Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 118 of 160
Found at i:22108225 original size:65 final size:64
Alignment explanation
Indices: 22108094--22108225 Score: 164
Period size: 66 Copynumber: 2.0 Consensus size: 64
22108084 AAAATAAAAT
* *
22108094 AAATAAAAATAAAAAATAAAAAATAAAAAACGAAAATAAAAAAATAAAAAAATTAAACAATCTTA
1 AAATAAAAATAAAAAATAAAAAATAAAAAAC-AAAATAAAAAAATAAAAAAAATAAACAATATTA
22108159 AAATAATAAA-AAATAAATAAAAAATAAAAATA-AAAAT-AAAAAATAAATAAAAAATAAA-AAT
1 AAATAA-AAATAAA-AAATAAAAAATAAAAA-ACAAAATAAAAAAAT-AA-AAAAAATAAACAAT
22108220 ATTA
61 ATTA
22108224 AA
1 AA
22108226 CAATCCTAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
64 7 0.12
65 24 0.40
66 28 0.47
67 1 0.02
ACGTcount: A:0.79, C:0.02, G:0.01, T:0.18
Consensus pattern (64 bp):
AAATAAAAATAAAAAATAAAAAATAAAAAACAAAATAAAAAAATAAAAAAAATAAACAATATTA
Found at i:22108226 original size:75 final size:78
Alignment explanation
Indices: 22108089--22108242 Score: 235
Period size: 75 Copynumber: 2.0 Consensus size: 78
22108079 TAAAGAAAAT
22108089 AAAATAAATAAAAATAAAAAATAAAAAATAAAAAACGAAAATAAAAAAATAAAAAAATTAAACAA
1 AAAATAAATAAAAATAAAAAATAAAAAATAAAAAAC-AAAATAAAAAAATAAAAAAATTAAACAA
*
22108154 TCTTAAAATAATAA
65 TCCTAAAATAATAA
* *
22108168 AAAATAAATAAAAA-ATAAAAAT-AAAAATAAAAAA-TAAAT-AAAAAATAAAAATATTAAACAA
1 AAAATAAATAAAAATA-AAAAATAAAAAATAAAAAACAAAATAAAAAAATAAAAAAATTAAACAA
22108229 TCCTAAAATAATAA
65 TCCTAAAATAATAA
22108243 TAATAAAAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
75 34 0.48
76 4 0.06
78 13 0.18
79 20 0.28
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.19
Consensus pattern (78 bp):
AAAATAAATAAAAATAAAAAATAAAAAATAAAAAACAAAATAAAAAAATAAAAAAATTAAACAAT
CCTAAAATAATAA
Found at i:22108260 original size:24 final size:23
Alignment explanation
Indices: 22108086--22108260 Score: 93
Period size: 24 Copynumber: 7.7 Consensus size: 23
22108076 ATTTAAAGAA
22108086 AATAAAATAAATAAAAAT-AAAA-
1 AATAAAA-AAATAAAAATAAAAAT
**
22108108 AAT-AAAAAATAAAAA-ACGAA-
1 AATAAAAAAATAAAAATAAAAAT
*
22108128 AATAAAAAAATAAAAA-AATTAAAC
1 AATAAAAAAATAAAAATAA--AAAT
*** *
22108152 AATCTTAAAAT-AATA-AAAAAT
1 AATAAAAAAATAAAAATAAAAAT
22108173 AA-ATAAAAAATAAAAATAAAAAT
1 AATA-AAAAAATAAAAATAAAAAT
22108196 AA-AAAATAAATAAAAAATAAAAAT
1 AATAAAA-AAAT-AAAAATAAAAAT
* * * *
22108220 -ATTAAACAATCCTAAAATAATAAT
1 AATAAAAAAAT--AAAAATAAAAAT
22108244 AATAAAAAAATGAAAAA
1 AATAAAAAAAT-AAAAA
22108261 AAAGAAAAAC
Statistics
Matches: 118, Mismatches: 22, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
20 14 0.12
21 26 0.22
22 9 0.08
23 24 0.20
24 37 0.31
25 8 0.07
ACGTcount: A:0.77, C:0.03, G:0.01, T:0.19
Consensus pattern (23 bp):
AATAAAAAAATAAAAATAAAAAT
Found at i:22108263 original size:75 final size:75
Alignment explanation
Indices: 22108084--22108269 Score: 220
Period size: 75 Copynumber: 2.5 Consensus size: 75
22108074 TTATTTAAAG
* *
22108084 AAAATAA-AATAA-ATAAAAATAAAAAATAAAAAATAAAAAACGAAAATAAAAAAATAAAAAAAT
1 AAAATAATAATAATAAAAAAATAAAAAAAAAAAAATAAAAAAC-AAAATAAAAAAATAAAAAAAT
*
22108147 TAAACAATCTT
65 TAAACAATCCT
* * * *
22108158 AAAATAATAAAAAATAAATAAAA-AATAAAAATAAAAATAAAAAA-TAAAT-AAAAAATAAAAAT
1 AAAATAAT-AATAATAAA-AAAATAA-AAAAAAAAAAATAAAAAACAAAATAAAAAAATAAAAAA
22108220 ATTAAACAATCCT
63 ATTAAACAATCCT
22108233 AAAATAATAATAATAAAAAAATGAAAAAAAAGAAAAA
1 AAAATAATAATAATAAAAAAAT-AAAAAAAA-AAAAA
22108270 CTTGGAACGG
Statistics
Matches: 95, Mismatches: 9, Indels: 15
0.80 0.08 0.13
Matches are distributed among these distances:
73 4 0.04
74 20 0.21
75 39 0.41
76 8 0.08
77 4 0.04
78 20 0.21
ACGTcount: A:0.77, C:0.03, G:0.02, T:0.18
Consensus pattern (75 bp):
AAAATAATAATAATAAAAAAATAAAAAAAAAAAAATAAAAAACAAAATAAAAAAATAAAAAAATT
AAACAATCCT
Found at i:22108609 original size:23 final size:25
Alignment explanation
Indices: 22108594--22108711 Score: 84
Period size: 26 Copynumber: 4.7 Consensus size: 25
22108584 ATAAAACTAT
22108594 TAATAGATAAATAATAATAATAATAA
1 TAATAGATAAATAATAATAATAAT-A
*
22108620 TAATAGATAAATAATAAT-ATGTATA
1 TAATAGATAAATAATAATAAT-AATA
* * * *
22108645 TCAACAGATACATAATAAAAATGA-A
1 T-AATAGATAAATAATAATAATAATA
* *
22108670 -AATA-AAAAATATATATTAATAGATA
1 TAATAGATAAATA-ATAATAATA-ATA
22108695 GTAATA-ATAAATAATAA
1 -TAATAGATAAATAATAA
22108712 GTAACTAAGA
Statistics
Matches: 71, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
22 5 0.07
23 9 0.13
24 1 0.01
25 6 0.08
26 38 0.54
27 12 0.17
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.30
Consensus pattern (25 bp):
TAATAGATAAATAATAATAATAATA
Found at i:22108611 original size:3 final size:3
Alignment explanation
Indices: 22108603--22108638 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
22108593 TTAATAGATA
22108603 AAT AAT AAT AAT AAT AAT AAT AGAT AAAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT A
22108639 TGTATATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 26 0.84
4 4 0.13
5 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22108617 original size:20 final size:20
Alignment explanation
Indices: 22108577--22108638 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
22108567 AAAAAAAAAT
*
22108577 TAGATAAATAA-AACTATTAA
1 TAGATAAATAATAA-TAATAA
22108597 TAGATAAATAATAATAATAA
1 TAGATAAATAATAATAATAA
22108617 TA-AT-AATAGATAAATAATAA
1 TAGATAAATA-AT-AATAATAA
22108637 TA
1 TA
22108639 TGTATATCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
18 4 0.11
19 4 0.11
20 28 0.74
21 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (20 bp):
TAGATAAATAATAATAATAA
Found at i:22108685 original size:40 final size:43
Alignment explanation
Indices: 22108613--22108711 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 43
22108603 AATAATAATA
* * *
22108613 ATAATAATAATAGATAAATAATAATATGTATATCAACAGATAC
1 ATAATAAAAATAGATAAATAATAAAATATATATCAACAGATAC
* *
22108656 ATAATAAAAAT-GA-AAATAA-AAAATATATATTAATAGATA-
1 ATAATAAAAATAGATAAATAATAAAATATATATCAACAGATAC
*
22108695 GTAATAATAAATA-ATAA
1 ATAATAA-AAATAGATAA
22108712 GTAACTAAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
39 6 0.13
40 21 0.45
41 8 0.17
42 2 0.04
43 10 0.21
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (43 bp):
ATAATAAAAATAGATAAATAATAAAATATATATCAACAGATAC
Found at i:22109355 original size:62 final size:58
Alignment explanation
Indices: 22109269--22109461 Score: 266
Period size: 62 Copynumber: 3.3 Consensus size: 58
22109259 GTTTTTGTGC
22109269 CCCAAAAATATTCTTTTG-AAACTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTT
1 CCCAAAAATATT-TTTTGAAAACTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTT
*
22109327 CCCAAAAATATTTTTTGAAAAAAAACTTTAATTTCGAGAAAAATTGATACTTTCAACTTTTT
1 CCCAAAAATATTTTTTG----AAAACTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTT
* * * *
22109389 CTCAAAAACT-TTTTTTGAAAA-TTTATTTTTAAGAAAAATTGATACTTTCAACTTTTC
1 CCCAAAAA-TATTTTTTGAAAACTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTT
22109446 CCCAAAAATATTTTTT
1 CCCAAAAATATTTTTT
22109462 TGGATTTTAT
Statistics
Matches: 121, Mismatches: 7, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
56 1 0.01
57 50 0.41
58 16 0.13
62 53 0.44
63 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (58 bp):
CCCAAAAATATTTTTTGAAAACTTTAATTTCAAGAAAAATTGATACTTTCAACTTTTT
Found at i:22109534 original size:6 final size:6
Alignment explanation
Indices: 22109525--22109596 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
22109515 AAAAATTAGG
* *
22109525 AAAAAT AAAAA- AATAAA- AAAAAT AAAGAAA AGTAAAAC AAAAAT AAAAAT
1 AAAAAT AAAAAT AA-AAAT AAAAAT AAA-AAT A--AAAAT AAAAAT AAAAAT
*
22109575 -AAAAT AAAGAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAA
22109597 ATATTAAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
5 10 0.18
6 37 0.67
7 3 0.05
8 3 0.05
9 2 0.04
ACGTcount: A:0.82, C:0.01, G:0.04, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:22109554 original size:27 final size:27
Alignment explanation
Indices: 22109508--22109597 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
22109498 AATAAAAGAG
* *
22109508 AAAAT-AAAAAAATTAGGAAAAATAAA
1 AAAATAAAAAAAATAAAGAAAAATAAA
*
22109534 AAAATAAAAAAAATAAAGAAAAGTAAA
1 AAAATAAAAAAAATAAAGAAAAATAAA
* * * *
22109561 ACAAA-AATAAAAATAAA-ATAAAGATA
1 A-AAATAAAAAAAATAAAGAAAAATAAA
22109587 AAAATAAAAAA
1 AAAATAAAAAA
22109598 TATTAAATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
25 3 0.06
26 16 0.31
27 30 0.58
28 3 0.06
ACGTcount: A:0.80, C:0.01, G:0.06, T:0.13
Consensus pattern (27 bp):
AAAATAAAAAAAATAAAGAAAAATAAA
Found at i:22109604 original size:27 final size:25
Alignment explanation
Indices: 22109483--22109597 Score: 83
Period size: 26 Copynumber: 4.4 Consensus size: 25
22109473 TAAGGAAAAT
* *
22109483 AAAATAATAAAACAA-AATAAAAGA-G
1 AAAATAA-AAAA-AATAAAAAAAGATA
* * * *
22109508 AAAATAAAAAAATTAGGAAAAATAAA
1 AAAATAAAAAAAATA-AAAAAAGATA
22109534 AAAATAAAAAAAATAAAGAAAAG-TA
1 AAAATAAAAAAAATAAA-AAAAGATA
*
22109559 AAACAAAAATAAAAATAAAATAAAGATA
1 AAA-ATAAA-AAAAATAAAA-AAAGATA
22109587 AAAATAAAAAA
1 AAAATAAAAAA
22109598 TATTAAATAA
Statistics
Matches: 71, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
23 1 0.01
24 5 0.07
25 17 0.24
26 26 0.37
27 17 0.24
28 5 0.07
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.13
Consensus pattern (25 bp):
AAAATAAAAAAAATAAAAAAAGATA
Found at i:22109614 original size:26 final size:23
Alignment explanation
Indices: 22109525--22109616 Score: 66
Period size: 24 Copynumber: 4.0 Consensus size: 23
22109515 AAAAATTAGG
*
22109525 AAAAAT-AAA-AAA-ATAAAAAA
1 AAAAATAAAATAAACATAAAAAT
* *
22109545 AATAAAGAAAAGTAAA-ACAAAAAT
1 AA-AAATAAAA-TAAACATAAAAAT
*
22109569 AAAAATAAAATAAAGATAAAAAT
1 AAAAATAAAATAAACATAAAAAT
*
22109592 AAAAAATATTAAATAAACCTAAAAA
1 -AAAAATA--AAATAAACATAAAAA
22109617 AGTAAATAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.04
21 3 0.05
22 7 0.12
23 14 0.25
24 18 0.32
26 13 0.23
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.15
Consensus pattern (23 bp):
AAAAATAAAATAAACATAAAAAT
Found at i:22109638 original size:9 final size:9
Alignment explanation
Indices: 22109620--22109649 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
22109610 CTAAAAAAGT
*
22109620 AAATAAATA
1 AAATATATA
22109629 AAATATATA
1 AAATATATA
22109638 AAATATATA
1 AAATATATA
