Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 50 of 106
Found at i:8741608 original size:7 final size:7
Alignment explanation
Indices: 8741596--8741644 Score: 55
Period size: 8 Copynumber: 6.6 Consensus size: 7
8741586 TCACTTTTTC
8741596 TTTTCTT
1 TTTTCTT
8741603 TTTTCTTT
1 TTTTC-TT
8741611 TTTTCTT
1 TTTTCTT
8741618 TTTTCTT
1 TTTTCTT
8741625 TTCATT-TT
1 TT--TTCTT
8741633 TTTTCATT
1 TTTTC-TT
8741641 TTTT
1 TTTT
8741645 TCATTTTCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 2 0.05
7 16 0.43
8 17 0.46
9 2 0.05
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTCTT
Found at i:8741614 original size:10 final size:10
Alignment explanation
Indices: 8741590--8741692 Score: 64
Period size: 10 Copynumber: 9.5 Consensus size: 10
8741580 TCACCTTCAC
8741590 TTTTTCTTTTCT
1 TTTTTC-TTT-T
8741602 TTTTTCTTTT
1 TTTTTCTTTT
8741612 TTTCTT-TTTT
1 TTT-TTCTTTT
*
8741622 CTTTTCATTTT
1 TTTTTC-TTTT
*
8741633 TTTTCATTTTTT
1 TTTT--TCTTTT
*
8741645 TCATTTTCATTT
1 T--TTTTCTTTT
*
8741657 TTTTTCATTT
1 TTTTTCTTTT
*
8741667 TTTTTCATTT
1 TTTTTCTTTT
*
8741677 TTTCTCTTCTT
1 TTTTTCTT-TT
8741688 TTTTT
1 TTTTT
8741693 GTTCAAGCAT
Statistics
Matches: 75, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
9 2 0.03
10 35 0.47
11 18 0.24
12 16 0.21
13 1 0.01
14 3 0.04
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:8741615 original size:20 final size:20
Alignment explanation
Indices: 8741590--8741692 Score: 93
Period size: 20 Copynumber: 4.8 Consensus size: 20
8741580 TCACCTTCAC
8741590 TTTTTCTTTTCTTTTTTC-TT
1 TTTTTCTTTT-TTTTTTCATT
8741610 TTTTTCTTTTTTCTTTTCATTT
1 TTTTTCTTTTTT-TTTTCA-TT
8741632 TTTTTCATTTTTTTCATTTTCATT
1 TTTTTC--TTTTTT--TTTTCATT
*
8741656 TTTTT-TCATTTTTTTTCATT
1 TTTTTCT-TTTTTTTTTCATT
8741676 TTTTCTCTTCTTTTTTT
1 TTTT-TCTT-TTTTTTT
8741693 GTTCAAGCAT
Statistics
Matches: 70, Mismatches: 3, Indels: 18
0.77 0.03 0.20
Matches are distributed among these distances:
19 2 0.03
20 27 0.39
21 2 0.03
22 20 0.29
24 13 0.19
25 6 0.09
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTCTTTTTTTTTTCATT
Found at i:8741616 original size:15 final size:16
Alignment explanation
Indices: 8741596--8741689 Score: 79
Period size: 15 Copynumber: 5.7 Consensus size: 16
8741586 TCACTTTTTC
8741596 TTTTCTTTTTTC-TTT
1 TTTTCTTTTTTCATTT
8741611 TTTTCTTTTTTC-TTT
1 TTTTCTTTTTTCATTT
*
8741626 TCATT-TTTTTTCATTT
1 T-TTTCTTTTTTCATTT
*
8741642 TTTTC-ATTTTCATTTT
1 TTTTCTTTTTTCA-TTT
8741658 TTTTCATTTTTTTTCATTT
1 TTTTC---TTTTTTCATTT
8741677 TTTCTCTTCTTTT
1 TTT-TCTT-TTTT
8741690 TTTGTTCAAG
Statistics
Matches: 65, Mismatches: 4, Indels: 17
0.76 0.05 0.20
Matches are distributed among these distances:
15 31 0.48
16 14 0.22
17 2 0.03
18 4 0.06
19 6 0.09
20 8 0.12
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTCTTTTTTCATTT
Found at i:8741624 original size:22 final size:23
Alignment explanation
Indices: 8741608--8741669 Score: 99
Period size: 25 Copynumber: 2.7 Consensus size: 23
8741598 TTCTTTTTTC
8741608 TTTTTTTC-TTTTTTCTTTTCAT
1 TTTTTTTCATTTTTTCTTTTCAT
8741630 TTTTTTTCATTTTTTTCATTTTCAT
1 TTTTTTTCA-TTTTTTC-TTTTCAT
8741655 TTTTTTTCATTTTTT
1 TTTTTTTCATTTTTT
8741670 TTCATTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
22 8 0.22
24 13 0.35
25 16 0.43
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTTTTCATTTTTTCTTTTCAT
Found at i:8741677 original size:16 final size:15
Alignment explanation
Indices: 8741633--8741667 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
8741623 TTTTCATTTT
8741633 TTTTCATTTTTTTCA
1 TTTTCATTTTTTTCA
8741648 TTTTCATTTTTTTTCA
1 TTTTCA-TTTTTTTCA
8741664 TTTT
1 TTTT
8741668 TTTTCATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTCATTTTTTTCA
Found at i:8748943 original size:15 final size:15
Alignment explanation
Indices: 8748923--8748954 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8748913 CTTTGTTAAG
*
8748923 TGTAATGAGTGAAAA
1 TGTAATGAATGAAAA
8748938 TGTAATGAATGAAAA
1 TGTAATGAATGAAAA
8748953 TG
1 TG
8748955 CATGTTTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (15 bp):
TGTAATGAATGAAAA
Found at i:8752096 original size:16 final size:16
Alignment explanation
Indices: 8752077--8752109 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8752067 AAATTCAAGA
8752077 AAATAAAA-AAGAAAAG
1 AAATAAAACAA-AAAAG
8752093 AAATAAAACAAAAAAG
1 AAATAAAACAAAAAAG
8752109 A
1 A
8752110 GAAAAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.82, C:0.03, G:0.09, T:0.06
Consensus pattern (16 bp):
AAATAAAACAAAAAAG
Found at i:8752100 original size:21 final size:22
Alignment explanation
Indices: 8752076--8752118 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
8752066 AAAATTCAAG
* *
8752076 AAAATAAAAAAGA-AAAGAAAT
1 AAAACAAAAAAGAGAAAAAAAT
8752097 AAAACAAAAAAGAGAAAAAAAT
1 AAAACAAAAAAGAGAAAAAAAT
8752119 GATTCAGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.07
Consensus pattern (22 bp):
AAAACAAAAAAGAGAAAAAAAT
Found at i:8752311 original size:5 final size:5
Alignment explanation
Indices: 8752289--8752329 Score: 64
Period size: 5 Copynumber: 7.8 Consensus size: 5
8752279 TTTTTTTTGA
8752289 AAAAT AAAGAT AAAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAA-AT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
8752330 AATACTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 27 0.79
6 4 0.12
7 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:8752370 original size:10 final size:10
Alignment explanation
Indices: 8752307--8752383 Score: 52
Period size: 10 Copynumber: 7.6 Consensus size: 10
8752297 GATAAAAATA
8752307 AAATAA-AAT
1 AAATAATAAT
8752316 AAAATAA-AAT
1 -AAATAATAAT
* *
8752326 AAAAAATACT
1 AAATAATAAT
**
8752336 AAATAATTCT
1 AAATAATAAT
*
8752346 AATCTAATCAAT
1 AA-ATAAT-AAT
8752358 AAATAATAAT
1 AAATAATAAT
8752368 AAAT-ATAAAT
1 AAATAAT-AAT
8752378 AAATAA
1 AAATAA
8752384 ATAAAAACCT
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
9 7 0.13
10 35 0.65
11 9 0.17
12 3 0.06
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (10 bp):
AAATAATAAT
Found at i:8753231 original size:6 final size:6
Alignment explanation
Indices: 8753220--8753293 Score: 71
Period size: 6 Copynumber: 11.8 Consensus size: 6
8753210 TAAGAAGAAA
*
8753220 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAT AATAGAT AAATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT AAA-AAT
*
8753269 AATAATAT ATAAAA- AATAAT AAAAA
1 AA-AA-AT A-AAAAT AAAAAT AAAAA
8753294 ATATATTTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
5 8 0.14
6 31 0.54
7 11 0.19
8 6 0.11
9 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:8753294 original size:11 final size:11
Alignment explanation
Indices: 8753226--8753294 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
8753216 GAAAAAAAAT
*
8753226 AAAAATAAAAA
1 AAAAATAATAA
8753237 TAAAAATAA-AA
1 -AAAAATAATAA
*
8753248 ATAAAATAATAG
1 A-AAAATAATAA
*
8753260 ATAAATAATAA
1 AAAAATAATAA
* *
8753271 TAATAT-AT-A
1 AAAAATAATAA
8753280 AAAAATAATAA
1 AAAAATAATAA
8753291 AAAA
1 AAAA
8753295 TATATTTAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
9 5 0.11
10 5 0.11
11 25 0.56
12 10 0.22
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.22
Consensus pattern (11 bp):
AAAAATAATAA
Found at i:8753347 original size:24 final size:23
Alignment explanation
Indices: 8753306--8753370 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
8753296 ATATTTAATA
8753306 ATATATGT-TAATAGATAAATAAAT
1 ATATATGTAT-ATA-ATAAATAAAT
8753330 ATATATGTATATTAATAAAT-AAT
1 ATATATGTATA-TAATAAATAAAT
8753353 A-ATA-GTA-ATAATAAATAA
1 ATATATGTATATAATAAATAA
8753371 TAAAAATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
19 8 0.21
20 2 0.05
21 3 0.08
22 3 0.08
23 4 0.11
24 15 0.39
25 3 0.08
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (23 bp):
ATATATGTATATAATAAATAAAT
Found at i:8753407 original size:29 final size:30
Alignment explanation
Indices: 8753359--8753415 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
8753349 TAATAATAGT
*
8753359 AATAATAAATAATAAAAATTTAGAAAAACA
1 AATAATAAATAATAAAAATTTAAAAAAACA
8753389 AATAA-AAATAA-AAATAATTTAAAAAAA
1 AATAATAAATAATAAA-AATTTAAAAAAA
8753416 TAAAAATGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 3 0.12
29 17 0.68
30 5 0.20
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (30 bp):
AATAATAAATAATAAAAATTTAAAAAAACA
Found at i:8753861 original size:19 final size:19
Alignment explanation
Indices: 8753829--8753881 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
8753819 TTTTTTTGCT
*
8753829 AAAAAT-AAATAAAAATAA
1 AAAAATAAAACAAAAATAA
* *
8753847 AAAAATAAAAGAAAATTAA
1 AAAAATAAAACAAAAATAA
* *
8753866 CAAAAGAAAACAAAAA
1 AAAAATAAAACAAAAA
8753882 GCAAAAAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.11
Consensus pattern (19 bp):
AAAAATAAAACAAAAATAA
Found at i:8766573 original size:8 final size:8
Alignment explanation
Indices: 8766552--8766594 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
8766542 ATTAAATAAA
8766552 TTTAAAATT
1 TTTAAAA-T
8766561 TTTAAAAT
1 TTTAAAAT
8766569 TTTAAAA-
1 TTTAAAAT
*
8766576 TTTAATAT
1 TTTAAAAT
*
8766584 TTTAACAT
1 TTTAAAAT
8766592 TTT
1 TTT
8766595 TTTATTCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 6 0.19
8 18 0.58
9 7 0.23
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTAAAAT
Found at i:8774233 original size:2 final size:2
Alignment explanation
Indices: 8774226--8774256 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8774216 ATTTCTACAT
8774226 TA 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 TA T
8774257 TCTTTAACCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8776291 original size:25 final size:25
Alignment explanation
Indices: 8776257--8776307 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
8776247 GAAGGTAAGT
8776257 CTCTGTAATAGCATCAAAATTATGC
1 CTCTGTAATAGCATCAAAATTATGC
