Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168459.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_67, 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: 134467
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.37
Warning! 1000 characters in sequence are not A, C, G, or T
File 1 of 4
Found at i:575 original size:178 final size:179
Alignment explanation
Indices: 228--1140 Score: 808
Period size: 179 Copynumber: 5.1 Consensus size: 179
218 TTATTTTACA
* * * *
228 ACAAAACAAAATGTCATAACGATTTGAAATAGATAATAGTTCAAATGGACAT-GACTATTTGAAC
1 ACAAAACAAAA-GTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAG-CTATTTGAAC
* * **
292 T-TGTT-TGCTAAATAGATTTATTTTTTAAATCTCCAACTTATTAATTTTT-AGAATATTAATAA
64 TAT-TTCAG-TAAATAAATTTATTTTTT-AATCTCTTACTTATTAATTTTTGA-AATATTAATAA
* *
354 ATTAATATTATTTTATTTCAAATAAACTTTTATGAATAGAAACAATTGTTTTATG
125 ATTAATATTATTTTATTTCAAATAAGCTTGTATGAATAGAAACAATTGTTTTATG
* * * *
409 ACCAAAGAAAAGATCATAATGATTTGAAATAAATATTTGTTCAAATAGTCATAGCTATTTGAACT
1 ACAAAACAAAAG-TCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAGCTATTTGAACT
* * * * * * *
474 CACTT-GGGAAATAGA-TT-TTTTTTAATCTTTTACTTATTAATTTTTGAAATTTTAATAAACTA
65 -ATTTCAGTAAATAAATTTATTTTTTAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTA
** * * *
536 ATATTATTTTATTTTGAATAAGCTTGTATGAACAGAAACAATTGATTTATC
129 ATATTATTTTATTTCAAATAAGCTTGTATGAATAGAAACAATTGTTTTATG
** * * *
587 ACAAAACAAATAGTCATAACAATTTGAAATAGATAATTGTTTAAATAGTCATAACTATTTAAACG
1 ACAAAACAAA-AGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAGCTATTTGAAC-
* ** * * * * *
652 T-GTTCAAAAAAATAAA-TTATGTTTAAAT-TATTATTTATTAAGTTTTT-TAATATTAATAAAT
64 TATTTC-AGTAAATAAATTTATTTTTTAATCTCTTACTTATTAA-TTTTTGAAATATTAATAAAT
* ** * *
713 TTATATTATTTTA-TTCAAAATAAGCTT-TCATGAATAGATCCAATTGCTTTCTG
127 TAATATTATTTTATTTC-AAATAAGCTTGT-ATGAATAGAAACAATTGTTTTATG
* * * * *
766 ACAAAACAAAAAGTCATAATG-TGTTAAAATAGATAATTATTTAGATAGTCATAACTATTTGAAC
1 ACAAAAC-AAAAGTCATAATGAT-TTGAAATAGATAATTGTTCAAATAGTCATAGCTATTTGAAC
* * * * * *
830 TTTTTCAGTAAACAAATTCATTTTTTTAATTCTCTTACTCATTCATTTTTGAAATATTAATAAAG
64 TATTTCAGTAAATAAATTTA-TTTTTTAA-TCTCTTACTTATTAATTTTTGAAATATTAATAAAT
* * * * * *
895 TAGTATTATTTTATTTTAAATAA-TTTATATTAACTA-AAACAATTGTTTTATT
127 TAATATTATTTTATTTCAAATAAGCTTGTATGAA-TAGAAACAATTGTTTTATG
*
947 ACAAAACAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAGT--TAGACTATTTGAAC
1 ACAAAACAAAA-GTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAG-CTATTTGAAC
* * * * *
1010 T-TATTCAGTAAATATATTTATTTTTTAAAATCTTTTACTTATTAATTATCGAAATATTATTAAA
64 TAT-TTCAGTAAATAAATTTATTTTTT--AATCTCTTACTTATTAATTTTTGAAATATTAATAAA
* * *
1074 TTAATATTATTTTAATCCGAATAAGCTTGT-TGAATAG-AACAATTGTTTTATG
126 TTAATATTATTTTATTTCAAATAAGCTTGTATGAATAGAAACAATTGTTTTATG
*
1126 AC-GAACAAAAAGTCA
1 ACAAAAC-AAAAGTCA
1141 ACAATTATCT
Statistics
Matches: 593, Mismatches: 106, Indels: 69
0.77 0.14 0.09
Matches are distributed among these distances:
177 2 0.00
178 147 0.25
179 167 0.28
180 102 0.17
181 127 0.21
182 46 0.08
183 2 0.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (179 bp):
ACAAAACAAAAGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATAGCTATTTGAACTA
TTTCAGTAAATAAATTTATTTTTTAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAAT
ATTATTTTATTTCAAATAAGCTTGTATGAATAGAAACAATTGTTTTATG
Found at i:647 original size:18 final size:18
Alignment explanation
Indices: 594--649 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
584 ATCACAAAAC
*
594 AAATAGTCATAACAATTT
1 AAATAGTCATAACTATTT
* *
612 GAAATAG--ATAATTGTTT
1 -AAATAGTCATAACTATTT
629 AAATAGTCATAACTATTT
1 AAATAGTCATAACTATTT
647 AAA
1 AAA
650 CGTGTTCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 11 0.37
19 6 0.20
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (18 bp):
AAATAGTCATAACTATTT
Found at i:1405 original size:13 final size:13
Alignment explanation
Indices: 1387--1420 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
1377 CACAATCAAC
1387 TCTTTTCTTTT-TA
1 TCTTTT-TTTTCTA
1400 TCTTTTTTTTCTA
1 TCTTTTTTTTCTA
1413 TCTTTTTT
1 TCTTTTTT
1421 ATATTCGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (13 bp):
TCTTTTTTTTCTA
Found at i:2703 original size:65 final size:66
Alignment explanation
Indices: 2597--2726 Score: 210
Period size: 65 Copynumber: 2.0 Consensus size: 66
2587 AATTAGTATT
* *
2597 ATTTTATTTCAAATAAGCTTGTATGTTGAAAAGCAATTGTTTTATGACAGAAA-GAAAGGTAATA
1 ATTTTATTT-AAATAAGCTTGTAAGTTGAAAAACAATTGTTTTATGACA-AAATGAAAGGTAATA
2661 ACA
64 ACA
2664 ATTTTATTT-AATAAGCTTGTAAGTTGAAAAACAATTGTTTTATGACAAAATGAAAGGTAATAA
1 ATTTTATTTAAATAAGCTTGTAAGTTGAAAAACAATTGTTTTATGACAAAATGAAAGGTAATAA
2727 TGATTTGAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
64 3 0.05
65 48 0.80
67 9 0.15
ACGTcount: A:0.43, C:0.06, G:0.15, T:0.35
Consensus pattern (66 bp):
ATTTTATTTAAATAAGCTTGTAAGTTGAAAAACAATTGTTTTATGACAAAATGAAAGGTAATAAC
A
Found at i:3671 original size:181 final size:180
Alignment explanation
Indices: 3419--4322 Score: 791
Period size: 181 Copynumber: 5.0 Consensus size: 180
3409 AAATTTTTAA
* * * * *
3419 TTATTAACA-TTCAAAAAATTAATAAGCAAAAGATATGAAAAAATAAATCTGTTTACTG--CTAA
1 TTATTAATATTTC-AAAAATTAATAAGTAAGAG-T-TTAAAAAATAAATTTGTTTACTGAACT--
* * *
3481 AGTTCAAATAGTTATGACTATTTGAACAATTATTTATTTAAAATCATTATAACCTTTTGTTTTGA
61 AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCAATATAACCTTTTGTTTTGT
* * * *
3546 CAAAAAATAATTGTTTCAGTTCATAAAAGCTTA-TCTAAAATAAAATAATACTAAT
126 CATAAAACAATTGTTTCAATTCATACAAGCTTATTC-AAAATAAAATAATACTAAT
** * * * * *
3601 TTCGTAATATTTCAAAAATTAATAAGTACGAGTTTAAAAAAATTAATTTGTCTACTGAACAAATT
1 TTATTAATATTTCAAAAATTAATAAGTAAGAGTTT-AAAAAATAAATTTGTTTACTGAACTAGTT
* * * * *
3666 CAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCACTATGATCTTTTGTTTTATCATG
65 CAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCAATATAACCTTTTGTTTTGTCATA
*
3731 AAACAATTGTTTCAATTCATACAAGCTTATTCAAAATAAAATAATAGTAAT
130 AAACAATTGTTTCAATTCATACAAGCTTATTCAAAATAAAATAATACTAAT
* *
3782 TTATTAATATTTCAAAAATTAATAAGT--GA-TTTAAAAAAT-TATTCTGTTTACTGAATTAGTT
1 TTATTAATATTTCAAAAATTAATAAGTAAGAGTTTAAAAAATAAATT-TGTTTACTGAACTAGTT
* * * * * *
3843 CAAATAATTATGGCTATTTCAACAATTATCTATTTGAAATCAATATTACCTTTTGTTTGGTCATA
65 CAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCAATATAACCTTTTGTTTTGTCATA
* ** * * *
3908 TAACAATTGTTT-TTTATCACATAAGC---TTCAGAATAAAATAATACTAAT
130 AAACAATTGTTTCAAT-TCATACAAGCTTATTCAAAATAAAATAATACTAAT
* * * * * **
3956 TTATTAATCTTTCAAAAGTTAATAAGTAAGAAATTTAAAAAATAAATTTATTTA-TCAAACCCGT
1 TTATTAATATTTCAAAAATTAATAAGTAAG-AGTTTAAAAAATAAATTTGTTTACT-GAACTAGT
* * * * *
4020 TTAAATGGTTATGACTATTTGAACAAATGTAGTTTAAATAGATTATTTAAA-AAATAAAACCTTT
64 TCAAATAGTTATGACTATTTGAAC-AAT-TA-TCT--AT---TTA---AAATCAATATAACC--T
* * *
4084 TTTGTTCTGTCATAAAACAATT-ATTCATGTTCATACAAGCTTATTCAAAATAAAATAATACTAA
116 TTTGTTTTGTCATAAAACAATTGTTTCA-ATTCATACAAGCTTATTCAAAATAAAATAATACTAA
4148 T
180 T
* * * * ** *
4149 ATAATAATA-CTCTAAAAATTAATAACTAAGAGATTTAAAAAATAAATTTGTTTGTTGAACTGGT
1 TTATTAATATTTC-AAAAATTAATAAGTAAGAG-TTTAAAAAATAAATTTGTTTACTGAACTAGT
* * * * * *
4213 TCAAATAGTTAAGACTATATGAACAATTATCTATTTTAAATCATTATGATCTTTTGTTTTGTCAT
64 TCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCAATATAACCTTTTGTTTTGTCAT
* * *
4278 AAAATAA-TGTTTTCAATTCATATTAA-CTTATTCAGAATAAAATAA
129 AAAACAATTG-TTTCAATTCATA-CAAGCTTATTCAAAATAAAATAA
4323 AAATTAATAA
Statistics
Matches: 580, Mismatches: 104, Indels: 77
0.76 0.14 0.10
Matches are distributed among these distances:
174 45 0.08
176 5 0.01
177 96 0.17
178 41 0.07
179 8 0.01
180 4 0.01
181 193 0.33
182 33 0.06
183 11 0.02
185 2 0.00
186 2 0.00
188 9 0.02
189 5 0.01
190 30 0.05
191 3 0.01
192 6 0.01
193 86 0.15
194 1 0.00
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (180 bp):
TTATTAATATTTCAAAAATTAATAAGTAAGAGTTTAAAAAATAAATTTGTTTACTGAACTAGTTC
AAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCAATATAACCTTTTGTTTTGTCATAA
AACAATTGTTTCAATTCATACAAGCTTATTCAAAATAAAATAATACTAAT
Found at i:4607 original size:18 final size:18
Alignment explanation
Indices: 4559--4607 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
4549 AATAAAAATC
4559 AATAATTAA-AATATTTA
1 AATAATTAATAATATTTA
4576 AATTAA--AATCAATATTTA
1 AA-TAATTAAT-AATATTTA
*
4594 GATAATTAATAATA
1 AATAATTAATAATA
4608 AATTATAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 9
0.72 0.03 0.25
Matches are distributed among these distances:
16 2 0.08
17 5 0.19
18 16 0.62
19 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (18 bp):
AATAATTAATAATATTTA
Found at i:4609 original size:27 final size:28
Alignment explanation
Indices: 4533--4609 Score: 68
Period size: 27 Copynumber: 2.7 Consensus size: 28
4523 TAAATCTTTT
*
4533 TTTATATATATTAATTAATAAAAATCAATAA
1 TTTAAATA-ATTAA-TAAT-AAAATCAATAA
* * *
4564 TTAAAATATTTAA-ATTAAAATCAAT-A
1 TTTAAATAATTAATAATAAAATCAATAA
*
4590 TTTAGATAATTAATAATAAA
1 TTTAAATAATTAATAATAAA
4610 TTATAAGTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
26 11 0.30
27 14 0.38
28 2 0.05
30 4 0.11
31 6 0.16
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (28 bp):
TTTAAATAATTAATAATAAAATCAATAA
Found at i:4610 original size:26 final size:27
Alignment explanation
Indices: 4544--4610 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 27
4534 TTATATATAT
4544 TAATTAATAA-AAATCAATAATTAAAA
1 TAATTAATAATAAATCAATAATTAAAA
* * * *
4570 TATTTAA-ATTAAAATCAAT-ATTTAGA
1 TAATTAATAAT-AAATCAATAATTAAAA
4596 TAATTAATAATAAAT
1 TAATTAATAATAAAT
4611 TATAAGTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
25 1 0.03
26 21 0.66
27 10 0.31
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (27 bp):
TAATTAATAATAAATCAATAATTAAAA
Found at i:4858 original size:20 final size:20
Alignment explanation
Indices: 4819--4858 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4809 TTTAATATTC
*
4819 TTATTTAATTATTATTATTA
1 TTATTTAATTATTATGATTA
4839 TTATTTAATTTATT-TGATTA
1 TTATTTAA-TTATTATGATTA
4859 GATAATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (20 bp):
TTATTTAATTATTATGATTA
Found at i:5116 original size:16 final size:18
Alignment explanation
Indices: 5090--5130 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
5080 TTACATAACA
*
5090 AATAGTTTATTTTT-ATT
1 AATAATTTATTTTTAATT
5107 -ATAATTTATTTTTAATT
1 AATAATTTATTTTTAATT
5124 AATAATT
1 AATAATT
5131 AATATTTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 12 0.57
17 3 0.14
18 6 0.29
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
AATAATTTATTTTTAATT
Found at i:5767 original size:16 final size:17
Alignment explanation
Indices: 5746--5778 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5736 TAGCGATTAG
5746 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
5762 AAATAGTCATAATTATT
1 AAATAG-CATAATTATT
5779 TGTACTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:5906 original size:19 final size:19
Alignment explanation
Indices: 5881--5925 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
5871 GTACAGATAG
*
5881 AAAACAATTGTTTTATGAT
1 AAAACAATTATTTTATGAT
* *
5900 GAAACAATTATTTTGTGAT
1 AAAACAATTATTTTATGAT
5919 AAAACAA
1 AAAACAA
5926 AAAGTCATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.36
Consensus pattern (19 bp):
AAAACAATTATTTTATGAT
Found at i:5964 original size:16 final size:17
Alignment explanation
Indices: 5932--5964 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5922 ACAAAAAGTC
5932 ATAATGATTTGAAATAG
1 ATAATGATTTGAAATAG
*
5949 ATAATTATTT-AAATAG
1 ATAATGATTTGAAATAG
5965 TCATAACTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
ATAATGATTTGAAATAG
Found at i:5975 original size:18 final size:18
Alignment explanation
Indices: 5928--5977 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
5918 TAAAACAAAA
5928 AGTCATAATGATTTGAAAT
1 AGTCATAAT-ATTTGAAAT
5947 AG--ATAATTATTT-AAAT
1 AGTCATAA-TATTTGAAAT
5963 AGTCATAACTATTTG
1 AGTCATAA-TATTTG
5978 CACTGATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
16 6 0.23
17 8 0.31
18 10 0.38
19 2 0.08
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (18 bp):
AGTCATAATATTTGAAAT
Found at i:6604 original size:16 final size:16
Alignment explanation
Indices: 6583--6613 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6573 CATAATCTTG
6583 TTAGTATTATATTATA
1 TTAGTATTATATTATA
*
6599 TTAGTATTATTTTAT
1 TTAGTATTATATTAT
6614 TTCAAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TTAGTATTATATTATA
Found at i:7565 original size:181 final size:180
Alignment explanation
Indices: 5900--8279 Score: 1604
Period size: 181 Copynumber: 13.2 Consensus size: 180
5890 GTTTTATGAT
* * * * *
5900 GAAACAATTATTTTGTGATAAAACAAAAAGTCATAATGATTTGAAATAGATAATTATTTAAATAG
1 GAAATAATTATTTTATGACAAAACAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAG
* * * ** ** * *
5965 TCATAACTATTTGCACTGA-TCAAGCCAATTGATTCATTTTTTAAATCTATTACTTATTAA-TTT
66 TCATAACTATTTGAACTTATTC-GGTAAACAGATTTATTTTTTAAATCT-CTACTTATTAATTTT
* * * * * * *
6028 CAAAATATTGATAAATTAGTATTACTTTATTCCAAATAAGATTGTATGAACA
129 TAGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAATA
* * * * *
6080 TAAATAGTTATTTTATGACAATAC-AAATGGTCATAATGATTTGAAATAAATAATTGTTCAAATA
1 GAAATAATTATTTTATGACAAAACAAAAT-GTCATAATGATTTGAAATAGATAATTATTCAAATA
* * ** ** * * * * *
6144 GTTATAACTAATTGAACTGGTTTAGTAAATAGTTTTACTTTTTAAAATTTCTTACTTCTTAATTT
65 GTCATAACTATTTGAACTTATTCGGTAAACAGATTTA-TTTTTTAAATCTC-TACTTATTAATTT
* * * * * * *
6209 TTAAAATATTAATAAATTAATATTGTTTTATTCTGAACA-AA-CTTATATGTACA
128 TTAGAATATTAATAAATTAGTATTATTTTATT-TCAA-ATAAGCTTGTATGAATA
* * * * * * * * *
6262 AAAACATTTGTTTTATGACAAAATAAAA-GAACATAATTATTTGAAATAAATAATTGTTCAAATA
1 GAAATAATTATTTTATGACAAAACAAAATG-TCATAATGATTTGAAATAGATAATTATTCAAATA
* * * * * * * * *
6326 ATCATAATTATTTGAAC-TAGTTAGGCAAACTGAATTGTTTTTTAAATCTCTTGCTTATTAAGTT
65 GTCATAACTATTTGAACTTA-TTCGGTAAACAGATTTATTTTTTAAATCTC-TACTTATTAATTT
** * * * * *
6390 TT-GAAATATTAATAAATTTTTTTTACTTTA-TTCTGAATAAG-TTACTAAGAA-A
128 TTAG-AATATTAATAAATTAGTATTATTTTATTTC-AAATAAGCTT-GTATGAATA
* * * * * * * *
6442 TGAAAAAAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAAAGAATTGTTCATAT
1 -G-AAATAATTATTTTATGACAAAACAAAATGTCATAATGATTTGAAATAGATAATTATTCAAAT
* * * * * *
6507 AGCCTTAAATATTTGAAC-TAGTTCAGTAAACAAATTTATTTTTTAAATCTCTTAGTTATTAATT
64 AGTCATAACTATTTGAACTTA-TTCGGTAAACAGATTTATTTTTTAAATCTC-TACTTATTAATT
* * * *
6571 TTCATAATCTTGTTAGTATTATATTATATTAGTATTATTTTATTTCAAATAAACTTGTGTGAATA
