Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 7 of 127
Found at i:1599635 original size:43 final size:41
Alignment explanation
Indices: 1599578--1599657 Score: 117
Period size: 40 Copynumber: 1.9 Consensus size: 41
1599568 ATTTTTGTTC
*
1599578 TTTTTTTGTATTTTGTATTTTTTATGGTATTTTGTATTTTGATA
1 TTTTTTTGTATTTTGTA--TTTT-TGGTATTATGTATTTTGATA
1599622 TTTTTTT-TATTTTGTATTTTTGGTATTATGTATTTT
1 TTTTTTTGTATTTTGTATTTTTGGTATTATGTATTTT
1599658 TGTTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
40 15 0.43
41 4 0.11
43 9 0.26
44 7 0.20
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.72
Consensus pattern (41 bp):
TTTTTTTGTATTTTGTATTTTTGGTATTATGTATTTTGATA
Found at i:1600114 original size:48 final size:48
Alignment explanation
Indices: 1600049--1600520 Score: 543
Period size: 48 Copynumber: 9.8 Consensus size: 48
1600039 TTAAAATCTA
* * * *
1600049 AAAAAGGCTCATCTCAGTAGAGACTCAACAACTTAAAAATTTTATCTTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTG
* * * *
1600098 AAAAAGCTCATCTCAGTAGATGCTCAATAACTTTAAAATTTTATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTG
* * * * ** *
1600146 AAAAATGCTCCTTTCAACAGAGGCTTAACAGCTTTAAAAACTCAT-TTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTG
* * *
1600194 AAAAAGCTCCTCTCAACAGAGACTCAATAACTTTAAAATTTTATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTG
* * *
1600242 AAAAAGCTCATCACAGCAAAGGCTCAACAACTTTAAAATTTTATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTG
* ** *
1600290 AAAAATGCACCGATCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTA
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTG
* * * *
1600339 AAAAAGCTCCTCTCAGCAAATGCTCAACAACTTTAAAAATCTCAT-TTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATTTTATCTTG
* *
1600387 AAAAAGCTTCTCTCAGCAGAGGCTCAATAACTTTAAAATTTTATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTG
* * * **
1600435 AAAAAAGCTCTTCTCAGCAGAGGCTTAACAACTTTAAAAATTTATCTAA
1 -AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTG
* *
1600484 AAAAAGTTTCTCTCAGCAGAGGCTCAACAACTTTAAA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAA
1600521 TTCAAAAAGC
Statistics
Matches: 356, Mismatches: 61, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
47 39 0.11
48 194 0.54
49 123 0.35
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (48 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTG
Found at i:1600343 original size:97 final size:96
Alignment explanation
Indices: 1600047--1600520 Score: 547
Period size: 97 Copynumber: 4.9 Consensus size: 96
1600037 ATTTAAAATC
* * * *
1600047 TAAAAAAGGCTCATCTCAGTAGAGACTCAACAACTTAAAAATTTTATCTTGAAAAAGCTCATCTC
1 TAAAAAA-GCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTGAAAAAGCTCCTCTC
* *
1600112 AGTAGATGCTCAATAACTTTAAAATTTTATCT
65 AGCAGAGGCTCAATAACTTTAAAATTTTATCT
* * * * * * ** *
1600144 TGAAAAATGCTCCTTTCAACAGAGGCTTAACAGCTTTAAAAACTCAT-TTGAAAAAGCTCCTCTC
1 T-AAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTGAAAAAGCTCCTCTC
* *
1600208 AACAGAGACTCAATAACTTTAAAATTTTATCT
65 AGCAGAGGCTCAATAACTTTAAAATTTTATCT
* * * * **
1600240 TGAAAAAGCTCATCACAGCAAAGGCTCAACAACTTTAAAATTTTATCTTGAAAAATGCACCGATC
1 TAAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTGAAAAA-GCTCCTCTC
*
1600305 AGCAGAGGCTCAACAACTTTAAAATTTTATCT
65 AGCAGAGGCTCAATAACTTTAAAATTTTATCT
* * * * * *
1600337 TAAAAAAGCTCCTCTCAGCAAATGCTCAACAACTTTAAAAATCTCAT-TTGAAAAAGCTTCTCTC
1 TAAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTT-AAAATTTTATCTTGAAAAAGCTCCTCTC
1600401 AGCAGAGGCTCAATAACTTTAAAATTTTATCT
65 AGCAGAGGCTCAATAACTTTAAAATTTTATCT
* * * ** * *
1600433 TGAAAAAAGCTCTTCTCAGCAGAGGCTTAACAACTTTAAAAATTTATCTAAAAAAAGTTTCTCTC
1 T-AAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTGAAAAAGCTCCTCTC
*
1600498 AGCAGAGGCTCAACAACTTTAAA
65 AGCAGAGGCTCAATAACTTTAAA
1600521 TTCAAAAAGC
Statistics
Matches: 314, Mismatches: 57, Indels: 12
0.82 0.15 0.03
Matches are distributed among these distances:
95 33 0.11
96 97 0.31
97 171 0.54
98 13 0.04
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (96 bp):
TAAAAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTGAAAAAGCTCCTCTCA
GCAGAGGCTCAATAACTTTAAAATTTTATCT
Found at i:1600412 original size:145 final size:145
Alignment explanation
Indices: 1599998--1600520 Score: 610
Period size: 145 Copynumber: 3.6 Consensus size: 145
1599988 CATCAAAACG
* * * * *
1599998 AAAATGCTCCTCTCA-CTCGAGGCTTGACAACTATTGAAAATTTAAAATC-TAAAAAAGGCTCAT
1 AAAATGCTCCTATCAGC-AGAGGCTTAACAACT-TTAAAAATTT---ATCTTAAAAAA-GCTCCT
* * *
1600061 CTCAGTAGAGACTCAACAAC-TTAAAAATTTTATCTTGAAAAAGCTCATCTCAGTAGATGCTCAA
60 CTCAGCAGAG-CTCAACAACTTTAAAAATTTTATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAA
1600125 TAACTTTAAAATTTTATCTTGA
124 TAACTTTAAAATTTTATCTTGA
* * * * * * *
1600147 AAAATGCTCCTTTCAACAGAGGCTTAACAGCTTTAAAAACTCAT-TTGAAAAAGCTCCTCTCAAC
1 AAAATGCTCCTATCAGCAGAGGCTTAACAACTTTAAAAATTTATCTTAAAAAAGCTCCTCTCAGC
* * * *
1600211 AGAGACTCAATAACTTT-AAAATTTTATCTTGAAAAAGCTCATCACAGCAAAGGCTCAACAACTT
66 AGAG-CTCAACAACTTTAAAAATTTTATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAATAACTT
1600275 TAAAATTTTATCTTGA
130 TAAAATTTTATCTTGA
* * * *
1600291 AAAATGCACCGATCAGCAGAGGCTCAACAACTTTAAAATTTTATCTTAAAAAAGCTCCTCTCAGC
1 AAAATGCTCCTATCAGCAGAGGCTTAACAACTTTAAAAATTTATCTTAAAAAAGCTCCTCTCAGC
* * *
1600356 AAATGCTCAACAACTTTAAAAATCTCAT-TTGAAAAAGCTTC-TCTCAGCAGAGGCTCAATAACT
66 AGA-GCTCAACAACTTTAAAAATTTTATCTTGAAAAAGC-TCATCTCAGCAGAGGCTCAATAACT
1600419 TTAAAATTTTATCTTGA
129 TTAAAATTTTATCTTGA
* * * * * *
1600436 AAAAAGCTCTTCTCAGCAGAGGCTTAACAACTTTAAAAATTTATCTAAAAAAAGTTTCTCTCAGC
1 AAAATGCTCCTATCAGCAGAGGCTTAACAACTTTAAAAATTTATCTTAAAAAAGCTCCTCTCAGC
1600501 AGAGGCTCAACAACTTTAAA
66 AGA-GCTCAACAACTTTAAA
1600521 TTCAAAAAGC
Statistics
Matches: 320, Mismatches: 47, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
144 115 0.36
145 160 0.50
146 11 0.03
148 7 0.02
149 26 0.08
150 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.29
Consensus pattern (145 bp):
AAAATGCTCCTATCAGCAGAGGCTTAACAACTTTAAAAATTTATCTTAAAAAAGCTCCTCTCAGC
AGAGCTCAACAACTTTAAAAATTTTATCTTGAAAAAGCTCATCTCAGCAGAGGCTCAATAACTTT
AAAATTTTATCTTGA
Found at i:1600591 original size:40 final size:39
Alignment explanation
Indices: 1600512--1600837 Score: 274
Period size: 40 Copynumber: 8.3 Consensus size: 39
1600502 GAGGCTCAAC
* * * * * *
1600512 AACTTTAAATTCAAAAAGCTCCTTTAACTAAAGGCAACA
1 AACTTTAAATTTAAAAAGCTCCTCTGACCAGAGGTAACA
* *
1600551 AACTTTAAATGTTGAAAGGCTCCTCTGACCAGAGGTAACA
1 AACTTTAAAT-TTAAAAAGCTCCTCTGACCAGAGGTAACA
** * * * * *
1600591 AACTTTAAATCCAAAAAGCTCTTTTAACCAAAGGTGACA
1 AACTTTAAATTTAAAAAGCTCCTCTGACCAGAGGTAACA
* * *
1600630 AACTTTAAATATTGAAAGGCTCCTCTGACCAGAGGTAACT
1 AACTTTAAAT-TTAAAAAGCTCCTCTGACCAGAGGTAACA
* * * * * ** *
1600670 AACTTTAAATTCAAAAAGCTCATTTAACCAAAGGCGATA
1 AACTTTAAATTTAAAAAGCTCCTCTGACCAGAGGTAACA
*
1600709 AACTTTAAATATTAAAAGGCTCCTCTGACCAGAGGTAACA
1 AACTTTAAAT-TTAAAAAGCTCCTCTGACCAGAGGTAACA
* * * * ***
1600749 AACTTTAAATTCAAAAAGCTCCTTTAACCAAAGGCGGCA
1 AACTTTAAATTTAAAAAGCTCCTCTGACCAGAGGTAACA
* * * *
1600788 AACTTTAAATATTGAAAAGCTCCTCTGACTAGAGGCAACG
1 AACTTTAAAT-TTAAAAAGCTCCTCTGACCAGAGGTAACA
1600828 AACTTTAAAT
1 AACTTTAAAT
1600838 CCAAAAATAC
Statistics
Matches: 219, Mismatches: 64, Indels: 7
0.76 0.22 0.02
Matches are distributed among these distances:
39 99 0.45
40 120 0.55
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (39 bp):
AACTTTAAATTTAAAAAGCTCCTCTGACCAGAGGTAACA
Found at i:1600606 original size:79 final size:79
Alignment explanation
Indices: 1600512--1600844 Score: 522
Period size: 79 Copynumber: 4.2 Consensus size: 79
1600502 GAGGCTCAAC
* * *
1600512 AACTTTAAATTCAAAAAGCTCCTTTAACTAAAGGCAACAAACTTTAAATGTTGAAAGGCTCCTCT
1 AACTTTAAATTCAAAAAGCTCCTTTAACCAAAGGCGACAAACTTTAAATATTGAAAGGCTCCTCT
1600577 GACCAGAGGTAACA
66 GACCAGAGGTAACA
* * *
1600591 AACTTTAAATCCAAAAAGCTCTTTTAACCAAAGGTGACAAACTTTAAATATTGAAAGGCTCCTCT
1 AACTTTAAATTCAAAAAGCTCCTTTAACCAAAGGCGACAAACTTTAAATATTGAAAGGCTCCTCT
*
1600656 GACCAGAGGTAACT
66 GACCAGAGGTAACA
* * *
1600670 AACTTTAAATTCAAAAAGCTCATTTAACCAAAGGCGATAAACTTTAAATATTAAAAGGCTCCTCT
1 AACTTTAAATTCAAAAAGCTCCTTTAACCAAAGGCGACAAACTTTAAATATTGAAAGGCTCCTCT
1600735 GACCAGAGGTAACA
66 GACCAGAGGTAACA
* *
1600749 AACTTTAAATTCAAAAAGCTCCTTTAACCAAAGGCGGCAAACTTTAAATATTGAAAAGCTCCTCT
1 AACTTTAAATTCAAAAAGCTCCTTTAACCAAAGGCGACAAACTTTAAATATTGAAAGGCTCCTCT
* * *
1600814 GACTAGAGGCAACG
66 GACCAGAGGTAACA
*
1600828 AACTTTAAATCCAAAAA
1 AACTTTAAATTCAAAAA
1600845 TACTGAGAGG
Statistics
Matches: 232, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 232 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.25
Consensus pattern (79 bp):
AACTTTAAATTCAAAAAGCTCCTTTAACCAAAGGCGACAAACTTTAAATATTGAAAGGCTCCTCT
GACCAGAGGTAACA
Found at i:1609013 original size:58 final size:58
Alignment explanation
Indices: 1608951--1609463 Score: 558
Period size: 58 Copynumber: 8.7 Consensus size: 58
1608941 TTTGTGCAGA
* * * *
1608951 AAAATTAATACTTTCAACTTTTTCTCAAAAATATTCTTTTGAAACTTTAATTTTGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTAATTTTAAGG
*
1609009 AAAATTGATACTTTCAACTTTTCCTC-AAAAT-TTCATTTTTGAAAAC-TTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATT--TTTTTG-AAACTTTAATTTTAAGG
* * **
1609067 AAAATTGATACTTTCAACTTTTCCCCAAAAATAGTTTTTTTTTTTTTAAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-------TTTTTTTGAAACTTTAATTTTAAGG
* * *
1609132 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTGAAAATTT-ATCTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTGAAACTTTAAT-TTTAAGG
* ** *
1609192 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTG-AAACTTTAATTTTAAGG
* * *
1609250 AAAATTGATACTTTCAACTTTTCCTCAAAACCT-TTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTTTGAAACTTTAATTTTAAGG
** *
1609308 AAAATTGATACTTTCAACTTTTTCC-CAAAAATA-TTTTTTGAAAACTTTTAATTTCGAGA
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTG-AAAC-TTTAATTTTAAGG
* ** * *
1609367 AAAATTGATACTTTCAACTTTTTCTC-AAAACCTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTAATTTTAAGG
1609424 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1609464 TTGAATTTTA
Statistics
Matches: 382, Mismatches: 46, Indels: 54
0.79 0.10 0.11
Matches are distributed among these distances:
56 2 0.01
57 54 0.14
58 166 0.43
59 62 0.16
60 47 0.12
64 4 0.01
65 44 0.12
67 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTAATTTTAAGG
Found at i:1609325 original size:116 final size:116
Alignment explanation
Indices: 1608951--1609462 Score: 753
Period size: 116 Copynumber: 4.3 Consensus size: 116
1608941 TTTGTGCAGA
* * * * *
1608951 AAAATTAATACTTTCAACTTTTTCTCAAAAATATTCTTTTG-AAACTTTAATTTTGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATT-TTTTGAAAACTTTAATTTCGAGAAAAATT
*
1609015 GATACTTTCAACTTTTCCTCAAAA--TTTCATTTTTGAAAACTTATTTTTAAGG
65 GATACTTTCAACTTTTCCTCAAAACCTTT--TTTTTGAAAATTTATTTTTAAGG
* *
1609067 AAAATTGATACTTTCAACTTTTCCCCAAAAATAGTTTTTTTTTTTTTAAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-------TTTTTTGAAAACTTTAATTTCGAGA
* * *
1609132 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTGAAAATTTATCTTTAAGA
59 AAAATTGATACTTTCAACTTTTCCTC-AAAA-CCTTTTTTTTGAAAATTTATTTTTAAGG
1609192 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATTG
1609257 ATACTTTCAACTTTTCCTCAAAACCTTTTTTTTGAAAATTTATTTTTAAGG
66 ATACTTTCAACTTTTCCTCAAAACCTTTTTTTTGAAAATTTATTTTTAAGG
*
1609308 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAACTTTTAATTTCGAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAAC-TTTAATTTCGAGAAAAATT