*
8776282 CTCTGTAATAGCATCAATATTATGC
1 CTCTGTAATAGCATCAAAATTATGC
8776307 C
1 C
8776308 AAATCACAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (25 bp):
CTCTGTAATAGCATCAAAATTATGC
Found at i:8777588 original size:17 final size:18
Alignment explanation
Indices: 8777558--8777592 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8777548 ATATTTTCAC
*
8777558 AAAATTTTTTTATTTTTT
1 AAAATTTTTATATTTTTT
8777576 AAAA-TTTTATATTTTTT
1 AAAATTTTTATATTTTTT
8777593 TTATTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
AAAATTTTTATATTTTTT
Found at i:8779167 original size:11 final size:13
Alignment explanation
Indices: 8779153--8779192 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
8779143 AATCAAGGAT
8779153 AAATAAA-AA-TA
1 AAATAAATAACTA
8779164 AAATAAATAACTA
1 AAATAAATAACTA
8779177 ATAATAAATAACTA
1 A-AATAAATAACTA
8779191 AA
1 AA
8779193 TAATTAACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 7 0.27
12 2 0.08
13 4 0.15
14 13 0.50
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAAATAACTA
Found at i:8779179 original size:22 final size:22
Alignment explanation
Indices: 8779154--8779195 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8779144 ATCAAGGATA
8779154 AATAA-AAATAAAATAAATAACT
1 AATAATAAAT-AAATAAATAACT
*
8779176 AATAATAAATAACTAAATAA
1 AATAATAAATAAATAAATAA
8779196 TTAACACTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (22 bp):
AATAATAAATAAATAAATAACT
Found at i:8779182 original size:19 final size:21
Alignment explanation
Indices: 8779128--8779184 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 21
8779118 ATAAAAACTA
8779128 AAGATAAAT--TAATAAAATC
1 AAGATAAATAATAATAAAATC
*
8779147 AAGGATAAATAAAAATAAAAT-
1 AA-GATAAATAATAATAAAATC
*
8779168 AA-ATAACTAATAATAAA
1 AAGATAAATAATAATAAA
8779185 TAACTAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 15 0.47
20 7 0.22
21 2 0.06
22 8 0.25
ACGTcount: A:0.68, C:0.04, G:0.05, T:0.23
Consensus pattern (21 bp):
AAGATAAATAATAATAAAATC
Found at i:8779559 original size:39 final size:39
Alignment explanation
Indices: 8779516--8779605 Score: 108
Period size: 39 Copynumber: 2.3 Consensus size: 39
8779506 TATTAAAAAT
*
8779516 AAAGGCACATAACTTAAAAAATAAAAGCTCATCCCTAAC
1 AAAGGCAAATAACTTAAAAAATAAAAGCTCATCCCTAAC
* ** * * * *
8779555 AAAGGCATACCATTTTAAAAATAAAGGCTCTTCCCTAAC
1 AAAGGCAAATAACTTAAAAAATAAAAGCTCATCCCTAAC
8779594 AAAGGCAAATAA
1 AAAGGCAAATAA
8779606 ACACCTAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.49, C:0.21, G:0.10, T:0.20
Consensus pattern (39 bp):
AAAGGCAAATAACTTAAAAAATAAAAGCTCATCCCTAAC
Found at i:8780765 original size:19 final size:20
Alignment explanation
Indices: 8780722--8780765 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
8780712 TCATTCATTT
*
8780722 TTTTTCTCTTTTTTCTTTTC
1 TTTTTCTCTTTTTTCTTTGC
*
8780742 CTTTTC-CTTTTTTCTTTGC
1 TTTTTCTCTTTTTTCTTTGC
8780761 TTTTT
1 TTTTT
8780766 TTAAGCATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTCTCTTTTTTCTTTGC
Found at i:8780958 original size:18 final size:18
Alignment explanation
Indices: 8780925--8780994 Score: 92
Period size: 18 Copynumber: 3.9 Consensus size: 18
8780915 TACTTTAGGA
*
8780925 TAATTCT-TTTC-AAAAC
1 TAATTCTCTTTCTCAAAC
8780941 TAATTCTCTTTCTCAAAC
1 TAATTCTCTTTCTCAAAC
8780959 TAATTCTCTTTCTCAAAAAC
1 TAATTCTCTTTCTC--AAAC
8780979 -AATTCTCTTTCTCAAA
1 TAATTCTCTTTCTCAAA
8780995 AACAATAAGG
Statistics
Matches: 49, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
16 7 0.14
17 7 0.14
18 18 0.37
19 13 0.27
20 4 0.08
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATTCTCTTTCTCAAAC
Found at i:8781000 original size:19 final size:20
Alignment explanation
Indices: 8780936--8780997 Score: 103
Period size: 19 Copynumber: 3.2 Consensus size: 20
8780926 AATTCTTTTC
8780936 AAAACTAATTCTCTTTCTC-
1 AAAACTAATTCTCTTTCTCA
8780955 -AAACTAATTCTCTTTCTCA
1 AAAACTAATTCTCTTTCTCA
8780974 AAAAC-AATTCTCTTTCTCA
1 AAAACTAATTCTCTTTCTCA
8780993 AAAAC
1 AAAAC
8780998 AATAAGGTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
18 18 0.44
19 19 0.46
20 4 0.10
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAACTAATTCTCTTTCTCA
Found at i:8791249 original size:9 final size:9
Alignment explanation
Indices: 8791235--8791274 Score: 62
Period size: 9 Copynumber: 4.2 Consensus size: 9
8791225 TTTCACAAAA
8791235 TTTTTTTAT
1 TTTTTTTAT
8791244 TTTTTTTAT
1 TTTTTTTAT
8791253 TTTTTATATAT
1 TTTTT-T-TAT
8791264 TTTTTTTAT
1 TTTTTTTAT
8791273 TT
1 TT
8791275 CAAAAAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 19 0.66
10 2 0.07
11 8 0.28
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:8792829 original size:15 final size:16
Alignment explanation
Indices: 8792770--8792831 Score: 54
Period size: 20 Copynumber: 3.6 Consensus size: 16
8792760 AACCTAATTG
*
8792770 GATAACATAAAAACTAAA
1 GATAA-ATAAAAA-TCAA
8792788 GATAAATTAATAAAATCAA
1 GATAAA-T-A-AAAATCAA
8792807 GGATAAATAAAAATCAA
1 -GATAAATAAAAATCAA
8792824 -ATAAATAA
1 GATAAATAA
8792832 CTAATAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
15 8 0.21
17 9 0.23
18 7 0.18
19 5 0.13
20 10 0.26
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.21
Consensus pattern (16 bp):
GATAAATAAAAATCAA
Found at i:8792837 original size:22 final size:22
Alignment explanation
Indices: 8792812--8792853 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8792802 ATCAAGGATA
8792812 AATAA-AAATCAAATAAATAACT
1 AATAATAAAT-AAATAAATAACT
*
8792834 AATAATAAATAACTAAATAA
1 AATAATAAATAAATAAATAA
8792854 TTAACGCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AATAATAAATAAATAAATAACT
Found at i:8792842 original size:14 final size:15
Alignment explanation
Indices: 8792823--8792854 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
8792813 ATAAAAATCA
8792823 AATAAATAACT-AAT
1 AATAAATAACTAAAT
8792837 AATAAATAACTAAAT
1 AATAAATAACTAAAT
8792852 AAT
1 AAT
8792855 TAACGCTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAAATAACTAAAT
Found at i:8792929 original size:6 final size:6
Alignment explanation
Indices: 8792920--8792966 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
8792910 AAAAATGAAA
*
8792920 AAATAT AAATAT AAATAA ATAATAAT AAA-AT AAATAT AAAATAT AAA
1 AAATAT AAATAT AAATAT A-AAT-AT AAATAT AAATAT -AAATAT AAA
8792967 ATTAAAATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
5 5 0.14
6 17 0.49
7 11 0.31
8 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (6 bp):
AAATAT
Found at i:8792972 original size:19 final size:18
Alignment explanation
Indices: 8792918--8792972 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
8792908 TGAAAAATGA
8792918 AAAAATAT-AAATATAAAT
1 AAAAATATAAAAT-TAAAT
8792936 AAATAATAATAAAA-TAAAT
1 AAA-AAT-ATAAAATTAAAT
8792955 ATAAAATATAAAATTAAA
1 A-AAAATATAAAATTAAA
8792973 ATGAGTAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
18 9 0.28
19 16 0.50
20 4 0.12
21 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAATATAAAATTAAAT
Found at i:8798319 original size:28 final size:28
Alignment explanation
Indices: 8798254--8798326 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
8798244 TTTATTAAAC
* *
8798254 TTAATTTTTATTTTTATATAATTTTTAT
1 TTAATTTTTATATATATATAATTTTTAT
* **
8798282 ATAAAATTTATATATATATAATTTATT-T
1 TTAATTTTTATATATATATAATTT-TTAT
*
8798310 TTAATTTTTATGTATAT
1 TTAATTTTTATATATAT
8798327 GTGAATTGAA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
28 33 0.94
29 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (28 bp):
TTAATTTTTATATATATATAATTTTTAT
Found at i:8799630 original size:26 final size:26
Alignment explanation
Indices: 8799594--8799644 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
8799584 TTGCTGAGAT
*
8799594 AAGTAAAGAACTTATAGATGAAGTAG
1 AAGTAAAGAACTTATAAATGAAGTAG
8799620 AAGTAAAGAACTTATAAATGAAGTA
1 AAGTAAAGAACTTATAAATGAAGTA
8799645 ATCAAGTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.24
Consensus pattern (26 bp):
AAGTAAAGAACTTATAAATGAAGTAG
Found at i:8800214 original size:14 final size:14
Alignment explanation
Indices: 8800195--8800225 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
8800185 TGTGGGGTTG
8800195 TCCCGTACTCGTTT
1 TCCCGTACTCGTTT
8800209 TCCCGTACTCGTTT
1 TCCCGTACTCGTTT
8800223 TCC
1 TCC
8800226 TTTGTAGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.39, G:0.13, T:0.42
Consensus pattern (14 bp):
TCCCGTACTCGTTT
Found at i:8807022 original size:35 final size:35
Alignment explanation
Indices: 8806983--8807049 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
8806973 AGAACCCAAT
8806983 GATTTAAGGTAAGATTTTGTTATGAGAGTAGTAAG
1 GATTTAAGGTAAGATTTTGTTATGAGAGTAGTAAG
* *
8807018 GATTTGAGGTAAGATTTTGTTCTGAGAGTAGT
1 GATTTAAGGTAAGATTTTGTTATGAGAGTAGT
8807050 CAAAAAGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.30, C:0.01, G:0.30, T:0.39
Consensus pattern (35 bp):
GATTTAAGGTAAGATTTTGTTATGAGAGTAGTAAG
Found at i:8816956 original size:16 final size:15
Alignment explanation
Indices: 8816937--8816990 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
8816927 TTATTAAACT
8816937 TAATTTTTATTTTATA
1 TAATTTTTA-TTTATA
8816953 TAATTTTTATTT-T-
1 TAATTTTTATTTATA
**
8816966 TAATTTTTACATATA
1 TAATTTTTATTTATA
8816981 TAATTTTTAT
1 TAATTTTTAT
8816991 ACATATGTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
13 10 0.30
14 2 0.06
15 12 0.36
16 9 0.27
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TAATTTTTATTTATA
Found at i:8817919 original size:22 final size:21
Alignment explanation
Indices: 8817891--8817958 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 21
8817881 AATTTTACTT
8817891 ATAAATACTATTATATTAATAA
1 ATAAATA-TATTATATTAATAA
8817913 ATAAATAATATTATA-TAATAA
1 ATAAAT-ATATTATATTAATAA
*
8817934 AT-AATATATTA-ATAAATAA
1 ATAAATATATTATATTAATAA
8817953 TATAAA
1 -ATAAA
8817959 GAATAATAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