22109647 AAA
1 AAA
22109650 AGAGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AAATATATA
Found at i:22110190 original size:14 final size:15
Alignment explanation
Indices: 22110171--22110200 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22110161 AATTTTCCAG
22110171 AAATTTC-CAGAAAA
1 AAATTTCACAGAAAA
22110185 AAATTTCACAGAAAA
1 AAATTTCACAGAAAA
22110200 A
1 A
22110201 TCTCCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (15 bp):
AAATTTCACAGAAAA
Found at i:22110662 original size:15 final size:16
Alignment explanation
Indices: 22110642--22110682 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
22110632 TAAATAGTAG
22110642 TAATAAATAAATAA-A
1 TAATAAATAAATAAGA
*
22110657 TAATAAATACATAAGA
1 TAATAAATAAATAAGA
22110673 TAA-AAATAAA
1 TAATAAATAAA
22110683 AGAAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (16 bp):
TAATAAATAAATAAGA
Found at i:22110729 original size:48 final size:51
Alignment explanation
Indices: 22110654--22110780 Score: 137
Period size: 48 Copynumber: 2.6 Consensus size: 51
22110644 ATAAATAAAT
* *
22110654 AAATAATAAATACAT-AAGATAAAAATAAAA-GAAA-AAAAATATAAAA-A-A
1 AAATAAT-AATA-ATAAAAATAAAAATAAAATAAAATAAAAATATAAAATATA
*
22110702 ACAATAATAATAATAAAAATAAAAATAAAATAAAATAAAAATGTAAAATATA
1 A-AATAATAATAATAAAAATAAAAATAAAATAAAATAAAAATATAAAATATA
22110754 AAAT-ATAA-AA-AAAAATAAAAA-AAAATA
1 AAATAATAATAATAAAAATAAAAATAAAATA
22110781 CTTACCTATT
Statistics
Matches: 70, Mismatches: 3, Indels: 13
0.81 0.03 0.15
Matches are distributed among these distances:
47 8 0.11
48 30 0.43
49 11 0.16
50 15 0.21
51 4 0.06
52 2 0.03
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (51 bp):
AAATAATAATAATAAAAATAAAAATAAAATAAAATAAAAATATAAAATATA
Found at i:22110754 original size:25 final size:22
Alignment explanation
Indices: 22110672--22110780 Score: 96
Period size: 24 Copynumber: 4.6 Consensus size: 22
22110662 AATACATAAG
*
22110672 ATAAAAATAAAAGAAAA-AAAA
1 ATAAAAATAAAATAAAATAAAA
*
22110693 TATAAAAAAACAATAATAATAATAAAA
1 -AT--AAAAATAA-AATAA-AATAAAA
22110720 ATAAAAATAAAATAAAATAAAA
1 ATAAAAATAAAATAAAATAAAA
*
22110742 ATGTAAAATATAAAATATAAAAAAAA
1 A--TAAAA-ATAAAATA-AAATAAAA
22110768 ATAAAAA-AAAATA
1 ATAAAAATAAAATA
22110781 CTTACCTATT
Statistics
Matches: 74, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
22 16 0.22
23 6 0.08
24 24 0.32
25 12 0.16
26 12 0.16
27 4 0.05
ACGTcount: A:0.79, C:0.01, G:0.02, T:0.18
Consensus pattern (22 bp):
ATAAAAATAAAATAAAATAAAA
Found at i:22113448 original size:240 final size:240
Alignment explanation
Indices: 22113025--22113501 Score: 841
Period size: 240 Copynumber: 2.0 Consensus size: 240
22113015 AACACAAGAT
* *
22113025 TATATATATATACCTTGAAATTTCAAAATACAAAGACAAGTAGAGGGAAGGGGGGAAAGGGGAGG
1 TATATATATATACCTTGAAATTTCAAAATACAAAGACAAGTAAAGGGAAGGGGGGAAAGGGAAGG
* *
22113090 GAGAGGAATCATTTGTCAGCAATTTCGCTCACATTGACAAATTGCATAATGCAAGGGAAAATATG
66 GAGAGGAACCATTTGTCAGCAATTTCGCTCACATTGACAAATTGCATAATGCAAGGGAAAATATA
* *
22113155 TTCGTGAAGTTTCACATGATACTCTTTACTTTATAATTAGTCATCAATTGCGAGGATGATGTGGC
131 TTCGTAAAGTTTCACATGATACTCTTTACTTTATAATTAGTCATCAATTGCGAGGACGATGTGGC
*
22113220 TTTCATGGACCTTGCTT-GCTTTTTATAGGCATTTTCTTCTATCTA
196 TTTCATGGACCTTG-TTCGCCTTTTATAGGCATTTTCTTCTATCTA
*
22113265 TATATATATATACCTTGAAATTTCAAAATAC-AAGAACAAGTAAAGGGAAGTGGGGAAAGGGAAG
1 TATATATATATACCTTGAAATTTCAAAATACAAAG-ACAAGTAAAGGGAAGGGGGGAAAGGGAAG
22113329 GGAGAGGAACCATTTGTCAGCAATTTCGCTCACATTGACAAATTGCATAATGCAAGGGAAAATAT
65 GGAGAGGAACCATTTGTCAGCAATTTCGCTCACATTGACAAATTGCATAATGCAAGGGAAAATAT
*
22113394 ATTCGTAAAGTTTCACATGCTACTCTTTACTTTATAATTAGTCATCAATTGCGAGGACGATGTGG
130 ATTCGTAAAGTTTCACATGATACTCTTTACTTTATAATTAGTCATCAATTGCGAGGACGATGTGG
22113459 CTTTCATGGACCTTGTTCGCCTTTTATAGGCATTTTCTTCTAT
195 CTTTCATGGACCTTGTTCGCCTTTTATAGGCATTTTCTTCTAT
22113502 ATTTCAGTGT
Statistics
Matches: 226, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
239 5 0.02
240 221 0.98
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (240 bp):
TATATATATATACCTTGAAATTTCAAAATACAAAGACAAGTAAAGGGAAGGGGGGAAAGGGAAGG
GAGAGGAACCATTTGTCAGCAATTTCGCTCACATTGACAAATTGCATAATGCAAGGGAAAATATA
TTCGTAAAGTTTCACATGATACTCTTTACTTTATAATTAGTCATCAATTGCGAGGACGATGTGGC
TTTCATGGACCTTGTTCGCCTTTTATAGGCATTTTCTTCTATCTA
Found at i:22117299 original size:18 final size:17
Alignment explanation
Indices: 22117266--22117301 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
22117256 TTTTTCTTTG
22117266 AGAAAAAAAAGAAGAAA
1 AGAAAAAAAAGAAGAAA
*
22117283 AGAAAATAAAGGAAGAAA
1 AGAAAA-AAAAGAAGAAA
22117301 A
1 A
22117302 AACCATACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (17 bp):
AGAAAAAAAAGAAGAAA
Found at i:22126555 original size:19 final size:19
Alignment explanation
Indices: 22126531--22126570 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
22126521 CTATTATTTC
*
22126531 AGATGTAATTCTTGCTGAA
1 AGATGTAATTCTTGCCGAA
22126550 AGATGTAATTCTTGCCGAA
1 AGATGTAATTCTTGCCGAA
22126569 AG
1 AG
22126571 TAATATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (19 bp):
AGATGTAATTCTTGCCGAA
Found at i:22127465 original size:33 final size:33
Alignment explanation
Indices: 22127383--22127466 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
22127373 TGAAGACCAA
* *
22127383 ACATACTAATACTACTACTTCAGAGACTCGTAG
1 ACATAATAATACTACTTCTTCAGAGACTCGTAG
* * *
22127416 ACATAATACTACTACTTCTTCAGATACTCGTTG
1 ACATAATAATACTACTTCTTCAGAGACTCGTAG
* *
22127449 ACATATTATTACTACTTC
1 ACATAATAATACTACTTC
22127467 AAATACTTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (33 bp):
ACATAATAATACTACTTCTTCAGAGACTCGTAG
Found at i:22127473 original size:30 final size:32
Alignment explanation
Indices: 22127391--22127478 Score: 99
Period size: 33 Copynumber: 2.8 Consensus size: 32
22127381 AAACATACTA
* *
22127391 ATACTACTACTTCAGAGACTCGTAGACATAAT
1 ATACTACTACTTCAGATACTCGTTGACATAAT
*
22127423 ACTACTACTTCTTCAGATACTCGTTGACAT-AT
1 A-TACTACTACTTCAGATACTCGTTGACATAAT
* * *
22127455 -TATTACTACTTCAAATACTTGTTG
1 ATACTACTACTTCAGATACTCGTTG
22127479 CCCTTGTTGC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
30 20 0.42
32 3 0.06
33 25 0.52
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (32 bp):
ATACTACTACTTCAGATACTCGTTGACATAAT
Found at i:22129475 original size:15 final size:16
Alignment explanation
Indices: 22129455--22129485 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22129445 ATTTCAACCT
22129455 TTTCATA-AAAAATAA
1 TTTCATATAAAAATAA
22129470 TTTCATATAAAAATAA
1 TTTCATATAAAAATAA
22129486 AAAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
TTTCATATAAAAATAA
Found at i:22134078 original size:18 final size:18
Alignment explanation
Indices: 22134055--22134106 Score: 52
Period size: 21 Copynumber: 2.8 Consensus size: 18
22134045 TTATTATTAT
22134055 TATTTCTCTCTTTTCTAC
1 TATTTCTCTCTTTTCTAC
*
22134073 TATTTCTTCTTCTTTTTCTTC
1 TATTTC-TC-TC-TTTTCTAC
*
22134094 TCTTTCT-TCTTTT
1 TATTTCTCTCTTTT
22134107 TTTTTTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 4 0.14
18 8 0.28
19 2 0.07
20 3 0.10
21 12 0.41
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTCTCTCTTTTCTAC
Found at i:22134082 original size:21 final size:21
Alignment explanation
Indices: 22134065--22134110 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
22134055 TATTTCTCTC
22134065 TTTTCTACTATTTCTTCTTCT
1 TTTTCTACTATTTCTTCTTCT
* * *
22134086 TTTTCTTCTCTTTCTTCTTTT
1 TTTTCTACTATTTCTTCTTCT
22134107 TTTT
1 TTTT
22134111 TTTTCATAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTCTACTATTTCTTCTTCT
Found at i:22134091 original size:9 final size:9
Alignment explanation
Indices: 22134079--22134115 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
22134069 CTACTATTTC
22134079 TTCTTCTTT
1 TTCTTCTTT
*
22134088 TTCTTCTCT
1 TTCTTCTTT
22134097 TTCTTCTTT
1 TTCTTCTTT
22134106 TT-TT-TTT
1 TTCTTCTTT
22134113 TTC
1 TTC
22134116 ATAAGTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
7 5 0.20
8 2 0.08
9 18 0.72
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (9 bp):
TTCTTCTTT
Found at i:22135177 original size:22 final size:21
Alignment explanation
Indices: 22135131--22135191 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
22135121 ATTTTTCAAT
* * *
22135131 TTTACTTTATTTTTATTATTA
1 TTTATTTTATTTTTGTGATTA
*
22135152 TTTATTCTTATTTTTGTGATTG
1 TTTATT-TTATTTTTGTGATTA
22135174 TTTATTTT-TTTTGTGTGA
1 TTTATTTTATTTT-TGTGA
22135192 ACTTGATGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.12
21 12 0.35
22 18 0.53
ACGTcount: A:0.16, C:0.03, G:0.10, T:0.70
Consensus pattern (21 bp):
TTTATTTTATTTTTGTGATTA
Found at i:22136506 original size:37 final size:38
Alignment explanation
Indices: 22136437--22136510 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 38
22136427 TTGTATGTTG
* *
22136437 TGAGTTCAATTGCCATTATATAGATTTAGGTTATTTTA
1 TGAGTTCAATAGCCATTATATACATTTAGGTTATTTTA
* *
22136475 TGAGTTCAATAGTCATT-TTTACATTTAGGTTATTTT
1 TGAGTTCAATAGCCATTATATACATTTAGGTTATTTT
22136511 GTTATATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (38 bp):
TGAGTTCAATAGCCATTATATACATTTAGGTTATTTTA
Found at i:22137795 original size:30 final size:29
Alignment explanation
Indices: 22137707--22137821 Score: 97
Period size: 31 Copynumber: 3.8 Consensus size: 29
22137697 ATAAATCTTT
* * *
22137707 TTTTTAAAATGTTATGAAAATTTTACTTAAA
1 TTTTTGAAATGATATG-AAATTTTA-TTTAA
* * * *
22137738 ATTTTAAAATGATATGAAGTTTTTTATTAA
1 TTTTTGAAATGATATGAAATTTTAT-TTAA
*
22137768 TTCTTT-AAATTGATATAGAGATTTTATTTAA
1 TT-TTTGAAA-TGATAT-GAAATTTTATTTAA
22137799 TTTTTGAAATGATATGAAATTTT
1 TTTTTGAAATGATATGAAATTTT
22137822 TGTAAAAAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
29 8 0.12
30 22 0.32
31 32 0.46
32 7 0.10
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (29 bp):
TTTTTGAAATGATATGAAATTTTATTTAA
Found at i:22139845 original size:34 final size:36
Alignment explanation
Indices: 22139807--22139884 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 36
22139797 CATTTATATC
* *
22139807 ATAAAAATACTGTTAA-TTTAATGATGTTT-TTATG
1 ATAAAAACACTGCTAATTTTAATGATGTTTGTTATG
* * *
22139841 ATAAAAACGCTGCTAATTTTAGTGGTGTTTGTTATG
1 ATAAAAACACTGCTAATTTTAATGATGTTTGTTATG
*
22139877 ATACAAAC
1 ATAAAAAC
22139885 GCCACTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