*
1609373 GATACTTTCAACTTTTTCTCAAAACC-TTTTTTTGAAAATTTATTTTTAAGG
65 GATACTTTCAACTTTTCCTCAAAACCTTTTTTTTGAAAATTTATTTTTAAGG
*
1609424 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1609463 TTTGAATTTT
Statistics
Matches: 366, Mismatches: 17, Indels: 26
0.89 0.04 0.06
Matches are distributed among these distances:
116 161 0.44
117 48 0.13
118 49 0.13
122 4 0.01
123 44 0.12
124 4 0.01
125 53 0.14
127 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTAATTTCGAGAAAAATTG
ATACTTTCAACTTTTCCTCAAAACCTTTTTTTTGAAAATTTATTTTTAAGG
Found at i:1610414 original size:26 final size:25
Alignment explanation
Indices: 1610382--1610446 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 25
1610372 ACAGACAAAT
1610382 TATAATATATAAATAGATAAATAA-
1 TATAATATATAAATAGATAAATAAC
*
1610406 TAATAAATATATAACTAGATAAATAAC
1 T-AT-AATATATAAATAGATAAATAAC
1610433 TAT-ATATATAAATA
1 TATAATATATAAATA
1610447 TTAACAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 11 0.31
25 2 0.06
26 22 0.61
27 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (25 bp):
TATAATATATAAATAGATAAATAAC
Found at i:1610510 original size:31 final size:28
Alignment explanation
Indices: 1610475--1610531 Score: 78
Period size: 31 Copynumber: 1.9 Consensus size: 28
1610465 AAAGAAAAAA
1610475 AATAATAAAGAAATATATATTAATAAATAGT
1 AATAATAAAGAAATA-A-A-TAATAAATAGT
*
1610506 AATAATAAATAAATAAATAATAAATA
1 AATAATAAAGAAATAAATAATAAATA
1610532 CATAAGATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 1 0.04
30 1 0.04
31 14 0.56
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (28 bp):
AATAATAAAGAAATAAATAATAAATAGT
Found at i:1610527 original size:7 final size:7
Alignment explanation
Indices: 1610495--1610536 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
1610485 AAATATATAT
1610495 TAATAAA
1 TAATAAA
*
1610502 TAGT-AA
1 TAATAAA
1610508 TAATAAA
1 TAATAAA
1610515 TAAATAAA
1 T-AATAAA
1610523 TAATAAA
1 TAATAAA
1610530 TACATAA
1 TA-ATAA
1610537 GATGCAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
6 5 0.17
7 14 0.47
8 11 0.37
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (7 bp):
TAATAAA
Found at i:1610578 original size:13 final size:14
Alignment explanation
Indices: 1610560--1610590 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
1610550 ATATATATAT
1610560 AATATAAAATA-AA
1 AATATAAAATACAA
1610573 AATATAAAATACAA
1 AATATAAAATACAA
1610587 AATA
1 AATA
1610591 AAAGCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (14 bp):
AATATAAAATACAA
Found at i:1610583 original size:20 final size:20
Alignment explanation
Indices: 1610554--1610593 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1610544 AGGAAAATAT
* *
1610554 ATATATAATATAAAATAAAA
1 ATATAAAATACAAAATAAAA
1610574 ATATAAAATACAAAATAAAA
1 ATATAAAATACAAAATAAAA
1610594 GCAAAATTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (20 bp):
ATATAAAATACAAAATAAAA
Found at i:1610851 original size:43 final size:42
Alignment explanation
Indices: 1610782--1611216 Score: 455
Period size: 42 Copynumber: 10.1 Consensus size: 42
1610772 TTGATCAAAA
* * *
1610782 CTCCTCTAAGCAAAGGCTCAACGACTTTGAAAATGAATACA-GG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAA--AATAAATGG
* *
1610825 CTACTCTAATCAGAGGCTCAATGACTTTGGAAAATAAATAAA-GG
1 CTCCTCTAATCAGAGGCTCAACGACTTT-G-AAA-AAATAAATGG
* * * *
1610869 CTCATCTAATCGGAGGCTTAACGACTTTG-AAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT--GG
* * * *
1610912 CTCCTTTAATAAGAGGCTCAACAACTTTGGAAAAATAAATGG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGG
* * *
1610954 CTCCTCTAATCAGAGGTTCAATGACTTTTGAAAAAGTAAATGG
1 CTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAAATAAATGG
*
1610997 CTCCTCTAATCAGAGGCTTAACGACTTTGAAAAAATAAATGG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGG
*
1611039 CTCCTCTAATCAGAAGCTCAACGACTTTGAAAAAATAAATGG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGG
* * * * * *
1611081 CACATCTAATTAGAAGCTCAACAACTTTGAAAATGAAAAAATAAATGA
1 CTCCTCTAATCAGAGGCTCAACGAC-TT-----TGAAAAAATAAATGG
*
1611129 CTCCTCTAATCAAAGGCTCAACGACTTTGAAAAAATAAATGG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGG
* * * *
1611171 CTTCTCTAATTAAAGGCTCAACGACTTT-AAAAAGTAAATGG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGG
1611212 CTCCT
1 CTCCT
1611217 TGACAATCAT
Statistics
Matches: 331, Mismatches: 47, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
40 7 0.02
41 18 0.05
42 138 0.42
43 88 0.27
44 41 0.12
45 3 0.01
46 1 0.00
47 2 0.01
48 33 0.10
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (42 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGG
Found at i:1611012 original size:85 final size:84
Alignment explanation
Indices: 1610782--1611216 Score: 448
Period size: 85 Copynumber: 5.1 Consensus size: 84
1610772 TTGATCAAAA
* * * *
1610782 CTCCTCTAAGCAAAGGCTCAACGACTTTGAAAATGAATACA-GGCTACTCTAATCAGAGGCTCAA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAA--AATAAATGGCTCCTCTAATCAGAGGCTCAA
*
1610846 TGACTTTGG-AAAATAAATAAAGG
64 CGACTTTGGAAAAATAAAT---GG
* * * * * *
1610869 CTCATCTAATCGGAGGCTTAACGACTTTG-AAAAATAAATAAAGCTCCTTTAATAAGAGGCTCAA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAAT--GGCTCCTCTAATCAGAGGCTCAA
*
1610933 CAACTTTGGAAAAATAAATGG
64 CGACTTTGGAAAAATAAATGG
* * * *
1610954 CTCCTCTAATCAGAGGTTCAATGACTTTTGAAAAAGTAAATGGCTCCTCTAATCAGAGGCTTAAC
1 CTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAAC
*
1611019 GACTTTGAAAAAATAAATGG
65 GACTTTGGAAAAATAAATGG
* * * * * *
1611039 CTCCTCTAATCAGAAGCTCAACGACTTTGAAAAAATAAATGGCACATCTAATTAGAAGCTCAACA
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACG
*
1611104 ACTTTGAAAATGAAAAAATAAATGA
66 ACTTTG-----G-AAAAATAAATGG
* * * *
1611129 CTCCTCTAATCAAAGGCTCAACGACTTTGAAAAAATAAATGGCTTCTCTAATTAAAGGCTCAACG
1 CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACG
1611194 ACTTT--AAAAAGTAAATGG
66 ACTTTGGAAAAA-TAAATGG
1611212 CTCCT
1 CTCCT
1611217 TGACAATCAT
Statistics
Matches: 290, Mismatches: 45, Indels: 30
0.79 0.12 0.08
Matches are distributed among these distances:
82 5 0.02
83 11 0.04
84 44 0.15
85 82 0.28
86 7 0.02
87 59 0.20
88 9 0.03
90 73 0.25
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.26
Consensus pattern (84 bp):
CTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACG
ACTTTGGAAAAATAAATGG
Found at i:1612263 original size:14 final size:13
Alignment explanation
Indices: 1612205--1612266 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 13
1612195 TTCATTCACT
*
1612205 TTTTTTCCTTTT-
1 TTTTTTCATTTTC
1612217 TTCTTTTCATTTTC
1 TT-TTTTCATTTTC
1612231 TTCTTTTCATCATTT-
1 TT-TTTTCAT--TTTC
1612246 TTTTTTCATTTTC
1 TTTTTTCATTTTC
1612259 ATTTTTTC
1 -TTTTTTC
1612267 CCTTTTTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
12 5 0.12
13 9 0.21
14 24 0.56
15 2 0.05
16 3 0.07
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTTCATTTTC
Found at i:1612275 original size:28 final size:27
Alignment explanation
Indices: 1612205--1612281 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 27
1612195 TTCATTCACT
*
1612205 TTTTTTCCTTTTTTCTTTTCATTTTC-
1 TTTTTTCCTTTTTTTTTTTCATTTTCA
* *
1612231 TTCTTTTCATCATTTTTTTTTCATTTTCA
1 TT-TTTTCCT-TTTTTTTTTTCATTTTCA
*
1612260 TTTTTTCCCTTTTTTTATTTCA
1 TTTTTT-CCTTTTTTTTTTTCA
1612282 AGCATAGTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
26 2 0.05
27 6 0.15
28 29 0.71
29 4 0.10
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.73
Consensus pattern (27 bp):
TTTTTTCCTTTTTTTTTTTCATTTTCA
Found at i:1617181 original size:15 final size:15
Alignment explanation
Indices: 1617140--1617185 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
1617130 TATTTCAGGG
* *
1617140 TTTTCTATCTTTCTC
1 TTTTCTAGCCTTCTC
*
1617155 TTTCCTTAGCCTTCTC
1 TTTTC-TAGCCTTCTC
1617171 TTTTCTAGCCTTCTC
1 TTTTCTAGCCTTCTC
1617186 CAATATTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.07, C:0.33, G:0.04, T:0.57
Consensus pattern (15 bp):
TTTTCTAGCCTTCTC
Found at i:1622880 original size:58 final size:58
Alignment explanation
Indices: 1622689--1623022 Score: 399
Period size: 59 Copynumber: 5.7 Consensus size: 58
1622679 TTGTGCAAGA
* *
1622689 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTAGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA---TTTTTTGA-AAACTTTAATTTCGAGG
* * * ** *
1622751 AAAACTGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTT-AAAAATTT-ATCTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT--ATTTTTTGAAAACTTTAAT-TTCGAGG
* *
1622810 AAAATTGATACTTTTAACTTTTTCC-GAAAAATATTTTTTGAAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTGAAAACTTTAATTTCGAGG
* * * **
1622868 AAAATTGATACTTTCAACTTTTCCTCAAAACTTTTTTTTGAAAA-TTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTTAATTTCGAGG
*
1622925 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTGGAAACTTTTAATTTCGAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTGAAAAC-TTTAATTTCGAGG
1622984 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1623023 TTGAATTTTA
Statistics
Matches: 233, Mismatches: 28, Indels: 25
0.81 0.10 0.09
Matches are distributed among these distances:
57 56 0.24
58 58 0.25
59 76 0.33
60 7 0.03
61 6 0.03
62 30 0.13
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTTAATTTCGAGG
Found at i:1623002 original size:116 final size:115
Alignment explanation
Indices: 1622685--1623023 Score: 498
Period size: 115 Copynumber: 2.9 Consensus size: 115
1622675 ATTTTTGTGC
* *
1622685 AAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTAGAAACTTTAATTTCGAG
1 AAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATA----TTTTTTGGAAACTTTAATTTCGAG
* **
1622750 GAAAACTGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTAAAAATTTATCTTT
62 GAAAATTGATACTTTCAACTTTTCCTC-AAAA-CTTTTTTTTAAAAATTTATCTTT
* * *
1622806 AAGAAAAATTGATACTTTTAACTTTTTCCGAAAAATATTTTTTGAAAACTTTAATTTCGAGGAAA
1 AAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTAATTTCGAGGAAA
* *
1622871 ATTGATACTTTCAACTTTTCCTCAAAACTTTTTTTTGAAAATTTATTTTT
66 ATTGATACTTTCAACTTTTCCTCAAAACTTTTTTTTAAAAATTTATCTTT
*
1622921 AAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTTAATTTCGAGGAA
1 AAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAAC-TTTAATTTCGAGGAA
*
1622986 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
65 AATTGATACTTTCAACTTTTCCTCAAAACT-TTTTTTT
1623024 TGAATTTTAT
Statistics
Matches: 201, Mismatches: 15, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
115 64 0.32
116 48 0.24
117 55 0.27
121 34 0.17
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.43
Consensus pattern (115 bp):
AAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTAATTTCGAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAACTTTTTTTTAAAAATTTATCTTT
Found at i:1623030 original size:116 final size:115
Alignment explanation
Indices: 1622685--1623035 Score: 490
Period size: 117 Copynumber: 3.0 Consensus size: 115
1622675 ATTTTTGTGC
* *
1622685 AAGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTAGAAACTTTAATTTCGAG
1 AAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATA----TTTTTTGGAAACTTTAATTTCGAG
* *** *
1622750 GAAAACTGATACTTTCAACTTTTCCTCAAAAATCCCTTTTTTAAAAATTTATCTTT
62 GAAAATTGATACTTTCAACTTTTCCTCAAAAAT--CTTTTTTTTGAATTTATTTTT
* * *
1622806 AAGAAAAATTGATACTTTTAACTTTTTCCGAAAAATATTTTTTGAAAACTTTAATTTCGAGGAAA
1 AAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTAATTTCGAGGAAA
1622871 ATTGATACTTTCAACTTTTCCTC-AAAA-CTTTTTTTTGAAAATTTATTTTT