18 1 0.02
19 11 0.27
20 5 0.12
21 10 0.24
22 13 0.32
23 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAAATATATTATATTAATAA
Found at i:8817925 original size:17 final size:16
Alignment explanation
Indices: 8817889--8817955 Score: 73
Period size: 17 Copynumber: 4.1 Consensus size: 16
8817879 ATAATTTTAC
* *
8817889 TTATAAATACTATTATA
1 TTATAAATA-AATAATA
8817906 TTAATAAATAAATAATA
1 TT-ATAAATAAATAATA
8817923 TTATATAATAAATAATA
1 TTATA-AATAAATAATA
*
8817940 -TATTAATAAATAATA
1 TTATAAATAAATAATA
8817955 T
1 T
8817956 AAAGAATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
15 11 0.25
16 6 0.14
17 20 0.45
18 7 0.16
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (16 bp):
TTATAAATAAATAATA
Found at i:8817970 original size:34 final size:36
Alignment explanation
Indices: 8817902--8817979 Score: 99
Period size: 34 Copynumber: 2.2 Consensus size: 36
8817892 TAAATACTAT
*
8817902 TATATTAATAAATAAATAATATTATATAATAAATAA
1 TATATTAATAAATAAATAATATGATATAATAAATAA
*
8817938 TATATTAATAAATAATATAA-A-GA-ATAATAAATAG
1 TATATTAATAAATAA-ATAATATGATATAATAAATAA
*
8817972 TATTTTAA
1 TATATTAA
8817980 ATATTTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 17 0.45
35 1 0.03
36 16 0.42
37 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (36 bp):
TATATTAATAAATAAATAATATGATATAATAAATAA
Found at i:8818026 original size:19 final size:19
Alignment explanation
Indices: 8817979--8818026 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
8817969 TAGTATTTTA
*
8817979 AATATTTTTATATTAACAT
1 AATATTTTAATATTAACAT
8817998 AATATTTTAATATTAA-AT
1 AATATTTTAATATTAACAT
*
8818016 ATTATTATTAA
1 AATATT-TTAA
8818027 AATATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
AATATTTTAATATTAACAT
Found at i:8818108 original size:25 final size:25
Alignment explanation
Indices: 8818053--8818110 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
8818043 AATATTAGTA
8818053 ATTTTAATAATAAATAATTTCACAT
1 ATTTTAATAATAAATAATTTCACAT
* * *
8818078 ACTTTAATAGTAAATAATTTTTA-AT
1 ATTTTAATAATAAATAA-TTTCACAT
8818103 ATTTTAAT
1 ATTTTAAT
8818111 TGTTATATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (25 bp):
ATTTTAATAATAAATAATTTCACAT
Found at i:8818652 original size:14 final size:14
Alignment explanation
Indices: 8818633--8818666 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8818623 TACCTAAATA
8818633 TTTTTAAAAATTAG
1 TTTTTAAAAATTAG
* *
8818647 TTTTTAAAATTTAT
1 TTTTTAAAAATTAG
8818661 TTTTTA
1 TTTTTA
8818667 CGCAGTGGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (14 bp):
TTTTTAAAAATTAG
Found at i:8831517 original size:22 final size:22
Alignment explanation
Indices: 8831493--8831541 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
8831483 GTAATTTAAT
*
8831493 ATTTATTTA-TATTATTATTATT
1 ATTTATTTATTA-TATTAATATT
8831515 ATTTATTTATTATATTAATATT
1 ATTTATTTATTATATTAATATT
8831537 ATTTA
1 ATTTA
8831542 CATATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
ATTTATTTATTATATTAATATT
Found at i:8831546 original size:11 final size:10
Alignment explanation
Indices: 8831486--8831547 Score: 56
Period size: 11 Copynumber: 6.0 Consensus size: 10
8831476 TATTATTGTA
8831486 ATTTAATATTT
1 ATTTAATA-TT
8831497 ATTT-ATATT
1 ATTTAATATT
*
8831506 A-TTATTATT
1 ATTTAATATT
*
8831515 ATTTATTTATT
1 ATTTA-ATATT
8831526 ATATTAATATT
1 AT-TTAATATT
8831537 ATTTACATATT
1 ATTTA-ATATT
8831548 TCTTTTTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
8 2 0.05
9 8 0.18
10 9 0.20
11 22 0.50
12 3 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
ATTTAATATT
Found at i:8832984 original size:21 final size:22
Alignment explanation
Indices: 8832960--8833000 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8832950 ATCAAATTAC
8832960 AATATT-TATATTTATTTTTAA
1 AATATTATATATTTATTTTTAA
* *
8832981 AATATTATTTTTTTATTTTT
1 AATATTATATATTTATTTTT
8833001 TTAATAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
AATATTATATATTTATTTTTAA
Found at i:8833211 original size:15 final size:15
Alignment explanation
Indices: 8833147--8833213 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
8833137 TGTCAAATCC
*
8833147 AAAATA-CCAAAGCTG
1 AAAATATCCAAA-CTT
* *
8833162 AAATTATCCAAACCT
1 AAAATATCCAAACTT
* *
8833177 AAATTATTCCAAACTC
1 AAAATA-TCCAAACTT
8833193 AAAATATCCAAACTT
1 AAAATATCCAAACTT
8833208 AAAATA
1 AAAATA
8833214 ATCTGAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
15 26 0.60
16 17 0.40
ACGTcount: A:0.52, C:0.21, G:0.03, T:0.24
Consensus pattern (15 bp):
AAAATATCCAAACTT
Found at i:8833958 original size:14 final size:16
Alignment explanation
Indices: 8833935--8833968 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
8833925 ATATTTTTTG
8833935 AAAACAAAGG-AAAGA
1 AAAACAAAGGAAAAGA
8833950 AAAAC-AAGGAAAAGA
1 AAAACAAAGGAAAAGA
8833965 AAAA
1 AAAA
8833969 AAGAACGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.76, C:0.06, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAACAAAGGAAAAGA
Found at i:8834244 original size:12 final size:12
Alignment explanation
Indices: 8834227--8834256 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
8834217 ATTTCTTAGT
8834227 TTTTTCCTTTTC
1 TTTTTCCTTTTC
8834239 TTTTTCCTTTTC
1 TTTTTCCTTTTC
8834251 TATTTT
1 T-TTTT
8834257 GCTTCTGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:8851865 original size:13 final size:13
Alignment explanation
Indices: 8851847--8851871 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8851837 CATTCAACAA
8851847 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
8851860 AAAAAAAAAAAA
1 AAAAAAAAAAAA
8851872 ACCTTAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.96, C:0.00, G:0.04, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:8851865 original size:14 final size:14
Alignment explanation
Indices: 8851846--8851872 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8851836 ACATTCAACA
8851846 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
8851860 AAAAAAAAAAAAA
1 AAAAAAAAAAAAA
8851873 CCTTAATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.96, C:0.00, G:0.04, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:8860812 original size:269 final size:269
Alignment explanation
Indices: 8860333--8860875 Score: 960
Period size: 269 Copynumber: 2.0 Consensus size: 269
8860323 GCTCCGGAAC
* *
8860333 AAGTTTTGGCAGACAAACCTTCCAAACAATATTAAGATCTTTGGATGGAGGTTGAATCATGGTGT
1 AAGTTTTGGCAGACAAACCTTCCAAACAAGATTAAGATCTTCGGATGGAGGTTGAATCATGGTGT
* *
8860398 GCTGCCTGTTTTCAGCAACTTGAGGAAGAGGAATATAGATGTACAACCAGTATGTCTTAGGTGGA
66 GCTGCCTGTTTTCAGCAACTTGAGAAAGAGGAATATAGATGTACAACCAGTATGTCTCAGGTGGA
*
8860463 AACTATGAAGAAACGGTAATGCAGGCAGTTAGAGATTGTGTTCATGTGAGGAAAACCTGGAGTCA
131 AACTATGAAGAAACGGTAATGCAGGCAGTTAGAGATTGTGCTCATGTGAGGAAAACCTGGAGTCA
8860528 TATCACAATAGACAGAGCATGGGTAAACATGGATTATGGTGCGAATAAGGGGTGGTTATCTGTAG
196 TATCACAATAGACAGAGCATGGGTAAACATGGATTATGGTGCGAATAAGGGGTGGTTATCTGTAG
8860593 TGGCATAGG
261 TGGCATAGG
* *
8860602 AAGTTTTGTCAGACAAACCTTCCAAACAAGATTAAGATCTTCGGATGGAGGTTGAATCATGGTTT
1 AAGTTTTGGCAGACAAACCTTCCAAACAAGATTAAGATCTTCGGATGGAGGTTGAATCATGGTGT
* * *
8860667 GCTGCCTGTTTTCAGCAATTTGAGAAAGAGGCATATAGATGTACAACTAGTATGTCTCAGGTGGA
66 GCTGCCTGTTTTCAGCAACTTGAGAAAGAGGAATATAGATGTACAACCAGTATGTCTCAGGTGGA
* * *
8860732 AACTATGAAGAAACGGTAATGCATGTAGTTAGAGATTGTGCTCATGTGAGGGAAACCTGGAGTCA
131 AACTATGAAGAAACGGTAATGCAGGCAGTTAGAGATTGTGCTCATGTGAGGAAAACCTGGAGTCA
*
8860797 TATCACAATAGACAGAGCATGGGTAAACATGGATTATGGTGCGGATAAGGGGTGGTTATCTGTAG
196 TATCACAATAGACAGAGCATGGGTAAACATGGATTATGGTGCGAATAAGGGGTGGTTATCTGTAG
8860862 TGGCATAGG
261 TGGCATAGG
8860871 AAGTT
1 AAGTT
8860876 GATAAAGAGA
Statistics
Matches: 260, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
269 260 1.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (269 bp):
AAGTTTTGGCAGACAAACCTTCCAAACAAGATTAAGATCTTCGGATGGAGGTTGAATCATGGTGT
GCTGCCTGTTTTCAGCAACTTGAGAAAGAGGAATATAGATGTACAACCAGTATGTCTCAGGTGGA
AACTATGAAGAAACGGTAATGCAGGCAGTTAGAGATTGTGCTCATGTGAGGAAAACCTGGAGTCA
TATCACAATAGACAGAGCATGGGTAAACATGGATTATGGTGCGAATAAGGGGTGGTTATCTGTAG
TGGCATAGG
Found at i:8871151 original size:38 final size:38
Alignment explanation
Indices: 8871099--8871173 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
8871089 CAAAATCAAT
* *
8871099 AAAATTTTTCAATAATTT-AGTAAGATTTTATTTTCAAAA
1 AAAATCTTTCAATAATTTGA-TAAGA-TTTAATTTCAAAA
8871138 AAAATCTTT-AATAATTTGATAAGATTTAATTTCAAA
1 AAAATCTTTCAATAATTTGATAAGATTTAATTTCAAA
8871174 TTTTTTTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 11 0.33
38 13 0.39
39 9 0.27
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (38 bp):
AAAATCTTTCAATAATTTGATAAGATTTAATTTCAAAA
Found at i:8871439 original size:65 final size:63
Alignment explanation
Indices: 8871305--8871451 Score: 172
Period size: 65 Copynumber: 2.3 Consensus size: 63
8871295 TGTGAGGAGG
* ** * * * *
8871305 ATTTTAAGAATTTAATTTAAAAAATTATTTTTAGACCCATAAATCTTTCAACAATTTGGTAAA
1 ATTTTATGAATTTTTTTTCAAAAAGTATTTTTAAACCCATAAATCTTTCAACAATTTAGTAAA
*
8871368 ATTTTATGAATTTGTTTTTCAAAAAGTA-TTTTAAACCCATAAAAATCTTTCAATAATTTAGTAA
1 ATTTTATGAATTT-TTTTTCAAAAAGTATTTTTAAACCCAT--AAATCTTTCAACAATTTAGTAA
8871432 GA
63 -A
8871434 A-TTTATGAATTTTTTTTC
1 ATTTTATGAATTTTTTTTC
8871452 TAATTTTTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
63 23 0.32
64 16 0.22
65 31 0.43
66 2 0.03
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (63 bp):
ATTTTATGAATTTTTTTTCAAAAAGTATTTTTAAACCCATAAATCTTTCAACAATTTAGTAAA
Found at i:8871586 original size:13 final size:14
Alignment explanation
Indices: 8871570--8871599 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
8871560 TAGAATTTTG
8871570 TTTCAAAATTA-AT
1 TTTCAAAATTACAT
8871583 TTTCAAAATTACAT
1 TTTCAAAATTACAT
8871597 TTT
1 TTT
8871600 AAATCAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTCAAAATTACAT
Found at i:8878091 original size:6 final size:6
