACCCTAAATCC
1 TAACCTAACCCTAAACCC
10760918 TAACCTAAACCCTAA
1 TAACCT-AACCCTAA
10760933 GGTAAACCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 22 0.73
19 8 0.27
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (18 bp):
TAACCTAACCCTAAACCC
Done.