66 ATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTG--AATTTATTTTT
*
1622921 AAGGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTTAATTTCGAGGAA
1 AAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAAC-TTTAATTTCGAGGAA
*
1622986 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAATTTTATTT
65 AATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAA-TTTATTT
1623036 AAAAATAATA
Statistics
Matches: 209, Mismatches: 15, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
113 7 0.03
115 55 0.26
116 45 0.22
117 59 0.28
118 9 0.04
121 34 0.16
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.44
Consensus pattern (115 bp):
AAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTAATTTCGAGGAAA
ATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTGAATTTATTTTT
Found at i:1623949 original size:16 final size:17
Alignment explanation
Indices: 1623928--1623959 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1623918 TCTTCAGTCA
1623928 AAAAAATTAAA-AAAAT
1 AAAAAATTAAATAAAAT
1623944 AAAAAATTAAATAAAA
1 AAAAAATTAAATAAAA
1623960 AATATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAAAATTAAATAAAAT
Found at i:1623997 original size:18 final size:18
Alignment explanation
Indices: 1623982--1624094 Score: 62
Period size: 18 Copynumber: 6.3 Consensus size: 18
1623972 TAATTAAATG
1623982 AAAATAATCAGATAAACTAA
1 AAAATAAT-AGATAAACT-A
*
1624002 AAAATTAATAGATAAATTA
1 AAAA-TAATAGATAAACTA
*
1624021 AAAATAATA-ATAGA-TA
1 AAAATAATAGATAAACTA
* *
1624037 AATTATAATATATAAA-TA
1 AA-AATAATAGATAAACTA
1624055 GATAAATAATA-ATAAA-T-
1 -A-AAATAATAGATAAACTA
*
1624072 -ATATAACTAGATAAA-TA
1 AAAATAA-TAGATAAACTA
1624089 AAAATA
1 AAAATA
1624095 TATATATTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
14 5 0.06
15 2 0.03
16 10 0.13
17 10 0.13
18 21 0.27
19 12 0.16
20 13 0.17
21 4 0.05
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (18 bp):
AAAATAATAGATAAACTA
Found at i:1624016 original size:42 final size:42
Alignment explanation
Indices: 1623931--1624095 Score: 144
Period size: 43 Copynumber: 3.8 Consensus size: 42
1623921 TCAGTCAAAA
* *
1623931 AAATTAAAAA-AATAAAAAATTAAA-TAAAAAATATTAATAGAT
1 AAATTAAAAATAATAATAGA-TAAACT-AAAAATATTAATAGAT
1623973 -AATTAAATGAA-AATAATCAGATAAACTAAAAA-ATTAATAGAT
1 AAATTAAA--AATAATAAT-AGATAAACTAAAAATATTAATAGAT
* * *
1624015 AAATTAAAAATAATAATAGATAAATTATAATATATAAATAGAT
1 AAATTAAAAATAATAATAGATAAACTA-AAAATATTAATAGAT
1624058 AAATAATAATAAATATATAACTAGATAAA-TAAAAATAT
1 AAAT--TAA-AAATA-ATAA-TAGATAAACTAAAAATAT
1624096 ATATATTAAC
Statistics
Matches: 104, Mismatches: 6, Indels: 22
0.79 0.05 0.17
Matches are distributed among these distances:
41 18 0.17
42 19 0.18
43 36 0.35
44 3 0.03
45 3 0.03
46 11 0.11
47 6 0.06
48 8 0.08
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (42 bp):
AAATTAAAAATAATAATAGATAAACTAAAAATATTAATAGAT
Found at i:1624022 original size:25 final size:22
Alignment explanation
Indices: 1623936--1624092 Score: 78
Period size: 21 Copynumber: 7.1 Consensus size: 22
1623926 CAAAAAAATT
* *
1623936 AAAAAAATAAAAAATTAAA-TAA
1 AAAAAAATAATAGA-TAAATTAA
* *
1623958 AAAATATTAATAGAT-AATTAA
1 AAAAAAATAATAGATAAATTAA
** *
1623979 ATGAAAATAATCAGATAAACT--
1 AAAAAAATAAT-AGATAAATTAA
*
1624000 AAAAAATTAATAGATAAATT-A
1 AAAAAAATAATAGATAAATTAA
*
1624021 AAAATAATAATAGATAAATT-A
1 AAAAAAATAATAGATAAATTAA
* * *
1624042 TAATATATAAATAGATAAA-TAA
1 AAAAAAAT-AATAGATAAATTAA
1624064 TAATAAATATATAACTAGATAAA-TAA
1 -AA-AAA-A-ATAA-TAGATAAATTAA
1624090 AAA
1 AAA
1624093 TATATATATT
Statistics
Matches: 102, Mismatches: 22, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
20 10 0.10
21 43 0.42
22 25 0.25
23 4 0.04
24 3 0.03
25 4 0.04
26 13 0.13
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAAAAATAATAGATAAATTAA
Found at i:1624039 original size:14 final size:14
Alignment explanation
Indices: 1624022--1624094 Score: 56
Period size: 14 Copynumber: 4.8 Consensus size: 14
1624012 GATAAATTAA
1624022 AAATAATAATAGAT
1 AAATAATAATAGAT
* *
1624036 AAATTATAATATAT
1 AAATAATAATAGAT
*
1624050 AAATAGATAAATAATAAT
1 AAATA-AT-AAT-A-GAT
1624068 AAATATATAACTAGAT
1 AAATA-ATAA-TAGAT
*
1624084 AAATAAAAATA
1 AAATAATAATA
1624095 TATATATTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
14 18 0.38
15 5 0.11
16 10 0.21
17 4 0.09
18 10 0.21
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (14 bp):
AAATAATAATAGAT
Found at i:1624072 original size:26 final size:24
Alignment explanation
Indices: 1624008--1624098 Score: 106
Period size: 22 Copynumber: 4.0 Consensus size: 24
1623998 CTAAAAAATT
1624008 AATAGATAAATTAA-AAATA-AT-
1 AATAGATAAATTAATAAATATATA
1624029 AATAGATAAATT-AT-AATATATA
1 AATAGATAAATTAATAAATATATA
1624051 AATAGATAAATAATAATAAATATATA
1 AATAGATAAAT--TAATAAATATATA
*
1624077 ACTAGATAAA-TAA-AAATATATA
1 AATAGATAAATTAATAAATATATA
1624099 TATTAACAGA
Statistics
Matches: 62, Mismatches: 1, Indels: 13
0.82 0.01 0.17
Matches are distributed among these distances:
20 5 0.08
21 14 0.23
22 20 0.32
23 3 0.05
24 1 0.02
25 2 0.03
26 17 0.27
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (24 bp):
AATAGATAAATTAATAAATATATA
Found at i:1624099 original size:26 final size:26
Alignment explanation
Indices: 1624043--1624117 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 26
1624033 GATAAATTAT
* *
1624043 AATATATAAATAGATAAATAATAATA
1 AATATATAACTAGATAAATAAAAATA
1624069 AATATATAACTAGATAAATAAAAATA
1 AATATATAACTAGATAAATAAAAATA
* *
1624095 TATATATTAAC-AGA-AAAAAAAAA
1 AATATA-TAACTAGATAAATAAAAA
1624118 GGAAAAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 8 0.18
26 32 0.73
27 4 0.09
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.27
Consensus pattern (26 bp):
AATATATAACTAGATAAATAAAAATA
Found at i:1624224 original size:7 final size:7
Alignment explanation
Indices: 1624214--1624251 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
1624204 ATATATATAT
*
1624214 AATATAA
1 AATACAA
1624221 AATA-AA
1 AATACAA
*
1624227 AATAAAA
1 AATACAA
1624234 AATACAA
1 AATACAA
1624241 AATACAA
1 AATACAA
1624248 AATA
1 AATA
1624252 AAAGCAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (7 bp):
AATACAA
Found at i:1624242 original size:20 final size:21
Alignment explanation
Indices: 1624214--1624254 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1624204 ATATATATAT
*
1624214 AATATAAAATA-AAAATAAAA
1 AATACAAAATACAAAATAAAA
1624234 AATACAAAATACAAAATAAAA
1 AATACAAAATACAAAATAAAA
1624255 GCAAAATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (21 bp):
AATACAAAATACAAAATAAAA
Found at i:1624244 original size:14 final size:13
Alignment explanation
Indices: 1624214--1624254 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
1624204 ATATATATAT
*
1624214 AATATAAAATAAA
1 AATAAAAAATAAA
1624227 AATAAAAAATACAA
1 AATAAAAAATA-AA
*
1624241 AATACAAAATAAA
1 AATAAAAAATAAA
1624254 A
1 A
1624255 GCAAAATTGG
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:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (13 bp):
AATAAAAAATAAA
Found at i:1628852 original size:12 final size:12
Alignment explanation
Indices: 1628831--1628876 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
1628821 TATCACAAAT
*
1628831 TTTTACTATATA
1 TTTTATTATATA
1628843 TTTTATTATATA
1 TTTTATTATATA
1628855 TTTT-TTAT-TAA
1 TTTTATTATAT-A
1628866 TTATTATTATA
1 TT-TTATTATA
1628877 AAACAATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 1 0.03
11 7 0.24
12 17 0.59
13 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTATTATATA
Found at i:1629956 original size:16 final size:16
Alignment explanation
Indices: 1629935--1630004 Score: 95
Period size: 16 Copynumber: 4.3 Consensus size: 16
1629925 CCATCCCCTT
*
1629935 TTTTTTGTATTTTGTA
1 TTTTTTGTATTTTATA
1629951 TTTTTTTGTATTTTATA
1 -TTTTTTGTATTTTATA
*
1629968 TTTTTGGTATTTTATA
1 TTTTTTGTATTTTATA
* *
1629984 TTTTTTGTATTATGTA
1 TTTTTTGTATTTTATA
1630000 TTTTT
1 TTTTT
1630005 GTTTAATTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
16 33 0.69
17 15 0.31
ACGTcount: A:0.16, C:0.00, G:0.10, T:0.74
Consensus pattern (16 bp):
TTTTTTGTATTTTATA
Found at i:1630127 original size:28 final size:29
Alignment explanation
Indices: 1630104--1630171 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
1630094 GGGCCCAGTC
*
1630104 GAATTGAAATCTGG-CCTGAAGCCCAATT
1 GAATTGAAATCGGGCCCTGAAGCCCAATT
* *
1630132 GAATTAAAATCGGGCCCTGAAGCCTAATT
1 GAATTGAAATCGGGCCCTGAAGCCCAATT
1630161 GAATTGAAATC
1 GAATTGAAATC
1630172 AGGTCTTGAC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
28 12 0.34
29 23 0.66
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (29 bp):
GAATTGAAATCGGGCCCTGAAGCCCAATT
Found at i:1636020 original size:32 final size:32
Alignment explanation
Indices: 1635983--1636051 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
1635973 TAAAGACCAT
*
1635983 GGTCTATGGATAAAATTTTCTCAATTAATTGC
1 GGTCTATGGATAAAATTTACTCAATTAATTGC
*
1636015 GGTCTATGGATGAAATTTACTCAATTAATTGC
1 GGTCTATGGATAAAATTTACTCAATTAATTGC
1636047 GGTCT
1 GGTCT
1636052 TGTTGTGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (32 bp):
GGTCTATGGATAAAATTTACTCAATTAATTGC
Found at i:1637522 original size:3 final size:3
Alignment explanation
Indices: 1637514--1637543 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1637504 TGTTGGCCTA
1637514 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
1637544 AAAGTGCCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
GTG
Found at i:1639622 original size:17 final size:17
Alignment explanation
Indices: 1639588--1639628 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
1639578 ATAATAGTAC
*
1639588 TTTTTT-ATTATATTAA
1 TTTTTTAATTATATGAA
*
1639604 TTTTTTAATTTTATGAA
1 TTTTTTAATTATATGAA
1639621 TTTTTTAA
1 TTTTTTAA
1639629 AATGTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTTTAATTATATGAA
Found at i:1652945 original size:30 final size:30
Alignment explanation
Indices: 1652906--1652992 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
1652896 AATAATCTTC
* *
1652906 TAATCTTTAATTTACACTCAAATAAGCCAT
1 TAATTTTTAATTTATACTCAAATAAGCCAT
* * *
1652936 TAATTTTTAATTTATATTCAAATAAACCTT
1 TAATTTTTAATTTATACTCAAATAAGCCAT
*
1652966 TAACTTTTAATTTATAC-CTAAATAAGC
1 TAATTTTTAATTTATACTC-AAATAAGC
1652993 TTTGATATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 1 0.02
30 47 0.98
ACGTcount: A:0.40, C:0.15, G:0.02, T:0.43
Consensus pattern (30 bp):
TAATTTTTAATTTATACTCAAATAAGCCAT
Found at i:1660510 original size:28 final size:28
Alignment explanation
Indices: 1660470--1660527 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
1660460 AAAAAAGGAG
1660470 ATAGTTTTCTTTCTAACCCTTCAATTTT
1 ATAGTTTTCTTTCTAACCCTTCAATTTT
1660498 ATAGTTTTCTTTCTAACCCTTCAATTTT
1 ATAGTTTTCTTTCTAACCCTTCAATTTT
1660526 AT
1 AT
1660528 TTCCTCCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.22, C:0.21, G:0.03, T:0.53
Consensus pattern (28 bp):
ATAGTTTTCTTTCTAACCCTTCAATTTT
Found at i:1675441 original size:19 final size:18
Alignment explanation
Indices: 1675419--1675457 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
1675409 ATGGATTCGG
* *
1675419 ATTTAAATAATTATATTAA
1 ATTTAAACAAATAT-TTAA
1675438 ATTTAAACAAATATTTAA
1 ATTTAAACAAATATTTAA
1675456 AT
1 AT
1675458 AGATTCGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTAAACAAATATTTAA
Found at i:1675855 original size:2 final size:2
Alignment explanation
Indices: 1675850--1675881 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1675840 CCAACTTCAC