Alignment explanation
Indices: 8878077--8878132 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
8878067 TAGGTCTTGA
* * * *
8878077 TTTAAT TTTACT TTTACT TTTACT TTTAAT TTTAAT TTT-TT GTTTAAT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT -TTTAAT
8878125 TTT-AT TTT
1 TTTAAT TTT
8878133 TGGTCAAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
5 6 0.14
6 37 0.84
7 1 0.02
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (6 bp):
TTTAAT
Found at i:8878092 original size:12 final size:12
Alignment explanation
Indices: 8878077--8878115 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
8878067 TAGGTCTTGA
8878077 TTTAATTTTACT
1 TTTAATTTTACT
*
8878089 TTTACTTTTACT
1 TTTAATTTTACT
*
8878101 TTTAATTTTAAT
1 TTTAATTTTACT
8878113 TTT
1 TTT
8878116 TTGTTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTAATTTTACT
Found at i:8878829 original size:31 final size:33
Alignment explanation
Indices: 8878785--8878853 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 33
8878775 CATTTTCAAT
*
8878785 AAAATGTCAC-TA-TAGTGGCATTTGTATCTAA
1 AAAATATCACATATTAGTGGCATTTGTATCTAA
* * *
8878816 AAAATATCGCTATATTAGTGGCGTTTGTATCTAG
1 AAAATATCAC-ATATTAGTGGCATTTGTATCTAA
8878850 AAAA
1 AAAA
8878854 CGTCGTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 8 0.26
33 2 0.06
34 21 0.68
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (33 bp):
AAAATATCACATATTAGTGGCATTTGTATCTAA
Found at i:8878892 original size:27 final size:27
Alignment explanation
Indices: 8878854--8878906 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
8878844 ATCTAGAAAA
8878854 CGTCGTTATTTTAGCGATATTTGTATG
1 CGTCGTTATTTTAGCGATATTTGTATG
8878881 CGTCGTTATTTTAGCGATATTTGTAT
1 CGTCGTTATTTTAGCGATATTTGTAT
8878907 ATTTGAGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.11, G:0.21, T:0.49
Consensus pattern (27 bp):
CGTCGTTATTTTAGCGATATTTGTATG
Found at i:8879599 original size:21 final size:21
Alignment explanation
Indices: 8879566--8879606 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8879556 TTTTGCATGC
*
8879566 TCTTGCTCCATTCTAGCACGT
1 TCTTGCTCAATTCTAGCACGT
* *
8879587 TCTTTCTCAATTCTGGCACG
1 TCTTGCTCAATTCTAGCACG
8879607 ATTTTGTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.32, G:0.15, T:0.39
Consensus pattern (21 bp):
TCTTGCTCAATTCTAGCACGT
Found at i:8887357 original size:187 final size:185
Alignment explanation
Indices: 8887039--8887684 Score: 769
Period size: 187 Copynumber: 3.5 Consensus size: 185
8887029 AATATTATTG
* * * * ** *
8887039 AATTTATGTCCATAATTATTGAATGTGTTTTTTGAGATTAAACGCCTTCAATAATTT-TTTTAAA
1 AATTTATGTACATAATTATTGAAGGTATTTTTTAAGAACAAACACCTTCAATAATTTCTTTTAAA
* * * * *
8887103 AAATTTTTAGGATTATTAAAGGCATTTTTCCA-TGAAAAACGCCTTCAATATTCCATTACTAAAA
66 AATTTTTTA-GATTATTAAAGGCA-TCTTCCAGTGAAAAATGCCTTCAATATACCATTACTCAAA
* * *
8887167 TTTTAAGACGATTAGTTAAGGCATTTATTCTAGAAAAATGTCTTCACTAATTCTTTTT
129 TTTTAAGA-GATTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCAATAATTCTTTTT
*
8887225 AATTTATGTACATAATTATTGAAGGTATTTTTTAAGAACAAATACCTTCAATAATTTCCTTTTAA
1 AATTTATGTACATAATTATTGAAGGTATTTTTTAAGAACAAACACCTTCAATAATTT-CTTTTAA
* *
8887290 AATTTTTTTAGATTATTAAAGGCATCTTCTAGTGAAAAATGCCTTCAATATACCATTACTCAAAT
65 AAATTTTTTAGATTATTAAAGGCATCTTCCAGTGAAAAATGCCTTCAATATACCATTACTCAAAT
* * * * *
8887355 TTTAAGATAGTTAGTGAATGCATTTATTCCAGAAAGATGCCTTCAATAATTTTTTTT
130 TTTAAGAGA-TTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCAATAATTCTTTTT
* * * **
8887412 AATTTTTGTACAAAATTATTAAAGGTATTTTTTAAGAACAAACGTCTTCAATAATTTCTTTTAAA
1 AATTTATGTACATAATTATTGAAGGTATTTTTTAAGAACAAACACCTTCAATAATTTCTTTT-AA
* ** * * * *
8887477 AAATTTTTGAGATTATTAAAGGTGTCTTCCAGTAAAAAATACCTTCAATATACTAGTACTCAAAT
65 AAATTTTTTAGATTATTAAAGGCATCTTCCAGTGAAAAATGCCTTCAATATACCATTACTCAAAT
* * * * *
8887542 TTTAAGATGGTTAGTGAAGGCGTTTATTCTAGAAAAATACCTT-ATGTAATTCCTTTT
130 TTTAAGA-GATTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCA-ATAATTCTTTTT
* * *
8887599 AATTTTTGTACATAATTGTTGAAGGTATTTTTT-AGAACAAACACCTTCAATAATTTTTTTTAAA
1 AATTTATGTACATAATTATTGAAGGTATTTTTTAAGAACAAACACCTTCAATAATTTCTTTTAAA
** **
8887663 AAAATTTGGGATTATTAAAGGC
66 AATTTTTTAGATTATTAAAGGC
8887685 GTTTTTTAGT
Statistics
Matches: 395, Mismatches: 58, Indels: 15
0.84 0.12 0.03
Matches are distributed among these distances:
185 21 0.05
186 86 0.22
187 274 0.69
188 14 0.04
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.41
Consensus pattern (185 bp):
AATTTATGTACATAATTATTGAAGGTATTTTTTAAGAACAAACACCTTCAATAATTTCTTTTAAA
AATTTTTTAGATTATTAAAGGCATCTTCCAGTGAAAAATGCCTTCAATATACCATTACTCAAATT
TTAAGAGATTAGTGAAGGCATTTATTCTAGAAAAATGCCTTCAATAATTCTTTTT
Found at i:8888514 original size:12 final size:12
Alignment explanation
Indices: 8888492--8888537 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
8888482 ATGATATTGG
*
8888492 TATGCTGAATCA
1 TATGTTGAATCA
* *
8888504 TTTGTTGAATCG
1 TATGTTGAATCA
*
8888516 TATGCTGAATCA
1 TATGTTGAATCA
8888528 TATGTTGAAT
1 TATGTTGAAT
8888538 GGTTTGCTAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (12 bp):
TATGTTGAATCA
Found at i:8888545 original size:24 final size:24
Alignment explanation
Indices: 8888489--8888545 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
8888479 TGTATGATAT
*
8888489 TGGTATGCTGAATCATTTGTTGAA
1 TGGTATGCTGAATCATATGTTGAA
*
8888513 TCGTATGCTGAATCATATGTTGAA
1 TGGTATGCTGAATCATATGTTGAA
*
8888537 TGGTTTGCT
1 TGGTATGCT
8888546 AAATAGTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.23, C:0.11, G:0.25, T:0.42
Consensus pattern (24 bp):
TGGTATGCTGAATCATATGTTGAA
Found at i:8890274 original size:21 final size:21
Alignment explanation
Indices: 8890230--8890274 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
8890220 ATAAGTTTAA
* *
8890230 TATTAATTTGTTTATTATATT
1 TATTAATTTGTTTATAATACT
8890251 TATTAATTTGGTTT-TAATACT
1 TATTAATTT-GTTTATAATACT
8890272 TAT
1 TAT
8890275 ATTTCATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (21 bp):
TATTAATTTGTTTATAATACT
Found at i:8891819 original size:35 final size:35
Alignment explanation
Indices: 8891773--8891842 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
8891763 ATATCTAAAC
*
8891773 TAAATGTTTTCTGGGCATAAATATACAACTGACTT
1 TAAATGTTTTCTGGGCATAAACATACAACTGACTT
* *
8891808 TAAATGTTTTCTGGGTATAAACCTACAACTGACTT
1 TAAATGTTTTCTGGGCATAAACATACAACTGACTT
8891843 GACATATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (35 bp):
TAAATGTTTTCTGGGCATAAACATACAACTGACTT
Found at i:8893958 original size:13 final size:14
Alignment explanation
Indices: 8893933--8893961 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8893923 AATATGAATG
8893933 TTTTATTTATTTAT
1 TTTTATTTATTTAT
8893947 TTTTATTT-TTTAT
1 TTTTATTTATTTAT
8893960 TT
1 TT
8893962 ATTAATACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTTATTTAT
Found at i:8895318 original size:15 final size:15
Alignment explanation
Indices: 8895295--8895324 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8895285 CACTAACTTG
8895295 TTTTGTTTTTTGTTT
1 TTTTGTTTTTTGTTT
*
8895310 TTTTTTTTTTTGTTT
1 TTTTGTTTTTTGTTT
8895325 CTTTATATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TTTTGTTTTTTGTTT
Found at i:8895445 original size:17 final size:17
Alignment explanation
Indices: 8895423--8895461 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
8895413 TTTCATTCAT
8895423 TTCATAAATC-TCACTCA
1 TTCATAAATCATCA-TCA
*
8895440 TTCATAGATCATCATCA
1 TTCATAAATCATCATCA
8895457 TTCAT
1 TTCAT
8895462 TCATCATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (17 bp):
TTCATAAATCATCATCA
Found at i:8900768 original size:84 final size:82
Alignment explanation
Indices: 8900482--8900855 Score: 292
Period size: 84 Copynumber: 4.5 Consensus size: 82
8900472 TACAGAAGAT
* * * * *
8900482 TTTTCAAATTTTGATTTGTAAGAACTCTAGACATAATCACTAAATCCTCA--AGGCAAGATTTGT
1 TTTTCAAAGTTTGATTTGTAAG-ACTCTAGGCATAATCAC-AAGT--TCATTAGGCAAAATTCGT
* *
8900545 AAGTCTTTTGAGCAAAATCTA
62 AAATCTTTTGAGCTAAATCTA
* * * * * * *
8900566 TTTTCAAAGTTTGATTTATAAGACTTCCAAGCATAATCACTAGTCCTTTAGGCAAAATTCATAAA
1 TTTTCAAAGTTTGATTTGTAAGAC-TCTAGGCATAATCACAAGTTCATTAGGCAAAATTCGTAAA
* * *
8900631 TCTTTTAAACTGAATCTA
65 TCTTTTGAGCTAAATCTA
* * * *
8900649 TTTT-AAAGTTTGATTTGTAAGACCTTTAGGTATAATCATCAAGTTCATTAGGTAATATTCGTAA
1 TTTTCAAAGTTTGATTTGTAAGA-CTCTAGGCATAATCA-CAAGTTCATTAGGCAAAATTCGTAA
* *
8900713 ATCTTTCGAGCTAAATCTG
64 ATCTTTTGAGCTAAATCTA
* * * *
8900732 TTTTCAAAGTTTAATTTGTAAGATCTCTAGGCATAATCACTAAG-TC-TTCCATGCAAGATTCAT
1 TTTTCAAAGTTTGATTTGTAAGA-CTCTAGGCATAATCAC-AAGTTCATT--AGGCAAAATTCGT
* * * *
8900795 -AAGCTTTCTAAGTTGAATCTA
62 AAATCTTT-TGAGCTAAATCTA
**
8900816 TTTTCAAAGTTTGATTTGTAAGATCTCCGGGCATAATCAC
1 TTTTCAAAGTTTGATTTGTAAGA-CTCTAGGCATAATCAC
8900856 TCTATTTTAG
Statistics
Matches: 230, Mismatches: 50, Indels: 20
0.77 0.17 0.07
Matches are distributed among these distances:
81 1 0.00
82 29 0.13
83 81 0.35
84 119 0.52
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (82 bp):
TTTTCAAAGTTTGATTTGTAAGACTCTAGGCATAATCACAAGTTCATTAGGCAAAATTCGTAAAT
CTTTTGAGCTAAATCTA
Found at i:8901488 original size:18 final size:17
Alignment explanation
Indices: 8901462--8901495 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8901452 TTTGATTTAA
*
8901462 TTTACTTTTGTGTTTTGG
1 TTTAATTTTGT-TTTTGG
8901480 TTTAATTTTGTTTTTG
1 TTTAATTTTGTTTTTG
8901496 TCAAAGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.09, C:0.03, G:0.18, T:0.71
Consensus pattern (17 bp):
TTTAATTTTGTTTTTGG
Found at i:8911354 original size:186 final size:186
Alignment explanation
Indices: 8910710--8911502 Score: 929
Period size: 187 Copynumber: 4.3 Consensus size: 186
8910700 TATTCCAAAA
* * * * *
8910710 AAACACCTTCAATAATTTTTTTTTAAAATTTTTTGA-AGTTATTAAAGGCGTATTTTAGTGAAAA
1 AAACGCCTTTAATAA-TTTTTTATAAAAATTTTTGAGA-TTATTAAAGGCGTATTCTAGTGAAAA
* ** * *
8910774 ATGCCTTTAATATTTTACTACTCAAATTTTGAGACGGTTAAG-G--TG--TTTATTCTCGAAAAA