127 TT--T-A----G--AATATTA-A-TAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAATA
* * * * * ** * *
6636 GAAATAATTGTTTTATGAGACAACAAAAGGTTATAACAATTTGAAATATATAATTGTTCAAATAG
1 GAAATAATTATTTTATGACAAAACAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAG
** ** * *
6701 TCATAACTATTTGAACTGGTTAAGTAAACAGATTAACTTTTTAAATCT-T--TTATTAATTTTT-
66 TCATAACTATTTGAACTTATTCGGTAAACAGATTTATTTTTTAAATCTCTACTTATTAATTTTTA
* * * *
6762 GAAATATTAGTAAATTAGTATTATTTTATTCCAAATAGGCTCGTATG-ATA
131 G-AATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAATA
* * * *
6812 AAAACAATTGTTTTATGACAAAACAAAA-GTTCATAATGATTTGAAATAGATAATTATTCAAATG
1 GAAATAATTATTTTATGACAAAACAAAATG-TCATAATGATTTGAAATAGATAATTATTCAAATA
* * * * * * *
6876 GCCATAATTATTTGAA-TAATTTGATAAACTA-ATTTATTTTTTAAAAT-TCCAACTTCTTAATT
65 GTCATAACTATTTGAACTTATTCGGTAAAC-AGATTTATTTTTT-AAATCT-CTACTTATTAATT
** * * * * * *
6938 TTT-GAAATATTAATAAAGCAATATTATTTTATTTTAGAAAAAACTTTTATGTACT-
127 TTTAG-AATATTAATAAATTAGTATTATTTTATTTCA-AATAAGCTTGTATG-AATA
* * * * * * * *
6993 GAAATAGTTATTTTATGATAAAATAAAAGGTCATAACGCTTTTAAATAGATAATTGTTCAAATAG
1 GAAATAATTATTTTATGACAAAACAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAG
* * *
7058 TCATAACTATTTAAACTT-TTCGGTAAATAGA-TT-TTTTTT-AAT-T-T-CTTATTTATTTTCT
66 TCATAACTATTTGAACTTATTCGGTAAACAGATTTATTTTTTAAATCTCTACTTATTAATTTT-T
* * * * *
7116 A-AATTTTAATAAATTAGTATTACTATATTTCGAATAAGCATGTATGAACT-
130 AGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAA-TA
* * * * * * * * *
7166 GAAACAATTATTTTTTGACTAAACAAAA-GATTAGAATAATTTGGAATAGATAATTGTTCTAATA
1 GAAATAATTATTTTATGACAAAACAAAATG-TCATAATGATTTGAAATAGATAATTATTCAAATA
* * * *
7230 GTCTTAACTATTTGAAC-TACTTAGGAAAACATATTTA-TTTTTAAATC-CT--TT-TTAATTTT
65 GTCATAACTATTTGAACTTA-TTCGGTAAACAGATTTATTTTTTAAATCTCTACTTATTAATTTT
* * * ** *
7289 T-GAAATAGTAATAAATTGGTATTATTTTA-TTCTGAATAATTTTGTATGAAAA
129 TAG-AATATTAATAAATTAGTATTATTTTATTTC-AAATAAGCTTGTATGAATA
* * * * ** *
7341 GAAAAAATTATTTTATAATAAAACAAAATGTCATAATGATTTGAAATAAATAACAATTCAAATGG
1 GAAATAATTATTTTATGACAAAACAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAG
* * * * *
7406 ACATGACTATTTAAATTTATTCGGTAAATAGATTTATTTTTTAAATCTCTAACTTATTAATTTTT
66 TCATAACTATTTGAACTTATTCGGTAAACAGATTTATTTTTTAAATCTCT-ACTTATTAATTTTT
* * * * * *
7471 AGAATAATAATAAATTAGTATTATGTTATTACAAACAAACTTGTGTGAATA
130 AGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAATA
* * * * * *
7522 GAAATAATTGTTTTATGACAAAGCAAAATATCATAAAGATTTGAAATATATAATTATGCAAATAG
1 GAAATAATTATTTTATGACAAAACAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAG
* * * * * * *
7587 TAATAACTATTCGAACTTACTCGGT-AACAAATTTATTATTTAAATCTTTTACTTATTAATTTTA
66 TCATAACTATTTGAACTTATTCGGTAAACAGATTTATTTTTTAAATC-TCTACTTATTAATTTTT
* * * *
7651 AAAATATTAATAAATTAATATTATTCTATTTCGAATAAGCTTGTATGAATA
130 AGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAATA
** * * * *
7702 GAAATAATTGGTTTATGACAAAACAAATTGTTATAACGATTTGAAATAGATAATTGTTCAAATAG
1 GAAATAATTATTTTATGACAAAACAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAG
* * *** * * * * *
7767 TCATAACTA-TT-AAATATGTTCAAAAAACATATTTATTTTTAAAATTTTTATTTATTAATTTTT
66 TCATAACTATTTGAACT-TATTCGGTAAACAGATTTATTTTTTAAATCTCTACTTATTAATTTTT
* * * * * * *
7830 GGAGTTTTAATAAATTTGTATTATTTTATTTGAAATAAGCTTGCATGAACA
130 AGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAATA
* * *
7881 -AAACTAATTATTTTATGACAAAAC-AAATGGTCATAATGTTTTGAAATAGATAATTATTTAGAT
1 GAAA-TAATTATTTTATGACAAAACAAAAT-GTCATAATGATTTGAAATAGATAATTATTCAAAT
* * * * * * *
7944 AGTCATAGCTGTTTGAACTTGTTCGGTAAATAGATTCATTTTTTTAATTCTCTTACTCATTAATT
64 AGTCATAACTATTTGAACTTATTCGGTAAACAGATTTA-TTTTTTAAATCTC-TACTTATTAATT
* * * * * *
8009 TTTGGTATATTAATAAATTAG-AGCTATTTTATTTCAAATAAGCTTATGTTAACT-
127 TTTAGAATATTAATAAATTAGTA-TTATTTTATTTCAAATAAGCTTGTATGAA-TA
* * * * * *
8063 GAAACAATTATTTTATTACAAAATAAAAGGTCATAGTTATTTGAAATAGATAATTATTCAAATAG
1 GAAATAATTATTTTATGACAAAACAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAG
* * * * * *
8128 TCTTGAA-TATTTGAACTTGTTTGGTAAACATG-TTTATTTTTTAAATCTTTCACTTGTTAATTG
66 TCAT-AACTATTTGAACTTATTCGGTAAACA-GATTTATTTTTTAAATCTCT-ACTTATTAATTT
* * * * * *
8191 TCAAAATATTAATAAATTAATATTATTTTA-ATCTGAATAAGCTTGTATGAACA
128 TTAGAATATTAATAAATTAGTATTATTTTATTTC-AAATAAGCTTGTATGAATA
* * * *
8244 GAAATAATTGTTTTATTACAAAATAAAAAGTCATAA
1 GAAATAATTATTTTATGACAAAACAAAATGTCATAA
8280 CAATTCTGTT
Statistics
Matches: 1707, Mismatches: 403, Indels: 179
0.75 0.18 0.08
Matches are distributed among these distances:
172 3 0.00
173 74 0.04
174 46 0.03
175 141 0.08
176 92 0.05
177 38 0.02
178 9 0.01
179 169 0.10
180 268 0.16
181 360 0.21
182 345 0.20
183 16 0.01
184 2 0.00
186 1 0.00
188 11 0.01
190 2 0.00
191 6 0.00
192 95 0.06
193 23 0.01
194 6 0.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.42
Consensus pattern (180 bp):
GAAATAATTATTTTATGACAAAACAAAATGTCATAATGATTTGAAATAGATAATTATTCAAATAG
TCATAACTATTTGAACTTATTCGGTAAACAGATTTATTTTTTAAATCTCTACTTATTAATTTTTA
GAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAATA
Found at i:7727 original size:361 final size:359
Alignment explanation
Indices: 5900--8279 Score: 1614
Period size: 361 Copynumber: 6.6 Consensus size: 359
5890 GTTTTATGAT
* * * * * * *
5900 GAAACAATTATTTTGTGATAAAACAAAAAGTCATAATGATTTGAAATAGATAATTATTTAAATAG
1 GAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAG
** * * ** ** *
5965 TCATAACTATTTGCAC-TGATCAAGCCAATTGATTCATTTTTTAAATCTATTACTTATTAA-TTT
66 TCATAACTATTTAAACTTGTTC-GGTAAACAGATTTATTTTTTAAATC--TTACTTATTAATTTT
* * * * * * * * * *
6028 CAAAATATTGATAAATTAGTATTACTTTATTCCAAATAAGATTGTATGAACATAAATAGTTATTT
128 TAGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAATAGAAATAATTGTTT
* * * * * * *
6093 TATGACAATAC-AAATGGTCATAATGATTTGAAATAAATAATTGTTCAAATAGTTATAACTAATT
193 TATGACAAAACAAAAT-ATCATAAAGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTT
*** ** * * * * *
6157 GAACTGGTTTAGTAA-ATAGTTTTACTTTTTAAAATTTCTTACTTCTTAATTTTTAAAATATTAA
257 GAACTTACTCGGTAACA-A-ATTTA-TTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAA
* * * * *
6221 TAAATTAATATTGTTTTA-TTCTGAACAAACTTATATGTACA
319 TAAATTAATATTATTTTATTTC-GAATAAACTTGTATGAATA
* * * * * ** ** * *
6262 AAAACATTTGTTTTATGACAAAATAAAAGAACATAATTATTTGAAATAAATAATTGTTCAAATAA
1 GAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAG
* * * * * * * * * *
6327 TCATAATTATTTGAACTAGTTAGGCAAACTGAATTGTTTTTTAAATCTCTTGCTTATTAAGTTTT
66 TCATAACTATTTAAACTTGTTCGGTAAACAGATTTATTTTTTAAA--TCTTACTTATTAATTTTT
** * * * * * *
6392 -GAAATATTAATAAATTTTTTTTACTTTA-TTCTGAATAAG-TTACTAAGAA-ATGAAAAAAATT
129 AG-AATATTAATAAATTAGTATTATTTTATTTC-AAATAAGCTT-GTATGAATA-G-AAATAATT
** * * * * * * * *
6453 GTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAAAGAATTGTTCATATAGCCTTAAATA
189 GTTTTATGACAAAACAAAATATCATAAAGATTTGAAATAGATAATTATTCAAATAGTCATAACTA
* * *
6518 TTTGAAC-TAGTTCAGTAAACAAATTTATTTTTTAAATCTCTTAGTTATTAATTTTCAT-AATCT
254 TTTGAACTTA-CTCGGT-AACAAATTTATTTTTTAAATCTCTTACTTATTAATTTT--TGAA---
* * * *
6581 TGTTAGTATTATATTATATTAGTATTATTTTATTTCAAATAAACTTGTGTGAATA
312 ----A-TATTA-A-TAAATTAATATTATTTTATTTCGAATAAACTTGTATGAATA
* * * * * *
6636 GAAATAATTGTTTTATGAGACAACAAAAGGTTATAACAATTTGAAATATATAATTGTTCAAATAG
1 GAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAG
* * ** * *
6701 TCATAACTATTTGAACTGGTTAAGTAAACAGATTAACTTTTTAAATCTT--TTATTAATTTTT-G
66 TCATAACTATTTAAACTTGTTCGGTAAACAGATTTATTTTTTAAATCTTACTTATTAATTTTTAG
* * * * * *
6763 AAATATTAGTAAATTAGTATTATTTTATTCCAAATAGGCTCGTATG-ATAAAAACAATTGTTTTA
131 -AATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAATAGAAATAATTGTTTTA
* * * *
6827 TGACAAAACAAAAGT-TCATAATGATTTGAAATAGATAATTATTCAAATGGCCATAATTATTTGA
195 TGACAAAACAAAA-TATCATAAAGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGA
* * * * * ** *
6891 A-TAATTTGATAAACTAATTTATTTTTTAAAAT-TCCAACTTCTTAATTTTTGAAATATTAATAA
259 ACTTACTCGGT-AACAAATTTATTTTTT-AAATCTCTTACTTATTAATTTTTGAAATATTAATAA
** * * * *
6954 AGCAATATTATTTTATTTTAGAAAAAACTTTTATGTACT-
322 ATTAATATTATTTTA-TTTCGAATAAACTTGTATG-AATA
* * * * *
6993 GAAATAGTTATTTTATGATAAAATAAAAGGTCATAACGCTTTTAAATAGATAATTGTTCAAATAG
1 GAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAG
* *
7058 TCATAACTATTTAAACTT-TTCGGTAAATAGA-TT-TTTTTT-AAT-TT-CTTATTTATTTTCTA
66 TCATAACTATTTAAACTTGTTCGGTAAACAGATTTATTTTTTAAATCTTACTTATTAATTTT-TA
* * * * * * *
7117 -AATTTTAATAAATTAGTATTACTATATTTCGAATAAGCATGTATGAACT-GAAACAATTATTTT
130 GAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAA-TAGAAATAATTGTTTT
* * * * * * * * *
7180 TTGACTAAACAAAAGATTAGAATA-ATTTGGAATAGATAATTGTTCTAATAGTCTTAACTATTTG
194 ATGACAAAACAAAATATCATAA-AGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTG
* * * *
7244 AAC-TACTTAGGAAAACATATTTA-TTTTTAAATC-C-T--TT-TTAATTTTTGAAATAGTAATA
258 AACTTAC-TCGG-TAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATA
** ** *
7302 AATTGGTATTATTTTA-TTCTGAATAATTTTGTATGAAAA
321 AATTAATATTATTTTATTTC-GAATAAACTTGTATGAATA
* * * * * * *** *
7341 GAAAAAATTATTTTATAATAAAACAAAATGTCATAATGATTTGAAATAAATAACAATTCAAATGG
1 GAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAG
* * * * *
7406 ACATGACTATTTAAATTTATTCGGTAAATAGATTTATTTTTTAAATCTCTAACTTATTAATTTTT
66 TCATAACTATTTAAACTTGTTCGGTAAACAGATTTATTTTTTAAATCT-T-ACTTATTAATTTTT
* * * * * *
7471 AGAATAATAATAAATTAGTATTATGTTATTACAAACAAACTTGTGTGAATAGAAATAATTGTTTT
129 AGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAATAGAAATAATTGTTTT
* * * * *
7536 ATGACAAAGCAAAATATCATAAAGATTTGAAATATATAATTATGCAAATAGTAATAACTATTCGA
194 ATGACAAAACAAAATATCATAAAGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGA
* * **
7601 ACTTACTCGGTAACAAATTTATTATTTAAATCTTTTACTTATTAATTTTAAAAATATTAATAAAT
259 ACTTACTCGGTAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAAT
* *
7666 TAATATTATTCTATTTCGAATAAGCTTGTATGAATA
324 TAATATTATTTTATTTCGAATAAACTTGTATGAATA
** ** *
7702 GAAATAATTGGTTTATGACAAAACAAATTGTTATAACGATTTGAAATAGATAATTGTTCAAATAG
1 GAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAG
*** * * * *
7767 TCATAACTA-TTAAA-TATGTTCAAAAAACATATTTATTTTTAAAATTTTTATTTATTAATTTTT
66 TCATAACTATTTAAACT-TGTTCGGTAAACAGATTTATTTTTTAAA-TCTTACTTATTAATTTTT
* * * * * * * *
7830 GGAGTTTTAATAAATTTGTATTATTTTATTTGAAATAAGCTTGCATGAACA-AAACTAATTATTT
129 AGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAATAGAAA-TAATTGTTT
* * * * * * *
7894 TATGACAAAAC-AAATGGTCATAATGTTTTGAAATAGATAATTATTTAGATAGTCATAGCTGTTT
193 TATGACAAAACAAAAT-ATCATAAAGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTT
** * * * **
7958 GAACTTGTTCGGTAA-ATAGATTCATTTTTTTAATTCTCTTACTCATTAATTTTTGGTATATTAA
257 GAACTTACTCGGTAACA-A-ATTTA-TTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAA
** * * * * *
8022 TAAATTAGA-GCTATTTTATTTCAAATAAGCTTATGTTAACT-
319 TAAATTA-ATATTATTTTATTTCGAATAAACTTGTATGAA-TA
* * * *** *
8063 GAAACAATTATTTTATTACAAAATAAAAGGTCATAGTTATTTGAAATAGATAATTATTCAAATAG
1 GAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAG
* * * * *
8128 TCTTGAA-TATTTGAACTTGTTTGGTAAACATG-TTTATTTTTTAAATCTTTCACTTGTTAATTG
66 TCAT-AACTATTTAAACTTGTTCGGTAAACA-GATTTATTTTTTAAATC-TT-ACTTATTAATTT
* * * * * *
8191 TCAAAATATTAATAAATTAATATTATTTTA-ATCTGAATAAGCTTGTATGAACAGAAATAATTGT
127 TTAGAATATTAATAAATTAGTATTATTTTATTTC-AAATAAGCTTGTATGAATAGAAATAATTGT
* *
8255 TTTATTACAAAATAAAA-AGTCATAA
191 TTTATGACAAAACAAAATA-TCATAA
8280 CAATTCTGTT
Statistics
Matches: 1574, Mismatches: 358, Indels: 171
0.75 0.17 0.08
Matches are distributed among these distances:
347 3 0.00
348 78 0.05
349 45 0.03
350 4 0.00
351 6 0.00
352 5 0.00
353 55 0.03
354 77 0.05
355 25 0.02
356 146 0.09
357 89 0.06
358 16 0.01
359 122 0.08
360 33 0.02
361 228 0.14
362 132 0.08
363 135 0.09
364 82 0.05
365 8 0.01
366 3 0.00
367 32 0.02
368 73 0.05
369 1 0.00
370 43 0.03
371 4 0.00
372 9 0.01
373 1 0.00
374 116 0.07
375 3 0.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.42
Consensus pattern (359 bp):
GAAATAATTATTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCAAATAG
TCATAACTATTTAAACTTGTTCGGTAAACAGATTTATTTTTTAAATCTTACTTATTAATTTTTAG
AATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAATAGAAATAATTGTTTTAT
GACAAAACAAAATATCATAAAGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAAC
TTACTCGGTAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTA
ATATTATTTTATTTCGAATAAACTTGTATGAATA
Found at i:8327 original size:18 final size:19
Alignment explanation
Indices: 8296--8342 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
8286 TGTTTACAAA
8296 ACTATTTCAAATAATTATG
1 ACTATTTCAAATAATTATG
8315 ACTATTT-AAATAATTAT-
1 ACTATTTCAAATAATTATG
8332 -CTATTTCAAAT
1 ACTATTTCAAAT
8343 TGTTATTACC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.22
17 4 0.15
18 10 0.37
19 7 0.26
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.45
Consensus pattern (19 bp):
ACTATTTCAAATAATTATG
Found at i:8699 original size:16 final size:17
Alignment explanation
Indices: 8667--8699 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8657 GACCAGTGCA
8667 AACAATTATGACTATTTG
1 AACAATTAT-ACTATTTG
8685 AACAATTAT-CTATTT
1 AACAATTATACTATTT
8700 CAAATCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (17 bp):
AACAATTATACTATTTG
Found at i:8916 original size:180 final size:180
Alignment explanation
Indices: 8301--8939 Score: 677
Period size: 181 Copynumber: 3.5 Consensus size: 180
8291 ACAAAACTAT
* * * *
8301 TTCAAATAATTATGACTATTTAAATAATTATCTATTTCAAATTGTTATTACCTTTTGTTTTGTCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATAACCTTTTGTTTTGTCA
* * * * * *
8366 TAAAACAAATGTTTTTGTTCATATAAGTTTGCTT-GGAATAAAATAATAT-TAATTTATTAATAT
66 TAAAACAATTGTTTCTATTCATACAAGCTT-ATTCGGAAT-AAATAAT-TCTAATTTATTAATAT
* * * *
8429 TTCAAAAATTAATATGTAAGAGATTTAAAAAATAAATATGTTTGC-CATACCAG
128 TTCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTGCTGA-ACCAG
* * * * * *
8482 TTCAAATAGTTATAACTATTTGACCAAATATTTATTTCAAATCGTTATAA-CTATTTGTTTTATC
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATAACCT-TTTGTTTTGTC
* * *
8546 ATAAAACAATTGTTTCTATTCATATAATCTTATTCGGAATAAAGTAATGCTAATTTATTAATATT
65 ATAAAACAATTGTTTCTATTCATACAAGCTTATTCGGAATAAA-TAATTCTAATTTATTAATATT
* * *
8611 TTAAAAATTAATAAGTAATG-GATTTAGAAAATGTATCT-TTTGGCTTG-ACCAG
129 TCAAAAATTAATAAGTAA-GAGATTTAAAAAATGAATCTGTTT-GC-TGAACCAG
* * * * *
8663 TGCAAACAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATAACCTTTTGTTTTGTCA
* * * *
8728 TAAAATAATTGTTT-TGTTCATACAAGCTTATTCAGAATAACATAATTCTAATTTATTAATATTC