1675850 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1675882 GGCAATTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1679175 original size:19 final size:17
Alignment explanation
Indices: 1679139--1679177 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
1679129 GAATTAAACT
1679139 TTAAATTTAAACAAAAA
1 TTAAATTTAAACAAAAA
*
1679156 TTAAAGTTTAATATAAAAA
1 TTAAA-TTTAA-ACAAAAA
1679175 TTA
1 TTA
1679178 TTGAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
TTAAATTTAAACAAAAA
Found at i:1681652 original size:13 final size:13
Alignment explanation
Indices: 1681630--1681667 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1681620 TCAATAAAAT
1681630 TATT-ATTTAATA
1 TATTAATTTAATA
* *
1681642 TTTTAATTTAAAA
1 TATTAATTTAATA
1681655 TATTAATTTAATA
1 TATTAATTTAATA
1681668 AAAATATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 3 0.14
13 18 0.86
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTAATTTAATA
Found at i:1681730 original size:17 final size:16
Alignment explanation
Indices: 1681697--1681735 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
1681687 TAATTAAAAT
1681697 ATAAT-TTATATTAAA
1 ATAATATTATATTAAA
*
1681712 ATAATATTATTTTATAA
1 ATAATATTATATTA-AA
1681729 ATAATAT
1 ATAATAT
1681736 ATTAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 7 0.33
17 9 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATAATATTATATTAAA
Found at i:1686848 original size:58 final size:54
Alignment explanation
Indices: 1686720--1686861 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 54
1686710 TGTTCTAAGG
*
1686720 AAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAATAAAAAAACATTTTTAGA
1 AAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAAATAAAAAAACATTTTTAGA
* * * *
1686774 AAAAGTTTAAAGTATCAATTTTTTTTAAAAATAAAATTTCTAAAAGATATTTTTGAGA
1 AAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAAA--T-AAAAAAACATTTTT-AGA
* *
1686832 AAAAGTTGAAAATATCAATTTTTCTTAAAA
1 AAAAGTTGAAAGTATCAATTTTTTTTAAAA
1686862 GAAATTTTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
54 34 0.45
56 1 0.01
57 11 0.14
58 30 0.39
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (54 bp):
AAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAAATAAAAAAACATTTTTAGA
Found at i:1686871 original size:18 final size:18
Alignment explanation
Indices: 1686850--1686888 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1686840 AAAATATCAA
1686850 TTTTTCTTAAAAGAA-ATT
1 TTTTTCTTAAAA-AATATT
*
1686868 TTTTTTTTAAAAAATATT
1 TTTTTCTTAAAAAATATT
1686886 TTT
1 TTT
1686889 AAAGGAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTTTCTTAAAAAATATT
Found at i:1686981 original size:52 final size:50
Alignment explanation
Indices: 1686876--1686981 Score: 122
Period size: 52 Copynumber: 2.1 Consensus size: 50
1686866 TTTTTTTTTT
** * * *
1686876 AAAAAATATTTTTAAAGGAAAGTTGATTGTATTAATTTCCTTTAAACACA
1 AAAAAATATTTTTAAAGGAAAGTTGAAAGTATAAATTTCCTTGAAAAACA
* * *
1686926 AAAAAATATTTTTTTAAGGGAAAGTTGAAAGTATAAATTTTCTTGAAAAATA
1 AAAAAATA--TTTTTAAAGGAAAGTTGAAAGTATAAATTTCCTTGAAAAACA
1686978 AAAA
1 AAAA
1686982 GTTAAAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 8 0.17
52 38 0.83
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (50 bp):
AAAAAATATTTTTAAAGGAAAGTTGAAAGTATAAATTTCCTTGAAAAACA
Found at i:1689494 original size:28 final size:28
Alignment explanation
Indices: 1689436--1689494 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
1689426 TTGTTATTTT
* * *
1689436 TATATAATTTTTGTTTTTAATTTTTACA
1 TATATAATTTTTATTTTAAATTTATACA
*
1689464 TATATAATTTTTATTTTAAATTTATATA
1 TATATAATTTTTATTTTAAATTTATACA
1689492 TAT
1 TAT
1689495 GTGAATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (28 bp):
TATATAATTTTTATTTTAAATTTATACA
Found at i:1690909 original size:12 final size:13
Alignment explanation
Indices: 1690885--1690922 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
1690875 ATTTTTTATC
1690885 AAAAAT-TTATTTT
1 AAAAATATT-TTTT
1690898 AAAAATATTTTTT
1 AAAAATATTTTTT
*
1690911 AAAAATCTTTTT
1 AAAAATATTTTT
1690923 ATCTATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 21 0.91
14 2 0.09
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
AAAAATATTTTTT
Found at i:1692240 original size:18 final size:18
Alignment explanation
Indices: 1692213--1692311 Score: 76
Period size: 18 Copynumber: 5.5 Consensus size: 18
1692203 AGAACCTGAA
*
1692213 AACTTGGAGCAGAATGTG
1 AACTTGGAGCAGAATCTG
* * *
1692231 AACCTGGAGCACAACCTG
1 AACTTGGAGCAGAATCTG
* *
1692249 AATTTGGAGCAGAATCCG
1 AACTTGGAGCAGAATCTG
* * *
1692267 AACCTGGAGTACGACT-TG
1 AACTTGGAGCA-GAATCTG
*
1692285 AACTTGGAGCACAA-CGTG
1 AACTTGGAGCAGAATC-TG
1692303 AACTTGGAG
1 AACTTGGAG
1692312 GAAAATCCAG
Statistics
Matches: 60, Mismatches: 18, Indels: 6
0.71 0.21 0.07
Matches are distributed among these distances:
17 1 0.02
18 56 0.93
19 3 0.05
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.19
Consensus pattern (18 bp):
AACTTGGAGCAGAATCTG
Found at i:1692259 original size:36 final size:36
Alignment explanation
Indices: 1692213--1692311 Score: 117
Period size: 36 Copynumber: 2.8 Consensus size: 36
1692203 AGAACCTGAA
1692213 AACTTGGAGCAGAATGTGAACCTGGAGCACAACCTG
1 AACTTGGAGCAGAATGTGAACCTGGAGCACAACCTG
* ** * * *
1692249 AATTTGGAGCAGAATCCGAACCTGGAGTACGACTTG
1 AACTTGGAGCAGAATGTGAACCTGGAGCACAACCTG
* * *
1692285 AACTTGGAGCACAACGTGAACTTGGAG
1 AACTTGGAGCAGAATGTGAACCTGGAG
1692312 GAAAATCCAG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.19
Consensus pattern (36 bp):
AACTTGGAGCAGAATGTGAACCTGGAGCACAACCTG
Found at i:1697936 original size:27 final size:26
Alignment explanation
Indices: 1697890--1697947 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
1697880 AAAATAAAAA
1697890 AATATTATTTAATTTAATTTAATTTAT
1 AATATTATTTAATTTAATTTAA-TTAT
* *
1697917 AATATTATTTTATCTT-ATTTTATTAT
1 AATATTATTTAAT-TTAATTTAATTAT
1697943 AATAT
1 AATAT
1697948 AATGTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 9 0.32
27 17 0.61
28 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
AATATTATTTAATTTAATTTAATTAT
Found at i:1698665 original size:3 final size:3
Alignment explanation
Indices: 1698652--1698696 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
1698642 TTCAACTCAA
1698652 AAG AGAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1698697 AAAATCAAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1702023 original size:22 final size:22
Alignment explanation
Indices: 1701983--1702025 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1701973 TACTATATTT
*
1701983 ACTTTTAAATATGATCTTTTTA
1 ACTTTTAAATATAATCTTTTTA
1702005 ACTTTTAAAT-TAATACTTTTT
1 ACTTTTAAATATAAT-CTTTTT
1702026 TTTTCAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (22 bp):
ACTTTTAAATATAATCTTTTTA
Found at i:1706944 original size:2 final size:2
Alignment explanation
Indices: 1706937--1706961 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1706927 GTAAATTCCA
1706937 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
1706962 TTCGTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1725339 original size:2 final size:2
Alignment explanation
Indices: 1725332--1725369 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1725322 GTCAGCTGCA
1725332 AT AT AT 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 AT AT AT
1725370 TGAGTTGAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1729492 original size:15 final size:14
Alignment explanation
Indices: 1729445--1729490 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
1729435 AACAAAAATA
1729445 AAATAATTTAATTT
1 AAATAATTTAATTT
* *
1729459 AATTAATTTGATATT
1 AAATAATTTAAT-TT
*
1729474 AAATAATTCAATTT
1 AAATAATTTAATTT
1729488 AAA
1 AAA
1729491 ATTAACCGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (14 bp):
AAATAATTTAATTT
Found at i:1731304 original size:17 final size:17
Alignment explanation
Indices: 1731278--1731311 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1731268 AATAAAAAAA
1731278 AATATGTTAAACATATT
1 AATATGTTAAACATATT
* *
1731295 AATATTTTAAATATATT
1 AATATGTTAAACATATT
1731312 TTTAAATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
AATATGTTAAACATATT
Found at i:1731688 original size:14 final size:13
Alignment explanation
Indices: 1731650--1731691 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1731640 AGTAATAAGT
1731650 AAAT-AAAAATTA
1 AAATAAAAAATTA
1731662 AAATAAAAAATTA
1 AAATAAAAAATTA
* *
1731675 AAACTAATAGATTA
1 AAA-TAAAAAATTA
1731689 AAA
1 AAA
1731692 AATTTCATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 4 0.15
13 11 0.42
14 11 0.42
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (13 bp):
AAATAAAAAATTA
Found at i:1731781 original size:14 final size:15
Alignment explanation
Indices: 1731749--1731782 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1731739 AAATTTTGAT
1731749 ATATTTATTAAATAA
1 ATATTTATTAAATAA
*
1731764 ATATTTTTTAAA-AA
1 ATATTTATTAAATAA
1731778 ATATT
1 ATATT
1731783 AACAGAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTTATTAAATAA
Found at i:1732603 original size:16 final size:17
Alignment explanation
Indices: 1732574--1732622 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
1732564 AAAATATATA
*
1732574 ATATAATATATATTTTTT
1 ATATTATAT-TATTTTTT
1732592 AT-TTATATTATTATTTTT
1 ATATTATATTA-T-TTTTT
1732610 ATATTATATTATT
1 ATATTATATTATT
1732623 ATACCGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
16 2 0.07
17 7 0.26
18 10 0.37
19 8 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTATATTATTTTTT
Found at i:1732608 original size:19 final size:20
Alignment explanation
Indices: 1732570--1732624 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
1732560 ATAAAAAATA
* *
1732570 TATAATATAATATATATTTTT
1 TATATTATATTAT-TATTTTT
1732591 TAT-TTATATTATTA-TTTT
1 TATATTATATTATTATTTTT
1732609 TATATTATATTATTAT
1 TATATTATATTATTAT
1732625 ACCGTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 7 0.23
19 13 0.43
20 7 0.23
21 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TATATTATATTATTATTTTT
Found at i:1733463 original size:20 final size:17
Alignment explanation
Indices: 1733427--1733467 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 17
1733417 TATTTTATTT
1733427 TATAAAAATTTAAAATA
1 TATAAAAATTTAAAATA
1733444 TATAAAAATTAATAAAAATA
1 TATAAAAATT--T-AAAATA
1733464 TATA
1 TATA
1733468 TTTTAATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.48
19 1 0.05
20 10 0.48
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TATAAAAATTTAAAATA
Found at i:1733558 original size:11 final size:11
Alignment explanation
Indices: 1733504--1733563 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
1733494 TTTTTTACAT
1733504 TTTAATTTGAAA
1 TTTAATTT-AAA
* *
1733516 TTTAATTCAAT
1 TTTAATTTAAA
* *
1733527 TTTAATATATA
1 TTTAATTTAAA
1733538 TTTAATATTTAAA
1 TTT-A-ATTTAAA
1733551 TTTAATTTAAA
1 TTTAATTTAAA
1733562 TT
1 TT
1733564 AAATAAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
11 21 0.55
12 9 0.24
13 8 0.21
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:1734208 original size:15 final size:17
Alignment explanation
Indices: 1734188--1734220 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
1734178 ATACTAGAGT
1734188 TTGAATTT-TA-TTAAA
1 TTGAATTTATAGTTAAA
1734203 TTGAATTTATAGTTAAA
1 TTGAATTTATAGTTAAA
1734220 T
1 T
1734221 AATTATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (17 bp):
TTGAATTTATAGTTAAA
Found at i:1734245 original size:13 final size:13
Alignment explanation