64 ATGCCTTCAATATTCCACTACTCAAATTTTAAGACGGTT-AGTGAATGTATTTATTCTAGAAAAA
* * * *
8910834 TGCCTTCACTAATTTCTTTTAATTTATGTAGATAATTGTTGAAGGTGTTTTTTGAGAAC
128 TGCCTTCACTAATTTCTTTTAATTTTTGTACATAATTATTGAAGGTATTTTTTGAGAAC
* * * * *
8910893 AAACGTCTTTAATAATTTCTTTTTAAAAATTTTTGGGATTATTAAAAGCGTCTTCTAGTGAAAAA
1 AAACGCCTTTAATAATTT-TTTATAAAAATTTTTGAGATTATTAAAGGCGTATTCTAGTGAAAAA
* * * * * * * **
8910958 TACCTTTAATATTTCATTACTCAAATTTTAAGATGGTTAATGAAGGTATTTATTCTAGAAAAACA
65 TGCCTTCAATATTCCACTACTCAAATTTTAAGACGGTTAGTGAATGTATTTATTCTAGAAAAATG
* * *
8911023 CCTTCACTAATTTCTTTTAATTTTTTTACATAATTATTGAAGGTATTTTTTTAGAAT
130 CCTTCACTAATTTCTTTTAATTTTTGTACATAATTATTGAAGGTATTTTTTGAGAAC
* ** *
8911080 AAACGCCTTTAATAATTTTTTTATAAAAATTTTTGGGATTATTAAAGATGTCTTCTAGTGAAAAA
1 AAACGCCTTTAATAA-TTTTTTATAAAAATTTTTGAGATTATTAAAGGCGTATTCTAGTGAAAAA
* * * * * *
8911145 CGCCTTCAATATTCTATTACTCAAATTTTAAGATGGTTAGTGAAAGCATTTATTCTAGAAAAATG
65 TGCCTTCAATATTCCACTACTCAAATTTTAAGACGGTTAGTGAATGTATTTATTCTAGAAAAATG
*
8911210 CCTTCACTAA-TTCTTTTTAATTTTTGTACATAATTATTGAAGGTATTTTTTGATAAC
130 CCTTCACTAATTTC-TTTTAATTTTTGTACATAATTATTGAAGGTATTTTTTGAGAAC
* * * *
8911267 AAATGTCTTTAATAATTTTTTAAAAAAATTTTTGAGATTATTAAAGGCATATTCTAGTGAAAAAT
1 AAACGCCTTTAATAATTTTTTATAAAAATTTTTGAGATTATTAAAGGCGTATTCTAGTGAAAAAT
* *
8911332 GCCTTCAATATTCCACTACTCAAATTTTAAGACAGTTAGTGAATGTGTTTATTCTAGAAAAATGC
66 GCCTTCAATATTCCACTACTCAAATTTTAAGACGGTTAGTGAATGTATTTATTCTAGAAAAATGC
* * *
8911397 CTTCACTAA-TTCTTTTTTATTTTTG-AGCATAATTATTGAAGGTAGTTTTCGAGAAC
131 CTTCACTAATTTC-TTTTAATTTTTGTA-CATAATTATTGAAGGTATTTTTTGAGAAC
* * * * *
8911453 AAACGCCTTCAAAAAAATTTTTTAAAAAAAATTTTGAAATTATTAAAGGC
1 AAACGCCTT--TAATAATTTTTTATAAAAATTTTTGAGATTATTAAAGGC
8911503 ATTTTTTGGT
Statistics
Matches: 528, Mismatches: 70, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
182 4 0.01
183 85 0.16
184 1 0.00
185 2 0.00
186 161 0.30
187 237 0.45
188 38 0.07
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (186 bp):
AAACGCCTTTAATAATTTTTTATAAAAATTTTTGAGATTATTAAAGGCGTATTCTAGTGAAAAAT
GCCTTCAATATTCCACTACTCAAATTTTAAGACGGTTAGTGAATGTATTTATTCTAGAAAAATGC
CTTCACTAATTTCTTTTAATTTTTGTACATAATTATTGAAGGTATTTTTTGAGAAC
Found at i:8911387 original size:373 final size:370
Alignment explanation
Indices: 8910710--8911500 Score: 984
Period size: 373 Copynumber: 2.1 Consensus size: 370
8910700 TATTCCAAAA
* * * * * *
8910710 AAACACCTTCAATAATTTTTTT-TTAAAATTTTTTGAAGTTATTAAAGGCGTATTTTAGTGAAAA
1 AAACGCCTTAAATAATTTTTTTATAAAAATTTTTGGAA-TTATTAAAGACGTATTCTAGTGAAAA
* * * * * *
8910774 ATGCCTTTAATATTTTACTACTCAAATTTTGAGACGGTTAAGGTGTTTATTCTCGAAAAATGCCT
65 ACGCCTTCAATATTCTACTACTCAAATTTTAAGACGGTTAAGGAGTTTATTCTAGAAAAATGCCT
* * *
8910839 TCACTAATTTCTTTTAATTTATGTAGATAATTGTTGAAGGTGTTTTTTGAGAACAAACGTCTTTA
130 TCACTAATTTCTTTTAATTTATGTACATAATTATTGAAGGTATTTTTTGAGAACAAACGTCTTTA
** * * * *
8910904 ATAATTTCTTTTTAAAAATTTTTGGGATTATTAAAAGCGTCTTCTAGTGAAAAATACCTTTAATA
195 ATAATTTCTTTAAAAAAATTTTTGAGATTATTAAAAGCATATTCTAGTGAAAAATACCTTCAATA
* * **
8910969 TTTCATTACTCAAATTTTAAGATGGTTAATGAAGGTATTTATTCTAGAAAAACACCTTCACTAAT
260 TTCCACTACTCAAATTTTAAGACAGTTAATGAAGGTATTTATTCTAGAAAAACACCTTCACTAA-
* ** *
8911034 TTCTTTTAATT-TTTTT-A-CATAATTATTGAAGGTATTTTTTTAGAAT
324 TTCTTTT--TTATTTTTGAGCATAATTATTGAAGGTAGTTTTCGAGAAC
* * * *
8911080 AAACGCCTTTAATAATTTTTTTATAAAAATTTTTGGGATTATTAAAGATGTCTTCTAGTGAAAAA
1 AAACGCCTTAAATAATTTTTTTATAAAAATTTTTGGAATTATTAAAGACGTATTCTAGTGAAAAA
* *
8911145 CGCCTTCAATATTCTATTACTCAAATTTTAAGATGGTT-AGTGAAAGCATTTATTCTAGAAAAAT
66 CGCCTTCAATATTCTACTACTCAAATTTTAAGACGGTTAAG-G--AG--TTTATTCTAGAAAAAT
* * *
8911209 GCCTTCACTAA-TTCTTTTTAATTTTTGTACATAATTATTGAAGGTATTTTTTGATAACAAATGT
126 GCCTTCACTAATTTC-TTTTAATTTATGTACATAATTATTGAAGGTATTTTTTGAGAACAAACGT
* *
8911273 CTTTAATAATTT-TTTAAAAAAATTTTTGAGATTATTAAAGGCATATTCTAGTGAAAAATGCCTT
190 CTTTAATAATTTCTTTAAAAAAATTTTTGAGATTATTAAAAGCATATTCTAGTGAAAAATACCTT
* * * **
8911337 CAATATTCCACTACTCAAATTTTAAGACAGTTAGTGAATGTGTTTATTCTAGAAAAATGCCTTCA
255 CAATATTCCACTACTCAAATTTTAAGACAGTTAATGAAGGTATTTATTCTAGAAAAACACCTTCA
8911402 CTAATTCTTTTTTATTTTTGAGCATAATTATTGAAGGTAGTTTTCGAGAAC
320 CTAATTCTTTTTTATTTTTGAGCATAATTATTGAAGGTAGTTTTCGAGAAC
* * * * *
8911453 AAACGCCTTCAAAAAAATTTTTTAAAAAAAATTTTGAAATTATTAAAG
1 AAACGCCTT-AAATAATTTTTTTATAAAAATTTTTGGAATTATTAAAG
8911501 GCATTTTTTG
Statistics
Matches: 359, Mismatches: 51, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
369 2 0.01
370 78 0.22
371 17 0.05
372 9 0.03
373 141 0.39
374 112 0.31
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (370 bp):
AAACGCCTTAAATAATTTTTTTATAAAAATTTTTGGAATTATTAAAGACGTATTCTAGTGAAAAA
CGCCTTCAATATTCTACTACTCAAATTTTAAGACGGTTAAGGAGTTTATTCTAGAAAAATGCCTT
CACTAATTTCTTTTAATTTATGTACATAATTATTGAAGGTATTTTTTGAGAACAAACGTCTTTAA
TAATTTCTTTAAAAAAATTTTTGAGATTATTAAAAGCATATTCTAGTGAAAAATACCTTCAATAT
TCCACTACTCAAATTTTAAGACAGTTAATGAAGGTATTTATTCTAGAAAAACACCTTCACTAATT
CTTTTTTATTTTTGAGCATAATTATTGAAGGTAGTTTTCGAGAAC
Found at i:8911672 original size:97 final size:97
Alignment explanation
Indices: 8911560--8911755 Score: 392
Period size: 97 Copynumber: 2.0 Consensus size: 97
8911550 GGCATTTTTT
8911560 TTCCAAAAAAATGCTTTTAGTAATTTGTTATAATTTTTTCAAAGAATTTTTTGAAGGCATTTTCT
1 TTCCAAAAAAATGCTTTTAGTAATTTGTTATAATTTTTTCAAAGAATTTTTTGAAGGCATTTTCT
8911625 ACATAATTTACCTTTAATAATTCCCTCCTTTC
66 ACATAATTTACCTTTAATAATTCCCTCCTTTC
8911657 TTCCAAAAAAATGCTTTTAGTAATTTGTTATAATTTTTTCAAAGAATTTTTTGAAGGCATTTTCT
1 TTCCAAAAAAATGCTTTTAGTAATTTGTTATAATTTTTTCAAAGAATTTTTTGAAGGCATTTTCT
8911722 ACATAATTTACCTTTAATAATTCCCTCCTTTC
66 ACATAATTTACCTTTAATAATTCCCTCCTTTC
8911754 TT
1 TT
8911756 ATCATGGGAA
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 99 1.00
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.47
Consensus pattern (97 bp):
TTCCAAAAAAATGCTTTTAGTAATTTGTTATAATTTTTTCAAAGAATTTTTTGAAGGCATTTTCT
ACATAATTTACCTTTAATAATTCCCTCCTTTC
Found at i:8915673 original size:35 final size:35
Alignment explanation
Indices: 8915634--8915703 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
8915624 ATATATAAAC
* * *
8915634 CAAATATTTTTTGGGCATAAATATATAACTGACTT
1 CAAATATTTTCTGGGCATAAACATACAACTGACTT
*
8915669 CAAATATTTTCTGGGCATAAACCTACAACTGACTT
1 CAAATATTTTCTGGGCATAAACATACAACTGACTT
8915704 GACATATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (35 bp):
CAAATATTTTCTGGGCATAAACATACAACTGACTT
Found at i:8916387 original size:308 final size:303
Alignment explanation
Indices: 8915753--8916664 Score: 1016
Period size: 308 Copynumber: 3.0 Consensus size: 303
8915743 TGAAGGTGTT
* * * * * * *
8915753 TTTAGCAAGGAAATGTCTTCAATCATCCCTAAC-AAATGTTATTGAAGGCATTTTTTAAAAAATC
1 TTTAGTAAGAAAACGTCTTGAATAATCCCTAACAAAATGTTATTGAAGGCATTTTTTACAAAACC
* ** *
8915817 ACCTTCAATAATCTCACCTAAAAATATATTGTGTGAAATATTAAAGGCATTTTGGAACAAAAACG
66 ACCTTCAATAATCTCACCTAAAAATTTATTGTGTGAAATATTAAAGGCATTTTGGGCCAAAAATG
* * * * * *
8915882 C-CTTTAAGAATCCGTTCCAAATATTGTGTATGGATTATTAAAGG-TATTTTTGACAAAAATCAC
131 CTC-TCAAGAATCTGTTCCAACTTTTGTGTATGGATTATTGAAGGCGATTTTT-ACAAAAATCAC
* **** ** * * * * *
8915945 TTTCAATAATCTCTGTTAGCAATTTATTGATTGGATTATTGAAGGCGTTTTC-ATCCAAAACCGC
194 CTTCAATAATC-AAACTAAAAATTTATTGATTGGATTATTGAAGGTGATTTCGGT-AAAAAACG-
* *
8916009 CTTCAAGAATTCGTTTCATATTTTTTTCTATGGATTATTAAAGGCATA
256 CTTCAAGAATCCGTTCCATATTTTTTTCTATGGATTATTAAAGGCATA
* * *
8916057 TTTAGTAAGAAAACGCCTTGAATAATCCCTAACAAAATGTTATTGAAAGCGTTTTTTATCAAAAC
1 TTTAGTAAGAAAACGTCTTGAATAATCCCTAACAAAATGTTATTGAAGGCATTTTTTA-CAAAAC
*
8916122 CACCTTCAATAATCTCACCTAAAAATTTATTGTGTGAAATATTAAAGGCGTTTTGGGCCAAAAAT
65 CACCTTCAATAATCTCACCTAAAAATTTATTGTGTGAAATATTAAAGGCATTTTGGGCCAAAAAT
* * *
8916187 GCTCTCAAGAATCTGTTCCAACTTTTTTTGTATGGATTATTGAAGGCGATCTCTTT-TAAAAATT
130 GCTCTCAAGAATCTGTTCCAAC-TTTTGTGTATGGATTATTGAAGGCGAT-T-TTTACAAAAATC
* *
8916251 ACCTTCAATAATACAAACTAAAAATTAATTGAATGGATTATTGAAGGTGATTTCGGTAAAAAACG
192 ACCTTCAATAAT-CAAACTAAAAATTTATTGATTGGATTATTGAAGGTGATTTCGGTAAAAAACG
* *
8916316 CTTTCAATAATCCGTTCCATATTTTTTTCTATGGATTATTAAAGGCATT
256 C-TTCAAGAATCCGTTCCATATTTTTTTCTATGGATTATTAAAGGCATA
* * * *
8916365 TTTCTGT-CGAAAACGTCTTGAATAATCTCTAACAAAATGTTATTGAAGGCATTTTTGACAAAAA
1 TTT-AGTAAGAAAACGTCTTGAATAATCCCTAACAAAATGTTATTGAAGGCATTTTTTAC-AAAA
** * ** ** * **
8916429 CTGCCTTAAATAATCGAACCATTCAAATTTATCGTGTGAAATATTAAAGGCATTTTAAGCCAAAA
64 CCACCTTCAATAATCTCACC-TAAAAATTTATTGTGTGAAATATTAAAGGCATTTTGGGCCAAAA
*
8916494 ATGCAT-TCAAGAATTTGTTCCAACTTTTGTGTATGGATTATTGAAGGCG-TTTTTGACAAAAAT
128 ATGC-TCTCAAGAATCTGTTCCAACTTTTGTGTATGGATTATTGAAGGCGATTTTT-ACAAAAAT
* * * *
8916557 CGCCTTTAATAATTCAAACTAAAAATTTATTGATTGGATTATTGAAGGTGAGTTCGGCCAAAAAT
191 CACCTTCAATAA-TCAAACTAAAAATTTATTGATTGGATTATTGAAGGTGATTTCGG-TAAAAA-
*
8916622 AC-CTTCAAGAATCGGTTCCATATATTTTTT-TATGGATTATTAA
253 ACGCTTCAAGAATCCGTTCCATAT-TTTTTTCTATGGATTATTAA
8916665 GGGTGTTTCT
Statistics
Matches: 516, Mismatches: 72, Indels: 37
0.83 0.12 0.06
Matches are distributed among these distances:
304 27 0.05
305 25 0.05
306 82 0.16
307 110 0.21
308 202 0.39
309 66 0.13
310 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (303 bp):
TTTAGTAAGAAAACGTCTTGAATAATCCCTAACAAAATGTTATTGAAGGCATTTTTTACAAAACC
ACCTTCAATAATCTCACCTAAAAATTTATTGTGTGAAATATTAAAGGCATTTTGGGCCAAAAATG
CTCTCAAGAATCTGTTCCAACTTTTGTGTATGGATTATTGAAGGCGATTTTTACAAAAATCACCT
TCAATAATCAAACTAAAAATTTATTGATTGGATTATTGAAGGTGATTTCGGTAAAAAACGCTTCA
AGAATCCGTTCCATATTTTTTTCTATGGATTATTAAAGGCATA
Found at i:8923032 original size:3 final size:3
Alignment explanation
Indices: 8923024--8923054 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8923014 CACTTTGATT
8923024 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8923055 AAAAGAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8924089 original size:13 final size:12
Alignment explanation
Indices: 8924026--8924095 Score: 61
Period size: 13 Copynumber: 5.5 Consensus size: 12
8924016 AAATCAGACC
*
8924026 AAATATCATGTA