66 TAAAACAATTGTTTCTATTCATACAAGCTTATTCGGAATAA-ATAATTCTAATTTATTAATATTT
* * *
8792 CAAAAATTAATAAGTGAGAGATTTAAAAAATGAATCTGTTTACTGAACAAG
130 CAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTGCTGAACCAG
* * * * * * * *
8843 TTCAAATAATTATGGCTATTTGACCAATTATCTAGTTCAAATTGCTCTAACTTTTTTGTATTGTC
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATAAC-CTTTTGTTTTGTC
* *
8908 AT-AAATAATTTTTTCTATTCATACAA-CTTATT
65 ATAAAACAATTGTTTCTATTCATACAAGCTTATT
8940 TCAAATTTGT
Statistics
Matches: 381, Mismatches: 62, Indels: 31
0.80 0.13 0.07
Matches are distributed among these distances:
179 3 0.01
180 146 0.38
181 229 0.60
182 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (180 bp):
TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATAACCTTTTGTTTTGTCA
TAAAACAATTGTTTCTATTCATACAAGCTTATTCGGAATAAATAATTCTAATTTATTAATATTTC
AAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTGCTGAACCAG
Found at i:9216 original size:300 final size:299
Alignment explanation
Indices: 8672--9217 Score: 668
Period size: 300 Copynumber: 1.8 Consensus size: 299
8662 GTGCAAACAA
* * *
8672 TTATGACTATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTCATAAAATAAT
1 TTATGACTATTGGAACAATTATCTATTTCAAATCATTATGAACTTTTGTTTTCTCATAAAACAAT
*
8737 TGTTTTGTTCATACAAGCTTATTCAGAATAACATAATTCTAATTTATTAATATTCCAAAAATTAA
66 TGTTTTGTTCATACAAGCTTATTCAGAATAAAATAATTCTAATTTATTAATATTCCAAAAATTAA
* * * * * * * ** * *
8802 TAAGTGAGAGATTTAAAAAATGAATCTGTTTACTGAACAAGTTCAAATAATTATGGCTATTTGAC
131 TAAGTAAAAAATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAATAATAACTATCTGAA
* * * **
8867 CAATTATCTAGTTCAAATTGCTCTAACTTTTTTGTATTGTCATAAATAATTTTTTCTATTCATAC
196 CAATTATCTAGTTCAAATCGCTATAACTCTTTTGTATTACCATAAATAATTTTTTCTATTCATAC
8932 AACTTATTTCAAATTTGTTTATCGAATAATTTTGAATAG
261 AACTTATTTCAAATTTGTTTATCGAATAATTTTGAATAG
* * *
8971 TTATGACTATTGGAATAATTATTTATTTTAAATCATTATGAACTTTTGTTTTGC-CATAAAACAA
1 TTATGACTATTGGAACAATTATCTATTTCAAATCATTATGAACTTTTGTTTT-CTCATAAAACAA
* ** ** * * *
9035 TTATTTTTGTTCATATTAGCTTATTTGGATTAAAATAATAT-TAATTTATTAATATTTCAACAAT
65 TT-GTTTTGTTCATACAAGCTTATTCAGAATAAAATAAT-TCTAATTTATTAATATTCCAAAAAT
* * * * *
9099 TAATAAGTAAAAAATTTTAAAAATAAATATGTTTACCGAGCAAGTTTAAATAGTAATAATTATCT
128 TAATAAGTAAAAAATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAATAATAACTATCT
* * *
9164 GAATAATTATCTATTTCAAATCGTTATAAC-CTTTTGT-TTCACCATAAAATAATT
193 GAACAATTATCTAGTTCAAATCGCTATAACTCTTTTGTATT-ACCAT-AAATAATT
9218 ATATCAATTC
Statistics
Matches: 203, Mismatches: 39, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
298 2 0.01
299 67 0.33
300 133 0.66
301 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (299 bp):
TTATGACTATTGGAACAATTATCTATTTCAAATCATTATGAACTTTTGTTTTCTCATAAAACAAT
TGTTTTGTTCATACAAGCTTATTCAGAATAAAATAATTCTAATTTATTAATATTCCAAAAATTAA
TAAGTAAAAAATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAATAATAACTATCTGAA
CAATTATCTAGTTCAAATCGCTATAACTCTTTTGTATTACCATAAATAATTTTTTCTATTCATAC
AACTTATTTCAAATTTGTTTATCGAATAATTTTGAATAG
Found at i:9333 original size:181 final size:180
Alignment explanation
Indices: 8966--10341 Score: 974
Period size: 181 Copynumber: 7.7 Consensus size: 180
8956 AATAATTTTG
* * * * *
8966 AATAGTTATGACTATTGGAATAATTATTTATTTTAAATCATTATGAA-CTTTTGTTTTGCCATAA
1 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTAT-AACCTTTTGTTTTGCCATAA
* * * * * * * *
9030 AACAATTATTTTTGTTCATATTAGCTTATTTGGATTAAAATAATATTAATTTATTAATATTTCAA
65 AACAATTATTTCTATTCATATAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCCAA
* * * * *
9095 CAATTAATAAGTAAAAAATTTTAAAAATAAATATGTTTACCGAGCAAGTTTA
130 AAATTAATAAGTAAAAAATTTAAAAAAT-AATATATTTACCGAACAAGTTCA
* * * * * **
9147 AATAGTAATAATTATCTGAATAATTATCTATTTCAAATCGTTATAACCTTTTGTTTCACCATAAA
1 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATAACCTTTTGTTTTGCCATAAA
* * * * * * *
9212 ATAATTATATCAATTCATATATGCTTATTCAAAATAAAATAATACTAACTTATTACTATTCCAAA
66 ACAATTATTTCTATTCATATAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCCAAA
* * * * *
9277 AATTAATGAGTAAGAGATTTAAAAAATGAATCTATTTACCAAACAAGTTCA
131 AATTAATAAGTAAAAAATTTAAAAAAT-AATATATTTACCGAACAAGTTCA
* * * *
9328 AATAGTTATGACTATTTGGACAATTATCTATTTCAAATTGTTATGACCTCTTGTTTTGCCATAAA
1 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATAACCTTTTGTTTTGCCATAAA
* * * * *
9393 ACAATTGTTTTTGTTCATACAAGCTTATTTC-AAATAAAATAATA-TAAATTTACTAATATTCCA
66 ACAATTATTTCTATTCATATAAGCTTA-TTCGAAATAAAATAATACT-AATTTATTAATATTCCA
* * * * *** *
9456 AAGATTAAT-AGT-AAAAATATATAAAATACATTTATTTTTTGAACACGTTCAA
129 AAAATTAATAAGTAAAAAATTTAAAAAATA-ATATATTTACCGAACAAGTTC-A
* * * * * *
9508 AATAATTATGACCATTTAAACAATTATCTATTTCAAATCGTTATGACTTTTTGTTTTGTCATAAA
1 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATAACCTTTTGTTTTGCCATAAA
* * * *
9573 CCAATTATTTCTATTCATAAAAGCTTATTCGAAATAAAATAATACTAATTTATTAAAATTTCAAA
66 ACAATTATTTCTATTCATATAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCCAAA
* * * ***
9638 AATTAATAAGTAAAATATTTAAAAAATAAATTTGTTTACCGAGTGAGTTCA
131 AATTAATAAGTAAAAAATTTAAAAAAT-AATATATTTACCGAACAAGTTCA
* * * **
9689 AATAATTAT--TTATTT---CAA--AT-T-GTT---AT-G--AT--CC-TTTGTTTTGTAATAAA
1 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATAACCTTTTGTTTTGCCATAAA
* ** * **
9736 ACAATTATTTCTATTCATACAAAATTATTCAAAATAAAATAATACTAATTTATTAATAGTT-TGA
66 ACAATTATTTCTATTCATATAAGCTTATTCGAAATAAAATAATACTAATTTATTAATA-TTCCAA
* * * * ** *
9800 AAATTAATAAG----AGATTTAAAAACTATATCTGTTTATTGATCCAA-TTCA
130 AAATTAATAAGTAAAAAATTTAAAAAATA-ATATATTTACCGA-ACAAGTTCA
* * * *
9848 AATAGTTATGACTATTTGAATAATTATCTATCTT-AAATCGATATAATC-TTTGTTTTGTCATAA
1 AATAGTTATGACTATTTGAACAATTATCTAT-TTCAAATCGTTATAACCTTTTGTTTTGCCATAA
* * * * * * * * * * ** * *
9911 AACAATTGTTTCTGTCCATACAAACTTATTTGGAGTAAAATATTGCTAAACTAATAATATTCTAA
65 AACAATTATTTCTATTCATATAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCCAA
* * * *** *
9976 AAATTAATAAGTAAGAGATTTAAAAAATAAATGTATTTGTTGAACGAGTTCA
130 AAATTAATAAGTAAAAAATTTAAAAAAT-AATATATTTACCGAACAAGTTCA
* * * * * * * *
10028 AATAGTTAAGACTATTAT-AATAATTATCTATTTCAAATCATTCTGATCTTTTTGTTTAGTCATA
1 AATAGTTATGACTATT-TGAACAATTATCTATTTCAAATCGTTAT-AACCTTTTGTTTTGCCATA
* * * * * * *
10092 AAATAATT-GTT-TAGTTCATACATGCTTATTCGAAATAAAATAATACTATTTTATTAACATTCA
64 AAACAATTATTTCTA-TTCATATAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCC
* ** * * * *
10155 AAAAATTAATAAGCAACGAA-TTAAAAAATAAATTTGTTTACCAAACAAGTTTA
128 AAAAATTAATAAGTAAAAAATTTAAAAAAT-AATATATTTACCGAACAAGTTCA
* * **
10208 AATAGTTATGACTATTTAAACAATTATC-ATTTTAAAGTCGTTATGAA-CTTTTGTTTTATCATA
1 AATAGTTATGACTATTTGAACAATTATCTATTTCAAA-TCGTTAT-AACCTTTTGTTTTGCCATA
* * * * * * * * *
10271 AAATAATTGTTTC-ATTTCATAAAAGCTTATCCAAAATAAAATAATATTACTTTATCAATATTTC
64 AAACAATTATTTCTA-TTCATATAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCC
10335 AAAAATT
128 AAAAATT
10342 GAGAAATAAT
Statistics
Matches: 947, Mismatches: 202, Indels: 93
0.76 0.16 0.07
Matches are distributed among these distances:
158 1 0.00
159 33 0.03
160 1 0.00
161 5 0.01
163 79 0.08
164 5 0.01
166 4 0.00
167 1 0.00
168 1 0.00
169 4 0.00
171 2 0.00
172 3 0.00
173 1 0.00
174 4 0.00
175 2 0.00
176 77 0.08
178 1 0.00
179 66 0.07
180 288 0.30
181 320 0.34
182 48 0.05
183 1 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATAACCTTTTGTTTTGCCATAAA
ACAATTATTTCTATTCATATAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTCCAAA
AATTAATAAGTAAAAAATTTAAAAAATAATATATTTACCGAACAAGTTCA
Found at i:9586 original size:661 final size:662
Alignment explanation
Indices: 8305--9601 Score: 1594
Period size: 661 Copynumber: 2.0 Consensus size: 662
8295 AACTATTTCA
* ** * * *
8305 AATAATTATGACTATTTAAATAATTATCTATTTCAAATTGTTATTACCTTTTGTTTTGTCATAAA
1 AATAATTATGACTATTGAAATAATTATCTATTTCAAATCATTATGAACTTTTGTTTTGCCATAAA
* * *
8370 ACAAATGTTTTTGTTCATATAAGTTTGCTTGGAATAAAATAATATTAATTTATTAATATTTCAAA
66 ACAAATATTTTTGTTCATATAAGCTTACTTGGAATAAAATAATATTAATTTATTAATATTTCAAA
* * * * * *
8435 AATTAATATGTAAGAGATTTAAAAAATAAATATGTTTGCCATACCAGTTCAAATAGTTATAACTA
131 AATTAATAAGTAAAAAATTTAAAAAATAAATATGTTTACCATACAAGTTCAAATAGTAATAACTA
* * * * * * * *
8500 TTTGACCAAATATTTATTTCAAATCGTTATAACTATTTGTTTTATCATAAAACAATTGTTTCTAT
196 TCTGAACAAATATCTATTTCAAATCGTTATAACTATTTGTTTCACCATAAAACAATTATATCAAT
** * * * **
8565 TCATATAATCTTATTCGGAATAAAGTAATGCTAATTTATTAATATTTTAAAAATTAATAAGTAAT
261 TCATATAATCTTATTCAAAATAAAATAATACTAACTTATTAATATTCCAAAAATTAATAAGTAAT
* * * *** *
8630 GGATTTAGAAAATGTATCTTTTGGCTTGACCAGTGCAAACAATTATGACTATTTGAACAATTATC
326 GGATTTAAAAAATGAATCTTTTGACCAAACAAGTGCAAACAATTATGACTATTTGAACAATTATC
* *
8695 TATTTCAAATCATTATGACCTTTTGTTTTCTCATAAAATAATTGTTTTGTTCATACAAGCTTATT
391 TATTTCAAATCATTATGACCTCTTGTTTTCTCATAAAACAATTGTTTTGTTCATACAAGCTTATT
* * * * * *
8760 CAGAATAACATAATTCTAATTTATTAATATTCCAAAAATTAATAAGTGAGAGATTTAAAAAATGA
456 CAGAATAAAATAATTCAAATTTACTAATATTCCAAAAATTAATAAGTGAAAAATATAAAAAATGA
* * * * * * *
8825 ATCTGTTTACTGAACAAGTTCAAATAATTATGGCTATTTGACCAATTATCTAGTTCAAATTGCTC
521 ATCTATTTACTGAACAAGTTCAAATAATTATGACCATTTAAACAATTATCTAGTTCAAATCGCTA
* * *
8890 TAACTTTTTTGTATTGTCATAAATAATTTTTTCTATTCATACAA-CTTATTTCAAATTTGTTTAT
586 TAACTTTTTTGTATTGTCATAAACAATTATTTCTATTCATAAAAGCTTATTTCAAATTTGTTTAT
8954 CGAATAATTTTG
651 CGAATAATTTTG
* * * *
8966 AATAGTTATGACTATTGGAATAATTATTTATTTTAAATCATTATGAACTTTTGTTTTGCCATAAA
1 AATAATTATGACTATTGAAATAATTATCTATTTCAAATCATTATGAACTTTTGTTTTGCCATAAA
* * * * *
9031 ACAATTATTTTTGTTCATATTAGCTTATTTGGATTAAAATAATATTAATTTATTAATATTTCAAC
66 ACAAATATTTTTGTTCATATAAGCTTACTTGGAATAAAATAATATTAATTTATTAATATTTCAAA
* * * *
9096 AATTAATAAGTAAAAAATTTTAAAAATAAATATGTTTACCGA-GCAAGTTTAAATAGTAATAATT
131 AATTAATAAGTAAAAAATTTAAAAAATAAATATGTTTACC-ATACAAGTTCAAATAGTAATAACT
* * *
9160 ATCTGAATAATTATCTATTTCAAATCGTTATAACCT-TTTGTTTCACCATAAAATAATTATATCA
195 ATCTGAACAAATATCTATTTCAAATCGTTATAA-CTATTTGTTTCACCATAAAACAATTATATCA
* *
9224 ATTCATAT-ATGCTTATTCAAAATAAAATAATACTAACTTATTACTATTCCAAAAATTAATGAGT
259 ATTCATATAAT-CTTATTCAAAATAAAATAATACTAACTTATTAATATTCCAAAAATTAATAAGT
* * * *
9288 AA-GAGATTTAAAAAATGAATCTATTT-ACCAAACAAGTTCAAATAGTTATGACTATTTGGACAA
323 AATG-GATTTAAAAAATGAATCT-TTTGACCAAACAAGTGCAAACAATTATGACTATTTGAACAA
**
9351 TTATCTATTTCAAATTGTTATGACCTCTTGTTTTGC-CATAAAACAATTGTTTTTGTTCATACAA
386 TTATCTATTTCAAATCATTATGACCTCTTGTTTT-CTCATAAAACAATTG-TTTTGTTCATACAA
*
9415 GCTTATTTCA-AATAAAATAATAT-AAATTTACTAATATTCCAAAGATTAAT-AGT-AAAAATAT
449 GCTTA-TTCAGAATAAAATAAT-TCAAATTTACTAATATTCCAAAAATTAATAAGTGAAAAATAT
* * ** * *
9476 ATAAAAT-ACATTTATTTTTTGAACACGTTCAAAATAATTATGACCATTTAAACAATTATCTATT
512 AAAAAATGA-ATCTATTTACTGAACAAGTTC-AAATAATTATGACCATTTAAACAATTATCTAGT
* * *
9540 TCAAATCGTTATGAC-TTTTTGTTTTGTCATAAACCAATTATTTCTATTCATAAAAGCTTATT
575 TCAAATCGCTATAACTTTTTTGTATTGTCATAAA-CAATTATTTCTATTCATAAAAGCTTATT
9602 CGAAATAAAA
Statistics
Matches: 534, Mismatches: 89, Indels: 25
0.82 0.14 0.04
Matches are distributed among these distances:
659 1 0.00
660 47 0.09
661 415 0.78
662 66 0.12
663 5 0.01
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (662 bp):
AATAATTATGACTATTGAAATAATTATCTATTTCAAATCATTATGAACTTTTGTTTTGCCATAAA
ACAAATATTTTTGTTCATATAAGCTTACTTGGAATAAAATAATATTAATTTATTAATATTTCAAA
AATTAATAAGTAAAAAATTTAAAAAATAAATATGTTTACCATACAAGTTCAAATAGTAATAACTA
TCTGAACAAATATCTATTTCAAATCGTTATAACTATTTGTTTCACCATAAAACAATTATATCAAT
TCATATAATCTTATTCAAAATAAAATAATACTAACTTATTAATATTCCAAAAATTAATAAGTAAT
GGATTTAAAAAATGAATCTTTTGACCAAACAAGTGCAAACAATTATGACTATTTGAACAATTATC
TATTTCAAATCATTATGACCTCTTGTTTTCTCATAAAACAATTGTTTTGTTCATACAAGCTTATT
CAGAATAAAATAATTCAAATTTACTAATATTCCAAAAATTAATAAGTGAAAAATATAAAAAATGA
ATCTATTTACTGAACAAGTTCAAATAATTATGACCATTTAAACAATTATCTAGTTCAAATCGCTA
TAACTTTTTTGTATTGTCATAAACAATTATTTCTATTCATAAAAGCTTATTTCAAATTTGTTTAT
CGAATAATTTTG
Found at i:10161 original size:520 final size:522
Alignment explanation
Indices: 9165--10196 Score: 1216
Period size: 520 Copynumber: 2.0 Consensus size: 522
9155 TAATTATCTG
* *
9165 AATAATTATCTATTTCAAATCGTTATAACCTTTTGTTTCACCATAAAATAATTATATCAATTCAT
1 AATAATTATCTATTTCAAATCGTTATAACCTTTTGTTTCACAATAAAACAATTATATCAATTCAT
* *** *
9230 ATATGCTTATTCAAAATAAAATAATACTAACTTATTACTATTCCAAAAATTAATGAGTAAGAGAT
66 ACAAAATTATTCAAAATAAAATAATACTAACTTATTAATATTCCAAAAATTAA-GAGTAAGAGAT
*
9295 TTAAAAAATGAATCTATTTACCAAACAAGTTCAAATAGTTATGACTATTTGGACAATTATCTATT
130 TTAAAAAATGAATCTATTTACCAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATT
* * * * * *
9360 TCAAATTGTTATGACCTCTTGTTTTGCCATAAAACAATTGTTTTTGTTCATACAAGCTTATTTCA
195 TCAAATCGATATAACCTCTTGTTTTGCCATAAAACAATTGTTTCTGTCCATACAAACTTATTTCA
* * * * * *
9425 AATAAAATAATATAAATTTACTAATATTCCAAAGATTAATAGTAAAAATATATAAAATACATTTA
260 AATAAAATAATATAAATCTAATAATATTCCAAAAATTAATAGTAAAAATATAAAAAATAAATGTA
* * *
9490 TTTTTTGAACACGTTCAAAATAATTATGACCATTTAAACAATTATCTATTTCAAATCGTTATGAC
325 TTTGTTGAACACGTTCAAAATAATTAAGACCATTTAAACAATTATCTATTTCAAATCATTATGAC
* * *
9555 TTTTTGTTTTGTCATAAACCAATTATTTCTATTCATAAAAGCTTATTCGAAATAAAATAATACTA
390 TTTTTGTTTAGTCATAAAACAATTAGTTCTATTCATAAAAGCTTATTCGAAATAAAATAATACTA
*
9620 ATTTATTAAAATTTCAAAAATTAATAAGTAA-AATATTTAAAAAATAAATTTGTTTACCGAGTGA
455 ATTTATTAAAATTTCAAAAATTAATAAGCAACAA-A-TTAAAAAATAAATTTGTTTACCGAGTGA
9684 GTTCA
518 GTTCA
* * * *** * *
9689 AATAATTATTTATTTCAAATTGTTATGATCC-TTTGTTTTGTAATAAAACAATTATTTCTATTCA
1 AATAATTATCTATTTCAAATCGTTAT-AACCTTTTGTTTCACAATAAAACAATTATATCAATTCA
* **
9753 TACAAAATTATTCAAAATAAAATAATACTAATTTATTAATAGTT-TGAAAATT-A-A-TAAGAGA
65 TACAAAATTATTCAAAATAAAATAATACTAACTTATTAATA-TTCCAAAAATTAAGAGTAAGAGA
* * ** ** *
9814 TTTAAAAACT-ATATCTGTTTATTGATCCAA-TTCAAATAGTTATGACTATTTGAATAATTATCT
129 TTTAAAAAATGA-ATCTATTTA-CCAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCT
* *
9877 ATCTT-AAATCGATATAATCT-TTGTTTTGTCATAAAACAATTGTTTCTGTCCATACAAACTTAT
192 AT-TTCAAATCGATATAACCTCTTGTTTTGCCATAAAACAATTGTTTCTGTCCATACAAACTTAT
** * * * * * *
9940 TTGGAGTAAAATATTGCTAAA-CTAATAATATTCTAAAAATTAATAAGTAAGAGATTTAAAAAAT
256 TTCAAATAAAATAAT-ATAAATCTAATAATATTCCAAAAATTAAT-AGTAA-AAATATAAAAAAT
* * *
10004 AAATGTATTTGTTGAACGA-GTTC-AAATAGTTAAGACTA-TTATAATAATTATCTATTTCAAAT
318 AAATGTATTTGTTGAAC-ACGTTCAAAATAATTAAGACCATTTA-AACAATTATCTATTTCAAAT
* * * *
10066 CATTCTGATCTTTTTGTTTAGTCATAAAATAATT-GTT-TAGTTCATACATGCTTATTCGAAATA
381 CATTATGA-CTTTTTGTTTAGTCATAAAACAATTAGTTCTA-TTCATAAAAGCTTATTCGAAATA
* * *
10129 AAATAATACTATTTTATTAACA-TTCAAAAAATTAATAAGCAACGAATTAAAAAATAAATTTGTT
444 AAATAATACTAATTTATTAAAATTTC-AAAAATTAATAAGCAACAAATTAAAAAATAAATTTGTT
10193 TACC
508 TACC
10197 AAACAAGTTT
Statistics
Matches: 429, Mismatches: 65, Indels: 33