Indices: 1734229--1734254 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1734219 ATAATTATTC
1734229 ATAATAAAAAAAA
1 ATAATAAAAAAAA
1734242 ATAATAAAAAAAA
1 ATAATAAAAAAAA
1734255 TCGATTATTT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAATAAAAAAAA
Found at i:1735267 original size:2 final size:2
Alignment explanation
Indices: 1735262--1735289 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1735252 TTTGAGAAGA
1735262 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1735290 CTGGATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:1742411 original size:27 final size:26
Alignment explanation
Indices: 1742351--1742409 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
1742341 AGGTTATTGC
*
1742351 TATTTTCCTTAATGCATTTAGTTTTT
1 TATTTTTCTTAATGCATTTAGTTTTT
1742377 TATTTTTCTTAATGCATTTAGTTTTT
1 TATTTTTCTTAATGCATTTAGTTTTT
*
1742403 TTTTTTT
1 TATTTTT
1742410 TCATAATTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.17, C:0.08, G:0.07, T:0.68
Consensus pattern (26 bp):
TATTTTTCTTAATGCATTTAGTTTTT
Found at i:1742416 original size:27 final size:26
Alignment explanation
Indices: 1742351--1742416 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
1742341 AGGTTATTGC
* *
1742351 TATTTTCCTTAATGCATTTAGTTTTT
1 TATTTTTCATAATGCATTTAGTTTTT
*
1742377 TATTTTTCTTAATGCATTTAGTTTTTT
1 TATTTTTCATAATGCATTTAG-TTTTT
*
1742404 TTTTTTTCATAAT
1 TATTTTTCATAAT
1742417 TGATGAACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
26 20 0.56
27 16 0.44
ACGTcount: A:0.20, C:0.09, G:0.06, T:0.65
Consensus pattern (26 bp):
TATTTTTCATAATGCATTTAGTTTTT
Found at i:1767320 original size:50 final size:50
Alignment explanation
Indices: 1767238--1767344 Score: 169
Period size: 50 Copynumber: 2.1 Consensus size: 50
1767228 AACACATAGC
* *
1767238 AGTTGTGCATTTAGTCTTGAAATTACTTATTGTTCAAAGCCTTTTAATTA
1 AGTTGTGCATTTAGTCTTGAAATTACTGATTGTTCAAAGCCTCTTAATTA
* * *
1767288 AGTTGTGCTTTTAGTCTTGAAATTAGTGATTGTTCAAAGCCTCTTACTTA
1 AGTTGTGCATTTAGTCTTGAAATTACTGATTGTTCAAAGCCTCTTAATTA
1767338 AGTTGTG
1 AGTTGTG
1767345 GTTCCCAGGC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.45
Consensus pattern (50 bp):
AGTTGTGCATTTAGTCTTGAAATTACTGATTGTTCAAAGCCTCTTAATTA
Found at i:1790838 original size:2 final size:2
Alignment explanation
Indices: 1790831--1790858 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1790821 ATTGCATTAC
1790831 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
1790859 TAATGAGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1793652 original size:31 final size:31
Alignment explanation
Indices: 1793592--1793651 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
1793582 ACTAATAATT
*
1793592 TATATATTTATAATATATTTTATACAAAAAG
1 TATATATTTATAATATATATTATACAAAAAG
*
1793623 TATATA-TTATAATTTATATTA-ACATAAAA
1 TATATATTTATAATATATATTATACA-AAAA
1793652 ATATGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 17 0.65
31 6 0.23
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (31 bp):
TATATATTTATAATATATATTATACAAAAAG
Found at i:1796607 original size:2 final size:2
Alignment explanation
Indices: 1796600--1796630 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1796590 TGAGAATCAA
1796600 AT AT 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 AT AT A
1796631 AGTTTAGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1796766 original size:2 final size:2
Alignment explanation
Indices: 1796759--1796795 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1796749 AAACCAAAAA
1796759 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1796796 ATATATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1796800 original size:2 final size:2
Alignment explanation
Indices: 1796795--1796823 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1796785 TCTCTCTCTC
1796795 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1796824 CCAAATGTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1801944 original size:27 final size:28
Alignment explanation
Indices: 1801907--1801961 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
1801897 CTTATAAATT
*
1801907 ATTTAAATTTAATTCGAATAAAATTTAA
1 ATTTAAATTTAATTAGAATAAAATTTAA
**
1801935 ATTT-AATTTAATTATTATAAAATTTAA
1 ATTTAAATTTAATTAGAATAAAATTTAA
1801962 TTCTAGTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (28 bp):
ATTTAAATTTAATTAGAATAAAATTTAA
Found at i:1802138 original size:16 final size:16
Alignment explanation
Indices: 1802106--1802139 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1802096 TTTTATATAT
*
1802106 ATATATATATATATGA
1 ATATATATAAATATGA
*
1802122 ATATATATAAATTTGA
1 ATATATATAAATATGA
1802138 AT
1 AT
1802140 TCAAACTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
ATATATATAAATATGA
Found at i:1802415 original size:24 final size:24
Alignment explanation
Indices: 1802387--1802433 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1802377 CAAATAAAAA
* *
1802387 AATGTTTATATTTAATATATTATC
1 AATGTATAAATTTAATATATTATC
*
1802411 AATGTATAAATTTTATATATTAT
1 AATGTATAAATTTAATATATTAT
1802434 TAATAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
AATGTATAAATTTAATATATTATC
Found at i:1803112 original size:36 final size:37
Alignment explanation
Indices: 1803065--1803138 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 37
1803055 ATGCAAGTAA
1803065 CTAGGGCAAAATACTAAGGTTC-ATTAACAATGTCAG
1 CTAGGGCAAAATACTAAGGTTCAATTAACAATGTCAG
1803101 CTAGGGCAAAATACTAAGGTTCATAATTAACAATGTCA
1 CTAGGGCAAAATACTAAGGTTC--AATTAACAATGTCA
1803139 TCACGTGAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
36 22 0.63
39 13 0.37
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.26
Consensus pattern (37 bp):
CTAGGGCAAAATACTAAGGTTCAATTAACAATGTCAG
Found at i:1803858 original size:14 final size:15
Alignment explanation
Indices: 1803834--1803862 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1803824 TGCTGAAAAA
1803834 TTAAGTATTAAATTT
1 TTAAGTATTAAATTT
1803849 TTAA-TATTAAATTT
1 TTAAGTATTAAATTT
1803863 GATAAGTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTAAGTATTAAATTT
Found at i:1805022 original size:60 final size:60
Alignment explanation
Indices: 1804830--1805371 Score: 453
Period size: 60 Copynumber: 9.2 Consensus size: 60
1804820 TCTTAAAGCA
* * **
1804830 TTTTAAAATTTTTATTTTC-AAGAAAAATTGATACTTTTAA-TTTTTCCTCAAAAAT-GCTT
1 TTTTGAAATTTTTATTTTCAAAG-AAAATTGATACTTTCAACTTTTT-CTCAAAAATATTTT
* * * * *
1804889 TTTTGAAAATTTTATTTT-TAAGAAAAATTGATACTTTTAA-TTTTTC-CTTAAAATGTTTTT
1 TTTTGAAATTTTTATTTTCAAAG-AAAATTGATACTTTCAACTTTTTCTC-AAAAAT-ATTTT
*
1804949 CTTTTGAAA-TTTTATTTTCAAAGAAAATTGGTACTTTCAACTTTTTCTCAAAAATATTTT
1 -TTTTGAAATTTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTT
* * * * *
1805009 TTTTGAAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAATTT
1 TTTTGAAATTTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTTCTC-AAAAATATTTT
* *
1805070 TTTTG-AATTTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTTCT-TAAAATGTTTTT
1 TTTTGAAATTTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAAT-ATTTT
* * * *
1805129 CTTTTGAAATTTTTATTTTCAAAGAAAATTGATACTTTTAACTTTTCCTTAAAAA-A---A
1 -TTTTGAAATTTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTT
* * * * * *
1805186 TTTTGAGATTTTTTATTTTTAAGGAAAATTGATACTTTCAAATTTTTCT-GAAAGTA--TT
1 TTTTGA-AATTTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTT
* * * * * *
1805244 TTTTAAAAATTTTATTCTAAAAAAAAATTGATACTTTCAA-TTTTTCCTTAAAATATATATTT
1 TTTTGAAATTTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTT-CTCAAAA-ATAT-TTT
* * * * * * *
1805306 TTTT-AAA-TTTGATCTTCAAAAAAAATTAATACTTTTAACTTTTTCT--TAAA-ATGTT
1 TTTTGAAATTTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTT
1805361 TTTTGAAATTT
1 TTTTGAAATTT
1805372 GTACTTTTAC
Statistics
Matches: 403, Mismatches: 54, Indels: 54
0.79 0.11 0.11
Matches are distributed among these distances:
55 6 0.01
56 19 0.05
57 71 0.18
58 20 0.05
59 55 0.14
60 137 0.34
61 84 0.21
62 11 0.03
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (60 bp):
TTTTGAAATTTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTT
Found at i:1805036 original size:120 final size:118
Alignment explanation
Indices: 1804830--1805380 Score: 528
Period size: 120 Copynumber: 4.7 Consensus size: 118
1804820 TCTTAAAGCA
* * **
1804830 TTTTAAAATTTTTATTTTC-AAGAAAAATTGATACTTTTAA-TTTTTCCTCAAAAAT-GCTTTTT
1 TTTTGAAA-TTTTATTTTCAAAG-AAAATTGATACTTTCAACTTTTT-CT-AAAAATATTTTTTT
* * * * ***
1804892 TGAAAATTTTATTTTTAAGAAAAATTGATACTTTTAATTTTTCCTTAAAATGTTTTT
62 TGAAATTTTTATTTTTAAAAAAAATTGATACTTTCAACTTTTCCTTAAAATAAATTT
*
1804949 CTTTTGAAATTTTATTTTCAAAGAAAATTGGTACTTTCAACTTTTTCTCAAAAATATTTTTTTTG
1 -TTTTGAAATTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTTCT-AAAAATATTTTTTTTG
** * *
1805014 AAATTTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAATTT
64 AAATTTTTATTTTTAAAAAAAATTGATACTTTCAACTTTTCCT-TAAAATAAATTT
* * *
1805070 TTTTGAATTTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTTCTTAAAATGTTTTTCTTTTG
1 TTTTGAAATTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTTCTAAAAAT-ATTTT-TTTTG
* * *
1805135 AAATTTTTATTTTCAAAGAAAATTGATACTTTTAACTTTTCCTTAAAA-AAA-TT
64 AAATTTTTATTTTTAAAAAAAATTGATACTTTCAACTTTTCCTTAAAATAAATTT
** ** * * * * * *
1805188 TTGAGATTTTTTATTTTTAAGGAAAATTGATACTTTCAAATTTTTCTGAAAGTA--TTTTTTAAA
1 TTTTGAAATTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTTCTAAAAATATTTTTTTTGAA
* * * *
1805251 AATTTTATTCTAAAAAAAAATTGATACTTTCAATTTTTCCTTAAAATATATATTT
66 ATTTTTATTTTTAAAAAAAATTGATACTTTCAACTTTTCCTTAAAATA-A-ATTT
* * * * * * *
1805306 TTTT-AAATTTGATCTTCAAAAAAAATTAATACTTTTAACTTTTTCT-TAAA-ATGTTTTTTGAA
1 TTTTGAAATTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTTCTAAAAATATTTTTTTTGAA
* *
1805368 ATTTGTACTTTTA
66 ATTTTTATTTTTA
1805381 CTTTTTGTTC
Statistics
Matches: 361, Mismatches: 58, Indels: 27
0.81 0.13 0.06
Matches are distributed among these distances:
114 46 0.13
115 4 0.01
116 3 0.01
117 49 0.14
118 51 0.14
119 42 0.12
120 114 0.32
121 52 0.14
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (118 bp):
TTTTGAAATTTTATTTTCAAAGAAAATTGATACTTTCAACTTTTTCTAAAAATATTTTTTTTGAA
ATTTTTATTTTTAAAAAAAATTGATACTTTCAACTTTTCCTTAAAATAAATTT
Found at i:1808515 original size:16 final size:16
Alignment explanation
Indices: 1808491--1808523 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1808481 TAATTTTTTT
1808491 ACAAAAAAATAAATTA
1 ACAAAAAAATAAATTA
*
1808507 ACAATAAAATAAATTA
1 ACAAAAAAATAAATTA
1808523 A
1 A
1808524 ATTTTAAATC
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:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (16 bp):
ACAAAAAAATAAATTA
Found at i:1810200 original size:114 final size:108
Alignment explanation
Indices: 1810080--1810294 Score: 304
Period size: 114 Copynumber: 1.9 Consensus size: 108
1810070 TATAATATAA
* *
1810080 TTTTTTTCTTTTATTATGAATTTAATAGATTGATTTTATTTTCTAATTCAAATATTTTTTTAACA
1 TTTTTTTCTTTTATTATGAATTTAATAGACTGACTTTATTTTCTAATTCAAA-ATTTTTTT-ACA
* *
1810145 TAATTTATATTATAAAAATCAATTTACCTATCAATGAATATAAAAATTT
64 T-ATTT-TA-TATAAAAATAAATTT-CCTATCAATAAATATAAAAATTT
* * *
1810194 TTTTTTTCTTTTATTATGAATTTAATGGACTGGCTTTATTTTCTAATTCAAAATTTTTTTATATA
1 TTTTTTTCTTTTATTATGAATTTAATAGACTGACTTTATTTTCTAATTCAAAATTTTTTTACATA
*
1810259 TTTTATATAAAAATAAATTTTCTATCAATAAATATA
66 TTTTATATAAAAATAAATTTCCTATCAATAAATATA
1810295 TTTATTAATT
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
108 14 0.15
109 14 0.15
110 2 0.02
111 4 0.04
112 3 0.03
113 8 0.09
114 48 0.52