1 AAATATCATGCA
8924038 ACAATATCATGCA
1 A-AATATCATGCA
*
8924051 TAA-ATCATGCTA
1 AAATATCATGC-A
*
8924063 AAATATTTATGCA
1 AAATA-TCATGCA
8924076 AGAATATCATGCA
1 A-AATATCATGCA
8924089 AATATAT
1 AA-ATAT
8924096 TAATTATTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
11 7 0.15
12 7 0.15
13 24 0.51
14 9 0.19
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (12 bp):
AAATATCATGCA
Found at i:8924107 original size:25 final size:23
Alignment explanation
Indices: 8924079--8924162 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 23
8924069 TTATGCAAGA
8924079 ATATCATGCAAATATATTAATTATT
1 ATATCATGCAAATATATTAA-TA-T
8924104 ATATCATGC-AA-ATA-TAA-A-
1 ATATCATGCAAATATATTAATAT
*
8924122 ATATCATACAAATATATTAATA-
1 ATATCATGCAAATATATTAATAT
8924144 ATCATTCATGCAAATATAT
1 AT-A-TCATGCAAATATAT
8924163 AATCATGAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
18 8 0.16
19 2 0.04
20 4 0.08
21 3 0.06
22 6 0.12
23 4 0.08
24 15 0.29
25 9 0.18
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.37
Consensus pattern (23 bp):
ATATCATGCAAATATATTAATAT
Found at i:8924139 original size:43 final size:42
Alignment explanation
Indices: 8924078--8924161 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 42
8924068 TTTATGCAAG
* * *
8924078 AATATCATGCAAATATATTAATTATTATATCATGCAAATATAA
1 AATATCATACAAATATATTAATAATCAT-TCATGCAAATATAA
8924121 AATATCATACAAATATATTAATAATCATTCATGCAAATATA
1 AATATCATACAAATATATTAATAATCATTCATGCAAATATA
8924162 TAATCATGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
42 13 0.34
43 25 0.66
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.36
Consensus pattern (42 bp):
AATATCATACAAATATATTAATAATCATTCATGCAAATATAA
Found at i:8924701 original size:24 final size:24
Alignment explanation
Indices: 8924651--8924726 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
8924641 ATAAACATGT
*
8924651 AATTAAATATA-TAATAAT---GT
1 AATTAAATATATTAATAATCAAGC
* *
8924671 AAATAAATATATTAGTAATCAAGC
1 AATTAAATATATTAATAATCAAGC
*
8924695 AATTAAATATATTAATAATCATGC
1 AATTAAATATATTAATAATCAAGC
*
8924719 AATCAAAT
1 AATTAAAT
8924727 TAAATATAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
20 10 0.22
21 6 0.13
24 29 0.64
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (24 bp):
AATTAAATATATTAATAATCAAGC
Found at i:8924752 original size:47 final size:45
Alignment explanation
Indices: 8924698--8924802 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
8924688 ATCAAGCAAT
**
8924698 TAAATATATTAATAATCATGCAATCAAAT-TAAATATAATCTTACAAA
1 TAAATATATTAATAATCATGCAA--AAATATAAATA-AATCACACAAA
* * *
8924745 TAGATATATTAACAATCATGCAAAAATATTAATAAATCACACAAA
1 TAAATATATTAATAATCATGCAAAAATATAAATAAATCACACAAA
8924790 TAAATATATTAAT
1 TAAATATATTAAT
8924803 CATGCAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
45 24 0.48
46 5 0.10
47 21 0.42
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.32
Consensus pattern (45 bp):
TAAATATATTAATAATCATGCAAAAATATAAATAAATCACACAAA
Found at i:8924803 original size:21 final size:21
Alignment explanation
Indices: 8924779--8924821 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8924769 AATATTAATA
8924779 AATCACACAAATAAATATATT
1 AATCACACAAATAAATATATT
**
8924800 AATCATGCAAATAAATATATT
1 AATCACACAAATAAATATATT
8924821 A
1 A
8924822 GGCAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (21 bp):
AATCACACAAATAAATATATT
Found at i:8924811 original size:17 final size:17
Alignment explanation
Indices: 8924791--8924847 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
8924781 TCACACAAAT
8924791 AAATATATTAATCATGC
1 AAATATATTAATCATGC
* * *
8924808 AAATA-AATATATTAGGC
1 AAATATATTA-ATCATGC
*
8924825 AAATAAATT-ATCATGC
1 AAATATATTAATCATGC
8924841 AAATATA
1 AAATATA
8924848 ATATTAGTCA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
16 14 0.45
17 15 0.48
18 2 0.06
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.32
Consensus pattern (17 bp):
AAATATATTAATCATGC
Found at i:8925513 original size:12 final size:13
Alignment explanation
Indices: 8925495--8925530 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
8925485 ATTTTGATTA
8925495 AAAAAATTAAAC-
1 AAAAAATTAAACT
*
8925507 CAAAAATTAAACT
1 AAAAAATTAAACT
8925520 AAAAAATTAAA
1 AAAAAATTAAA
8925531 ATACAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAAAATTAAACT
Found at i:8926761 original size:118 final size:117
Alignment explanation
Indices: 8926554--8927077 Score: 683
Period size: 118 Copynumber: 4.4 Consensus size: 117
8926544 TTTTTTTTAG
*
8926554 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATA-TTTTTTGAAAATTTCGATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-AAATTT-TATTTTCAAGGAAA
* *
8926617 ATTGATACTTTCAACTTTTCCTCAAAA-ACCCTTTTTTTGAAAATTTATTTCTAA
64 ATTGATACTTTCAACTTTTCCCCAAAATA-TCTTTTTTTGAAAATTTATTTCTAA
8926671 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTGATTTTCAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTT-ATTTTCAAGGAAAA
*
8926736 TTGATACTTTCAACTTTTCCCCAAAATA-C-TTTTTTGGAAATTTATTTTTCCTTTAA
65 TTGATACTTTCAACTTTTCCCCAAAATATCTTTTTTTGAAAATTTA--TTT-C--TAA
* * *
8926792 GGAAAATTGATAATTTCAACTTTTCCCTAAAAATATTTTTTGGAAA-TTTATTCTT-AAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATT-TTCAAGGAAAA
* * *
8926855 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAAATTT-TTTCTGA
65 TTGATACTTTCAACTTTTCCC-CAAAATA-TCTTTTTTTGAAAATTTATTTCTAA
8926909 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAA-TTTA-TTTCTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT-GAAATTTTATTTTC-AAGGAAA
* *
8926972 ATTGATACTTTCAACTTTTCCCTAAAAATAT-TTTATTTTGGAAATTTATTTCTAA
64 ATTGATACTTTCAACTTTTCCC-CAAAATATCTTT-TTTTGAAAATTTATTTCTAA
* * *
8927027 GGAAAATTGATACTTCCAACTTTTCCCTAAAAATATTTTTTTAGAATTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT-GAAATTTT
8927078 TTATTTTTAT
Statistics
Matches: 368, Mismatches: 19, Indels: 38
0.87 0.04 0.09
Matches are distributed among these distances:
116 19 0.05
117 79 0.21
118 152 0.41
119 45 0.12
120 14 0.04
121 46 0.12
123 13 0.04
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTTTCAAGGAAAAT
TGATACTTTCAACTTTTCCCCAAAATATCTTTTTTTGAAAATTTATTTCTAA
Found at i:8926920 original size:60 final size:58
Alignment explanation
Indices: 8926554--8927068 Score: 679
Period size: 58 Copynumber: 8.7 Consensus size: 58
8926544 TTTTTTTTAG
8926554 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATA-TTTTTTGAAAATTTCGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTT--ATTTCT-AA
**
8926612 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA-TATTTTTTTGAAAATTTATTTCTAA
* *
8926671 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTT-ATTTCT-AA
* * *
8926730 GGAAAATTGATACTTTCAACTTTTCCC-CAAAATACTTTTTTGGAAATTTATTTTTCCTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTA--TTT-C--TAA
* *
8926792 GGAAAATTGATAATTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTC-TAA
*
8926849 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAAATTT-TTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTTTGAAAATTTATTTCTAA
* *
8926909 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTCTAA
*
8926967 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTATTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTT-TTTTGAAAATTTATTTCTAA
*
8927027 GGAAAATTGATACTTCCAACTTTTCCCTAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
8927069 AGAATTTTTT
Statistics
Matches: 414, Mismatches: 20, Indels: 46
0.86 0.04 0.10
Matches are distributed among these distances:
57 55 0.13
58 102 0.25
59 84 0.20
60 93 0.22
61 30 0.07
62 43 0.10
63 7 0.02
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTATTTCTAA
Found at i:8927195 original size:1 final size:1
Alignment explanation
Indices: 8927189--8927214 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
8927179 AAACAAATTC
8927189 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
8927215 CCTGGAGCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:8927570 original size:19 final size:20
Alignment explanation
Indices: 8927529--8927572 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
8927519 ACACCGGTGT
* *
8927529 CGGATTCTGGAAATTTTCGC
1 CGGAATCTGGAAATTTTCAC
8927549 CGGAATCTGGAAA-TTTCAC
1 CGGAATCTGGAAATTTTCAC
8927568 CGGAA
1 CGGAA
8927573 GTTGGCCGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (20 bp):
CGGAATCTGGAAATTTTCAC
Found at i:8927663 original size:31 final size:31
Alignment explanation
Indices: 8927625--8927695 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
8927615 ACTGGGCAGG
* ** *
8927625 TCGCCGGAAACTTCAATGTTGGCCGGAATTT
1 TCGCCGGAAAATTCAAACTTCGCCGGAATTT
8927656 TCGCCGGAAAATTCAAACTTCGCCGGAATTT
1 TCGCCGGAAAATTCAAACTTCGCCGGAATTT
8927687 TCGCCGGAA
1 TCGCCGGAA
8927696 TCTGGAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (31 bp):
TCGCCGGAAAATTCAAACTTCGCCGGAATTT
Found at i:8927743 original size:26 final size:24
Alignment explanation
Indices: 8927704--8927757 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
8927694 AATCTGGAAA
*
8927704 TTTCCCAGAAATTTCCAGAAAAAAT
1 TTTCCCAAAAATTTCCA-AAAAAAT
* *
8927729 TTTCGCCAAAAATTTCTAAAAAATT
1 TTTC-CCAAAAATTTCCAAAAAAAT
8927754 TTTC
1 TTTC
8927758 TCACTCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.35
Consensus pattern (24 bp):
TTTCCCAAAAATTTCCAAAAAAAT
Found at i:8928478 original size:1 final size:1
Alignment explanation
Indices: 8928467--8928561 Score: 64
Period size: 1 Copynumber: 95.0 Consensus size: 1
8928457 TCACTCAACA
* ** * * * * ** * *
8928467 TTTTTTATTTTTGATTTTTATTTTGTTTTATTTTTTTATTTTTTTGATTTTTTTTGTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
8928532 TTTTTGTTTTTTGTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8928562 GGCCCGAAGC
Statistics
Matches: 68, Mismatches: 26, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.06, C:0.00, G:0.08, T:0.85
Consensus pattern (1 bp):