0.81 0.12 0.06
Matches are distributed among these distances:
519 100 0.23
520 173 0.40
521 58 0.14
522 1 0.00
523 1 0.00
524 91 0.21
525 5 0.01
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (522 bp):
AATAATTATCTATTTCAAATCGTTATAACCTTTTGTTTCACAATAAAACAATTATATCAATTCAT
ACAAAATTATTCAAAATAAAATAATACTAACTTATTAATATTCCAAAAATTAAGAGTAAGAGATT
TAAAAAATGAATCTATTTACCAAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTT
CAAATCGATATAACCTCTTGTTTTGCCATAAAACAATTGTTTCTGTCCATACAAACTTATTTCAA
ATAAAATAATATAAATCTAATAATATTCCAAAAATTAATAGTAAAAATATAAAAAATAAATGTAT
TTGTTGAACACGTTCAAAATAATTAAGACCATTTAAACAATTATCTATTTCAAATCATTATGACT
TTTTGTTTAGTCATAAAACAATTAGTTCTATTCATAAAAGCTTATTCGAAATAAAATAATACTAA
TTTATTAAAATTTCAAAAATTAATAAGCAACAAATTAAAAAATAAATTTGTTTACCGAGTGAGTT
CA
Found at i:10353 original size:36 final size:36
Alignment explanation
Indices: 10309--10382 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
10299 ATCCAAAATA
*
10309 AAATAATATTACTTTATCAATATTTCAAAAATTGAG
1 AAATAATATTACTTTATCAATATTTCAAAAATTAAG
*
10345 AAATAATATTACTTTATTAATATTTCAAAAATTAAG
1 AAATAATATTACTTTATCAATATTTCAAAAATTAAG
10381 AA
1 AA
10383 GTTGAAGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (36 bp):
AAATAATATTACTTTATCAATATTTCAAAAATTAAG
Found at i:10615 original size:18 final size:19
Alignment explanation
Indices: 10587--10622 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10577 TGTTTACTAA
*
10587 ACTAGTTTAAATAATTATG
1 ACTAGTTTAAACAATTATG
10606 ACTA-TTTAAACAATTAT
1 ACTAGTTTAAACAATTAT
10623 ATATTTCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (19 bp):
ACTAGTTTAAACAATTATG
Found at i:11070 original size:176 final size:176
Alignment explanation
Indices: 10345--11203 Score: 513
Period size: 181 Copynumber: 4.8 Consensus size: 176
10335 AAAAATTGAG
* * * * * *
10345 AAATAATATTACTTTATTAATATTTCAAAAATTAAGAAGTTGAAGATTTAAAACATAAATCAT-T
1 AAATAATACTAATTTATTAATATTTTAAAAATTAATAA---G-AGATTTAAAAAATAAAT-TTGT
* * * * * * * * * * *
10409 TTATCGAATTAGTTCAAATAGTCATGGC-CATTTGAACAATTATCTATTTCAAATCATTTTGAAC
61 TTACCAAACTAATTCAAATAGTTAAGACTAATTT-AACAATTATCTATTTCAAATCGTTAT-ACC
* * * * * * * *
10473 TTTTGTTTTGTCATAAAACAATTGTTTTTCA-TCATACAAGCCTAATTAGAATA
124 TTTTGTTTTGTCATAAAACAATTATTTAT-ATTAATATAATCTTATTTGGAATA
* * ** * * * *
10526 AAATAATACTAGTTTATTAATATTTCAAAAATTAAT-A-AG---TAGGAGAT-TATCTGTTTACT
1 AAATAATACTAATTTATTAATATTTTAAAAATTAATAAGAGATTTAAAAAATAAATTTGTTTACC
* * * * * ** *
10585 AAACTAGTTTAAATAATTATGACT-ATTTAAACAATTATATATTTCAAGCCATTATAACCTTTTG
66 AAACTAATTCAAATAGTTAAGACTAATTT-AACAATTATCTATTTCAAATCGTTAT-ACCTTTTG
* * * * * *
10649 TTTTGTCATAAAACAATTATTTATGTTCATACAAGCTTATTTGAAAGA
129 TTTTGTCATAAAACAATTATTTATATTAATATAATCTTATTTGGAATA
* * * * * *
10697 AAATAATACTAATCTAATAATATTATGAAAATTAATAATTAAGAGATTTGAAAAATAAATTTATT
1 AAATAATACTAATTTATTAATATT-TTAAAA--ATTAA-TAAGAGATTTAAAAAATAAATTTGTT
**** * * * * *
10762 TGTTGAACTAGTTCAAATAGTTAAGGCTATTTTAATAATTATCTATTTCAAATCGTTATATTCTT
62 TACCAAACTAATTCAAATAGTTAAGACTAATTTAACAATTATCTATTTCAAATCGTTATA-CCTT
* * * * * * * *
10827 TTATTTTTTTCATAAAACAAATGTTTTTATTAATATAATTTTGTTTAGAATA
126 TT-GTTTTGTCATAAAACAATTATTTATATTAATATAATCTTATTTGGAATA
*
10879 AAATAATATTAATTTATTAATATTTTAAAAATTAATAAGAGATTTAAAAAATAAATTTGTTTACC
1 AAATAATACTAATTTATTAATATTTTAAAAATTAATAAGAGATTTAAAAAATAAATTTGTTTACC
* * * * *
10944 AAACTAATTCAATTAGTTATA-AC-AATTTAACAATTATTTATTTCATATTGTTATGACCCTTTG
66 AAACTAATTCAAATAGTTA-AGACTAATTTAACAATTATCTATTTCAAATCGTTAT-ACCTTTTG
* * *
11007 TTTTGTCATAAAACAATTATTTCTATTGATATAATCTTATTCGGAATA
129 TTTTGTCATAAAACAATTATTTATATTAATATAATCTTATTTGGAATA
* * * * *
11055 AATTAATGCTAATTTATTAATATTCTAACAATTAATAAGTAACGAATTTAAAAAATGAATTTGTT
1 AAATAATACTAATTTATTAATATTTTAAAAATTAATAAG--A-G-ATTTAAAAAATAAATTTGTT
** *** * * * * **
11120 GGCTTGAC-CATTGCAAATAGTTATGACT-ATTTGAACAATTATTTATTTTAAATTATTATGACC
62 TACCAAACTAATT-CAAATAGTTAAGACTAATTT-AACAATTATCTATTTCAAATCGTTAT-ACC
* *
11183 TTTTTATTTTGTCACAAAACA
124 -TTTTGTTTTGTCATAAAACA
11204 CTTGTTTTTG
Statistics
Matches: 529, Mismatches: 122, Indels: 53
0.75 0.17 0.08
Matches are distributed among these distances:
170 1 0.00
171 116 0.22
172 10 0.02
174 4 0.01
175 3 0.01
176 74 0.14
177 32 0.06
178 44 0.08
179 9 0.02
180 43 0.08
181 117 0.22
182 76 0.14
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.42
Consensus pattern (176 bp):
AAATAATACTAATTTATTAATATTTTAAAAATTAATAAGAGATTTAAAAAATAAATTTGTTTACC
AAACTAATTCAAATAGTTAAGACTAATTTAACAATTATCTATTTCAAATCGTTATACCTTTTGTT
TTGTCATAAAACAATTATTTATATTAATATAATCTTATTTGGAATA
Found at i:11212 original size:358 final size:352
Alignment explanation
Indices: 10419--11212 Score: 805
Period size: 358 Copynumber: 2.2 Consensus size: 352
10409 TTATCGAATT
* * * *
10419 AGTTCAAATAGTCATGGCCATTTGAACAATTATCTATTTCAAATCATTTTGAAC-TTTTGTTTTG
1 AGTTCAAATAGTTATGGCTATTTGAACAATTATCTATTTCAAATCATTATG-ACTTTTTATTTTG
* *
10483 TCATAAAACAATTGTTTTTCATCATACAAGCCTAATTAGAATAAAATAATACTAGTTTATTAATA
65 TCATAAAACAATTGTTTTTCATAATACAAGCCTAATTAGAATAAAATAATACTAATTTATTAATA
** * * * * * * *
10548 TTTCAAAAATTAATAAGTAGGAGATTATCTGTTTACTAAACTAGTTTAAATAATTATGACTATTT
130 TTTCAAAAATTAATAAGTAAAAAATAATCTGTTTACCAAACTAATTCAAATAATTATAACAATTT
* *
10613 AAACAATTATATATTTCAAGCCATTATAACCTTTTGTTTTGTCATAAAACAATTATTTATGTTCA
195 AAACAATTATATATTTCAAGCCATTATAACCCTTTGTTTTGTCATAAAACAATTATTTATATTCA
* *
10678 TACAAGCTTATTTGAAAGAAAATAATACTAATCTAATAATATTATGAAAATTAATAATTAAGAGA
260 TACAAGCTTATTCGAAAGAAAATAATACTAATCTAATAATATTATGAAAATTAATAAGTAAGAGA
* * *
10743 TTTGAAAAATAAATTTATTTGTTGAACT
325 TTTAAAAAATAAATTTATTGGTTGAACC
* * * * *
10771 AGTTCAAATAGTTAAGGCTATTTTAATAATTATCTATTTCAAATCGTTAT-ATTCTTTTATTTTT
1 AGTTCAAATAGTTATGGCTATTTGAACAATTATCTATTTCAAATCATTATGACT-TTTTA-TTTT
* * * *** ** *
10835 TTCATAAAACAAATGTTTTT-ATTAATATAATTTTGTTTAGAATAAAATAATATTAATTTATTAA
64 GTCATAAAACAATTGTTTTTCA-TAATACAAGCCTAATTAGAATAAAATAATACTAATTTATTAA
* * * *
10899 TATTTTAAAAATTAATAAGAGATTTAAAAAATAAATTTGTTTACCAAACTAATTCAATTAGTTAT
128 TATTTCAAAAATTAAT-A-AG---TAAAAAAT-AATCTGTTTACCAAACTAATTCAAATAATTAT
* *** *
10964 AACAATTT-AACAATTATTTATTTCATA-TTGTTATGACCCTTTGTTTTGTCATAAAACAATTAT
187 AACAATTTAAACAATTATATATTTCA-AGCCATTATAACCCTTTGTTTTGTCATAAAACAATTAT
* * * * * * * * * * *
11027 TTCTATTGATATAATCTTATTCGGAATAAATTAATGCTAATTTATTAATATTCT-AACAATTAAT
251 TTATATTCATACAAGCTTATTCGAAAGAAAATAATACTAATCTAATAATATTATGAA-AATTAAT
* *
11091 AAGTAACGA-ATTTAAAAAATGAATTTGTTGGCTTG-ACC
315 AAGTAA-GAGATTTAAAAAATAAATTTATTGG-TTGAACC
* * * *
11129 A-TTGCAAATAGTTATGACTATTTGAACAATTATTTATTTTAAATTATTATGACCTTTTTATTTT
1 AGTT-CAAATAGTTATGGCTATTTGAACAATTATCTATTTCAAATCATTATGA-CTTTTTATTTT
* *
11193 GTCACAAAACACTTGTTTTT
64 GTCATAAAACAATTGTTTTT
11213 GAATTACAAG
Statistics
Matches: 354, Mismatches: 71, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
350 1 0.00
352 48 0.14
353 70 0.20
354 1 0.00
355 2 0.01
357 4 0.01
358 184 0.52
359 43 0.12
360 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.43
Consensus pattern (352 bp):
AGTTCAAATAGTTATGGCTATTTGAACAATTATCTATTTCAAATCATTATGACTTTTTATTTTGT
CATAAAACAATTGTTTTTCATAATACAAGCCTAATTAGAATAAAATAATACTAATTTATTAATAT
TTCAAAAATTAATAAGTAAAAAATAATCTGTTTACCAAACTAATTCAAATAATTATAACAATTTA
AACAATTATATATTTCAAGCCATTATAACCCTTTGTTTTGTCATAAAACAATTATTTATATTCAT
ACAAGCTTATTCGAAAGAAAATAATACTAATCTAATAATATTATGAAAATTAATAAGTAAGAGAT
TTAAAAAATAAATTTATTGGTTGAACC
Found at i:11991 original size:11 final size:11
Alignment explanation
Indices: 11977--12012 Score: 58
Period size: 10 Copynumber: 3.5 Consensus size: 11
11967 ATAATAATTC
11977 AATATTATTAT
1 AATATTATTAT
11988 AATATTATTA-
1 AATATTATTAT
11998 AATATTATT-T
1 AATATTATTAT
12008 AATAT
1 AATAT
12013 ATAATACGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATATTATTAT
Found at i:12078 original size:16 final size:16
Alignment explanation
Indices: 12057--12124 Score: 57
Period size: 16 Copynumber: 4.1 Consensus size: 16
12047 AAATAATAAT
12057 AATAATAATTTATTTA
1 AATAATAATTTATTTA
*
12073 AATAATAATTCATGATT-
1 AATAATAATTTAT--TTA
*
12090 AATAAATTATTTATTTTA
1 AAT-AATAATTTA-TTTA
* *
12108 AATATTATTTTATTTA
1 AATAATAATTTATTTA
12124 A
1 A
12125 TTTTAATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
16 17 0.41
17 11 0.27
18 12 0.29
19 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (16 bp):
AATAATAATTTATTTA
Found at i:12161 original size:22 final size:20
Alignment explanation
Indices: 12127--12168 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
12117 TTATTTAATT
12127 TTAATAATCAATTTAAAATATA
1 TTAATAATCAA-TT-AAATATA
12149 TTAATAGAT-AATTAAATATA
1 TTAATA-ATCAATTAAATATA
12169 ATACAAGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 8 0.42
23 2 0.11
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TTAATAATCAATTAAATATA
Found at i:12252 original size:23 final size:23
Alignment explanation
Indices: 12226--12305 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
12216 AAACTATTGC
*
12226 AATTATTTAAATTAAAAATAAAT
1 AATTAATTAAATTAAAAATAAAT
* * * *
12249 AATTAAGTAAA-TAGATAATCATT
1 AATTAATTAAATTA-AAAATAAAT
*
12272 AATTAATTAAATATAAAACTAAAT
1 AATTAATTAAAT-TAAAAATAAAT
12296 AATTATATTA
1 AATTA-ATTA
12306 TTATAAATAT
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
22 2 0.05
23 25 0.58
24 10 0.23
25 6 0.14
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (23 bp):
AATTAATTAAATTAAAAATAAAT
Found at i:12316 original size:14 final size:14
Alignment explanation
Indices: 12294--12323 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12284 ATAAAACTAA
*
12294 ATAATTATATTATT
1 ATAAATATATTATT
12308 ATAAATATATTATT
1 ATAAATATATTATT
12322 AT
1 AT
12324 CTTAATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATAAATATATTATT
Found at i:12799 original size:19 final size:19
Alignment explanation
Indices: 12777--12815 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12767 TTCAATAGCC
*
12777 ATTAATA-ATATTGTTAATT
1 ATTAATACA-ATTATTAATT
12796 ATTAATACAATTATTAATT
1 ATTAATACAATTATTAATT
12815 A
1 A
12816 ATGATTCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTAATACAATTATTAATT
Found at i:13344 original size:18 final size:18
Alignment explanation
Indices: 13292--13349 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
13282 TGACAAAATA
*
13292 AAAT-GTCATAACGATTT
1 AAATAGTCATAACTATTT
* *
13309 GAAATAG--ATAATTCTTT
1 -AAATAGTCATAACTATTT
13326 AAATAGTCATAACTATTT
1 AAATAGTCATAACTATTT
13344 AAATAG
1 AAATAG
13350 ATTATTATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 6 0.19
17 7 0.22
18 18 0.56
19 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.36
Consensus pattern (18 bp):
AAATAGTCATAACTATTT
Found at i:13731 original size:21 final size:22
Alignment explanation
Indices: 13688--13731 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
13678 ATTTATTAGT
13688 TAATTTAACTAATAATAAGATTA
1 TAATTTAAC-AATAATAAGATTA
13711 TAATTTAA-AATATATAA-ATTA
1 TAATTTAACAATA-ATAAGATTA
13732 CAAAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.40
22 4 0.20
23 8 0.40
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
TAATTTAACAATAATAAGATTA
Found at i:14037 original size:26 final size:28
Alignment explanation
Indices: 13990--14041 Score: 74
Period size: 26 Copynumber: 1.9 Consensus size: 28
13980 TTAAGTTATA
13990 TAAATTAACATTATATTAATTATTTAAT
1 TAAATTAACATTATATTAATTATTTAAT
14018 TAAATTAA-A-TATAGTT-ATTATTTA
1 TAAATTAACATTATA-TTAATTATTTA
14042 GATTTGTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 12 0.52
27 3 0.13
28 8 0.35
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (28 bp):
TAAATTAACATTATATTAATTATTTAAT
Found at i:14107 original size:22 final size:20
Alignment explanation
Indices: 14082--14132 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 20
14072 TATTTAAAAT
14082 TATTAAATTTAACTAAATTATA
1 TATTAAATTTAA-TAAA-TATA
14104 TATT-AA-TT-ATAAATATA
1 TATTAAATTTAATAAATATA
*
14121 TAATAAATTTAA
1 TATTAAATTTAA
14133 ATCTTATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 3 0.12
20 3 0.12
21 2 0.08
22 4 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTAAATTTAATAAATATA
Found at i:14168 original size:24 final size:25
Alignment explanation
Indices: 14110--14174 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 25
14100 TATATATTAA
* *
14110 TTATAAATATATAATAAATTTAAATC
1 TTATTAATATATTA-AAATTTAAATC
14136 TTATTAATAT-TTAAAATTTAATAT-
1 TTATTAATATATTAAAATTTAA-ATC
14160 TT-TTGAATATATTAA
1 TTATT-AATATATTAA
14175 TATATAATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
23 2 0.06
24 15 0.44
25 8 0.24
26 9 0.26
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TTATTAATATATTAAAATTTAAATC
Found at i:14204 original size:21 final size:21
Alignment explanation
Indices: 14173--14213 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14163 TGAATATATT
14173 AATATATAATTAATTATAAATA
1 AATATATAATTAATTA-AAATA
*
14195 AATA-ATAATTATTTAAAAT
1 AATATATAATTAATTAAAAT
14214 TGTTTTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATATATAATTAATTAAAATA
Found at i:14601 original size:28 final size:27
Alignment explanation
Indices: 14570--14640 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 27
14560 TAAATATTTT
*
14570 TATATTAATAAATTATAATAATTATAAA
1 TATATTAATATATTATAAT-ATTATAAA
14598 TATATT-ATATATTAT-ATATTATAAA
1 TATATTAATATATTATAATATTATAAA
* *
14623 TCTAATAATATA-TATAAT
1 TATATTAATATATTATAAT
14641 TTGTTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
25 15 0.39
26 9 0.24
27 8 0.21
28 6 0.16
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (27 bp):
TATATTAATATATTATAATATTATAAA
Found at i:14615 original size:20 final size:20
Alignment explanation
Indices: 14557--14615 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 20
14547 ATGAATTGTA
*
14557 ATATAAATAT-TTTTATATT
1 ATATAAATATATTATATATT
*
14576 A-ATAAAT-TA-TA-ATAAT
1 ATATAAATATATTATATATT
14592 -TATAAATATATTATATATT
1 ATATAAATATATTATATATT
14611 ATATA
1 ATATA
14616 TTATAAATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 11
0.69 0.07 0.24
Matches are distributed among these distances:
16 10 0.32
17 4 0.13
18 8 0.26
19 5 0.16
20 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATAAATATATTATATATT
Found at i:15315 original size:181 final size:181
Alignment explanation
Indices: 15031--15503 Score: 467
Period size: 181 Copynumber: 2.6 Consensus size: 181
15021 TAATTTTTGA
* * ** ** * * * *
15031 AATATTAATAAATTAATATTA-TTTATTTCGAAGGAA-CTTATATGAATAAAAACATTTATTTTA