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (108 bp):
TTTTTTTCTTTTATTATGAATTTAATAGACTGACTTTATTTTCTAATTCAAAATTTTTTTACATA
TTTTATATAAAAATAAATTTCCTATCAATAAATATAAAAATTT
Found at i:1810297 original size:19 final size:17
Alignment explanation
Indices: 1810254--1810297 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
1810244 AAATTTTTTT
1810254 ATATATTTTATATAAAA
1 ATATATTTTATATAAAA
* *
1810271 ATAAATTTTCTATCAATAA
1 ATATATTTTATAT-AA-AA
1810290 ATATATTT
1 ATATATTT
1810298 ATTAATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 11 0.50
18 2 0.09
19 9 0.41
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATATTTTATATAAAA
Found at i:1810344 original size:24 final size:27
Alignment explanation
Indices: 1810285--1810346 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 27
1810275 ATTTTCTATC
*
1810285 AATAAATATATTTATTAATTTAATAATTT
1 AATAAATAT-TTTATTAA-TTAATAATTA
1810314 AAT-AATATTTTATT-A-TAATAA-TA
1 AATAAATATTTTATTAATTAATAATTA
1810337 AATAAATATT
1 AATAAATATT
1810347 ATTAATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 4 0.13
24 12 0.39
26 1 0.03
27 6 0.19
28 5 0.16
29 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
AATAAATATTTTATTAATTAATAATTA
Found at i:1817999 original size:2 final size:2
Alignment explanation
Indices: 1817987--1818035 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
1817977 AGAAGTAGAG
* * *
1817987 AT AT AT TT AT AT AT AT AT AT AT AA AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1818029 AT AT AT A
1 AT AT AT A
1818036 ATACAAAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1819093 original size:20 final size:21
Alignment explanation
Indices: 1819068--1819106 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1819058 ATAAATCATA
1819068 TTCAGGGA-TTCAACCTAAAC
1 TTCAGGGATTTCAACCTAAAC
1819088 TTCAGGGATTTCAACCTAA
1 TTCAGGGATTTCAACCTAA
1819107 GCTGCACCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (21 bp):
TTCAGGGATTTCAACCTAAAC
Found at i:1820109 original size:21 final size:21
Alignment explanation
Indices: 1820083--1820122 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1820073 TTTTTATACT
*
1820083 ATGCATGCTTGAGAACTTACC
1 ATGCATACTTGAGAACTTACC
1820104 ATGCATACTTGAGAACTTA
1 ATGCATACTTGAGAACTTA
1820123 ATCTATTCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGCATACTTGAGAACTTACC
Found at i:1821939 original size:18 final size:18
Alignment explanation
Indices: 1821916--1821951 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1821906 TGAGCCATTC
*
1821916 GAACTATCTTAATGGTGT
1 GAACTATCTTAATAGTGT
1821934 GAACTATCTTAATAGTGT
1 GAACTATCTTAATAGTGT
1821952 TCGAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (18 bp):
GAACTATCTTAATAGTGT
Found at i:1822180 original size:117 final size:117
Alignment explanation
Indices: 1821933--1822684 Score: 526
Period size: 117 Copynumber: 6.2 Consensus size: 117
1821923 CTTAATGGTG
* * * * *
1821933 TGAACTATCTTAATAGTGTTCGAATGAAATTAAAATCATAAATATTAGGTATGAA-AATAGATAT
1 TGAATTATCTTAATGGTGTTCGAATGAAATTAAAATAATAAATGTTAGGTA-GAAGAATAGAGAT
* * * *
1821997 TAATGGACAATGGTTATCCTTATAAGGGTCT-AGTCTTGAATTCTCGAGCCATT
65 TAATGGACAATGGTTATCCTTATAAAGCTTTCA-TCTTGAATTCTCAAGCCATT
* * * *
1822050 TAAATCATTTTAATGGTGTTCTAATGAAATTAAAATAATAAATGTTAGGTAGAAGAATAGAGATT
1 TGAATTATCTTAATGGTGTTCGAATGAAATTAAAATAATAAATGTTAGGTAGAAGAATAGAGATT
* ** * * *
1822115 AATGGACAATAGTTATCCTT-TCAGGGTTTTCATCTCGAATTCTCAAGCCACT
66 AATGGACAATGGTTATCCTTAT-AAAGCTTTCATCTTGAATTCTCAAGCCATT
* * **
1822167 TGAATTGTCTTAATGGTGTGAACTGTCTTAATGATGTTCGAAGAA-AATTAAAATCATAAATGTT
1 TGAATTATCTTAAT-G-GTG---T-TC-GAATGAAATT--AA-AATAA-T--A------AATGTT
* * * * * *
1822231 AGGTAGGAGAATAGAGATTAATGGACAACGGTTAACTTTATAAAACTTTCATTTTGAATTCTCAA
47 AGGTAGAAGAATAGAGATTAATGGACAATGGTTATCCTTATAAAGCTTTCATCTTGAATTCTCAA
1822296 GCCATT
112 GCCATT
** * * * * *
1822302 TGAGCTATCGTAATAGTGCTCGAATAAAATTAAAATCATAAATGTTAGGTA-AGAGAATAGAGAT
1 TGAATTATCTTAATGGTGTTCGAATGAAATTAAAATAATAAATGTTAGGTAGA-AGAATAGAGAT
* * * ** *
1822366 TAATGGACAATGGTTATCTTTATAGAGCTTTCATCTCGAATT-TTGAGCTATT
65 TAATGGACAATGGTTATCCTTATAAAGCTTTCATCTTGAATTCTCAAGCCATT
* * ***
1822418 TGAATTGTCTTAATGGTGTGAACTGTCTTAATGGTGTTTAAAGGAAATTAAATAAATGTTAGGTA
1 TGAATTATCTTAAT-G-GTG---T-TC-GAAT-GAAATT--A--AAA-T-AATAAATGTTAGGTA
* * * * * * * *
1822483 GGAGAACAGAGATTAATGGATAATGGTTATACTTATAAAACTTTCATTTTTAATTCTCAAACCAT
52 GAAGAATAGAGATTAATGGACAATGGTTATCCTTATAAAGCTTTCATCTTGAATTCTCAAGCCAT
1822548 T
117 T
* * * * * * *
1822549 TGAATTGTCTTAATGTTGTTCGAAAGAAATTAAAATCATAAATATTAGTTAGGAGAATAGAGATT
1 TGAATTATCTTAATGGTGTTCGAATGAAATTAAAATAATAAATGTTAGGTAGAAGAATAGAGATT
** *
1822614 AATTTACAGTGGTTATCCTTATAAAGCTTTCATCTTGAATTCTCAAGCCATT
66 AATGGACAATGGTTATCCTTATAAAGCTTTCATCTTGAATTCTCAAGCCATT
* *
1822666 TGAACTATCTTACTGGTGT
1 TGAATTATCTTAATGGTGT
1822685 GAACTATCTT
Statistics
Matches: 490, Mismatches: 104, Indels: 82
0.72 0.15 0.12
Matches are distributed among these distances:
116 21 0.04
117 244 0.50
118 6 0.01
119 6 0.01
121 1 0.00
122 3 0.01
123 9 0.02
124 12 0.02
125 5 0.01
126 9 0.02
127 3 0.01
128 9 0.02
129 6 0.01
130 59 0.12
131 20 0.04
133 3 0.01
135 73 0.15
136 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (117 bp):
TGAATTATCTTAATGGTGTTCGAATGAAATTAAAATAATAAATGTTAGGTAGAAGAATAGAGATT
AATGGACAATGGTTATCCTTATAAAGCTTTCATCTTGAATTCTCAAGCCATT
Found at i:1822335 original size:252 final size:251
Alignment explanation
Indices: 1821887--1823315 Score: 1141
Period size: 252 Copynumber: 5.7 Consensus size: 251
1821877 ACATTTATAA
* * ** * * *
1821887 AGCTTTCATCTTGAATTATTGAGCCATTCGAACTATCTTAATGGTGTGAACTATCTTAAT-AGTG
1 AGCTTTCATCTCGAATTCTCAAGCCATTTGAATTGTCTTAATGGTGTGAACTATCTTAATGA-TG
* * * * *
1821951 TTCGAATGAAATTAAAATCATAAATATTAGGTATGAAAATAGATATTAATGGACAATGGTTATCC
65 TTCGAATGAAATTAAAATCATAAATATTAGGTAGGAGAATAGAGATTAATGGACAATGGTTAACT
*** * * * * * * *
1822016 TTATAAGGGTCT-AGTCTTGAATTCTCGAGCCATTT-AAATCATTTTAATGGTGTTCTAATGAAA
130 TTATAAAACTTTCA-TTTTGAATTCTCAAGCCATTTGAACT-ATCTTAATGGTGTTCGAATAAAA
* *
1822079 TTAAAATAATAAATGTTAGGTAGAAGAATAGAGATTAATGGACAATAGTTATCCTTTCAG
193 TTAAAATCATAAATGTTAGGTAGAAGAATAGAGATTAATGGACAATGGTTATCCTTT-AG
* * * *
1822139 GGTTTTCATCTCGAATTCTCAAGCCACTTGAATTGTCTTAATGGTGTGAACTGTCTTAATGATGT
1 AGCTTTCATCTCGAATTCTCAAGCCATTTGAATTGTCTTAATGGTGTGAACTATCTTAATGATGT
* *
1822204 TCGAA-GAAAATTAAAATCATAAATGTTAGGTAGGAGAATAGAGATTAATGGACAACGGTTAACT
66 TCGAATG-AAATTAAAATCATAAATATTAGGTAGGAGAATAGAGATTAATGGACAATGGTTAACT
* * * *
1822268 TTATAAAACTTTCATTTTGAATTCTCAAGCCATTTGAGCTATCGTAATAGTGCTCGAATAAAATT
130 TTATAAAACTTTCATTTTGAATTCTCAAGCCATTTGAACTATCTTAATGGTGTTCGAATAAAATT
*
1822333 AAAATCATAAATGTTAGGTA-AGAGAATAGAGATTAATGGACAATGGTTATCTTTATAG
195 AAAATCATAAATGTTAGGTAGA-AGAATAGAGATTAATGGACAATGGTTATCCTT-TAG
** * * *
1822391 AGCTTTCATCTCGAATT-TTGAGCTATTTGAATTGTCTTAATGGTGTGAACTGTCTTAATGGTGT
1 AGCTTTCATCTCGAATTCTCAAGCCATTTGAATTGTCTTAATGGTGTGAACTATCTTAATGATGT
** * * * *
1822455 TTAAAGGAAATT--AA--ATAAATGTTAGGTAGGAGAACAGAGATTAATGGATAATGGTTATAC-
66 TCGAATGAAATTAAAATCATAAATATTAGGTAGGAGAATAGAGATTAATGGACAATGGTTA-ACT
* * * * *
1822515 TTATAAAACTTTCATTTTTAATTCTCAAACCATTTGAATTGTCTTAATGTTGTTCGAA-AGAAAT
130 TTATAAAACTTTCATTTTGAATTCTCAAGCCATTTGAACTATCTTAATGGTGTTCGAATA-AAAT
* * * ** * *
1822579 TAAAATCATAAATATTAGTTAGGAGAATAGAGATTAATTTACAGTGGTTATCCTTATAA
194 TAAAATCATAAATGTTAGGTAGAAGAATAGAGATTAATGGACAATGGTTATCCTT-TAG
* * * * * *
1822638 AGCTTTCATCTTGAATTCTCAAGCCATTTGAACTATCTTACTGGTGTGAACTATCTTAATGTTAT
1 AGCTTTCATCTCGAATTCTCAAGCCATTTGAATTGTCTTAATGGTGTGAACTATCTTAATGATGT
* * * * *
1822703 TTGAATGAAATTAAAATCATAAATATTAAGTA--AGAATAGATATTAATGGACAATAGTTATCTT
66 TCGAATGAAATTAAAATCATAAATATTAGGTAGGAGAATAGAGATTAATGGACAATGGTTAACTT
*** * * * * * * *
1822766 TATAGGGCTTTTATATTGAATTCTTAAGCCATTTTAACTATTTTAATGGTGTTCAAACAAAATTA
131 TATAAAACTTTCATTTTGAATTCTCAAGCCATTTGAACTATCTTAATGGTGTTCGAATAAAATTA
* * *
1822831 AAATCATAAATGTTAGGT-GCAAGAATAAAGATTAATGGACAATGGTTCTCCTTAAAG
196 AAATCATAAATGTTAGGTAG-AAGAATAGAGATTAATGGACAATGGTTATCCTT-TAG
* * * * *
1822888 GGCTCTAATCTTG-ATT-T-----C---TCAA--G-C-T-AT--T-TGAACTATCTTAATGATGT
1 AGCTTTCATCTCGAATTCTCAAGCCATTTGAATTGTCTTAATGGTGTGAACTATCTTAATGATGT
** ** * * * *
1822935 TTTAATGAAATTAAAATCATAAATATTACATAAGAGAATAGGGATTAATGGACAATAGTTATCTT
66 TCGAATGAAATTAAAATCATAAATATTAGGTAGGAGAATAGAGATTAATGGACAATGGTTAACTT
* ** *
1823000 TAT--AGCGTTTTTTTCTTGAATTCTTAAGCCTTAAAACTATCTTAATGGTGTGAACTATCTTAA
131 TATAAAAC-TTTCATT-TTGAATTC-T----C---AAGC---C---AT--T-TGAACTATCTTAA
* * *
1823063 TGGTGTTCGAA-AGAAATTAAAATCATAAATGTTAGGTTGGAGAATAGAGATTAATGGACAATAG
177 TGGTGTTCGAATA-AAATTAAAATCATAAATGTTAGGTAGAAGAATAGAGATTAATGGACAATGG
1823127 TTATCCTTATAG
241 TTATCCTT-TAG
* ** * * * * * * *
1823139 AGCTTTCATATTAAATTTTCAATCCATTTTAACTGTCTTAATGGTGTGAACTGTCTTAATGGTAT
1 AGCTTTCATCTCGAATTCTCAAGCCATTTGAATTGTCTTAATGGTGTGAACTATCTTAATGATGT
* * * * * * * *
1823204 TTGAAAGAAATTAAAATCATAAATGTTATGTA-AATGAATAAAGATTAATGGACAATGGTTATCC
66 TCGAATGAAATTAAAATCATAAATATTAGGTAGGA-GAATAGAGATTAATGGACAATGGTTAACT
* * * * ** * *
1823268 TTATAAAGCTTTTATCTTGAATTTTTTAGCCATTTGAATTGTCTTAAT
130 TTATAAAACTTTCATTTTGAATTCTCAAGCCATTTGAACTATCTTAAT
1823316 TGTTGAAAAT
Statistics
Matches: 955, Mismatches: 160, Indels: 124
0.77 0.13 0.10
Matches are distributed among these distances:
232 48 0.05
233 6 0.01
234 40 0.04
235 2 0.00
236 1 0.00
237 1 0.00
240 3 0.00
242 3 0.00
243 1 0.00
245 1 0.00
246 1 0.00
247 159 0.17
248 53 0.06
249 7 0.01
250 132 0.14
251 138 0.14
252 248 0.26
253 7 0.01
255 2 0.00
258 2 0.00
261 5 0.01
263 1 0.00
264 1 0.00
265 1 0.00
266 2 0.00
268 3 0.00
269 79 0.08
270 5 0.01
271 3 0.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.37
Consensus pattern (251 bp):
AGCTTTCATCTCGAATTCTCAAGCCATTTGAATTGTCTTAATGGTGTGAACTATCTTAATGATGT
TCGAATGAAATTAAAATCATAAATATTAGGTAGGAGAATAGAGATTAATGGACAATGGTTAACTT
TATAAAACTTTCATTTTGAATTCTCAAGCCATTTGAACTATCTTAATGGTGTTCGAATAAAATTA
AAATCATAAATGTTAGGTAGAAGAATAGAGATTAATGGACAATGGTTATCCTTTAG
Found at i:1822444 original size:18 final size:18
Alignment explanation
Indices: 1822418--1822454 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1822408 TTGAGCTATT
*
1822418 TGAATTGTCTTAATGGTG
1 TGAACTGTCTTAATGGTG
1822436 TGAACTGTCTTAATGGTG
1 TGAACTGTCTTAATGGTG
1822454 T
1 T
1822455 TTAAAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.08, G:0.27, T:0.43
Consensus pattern (18 bp):
TGAACTGTCTTAATGGTG
Found at i:1823017 original size:117 final size:113
Alignment explanation
Indices: 1822684--1823046 Score: 375
Period size: 117 Copynumber: 3.1 Consensus size: 113
1822674 CTTACTGGTG
* * * *
1822684 TGAACTATCTTAATGTTATTTGAATGAAATTAAAATCATAAATATTAAGTAAGAATAGATATTAA
1 TGAACTATCTTAATGATGTTTAAATGAAATTAAAATCATAAATATTAA-TAAGAATAGAGATTAA
*
1822749 TGGACAATAGTTATCTTTATAGGGCTTTTATATTGAATTCTTAAGCCATT
65 TGGACAATAGTTATCTTTATAGGGCTTTTATCTTGAATTCTTAAG-CATT
* * * * ** * * *
1822799 TTAACTATTTTAATGGTGTTCAAACAAAATTAAAATCATAAATGTTAGGTGCAAGAATAAAGATT
1 TGAACTATCTTAATGATGTTTAAATGAAATTAAAATCATAAATATTA-AT--AAGAATAGAGATT
* * * * * * * *
1822864 AATGGACAATGGTTCTCCTTAAAGGGCTCTAATCTTGATTTCTCAAGCTATT
63 AATGGACAATAGTTATCTTTATAGGGCTTTTATCTTGAATTCTTAAGC-ATT
* *
1822916 TGAACTATCTTAATGATGTTTTAATGAAATTAAAATCATAAATATTACATAAGAGAATAGGGATT
1 TGAACTATCTTAATGATGTTTAAATGAAATTAAAATCATAAATATTA-AT-A-AGAATAGAGATT
* * * *
1822981 AATGGACAATAGTTATCTTTATAGCGTTTTTTTCTTGAATTCTTAAGCCTT
63 AATGGACAATAGTTATCTTTATAGGGCTTTTATCTTGAATTCTTAAGCATT
**
1823032 AAAACTATCTTAATG
1 TGAACTATCTTAATG