34 13 0.36
35 11 0.31
36 12 0.33
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (36 bp):
ATAAAAACACTGCTAATTTTAATGATGTTTGTTATG
Found at i:22140734 original size:50 final size:50
Alignment explanation
Indices: 22140680--22140780 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
22140670 TCAAATTTTG
*
22140680 CATGTTGACAAAACCATCAGATACTATTTTAATCTCAGTAGCCATTTTCT
1 CATGTTGACAAAACCATCAGATACTATTTCAATCTCAGTAGCCATTTTCT
* * *
22140730 CATGTTGACAAAACTATTAGATGCTATTTCAATCTCAGTAGCCATTTTCT
1 CATGTTGACAAAACCATCAGATACTATTTCAATCTCAGTAGCCATTTTCT
22140780 C
1 C
22140781 TTTCACTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.37
Consensus pattern (50 bp):
CATGTTGACAAAACCATCAGATACTATTTCAATCTCAGTAGCCATTTTCT
Found at i:22144926 original size:21 final size:21
Alignment explanation
Indices: 22144902--22144947 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
22144892 ATTCGTCACT
22144902 TTGAATATCAAG-ATCACCAAC
1 TTGAATATC-AGTATCACCAAC
*
22144923 TTGAGTATCAGTATCACCAAC
1 TTGAATATCAGTATCACCAAC
22144944 TTGA
1 TTGA
22144948 GTAATATGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (21 bp):
TTGAATATCAGTATCACCAAC
Found at i:22148375 original size:35 final size:35
Alignment explanation
Indices: 22148313--22148381 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
22148303 ATATATAAAC
* * *
22148313 CAAATGTTTTCTGGGCATAAATATACAACTGACTT
1 CAAATGTTTTCTAGACATAAACATACAACTGACTT
* *
22148348 CAAATGTTTTCTAGACATAAACCTACAATTGACT
1 CAAATGTTTTCTAGACATAAACATACAACTGACT
22148382 CACATATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (35 bp):
CAAATGTTTTCTAGACATAAACATACAACTGACTT
Found at i:22148486 original size:53 final size:52
Alignment explanation
Indices: 22148423--22148529 Score: 121
Period size: 52 Copynumber: 2.0 Consensus size: 52
22148413 GGGATTACTA
* *
22148423 AAGGCATTTTT-ATCCAAAAAATACCTTGAATAAT-TCTCA-ACAAAATGTTATTG
1 AAGGCATTTTTGA-CC-AAAAATACCTTCAATAATCCCTCATA-AAAAT-TTATTG
* *
22148476 AAGGCGTTTTTGACCAAAATTACCTTCAATAATCCCTCATAAAAATTTATTG
1 AAGGCATTTTTGACCAAAAATACCTTCAATAATCCCTCATAAAAATTTATTG
22148528 AA
1 AA
22148530 TGGATTATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
52 24 0.51
53 21 0.45
54 2 0.04
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (52 bp):
AAGGCATTTTTGACCAAAAATACCTTCAATAATCCCTCATAAAAATTTATTG
Found at i:22148607 original size:62 final size:60
Alignment explanation
Indices: 22148518--22148730 Score: 178
Period size: 62 Copynumber: 3.4 Consensus size: 60
22148508 TCCCTCATAA
* * *
22148518 AAATTTATTGAATGGATTATTAAAGGCATTTTCGGTCAAAAATGCCTTCAAGAATCCATTTC
1 AAATTTATTGTATGGATTATTGAAGGCATTTTC-GTCAAAAATGCCTTCAATAATCC-TTTC
* * * * * *
22148580 AAATTTTTTGTATGGATTATTGAAGGCATTTTTGACCAAAATCGCCATCAATAATCCTTCATAA
1 AAATTTATTGTATGGATTATTGAAGGCATTTTCGTCAAAAAT-GCCTTCAATAATCCTT--T-C
* * *
22148644 AAATTTATTG-AGTGAATTATTGAAGGCATTTTTC-TACTAAAAATGCCTTTAATAATTCTTTTC
1 AAATTTATTGTA-TGGATTATTGAAGGCA-TTTTCGT-C-AAAAATGCCTTCAATAA-TCCTTTC
* *
22148707 AAATTTTTTTTTATGGATTATTGA
1 AAA-TTTATTGTATGGATTATTGA
22148731 GGTAGTTTTT
Statistics
Matches: 119, Mismatches: 21, Indels: 20
0.74 0.13 0.12
Matches are distributed among these distances:
61 9 0.08
62 41 0.34
63 5 0.04
64 40 0.34
65 15 0.13
66 9 0.08
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (60 bp):
AAATTTATTGTATGGATTATTGAAGGCATTTTCGTCAAAAATGCCTTCAATAATCCTTTC
Found at i:22148676 original size:64 final size:62
Alignment explanation
Indices: 22148470--22148699 Score: 223
Period size: 64 Copynumber: 3.6 Consensus size: 62
22148460 CAACAAAATG
* * *
22148470 TTATTGAAGGCGTTTTTGACCAAAATTACCTTCAATAATCCCTCATAAAAATTTATTGAATGGA
1 TTATTGAAGGCATTTTTGACCAAAA-TGCCTTCAATAATCCTTCATAAAAATTTATTG-ATGGA
* * * * * * *
22148534 TTATTAAAGGCATTTTCGGTCAAAAATGCCTTCAAGAATCCATT--T-CAAATTTTTTGTATGGA
1 TTATTGAAGGCATTTT-TGACCAAAATGCCTTCAATAATCC-TTCATAAAAATTTATTG-ATGGA
* *
22148596 TTATTGAAGGCATTTTTGACCAAAATCGCCATCAATAATCCTTCATAAAAATTTATTGAGTGAA
1 TTATTGAAGGCATTTTTGACCAAAAT-GCCTTCAATAATCCTTCATAAAAATTTATTGA-TGGA
* * *
22148660 TTATTGAAGGCATTTTTCTACTAAAAATGCCTTTAATAAT
1 TTATTGAAGGCATTTTT-GAC-CAAAATGCCTTCAATAAT
22148700 TCTTTTCAAA
Statistics
Matches: 133, Mismatches: 24, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
61 9 0.07
62 41 0.31
63 3 0.02
64 56 0.42
65 19 0.14
66 5 0.04
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (62 bp):
TTATTGAAGGCATTTTTGACCAAAATGCCTTCAATAATCCTTCATAAAAATTTATTGATGGA
Found at i:22148714 original size:126 final size:125
Alignment explanation
Indices: 22148470--22148730 Score: 353
Period size: 126 Copynumber: 2.1 Consensus size: 125
22148460 CAACAAAATG
* * * *
22148470 TTATTGAAGGCGTTTTTGACCAAAATTACCTTCAATAATCCCTCATAAAAATTTATTGAATGGAT
1 TTATTGAAGGCATTTTTGACCAAAATCACCATCAATAATCCCTCATAAAAATTTATTGAATGAAT
22148535 TATTAAAGGCATTTTCGGTCAAAAATGCCTTCAAGAATCCATTTCAAATTTTTTGTATGGA
66 TATTAAAGGCATTTTC-GTCAAAAATGCCTTCAAGAATCCATTTCAAATTTTTTGTATGGA
* * *
22148596 TTATTGAAGGCATTTTTGACCAAAATCGCCATCAATAATCCTTCATAAAAATTTATTGAGTGAAT
1 TTATTGAAGGCATTTTTGACCAAAATCACCATCAATAATCCCTCATAAAAATTTATTGAATGAAT
* * * * * *
22148661 TATTGAAGGCATTTTTC-TACTAAAAATGCCTTTAATAATTCTTTTCAAATTTTTTTTTATGGA
66 TATTAAAGGCA-TTTTCGT-C-AAAAATGCCTTCAAGAATCCATTTCAAA-TTTTTTGTATGGA
22148724 TTATTGA
1 TTATTGA
22148731 GGTAGTTTTT
Statistics
Matches: 118, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
125 1 0.01
126 69 0.58
127 29 0.25
128 19 0.16
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (125 bp):
TTATTGAAGGCATTTTTGACCAAAATCACCATCAATAATCCCTCATAAAAATTTATTGAATGAAT
TATTAAAGGCATTTTCGTCAAAAATGCCTTCAAGAATCCATTTCAAATTTTTTGTATGGA
Found at i:22148727 original size:64 final size:62
Alignment explanation
Indices: 22148529--22148730 Score: 185
Period size: 64 Copynumber: 3.2 Consensus size: 62
22148519 AATTTATTGA
* * * *
22148529 ATGGATTATTAAAGGCA-TTTTCGGT-CAAAAATGCCTTCAAGAATCCATTTCAAATTTTTTGT
1 ATGGATTATTGAAGGCATTTTTC--TACAAAAATGCCTTCAATAATCCTTTTCAAATTTTTTTT
* * * * * * * *
22148591 ATGGATTATTGAAGGCATTTTT-GACCAAAATCGCCATCAATAATCCTTCATAAAAATTTATTG
1 ATGGATTATTGAAGGCATTTTTCTACAAAAAT-GCCTTCAATAATCCTT-TTCAAATTTTTTTT
* * *
22148654 AGTGAATTATTGAAGGCATTTTTCTACTAAAAATGCCTTTAATAATTCTTTTCAAATTTTTTTTT
1 A-TGGATTATTGAAGGCATTTTTCTAC-AAAAATGCCTTCAATAATCCTTTTCAAA-TTTTTTTT
22148719 ATGGATTATTGA
1 ATGGATTATTGA
22148731 GGTAGTTTTT
Statistics
Matches: 108, Mismatches: 24, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
61 6 0.06
62 29 0.27
63 13 0.12
64 34 0.31
65 21 0.19
66 5 0.05
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (62 bp):
ATGGATTATTGAAGGCATTTTTCTACAAAAATGCCTTCAATAATCCTTTTCAAATTTTTTTT
Found at i:22150021 original size:24 final size:25
Alignment explanation
Indices: 22149976--22150022 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
22149966 TTGATGGAAT
*
22149976 AAAACTTGTAGGAAATTCGTTGCTA
1 AAAACTTGTACGAAATTCGTTGCTA
22150001 AAAACTTGATACG-AATT-GTTGC
1 AAAACTTG-TACGAAATTCGTTGC
22150023 CAATTTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 12 0.60
26 3 0.15
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (25 bp):
AAAACTTGTACGAAATTCGTTGCTA
Found at i:22150296 original size:12 final size:11
Alignment explanation
Indices: 22150247--22150298 Score: 50
Period size: 12 Copynumber: 4.4 Consensus size: 11
22150237 TCCCTATTCC
22150247 CTTTCCCTCTT
1 CTTTCCCTCTT
*
22150258 CTGTCCCCTCTT
1 CT-TTCCCTCTT
*
22150270 CATTTCTCCCCTT
1 C-TTTC-CCTCTT
22150283 CTTTCCCTCATT
1 CTTTCCCTC-TT
22150295 CTTT
1 CTTT
22150299 TTTCATTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
11 5 0.15
12 21 0.64
13 7 0.21
ACGTcount: A:0.04, C:0.44, G:0.02, T:0.50
Consensus pattern (11 bp):
CTTTCCCTCTT
Found at i:22150480 original size:60 final size:60
Alignment explanation
Indices: 22150409--22150561 Score: 159
Period size: 60 Copynumber: 2.5 Consensus size: 60
22150399 AGTTTAGGGT
* * * * * * *
22150409 TTAATTTTTTGTTTTAAATTTGTTGATGTTTTGGTTATCAATGTGTTAA-GTTTTTGTTAG
1 TTAATTATTTG-TTAAAATTTATTGAGGTTTTGGCTAACAATGTATTAAGGTTTTTGTTAG
* *
22150469 TTAATTATTTGTTAAAATTTATTTAGGTTTTGGCTAACAATTTATTAAGGTTTTTGTTAG
1 TTAATTATTTGTTAAAATTTATTGAGGTTTTGGCTAACAATGTATTAAGGTTTTTGTTAG
* *
22150529 TT--TTATGTTTGTTGAAATTTATTTAGGTTTTGG
1 TTAATTA--TTTGTTAAAATTTATTGAGGTTTTGG
22150562 TTATATATTT
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
58 3 0.04
59 29 0.36
60 48 0.60
ACGTcount: A:0.23, C:0.02, G:0.18, T:0.58
Consensus pattern (60 bp):
TTAATTATTTGTTAAAATTTATTGAGGTTTTGGCTAACAATGTATTAAGGTTTTTGTTAG
Found at i:22150577 original size:60 final size:58
Alignment explanation
Indices: 22150436--22150577 Score: 171
Period size: 60 Copynumber: 2.4 Consensus size: 58
22150426 ATTTGTTGAT
*
22150436 GTTTTGGTTATCAATGTGTTAA-GTTTTTGTTAGTTAATTATTTGTTAAAATTTATTTAG
1 GTTTTGGTTAT-AATTTGTTAAGGTTTTTGTTAGTT-ATTATTTGTTAAAATTTATTTAG
* * * *
22150495 GTTTTGGCTAACAATTTATTAAGGTTTTTGTTAGTT-TTATGTTTGTTGAAATTTATTTAG
1 GTTTTGG-TTATAATTTGTTAAGGTTTTTGTTAGTTATTA--TTTGTTAAAATTTATTTAG
22150555 GTTTTGGTTATATATTTGTTAAG
1 GTTTTGGTTATA-ATTTGTTAAG
22150578 ATTTGTTGAT
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
58 3 0.04
59 18 0.26
60 49 0.70
ACGTcount: A:0.24, C:0.02, G:0.18, T:0.56
Consensus pattern (58 bp):
GTTTTGGTTATAATTTGTTAAGGTTTTTGTTAGTTATTATTTGTTAAAATTTATTTAG
Found at i:22150662 original size:23 final size:24
Alignment explanation
Indices: 22150631--22150693 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
22150621 TAATGTTGAG
*
22150631 TATTATTAATTT-TTGTTTA-GATT
1 TATTTTTAATTTGTT-TTTAGGATT
22150654 TATTTTTAATATTGTTTTTAGGATT
1 TATTTTTAAT-TTGTTTTTAGGATT
* *
22150679 TTTTTTTTATTTGTT
1 TATTTTTAATTTGTT
22150694 GAGTTATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 9 0.26
24 11 0.32
25 14 0.41
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.70
Consensus pattern (24 bp):
TATTTTTAATTTGTTTTTAGGATT
Found at i:22152791 original size:42 final size:42
Alignment explanation
Indices: 22152732--22152815 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
22152722 TATTTTCTTG
*
22152732 AATATGGTAATTCCAAGAAAGAGTGGTCTAGGTCAAAATATA
1 AATATGGTAATTCCAAGAAAGAGTAGTCTAGGTCAAAATATA
*
22152774 AATATGGTAATTCCAAGAAAGAGTAGTTTAGGTCAAAATATA
1 AATATGGTAATTCCAAGAAAGAGTAGTCTAGGTCAAAATATA