1 AATATTACTAAATTTATATTATTTTATTT-GAAATAAGCTCGTATGAACAGAAACAATTGTTTTA
* * * * *
15094 CGACAAAACCAAAGGTCATAACAATTTGAAATAGATAATTATTCATATAGCCTTAACTA-TTTGA
65 TGACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAATAGCCATAACTATTTTGA
**** * * * *
15158 AT-TGGTTTGGTAAACAAATTTATTTTTTAAATCTATTAGTTATTAAAT-TTTAT
130 ATGT-GTTCAAAAAACAAATTTATTTTATAAAT-TATTACTTACT-AATCTTTAG
* * *
15211 AATATTACTAGA-TTAGTATTATTTTATTTTG-AATAAGCTCGTATGAACATAAATAATTGTTTT
1 AATATTACTAAATTTA-TATTATTTTA-TTTGAAATAAGCTCGTATGAACAGAAACAATTGTTTT
* * * * *
15274 ATGACAAAACAAAAGGTTATAACGA-TTGAAAATATATAATTATTCAAATAGTCATAATTATTTT
64 ATGACAAAACAAAAGGTCATAACAATTTG-AAATAAATAATTATTCAAATAGCCATAACTATTTT
* * *
15338 GAATGTGTTCAAAAAACAAATTTATTTTATATATTTTTACTTACTAATCTTTGG
128 GAATGTGTTCAAAAAACAAATTTATTTTATAAATTATTACTTACTAATCTTTAG
** * *
15392 AATATTTGTAAATTTATATTATTTTATTTGAAATAAGCTTGTATTAACAGAAACAATTGTTTTAT
1 AATATTACTAAATTTATATTATTTTATTTGAAATAAGCTCGTATGAACAGAAACAATTGTTTTAT
* *
15457 GGCAAAACAAAAGGTCATAACAATTTGAAATAAATAATTGTTCAAAT
66 GACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAAT
15504 CTCCTACTTA
Statistics
Matches: 238, Mismatches: 44, Indels: 21
0.79 0.15 0.07
Matches are distributed among these distances:
179 2 0.01
180 28 0.12
181 169 0.71
182 38 0.16
183 1 0.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.41
Consensus pattern (181 bp):
AATATTACTAAATTTATATTATTTTATTTGAAATAAGCTCGTATGAACAGAAACAATTGTTTTAT
GACAAAACAAAAGGTCATAACAATTTGAAATAAATAATTATTCAAATAGCCATAACTATTTTGAA
TGTGTTCAAAAAACAAATTTATTTTATAAATTATTACTTACTAATCTTTAG
Found at i:15714 original size:16 final size:17
Alignment explanation
Indices: 15695--15726 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15685 AATAAATTGA
15695 ATATAAT-AGTTAAATT
1 ATATAATAAGTTAAATT
15711 ATATAATAAGTTAAAT
1 ATATAATAAGTTAAAT
15727 GATAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATAATAAGTTAAATT
Found at i:15815 original size:13 final size:13
Alignment explanation
Indices: 15799--15823 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15789 ATTATTATAT
15799 ATTAAATATTTAA
1 ATTAAATATTTAA
15812 ATTAAATATTTA
1 ATTAAATATTTA
15824 TTATAATATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAAATATTTAA
Found at i:15956 original size:13 final size:14
Alignment explanation
Indices: 15938--15986 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
15928 AATATTTAGA
15938 TAATTAA-TAATAT
1 TAATTAATTAATAT
15951 TAATTAATTAATAT
1 TAATTAATTAATAT
*
15965 TGTATTATATTAA-A-
1 T-AATTA-ATTAATAT
15979 TAATTAAT
1 TAATTAAT
15987 AAGAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
12 2 0.06
13 11 0.35
14 8 0.26
15 5 0.16
16 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
TAATTAATTAATAT
Found at i:15996 original size:24 final size:24
Alignment explanation
Indices: 15947--16002 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
15937 ATAATTAATA
* * *
15947 ATATTAATTAATTAATATTGTATT
1 ATATTAAATAATTAATATAGAATT
15971 ATATTAAATAATTAATA-AGAATT
1 ATATTAAATAATTAATATAGAATT
*
15994 -TATTTAATA
1 ATATTAAATA
16003 TATTGTTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 8 0.29
23 4 0.14
24 16 0.57
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (24 bp):
ATATTAAATAATTAATATAGAATT
Found at i:16593 original size:20 final size:21
Alignment explanation
Indices: 16533--16581 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
16523 TCATTTTTTG
* *
16533 ATAATTATTAAATAACTAATT
1 ATAAATATTAAATTACTAATT
16554 ATAAATATTAAATTACTAATT
1 ATAAATATTAAATTACTAATT
16575 -TAAATAT
1 ATAAATAT
16582 AATTTTACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAAATATTAAATTACTAATT
Found at i:16778 original size:25 final size:25
Alignment explanation
Indices: 16722--16778 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 25
16712 AGTAGGACAA
*
16722 AATATAATAATTATATAATAATTTT
1 AATATTATAATTATATAATAATTTT
*
16747 AATTATTATATTTA-ATAATAATTTTT
1 AA-TATTATAATTATATAATAA-TTTT
16773 AATATT
1 AATATT
16779 TAAAATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
AATATTATAATTATATAATAATTTT
Found at i:16779 original size:20 final size:20
Alignment explanation
Indices: 16754--16804 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
16744 TTTAATTATT
16754 ATATTTAATAATAATT-TTTA
1 ATATTTAA-AATAATTGTTTA
16774 ATATTTAAAATAATTGTTT-
1 ATATTTAAAATAATTGTTTA
16793 ATAATTTAAAAT
1 AT-ATTTAAAAT
16805 GTATTTCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.31
20 20 0.69
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
ATATTTAAAATAATTGTTTA
Found at i:16838 original size:22 final size:21
Alignment explanation
Indices: 16747--16844 Score: 57
Period size: 22 Copynumber: 4.7 Consensus size: 21
16737 TAATAATTTT
16747 AATT-ATT-ATATTTAATAAT-
1 AATTGATTAATATTTAA-AATG
*
16766 AATT-TTTAATATTTAAAAT-
1 AATTGATTAATATTTAAAATG
*
16785 AATTG-TTTATAATTTAAAATG
1 AATTGATTAAT-ATTTAAAATG
* *
16806 TATTTCTATTAA-ATTTAAAATG
1 -AATT-GATTAATATTTAAAATG
16828 AAGTTAGATTAATATTT
1 AA-TT-GATTAATATTT
16845 TAATCTATTA
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
19 17 0.27
20 17 0.27
21 1 0.02
22 20 0.32
23 4 0.06
24 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (21 bp):
AATTGATTAATATTTAAAATG
Found at i:16950 original size:11 final size:11
Alignment explanation
Indices: 16934--16959 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
16924 TTAATAATAA
16934 ATTTAGTATAT
1 ATTTAGTATAT
16945 ATTTAGTATAT
1 ATTTAGTATAT
16956 ATTT
1 ATTT
16960 TATAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (11 bp):
ATTTAGTATAT
Found at i:17072 original size:15 final size:16
Alignment explanation
Indices: 17025--17076 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
17015 TATATTATAA
*
17025 ATTATAATTCAATTAAT
1 ATTATAAAT-AATTAAT
17042 ATTATAAATATTATTAAT
1 ATTATAAATA--ATTAAT
*
17060 ATT-TTAATAATTAAT
1 ATTATAAATAATTAAT
17075 AT
1 AT
17077 AAATTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 8 0.26
16 1 0.03
17 13 0.42
18 9 0.29
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTATAAATAATTAAT
Found at i:17080 original size:30 final size:31
Alignment explanation
Indices: 17044--17122 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 31
17034 CAATTAATAT
*
17044 TATAAATATTATTAATATT-TTAATAATTAA
1 TATAAATATTATTAATATTACTAATAATTAA
* *
17074 TATAAATTATTTTTATTTATTACTAATAATTAA
1 TATAAA-TATTATTA-ATATTACTAATAATTAA
*
17107 TATATATATTAGTTAA
1 TATAAATATTA-TTAA
17123 ATATAACGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
30 6 0.15
31 7 0.18
32 8 0.21
33 18 0.46
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (31 bp):
TATAAATATTATTAATATTACTAATAATTAA
Found at i:18257 original size:14 final size:14
Alignment explanation
Indices: 18240--18269 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18230 TTTATAATTA
18240 ATAATTAACTTAAT
1 ATAATTAACTTAAT
*
18254 ATAATTAATTTAAT
1 ATAATTAACTTAAT
18268 AT
1 AT
18270 TCATAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTAACTTAAT
Found at i:18497 original size:13 final size:13
Alignment explanation
Indices: 18479--18519 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
18469 TTGATTGTAT
*
18479 TTATTAATTATAC
1 TTATTAATTATAA
18492 TTATTAATTATAA
1 TTATTAATTATAA
18505 TTA-TAATTATTAA
1 TTATTAATTA-TAA
18518 TT
1 TT
18520 TAAAAATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATTAATTATAA
Found at i:18505 original size:19 final size:19
Alignment explanation
Indices: 18483--18519 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
18473 TTGTATTTAT
*
18483 TAATTATACTTATTAATTA
1 TAATTATAATTATTAATTA
18502 TAATTATAATTATTAATT
1 TAATTATAATTATTAATT
18520 TAAAAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATTATAATTATTAATTA
Found at i:19440 original size:22 final size:22
Alignment explanation
Indices: 19391--19441 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
19381 CAATTTATTA
*
19391 TTATAATATAATATTAATTTAT
1 TTATAATATAATATTAATTAAT
**
19413 AAATAATATAATAATT-ATTAAT
1 TTATAATATAAT-ATTAATTAAT
19435 TTATAAT
1 TTATAAT
19442 TTAACATTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATAATATAATATTAATTAAT
Found at i:19531 original size:25 final size:24
Alignment explanation
Indices: 19493--19553 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
19483 TGTTATTATA
19493 TTATTATAAT-AAT-ATATAATAATCT
1 TTATT-TAATAAATAAT-TAATAAT-T
*
19518 TTATTTAATAAATAATTAATTATT
1 TTATTTAATAAATAATTAATAATT
19542 TATATTTAATAA
1 T-TATTTAATAA
19554 TAGATATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
24 6 0.19
25 24 0.75
26 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
TTATTTAATAAATAATTAATAATT
Found at i:19653 original size:23 final size:24
Alignment explanation
Indices: 19618--19676 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
19608 ACAATTATTA
*
19618 ATAA-TTAATATTAATTGTTAATTT
1 ATAATTTAA-ATTAATTATTAATTT
19642 A-AATTTAAATTAATTATTAATTT
1 ATAATTTAAATTAATTATTAATTT
19665 ATAATTATAAAT
1 ATAATT-TAAAT
19677 AACTTAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 17 0.55
24 9 0.29
25 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
ATAATTTAAATTAATTATTAATTT
Found at i:19789 original size:25 final size:28
Alignment explanation
Indices: 19757--19815 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
19747 AAGTTTATTA
19757 ATTTATAATAA-A-TAT-AATTATTAAT
1 ATTTATAATAATATTATAAATTATTAAT
*
19782 ATTTATAATAATATTATAAATTATTTAT
1 ATTTATAATAATATTATAAATTATTAAT
*
19810 AATTAT
1 ATTTAT
19816 TATCCAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 11 0.38
26 1 0.03
27 3 0.10
28 14 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTATAATAATATTATAAATTATTAAT
Found at i:19886 original size:27 final size:25
Alignment explanation
Indices: 19856--19915 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
19846 ATTATACTAT
19856 TAATAATATT-TAAATATAAATAATTTA
1 TAATAATATTATAAAT-T-AATAA-TTA
*
19883 TAATATTATTATAAATTAATAATTA
1 TAATAATATTATAAATTAATAATTA
19908 TAA-AATAT
1 TAATAATAT
19916 ATTTATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 4 0.13
25 6 0.20
26 5 0.17
27 10 0.33
28 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TAATAATATTATAAATTAATAATTA
Found at i:19918 original size:26 final size:26
Alignment explanation
Indices: 19861--19920 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
19851 ACTATTAATA
*
19861 ATATTTAAATATAAATAATTTATAAT
1 ATATTTAAATATAAATAATTTAAAAT
19887 ATTATTATAAAT-T-AATAATTATAAAAT
1 A-TATT-TAAATATAAATAATT-TAAAAT
19914 ATATTTA
1 ATATTTA
19921 TTTTATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 2 0.07
26 12 0.40
27 11 0.37
28 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATATTTAAATATAAATAATTTAAAAT
Found at i:19926 original size:43 final size:44
Alignment explanation
Indices: 19843--19936 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 44
19833 AATAATTTAG
* *
19843 TTTATTATACTATTAATAATATTTAAATATAAATAATTTA-TAA
1 TTTATTATACAATTAATAATATTAAAATATAAATAATTTATTAA
** *
19886 TATTATTATA-AATTAATAAT-TATAAAATATATTTATTTTATTAA
1 T-TTATTATACAATTAATAATAT-TAAAATATAAATAATTTATTAA
19930 TTTATTA
1 TTTATTA
19937 ATAATTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
42 1 0.02
43 30 0.70
44 12 0.28
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (44 bp):
TTTATTATACAATTAATAATATTAAAATATAAATAATTTATTAA
Found at i:20008 original size:13 final size:14
Alignment explanation
Indices: 19974--20021 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
19964 ATAAGTTAAA
19974 AATTATAAATTATTAT
1 AATTAT-AA-TATTAT
19990 AA-TATAATATT-T
1 AATTATAATATTAT
*
20002 AATTATAATATAAT
1 AATTATAATATTAT
20016 AATTAT
1 AATTAT
20022 TAAAATAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
12 3 0.10
13 12 0.41
14 9 0.31
15 3 0.10
16 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTATAATATTAT
Found at i:21106 original size:14 final size:13
Alignment explanation
Indices: 21059--21105 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
21049 AATTTTTAGA
21059 ATATTATTAAATT
1 ATATTATTAAATT
*
21072 AGTATTATTATA-T
1 A-TATTATTAAATT
21085 -TATTATTTAAATT
1 ATATTA-TTAAATT
21098 ATATTATT
1 ATATTATT
21106 TGATAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
11 5 0.18
12 4 0.14
13 5 0.18
14 14 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
ATATTATTAAATT
Found at i:21112 original size:17 final size:17
Alignment explanation
Indices: 21078--21115 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
21068 AATTAGTATT
*
21078 ATTATATTATTATTTAA
1 ATTATATTATTATATAA
21095 ATTATATTATT-TGATAA
1 ATTATATTATTAT-ATAA
21112 ATTA
1 ATTA
21116 AATAATTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTATATTATTATATAA
Found at i:21757 original size:18 final size:18
Alignment explanation
Indices: 21736--21780 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
21726 TGTATAAATA
*
21736 TTAATTTATTTATACAAC
1 TTAATTTATTAATACAAC
* * *
21754 TTAATTAATTAATACTAT
1 TTAATTTATTAATACAAC
21772 TTAATTTAT
1 TTAATTTAT
21781 AAAATCAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (18 bp):
TTAATTTATTAATACAAC
Found at i:22142 original size:25 final size:24
Alignment explanation
Indices: 22106--22160 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
22096 TATTTATCAT
22106 TAAAT-TTAATTTTTGAATTATCAAA
1 TAAATATTAATTTTT-AATT-TCAAA
22131 TAAATATT-ATTTTTAATTTCAAA
1 TAAATATTAATTTTTAATTTCAAA
22154 TAAATAT
1 TAAATAT
22161 AACTTAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 12 0.41
24 4 0.14
25 11 0.38
26 2 0.07
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (24 bp):
TAAATATTAATTTTTAATTTCAAA
Found at i:22371 original size:10 final size:10
Alignment explanation
Indices: 22344--22409 Score: 53
Period size: 10 Copynumber: 6.2 Consensus size: 10
22334 AATCAAACAA
22344 TATATAAATAT
1 TATATAAAT-T
22355 TAT-TAAATT
1 TATATAAATT
22364 TATATAAATT
1 TATATAAATT
* **
22374 TAAATCTATT
1 TATATAAATT
22384 TATATAATTCTATT
1 TATATAA----ATT
22398 TATATAAATT
1 TATATAAATT
22408 TA
1 TA
22410 ATTTAAAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
9 4 0.09
10 27 0.61
11 3 0.07
14 10 0.23
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (10 bp):
TATATAAATT
Found at i:22397 original size:14 final size:14
Alignment explanation
Indices: 22378--22404 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22368 TAAATTTAAA
22378 TCTATTTATATAAT
1 TCTATTTATATAAT
22392 TCTATTTATATAA
1 TCTATTTATATAA