1823047 GTGTGAACTA
Statistics
Matches: 195, Mismatches: 48, Indels: 9
0.77 0.19 0.04
Matches are distributed among these distances:
115 39 0.20
116 17 0.09
117 139 0.71
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (113 bp):
TGAACTATCTTAATGATGTTTAAATGAAATTAAAATCATAAATATTAATAAGAATAGAGATTAAT
GGACAATAGTTATCTTTATAGGGCTTTTATCTTGAATTCTTAAGCATT
Found at i:1823055 original size:18 final size:18
Alignment explanation
Indices: 1823034--1823068 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1823024 TAAGCCTTAA
1823034 AACTATCTTAATGGTGTG
1 AACTATCTTAATGGTGTG
1823052 AACTATCTTAATGGTGT
1 AACTATCTTAATGGTGT
1823069 TCGAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (18 bp):
AACTATCTTAATGGTGTG
Found at i:1823226 original size:135 final size:134
Alignment explanation
Indices: 1822916--1823315 Score: 471
Period size: 135 Copynumber: 3.0 Consensus size: 134
1822906 TCAAGCTATT
* * * * * * *
1822916 TGAACTATCTTAATGATGTTTTAATGAAATTAAAATCATAAATATTACATAAGAGAATAGGGATT
1 TGAACTATCTTAATGGTGTTTGAAAGAAATTAAAATCATAAATGTTACGTTAGAGAATAGAGATT
* * * * * *
1822981 AATGGACAATAGTTATCTTTATAGCGTTTTTTTCTTGAATTCTTAAGCC-TTAAAACTATCTTAA
66 AATGGACAATAGTTATCCTTATAGAGCTTTTATCTTGAATT-TTAAGCCATTTAAACTGTCTTAA
1823045 TGGTG
130 TGGTG
* * *
1823050 TGAACTATCTTAATGGTGTTCGAAAGAAATTAAAATCATAAATGTTAGGTTGGAGAATAGAGATT
1 TGAACTATCTTAATGGTGTTTGAAAGAAATTAAAATCATAAATGTTACGTTAGAGAATAGAGATT
* * * * *
1823115 AATGGACAATAGTTATCCTTATAGAGCTTTCATATTAAATTTTCAATCCATTTTAACTGTCTTAA
66 AATGGACAATAGTTATCCTTATAGAGCTTTTATCTTGAATTTT-AAGCCATTTAAACTGTCTTAA
1823180 TGGTG
130 TGGTG
* * * * *
1823185 TGAACTGTCTTAATGGTATTTGAAAGAAATTAAAATCATAAATGTTATG-TAAATGAATAAAGAT
1 TGAACTATCTTAATGGTGTTTGAAAGAAATTAAAATCATAAATGTTACGTTAGA-GAATAGAGAT
* * * * *
1823249 TAATGGACAATGGTTATCCTTATAAAGCTTTTATCTTGAATTTTTTAGCCATTTGAATTGTCTTA
65 TAATGGACAATAGTTATCCTTATAGAGCTTTTATCTTGAA-TTTTAAGCCATTTAAACTGTCTTA
1823314 AT
129 AT
1823316 TGTTGAAAAT
Statistics
Matches: 225, Mismatches: 37, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
133 2 0.01
134 95 0.42
135 124 0.55
136 4 0.02
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (134 bp):
TGAACTATCTTAATGGTGTTTGAAAGAAATTAAAATCATAAATGTTACGTTAGAGAATAGAGATT
AATGGACAATAGTTATCCTTATAGAGCTTTTATCTTGAATTTTAAGCCATTTAAACTGTCTTAAT
GGTG
Found at i:1824957 original size:103 final size:103
Alignment explanation
Indices: 1824767--1825311 Score: 459
Period size: 103 Copynumber: 5.0 Consensus size: 103
1824757 CTAGCATTAA
* * * *
1824767 TGATGTTTGAAGAAAATTAAAATCATAAATGTTAGGTAGAAGAATAAAGATTAATGGGCAATAGT
1 TGATGTTTGAAGGAAATTAAAATCATAAATGTTAGGTAGGAGAATAGAGATTAATGGACAAT-GT
* *
1824832 TATCTTTATAGAG-TTATCATCTTGAATTCTTGAGTCATT
65 TATCCTTATAAAGCTT-TCATCTTGAATTCTTGAGTCATT
* *
1824871 TGA-GTTTGAATGAAATTAAAATAATAAATGTTAGGTAGGAGAATAGAGATTAATGGACAATGTT
1 TGATGTTTGAAGGAAATTAAAATCATAAATGTTAGGTAGGAGAATAGAGATTAATGGACAATG-T
*
1824935 TATCCTTATAAAGCTTTTATCTTGAATTCTTGAGCCATTTTAACTATCT
65 TATCCTTATAAAGCTTTCATCTTGAATTCTTGAG------T--C-AT-T
* * * *** * *
1824984 TAATGGTGTTCAAAGGAAATTAAAATCATAAATATTACAAATGAGAATAGAGATTAATAGACAAT
1 TGAT-GT-TT-GAAGGAAATTAAAATCATAAATGTTAGGTAGGAGAATAGAGATTAATGGACAAT
* *
1825049 AGTTATCCTTATAAAGCTTTCATCTTAAATTTTTAAGCCATTTGAATTGT-TTT
63 -GTTATCCTTATAAAGCTTTCATCTTGAA---TT----C--TTG-A--GTCATT
* * *
1825102 AATGATGTTTGAAGGAAATTAAAATCATAAATGTTAGGTAGGAGAATAAAGATTGATGGGCAATG
1 --TGATGTTTGAAGGAAATTAAAATCATAAATGTTAGGTAGGAGAATAGAGATTAATGGACAAT-
* * * *
1825167 GTTATCCTTATAGAGCTGTCATCTTGAATTTTTGAGCCATT
63 GTTATCCTTATAAAGCTTTCATCTTGAATTCTTGAGTCATT
* ** * **
1825208 TGA-GTTCGAATAAAATTAAAATCATAAATGTTAGATAAAAGAATAGAGATTAATGGACAATGGT
1 TGATGTTTGAAGGAAATTAAAATCATAAATGTTAGGTAGGAGAATAGAGATTAATGGACAAT-GT
* *
1825272 TATCCTTATAAAGCTTTCATCTTGAATTCTCGAGCCATT
65 TATCCTTATAAAGCTTTCATCTTGAATTCTTGAGTCATT
1825311 T
1 T
1825312 TAACTTTCTT
Statistics
Matches: 356, Mismatches: 53, Indels: 65
0.75 0.11 0.14
Matches are distributed among these distances:
102 1 0.00
103 169 0.47
104 8 0.02
105 1 0.00
106 2 0.01
107 1 0.00
108 3 0.01
109 1 0.00
111 1 0.00
112 2 0.01
113 3 0.01
114 2 0.01
115 2 0.01
116 2 0.01
117 139 0.39
118 4 0.01
119 3 0.01
120 5 0.01
123 1 0.00
124 1 0.00
126 3 0.01
127 1 0.00
129 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (103 bp):
TGATGTTTGAAGGAAATTAAAATCATAAATGTTAGGTAGGAGAATAGAGATTAATGGACAATGTT
ATCCTTATAAAGCTTTCATCTTGAATTCTTGAGTCATT
Found at i:1825088 original size:117 final size:114
Alignment explanation
Indices: 1824882--1825329 Score: 470
Period size: 117 Copynumber: 4.0 Consensus size: 114
1824872 GAGTTTGAAT
* ** *
1824882 GAAATTAAAATAATAAATGTTAGGTAGGAGAATAGAGATTAATGGACAATGTTTATCCTTATAAA
1 GAAATTAAAATCATAAATGTTAGAAAGGAGAATAGAGATTAATGGACAATGGTTATCCTTATAAA
*
1824947 GCTTTTATCTTGAATTCTTGAGCCATTTTAACTATCTTAATGGTGTTCAAAG
66 GCTTTCATCTTGAATTCTTGAGCCATTTTAACT-TCTTAATGGTGTT--AAG
* * * * *
1824999 GAAATTAAAATCATAAATATTACAAATGAGAATAGAGATTAATAGACAATAGTTATCCTTATAAA
1 GAAATTAAAATCATAAATGTTAGAAAGGAGAATAGAGATTAATGGACAATGGTTATCCTTATAAA
* * * * * * *
1825064 GCTTTCATCTTAAATTTTTAAGCCATTTGAATTGTTTTAATGATGTTTGAAG
66 GCTTTCATCTTGAATTCTTGAGCCATTTTAACT-TCTTAATGGTG-TT-AAG
** * * * *
1825116 GAAATTAAAATCATAAATGTTAGGTAGGAGAATAAAGATTGATGGGCAATGGTTATCCTTATAGA
1 GAAATTAAAATCATAAATGTTAGAAAGGAGAATAGAGATTAATGGACAATGGTTATCCTTATAAA
* * * * *
1825181 GCTGTCATCTTGAATTTTTGAGCCA-TTTGAGTTC-GAA------T-A-
66 GCTTTCATCTTGAATTCTTGAGCCATTTTAACTTCTTAATGGTGTTAAG
*
1825220 -AAATTAAAATCATAAATGTTAGATAA-AAGAATAGAGATTAATGGACAATGGTTATCCTTATAA
1 GAAATTAAAATCATAAATGTTAGA-AAGGAGAATAGAGATTAATGGACAATGGTTATCCTTATAA
*
1825283 AGCTTTCATCTTGAATTCTCGAGCCATTTTAACTTTCTTAATGGTGT
65 AGCTTTCATCTTGAATTCTTGAGCCATTTTAAC-TTCTTAATGGTGT
1825330 GAATTGTCTT
Statistics
Matches: 269, Mismatches: 51, Indels: 27
0.78 0.15 0.08
Matches are distributed among these distances:
103 77 0.29
104 5 0.02
105 4 0.01
106 2 0.01
107 1 0.00
114 2 0.01
115 1 0.00
116 4 0.01
117 171 0.64
118 2 0.01
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (114 bp):
GAAATTAAAATCATAAATGTTAGAAAGGAGAATAGAGATTAATGGACAATGGTTATCCTTATAAA
GCTTTCATCTTGAATTCTTGAGCCATTTTAACTTCTTAATGGTGTTAAG
Found at i:1825575 original size:103 final size:103
Alignment explanation
Indices: 1825452--1825654 Score: 316
Period size: 103 Copynumber: 2.0 Consensus size: 103
1825442 CTTAATGACA
* * ***
1825452 TTCGAAGGAAATTAAAATCATAAATGTTAGGTAGGAGAATAGAGATTAATGGGCAATGGTTATCC
1 TTCGAAGGAAATTAAAATCATAAATGTTAAGTAGGAGAATAAAGATTAATAAACAATGGTTATCC
* *
1825517 TTATAGAGCTGTCATCTTGAATTCTTGAGTCATTTGAG
66 TTACAGAGCTGTCATCTTGAATTCTCGAGTCATTTGAG
*
1825555 TTCGAATGAAATTAAAATCATAAATGTTAAGTAGGAGAATAAAGATTAATAAACAATGGTTATCC
1 TTCGAAGGAAATTAAAATCATAAATGTTAAGTAGGAGAATAAAGATTAATAAACAATGGTTATCC
* *
1825620 TTACAGAGCTTTTATCTTGAATTCTCGAGTCATTT
66 TTACAGAGCTGTCATCTTGAATTCTCGAGTCATTT
1825655 TAATTGTCTT
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
103 90 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.34
Consensus pattern (103 bp):
TTCGAAGGAAATTAAAATCATAAATGTTAAGTAGGAGAATAAAGATTAATAAACAATGGTTATCC
TTACAGAGCTGTCATCTTGAATTCTCGAGTCATTTGAG
Found at i:1825796 original size:135 final size:135
Alignment explanation
Indices: 1825554--1825803 Score: 365
Period size: 135 Copynumber: 1.9 Consensus size: 135
1825544 AGTCATTTGA
* * * *
1825554 GTTCGAATGAAATTAAAATCATAAATGTTAAGTAGGAGAATAAAGATTAATAAACAATGGTTATC
1 GTTCGAAGGAAATTAAAATCATAAATGTTAACTAAGAGAATAAAGATTAATAAACAATGGTTACC
* * *
1825619 CTTACAGAGCTTTTATCTTGAATTCTCGAGTCATTTTAATTGTCTTAATGGTGTGAACTGTCTTA
66 CTTACAGAGCTTTCATCTTGAATTCTCGAGCCATTTGAATTGTCTTAATGGTGTGAACTGTCTTA
1825684 ATGGT
131 ATGGT
* * **
1825689 GTTCGAAGGAAATTAAAATCATAAATGTTACCTAAGAGAATAGAGATTAATGGACAATGGTTACC
1 GTTCGAAGGAAATTAAAATCATAAATGTTAACTAAGAGAATAAAGATTAATAAACAATGGTTACC
* * **
1825754 CTTATAGAGCTTTCATCTTGAATTTTTTAGCCATTTGAATTGTCTTAATG
66 CTTACAGAGCTTTCATCTTGAATTCTCGAGCCATTTGAATTGTCTTAATG
1825804 ACATTCGAAG
Statistics
Matches: 100, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
135 100 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (135 bp):
GTTCGAAGGAAATTAAAATCATAAATGTTAACTAAGAGAATAAAGATTAATAAACAATGGTTACC
CTTACAGAGCTTTCATCTTGAATTCTCGAGCCATTTGAATTGTCTTAATGGTGTGAACTGTCTTA
ATGGT
Found at i:1825887 original size:117 final size:114
Alignment explanation
Indices: 1825672--1826023 Score: 447
Period size: 117 Copynumber: 3.1 Consensus size: 114
1825662 CTTAATGGTG
** *
1825672 TGAACTGTCTTAATGGTGTTCGAAGGAAATTAAAATCATAAATGTTACCTAAGAGAATAGAGATT
1 TGAACTGTCTTAA---TGTTCGAAGGAAATTAAAATCATAAATGTTAAGTAGGAGAATAGAGATT
* * **
1825737 AATGGACAATGGTTACCCTTATAGAGCTTTCATCTTGAATTTTTTAGCCATT
63 AATGGACAATGGTTATCCTTATAGAGCTTTCATCTTGAATTCTCAAGCCATT
*
1825789 TGAATTGTCTTAATGACATTCGAAGGAAATTAAAATCATAAATGTTAAGTAGGAGAATAGAGATT
1 TGAACTGTCTTAATG---TTCGAAGGAAATTAAAATCATAAATGTTAAGTAGGAGAATAGAGATT
* * *
1825854 AATGGGCAATGGTTATCCTTATAGAGCTGTCATCTTGAATTCTCGAGCCA-T
63 AATGGACAATGGTTATCCTTATAGAGCTTTCATCTTGAATTCTCAAGCCATT
*
1825905 T----TG-----A-GTTCGAATGAAATTAAAATCATAAATGTTAAGTAGGAGAATAGAGATTAAT
1 TGAACTGTCTTAATGTTCGAAGGAAATTAAAATCATAAATGTTAAGTAGGAGAATAGAGATTAAT
*
1825960 GAACAATGGTTATCCTTATAGAGCTTTCATCTTGAATTCTCAAGCCATT
66 GGACAATGGTTATCCTTATAGAGCTTTCATCTTGAATTCTCAAGCCATT
*
1826009 TTAACTGTCTTAATG
1 TGAACTGTCTTAATG
1826024 GTGTGAACTG
Statistics
Matches: 206, Mismatches: 15, Indels: 31
0.82 0.06 0.12
Matches are distributed among these distances:
103 92 0.45
104 2 0.01
106 1 0.00
107 1 0.00
108 2 0.01
112 2 0.01
113 1 0.00
114 3 0.01
116 2 0.01
117 100 0.49
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.34
Consensus pattern (114 bp):
TGAACTGTCTTAATGTTCGAAGGAAATTAAAATCATAAATGTTAAGTAGGAGAATAGAGATTAAT
GGACAATGGTTATCCTTATAGAGCTTTCATCTTGAATTCTCAAGCCATT
Found at i:1825923 original size:355 final size:354
Alignment explanation
Indices: 1824976--1826144 Score: 1853
Period size: 355 Copynumber: 3.3 Consensus size: 354
1824966 GAGCCATTTT
* * * *
1824976 AACTATCTTAATGGTGTTCAAAGGAAATTAAAATCATAAATATTACAAATGAGAATAGAGATTAA
1 AACTGTCTTAATGGTGTTCGAAGGAAATTAAAATCATAAATGTTACTAA-GAGAATAGAGATTAA
* * * * * *
1825041 TAGACAATAGTTATCCTTATAAAGCTTTCATCTTAAATTTTTAAGCCATTTGAATTGTTTTAATG
65 TGGACAATGGTTATCCTTATAGAGCTTTCATCTTGAATTTTTTAGCCATTTGAATTGTCTTAATG
** * * *
1825106 ATGTTTGAAGGAAATTAAAATCATAAATGTTAGGTAGGAGAATAAAGATTGATGGGCAATGGTTA
130 ACATTCGAAGGAAATTAAAATCATAAATGTTAGGTAGGAGAATAGAGATTAATGGGCAATGGTTA
* *
1825171 TCCTTATAGAGCTGTCATCTTGAATTTTTGAGCCATTTGAGTTCGAATAAAATTAAAATCATAAA
195 TCCTTATAGAGCTGTCATCTTGAATTCTTGAGCCATTTGAGTTCGAATGAAATTAAAATCATAAA
** * *
1825236 TGTT-AGATAAAAGAATAGAGATTAATGGACAATGGTTATCCTTATAAAGCTTTCATCTTGAATT
260 TGTTAAG-TAGGAGAATAGAGATTAATGAACAATGGTTATCCTTATAGAGCTTTCATCTTGAATT
1825300 CTCGAGCCATTTTAACTT-TCTTAATGGTGTG
324 CTCGAGCCATTTTAA-TTGTCTTAATGGTGTG
* *
1825331 AATTGTCTTAATGGTGTTCGAAGGAAATTAAGATCATAAATGTTACGTAAGAGAATA-A-A-T-A
1 AACTGTCTTAATGGTGTTCGAAGGAAATTAAAATCATAAATGTTAC-TAAGAGAATAGAGATTAA
* *
1825392 T-G---A---TTATCATTATAGAGCTTTCATCTTGAA-TTTTGAGCCATTTGAATTGTCTTAATG
65 TGGACAATGGTTATCCTTATAGAGCTTTCATCTTGAATTTTTTAGCCATTTGAATTGTCTTAATG
1825449 ACATTCGAAGGAAATTAAAATCATAAATGTTAGGTAGGAGAATAGAGATTAATGGGCAATGGTTA
130 ACATTCGAAGGAAATTAAAATCATAAATGTTAGGTAGGAGAATAGAGATTAATGGGCAATGGTTA
*
1825514 TCCTTATAGAGCTGTCATCTTGAATTCTTGAGTCATTTGAGTTCGAATGAAATTAAAATCATAAA
195 TCCTTATAGAGCTGTCATCTTGAATTCTTGAGCCATTTGAGTTCGAATGAAATTAAAATCATAAA
* * * *
1825579 TGTTAAGTAGGAGAATAAAGATTAATAAACAATGGTTATCCTTACAGAGCTTTTATCTTGAATTC