22152816 GATGTTTTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.27
Consensus pattern (42 bp):
AATATGGTAATTCCAAGAAAGAGTAGTCTAGGTCAAAATATA
Found at i:22155285 original size:3 final size:3
Alignment explanation
Indices: 22155279--22155322 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
22155269 AGAAGAAAAA
*
22155279 GAT GAT GAT GAT GAT GAT GAT GAT GAT TAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
22155323 AACACATGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
GAT
Found at i:22155931 original size:3 final size:3
Alignment explanation
Indices: 22155925--22155990 Score: 89
Period size: 3 Copynumber: 22.0 Consensus size: 3
22155915 AGAAGAAGAA
* *
22155925 GAT GAT GAT GAT GAT GA- GAAT GAT GAT AAT GAT AAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT G-AT GAT GAT GAT GAT GAT GAT GAT GAT
*
22155970 GAT GAT AAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT
22155991 AAAACATATG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 1 0.02
3 53 0.96
4 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:22155950 original size:655 final size:655
Alignment explanation
Indices: 22154698--22155975 Score: 1789
Period size: 655 Copynumber: 2.0 Consensus size: 655
22154688 TGTCAATGGT
* * *
22154698 TTTAAATGTCGTATGGTTAACTATGGCCAAACTCAAAAAACGATGAATTATGGGGTATGTGTGCA
1 TTTAAATCTCATATGATTAACTATGGCCAAACTCAAAAAACGATGAATTATGGGGTATGTGTGCA
* * * * * *
22154763 AAGAAGTTGTTATAATGATTATGAATGTAACTTTTATAGTATCTTGAAATATATGATTGAATTAA
66 AAAAAGTTGTTACAATGACTATGAATGTAACTTTTATAGTATCTTGAAAGATATCATTAAATTAA
* *
22154828 AGTACTTTGAAACAGGGAATAAAGTTATGCTTTTTAAATGTCATTGGTTTGACACAGAGAAATGG
131 AGTACTTTGAAACAGGGAATAAAGTTATACTTTTTAAATGTCATTGGTTTGACACAGAGAAAGGG
*
22154893 GTAAGGGTAGATCCCTATCATGGTCTTATTGAAATTAAATATAATTCAATGCTTGCTAGCAAGGA
196 GTAAAGGTAGATCCCTATCATGGTCTTATTGAAATTAAATATAATTCAATGCTTGCTAGCAAGGA
* * * *
22154958 ACAATTTGTTTTAGCTTCGTAGGTACATTAAATTTCTTATACAAGTTATCCTTCTAGAAGAAGAG
261 ACAATTTGTTTTAGCTTCGCAAGTACATTAAATTTCCTATACAAGTTATCCTTCTAGAAGAAGAA
* * * * * * *
22155023 ATTGAGTAATTGGTGCGCAATCTTTAAAATAAAAGCTAAGAGTACATATCAAATAAGTAATATTG
326 ATCGAATAATTAGTGCGCAATCTTCAAAACAAAAGCTAAAAGTACATATCAAATAAGTAACATTG
* **
22155088 ATGGAGATGAAAAACAAACAACTCATTTAAACGAAAACGTGTTCCAAGAAGTTGAAATTTCTATT
391 ATGGAGATGAAAAACAAACAACTCATTTAAACGAAAAAGTACTCCAAGAAGTTGAAATTTCTATT
* * *
22155153 CCATGAAATGTTAATATCTTAAAAGAACATGATAGCCCTACACTTGTTGTGGCTAGTGAATATGA
456 CCATGAAATGTTAATATCTTAAAAGAACATGATAACCCTACACTTATTGTGACTAGTGAATATGA
* * *
22155218 AGAGATAGATTTAGCAAAAATGATTCGAGCTAAAAAACAAGAAAAGGAAAAAGAAGAAAAAGATG
521 AGAGACAGATTTAACAAAAATGATTCAAGCTAAAAAACAAGAAAAGGAAAAAGAAGAAAAAGATG
* * *
22155283 ATGATGATGATGATGATGATGATTATGATGATGATGATGAAACACATGAGTTTGCTTTTTTTAAT
586 ATGATGATGATGATAATGATAATGATGATGATGATGATGAAACACATGAGTTTGCTTTTTTTAAT
22155348 AACGA
651 AACGA
* *
22155353 TTTAAATCTCATATGATTAACTATGGTCAAACTCAAAAGACGATGAATTATGGGGTATGTGTGCA
1 TTTAAATCTCATATGATTAACTATGGCCAAACTCAAAAAACGATGAATTATGGGGTATGTGTGCA
* * *
22155418 AAAAAGTTGTTACAATGGCTATGAATGTGACTTTTATGGTATCTT-AGAAGATATCATTAAATTA
66 AAAAAGTTGTTACAATGACTATGAATGTAACTTTTATAGTATCTTGA-AAGATATCATTAAATTA
* * * *
22155482 AAGTACTTTGGAACAGTGAATAAAGTTATACTTTTTTAATGTCATTGGTTTGACAC-GAAGAAGG
130 AAGTACTTTGAAACAGGGAATAAAGTTATACTTTTTAAATGTCATTGGTTTGACACAG-AGAAAG
* *
22155546 GGGTAAAGGTATATCCCTATCATGGTCTTATTGAAATTAAATATAATTCAATGCTTGCTATCAAG
194 GGGTAAAGGTAGATCCCTATCATGGTCTTATTGAAATTAAATATAATTCAATGCTTGCTAGCAAG
* * * * *
22155611 GAACCATTTGTTTTAGCTTCGCAAGTGCATTAAGTTTCCTATATAAGTTATCTTTCTAGAAGAAG
259 GAACAATTTGTTTTAGCTTCGCAAGTACATTAAATTTCCTATACAAGTTATCCTTCTAGAAGAAG
* * *
22155676 AAATCGAAATGATTAGTG-GCAATCTTCAAAACAAAAG-TAAAAAGTACATATGAAGTAAGTAAC
324 AAATCG-AATAATTAGTGCGCAATCTTCAAAACAAAAGCT-AAAAGTACATATCAAATAAGTAAC
* * *
22155739 ATTGATGGAGAT-AAAGAACAACCAACTCATTTAAATGAAAAAGTACTCCAAGAAGTTGAAGTTT
387 ATTGATGGAGATGAAA-AACAAACAACTCATTTAAACGAAAAAGTACTCCAAGAAGTTGAAATTT
* ** ** * *
22155803 CTATTCCATGACATGTTGCTATCTTAAAAGAACATGATAATTCTACATTTATTGTGACTGGTGAA
451 CTATTCCATGAAATGTTAATATCTTAAAAGAACATGATAACCCTACACTTATTGTGACTAGTGAA
* * * * **
22155868 TATGAAGAGACAGATTTAACAGAAGTGATTTAAGCTAAAAAAC-A-AAAA-GAAGAAGAAGATGA
516 TATGAAGAGACAGATTTAACAAAAATGATTCAAGCTAAAAAACAAGAAAAGGAAAAAGAAGAAAA
*
22155930 TGATGATGATGAGAATGATGATAATGATAATGATGATGATGATGAT
581 AGATGATGAT--G-ATGATGATAATGATAATGATGATGATGATGAT
22155976 AATGATGATG
Statistics
Matches: 544, Mismatches: 71, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
652 20 0.04
653 4 0.01
654 8 0.01
655 504 0.93
656 8 0.01
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.31
Consensus pattern (655 bp):
TTTAAATCTCATATGATTAACTATGGCCAAACTCAAAAAACGATGAATTATGGGGTATGTGTGCA
AAAAAGTTGTTACAATGACTATGAATGTAACTTTTATAGTATCTTGAAAGATATCATTAAATTAA
AGTACTTTGAAACAGGGAATAAAGTTATACTTTTTAAATGTCATTGGTTTGACACAGAGAAAGGG
GTAAAGGTAGATCCCTATCATGGTCTTATTGAAATTAAATATAATTCAATGCTTGCTAGCAAGGA
ACAATTTGTTTTAGCTTCGCAAGTACATTAAATTTCCTATACAAGTTATCCTTCTAGAAGAAGAA
ATCGAATAATTAGTGCGCAATCTTCAAAACAAAAGCTAAAAGTACATATCAAATAAGTAACATTG
ATGGAGATGAAAAACAAACAACTCATTTAAACGAAAAAGTACTCCAAGAAGTTGAAATTTCTATT
CCATGAAATGTTAATATCTTAAAAGAACATGATAACCCTACACTTATTGTGACTAGTGAATATGA
AGAGACAGATTTAACAAAAATGATTCAAGCTAAAAAACAAGAAAAGGAAAAAGAAGAAAAAGATG
ATGATGATGATGATAATGATAATGATGATGATGATGATGAAACACATGAGTTTGCTTTTTTTAAT
AACGA
Found at i:22158570 original size:22 final size:21
Alignment explanation
Indices: 22158516--22158585 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
22158506 TTGATATTTT
*
22158516 ATGATGTTTTATGGATGTT--
1 ATGATGTTTGATGGATGTTAG
** *
22158535 ATGCAAATTTGATGGATGTTTG
1 ATG-ATGTTTGATGGATGTTAG
*
22158557 ATGTATGTTTGATGTATGTTAG
1 ATG-ATGTTTGATGGATGTTAG
22158579 ATGATGT
1 ATGATGT
22158586 ATTTCACGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 3 0.08
20 13 0.32
21 4 0.10
22 20 0.50
ACGTcount: A:0.24, C:0.01, G:0.27, T:0.47
Consensus pattern (21 bp):
ATGATGTTTGATGGATGTTAG
Found at i:22158587 original size:14 final size:11
Alignment explanation
Indices: 22158542--22158585 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
22158532 GTTATGCAAA
*
22158542 TTTGATGGATG
1 TTTGATGTATG
22158553 TTTGATGTATG
1 TTTGATGTATG
22158564 TTTGATGTATG
1 TTTGATGTATG
*
22158575 TTAGATG-ATG
1 TTTGATGTATG
22158585 T
1 T
22158586 ATTTCACGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
10 4 0.13
11 27 0.87
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (11 bp):
TTTGATGTATG
Found at i:22160440 original size:6 final size:6
Alignment explanation
Indices: 22160429--22160457 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
22160419 TCCTTAATTT
22160429 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
22160458 GTCAATGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:22160573 original size:61 final size:59
Alignment explanation
Indices: 22160473--22160923 Score: 291
Period size: 62 Copynumber: 7.2 Consensus size: 59
22160463 TGATTTTCCT
* * *
22160473 AAAATAAAATTTCCAAAAAAAAAAATTTTGTTGGAGAAAAGTTGAAAGTTTCAATTTTTCTTA
1 AAAATAAAATTTTC-AAAAAAAATA-TTT-TT-GAGAAAAGTTGAAAGTATCAATTTTTCTTA
*
22160536 AAAATAAAATTTTTCAGAAAAAAGTATTTTTGAGAAAAAGTTGAAAGTATCAA-TTTTCTTTA
1 AAAATAAAA-TTTTCA-AAAAAAATATTTTTGAG-AAAAGTTGAAAGTATCAATTTTTC-TTA
* * *
22160598 AAAATAAAAAATTTAAAATAAAAATTTTCAAAAATTATTTTGAGGAAAAGTTGAAAGTATTAATT
1 AAAAT-AAAATTTTCAAA-AAAAA---T-----A-T-TTTTGA-GAAAAGTTGAAAGTATCAATT
* *
22160663 TTCCTTG
53 TTTCTTA
* * * *
22160670 AAATTAAAA-CTTCAAAAAAAAATATTTTTGAGAAAAAGTTGGAAGTACCAATTTTTCTTA
1 AAAATAAAATTTTC-AAAAAAAATATTTTTGAG-AAAAGTTGAAAGTATCAATTTTTCTTA
* * * * * * * *
22160730 AGAATAAAAATTATCAAGAAAAACATTTTTAAAGAAAAGTTAAAAGTATCAATTTTTCATG
1 AAAAT-AAAATTTTCAAAAAAAATATTTTT-GAGAAAAGTTGAAAGTATCAATTTTTCTTA
* * * * * *
22160791 AAGATAAAAATTTC-TAAACAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAATTTTCAAAAAAAATATTTTTGA-GAAAAGTTGAAAGTATCAATTTTTCTTA
* ** * * *
22160850 AAATTAAAAGTTTAGAAAAAAAAGCATTCTTGAGAAAAAGTTTG-AAGTA-CAAATTTTCCTTA
1 AAAATAAAA-TTTTCAAAAAAAA-TATTTTTGAG-AAAAG-TTGAAAGTATC-AATTTTTCTTA
22160912 AAAATAAAATTT
1 AAAATAAAATTT
22160924 GAAGAAAAAA
Statistics
Matches: 304, Mismatches: 54, Indels: 62
0.72 0.13 0.15
Matches are distributed among these distances:
58 1 0.00
59 44 0.14
60 40 0.13
61 63 0.21
62 73 0.24
63 20 0.07
64 11 0.04
65 1 0.00
67 1 0.00
70 8 0.03
71 8 0.03
72 29 0.10
73 5 0.02
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.35
Consensus pattern (59 bp):
AAAATAAAATTTTCAAAAAAAATATTTTTGAGAAAAGTTGAAAGTATCAATTTTTCTTA
Found at i:22160614 original size:15 final size:15
Alignment explanation
Indices: 22160594--22160632 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
22160584 ATCAATTTTC
22160594 TTTAAAAATAAAAAA
1 TTTAAAAATAAAAAA
*
22160609 TTT-AAAATAAAAAT
1 TTTAAAAATAAAAAA
22160623 TTTCAAAAAT
1 TTT-AAAAAT
22160633 TATTTTGAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 13 0.62
15 3 0.14
16 5 0.24
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
TTTAAAAATAAAAAA
Found at i:22160678 original size:72 final size:74
Alignment explanation
Indices: 22160536--22160678 Score: 191
Period size: 72 Copynumber: 1.9 Consensus size: 74
22160526 ATTTTTCTTA
* *
22160536 AAAATAAAATTTTTCAGAAAAAAGTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTAAAA
1 AAAATAAAAATTTTC--AAAAAAGTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAA
22160601 ATAAAAAATTT
64 ATAAAAAATTT
* * * * *
22160612 AAAATAAAAATTTTC-AAAAATTA-TTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAATT
1 AAAATAAAAATTTTCAAAAAAGTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
22160675 AAAA
66 AAAA
22160679 CTTCAAAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
72 39 0.65
73 7 0.12
76 14 0.23
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.36
Consensus pattern (74 bp):
AAAATAAAAATTTTCAAAAAAGTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
AAAAAATTT
Found at i:22160697 original size:72 final size:73
Alignment explanation
Indices: 22160554--22160697 Score: 184
Period size: 72 Copynumber: 2.0 Consensus size: 73
22160544 ATTTTTCAGA
* * *
22160554 AAAAAGTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAAAATTTAAAATAA
1 AAAAAGTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAAATTCAAAAAAA
22160619 AAATTTTC
66 AAATTTTC
* * * * * *
22160627 AAAAATTA-TTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTT-GAAATTAAAACTTCAAAAAAA
1 AAAAAGTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAAATTCAAAAAAA
22160690 AATATTTT
66 AA-ATTTT
22160698 TGAGAAAAAG
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
71 18 0.30
72 36 0.59
73 7 0.11
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (73 bp):
AAAAAGTATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAAATTCAAAAAAA
AAATTTTC
Found at i:22160705 original size:59 final size:60
Alignment explanation
Indices: 22160627--22160970 Score: 256
Period size: 59 Copynumber: 5.7 Consensus size: 60
22160617 AAAAATTTTC
* * * *
22160627 AAAAATTA-TTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAATTAAAACTTCAAA
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAATTTCAAA
* * * * *
22160686 AAAAAATATTTTTGAGAAAAAGTTGGAAGTACCAATTTTTCTTAAGAATAAAAATTATC-AA
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGA-AATTAAAATT-TCAAA
* * * * * * * *
22160747 GAAAAACATTTTT-AAAGAAAAGTTAAAAGTATCAATTTTTCATGAAGATAAAAATTTC--T
1 AAAAAATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTCCTTGAA-ATTAAAATTTCAAA
* * * *
22160806 AAACAATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAAAAGTTT-AGAA
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAA-TTTCA-AA
* * * * * *
22160867 AAAAAAGCATTCTTGAGAAAAAGTTTG-AAGTA-CAAATTTTCCTTAAAAATAAAATTTGAAG
1 AAAAAA-TATTTTTGAGAAAAAG-TTGAAAGTATC-AATTTTCCTTGAAATTAAAATTTCAAA
** * * *
22160928 AAAAAAT-GCTTTAAGAAAAAGTTAAAAGTATCAGTTTTCCTTG
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
22160971 TAAAAGTAAT
Statistics
Matches: 225, Mismatches: 44, Indels: 32
0.75 0.15 0.11
Matches are distributed among these distances:
58 8 0.04
59 71 0.32
60 37 0.16
61 69 0.31
62 37 0.16
63 3 0.01
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (60 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAATTTCAAA
Found at i:22160852 original size:180 final size:179
Alignment explanation
Indices: 22160615--22160965 Score: 471
Period size: 180 Copynumber: 2.0 Consensus size: 179
22160605 AAAATTTAAA
*
22160615 ATAAAAATTTTCAAAAATTATTTTGAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAATTAAAAC
1 ATAAAAATTTTCAAAAATTATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAAC
* * * * *
22160680 TTCA-AAAAAAAA-TATTTTTGAGAAAAAGTTGGAAGTACCAATTTTTCTTAAGAATAAAAATTA
66 TTCAGAAAAAAAAGCATTCTTGAGAAAAAGTTGGAAGTACAAATTTTCCTTAAAAAT-AAAATT-
*
22160743 TCAAGAAAAACAT-TTTTAA-AGAAAAGTTAAAAGTATCAATTTTTCATGAAG
129 TCAAGAAAAA-ATGCTTTAAGA-AAAAGTTAAAAGTATCAATTTTTCATGAAG
* *
22160794 ATAAAAA-TTTCTAAACAA-TATTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAATTAA
1 ATAAAAATTTTC-AAA-AATTA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAA
* * *
22160857 AAGTTTAGAAAAAAAAGCATTCTTGAGAAAAAGTTTGAAGTACAAATTTTCCTTAAAAATAAAAT
63 AACTTCAGAAAAAAAAGCATTCTTGAGAAAAAGTTGGAAGTACAAATTTTCCTTAAAAATAAAAT
* *
22160922 TTGAAGAAAAAATGCTTTAAGAAAAAGTTAAAAGTATCAGTTTT
128 TTCAAGAAAAAATGCTTTAAGAAAAAGTTAAAAGTATCAATTTT
22160966 CCTTGTAAAA
Statistics
Matches: 151, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
178 4 0.03
179 14 0.09
180 81 0.54
181 15 0.10
182 37 0.25
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.34
Consensus pattern (179 bp):
ATAAAAATTTTCAAAAATTATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAAC
TTCAGAAAAAAAAGCATTCTTGAGAAAAAGTTGGAAGTACAAATTTTCCTTAAAAATAAAATTTC
AAGAAAAAATGCTTTAAGAAAAAGTTAAAAGTATCAATTTTTCATGAAG
Found at i:22160907 original size:120 final size:120
Alignment explanation
Indices: 22160690--22160907 Score: 255
Period size: 120 Copynumber: 1.8 Consensus size: 120
22160680 TTCAAAAAAA
* *
22160690 AATATTTTTGAGAAAAAGTTGGAAGTACCAATTTTTCTTAAGAATAAAAATTATCAAGAAAAACA
1 AATATTTTTGAGAAAAAGTTGAAAGTACCAATTTTTCTTAAGAATAAAAATTATCAAAAAAAACA
* *
22160755 TTTTTAAAGAAAAGTTAAAAGTATCAATTTTTCATGAAGATAAAAATTTCTAAAC
66 TTTTGAAAGAAAAGTTAAAAGTATCAAATTTTCATGAAGATAAAAATTTCTAAAC
* * * * * *
22160810 AATATTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTGAA-ATTAAAAGTT-TAGAAAAAAAA
1 AATATTTTTGAGAAAAAGTTGAAAGTACCAATTTTTCTT-AAGAATAAAAATTAT-CAAAAAAAA
* **
22160873 GCATTCTTGAGA-AAAAGTTTGAAGTA-CAAATTTTC
64 -CATT-TTGAAAGAAAAGTTAAAAGTATCAAATTTTC
22160908 CTTAAAAATA
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
119 1 0.01
120 58 0.72
121 18 0.22
122 4 0.05
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.34
Consensus pattern (120 bp):
AATATTTTTGAGAAAAAGTTGAAAGTACCAATTTTTCTTAAGAATAAAAATTATCAAAAAAAACA
TTTTGAAAGAAAAGTTAAAAGTATCAAATTTTCATGAAGATAAAAATTTCTAAAC
Found at i:22165609 original size:15 final size:15
Alignment explanation
Indices: 22165589--22165637 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
22165579 CTAACACTCA
22165589 ACCTTAAACCCCAAG
1 ACCTTAAACCCCAAG
*
22165604 ACCTTAGACCCCAAG
1 ACCTTAAACCCCAAG
22165619 ACC-T--ACCCCAAG
1 ACCTTAAACCCCAAG
22165631 ACCTTAA
1 ACCTTAA
22165638 CCTAAAGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 11 0.37
13 1 0.03
14 1 0.03
15 17 0.57
ACGTcount: A:0.37, C:0.41, G:0.08, T:0.14
Consensus pattern (15 bp):
ACCTTAAACCCCAAG
Found at i:22165628 original size:12 final size:13
Alignment explanation
Indices: 22165595--22165639 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 13
22165585 CTCAACCTTA
22165595 AACCCCAAGACCTT
1 AACCCCAAGACC-T
22165609 AGACCCCAAGACCT
1 A-ACCCCAAGACCT
22165623 -ACCCCAAGACCTT
1 AACCCCAAGACC-T
22165636 AACC
1 AACC
22165640 TAAAGGTATG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 11 0.39
13 1 0.04
14 5 0.18
15 11 0.39
ACGTcount: A:0.36, C:0.44, G:0.09, T:0.11
Consensus pattern (13 bp):
AACCCCAAGACCT
Found at i:22168532 original size:22 final size:22
Alignment explanation
Indices: 22168506--22168547 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22168496 GCTATGCTTG
*
22168506 ATAAAAAAAGAAAATAAAGAAA
1 ATAAAAAAAGAAAAAAAAGAAA
*
22168528 ATAAAAAAATAAAAAAAAGA
1 ATAAAAAAAGAAAAAAAAGA
22168548 CTCAAGGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (22 bp):
ATAAAAAAAGAAAAAAAAGAAA
Found at i:22169625 original size:44 final size:45
Alignment explanation
Indices: 22169551--22169773 Score: 265
Period size: 45 Copynumber: 5.0 Consensus size: 45
22169541 TGTCAATGAT
* * *
22169551 CTTTTTTTATTTTTCAAAAAGTCATTGAGCCTCTGATTAGAAGAG
1 CTTTATTTATTTTTCAAAAAGTCGTTGAGCCTCTGATTAGAGGAG
*
22169596 CTTTATTTATTTTTC-AAAAGTCGTTGAGCCTCTAATTAGAGGAG
1 CTTTATTTATTTTTCAAAAAGTCGTTGAGCCTCTGATTAGAGGAG
* *
22169640 CTTTATTTATTTTTCAAAAAGTCGTTGAACCTCTTATTAGAGGAG
1 CTTTATTTATTTTTCAAAAAGTCGTTGAGCCTCTGATTAGAGGAG
* * *
22169685 CTTTGTTTATGTTTT--AAAAGTCGTTGAGCTTATGATTAGAGGAG
1 CTTTATTTAT-TTTTCAAAAAGTCGTTGAGCCTCTGATTAGAGGAG
* *** * *
22169729 CATTATTT-TTTAAAAAAAAAGTAGTTGAGCCTCTGTTTAGAGGAG
1 CTTTATTTATTT-TTCAAAAAGTCGTTGAGCCTCTGATTAGAGGAG
22169774 TTTTGTTCAT
Statistics
Matches: 154, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
42 2 0.01
43 1 0.01
44 72 0.47
45 75 0.49
46 4 0.03
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (45 bp):
CTTTATTTATTTTTCAAAAAGTCGTTGAGCCTCTGATTAGAGGAG
Found at i:22169707 original size:89 final size:89
Alignment explanation
Indices: 22169551--22169780 Score: 277
Period size: 89 Copynumber: 2.6 Consensus size: 89
22169541 TGTCAATGAT
* * * * *
22169551 CTTTTTTTATTTTTCAAAAAGTCATTGAGCCTCTGATTAGAAGAGCTTTATTTATTTTTCAAAAG
1 CTTTATTTATTTTTCAAAAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTGTTTATTTTTCAAAAG
*
22169616 TCGTTGAGCCTCTAATTAGAGGAG
66 TCGTTGAGCCTATAATTAGAGGAG
*
22169640 CTTTATTTATTTTTCAAAAAGTCGTTGAACCTCTTATTAGAGGAGCTTTGTTTATGTTTT-AAAA
1 CTTTATTTATTTTTCAAAAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTGTTTAT-TTTTCAAAA
* *
22169704 GTCGTTGAGCTTATGATTAGAGGAG
65 GTCGTTGAGCCTATAATTAGAGGAG
* *** * *
22169729 CATTATTT-TTTAAAAAAAAAGTAGTTGAGCCTCTGT-TTAGAGGAGTTTTGTT
1 CTTTATTTATTT-TTCAAAAAGTCGTTGAGCCTCT-TATTAGAGGAGCTTTGTT
22169781 CATTCTAAAA
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
88 3 0.02
89 114 0.93
90 5 0.04
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (89 bp):
CTTTATTTATTTTTCAAAAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTGTTTATTTTTCAAAAG
TCGTTGAGCCTATAATTAGAGGAG
Found at i:22170014 original size:4 final size:4
Alignment explanation
Indices: 22169995--22170084 Score: 64
Period size: 4 Copynumber: 22.0 Consensus size: 4
22169985 AAATCAACCC
*
22169995 ATTT ATGTT GATTT ATTT ATTT A-TG ATTT ATTT ATATT ATTT ATTT -TATT
1 ATTT AT-TT -ATTT ATTT ATTT ATTT ATTT ATTT AT-TT ATTT ATTT AT-TT
*
22170045 ATTGT -TTT -TTT ATTT A-TC ATGATT ATTT ATTT ATTT ATTT
1 ATT-T ATTT ATTT ATTT ATTT AT--TT ATTT ATTT ATTT ATTT
22170085 TTATTCTGGT
Statistics
Matches: 71, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
3 9 0.13
4 47 0.66
5 10 0.14
6 5 0.07
ACGTcount: A:0.24, C:0.01, G:0.06, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:22170025 original size:11 final size:10
Alignment explanation
Indices: 22170008--22170044 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
22169998 TATGTTGATT
22170008 TATTTATTTA
1 TATTTATTTA
22170018 TGATTTATTTA
1 T-ATTTATTTA
22170029 TA-TTATTTA
1 TATTTATTTA
22170038 T-TTTATT
1 TATTTATT
22170045 ATTGTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 13 0.52
10 2 0.08
11 10 0.40
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (10 bp):
TATTTATTTA
Found at i:22170055 original size:14 final size:15
Alignment explanation
Indices: 22170005--22170058 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
22169995 ATTTATGTTG
*
22170005 ATTTA-TTTATTTATG
1 ATTTATTTTA-TTATT
22170020 ATTTA-TTTA-TATT
1 ATTTATTTTATTATT
22170033 ATTTATTTTATTATT
1 ATTTATTTTATTATT
*
22170048 GTTT-TTTTATT
1 ATTTATTTTATT
22170059 TATCATGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 8 0.23
14 11 0.31
15 16 0.46
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (15 bp):
ATTTATTTTATTATT
Found at i:22170071 original size:32 final size:31
Alignment explanation
Indices: 22170005--22170089 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 31
22169995 ATTTATGTTG
* *
22170005 ATTTATTTATTTATGATTTATTTATATTATTT
1 ATTTATTTATTTAT-TTTTATTTATATGATTT
*