22405 ATTTAATTTA
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:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (14 bp):
TCTATTTATATAAT
Found at i:22511 original size:3 final size:3
Alignment explanation
Indices: 22503--22540 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
22493 TTATAATATT
22503 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
22541 TCATTATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:23695 original size:22 final size:20
Alignment explanation
Indices: 23651--23697 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
23641 TAAATATTAA
*
23651 ATTATT-CATAATTTAATTT
1 ATTATTACATAATATAATTT
23670 -TTATTACATAATAATAATATT
1 ATTATTACATAAT-ATAAT-TT
23691 ATTATTA
1 ATTATTA
23698 TAACTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 5 0.22
19 6 0.26
20 4 0.17
21 2 0.09
22 6 0.26
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTATTACATAATATAATTT
Found at i:23927 original size:28 final size:27
Alignment explanation
Indices: 23883--23940 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
23873 TAATAACCTA
*
23883 ATATAATTATAAATAATAATTTAT-TT
1 ATATAATTATAAATAATAATTAATATT
23909 ATATGAATTATTAAATAATAATTAATATT
1 ATAT-AATTA-TAAATAATAATTAATATT
23938 ATA
1 ATA
23941 ATATAATGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 4 0.14
27 5 0.18
28 14 0.50
29 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
ATATAATTATAAATAATAATTAATATT
Found at i:23952 original size:18 final size:17
Alignment explanation
Indices: 23832--23967 Score: 62
Period size: 16 Copynumber: 8.4 Consensus size: 17
23822 AAATAATATA
*
23832 ATAATAAATA-TATAAT
1 ATAATTAATATTATAAT
*
23848 ATAATTAATACTATAA-
1 ATAATTAATATTATAAT
* * * *
23864 AT-ATTATTCTAATAAC
1 ATAATTAATATTATAAT
*
23880 CTAA-T-ATAATTATAA-
1 ATAATTAAT-ATTATAAT
*
23895 ATAA-TAAT-TTAT-TT
1 ATAATTAATATTATAAT
*
23909 AT-ATGAATTATTA-AAT
1 ATAATTAA-TATTATAAT
23925 AATAATTAATATTATAAT
1 -ATAATTAATATTATAAT
23943 ATAATGTAATATTATTAAT
1 ATAAT-TAATATTA-TAAT
23962 A-AATTA
1 ATAATTA
23968 TTAGTTATTA
Statistics
Matches: 91, Mismatches: 14, Indels: 29
0.68 0.10 0.22
Matches are distributed among these distances:
13 1 0.01
14 8 0.09
15 15 0.16
16 24 0.26
17 20 0.22
18 18 0.20
19 5 0.05
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (17 bp):
ATAATTAATATTATAAT
Found at i:24110 original size:22 final size:22
Alignment explanation
Indices: 24082--24124 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
24072 TTATATTTAT
*
24082 AAATATTAAAATTATTATAATA
1 AAATATTAAAATTATAATAATA
**
24104 AAATATTGTAATTATAATAAT
1 AAATATTAAAATTATAATAAT
24125 TGTTTATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATATTAAAATTATAATAATA
Found at i:24579 original size:35 final size:33
Alignment explanation
Indices: 24535--24621 Score: 108
Period size: 35 Copynumber: 2.6 Consensus size: 33
24525 TAGTTACAAC
24535 TAATTATATTATAATTATTAATAATAACTATA-AA
1 TAATTATATTATAATTATTAAT-A-AACTATATAA
*
24569 TTAATTATATTATAATAATTAATAAACTATATAA
1 -TAATTATATTATAATTATTAATAAACTATATAA
*
24603 TAATT-TATTATTA-TATTAA
1 TAATTATATTATAATTATTAA
24622 AAAAATAATC
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
31 5 0.10
32 7 0.15
33 12 0.25
34 3 0.06
35 21 0.44
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (33 bp):
TAATTATATTATAATTATTAATAAACTATATAA
Found at i:25293 original size:26 final size:26
Alignment explanation
Indices: 25258--25312 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
25248 TTTCAATTAT
*
25258 TAATAATATTTTAAATTTTAA-GCATA
1 TAATAATATTAT-AATTTTAATGCATA
*
25284 TAATAATATTATAATTTTAATGCTTA
1 TAATAATATTATAATTTTAATGCATA
25310 TAA
1 TAA
25313 AATTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (26 bp):
TAATAATATTATAATTTTAATGCATA
Found at i:25321 original size:23 final size:22
Alignment explanation
Indices: 25260--25322 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 22
25250 TCAATTATTA
*
25260 ATAATATTTTAAATTTTAAGCAT
1 ATAAAATTTT-AATTTTAAGCAT
*
25283 ATAATAATATTATAATTTTAATGCTT
1 ATAA-AAT-TT-TAATTTTAA-GCAT
25309 ATAAAATTTTAATT
1 ATAAAATTTTAATT
25323 GTCGAATTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
23 9 0.26
24 4 0.12
25 13 0.38
26 8 0.24
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (22 bp):
ATAAAATTTTAATTTTAAGCAT
Found at i:25684 original size:22 final size:22
Alignment explanation
Indices: 25669--25737 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 22
25659 TTATTTATTC
25669 ATTAATAAGTAATTATTAATATA
1 ATTAAT-AGTAATTATTAATATA
* *
25692 ATTAATATTAATTATTATTAT-
1 ATTAATAGTAATTATTAATATA
** *
25713 ATTTGTAATAATTATTAA-ATA
1 ATTAATAGTAATTATTAATATA
25734 ATTA
1 ATTA
25738 TATTATAGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 2 0.05
21 17 0.45
22 13 0.34
23 6 0.16
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (22 bp):
ATTAATAGTAATTATTAATATA
Found at i:25698 original size:43 final size:44
Alignment explanation
Indices: 25663--25742 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 44
25653 ATATATTTAT
25663 TTATT-CATTAATAAGTAATTATTAATATAATTAATATTAATTA
1 TTATTACATTAATAAGTAATTATTAATATAATTAATATTAATTA
* **
25706 TTATTATATTTGTAA-TAATTATTAA-ATAATT-ATATTA
1 TTATTACATTAATAAGTAATTATTAATATAATTAATATTA
25743 TAGATTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
41 6 0.18
42 6 0.18
43 15 0.45
44 6 0.18
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (44 bp):
TTATTACATTAATAAGTAATTATTAATATAATTAATATTAATTA
Found at i:26046 original size:175 final size:176
Alignment explanation
Indices: 25816--26136 Score: 400
Period size: 175 Copynumber: 1.8 Consensus size: 176
25806 GTTTTATTAT
* *
25816 AAAATAATTGTTTCTATTCATACAAAATTATTCAGAATAAAATAATACCAATTTATTACTA-TTT
1 AAAATAATTGTTTCAATTCATACAAAATTATTCAGAATAAAATAATACCAATTTATTA-AACTTT
* * * * * *
25880 TGAAAATTAATAAG-GATTTAAAAATAAATGTGTTTTCTGAAGCAGTTCAAATAGTTAAAACTAT
65 AGAAAATTAATAAGAAATTTAAAAA-AAATCTATTTACTGAAGAAGTTCAAATAGTTAAAACTAT
25944 TAGAAT-AATTATCTATTCCAAATTATTTTGATCTTTTGTTTAGTCAA
129 TAGAATAAATTATCTATTCCAAATTATTTTGATCTTTTGTTTAGTCAA
** * *
25991 AAAATAATTGTTTCAATTCATACATGCA-TATTC-GAAATATAATAATACTAATTTATTAAACTT
1 AAAATAATTGTTTCAATTCATACA-AAATTATTCAG-AATAAAATAATACCAATTTATTAAACTT
** * * **
26054 TAGAAAATTAATAAGAAATTTTTAAAAAATCTATTTACTGAATAATTTCAAATAGTTATGACTAT
64 TAGAAAATTAATAAGAAATTTAAAAAAAATCTATTTACTGAAGAAGTTCAAATAGTTAAAACTAT
*
26119 TTGAATAAATTATCTATT
129 TAGAATAAATTATCTATT
26137 TAAAATCGTT
Statistics
Matches: 122, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
174 2 0.02
175 101 0.83
176 19 0.16
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.40
Consensus pattern (176 bp):
AAAATAATTGTTTCAATTCATACAAAATTATTCAGAATAAAATAATACCAATTTATTAAACTTTA
GAAAATTAATAAGAAATTTAAAAAAAATCTATTTACTGAAGAAGTTCAAATAGTTAAAACTATTA
GAATAAATTATCTATTCCAAATTATTTTGATCTTTTGTTTAGTCAA
Found at i:26915 original size:176 final size:176
Alignment explanation
Indices: 26706--27023 Score: 424
Period size: 176 Copynumber: 1.8 Consensus size: 176
26696 AAATTTTTTT
* * * *
26706 ACTTATTAATTGTCAAAATATTAACAAATTAGTATTATTTTAATCCAAATAAGCTTGTATAAATA
1 ACTTATTAATTGTCAAAATATTAACAAATTAGTATTACTTTAATCCAAATAAACTTATATAAACA
* * *
26771 AAAACAATTGTTTTATAATAGAAC-AAAAAGTCATAATGATTTGAAATAAATAATTACTT-AAAT
66 AAAACAATTGTTTTATAACAAAACAAAAAAGTAATAATGATTTGAAATAAATAATT-CTTCAAAT
26834 AGTCATAACTTTTTGAACTAGTTTGATACATAGATTTTTTTTAAAATC
130 AGT-ATAACTTTTTGAACTAGTTTGATACATAGATTTTTTTTAAAATC
* ** * * * * *
26882 ACTTATTAATTTTTGAAATATTAATAGATTAGTATTACTTTATTCCAAATAAATTTATATGAACA
1 ACTTATTAATTGTCAAAATATTAACAAATTAGTATTACTTTAATCCAAATAAACTTATATAAACA
* * * *
26947 AAAACATTTGTTTTATGACAAAACAAAAAAGTAATAATGATTTGAAATATATAATTGTTCAAATA
66 AAAACAATTGTTTTATAACAAAACAAAAAAGTAATAATGATTTGAAATAAATAATTCTTCAAATA
*
27012 GTATAATTTTTT
131 GTATAACTTTTT
27024 AAATTGGTTA
Statistics
Matches: 120, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
176 84 0.70
177 36 0.30
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (176 bp):
ACTTATTAATTGTCAAAATATTAACAAATTAGTATTACTTTAATCCAAATAAACTTATATAAACA
AAAACAATTGTTTTATAACAAAACAAAAAAGTAATAATGATTTGAAATAAATAATTCTTCAAATA
GTATAACTTTTTGAACTAGTTTGATACATAGATTTTTTTTAAAATC
Found at i:27265 original size:180 final size:180
Alignment explanation
Indices: 26704--27441 Score: 611
Period size: 181 Copynumber: 4.1 Consensus size: 180
26694 TTAAATTTTT
* * * * * * *
26704 TTACTTATTAATTGTCAAAATATTAACAAATT-AGTATTATTTTAATCCAAATAAGCTTGTATAA
1 TTACTTATTAATTTTTAAAATATTAACAAATTCA-TATTATTTTATTTCGAATAAGCTTATATGA
* * * * * * * * * *
26768 ATAAAAACAATTGTTTTATAATAGAACAAAAAGTCATAATGATTTGAAATAAATAATTACTT-AA
65 ACAGAAATAATTGTTTTATGACAAAACAAAAGGTAATAATGATTTGAAATATATAATT-GTTCAA
* * * * * * * * * *
26832 ATAGTCATAACTTTTTGAACTAGTTTGATACATAGA-TT-TTTTTTAAA--A
129 ATAGTCATAACTATTTAAATTGGTTAGGTAAACAAATTTATTTTTTAAACCC
* * * * * * * **
26880 TCACTTATTAATTTTTGAAATATTAATAGATT-AGTATTACTTTATTCCAAATAAATTTATATGA
1 TTACTTATTAATTTTTAAAATATTAACAAATTCA-TATTATTTTATTTCGAATAAGCTTATATGA
* * * *
26944 ACAAAAACATTTGTTTTATGACAAAACAAAAAAGTAATAATGATTTGAAATATATAATTGTTCAA
65 ACAGAAATAATTGTTTTATGACAAAAC-AAAAGGTAATAATGATTTGAAATATATAATTGTTCAA
* * *
27009 ATAGT-ATAATTTTTTAAATTGGTTAGGTAAACATAA-TTATTTTTTAGACCTC
129 ATAGTCATAACTATTTAAATTGGTTAGGTAAACA-AATTTATTTTTTAAACC-C
* *
27061 TTATTTATTAATTTTTAAAATATTAACAAATTCATTTTATTTTATTTCGAATAAGC-TAGTATGA
1 TTACTTATTAATTTTTAAAATATTAACAAATTCATATTATTTTATTTCGAATAAGCTTA-TATGA
* * * * *
27125 ATTCAG-AA-AATTGTTTTATGACAAGAC-AAAGGTCATAACGATTTGAATTAGATAATTGTTCA
65 A--CAGAAATAATTGTTTTATGACAAAACAAAAGGTAATAATGATTTGAAATATATAATTGTTCA
* * * * * *
27187 TATAGTCTTAACTATTTGAATTAGTTTGGCAAACAAATTTATTTTTTAAATCCC
128 AATAGTCATAACTATTTAAATTGGTTAGGTAAACAAATTTATTTTTTAAA-CCC
* ** ** * * *
27241 TTAGTTATTAATTTTTTGAATATTATTAGATTCATATTGTTTTATTTTGAATAAGCTTATATGAA
1 TTACTTATTAATTTTTAAAATATTAACAAATTCATATTATTTTATTTCGAATAAGCTTATATGAA
* * * * * *
27306 CAGAAATAATTATTTTATGACAAAACAAAAGGTTATAATGATATGAAGTATAGAATTATTCAAAT
66 CAGAAATAATTGTTTTATGACAAAACAAAAGGTAATAATGATTTGAAATATATAATTGTTCAAAT
* * * * *
27371 AGTCATAACTATTTAAACTGGTTCGGTAAACAGATTCATTTTTTAAACTC
131 AGTCATAACTATTTAAATTGGTTAGGTAAACAAATTTATTTTTTAAACCC
*
27421 TTACTTATTAATTTTTGAAAT
1 TTACTTATTAATTTTTAAAAT
27442 TGTTAATTTT
Statistics
Matches: 454, Mismatches: 90, Indels: 32
0.79 0.16 0.06
Matches are distributed among these distances:
176 96 0.21
177 39 0.09
178 11 0.02
179 39 0.09
180 125 0.28
181 139 0.31
182 3 0.01
183 2 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (180 bp):
TTACTTATTAATTTTTAAAATATTAACAAATTCATATTATTTTATTTCGAATAAGCTTATATGAA
CAGAAATAATTGTTTTATGACAAAACAAAAGGTAATAATGATTTGAAATATATAATTGTTCAAAT
AGTCATAACTATTTAAATTGGTTAGGTAAACAAATTTATTTTTTAAACCC
Found at i:28994 original size:181 final size:181
Alignment explanation
Indices: 27798--29381 Score: 1179
Period size: 180 Copynumber: 8.9 Consensus size: 181
27788 GATAATTTAT
* * * * * * *
27798 AAATAAAATAAAACTAATCTAATAATATTCTAAAAATTAATAACTAAGAGATTTAAAAAATAAA-
1 AAATAAAATAATATTAATTTATTAATATTTTAAAAATTAATAAGTAAAAGATTTAAAAAATAAAT
* ** ** *
27862 ATTGTTTGTCGAATTAGTTCAAATAGTTAAAACTATATGAATAATTATCTATTTCAAATCATTAT
66 A-TGTTTATCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTAT
* * *
27927 AACCTTTTGTTTTGTCATAAAAAAATAT-TTTCAATTCATACTAGCTTATTT-
130 GACCTTTTGTTTTGTCATAAAACAAT-TGTTTCTATTCATACTAGCTTATTTG
* * * * * * * *
27978 AGAATAAAATAAAATAAATTTATTAAAATTTCAAAAATTAGTAAGTAAGAGAATT-AAAAATAAT
1 A-AATAAAATAATATTAATTTATTAATATTTTAAAAATTAATAAGTAAAAGATTTAAAAAATAAA
* * * * * * * **
28042 TCTGTTTACCTAACCAGTTCAAATAATAATGACTATTTGAACAATTATCTATTTCAAATTGTTAT
65 TATGTTTATCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTAT
* * * * *
28107 GACCTTTTGTTTTGTCATAAAACTAA-TGTTTTTGTTCATA-TAAGTTTGTTCG
130 GACCTTTTGTTTTGTCATAAAAC-AATTGTTTCTATTCATACT-AGCTTATTTG
* * * *
28159 AAATAAAATAATACTAATATATTAATATTTCAAAAATTAAT-A--AAAA-TTTTAAAAAATAAAT
1 AAATAAAATAATATTAATTTATTAATATTTTAAAAATTAATAAGTAAAAGATTTAAAAAATAAAT
* * * ** * * *
28220 CTCTTTATCAAACTGGTTC-AA-A-TTAAGACTATTT-AAGCAATTAT-TAATTTCAAATCACTA
66 ATGTTTATCGAACAAGTTCAAATAGTTATGACTATTTGAA-TAATTATCT-ATTTCAAATCATTA
* * * * * * * * *
28280 TGACTTTTTGTTCTGTTATAAGATAATAGTTTCTATTTATTCAAGCTTATTT-
129 TGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACTAGCTTATTTG
* * * * * * *
28332 AAATTAAAATATTATAAATTTATTAATATTTTGACAATTAATATGTAAAAAATGTAAAAAATTAA
1 AAA-TAAAATAATATTAATTTATTAATATTTTAAAAATTAATAAGTAAAAGATTTAAAAAA-TAA
* * * * * * * *
28397 ATATGTTTA-CTAAACTAGATCAAA-CGATCATGACTATTTGAATAGTTATCTATTTCTAATCGT
64 ATATGTTTATC-GAACAAGTTCAAATAG-TTATGACTATTTGAATAATTATCTATTTCAAATCAT
* * *
28460 TATGACCTTTT-TTTCTGTCATAAAAAAATTATTTCAATTCATA-TAAGCTTATTTG
127 TATGACCTTTTGTTT-TGTCATAAAACAATTGTTTCTATTCATACT-AGCTTATTTG
* * * *
28515 AAATAAAATAATATTAAGTTATTAAT-TTTTAAAAATTAATAATTAAGAGATTTAAAAAATGAAT
1 AAATAAAATAATATTAATTTATTAATATTTTAAAAATTAATAAGTAAAAGATTTAAAAAATAAAT
* * * * * * * ** **
28579 TTGTTTATTGAACAAGTTTAAATAATTATAATTATTTGAACAATTAGT-TATTGAAAATCGCTAT
66 ATGTTTATCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTA-TCTATTTCAAATCATTAT
* * * * * *
28643 AACCTTTTGCTTTGTCATAAAATAATTTTTTTCTTTTCATACAAGCTTATTTTG
130 GACCTTTTGTTTTGTCATAAAACAA-TTGTTTCTATTCATACTAGCTTA-TTTG
*
28697 -AATAAAATAATA-CAATTTTATTAA-A--TTAAGACAATTAATAAGTAAAAGATTT-AAAAATA
1 AAATAAAATAATATTAA-TTTATTAATATTTTAA-A-AATTAATAAGTAAAAGATTTAAAAAATA
* * **
28756 AATATGTTTA-CTGAACAAGTTAAAATCA-TTATGACTATTTGAATAATTATTTATTTCAAATTG
63 AATATGTTTATC-GAACAAGTTCAAAT-AGTTATGACTATTTGAATAATTATCTATTTCAAATCA
* * *
28819 TTATGACTTTTTGTTTTGTCATAAAACAATTGTTTTTATTCACACTAGCTTATTTG
126 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACTAGCTTATTTG
* * *
28875 AAATAAAATAATATTAATTTATTAATATTTTGACAATTTATAAGTAAAAGATTTAAAAAATAAAT
1 AAATAAAATAATATTAATTTATTAATATTTTAAAAATTAATAAGTAAAAGATTTAAAAAATAAAT
* * * *
28940 ATATTTATCGAACAAGTTCAAATAGTCATGACTATTTGAATAATAATCTATTTCAAATCATCATG
66 ATGTTTATCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATG
* * * * *
29005 AGCTTTTGTTTTGTAATAAAATAATTGCTT-TAGTTCATA-TAAGCCTATTTG
131 ACCTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATACT-AGCTTATTTG
* * * * * *
29056 AGATAAAATAATATTCCA---A--AA-A--TT----A--AA-GAGTAACAGAATTAAAAAATGAA
1 AAATAAAATAATATT-AATTTATTAATATTTTAAAAATTAATAAGTAAAAGATTTAAAAAATAAA
* ** * * * *
29106 T-TTTCTTATC-AATCAAGTGGAAATAGTTATGACTATCTAAACAATTATCTATTTCAAAACATT
65 TATGT-TTATCGAA-CAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATT
* * * * * *