T
Found at i:8928495 original size:18 final size:17
Alignment explanation
Indices: 8928467--8928562 Score: 78
Period size: 16 Copynumber: 5.8 Consensus size: 17
8928457 TCACTCAACA
*
8928467 TTTTTTATTTTTGATTT
1 TTTTTTGTTTTTGATTT
8928484 TTATTTTG-TTTT-ATTT
1 TT-TTTTGTTTTTGATTT
8928500 TTTTATT-TTTTTGA-TT
1 TTTT-TTGTTTTTGATTT
*
8928516 TTTTTTGTTTTT--TGT
1 TTTTTTGTTTTTGATTT
*
8928531 TTTTTTGTTTTTTGTTTT
1 TTTTTTG-TTTTTGATTT
*
8928549 GTTTTTTTTTTTTG
1 -TTTTTTGTTTTTG
8928563 GCCCGAAGCT
Statistics
Matches: 65, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
15 12 0.18
16 28 0.43
17 7 0.11
18 12 0.18
19 6 0.09
ACGTcount: A:0.06, C:0.00, G:0.09, T:0.84
Consensus pattern (17 bp):
TTTTTTGTTTTTGATTT
Found at i:8928542 original size:15 final size:15
Alignment explanation
Indices: 8928487--8928558 Score: 78
Period size: 15 Copynumber: 4.7 Consensus size: 15
8928477 TTGATTTTTA
8928487 TTTTGTTTTATT-TTT
1 TTTTGTTTT-TTGTTT
*
8928502 TTAT-TTTTTTGATTTT
1 TTTTGTTTTTTG--TTT
8928518 TTTTGTTTTTTGTTT
1 TTTTGTTTTTTGTTT
8928533 TTTTGTTTTTTGTTT
1 TTTTGTTTTTTGTTT
8928548 TGTTT-TTTTTT
1 T-TTTGTTTTTT
8928559 TTTGGCCCGA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
13 2 0.04
14 4 0.08
15 28 0.56
16 9 0.18
17 7 0.14
ACGTcount: A:0.04, C:0.00, G:0.10, T:0.86
Consensus pattern (15 bp):
TTTTGTTTTTTGTTT
Found at i:8928554 original size:33 final size:31
Alignment explanation
Indices: 8928474--8928562 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 31
8928464 ACATTTTTTA
8928474 TTTTTGATTTTTATTTTGTTTTATT-TTTTTATT
1 TTTTTG-TTTTT-TTTTGTTTT-TTGTTTTTATT
* *
8928507 TTTTTGATTTTTTTTGTTTTTTGTTTTTTTGT
1 TTTTTGTTTTTTTTTGTTTTTTGTTTTTAT-T
*
8928539 TTTTTGTTTTGTTTTTTTTTTTTG
1 TTTTTGTTTT-TTTTTGTTTTTTG
8928563 GCCCGAAGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.04
31 15 0.31
32 14 0.29
33 18 0.37
ACGTcount: A:0.06, C:0.00, G:0.10, T:0.84
Consensus pattern (31 bp):
TTTTTGTTTTTTTTTGTTTTTTGTTTTTATT
Found at i:8928556 original size:8 final size:8
Alignment explanation
Indices: 8928474--8928559 Score: 72
Period size: 8 Copynumber: 10.6 Consensus size: 8
8928464 ACATTTTTTA
8928474 TTTTTGATT
1 TTTTTG-TT
8928483 TTTATT-TT
1 TTT-TTGTT
* *
8928491 GTTTTATT
1 TTTTTGTT
*
8928499 TTTTTATT
1 TTTTTGTT
8928507 TTTTTGATT
1 TTTTTG-TT
8928516 TTTTT-TGT
1 TTTTTGT-T
8928524 TTTTTGTT
1 TTTTTGTT
8928532 TTTTTG-T
1 TTTTTGTT
8928539 TTTTTGTT
1 TTTTTGTT
8928547 TTGTTT-TT
1 TT-TTTGTT
8928555 TTTTT
1 TTTTT
8928560 TTGGCCCGAA
Statistics
Matches: 67, Mismatches: 3, Indels: 16
0.78 0.03 0.19
Matches are distributed among these distances:
7 13 0.19
8 38 0.57
9 14 0.21
10 2 0.03
ACGTcount: A:0.06, C:0.00, G:0.09, T:0.85
Consensus pattern (8 bp):
TTTTTGTT
Found at i:8928698 original size:42 final size:41
Alignment explanation
Indices: 8928570--8929266 Score: 979
Period size: 41 Copynumber: 17.0 Consensus size: 41
8928560 TTGGCCCGAA
* * *
8928570 GCTCCTCTAAACAGAGACTCAACGACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
8928611 GCTCCTCTAAACAGAGGCA--ACGGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCAC-GACTTTGAAAAGTAAATT
* *
8928651 GCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
8928693 GCTCCTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
8928734 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
8928776 GCTCCTCTCAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
8928818 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
8928859 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAGAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
* *
8928899 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
8928940 GCTCCTATAAACAGAGGCA--ACGAACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTG-AAAAGTAAATT
*
8928981 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
8929022 GCTTCTCTAAACAGAGGCA--ACGAACTTTGAAGAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
* *
8929062 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAACTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
8929103 GCTCCTCTAAATAGAGGCA--ACGAACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTG-AAAAGTAAATT
*
8929144 GCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
8929186 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
8929228 GCTCCTCTAAACAGAGGCA--ACGAACTTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAAT
8929267 ACTCCTAGAC
Statistics
Matches: 597, Mismatches: 36, Indels: 47
0.88 0.05 0.07
Matches are distributed among these distances:
39 18 0.03
40 126 0.21
41 244 0.41
42 197 0.33
43 12 0.02
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:8929014 original size:163 final size:162
Alignment explanation
Indices: 8928570--8929244 Score: 1011
Period size: 163 Copynumber: 4.1 Consensus size: 162
8928560 TTGGCCCGAA
*
8928570 GCTCCTCTAAACAGA-G-ACTCAACGACTTTTG-AAAGTAAATTGCTCCTCTAAACAGAGGCAAC
1 GCTCCTCTAAACAGAGGTAC-C-ACGAC-TTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAAC
* * * *
8928632 GGACTTTGGAAAGTAAATTGCTCCTCTCAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTC
63 GAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTC
*
8928697 CTCTCAACAGAGGCACCACGACTTTGAAAAGTAAATT
127 CTCTAAACAGAGGCA-CACGACTTTGAAAAGTAAATT
* *
8928734 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTCAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGTACCACGACTTT-GAAAAATAAATTGCTCCTCTAAACAGAGGCA--AC
*
8928799 G-ACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTC
63 GAAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTC
*
8928863 CTCTAAACAGAGGCA-ACGAACTTTGAAGAGTAAATT
127 CTCTAAACAGAGGCACACG-ACTTTGAAAAGTAAATT
*
8928899 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAATAAATTGCTCCTATAAACAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAA
* *
8928964 CTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTTCTC
66 CTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTC
*
8929029 TAAACAGAGGCA-ACGAACTTTGAAGAGTAAATT
130 TAAACAGAGGCACACG-ACTTTGAAAAGTAAATT
* *
8929062 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAACTAAATTGCTCCTCTAAATAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAA
*
8929127 CTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATGACTTTTGAAAAGTAAATTGCTCCT
66 CTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCT
8929192 CTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
129 CTAAACAGAGGCA-CACGAC-TTTGAAAAGTAAATT
8929228 GCTCCTCTAAACAGAGG
1 GCTCCTCTAAACAGAGG
8929245 CAACGAACTT
Statistics
Matches: 478, Mismatches: 19, Indels: 26
0.91 0.04 0.05
Matches are distributed among these distances:
162 7 0.01
163 199 0.42
164 86 0.18
165 75 0.16
166 67 0.14
167 44 0.09
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (162 bp):
GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCAACGAA
CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCT
AAACAGAGGCACACGACTTTGAAAAGTAAATT
Found at i:8930295 original size:8 final size:8
Alignment explanation
Indices: 8930282--8930399 Score: 53
Period size: 8 Copynumber: 14.0 Consensus size: 8
8930272 TTTTCATTCA
8930282 CTTTTTTT
1 CTTTTTTT
8930290 CTTTTTTT
1 CTTTTTTT
*
8930298 CCATTTTTTC
1 -C-TTTTTTT
8930308 CATTTTTTT
1 C-TTTTTTT
*
8930317 C-ATTTTT
1 CTTTTTTT
*
8930324 CATCATTTTT
1 C-T-TTTTTT
*
8930334 CATTTTTTC
1 C-TTTTTTT
*
8930343 CATTTTTTC
1 C-TTTTTTT
*
8930352 CATTTTTT
1 CTTTTTTT
8930360 CATTTTTTT
1 C-TTTTTTT
*
8930369 ATTTTTTAT
1 CTTTTTT-T
8930378 -TTTTTTT
1 CTTTTTTT
*
8930385 -TTTTTGT
1 CTTTTTTT
*
8930392 ATTTTTTT
1 CTTTTTTT
8930400 TTCAAGCATA
Statistics
Matches: 91, Mismatches: 11, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
7 13 0.14
8 32 0.35
9 31 0.34
10 15 0.16
ACGTcount: A:0.10, C:0.13, G:0.01, T:0.76
Consensus pattern (8 bp):
CTTTTTTT
Found at i:8930306 original size:17 final size:17
Alignment explanation
Indices: 8930284--8930383 Score: 118
Period size: 17 Copynumber: 5.9 Consensus size: 17
8930274 TTCATTCACT
8930284 TTTTTTC-TTTTTTTCCA
1 TTTTTTCATTTTTTT-CA
8930301 TTTTTTCCATTTTTTTCA
1 TTTTTT-CATTTTTTTCA
*
8930319 -TTTTTCATCATTTTTCA
1 TTTTTTCAT-TTTTTTCA
*
8930336 TTTTTTCCATTTTTTCCA
1 TTTTTT-CATTTTTTTCA
8930354 TTTTTTCATTTTTTT-A
1 TTTTTTCATTTTTTTCA
8930370 TTTTTT-ATTTTTTT
1 TTTTTTCATTTTTTT
8930384 TTTTTTGTAT
Statistics
Matches: 74, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
15 8 0.11
16 10 0.14
17 26 0.35
18 20 0.27
19 10 0.14
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTTCATTTTTTTCA
Found at i:8930322 original size:7 final size:8
Alignment explanation
Indices: 8930284--8930382 Score: 103
Period size: 9 Copynumber: 11.8 Consensus size: 8
8930274 TTCATTCACT
*
8930284 TTTTTTCT
1 TTTTTTCA
8930292 TTTTTTCCA
1 TTTTTT-CA
8930301 TTTTTTCCA
1 TTTTTT-CA
8930310 TTTTTTTCA
1 -TTTTTTCA
8930319 -TTTTTCA
1 TTTTTTCA
8930326 TCATTTTTCA
1 T--TTTTTCA
8930336 TTTTTTCCA
1 TTTTTT-CA
8930345 TTTTTTCCA
1 TTTTTT-CA
8930354 TTTTTTCA
1 TTTTTTCA
*
8930362 TTTTTTTA
1 TTTTTTCA
8930370 TTTTTT-A
1 TTTTTTCA
8930377 TTTTTT
1 TTTTTT
8930383 TTTTTTTGTA
Statistics
Matches: 83, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
7 14 0.17
8 26 0.31
9 29 0.35
10 14 0.17
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTCA
Found at i:8930342 original size:44 final size:41
Alignment explanation
Indices: 8930285--8930382 Score: 142
Period size: 44 Copynumber: 2.3 Consensus size: 41
8930275 TCATTCACTT
*
8930285 TTTTTCTTTTTTTCCATTTTTTCCATTTTTTTCATTTTTCATCA
1 TTTTTCATTTTTTCCATTTTTTCCA-TTTTTTCATTTTT--TCA
*
8930329 TTTTTCATTTTTTCCATTTTTTCCATTTTTTCATTTTTTTA
1 TTTTTCATTTTTTCCATTTTTTCCATTTTTTCATTTTTTCA
*
8930370 TTTTTTATTTTTT
1 TTTTTCATTTTTT
8930383 TTTTTTTGTA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
41 14 0.27
43 13 0.25
44 24 0.47
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.74
Consensus pattern (41 bp):