22170037 ATTT-TATTATTGTTTTTTTATTTATCATGA-TT
1 ATTTAT-TTATT-TATTTTTATTTAT-ATGATTT
22170069 ATTTATTTATTTATTTTTATT
1 ATTTATTTATTTATTTTTATT
22170090 CTGGTTAGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
31 10 0.22
32 29 0.64
33 6 0.13
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.71
Consensus pattern (31 bp):
ATTTATTTATTTATTTTTATTTATATGATTT
Found at i:22171013 original size:6 final size:6
Alignment explanation
Indices: 22170978--22171025 Score: 51
Period size: 6 Copynumber: 7.3 Consensus size: 6
22170968 TAAATTAGAA
*
22170978 TTATTT TGTATTCT TTAATTT TTTTATT TTATTT TTATTT TTATTT TT
1 TTATTT T-TATT-T TT-ATTT TTAT-TT TTATTT TTATTT TTATTT TT
22171026 GTCAATGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
6 18 0.50
7 13 0.36
8 5 0.14
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:22171129 original size:59 final size:58
Alignment explanation
Indices: 22171066--22171400 Score: 212
Period size: 59 Copynumber: 5.5 Consensus size: 58
22171056 AAAAAAAAAA
*
22171066 TTTAGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAATTAAAACTTAAAAAAAACATTT
1 TTTA-GGAAAAGTTGAAAGTATCAATTTTCTTTGAAATTAAAAATTAAAAAAAACATTT
* *
22171125 TTTAGGAAAAGTT-AGAAGTACCAATTTTCCTCT-AGAA-TAAAAATTATCAAGAAAAACATTT
1 TTTAGGAAAAGTTGA-AAGTATCAATTTT-CTTTGA-AATTAAAAATTA--AA-AAAAACATTT
* * * ** *
22171186 TTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAGA-TAAAAATTTTTAAAAAATATTT
1 TTTAGGAAAAGTTGAAAGTATCAATTTTCTTTGAA-ATTAAAAA-TTAAAAAAAACATTT
* * **
22171245 TTGAGGAAAAATTGAAAGTATCAATTTTTTCTTGAAATTGAAAGTTCAGAAAAAAAAAAAAAACC
1 TTTAGGAAAAGTTGAAAGTATCAA--TTTTC-T----TTGAAA-TT-A-AAAATTAAAAAAAA-C
*
22171310 ATTC
55 ATTT
* * * * * * * * *
22171314 TTGAGGAAAAGTTGGAAGTACCAATTTTCCTTAAAAATAAAATTTGAAGAAAAA-ATGCT
1 TTTAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAATTAAAAATT-AAAAAAAACAT-TT
* *
22171373 TTAAGAAAAAGTTGAAAGTATCAATTTT
1 TTTAGGAAAAGTTGAAAGTATCAATTTT
22171401 TCTTATATAA
Statistics
Matches: 215, Mismatches: 37, Indels: 48
0.72 0.12 0.16
Matches are distributed among these distances:
57 1 0.00
58 32 0.15
59 66 0.31
60 14 0.07
61 47 0.22
62 8 0.04
65 1 0.00
66 5 0.02
67 6 0.03
68 7 0.03
69 28 0.13
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.33
Consensus pattern (58 bp):
TTTAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAATTAAAAATTAAAAAAAACATTT
Found at i:22172933 original size:22 final size:22
Alignment explanation
Indices: 22172907--22172964 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 22
22172897 CCATGTAGGT
22172907 AGTCGACTGCCATGCAAAGAGA
1 AGTCGACTGCCATGCAAAGAGA
* * * *
22172929 AGTCGATTGTCATG--AGGAGC
1 AGTCGACTGCCATGCAAAGAGA
*
22172949 AGTCAACTGCCATGCA
1 AGTCGACTGCCATGCA
22172965 TTACAAAAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
20 15 0.56
22 12 0.44
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (22 bp):
AGTCGACTGCCATGCAAAGAGA
Found at i:22176257 original size:30 final size:30
Alignment explanation
Indices: 22176154--22176258 Score: 81
Period size: 30 Copynumber: 3.5 Consensus size: 30
22176144 TTTCATTTAA
* * *
22176154 TTAAGAGTTTAATTAAG-TGAAAATAAATGT
1 TTAAGA-TTCAATTGAGATGAAAATAAATAT
* **
22176184 TTATGATTCAATTGAGA-GAAAATTGATAT
1 TTAAGATTCAATTGAGATGAAAATAAATAT
* *
22176213 TAAAGAATTTAATTG-GATGAAAATAAATAT
1 TTAAG-ATTCAATTGAGATGAAAATAAATAT
*
22176243 TTAAGAGCTCAATTGA
1 TTAAGA-TTCAATTGA
22176259 TTACAATAAA
Statistics
Matches: 56, Mismatches: 14, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
29 23 0.41
30 33 0.59
ACGTcount: A:0.46, C:0.03, G:0.16, T:0.35
Consensus pattern (30 bp):
TTAAGATTCAATTGAGATGAAAATAAATAT
Found at i:22179188 original size:62 final size:62
Alignment explanation
Indices: 22179115--22179238 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
22179105 TAAATTAAAA
*
22179115 GAAAGATTCTTCCAAGTAAATATCTTCCTCCAACTGAAAATGACTTGTATACCATTTTCGAT
1 GAAAGAATCTTCCAAGTAAATATCTTCCTCCAACTGAAAATGACTTGTATACCATTTTCGAT
* *
22179177 GAAAGAATCTTCCAAGTAAATATCTTCGTCCAACTGAAAATGATTTGTATACCATTTTCGAT
1 GAAAGAATCTTCCAAGTAAATATCTTCCTCCAACTGAAAATGACTTGTATACCATTTTCGAT
22179239 CCATTACAAG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (62 bp):
GAAAGAATCTTCCAAGTAAATATCTTCCTCCAACTGAAAATGACTTGTATACCATTTTCGAT
Found at i:22189819 original size:22 final size:23
Alignment explanation
Indices: 22189791--22189843 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
22189781 TCAAAACTTC
*
22189791 GAAAAAAGTTA-AAAGAAAAAAA
1 GAAAAAAATTAGAAAGAAAAAAA
*
22189813 GAAAAAAATTAGAAATAAAAAAA
1 GAAAAAAATTAGAAAGAAAAAAA
*
22189836 -ATAAAAAT
1 GAAAAAAAT
22189844 GTGGATTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.13
Consensus pattern (23 bp):
GAAAAAAATTAGAAAGAAAAAAA
Found at i:22195742 original size:20 final size:24
Alignment explanation
Indices: 22195694--22195749 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 24
22195684 TTGATAATTG
*
22195694 CATTTGCATCATGGTTAGGGCACA
1 CATTTGCATCATGGTTAGAGCACA
22195718 CATTTGCATCAT-G-TAGAG-A-A
1 CATTTGCATCATGGTTAGAGCACA
*
22195738 CATTTGAATCAT
1 CATTTGCATCAT
22195750 AGTATGACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 12 0.40
21 1 0.03
22 4 0.13
23 1 0.03
24 12 0.40
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (24 bp):
CATTTGCATCATGGTTAGAGCACA
Found at i:22196215 original size:44 final size:45
Alignment explanation
Indices: 22196000--22196254 Score: 205
Period size: 44 Copynumber: 5.7 Consensus size: 45
22195990 TAAACTTCCC
* ** * * *
22196000 GAATGAGAATCTTTGAAACGTTGGATGTAAAT-CTAAAATTTTTC
1 GAATGAAAATCTTTGAAATTTTGGATGTGAATCCCAAAATTTTTT
* ** * * *
22196044 AAATGTGAATATTTGAAATTTTGCATGTGAAACCCAAAACTTTTTT
1 GAATGAAAATCTTTGAAATTTTGGATGTGAATCCCAAAA-TTTTTT
* * * ***
22196090 GGAT-AAGAATCTTTGAAATTTTGGTTATGAAATATAAAAATTTTTT
1 GAATGAA-AATCTTTGAAATTTTGGATGTG-AATCCCAAAATTTTTT
* * * *
22196136 CAATCAGAATCTTTGAAATTTTAGG-TGTGACTCCCAAAATTTTTT
1 GAATGAAAATCTTTGAAATTTT-GGATGTGAATCCCAAAATTTTTT
* * *
22196181 GAATGAAAAT-TTTGAATTTTTGGATATGAATCCCAAAATTTTTC
1 GAATGAAAATCTTTGAAATTTTGGATGTGAATCCCAAAATTTTTT
*
22196225 GAATGAAAATCTTT-AACTTTTGGATGTGAA
1 GAATGAAAATCTTTGAAATTTTGGATGTGAA
22196255 ACTTTGAAAT
Statistics
Matches: 164, Mismatches: 39, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
43 2 0.01
44 75 0.46
45 27 0.16
46 51 0.31
47 9 0.05
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (45 bp):
GAATGAAAATCTTTGAAATTTTGGATGTGAATCCCAAAATTTTTT
Found at i:22196478 original size:141 final size:141
Alignment explanation
Indices: 22196319--22196596 Score: 488
Period size: 141 Copynumber: 2.0 Consensus size: 141
22196309 TCTTTGAATT
*
22196319 TTTCAAACATAAAGCTTTAGATTTTGGATGTGAATCACTAACAAAAATCTTTTGAATGTGAATCT
1 TTTCAAACATAAAGCTTTAGATTTTGGATGTGAATCACTAAAAAAAATCTTTTGAATGTGAATCT
*
22196384 TTTCATCTT-TTATGTGAATTATAG-TTGATGAGTTCTTGCGAACTTGAAATTCTTACGAACCTA
66 TTTCATCTTGTT-TGTGAATTATAGTTTG-TGAGTTCTTGCAAACTTGAAATTCTTACGAACCTA
22196447 AAAGTTTTGTGAA
129 AAAGTTTTGTGAA
22196460 TTTCAAACATAAAGCTTTAGATTTTGGATGTGAATCACTAAAAAAAATCTTTTGAATGTGAATCT
1 TTTCAAACATAAAGCTTTAGATTTTGGATGTGAATCACTAAAAAAAATCTTTTGAATGTGAATCT
* *
22196525 TTTCATCTTGTTTGTGATTTATAGTTTGTGATTTCTTGCAAACTTGAAATTCTTACGAACCTAAA
66 TTTCATCTTGTTTGTGAATTATAGTTTGTGAGTTCTTGCAAACTTGAAATTCTTACGAACCTAAA
22196590 AGTTTTG
131 AGTTTTG
22196597 CAAATCTTCC
Statistics
Matches: 131, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
141 126 0.96
142 5 0.04
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (141 bp):
TTTCAAACATAAAGCTTTAGATTTTGGATGTGAATCACTAAAAAAAATCTTTTGAATGTGAATCT
TTTCATCTTGTTTGTGAATTATAGTTTGTGAGTTCTTGCAAACTTGAAATTCTTACGAACCTAAA
AGTTTTGTGAA
Found at i:22196712 original size:17 final size:17
Alignment explanation
Indices: 22196671--22196714 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
22196661 ATCTGAGTTC
*
22196671 TTGCAAATCTAAAATTT
1 TTGCGAATCTAAAATTT
**
22196688 TTTAGAATCTAAAATTT
1 TTGCGAATCTAAAATTT
22196705 TTGCGAATCT
1 TTGCGAATCT
22196715 TTCATTCTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (17 bp):
TTGCGAATCTAAAATTT
Found at i:22196741 original size:18 final size:19
Alignment explanation
Indices: 22196718--22196754 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
22196708 CGAATCTTTC
*
22196718 ATTCTTGTAAATCT-GAAA
1 ATTCTTGAAAATCTAGAAA
22196736 ATTCTTGAAAATCTAGAAA
1 ATTCTTGAAAATCTAGAAA
22196755 TTATGTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (19 bp):
ATTCTTGAAAATCTAGAAA
Found at i:22196799 original size:17 final size:18
Alignment explanation
Indices: 22196773--22196806 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22196763 AACTTGGAAT
*
22196773 CTTTGCAAATC-TAGAAC
1 CTTTGAAAATCTTAGAAC
22196790 CTTTGAAAATCTTAGAA
1 CTTTGAAAATCTTAGAA
22196807 TTTGTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (18 bp):
CTTTGAAAATCTTAGAAC
Found at i:22196856 original size:18 final size:18
Alignment explanation
Indices: 22196816--22196858 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
22196806 ATTTGTTTTT
* *
22196816 AAATCTTGAAACCTTTGC
1 AAATCTTGAAACCTCTAC
22196834 AAATCTTGAAACCTCTAC
1 AAATCTTGAAACCTCTAC
*
22196852 GAATCTT
1 AAATCTT
22196859 AGAATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (18 bp):
AAATCTTGAAACCTCTAC
Found at i:22197070 original size:23 final size:22
Alignment explanation
Indices: 22197043--22197089 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
22197033 CTTTGAAATT
22197043 TTGTGAACCCTTGAAATTTCAAA
1 TTGTGAACCCTTG-AATTTCAAA
* * *
22197066 TTGTGAATCTTTGGATTTCAAA
1 TTGTGAACCCTTGAATTTCAAA
22197088 TT
1 TT
22197090 TTTAGTTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.43
Consensus pattern (22 bp):
TTGTGAACCCTTGAATTTCAAA
Found at i:22199116 original size:24 final size:23
Alignment explanation
Indices: 22199089--22199147 Score: 57
Period size: 26 Copynumber: 2.4 Consensus size: 23
22199079 TTAATTCACA
22199089 TATATATAAATTACAAATAAAAAT
1 TATATATAAATTA-AAATAAAAAT
**
22199113 TATACATATTTTATTAAAATAAAAAT
1 TAT--ATA-TAAATTAAAATAAAAAT
22199139 TATAT-TAAA
1 TATATATAAA
22199148 AAATTAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
22 2 0.07
24 5 0.18
26 16 0.57
27 5 0.18
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (23 bp):
TATATATAAATTAAAATAAAAAT