29169 ATGACATTTTGTTTTGTCATAAAACAATTGATTCTGTTCATGCAAGCGTATTTTG
128 ATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACTAGCTTA-TTTG
* * * ** * * *
29224 -AATAAACTAATATAAATTTGTTAATATTCCAAAAATTAATAAGTATAA-TTTTAGAAAATAAAG
1 AAATAAAATAATATTAATTTATTAATATTTTAAAAATTAATAAGTAAAAGATTTAAAAAATAAA-
*
29287 CTAT-TTTCT-GAACACA-TTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATT
65 -TATGTTTATCGAACA-AGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATT
* * *
29349 ATGACCATTTGTTTTGTCGTAAACCAATTGTTT
128 ATGACCTTTTGTTTTGTCATAAAACAATTGTTT
29382 ATTCAATAAT
Statistics
Matches: 1098, Mismatches: 230, Indels: 152
0.74 0.16 0.10
Matches are distributed among these distances:
166 5 0.00
167 115 0.10
168 6 0.01
170 1 0.00
171 2 0.00
172 1 0.00
173 8 0.01
174 95 0.09
175 1 0.00
176 5 0.00
177 32 0.03
178 14 0.01
179 65 0.06
180 387 0.35
181 260 0.24
182 94 0.09
183 7 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (181 bp):
AAATAAAATAATATTAATTTATTAATATTTTAAAAATTAATAAGTAAAAGATTTAAAAAATAAAT
ATGTTTATCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCATTATG
ACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACTAGCTTATTTG
Found at i:29318 original size:528 final size:529
Alignment explanation
Indices: 27893--29381 Score: 1301
Period size: 528 Copynumber: 2.8 Consensus size: 529
27883 AATAGTTAAA
* * * * *
27893 ACTATATGAATAATTATCTATTTCAAATCATTATAACCTTTTGTTT-TGTCATAAAAAAA-TATT
1 ACTATTTGAATAATAATCTATTTCAAATCATCATGACCTTTT-TTTCTGTAATAAAAAAATTA-T
* * * * *
27956 TTCAATTCATACT-AGCTTATTT-AGAATAAAATAAAATAAATTTATTAAAATTTCAAAAATTAG
64 TTCAATTCATA-TAAGCCTATTTGA-AATAAAAT--AAT--A-TTAATATAATTT--AAAATGAA
* * * ** *
28019 TAAGTAAGAGAATT-AAAAAT-AATTCTGTTTA-CCTAACCAGTTCAAATAATAATGACTATTTG
120 TAA-TAAGAGATTTAAAAAATGAATT-TGTTTATTC-AACAAGTGGAAATAATTATGACTATTTG
** *
28081 AACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAAACTAA-TGTTTTTGTTCA
182 AACAATTATCTATTTCAAAACGTTATGACCTTTTGTTTTGTCATAAAAC-AATTGTTTCTGTTCA
* *
28145 TATAA--GT-TTGTTCGAAATAAAATAATACT-AATATATTAATATTTCAAAAATTAATAA--AA
246 TACAAGCGTATT-TT-G-AATAAAATAATA-TAAATTTATTAATA-TTCAAAAATTAATAAGTAA
* * ** * *
28204 ATTTTAAAAAATAAATCTCTTTATC-AAACTGGTTC-AA-ATTAAGACTATTT-AAGCAATTATT
306 ATTTT-AAAAATAAA-CTATTT-TCTGAAC-AATTCAAATATTATGACTATTTGAA-TAATTATT
* * * * * * * * **
28265 AATTTCAAATCACTATGACTTTTTGTTCTGTTATAAGATAATAGTTTCTATTTATTCAAGCTTAT
366 TATTTCAAATCATTATGACTTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGCTTAT
* *
28330 TTAAATTAAAATATTATAAATTTATTAATATTTTGACAATTAATATGTAAAAAATGTAAAAAATT
431 TTAAATTAAAATAATATAAATTTATTAATATTTTGACAATTAATAAGTAAAAAATGTAAAAAATT
* * *
28395 AAATATGTTTACTAAACTAGATCAAACGATCATG
496 AAATATATTTACTAAACAAGATCAAAAGATCATG
* * * * * *
28429 ACTATTTGAATAGTTATCTATTTCTAATCGTTATGACCTTTTTTTCTGTCATAAAAAAATTATTT
1 ACTATTTGAATAATAATCTATTTCAAATCATCATGACCTTTTTTTCTGTAATAAAAAAATTATTT
* *
28494 CAATTCATATAAGCTTATTTGAAATAAAATAATATTAAGTTATTAATTTTTAAAAATTAATAATT
66 CAATTCATATAAGCCTATTTGAAATAAAATAATATTAA--TA-TAA--TTT-AAAATGAATAA-T
* ** * *
28559 AAGAGATTTAAAAAATGAATTTGTTTATTGAACAAGTTTAAATAATTATAATTATTTGAACAATT
124 AAGAGATTTAAAAAATGAATTTGTTTATTCAACAAGTGGAAATAATTATGACTATTTGAACAATT
* * * * * * *
28624 AGT-TA-TTGAAAATCGCTATAACCTTTTGCTTTGTCATAAAATAATTTTTTTCTTTTCATACAA
189 A-TCTATTTCAAAA-CGTTATGACCTTTTGTTTTGTCATAAAACAA-TTGTTTCTGTTCATACAA
* * * *
28687 GCTTATTTTGAATAAAATAATACAATTTTATTAA-ATT-AAGACAATTAATAAGTAAAAGATTTA
251 GCGTATTTTGAATAAAATAATATAAATTTATTAATATTCAA-A-AATTAATAAGT-AAA-TTTTA
*
28750 AAAATAAA-TATGTTTACTGAACAAGTTAAAATCATTATGACTATTTGAATAATTATTTATTTCA
312 AAAATAAACTAT-TTT-CTGAACAA-TTCAAAT-ATTATGACTATTTGAATAATTATTTATTTCA
** * *
28814 AATTGTTATGACTTTTTGTTTTGTCATAAAACAATTGTTTTTATTCACACTAGCTTATTTGAAA-
373 AATCATTATGACTTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGCTTATTT-AAAT
* * * *
28878 TAAAATAATATTAATTTATTAATATTTTGACAATTTATAAGTAAAAGATTTAAAAAA-TAAATAT
437 TAAAATAATATAAATTTATTAATATTTTGACAATTAATAAGTAAAAAATGTAAAAAATTAAATAT
* *
28942 ATTTA-TCGAACAAGTTCAAATAG-TCATG
502 ATTTACT-AAACAAGATCAAA-AGATCATG
* * *
28970 ACTATTTGAATAATAATCTATTTCAAATCATCATGAGCTTTTGTTT-TGTAATAAAATAATTGCT
1 ACTATTTGAATAATAATCTATTTCAAATCATCATGACCTTTT-TTTCTGTAATAAAAAAATT-AT
* * * *
29034 TT-AGTTCATATAAGCCTATTTGAGATAAAATAATATTCCAA-A-AA-TT-AAA-GAGTAA-CAG
64 TTCAATTCATATAAGCCTATTTGAAATAAAATAATATT--AATATAATTTAAAATGAATAATAAG
* * *
29092 A-A-TTAAAAAATGAATTT-TCTTA-TCAATCAAGTGGAAATAGTTATGACTATCTAAACAATTA
127 AGATTTAAAAAATGAATTTGT-TTATTCAA-CAAGTGGAAATAATTATGACTATTTGAACAATTA
* * * *
29153 TCTATTTCAAAACATTATGACATTTTGTTTTGTCATAAAACAATTGATTCTGTTCATGCAAGCGT
190 TCTATTTCAAAACGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCGT
* *
29218 ATTTTGAATAAACTAATATAAATTTGTTAATATTCCAAAAATTAATAAGTATAATTTTAGAAAAT
255 ATTTTGAATAAAATAATATAAATTTATTAATATT-CAAAAATTAATAAGTA-AATTTTA-AAAAT
*
29283 AAAGCTATTTTCTGAACACATTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCAT
317 AAA-CTATTTTCTGAACA-ATTCAAATA-TTATGACTATTTGAATAATTATTTATTTCAAATCAT
** * *
29348 TATGACCATTTGTTTTGTCGTAAACCAATTGTTT
379 TATGACTTTTTGTTTTGTCATAAAACAATTGTTT
29382 ATTCAATAAT
Statistics
Matches: 786, Mismatches: 113, Indels: 116
0.77 0.11 0.11
Matches are distributed among these distances:
527 54 0.07
528 172 0.22
529 12 0.02
530 8 0.01
531 3 0.00
532 5 0.01
533 5 0.01
534 7 0.01
535 36 0.05
536 161 0.20
537 44 0.06
538 6 0.01
539 20 0.03
540 9 0.01
541 107 0.14
542 130 0.17
543 7 0.01
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (529 bp):
ACTATTTGAATAATAATCTATTTCAAATCATCATGACCTTTTTTTCTGTAATAAAAAAATTATTT
CAATTCATATAAGCCTATTTGAAATAAAATAATATTAATATAATTTAAAATGAATAATAAGAGAT
TTAAAAAATGAATTTGTTTATTCAACAAGTGGAAATAATTATGACTATTTGAACAATTATCTATT
TCAAAACGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTGTTCATACAAGCGTATTTTG
AATAAAATAATATAAATTTATTAATATTCAAAAATTAATAAGTAAATTTTAAAAATAAACTATTT
TCTGAACAATTCAAATATTATGACTATTTGAATAATTATTTATTTCAAATCATTATGACTTTTTG
TTTTGTCATAAAACAATTGTTTCTATTCACACAAGCTTATTTAAATTAAAATAATATAAATTTAT
TAATATTTTGACAATTAATAAGTAAAAAATGTAAAAAATTAAATATATTTACTAAACAAGATCAA
AAGATCATG
Found at i:29989 original size:8 final size:8
Alignment explanation
Indices: 29976--30062 Score: 50
Period size: 8 Copynumber: 10.2 Consensus size: 8
29966 TATTAATCAT
29976 TAATATTA
1 TAATATTA
29984 TAATATTA
1 TAATATTA
*
29992 AATATATTA
1 TA-ATATTA
30001 TTAATAATCTA
1 -TAAT-AT-TA
*
30012 TTATATTA
1 TAATATTA
30020 CTCAAT-TTA
1 -T-AATATTA
* *
30029 TTATATCA
1 TAATATTA
*
30037 TAATATAA
1 TAATATTA
* *
30045 TTAGATTA
1 TAATATTA
30053 TAATATTA
1 TAATATTA
30061 TA
1 TA
30063 TTAATAATCA
Statistics
Matches: 59, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
7 2 0.03
8 33 0.56
9 14 0.24
10 8 0.14
11 2 0.03
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (8 bp):
TAATATTA
Found at i:30017 original size:21 final size:20
Alignment explanation
Indices: 29958--30017 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 20
29948 AATTAGTATA
*
29958 ATATATTATATTAATC-ATT
1 ATATATTATAATAATCTATT
*
29977 A-ATATTATAAT-AT-TA-A
1 ATATATTATAATAATCTATT
29993 ATATATTATTAATAATCTATT
1 ATATATTA-TAATAATCTATT
30014 ATAT
1 ATAT
30018 TACTCAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 13 0.41
19 3 0.09
20 2 0.06
21 4 0.12
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATATTATAATAATCTATT
Found at i:30421 original size:19 final size:20
Alignment explanation
Indices: 30391--30430 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
30381 TATAATTGAC
30391 TATTTAAAAATAATAA-ATAT
1 TATTTAAAAAT-ATAATATAT
30411 TATTT-AAAATATAATATAT
1 TATTTAAAAATATAATATAT
30430 T
1 T
30431 TCACATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTTAAAAATATAATATAT
Found at i:30424 original size:21 final size:21
Alignment explanation
Indices: 30355--30426 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
30345 TAGCTTAATA
*
30355 ATAATTAATATTAATTATAAATAT
1 ATAATAAATATT-ATT-TAAA-AT
* * *
30379 ATTATAATTGACTATTTAAAA-
1 ATAATAAAT-ATTATTTAAAAT
30400 ATAATAAATATTATTTAAAAT
1 ATAATAAATATTATTTAAAAT
30421 ATAATA
1 ATAATA
30427 TATTTCACAT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
20 10 0.26
21 13 0.33
22 1 0.03
23 4 0.10
24 9 0.23
25 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
ATAATAAATATTATTTAAAAT
Found at i:30448 original size:45 final size:46
Alignment explanation
Indices: 30351--30475 Score: 114
Period size: 45 Copynumber: 2.7 Consensus size: 46
30341 ATAATAGCTT
* * * *
30351 AATAATAATTAATATTAATTATAAATATATTATAATTGACTATTTA
1 AATAATAATAAATATTAATTATAAATATAATATAATTCACTATATA
* *
30397 AA-AATAATAAATATTATTTA-AAATATAATATATTTCAC-ATATA
1 AATAATAATAAATATTAATTATAAATATAATATAATTCACTATATA
30440 AATTAATAATTATAAT-TTATATCTATCAAATATAAT
1 AA-TAATAA-TA-AATATTA-AT-TAT-AAATATAAT
30476 CATTATATAT
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
43 6 0.09
44 15 0.23
45 21 0.33
46 7 0.11
47 4 0.06
48 2 0.03
50 9 0.14
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (46 bp):
AATAATAATAAATATTAATTATAAATATAATATAATTCACTATATA
Found at i:31188 original size:16 final size:17
Alignment explanation
Indices: 31169--31203 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
31159 AAATATTATT
31169 TATAAATAA-TAATATA
1 TATAAATAACTAATATA
*
31185 TATAAATAACTATTATA
1 TATAAATAACTAATATA
31202 TA
1 TA
31204 AGTTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
TATAAATAACTAATATA
Found at i:31386 original size:21 final size:21
Alignment explanation
Indices: 31347--31388 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
31337 ATAAAAATCC
31347 TATAATAGATATCATATCATAT
1 TATAATAGATA-CATATCATAT
31369 TATAATTAGATA-ATATCATA
1 TATAA-TAGATACATATCATA
31389 ATTAATGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 5 0.26
23 6 0.32
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (21 bp):
TATAATAGATACATATCATAT
Found at i:31718 original size:55 final size:58
Alignment explanation
Indices: 31659--31793 Score: 150
Period size: 58 Copynumber: 2.3 Consensus size: 58
31649 TATGACTAAG
31659 TAATAATTATTTAATTATATATAATA-AATAAAATATTAT-TAAATTTAT-ATATTAA
1 TAATAATTATTTAATTATATATAATATAATAAAATATTATATAAATTTATAATATTAA
* * * * *
31714 TAATAGTTTATTTAATATTTATATATTATAATTAAATATTATATTAATTTATAAATATTAA
1 TAATA-ATTATTTAAT-TATATATAATATAATAAAATATTATATAAATTTAT-AATATTAA
31775 TAACTAAATTAATTTAATT
1 TAA-T-AATT-ATTTAATT
31794 GTTAAATTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
55 5 0.08
56 9 0.14
57 9 0.14
58 12 0.18
59 8 0.12
61 10 0.15
62 4 0.06
63 8 0.12
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (58 bp):
TAATAATTATTTAATTATATATAATATAATAAAATATTATATAAATTTATAATATTAA
Found at i:31790 original size:63 final size:59
Alignment explanation
Indices: 31659--31792 Score: 143
Period size: 59 Copynumber: 2.3 Consensus size: 59
31649 TATGACTAAG
31659 TAATAATT-ATTT-A-A-TTATATATAATAAATAAAATATTATTAAATTTATATATTAA
1 TAATAATTAATTTAATATTTATATATAATAAATAAAATATTATTAAATTTATATATTAA
* * * * *
31714 TAATAGTTTATTTAATATTTATATATTAT-AATTAAATATTATATTAATTTATAAATATTAA
1 TAATAATTAATTTAATATTTATATATAATAAATAAAATATTAT-TAAATTTAT--ATATTAA
31775 TAACTAAATTAATTTAAT
1 TAA-T-AATTAATTTAAT
31793 TGTTAAATTA
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
55 7 0.11
56 4 0.06
57 1 0.02
58 13 0.20
59 18 0.28
61 10 0.16
62 1 0.02
63 10 0.16
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (59 bp):
TAATAATTAATTTAATATTTATATATAATAAATAAAATATTATTAAATTTATATATTAA
Found at i:31800 original size:31 final size:29
Alignment explanation
Indices: 31675--31800 Score: 87
Period size: 31 Copynumber: 4.1 Consensus size: 29
31665 TTATTTAATT
* *
31675 ATATATAATAAATAAAATATTA-TTAAATTTAT
1 ATAT-TAAT-AAT-AAAT-TTATTTAATTTTAA
* *
31707 ATATTAATAAT-AGTTTATTTAATATTTAT
1 ATATTAATAATAAATTTATTTAAT-TTTAA
31736 ATATT-ATAATTAAATATTATATTAATTTATAA
1 ATATTAATAA-TAAAT-TTAT-TTAATTT-TAA
*
31768 ATATTAATAACTAAATTAATTTAATTGTTAA
1 ATATTAATAA-TAAATTTATTTAATT-TTAA
31799 AT
1 AT
31801 TAAATATTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
27 3 0.04
28 10 0.13
29 11 0.14
30 5 0.06
31 21 0.27
32 20 0.25
33 9 0.11
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATTAATAATAAATTTATTTAATTTTAA
Found at i:32441 original size:23 final size:23
Alignment explanation
Indices: 32412--32502 Score: 91
Period size: 23 Copynumber: 4.0 Consensus size: 23
32402 ATAAATTAAT
*
32412 TTAAATATATAAATTATTAATTA
1 TTAAATATATAATTTATTAATTA
* *
32435 TTAAATATTTAATTTATTAATGA
1 TTAAATATATAATTTATTAATTA
32458 TT--ATAT-TAATTTATTAA-TA
1 TTAAATATATAATTTATTAATTA
*
32477 TTAATAAATATATATTTATTGAATTA
1 TTAA-ATATATA-ATTTATT-AATTA
32503 ATTGATATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
19 3 0.05
20 11 0.20
21 4 0.07
22 3 0.05
23 24 0.43
24 7 0.12
25 2 0.04
26 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAAATATATAATTTATTAATTA
Found at i:32453 original size:16 final size:16
Alignment explanation
Indices: 32428--32478 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
32418 ATATAAATTA
32428 TTAA-TTATTAAATAT
1 TTAATTTATTAAATAT
32443 TTAATTTATTAATGATTAT
1 TTAATTTATTAA--A-TAT
32462 ATTAATTTATT-AATAT
1 -TTAATTTATTAAATAT
32478 T
1 T
32479 AATAAATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 5 0.16
16 10 0.32
17 1 0.03
18 1 0.03
19 4 0.13
20 10 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TTAATTTATTAAATAT
Found at i:32468 original size:20 final size:19
Alignment explanation
Indices: 32377--32479 Score: 76
Period size: 19 Copynumber: 5.5 Consensus size: 19
32367 ACTGTATTAT
*
32377 TTAATTTTATATTAATTTAA
1 TTAATATTATATTAATTT-A
* *
32397 CTAATA-TAAATTAATTTA
1 TTAATATTATATTAATTTA
32415 --AATA-TATA--AA-TTA
1 TTAATATTATATTAATTTA
32428 TTAATTATTAAATATTTAATTTA
1 TTAA-TATT--ATA-TTAATTTA
32451 TTAATGATTATATTAATTTA
1 TTAAT-ATTATATTAATTTA
32471 TTAATATTA
1 TTAATATTA
32480 ATAAATATAT
Statistics
Matches: 68, Mismatches: 4, Indels: 23
0.72 0.04 0.24
Matches are distributed among these distances:
13 3 0.04
14 2 0.03
15 2 0.03
16 9 0.13
17 1 0.01
18 1 0.01
19 17 0.25
20 17 0.25
21 3 0.04
22 3 0.04
23 10 0.15
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (19 bp):
TTAATATTATATTAATTTA
Found at i:32590 original size:28 final size:26
Alignment explanation
Indices: 32559--32611 Score: 61
Period size: 28 Copynumber: 2.0 Consensus size: 26
32549 GTTAAAATTA
*
32559 ATTATTAAAATAAATTGTTATTAATATC
1 ATTAATAAAATAAA-T-TTATTAATATC
* *
32587 ATTAATAATATTAATTTATTAATAT
1 ATTAATAAAATAAATTTATTAATAT