260 TGTTAAGTAGGAGAATAGAGATTAATGAACAATGGTTATCCTTATAGAGCTTTCATCTTGAATTC
*
1825644 TCGAGTCATTTTAATTGTCTTAATGGTGTG
325 TCGAGCCATTTTAATTGTCTTAATGGTGTG
1825674 AACTGTCTTAATGGTGTTCGAAGGAAATTAAAATCATAAATGTTACCTAAGAGAATAGAGATTAA
1 AACTGTCTTAATGGTGTTCGAAGGAAATTAAAATCATAAATGTTA-CTAAGAGAATAGAGATTAA
*
1825739 TGGACAATGGTTACCCTTATAGAGCTTTCATCTTGAATTTTTTAGCCATTTGAATTGTCTTAATG
65 TGGACAATGGTTATCCTTATAGAGCTTTCATCTTGAATTTTTTAGCCATTTGAATTGTCTTAATG
*
1825804 ACATTCGAAGGAAATTAAAATCATAAATGTTAAGTAGGAGAATAGAGATTAATGGGCAATGGTTA
130 ACATTCGAAGGAAATTAAAATCATAAATGTTAGGTAGGAGAATAGAGATTAATGGGCAATGGTTA
*
1825869 TCCTTATAGAGCTGTCATCTTGAATTCTCGAGCCATTTGAGTTCGAATGAAATTAAAATCATAAA
195 TCCTTATAGAGCTGTCATCTTGAATTCTTGAGCCATTTGAGTTCGAATGAAATTAAAATCATAAA
1825934 TGTTAAGTAGGAGAATAGAGATTAATGAACAATGGTTATCCTTATAGAGCTTTCATCTTGAATTC
260 TGTTAAGTAGGAGAATAGAGATTAATGAACAATGGTTATCCTTATAGAGCTTTCATCTTGAATTC
* *
1825999 TCAAGCCATTTTAACTGTCTTAATGGTGTG
325 TCGAGCCATTTTAATTGTCTTAATGGTGTG
* *
1826029 AACTGTCTTATTGGTGTTCGAAGGAAATTAAAATCATAAATGTTACGAAGAGAATAGAGATTAAT
1 AACTGTCTTAATGGTGTTCGAAGGAAATTAAAATCATAAATGTTACTAAGAGAATAGAGATTAAT
1826094 GGACAATGGTTATCCTTATAGAGCTTTCATCTTGAATTTTTTAGCCATTTG
66 GGACAATGGTTATCCTTATAGAGCTTTCATCTTGAATTTTTTAGCCATTTG
1826145 TGTTGTAAAG
Statistics
Matches: 752, Mismatches: 46, Indels: 33
0.90 0.06 0.04
Matches are distributed among these distances:
342 2 0.00
343 280 0.37
344 28 0.04
345 1 0.00
346 1 0.00
347 3 0.00
348 1 0.00
350 1 0.00
351 3 0.00
352 1 0.00
353 1 0.00
354 95 0.13
355 333 0.44
356 2 0.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (354 bp):
AACTGTCTTAATGGTGTTCGAAGGAAATTAAAATCATAAATGTTACTAAGAGAATAGAGATTAAT
GGACAATGGTTATCCTTATAGAGCTTTCATCTTGAATTTTTTAGCCATTTGAATTGTCTTAATGA
CATTCGAAGGAAATTAAAATCATAAATGTTAGGTAGGAGAATAGAGATTAATGGGCAATGGTTAT
CCTTATAGAGCTGTCATCTTGAATTCTTGAGCCATTTGAGTTCGAATGAAATTAAAATCATAAAT
GTTAAGTAGGAGAATAGAGATTAATGAACAATGGTTATCCTTATAGAGCTTTCATCTTGAATTCT
CGAGCCATTTTAATTGTCTTAATGGTGTG
Found at i:1825990 original size:103 final size:103
Alignment explanation
Indices: 1825807--1826009 Score: 361
Period size: 103 Copynumber: 2.0 Consensus size: 103
1825797 CTTAATGACA
**
1825807 TTCGAAGGAAATTAAAATCATAAATGTTAAGTAGGAGAATAGAGATTAATGGGCAATGGTTATCC
1 TTCGAAGGAAATTAAAATCATAAATGTTAAGTAGGAGAATAGAGATTAATGAACAATGGTTATCC
*
1825872 TTATAGAGCTGTCATCTTGAATTCTCGAGCCATTTGAG
66 TTATAGAGCTGTCATCTTGAATTCTCAAGCCATTTGAG
*
1825910 TTCGAATGAAATTAAAATCATAAATGTTAAGTAGGAGAATAGAGATTAATGAACAATGGTTATCC
1 TTCGAAGGAAATTAAAATCATAAATGTTAAGTAGGAGAATAGAGATTAATGAACAATGGTTATCC
*
1825975 TTATAGAGCTTTCATCTTGAATTCTCAAGCCATTT
66 TTATAGAGCTGTCATCTTGAATTCTCAAGCCATTT
1826010 TAACTGTCTT
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 95 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (103 bp):
TTCGAAGGAAATTAAAATCATAAATGTTAAGTAGGAGAATAGAGATTAATGAACAATGGTTATCC
TTATAGAGCTGTCATCTTGAATTCTCAAGCCATTTGAG
Found at i:1826034 original size:18 final size:18
Alignment explanation
Indices: 1826011--1826045 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1826001 AAGCCATTTT
1826011 AACTGTCTTAATGGTGTG
1 AACTGTCTTAATGGTGTG
*
1826029 AACTGTCTTATTGGTGT
1 AACTGTCTTAATGGTGT
1826046 TCGAAGGAAA
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:0.20, C:0.11, G:0.26, T:0.43
Consensus pattern (18 bp):
AACTGTCTTAATGGTGTG
Found at i:1827193 original size:36 final size:36
Alignment explanation
Indices: 1827140--1827210 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
1827130 ATCAGAACAG
* *
1827140 GCTTTAATGATATGAAGTGATCAATGTGGAGACAAC
1 GCTTTAATGATACGAAGTGATAAATGTGGAGACAAC
*
1827176 GCTTTAATGGTACGAAGTGATAAATGTGGAGACAA
1 GCTTTAATGATACGAAGTGATAAATGTGGAGACAA
1827211 TATTTCATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.37, C:0.10, G:0.27, T:0.27
Consensus pattern (36 bp):
GCTTTAATGATACGAAGTGATAAATGTGGAGACAAC
Found at i:1832032 original size:30 final size:30
Alignment explanation
Indices: 1831975--1832032 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
1831965 TTAATTGAGA
* *
1831975 GTTTAATTAGAAAAAAGTACATGTTTAAGG
1 GTTTAATTAGAAAAAAGTAAATATTTAAGG
*
1832005 GTTTAATTTGATAAAAA-TAAATATTTAA
1 GTTTAATTAGA-AAAAAGTAAATATTTAA
1832033 AAATTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.47, C:0.02, G:0.14, T:0.38
Consensus pattern (30 bp):
GTTTAATTAGAAAAAAGTAAATATTTAAGG
Found at i:1832247 original size:33 final size:33
Alignment explanation
Indices: 1832173--1832248 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 33
1832163 AAGATTTGGT
* *
1832173 AATTTATATATTTGTATTATATAAAATATTGAT
1 AATTTATATATTTATATTATATAAAATATTGAA
***
1832206 AATTTATATATTTATATTATATTTTATA-TGAA
1 AATTTATATATTTATATTATATAAAATATTGAA
1832238 AA-TTATATATT
1 AATTTATATATT
1832249 ATAATTCATG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
31 9 0.24
32 5 0.13
33 24 0.63
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (33 bp):
AATTTATATATTTATATTATATAAAATATTGAA
Found at i:1836964 original size:23 final size:21
Alignment explanation
Indices: 1836938--1836984 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
1836928 TAATTATAAA
1836938 AAAATGATTATTACAATTTCGAT
1 AAAATGATTATT-C-ATTTCGAT
* *
1836961 AAAATTATTATTCGTTTCGAT
1 AAAATGATTATTCATTTCGAT
1836982 AAA
1 AAA
1836985 TAAAATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 1 0.05
23 11 0.50
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (21 bp):
AAAATGATTATTCATTTCGAT
Found at i:1842769 original size:18 final size:19
Alignment explanation
Indices: 1842743--1842780 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
1842733 AAAAAATAAT
1842743 AATAAATATATT-TTTAAA
1 AATAAATATATTATTTAAA
* *
1842761 AATATATATTTTATTTAAA
1 AATAAATATATTATTTAAA
1842780 A
1 A
1842781 TTTTGATAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATAAATATATTATTTAAA
Found at i:1843663 original size:29 final size:28
Alignment explanation
Indices: 1843629--1843694 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 28
1843619 AGGGAAATAG
* * *
1843629 TTAATGTAATATTTGAATTTTAAATATTT
1 TTAATGTAATATTTAAATTATAAAT-TTA
*
1843658 TTAATGTATTATTTAAATTATAAATTTA
1 TTAATGTAATATTTAAATTATAAATTTA
1843686 TTAAT-TAAT
1 TTAATGTAAT
1843695 GTAATTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 3 0.09
28 7 0.22
29 22 0.69
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (28 bp):
TTAATGTAATATTTAAATTATAAATTTA
Found at i:1843842 original size:19 final size:20
Alignment explanation
Indices: 1843801--1843846 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
1843791 ATTAAAAATT
1843801 TTTAAAATTTTAATATCATA
1 TTTAAAATTTTAATATCATA
*
1843821 TTTAAATATTTTATTAT-A-A
1 TTTAAA-ATTTTAATATCATA
1843840 TTTAAAA
1 TTTAAAA
1843847 ATTATTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.04
19 7 0.29
20 7 0.29
21 9 0.38
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTAAAATTTTAATATCATA
Found at i:1844650 original size:22 final size:22
Alignment explanation
Indices: 1844604--1844651 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1844594 TTTTGTTCAG
*
1844604 TTTTTTTATTTTTAAATTTTAA
1 TTTTTTTATTTTTAAATATTAA
*
1844626 TTTTTTTAGTTTTTATATATT-A
1 TTTTTTTA-TTTTTAAATATTAA
1844648 TTTT
1 TTTT
1844652 AATATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTTTTATTTTTAAATATTAA
Found at i:1850735 original size:16 final size:16
Alignment explanation
Indices: 1850695--1850735 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1850685 AACCTCTTGA
*
1850695 TTTTTTCATTTTTTAG
1 TTTTTTTATTTTTTAG
1850711 TTTTTTTATTTTTTA-
1 TTTTTTTATTTTTTAG
1850726 TTTTTATTAT
1 TTTTT-TTAT
1850736 AAAAAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTTTTATTTTTTAG
Found at i:1851855 original size:88 final size:88
Alignment explanation
Indices: 1851687--1851856 Score: 225
Period size: 88 Copynumber: 1.9 Consensus size: 88
1851677 AAAATTCTAC
* * *
1851687 TATTATTTTCTAAAAGATTTCATATTAAGTATATGATTGTCGAATTTGAATGTTATCTTTTAAAA
1 TATTATTTTCTAAAAGATATCATATTAAGAATATGATTGTCGAATTTGAATGCTATCTTTTAAAA
* *
1851752 ATCATTATATGAATTAATTTTAT
66 ATCATTACATAAATTAATTTTAT
* * * *
1851775 TATTATTTTTTATAAGATATCATATTAAGAATGTGATTTTCGAATTTGAATGCTAT-TTCTTAAA
1 TATTATTTTCTAAAAGATATCATATTAAGAATATGATTGTCGAATTTGAATGCTATCTT-TTAAA
* *
1851839 AGTTATTACATAAATTAA
65 AATCATTACATAAATTAA
1851857 CTAAGTTAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
87 2 0.03
88 68 0.97
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.48
Consensus pattern (88 bp):
TATTATTTTCTAAAAGATATCATATTAAGAATATGATTGTCGAATTTGAATGCTATCTTTTAAAA
ATCATTACATAAATTAATTTTAT
Found at i:1862647 original size:15 final size:13
Alignment explanation
Indices: 1862627--1862667 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
1862617 AAAAATTAAA
1862627 AAATTTTAAATTT
1 AAATTTTAAATTT
*
1862640 AATTATTTTATATTT
1 AA--ATTTTAAATTT
1862655 AAATTTTAAATTT
1 AAATTTTAAATTT
1862668 TAACCCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 12 0.50
15 12 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AAATTTTAAATTT
Found at i:1863131 original size:13 final size:14
Alignment explanation
Indices: 1863088--1863136 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
1863078 TGAAATAAAT
1863088 TTCAATTGAATTTAAA
1 TTCAATT-AATTT-AA
*
1863104 TTTAA--AATTTAA
1 TTCAATTAATTTAA
1863116 TTCAATTAATTT-A
1 TTCAATTAATTTAA
1863129 TTCAATTA
1 TTCAATTA
1863137 TTTTTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
12 6 0.21
13 14 0.48
14 5 0.17
16 4 0.14
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (14 bp):
TTCAATTAATTTAA
Found at i:1864225 original size:18 final size:19
Alignment explanation
Indices: 1864202--1864240 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
1864192 AATCAAATTA
1864202 TATATATTTTTT-AATTTT
1 TATATATTTTTTAAATTTT
1864220 TATATATTTTTTAAATTTT
1 TATATATTTTTTAAATTTT
1864239 TA
1 TA
1864241 AAAAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TATATATTTTTTAAATTTT
Found at i:1865598 original size:29 final size:28
Alignment explanation
Indices: 1865566--1865658 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 28
1865556 TGAAAATAAA
1865566 AAATTTATAAATATTGAGATTTAAATTTT
1 AAATTTATAAATATTGA-ATTTAAATTTT
* *
1865595 AAATTTATTAAATATT-ATCTTTAAA-TGT
1 AAATTTA-TAAATATTGA-ATTTAAATTTT
1865623 -AATTATATAAAATAATTGAA-TTAAATTTT
1 AAATT-TAT-AAAT-ATTGAATTTAAATTTT
1865652 AAATTTA
1 AAATTTA
1865659 GAGTTTAGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
27 5 0.10
28 13 0.25
29 21 0.40
30 13 0.25
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (28 bp):
AAATTTATAAATATTGAATTTAAATTTT
Found at i:1867007 original size:29 final size:30
Alignment explanation
Indices: 1866975--1867033 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
1866965 CAATTCATTC
*
1866975 ATAAAATTAT-TTTTAAATTTTTAA-ATTTA
1 ATAAAATTATATTTT-AATATTTAATATTTA
*
1867004 ATAAATTTATATTTTAATATTTAATATTTA
1 ATAAAATTATATTTTAATATTTAATATTTA
1867034 TAATTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
ATAAAATTATATTTTAATATTTAATATTTA
Found at i:1867012 original size:23 final size:22
Alignment explanation
Indices: 1866986--1867041 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
1866976 TAAAATTATT
1866986 TTTAAATTTTTAA-ATTTAATAAA
1 TTTAAATTTTTAATATTTAAT--A
*
1867009 TTTATA-TTTTAATATTTAATA
1 TTTAAATTTTTAATATTTAATA
1867030 TTTATAATTTTT
1 TTTA-AATTTTT
1867042 TTCTTTATCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 5 0.18
22 7 0.25
23 16 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTAAATTTTTAATATTTAATA
Done.