TTTTTCATTTTTTCCATTTTTTCCATTTTTTCATTTTTTCA
Found at i:8930368 original size:9 final size:9
Alignment explanation
Indices: 8930278--8930399 Score: 102
Period size: 9 Copynumber: 14.2 Consensus size: 9
8930268 TCCTTTTTCA
8930278 TTCACTTTTT
1 TTCA-TTTTT
8930288 TTC-TTTTT
1 TTCATTTTT
8930296 TTCCATTTTT
1 TT-CATTTTT
*
8930306 TCCATTTTT
1 TTCATTTTT
8930315 TTCA--TTT
1 TTCATTTTT
*
8930322 TTCATCATTT
1 TTCAT-TTTT
8930332 TTCATTTTT
1 TTCATTTTT
*
8930341 TCCATTTTT
1 TTCATTTTT
*
8930350 TCCA-TTTT
1 TTCATTTTT
8930358 TTCATTTTT
1 TTCATTTTT
8930367 TT-A-TTTT
1 TTCATTTTT
8930374 TT-ATTTTT
1 TTCATTTTT
8930382 TT--TTTTT
1 TTCATTTTT
8930389 TGT-ATTTTT
1 T-TCATTTTT
8930398 TT
1 TT
8930400 TTCAAGCATA
Statistics
Matches: 98, Mismatches: 5, Indels: 20
0.80 0.04 0.16
Matches are distributed among these distances:
7 20 0.20
8 23 0.23
9 38 0.39
10 17 0.17
ACGTcount: A:0.11, C:0.13, G:0.01, T:0.75
Consensus pattern (9 bp):
TTCATTTTT
Found at i:8930383 original size:26 final size:25
Alignment explanation
Indices: 8930301--8930398 Score: 83
Period size: 26 Copynumber: 3.9 Consensus size: 25
8930291 TTTTTTTCCA
* *
8930301 TTTTTTCCATTTTTTTCATTTTTCAT
1 TTTTTTTCATTTTTTT-ATTTTTTAT
** * **
8930327 CATTTTTCATTTTTTCCATTTTTTCC
1 TTTTTTTCATTTTTT-TATTTTTTAT
*
8930353 ATTTTTTCATTTTTTTATTTTTTAT
1 TTTTTTTCATTTTTTTATTTTTTAT
*
8930378 TTTTTTT--TTTTTGTATTTTTT
1 TTTTTTTCATTTTTTTATTTTTT
8930399 TTTCAAGCAT
Statistics
Matches: 57, Mismatches: 14, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
23 13 0.23
25 13 0.23
26 31 0.54
ACGTcount: A:0.11, C:0.11, G:0.01, T:0.77
Consensus pattern (25 bp):
TTTTTTTCATTTTTTTATTTTTTAT
Found at i:8930401 original size:16 final size:15
Alignment explanation
Indices: 8930354--8930401 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
8930344 ATTTTTTCCA
*
8930354 TTTTTTCATTTTTTT
1 TTTTTTTATTTTTTT
*
8930369 ATTTTTTATTTTTTT
1 TTTTTTTATTTTTTT
8930384 TTTTTTGTATTTTTTT
1 TTTTTT-TATTTTTTT
8930400 TT
1 TT
8930402 CAAGCATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 18 0.62
16 11 0.38
ACGTcount: A:0.08, C:0.02, G:0.02, T:0.88
Consensus pattern (15 bp):
TTTTTTTATTTTTTT
Found at i:8932613 original size:56 final size:56
Alignment explanation
Indices: 8932550--8932661 Score: 154
Period size: 56 Copynumber: 2.0 Consensus size: 56
8932540 AATTAATAGT
*
8932550 CATGCAATTAAATATATAATCACACAAAT-AATAATATTAATAATCATGCAAATAAA
1 CATGCAATTAAATATATAATCACACAAATAAAT-ATATTAATAATCAAGCAAATAAA
* *** *
8932606 CATGCAATTAAATATGTAATCATGGAAATAAATATATTAATAATCAAGCAATTAAA
1 CATGCAATTAAATATATAATCACACAAATAAATATATTAATAATCAAGCAAATAAA
8932662 TATATTAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
56 46 0.94
57 3 0.06
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (56 bp):
CATGCAATTAAATATATAATCACACAAATAAATATATTAATAATCAAGCAAATAAA
Found at i:8932649 original size:24 final size:24
Alignment explanation
Indices: 8932622--8932742 Score: 113
Period size: 24 Copynumber: 5.0 Consensus size: 24
8932612 ATTAAATATG
**
8932622 TAATCATGGAAATAAATATATTAA
1 TAATCATACAAATAAATATATTAA
*
8932646 TAATCA-AGCAATTAAATATATTAA
1 TAATCATA-CAAATAAATATATTAA
** **
8932670 TAATCAT-GTAATCAAAT-TAAAAA
1 TAATCATACAAAT-AAATATATTAA
*
8932693 TAGTCATACAAATAAATATATTAA
1 TAATCATACAAATAAATATATTAA
*
8932717 TAAATCACACAAATAAATATATTAA
1 T-AATCATACAAATAAATATATTAA
8932742 T
1 T
8932743 CATGCCAACA
Statistics
Matches: 76, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
23 16 0.21
24 38 0.50
25 22 0.29
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.32
Consensus pattern (24 bp):
TAATCATACAAATAAATATATTAA
Found at i:8933140 original size:12 final size:12
Alignment explanation
Indices: 8933123--8933152 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8933113 ACTAAAAAAA
8933123 CAAAAAGTAAAC
1 CAAAAAGTAAAC
8933135 CAAAAAGTAAAC
1 CAAAAAGTAAAC
*
8933147 TAAAAA
1 CAAAAA
8933153 ATTAAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.13, G:0.07, T:0.10
Consensus pattern (12 bp):
CAAAAAGTAAAC
Found at i:8934887 original size:2 final size:2
Alignment explanation
Indices: 8934880--8934914 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
8934870 GTTAAAGTTT
* *
8934880 TA TA TA TA CA TA TA TA TA TA TA TA TC TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8934915 TTAGAGAGCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8936261 original size:31 final size:30
Alignment explanation
Indices: 8936207--8936272 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
8936197 TTCTATATTT
8936207 TTTATTATTTAATTTATATTATTATTAGAAAG
1 TTTATTATTTAATTTATATTATTATT--AAAG
8936239 TTTATT-TTT-ATTTATTATTATTATTAAAG
1 TTTATTATTTAATTTA-TATTATTATTAAAG
8936268 TTTAT
1 TTTAT
8936273 CTTAAAATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
29 9 0.27
30 5 0.15
31 13 0.39
32 6 0.18
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (30 bp):
TTTATTATTTAATTTATATTATTATTAAAG
Found at i:8936527 original size:28 final size:28
Alignment explanation
Indices: 8936467--8936530 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
8936457 AGCTCGATCG
* *
8936467 ATCTGGGTGGTTCGATGGTTCAACGCCA
1 ATCTGGATGGTTCGATGGTTCAAAGCCA
* *
8936495 ATCTGGATGGTTTGATGGTTCAAAGCCG
1 ATCTGGATGGTTCGATGGTTCAAAGCCA
*
8936523 GTCTGGAT
1 ATCTGGAT
8936531 TGATTCAGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.31
Consensus pattern (28 bp):
ATCTGGATGGTTCGATGGTTCAAAGCCA
Found at i:8941398 original size:15 final size:15
Alignment explanation
Indices: 8941375--8941424 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
8941365 TTAATTCATT
8941375 TAAATATGACATAAA
1 TAAATATGACATAAA
*
8941390 TAAACATGA-ATAATA
1 TAAATATGACATAA-A
*
8941405 TAAATAT-ACATGAA
1 TAAATATGACATAAA
8941419 TAAATA
1 TAAATA
8941425 CAACTAACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (15 bp):
TAAATATGACATAAA
Found at i:8941409 original size:19 final size:19
Alignment explanation
Indices: 8941385--8941448 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
8941375 TAAATATGAC
8941385 ATAAATAAACATGAATAAT
1 ATAAATAAACATGAATAAT
*
8941404 ATAAATATACATGAATAA-
1 ATAAATAAACATGAATAAT
8941422 ATACAACT-AACATGAAT-AT
1 ATA-AA-TAAACATGAATAAT
8941441 AT-AATAAA
1 ATAAATAAA
8941449 ACAAGATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 1 0.03
17 4 0.10
18 4 0.10
19 29 0.74
20 1 0.03
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.27
Consensus pattern (19 bp):
ATAAATAAACATGAATAAT
Found at i:8941572 original size:11 final size:11
Alignment explanation
Indices: 8941556--8941586 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8941546 AGAATAAAAA
8941556 ATTTAATATCT
1 ATTTAATATCT
*
8941567 ATTTAATATGT
1 ATTTAATATCT
8941578 ATTTAATAT
1 ATTTAATAT
8941587 AAATATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (11 bp):
ATTTAATATCT
Found at i:8942797 original size:4 final size:4
Alignment explanation
Indices: 8942790--8942867 Score: 84
Period size: 4 Copynumber: 19.5 Consensus size: 4
8942780 CCTGCTGTAT
* * *
8942790 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATT TATT TATT
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * * *
8942838 TATC TATT TATT TATA TTTA TATT TATA TA
1 TATA TATA TATA TATA TATA TATA TATA TA
8942868 CCGAATAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 66 1.00
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (4 bp):
TATA
Found at i:8947754 original size:14 final size:16
Alignment explanation
Indices: 8947718--8947754 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
8947708 TTATAAAGCC
8947718 AAAAAAATTATTTTGG
1 AAAAAAATTATTTTGG
*
8947734 GAAAAAA-T-TTTTGG
1 AAAAAAATTATTTTGG
8947748 AAAAAAA
1 AAAAAAA
8947755 AGCGATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 12 0.63
15 1 0.05
16 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.30
Consensus pattern (16 bp):
AAAAAAATTATTTTGG
Found at i:8949351 original size:18 final size:18
Alignment explanation
Indices: 8949328--8949411 Score: 71
Period size: 18 Copynumber: 4.7 Consensus size: 18
8949318 TATCCACCAT
*
8949328 AATGTATCTTCCACCTCA
1 AATGTATCATCCACCTCA
*
8949346 AATGTATCATCTACCTCA
1 AATGTATCATCCACCTCA
* ** *
8949364 AAAGTATCATTTACCACA
1 AATGTATCATCCACCTCA
* * *
8949382 ACTGTATC-CCCTACCACA
1 AATGTATCATCC-ACCTCA
8949400 AATGTATCATCC
1 AATGTATCATCC
8949412 TCAAATATAT
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
18 50 0.96
19 2 0.04
ACGTcount: A:0.33, C:0.31, G:0.06, T:0.30
Consensus pattern (18 bp):
AATGTATCATCCACCTCA
Found at i:8949837 original size:6 final size:6
Alignment explanation
Indices: 8949826--8949853 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8949816 ATAAGAGTTT
8949826 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
8949854 TACATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:8950738 original size:5 final size:5
Alignment explanation
Indices: 8950728--8950785 Score: 57
Period size: 5 Copynumber: 12.0 Consensus size: 5
8950718 ATTAGTAAAA
* * * *
8950728 GAAAG GAAAG GAAAG TAAAG TAAA- GAAAG GGAAG GGAAG GAAA- GAAAG
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG
*
8950776 TAAAG GAAAG
1 GAAAG GAAAG
8950786 AAAAAAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
4 7 0.16
5 38 0.84
ACGTcount: A:0.59, C:0.00, G:0.36, T:0.05
Consensus pattern (5 bp):
GAAAG
Found at i:8950754 original size:24 final size:23
Alignment explanation
Indices: 8950725--8950785 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
8950715 AATATTAGTA
*
8950725 AAAGAAAGGAAAGGAAAGTAAAG
1 AAAGAAAGGAAAGGAAAGGAAAG
* *
8950748 TAAAGAAAGGGAAGGGAAGGAAAG
1 -AAAGAAAGGAAAGGAAAGGAAAG
8950772 AAAGTAAAGGAAAG
1 AAAG-AAAGGAAAG
8950786 AAAAAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 4 0.12
24 28 0.88
ACGTcount: A:0.61, C:0.00, G:0.34, T:0.05
Consensus pattern (23 bp):
AAAGAAAGGAAAGGAAAGGAAAG
Done.