Found at i:22199121 original size:26 final size:26
Alignment explanation
Indices: 22199090--22199142 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
22199080 TAATTCACAT
22199090 ATATATAAATTACAAATAAAAATTATAC
1 ATAT-TAAATTA-AAATAAAAATTATAC
**
22199118 ATATTTTATTAAAATAAAAATTATA
1 ATATTAAATTAAAATAAAAATTATA
22199143 TTAAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 14 0.61
27 5 0.22
28 4 0.17
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATTAAATTAAAATAAAAATTATAC
Found at i:22200938 original size:19 final size:19
Alignment explanation
Indices: 22200916--22200956 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22200906 TAAAATGACA
* *
22200916 TAAAACACTTAAATTTATT
1 TAAAACAATTAAATTGATT
*
22200935 TAAAGCAATTAAATTGATT
1 TAAAACAATTAAATTGATT
22200954 TAA
1 TAA
22200957 TTTTTTTGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAAACAATTAAATTGATT
Found at i:22206159 original size:13 final size:13
Alignment explanation
Indices: 22206138--22206178 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
22206128 TTTATATTAC
22206138 TATCTATAATATA
1 TATCTATAATATA
* *
22206151 TATCCATAATTTA
1 TATCTATAATATA
*
22206164 TATTTATAATATA
1 TATCTATAATATA
22206177 TA
1 TA
22206179 ATTTTTTTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (13 bp):
TATCTATAATATA
Found at i:22207715 original size:2 final size:2
Alignment explanation
Indices: 22207708--22207735 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22207698 TTACAAATAA
22207708 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
22207736 CAAAATAGTC
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:22209272 original size:25 final size:25
Alignment explanation
Indices: 22209238--22209288 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
22209228 TGTCTACTAC
*
22209238 TAACTATATCCTAAAAATTAGGACA
1 TAACTATATCCTAAAAATCAGGACA
*
22209263 TAACTATATCTTAAAAATCAGGACA
1 TAACTATATCCTAAAAATCAGGACA
22209288 T
1 T
22209289 TGAGCCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (25 bp):
TAACTATATCCTAAAAATCAGGACA
Found at i:22210376 original size:21 final size:20
Alignment explanation
Indices: 22210346--22210395 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
22210336 GATATTTTTA
22210346 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTT-AAAAAT
22210366 AATATTTTATATTTAAAAAT
1 AATATTTTATATTTAAAAAT
22210386 AATATTTTAT
1 AATATTTTAT
22210396 TAATTTCGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATATTTTATATTTAAAAAT
Found at i:22213980 original size:34 final size:34
Alignment explanation
Indices: 22213907--22213980 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
22213897 ACTTTAAAAT
* *
22213907 ATTTTCGAATATACATTTCTAAAAAGTTCTTAGA
1 ATTTTCGAATATAAATTTCTAAAAAGTTCTTACA
* * *
22213941 CTTTTCGAATATAAATTTTTGAAAAGTT-TATACA
1 ATTTTCGAATATAAATTTCTAAAAAGTTCT-TACA
22213975 ATTTTC
1 ATTTTC
22213981 AGAAGTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
33 1 0.03
34 32 0.97
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (34 bp):
ATTTTCGAATATAAATTTCTAAAAAGTTCTTACA
Found at i:22218454 original size:204 final size:204
Alignment explanation
Indices: 22218104--22218510 Score: 796
Period size: 204 Copynumber: 2.0 Consensus size: 204
22218094 TAAGCCCAAA
22218104 GTTGAGACTTGAAAAATAAAAAGTACATCTGATTCTTTTATGGATGTATTGGTGGCCCTCTCTAT
1 GTTGAGACTTGAAAAATAAAAAGTACATCTGATTCTTTTATGGATGTATTGGTGGCCCTCTCTAT
*
22218169 CTTTGATCTATCAAATCAAGATAAAATTTTAGATTTTACACATAAAGGGGAACTCGTTATCGACG
66 CTTTGATCTATCAAATCAAGATAAAATTTTAGATTTTACACATAAAAGGGAACTCGTTATCGACG
22218234 TTCACAGGCTGACCTCTCGGGAAGTAATAAATAAAATAAAGTATTCAAGTAGGTTTGAGGTAACC
131 TTCACAGGCTGACCTCTCGGGAAGTAATAAATAAAATAAAGTATTCAAGTAGGTTTGAGGTAACC
22218299 TTGTCGAAG
196 TTGTCGAAG
22218308 GTTGAGACTTGAAAAATAAAAAGTACATCTGATTCTTTTATGGATGTATTGGTGGCCCTCTCTAT
1 GTTGAGACTTGAAAAATAAAAAGTACATCTGATTCTTTTATGGATGTATTGGTGGCCCTCTCTAT
*
22218373 CTTTGATCTATCAAATCAAGATAAAATTTTAGATTTTACACATAAAAGGGAGCTCGTTATCGACG
66 CTTTGATCTATCAAATCAAGATAAAATTTTAGATTTTACACATAAAAGGGAACTCGTTATCGACG
22218438 TTCACAGGCTGACCTCTCGGGAAGTAATAAATAAAATAAAGTATTCAAGTAGGTTTGAGGTAACC
131 TTCACAGGCTGACCTCTCGGGAAGTAATAAATAAAATAAAGTATTCAAGTAGGTTTGAGGTAACC
22218503 TTGTCGAA
196 TTGTCGAA
22218511 TTTTGTTTTA
Statistics
Matches: 201, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
204 201 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (204 bp):
GTTGAGACTTGAAAAATAAAAAGTACATCTGATTCTTTTATGGATGTATTGGTGGCCCTCTCTAT
CTTTGATCTATCAAATCAAGATAAAATTTTAGATTTTACACATAAAAGGGAACTCGTTATCGACG
TTCACAGGCTGACCTCTCGGGAAGTAATAAATAAAATAAAGTATTCAAGTAGGTTTGAGGTAACC
TTGTCGAAG
Found at i:22226223 original size:36 final size:36
Alignment explanation
Indices: 22226146--22226227 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
22226136 AAGCCTTAAA
* *
22226146 AACATGATAAAAATGTTAATCATCAATAAGCAATTT
1 AACATGATAAAAATGTTAATCAACAACAAGCAATTT
* *
22226182 AACATGATAAAAGTGTTAAT-AACAACATG-AATTAT
1 AACATGATAAAAATGTTAATCAACAACAAGCAATT-T
22226217 ACACATGATAA
1 A-ACATGATAA
22226228 GTAGAAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
34 4 0.10
35 8 0.20
36 28 0.70
ACGTcount: A:0.51, C:0.11, G:0.10, T:0.28
Consensus pattern (36 bp):
AACATGATAAAAATGTTAATCAACAACAAGCAATTT
Found at i:22227852 original size:20 final size:20
Alignment explanation
Indices: 22227827--22227867 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22227817 TTAAGTTTGT
* *
22227827 AGAGTTAGTGAGAGGTGGAA
1 AGAGTTAGTAAGAGATGGAA
*
22227847 AGAGTTGGTAAGAGATGGAA
1 AGAGTTAGTAAGAGATGGAA
22227867 A
1 A
22227868 TTATGCTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (20 bp):
AGAGTTAGTAAGAGATGGAA
Found at i:22230595 original size:17 final size:17
Alignment explanation
Indices: 22230575--22230613 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
22230565 TTGTTTTCAT
*
22230575 TTTCATTTCCATTTCCA
1 TTTCATTTACATTTCCA
* *
22230592 TTTCATTTATATTTCCT
1 TTTCATTTACATTTCCA
22230609 TTTCA
1 TTTCA
22230614 ATTTTGTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.23, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTCATTTACATTTCCA
Found at i:22230596 original size:23 final size:23
Alignment explanation
Indices: 22230569--22230617 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
22230559 CCTGGATTGT
*
22230569 TTTCATTT-TCATTTCCATTTCCA
1 TTTCATTTAT-ATTTCCATTTCAA
*
22230592 TTTCATTTATATTTCCTTTTCAA
1 TTTCATTTATATTTCCATTTCAA
22230615 TTT
1 TTT
22230618 TGTTAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTCATTTATATTTCCATTTCAA
Found at i:22236995 original size:14 final size:14
Alignment explanation
Indices: 22236976--22237006 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
22236966 TTTCCTTTTT
22236976 AAATATATTTTATA
1 AAATATATTTTATA
*
22236990 AAATATCTTTTATA
1 AAATATATTTTATA
22237004 AAA
1 AAA
22237007 AATAAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATATATTTTATA
Found at i:22237966 original size:23 final size:23
Alignment explanation
Indices: 22237940--22238026 Score: 72
Period size: 23 Copynumber: 3.6 Consensus size: 23
22237930 TTAAAAATCA
22237940 AAATAAAATAAAAACATTAGGCT
1 AAATAAAATAAAAACATTAGGCT
* *
22237963 AAATAAAATCAAAATAAATTA---A
1 AAATAAAAT-AAAA-ACATTAGGCT
22237985 AAATCAAAACTTTTAAAAACATTAGGCT
1 AAAT-AAAA----TAAAAACATTAGGCT
22238013 AAATAAAATAAAAA
1 AAATAAAATAAAAA
22238027 TCCAAAAACC
Statistics
Matches: 50, Mismatches: 4, Indels: 20
0.68 0.05 0.27
Matches are distributed among these distances:
22 4 0.08
23 19 0.38
24 4 0.08
25 10 0.20
26 4 0.08
27 5 0.10
28 4 0.08
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.23
Consensus pattern (23 bp):
AAATAAAATAAAAACATTAGGCT
Found at i:22237983 original size:51 final size:50
Alignment explanation
Indices: 22237927--22238027 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 50
22237917 AAACCTTTAA
*
22237927 AAATTAAAAATCAAAA-TAAAATAAAAACATTAGGCTAAATAAAATCAAAAT
1 AAATTAAAAATCAAAACT--AATAAAAACATTAGGCTAAATAAAATAAAAAT
**
22237978 AAATTAAAAATCAAAACTTTTAAAAACATTAGGCTAAATAAAATAAAAAT
1 AAATTAAAAATCAAAACTAATAAAAACATTAGGCTAAATAAAATAAAAAT
22238028 CCAAAAACCT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
50 29 0.63
51 16 0.35
52 1 0.02
ACGTcount: A:0.64, C:0.08, G:0.04, T:0.24
Consensus pattern (50 bp):
AAATTAAAAATCAAAACTAATAAAAACATTAGGCTAAATAAAATAAAAAT
Found at i:22239403 original size:28 final size:28
Alignment explanation
Indices: 22239371--22239428 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
22239361 AAATAAAAAA
*
22239371 TTATTATATTAT-TCGTTATTTTTAATAT
1 TTATTATATTATGT-ATTATTTTTAATAT
* *
22239399 TTATTATGTTATGTATTATTTTTTATAT
1 TTATTATATTATGTATTATTTTTAATAT
22239427 TT
1 TT
22239429 CAATTTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 25 0.96
29 1 0.04
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (28 bp):
TTATTATATTATGTATTATTTTTAATAT
Found at i:22249642 original size:22 final size:22
Alignment explanation
Indices: 22249614--22249657 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22249604 CTAAATCTTC
*
22249614 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22249636 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22249658 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:22253519 original size:22 final size:22
Alignment explanation
Indices: 22253491--22253534 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22253481 CTAAATCTTC
*
22253491 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22253513 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22253535 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:22256566 original size:145 final size:145
Alignment explanation
Indices: 22256367--22256652 Score: 536
Period size: 145 Copynumber: 2.0 Consensus size: 145
22256357 CAAGTCTTTT
22256367 GGGTGCCTCAGGCCCTGTGAAAGGCATGAGCTTGAGTAAATGGGCCTTACTCTGAGTCTGATGAG
1 GGGTGCCTCAGGCCCTGTGAAAGGCATGAGCTTGAGTAAATGGGCCTTACTCTGAGTCTGATGAG
22256432 TCACTTTTGCTCTCTGATGCCTCACCTTGGGTTCGAGGAGTACTTTATTTCTTTTTAGTTTGTAG
66 TCACTTTTGCTCTCTGATGCCTCACCTTGGGTTCGAGGAGTACTTTATTTCTTTTTAGTTTGTAG
22256497 TTTTATAGCACGTGC
131 TTTTATAGCACGTGC
* *
22256512 GGGTGCCTCAGGCCCTGTGAAAGGCATGTGCTTGAGTAAATGGGCCTTGCTCTGAGTCTGATGAG
1 GGGTGCCTCAGGCCCTGTGAAAGGCATGAGCTTGAGTAAATGGGCCTTACTCTGAGTCTGATGAG
*
22256577 TCACTTTTGCTTTCTGATGCCTCACCTTGGGTTCGAGGAGTACTTTATTTCTTTTTAGTTTGTAG
66 TCACTTTTGCTCTCTGATGCCTCACCTTGGGTTCGAGGAGTACTTTATTTCTTTTTAGTTTGTAG
*
22256642 TTTTATGGCAC
131 TTTTATAGCAC
22256653 TAGGCACGTG
Statistics
Matches: 137, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 137 1.00
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.37
Consensus pattern (145 bp):
GGGTGCCTCAGGCCCTGTGAAAGGCATGAGCTTGAGTAAATGGGCCTTACTCTGAGTCTGATGAG
TCACTTTTGCTCTCTGATGCCTCACCTTGGGTTCGAGGAGTACTTTATTTCTTTTTAGTTTGTAG
TTTTATAGCACGTGC
Found at i:22258335 original size:22 final size:22
Alignment explanation
Indices: 22258310--22258353 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22258300 AATTTTTGTC
*
22258310 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22258332 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
22258354 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:22262312 original size:22 final size:22
Alignment explanation
Indices: 22262287--22262329 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22262277 ATTTTTGTCT
* *
22262287 TTAATTCTAGGGATACGAATAC
1 TTAATTCTAGAGATACAAATAC
22262309 TTAATTCTAGAGATACAAATA
1 TTAATTCTAGAGATACAAATA
22262330 TAAATATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATAC
Found at i:22264734 original size:2 final size:2
Alignment explanation
Indices: 22264727--22264760 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
22264717 CTTATATCTC
22264727 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
22264761 TAGCTTCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22265034 original size:1 final size:1
Alignment explanation
Indices: 22265028--22265063 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
22265018 TCAGTTTGCC
22265028 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22265064 CTGTTTGGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:22282296 original size:2 final size:2
Alignment explanation
Indices: 22282289--22282323 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
22282279 CAAACCCCAT
22282289 TA TA 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 TA TA T
22282324 TTCAAAACCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22283936 original size:18 final size:19
Alignment explanation
Indices: 22283892--22283937 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
22283882 GATATTTTAT
22283892 TAATTAAAATAATAAAAATA
1 TAATT-AAATAATAAAAATA
*
22283912 TATTTAAAT-ATAAAAAT-
1 TAATTAAATAATAAAAATA
22283929 TCAATTAAA
1 T-AATTAAA
22283938 CTTTCGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 1 0.04
18 14 0.61
19 4 0.17
20 4 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
TAATTAAATAATAAAAATA
Found at i:22284353 original size:22 final size:24
Alignment explanation
Indices: 22284328--22284375 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
22284318 TTATTAGAAA
22284328 GAGTGTTC-AAAAAAATTT-TTTT
1 GAGTGTTCTAAAAAAATTTCTTTT
22284350 GAGTGTTCTTAAAAAAAATTTCTTTT
1 GAGTGTTC-T-AAAAAAATTTCTTTT
22284376 AATTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
25 10 0.45
26 4 0.18
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.46
Consensus pattern (24 bp):
GAGTGTTCTAAAAAAATTTCTTTT
Found at i:22285079 original size:15 final size:14
Alignment explanation
Indices: 22285056--22285147 Score: 81
Period size: 13 Copynumber: 6.9 Consensus size: 14
22285046 ACTTATAAAT
22285056 AATATATATTAATA
1 AATATATATTAATA
22285070 AATCATATATTAATA
1 AAT-ATATATTAATA
22285085 AATA-ATATT-AT-
1 AATATATATTAATA
22285096 AATAT-TA-TAATA
1 AATATATATTAATA
* *
22285108 AATAATATACT-ATT
1 AAT-ATATATTAATA
* *
22285122 AATAAATAATAATA
1 AATATATATTAATA
22285136 AATAT-TATTAAT
1 AATATATATTAAT
22285148 TGAATTAATA
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
10 1 0.02
11 8 0.12
12 5 0.08
13 18 0.28
14 17 0.27
15 15 0.23
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATATATTAATA
Found at i:22285106 original size:23 final size:23
Alignment explanation
Indices: 22285080--22285211 Score: 94
Period size: 23 Copynumber: 5.6 Consensus size: 23
22285070 AATCATATAT
22285080 TAATAAATAATATTATAATATTA
1 TAATAAATAATATTATAATATTA
*
22285103 TAATAAATAATATACTATTAATA-AA
1 TAATAAATAATAT--TA-TAATATTA
*
22285128 TAAT-AATAAATATTATTA-ATT-
1 TAATAAAT-AATATTATAATATTA
* * *
22285149 GAATTAATAAAGATTATAATAATATA
1 TAATAAAT-AATATTATAAT-AT-TA
*
22285175 TTAATAAATAATATCATAATA-TA
1 -TAATAAATAATATTATAATATTA
22285198 TTAATAAATAATAT
1 -TAATAAATAATAT
22285212 AAAGAATAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 22
0.73 0.08 0.18
Matches are distributed among these distances:
21 4 0.05
22 14 0.16
23 31 0.35
24 5 0.06
25 14 0.16
26 14 0.16
27 6 0.07
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
TAATAAATAATATTATAATATTA
Found at i:22285179 original size:8 final size:8
Alignment explanation
Indices: 22285163--22285213 Score: 61
Period size: 8 Copynumber: 6.6 Consensus size: 8
22285153 TAATAAAGAT
22285163 TATAATAA
1 TATAATAA
*
22285171 TATATTAA
1 TATAATAA
22285179 TA-AATAA
1 TATAATAA
*
22285186 TATCATAA
1 TATAATAA
*
22285194 TATATTAA
1 TATAATAA
22285202 TA-AATAA
1 TATAATAA
22285209 TATAA
1 TATAA
22285214 AGAATAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 12 0.34
8 23 0.66
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (8 bp):
TATAATAA
Found at i:22285212 original size:15 final size:15
Alignment explanation
Indices: 22285059--22285188 Score: 86
Period size: 15 Copynumber: 9.3 Consensus size: 15
22285049 TATAAATAAT
*
22285059 ATATATTAATAAATC
1 ATATATTAATAAATA
22285074 ATATATTAATAAAT-
1 ATATATTAATAAATA
22285088 A-ATATT-AT-AAT-
1 ATATATTAATAAATA
22285099 AT-TA-TAATAAATA
1 ATATATTAATAAATA
* *
22285112 ATATACT-ATTAATA
1 ATATATTAATAAATA
*
22285126 A-ATAATAATAAATA
1 ATATATTAATAAATA
* *
22285140 TTATTAATTGAATTAATA
1 ATA-T-ATT-AATAAATA
*
22285158 A-AGATT-AT-AATA
1 ATATATTAATAAATA
22285170 ATATATTAATAAATA
1 ATATATTAATAAATA
22285185 ATAT
1 ATAT
22285189 CATAATATAT
Statistics
Matches: 92, Mismatches: 9, Indels: 28
0.71 0.07 0.22
Matches are distributed among these distances:
10 1 0.01
11 8 0.09
12 10 0.11
13 17 0.18
14 18 0.20
15 27 0.29
16 1 0.01
17 3 0.03
18 7 0.08
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (15 bp):
ATATATTAATAAATA
Found at i:22285226 original size:23 final size:23
Alignment explanation
Indices: 22285154--22285226 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
22285144 TAATTGAATT
* * * *
22285154 AATAAAGATTATAATAATATATT
1 AATAAATAATATAAGAATATATA
* * *
22285177 AATAAATAATATCATAATATATT
1 AATAAATAATATAAGAATATATA
22285200 AATAAATAATATAAAGAATA-ATA
1 AATAAATAATAT-AAGAATATATA
22285223 AATA
1 AATA
22285227 GTTTTATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 38 0.88
24 5 0.12
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (23 bp):
AATAAATAATATAAGAATATATA
Found at i:22285327 original size:16 final size:16
Alignment explanation
Indices: 22285298--22285363 Score: 56
Period size: 15 Copynumber: 4.5 Consensus size: 16
22285288 TATAATTATT
*
22285298 TTTTAAT-ATTAATAA
1 TTTTAATAATAAATAA
22285313 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
*
22285329 -TTT--CAAT--AT-A
1 TTTTAATAATAAATAA
22285339 TTTTAATAATAAATAA
1 TTTTAATAATAAATAA
22285355 TTTTTAATA
1 -TTTTAATA
22285364 TTTTAATAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
10 1 0.03
11 5 0.12
13 6 0.15
15 12 0.30
16 8 0.20
17 8 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTTAATAATAAATAA
Found at i:22285329 original size:36 final size:36
Alignment explanation
Indices: 22285262--22285330 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
22285252 TAACATAATA
*
22285262 TTTTAATATTAAATATTATATTAAAATATAATTATT
1 TTTTAATATTAAATATTATAATAAAATATAATTATT
*
22285298 TTTTAATATT-AATAATTTTAATAATAA-ATAATT
1 TTTTAATATTAAAT-ATTATAATAA-AATATAATT
22285331 TCAATATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 3 0.10
36 24 0.83
37 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (36 bp):
TTTTAATATTAAATATTATAATAAAATATAATTATT
Found at i:22285341 original size:26 final size:26
Alignment explanation
Indices: 22285308--22285373 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
22285298 TTTTAATATT
22285308 AATA-ATTTTAATAATAAATAATTTC
1 AATATATTTTAATAATAAATAATTTC
*
22285333 AATATATTTTAATAATAAATAATTTT
1 AATATATTTTAATAATAAATAATTTC
*
22285359 TA-ATATTTTAATAAT
1 AATATATTTTAATAAT
22285374 TATACTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 17 0.45
26 21 0.55
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
AATATATTTTAATAATAAATAATTTC
Found at i:22285522 original size:15 final size:14
Alignment explanation
Indices: 22285487--22285513 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22285477 AAAATATAAA
22285487 TATTTTTCAAAAAC
1 TATTTTTCAAAAAC
22285501 TATTTTTCAAAAA
1 TATTTTTCAAAAA
22285514 ATTATTTTTT
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:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
TATTTTTCAAAAAC
Found at i:22286772 original size:20 final size:20
Alignment explanation
Indices: 22286749--22286786 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22286739 TATGAATTTA
*
22286749 AATATTAGTTACTTAATTAT
1 AATATTAATTACTTAATTAT
22286769 AATATTAATTACTTAATT
1 AATATTAATTACTTAATT
22286787 TTACAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (20 bp):
AATATTAATTACTTAATTAT
Found at i:22287726 original size:22 final size:21
Alignment explanation
Indices: 22287700--22287753 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
22287690 CTTTTTTTCT
22287700 TTATTTTTTTATCTTAAAATTA
1 TTATTTTTTTA-CTTAAAATTA
* *
22287722 TTATTTTTTGCACTTAAAATTT
1 TTATTTTTT-TACTTAAAATTA
22287744 TTATTTTTTT
1 TTATTTTTTT
22287754 TATATTTCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.67
Consensus pattern (21 bp):
TTATTTTTTTACTTAAAATTA
Found at i:22290358 original size:11 final size:11
Alignment explanation
Indices: 22290342--22290370 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
22290332 AGGATAAAAA
22290342 TTATTTATTAT
1 TTATTTATTAT
22290353 TTATTTATTAT
1 TTATTTATTAT
22290364 TTATTTA
1 TTATTTA
22290371 CTTTTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTTATTAT
Done.