32612 TTAAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 10 0.45
27 1 0.05
28 11 0.50
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
ATTAATAAAATAAATTTATTAATATC
Found at i:32987 original size:180 final size:181
Alignment explanation
Indices: 32692--33168 Score: 444
Period size: 180 Copynumber: 2.6 Consensus size: 181
32682 ATTTTAAAAT
* * * ** * * * **
32692 TTATCTATTTCGATTCATTATAACATTTTATTTTATCATCAAACAATTGGTTCTACTT-ATACTA
1 TTATCTATTTCAAATCATTATGACATTTTATTTGGTCATAAAACAATT-GTTTTAGTTCATAAAA
** * ** **
32756 TTTTATTTGGAATAAAATAAAACTAATTTAATAATATTTTGAATCTTAATAACTAAGAAAATTAA
65 GCTTATTTGGAATAAAATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAAAATTAA
* * *
32821 AAAATAAATCTAATTGCCAAA-CTAGTTGAAAT-AGTTAAGACTA-TATGAACGA
130 AAAATAAATCTAATTACCAAATC-AGTTCAAATGA-TTAAGACTATTA-GAACAA
** * * * * * *
32873 TTATCTATTTCAAATTGTTATGACCTTTTCTTTTGTCGTAAAACAATTGTTTT-GTTCGTATAAG
1 TTATCTATTTCAAATCATTATGACATTTTATTTGGTCATAAAACAATTGTTTTAGTTCATAAAAG
* * * *
32937 CTTATTTGGATTAAAATAATACTAATTTAATAATATTTCAAAAATTAATAAGTAAGAGATTTAAA
66 CTTATTTGGAATAAAATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAAAATTAAA
* ** * *
33002 AAATAAATTTGTTTACCGAATCAGTTCAAATGATTAAGACTATTAGAATAA
131 AAATAAATCTAATTACCAAATCAGTTCAAATGATTAAGACTATTAGAACAA
* * * *
33053 TTATCTATTTCAAATCATTCTGATATTTTATTTGGTTATAAAATAATTGTTTTAGTTCATAAAAG
1 TTATCTATTTCAAATCATTATGACATTTTATTTGGTCATAAAACAATTGTTTTAGTTCATAAAAG
* * * * * *
33118 GTTGTTTAGAATAAATTAATACTAATTTAGTAACA-TTCAAAAAATTAATAA
66 CTTATTTGGAATAAAATAATACTAATTTAATAATATTTC-AAAAATTAATAA
33169 AAATGAGATT
Statistics
Matches: 237, Mismatches: 53, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
179 2 0.01
180 144 0.61
181 91 0.38
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (181 bp):
TTATCTATTTCAAATCATTATGACATTTTATTTGGTCATAAAACAATTGTTTTAGTTCATAAAAG
CTTATTTGGAATAAAATAATACTAATTTAATAATATTTCAAAAATTAATAACTAAGAAAATTAAA
AAATAAATCTAATTACCAAATCAGTTCAAATGATTAAGACTATTAGAACAA
Found at i:34579 original size:178 final size:180
Alignment explanation
Indices: 34179--34594 Score: 475
Period size: 178 Copynumber: 2.3 Consensus size: 180
34169 TTTAACATTC
* * *
34179 ACAATTGTTTCAGTTCATAAAAGCTTATCCAAAATAAAATAATACTAATTTATTAATATTTCAAA
1 ACAATTGTTTCAATTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAA
* * * *
34244 AGTTAATAAGCAAGAGTTAAAAAAATAAATTTGTTTACTAAACAAATTCAAATAGTTATGACTAT
66 AATTAATAAG-AAGAGTTAAAAAAATAAATTTGGTTACGAAACAAATTCAAATAATTATGACTAT
* * * * *
34309 TTGAATAATTGTCTATTTAAAATCATTATGACCTTTTTGTTTTGTCATAAA
130 TTCAACAATTATCTATTTAAAATCATTATGACCTTTTTCTTTAGTCATAAA
* *
34360 ACAATTGTTTCAATTCATATAAGCTTATTTAGAATAAAATAATACTAATTTATTAATATTTCAAA
1 ACAATTGTTTCAATTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAA
* * * * * * * * *
34425 AATTTATAAG-TGA-TTTAAAAAGTGAATTTGGTTACCGAATC-AGTTTAAATAATTATG-GTCA
66 AATTAATAAGAAGAGTTAAAAAAATAAATTTGGTTA-CGAAACAAATTCAAATAATTATGACT-A
* * *
34486 TTTCAACAATTATCTATTTCAAATCATTATTACC-TTTTCTTTAGTCATATA
129 TTTCAACAATTATCTATTTAAAATCATTATGACCTTTTTCTTTAGTCATAAA
* * * *
34537 ACAATTGTTTTTCTA-TCATATGAGGTTGTTCAAAATAAAATAATACTAATTTATTAAT
1 ACAATTG--TTTCAATTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAAT
34595 CTATTAACAT
Statistics
Matches: 199, Mismatches: 32, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
177 22 0.11
178 98 0.49
179 11 0.06
181 68 0.34
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (180 bp):
ACAATTGTTTCAATTCATATAAGCTTATTCAAAATAAAATAATACTAATTTATTAATATTTCAAA
AATTAATAAGAAGAGTTAAAAAAATAAATTTGGTTACGAAACAAATTCAAATAATTATGACTATT
TCAACAATTATCTATTTAAAATCATTATGACCTTTTTCTTTAGTCATAAA
Found at i:34622 original size:469 final size:465
Alignment explanation
Indices: 33748--34589 Score: 1002
Period size: 469 Copynumber: 1.8 Consensus size: 465
33738 TATTTGATAA
*
33748 AAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATCTGTTTAC
1 AAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGAGATTAAAAAAATAAATCTGTTTAC
* * * *
33813 CGAACCAGTTCAAATAGTCATGACTATTCGAACAATTATCAATCTTAAATCGTTAAGATCTTTGT
66 CAAACAAATTCAAATAGTCATGACTATTCGAACAATTATCAATCTTAAATCATTAAGATCTTTGT
* *
33878 TTTGTCGTAAAAAATTATCTCTAATCATAGAAGCTTATTCAGTTAAAAATAATACTAATTTAATA
131 TTTGTCATAAAAAATTATCTCTAATCATAGAAGCTTATTCAGATAAAAATAATACTAATTTAATA
**
33943 ATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATATGCTTGTAGAATCAGTTCAAAAA
196 ATATTTCAAAAATT-ATAAGTAAGAGATTTAAAAAATAAATATGCTTACAGAATCAGTTCAAAAA
* * * * *
34008 ATTAAAACCATTAGAATAATTATCTATTTAAGATCATTTTGATATTTTGTTTAGTGATAAAATAT
260 ATTAAAACCATTACAACAATTATCTATTTAAGATCATTTTGACATTTTCTTTAGTCATAAAATAT
* * * *
34073 TGGTTTCATATCTTACAAGCTTATTTAGAATAAAATAATCCAAATTTACTAACATTCAAAAAATT
325 TGGTTTCATATCATACAAGCTTATTCAAAATAAAATAATACAAATTTACTAACATTCAAAAAATT
34138 AATAAACAAAATATTTGAAAAAATAAATCTATTTAACATTCACAATTGTTTCAGTTCATAAAAGC
390 AATAAACAAAATATTTGAAAAAATAAATCTATTTAACATTCACAATTGTTTCAGTTCATAAAAGC
34203 TTATCCAAAAT
455 TTATCCAAAAT
* *
34214 AAAATAATACTAATTTATTAATATTTCAAAAGTTAATAAGCAAGAGTTAAAAAAATAAATTTGTT
1 AAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG--AGA-TTAAAAAAATAAATCTGTT
* * * * * * *
34279 TACTAAACAAATTCAAATAGTTATGACTATTTGAATAATTGTCTAT-TTAAAATCATTATGACCT
63 TACCAAACAAATTCAAATAGTCATGACTATTCGAACAATTATCAATCTT-AAATCATTAAGA--T
* * * * *
34343 TTTTGTTTTGTCATAAAACAATTGTTTC-AATTCATATAAGCTTATTTAGA-ATAAAATAATACT
125 CTTTGTTTTGTCATAAAA-AATTATCTCTAA-TCATAGAAGCTTATTCAGATA-AAAATAATACT
* * * * * * *
34406 AATTTATTAATATTTCAAAAATT-T-A-TAAGTGATTTAAAAAGTGAATTTGGTTACCGAATCAG
187 AATTTAATAATATTTCAAAAATTATAAGTAAGAGATTTAAAAAATAAATATGCTTACAGAATCAG
* * **** * *
34468 TTTAAATAATTATGGTCATTTCAACAATTATCTATTTCAA-ATCATTATT-ACCTTTTCTTTAGT
252 TTCAAAAAATTAAAACCATTACAACAATTATCTATTT-AAGATCATT-TTGACATTTTCTTTAGT
* ** * * *
34531 CATATAACA-ATTGTTTTTC-TATCATATGAGGTTGTTCAAAATAAAATAATACTAATTTA
315 CATA-AA-ATATTG-GTTTCATATCATACAAGCTTATTCAAAATAAAATAATACAAATTTA
34590 TTAATCTATT
Statistics
Matches: 309, Mismatches: 53, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
466 39 0.13
468 82 0.27
469 106 0.34
470 6 0.02
471 20 0.06
472 56 0.18
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.38
Consensus pattern (465 bp):
AAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGAGATTAAAAAAATAAATCTGTTTAC
CAAACAAATTCAAATAGTCATGACTATTCGAACAATTATCAATCTTAAATCATTAAGATCTTTGT
TTTGTCATAAAAAATTATCTCTAATCATAGAAGCTTATTCAGATAAAAATAATACTAATTTAATA
ATATTTCAAAAATTATAAGTAAGAGATTTAAAAAATAAATATGCTTACAGAATCAGTTCAAAAAA
TTAAAACCATTACAACAATTATCTATTTAAGATCATTTTGACATTTTCTTTAGTCATAAAATATT
GGTTTCATATCATACAAGCTTATTCAAAATAAAATAATACAAATTTACTAACATTCAAAAAATTA
ATAAACAAAATATTTGAAAAAATAAATCTATTTAACATTCACAATTGTTTCAGTTCATAAAAGCT
TATCCAAAAT
Found at i:34862 original size:18 final size:19
Alignment explanation
Indices: 34837--34885 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
34827 ATTATTAAAC
34837 TAAA-AATAATTAAT-ATT
1 TAAATAATAATTAATAATT
** *
34854 TTTATAAT-ATTAGTAATT
1 TAAATAATAATTAATAATT
34872 TAAATAATAATTAA
1 TAAATAATAATTAA
34886 AAAATATTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
17 7 0.30
18 12 0.52
19 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TAAATAATAATTAATAATT
Found at i:35908 original size:17 final size:19
Alignment explanation
Indices: 35884--35929 Score: 62
Period size: 17 Copynumber: 2.6 Consensus size: 19
35874 TTAATAATAA
35884 TATAATAAATATTA-AAAT
1 TATAATAAATATTATAAAT
35902 T-TAATAAAT-TTATAAAT
1 TATAATAAATATTATAAAT
*
35919 TATAATCAATA
1 TATAATAAATA
35930 ATTTATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 3 0.12
17 13 0.54
18 8 0.33
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
TATAATAAATATTATAAAT
Found at i:35997 original size:26 final size:25
Alignment explanation
Indices: 35940--36006 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
35930 ATTTATTAAA
* *
35940 AAATAATTAATATTCATTTAATATGT
1 AAATAATTTA-ATTAATTTAATATGT
35966 AAATAATTTAATTAATTTAATAT-T
1 AAATAATTTAATTAATTTAATATGT
*
35990 AATTATAATTTTATTAA
1 AA--ATAATTTAATTAA
36007 CCTAATTAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 3 0.08
25 12 0.33
26 21 0.58
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (25 bp):
AAATAATTTAATTAATTTAATATGT
Found at i:36209 original size:22 final size:22
Alignment explanation
Indices: 36184--36241 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 22
36174 CTATTATTCA
36184 TTATTATATAATTATTTATAA-G
1 TTATTATATAATTATTT-TAACG
36206 TTA-TATTATAA--ATTTTAACG
1 TTATTA-TATAATTATTTTAACG
36226 TTAGTTAT-TAATTATT
1 TTA-TTATATAATTATT
36242 ACATCAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
19 3 0.10
20 11 0.37
21 3 0.10
22 13 0.43
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (22 bp):
TTATTATATAATTATTTTAACG
Found at i:36416 original size:22 final size:23
Alignment explanation
Indices: 36359--36412 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 23
36349 TGATTGAAAT
36359 TTAATATTAATAATATTTATGATAA
1 TTAATA-T-ATAATATTTATGATAA
36384 TTAAT-TATAATATTT-T-ATAA
1 TTAATATATAATATTTATGATAA
36404 TTAATATAT
1 TTAATATAT
36413 TAATCATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 9 0.32
21 4 0.14
22 9 0.32
23 1 0.04
25 5 0.18
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATATATAATATTTATGATAA
Found at i:36971 original size:15 final size:15
Alignment explanation
Indices: 36935--36963 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36925 GAACTAATTA
36935 ATATATTTTAATATG
1 ATATATTTTAATATG
36950 ATATATTTTAATAT
1 ATATATTTTAATAT
36964 TATCTATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
ATATATTTTAATATG
Found at i:37363 original size:12 final size:12
Alignment explanation
Indices: 37310--37370 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
37300 ATTATAATTA
37310 TTATAATATT-AT
1 TTATAA-ATTAAT
*
37322 CTATAATATTAAT
1 TTATAA-ATTAAT
*
37335 TTATATTAATTATT
1 TTATA--AATTAAT
37349 TTATAAATTAAT
1 TTATAAATTAAT
37361 TTAATAAATT
1 TT-ATAAATT
37371 TGTTTATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
12 17 0.41
13 13 0.32
14 10 0.24
15 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
TTATAAATTAAT
Found at i:37367 original size:13 final size:13
Alignment explanation
Indices: 37324--37370 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
37314 AATATTATCT
37324 ATAATATTAATTTA
1 ATAA-ATTAATTTA
* *
37338 TATTAATT-ATTTT
1 -ATAAATTAATTTA
37351 ATAAATTAATTTA
1 ATAAATTAATTTA
37364 ATAAATT
1 ATAAATT
37371 TGTTTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 6 0.22
13 15 0.56
14 3 0.11
15 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATAAATTAATTTA
Found at i:37445 original size:32 final size:32
Alignment explanation
Indices: 37382--37445 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
37372 GTTTATTATA
* * * **
37382 AATATTAATTAATATATACATTATTGTCTATT
1 AATAATAAATAATATAAACATTATTAACTATT
*
37414 AATAATAAATAATATAAATATTATTAACTATT
1 AATAATAAATAATATAAACATTATTAACTATT
37446 TGAATTCGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (32 bp):
AATAATAAATAATATAAACATTATTAACTATT
Found at i:37537 original size:13 final size:13
Alignment explanation
Indices: 37521--37623 Score: 69
Period size: 13 Copynumber: 8.3 Consensus size: 13
37511 TTAATAAAAT
37521 TAATATTATTATA
1 TAATATTATTATA
*
37534 TAAT-TAAATTA-A
1 TAATAT-TATTATA
37546 TAATATTATTATA
1 TAATATTATTATA
37559 TAATA-T-TTAT-
1 TAATATTATTATA
*
37569 T-ATATTATAATA
1 TAATATTATTATA
* *
37581 -AATATT-TAATT
1 TAATATTATTATA
*
37592 TAACTATTTAATATA
1 TAA-TA-TTATTATA
*
37607 TAATAATATTATA
1 TAATATTATTATA
37620 TAAT
1 TAAT
37624 TAAATAAATT
Statistics
Matches: 70, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
9 3 0.04
10 2 0.03
11 11 0.16
12 18 0.26
13 27 0.39
14 4 0.06
15 5 0.07
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATATTATTATA
Found at i:37537 original size:22 final size:22
Alignment explanation
Indices: 37512--37582 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
37502 TTCAATTGTT
37512 TAATAAAATTAATATTATTATA
1 TAATAAAATTAATATTATTATA
* *
37534 TAATTAAATTAATAATATTAT-
1 TAATAAAATTAATATTATTATA
*
37555 TATATAATATT--TATTA-TATTA
1 TA-ATAAAATTAATATTATTA-TA
37576 TAATAAA
1 TAATAAA
37583 TATTTAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 2 0.05
20 9 0.22
21 4 0.10
22 25 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATAAAATTAATATTATTATA
Found at i:37709 original size:17 final size:18
Alignment explanation
Indices: 37667--37709 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
37657 TTACTTATTA
37667 ATTATTATAATTTAACTT
1 ATTATTATAATTTAACTT
37685 ATTA-TATAATTTAAC-T
1 ATTATTATAATTTAACTT
37701 ATTATTATA
1 ATTATTATA
37710 TCTATTAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.21
17 15 0.62
18 4 0.17
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTATTATAATTTAACTT
Found at i:38203 original size:181 final size:181
Alignment explanation
Indices: 37878--38207 Score: 427
Period size: 181 Copynumber: 1.8 Consensus size: 181
37868 TAAGTAGGAG
* * * * * *
37878 ATTTGAACAATTATCTATTTTAAATTGTTATGACCTTTTGTTTTTCCATAAAACAATTGTTTCTA
1 ATTTGAACAATTATATATTTCAAATCGTTATAACCTTTTGTTTTTCCATAAAACAATTATTTATA
*
37943 TTCATACAAGCTTATTTCAAATAAAATAATATAAATTTACTAATATTCCAAAGATTAATAACTAA
66 TTCATACAAGCTTATTTCAAATAAAATAATATAAATCTACTAATATTCCAAAGATTAATAACTAA
*
38008 AAATATATAAAATAAATTTATTTTTTGAACACATTCAAAATAATTATGACT
131 AAATATAAAAAATAAATTTATTTTTTGAACACATTCAAAATAATTATGACT
* *
38059 ATTTGAACAATTATATATTTCCAGTCGTTATAACCTTTTGTTTTGT-CATAAAACAATTATTTAT
1 ATTTGAACAATTATATATTTCAAATCGTTATAACCTTTTGTTTT-TCCATAAAACAATTATTTAT
* * ** *
38123 CTTCATACAAGCTTA-TTCGAAATAAAATAATACT-AATCT-GTAATATTATGAAA-TTTAATAA
65 ATTCATACAAGCTTATTTC-AAATAAAATAATA-TAAATCTACTAATATT-CCAAAGATTAATAA
* *
38184 CTAATAGATTTAAAAAATAAATTT
127 CTAA-AAATATAAAAAATAAATTT
38208 GTTTACCGAA
Statistics
Matches: 127, Mismatches: 17, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
180 21 0.17
181 104 0.82
182 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.41
Consensus pattern (181 bp):
ATTTGAACAATTATATATTTCAAATCGTTATAACCTTTTGTTTTTCCATAAAACAATTATTTATA
TTCATACAAGCTTATTTCAAATAAAATAATATAAATCTACTAATATTCCAAAGATTAATAACTAA
AAATATAAAAAATAAATTTATTTTTTGAACACATTCAAAATAATTATGACT
Found at i:38817 original size:27 final size:29
Alignment explanation
Indices: 38769--38828 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
38759 TATTAATTAA
38769 AATAATTAATATTGATAGATAAATAAATAT
1 AATAATTAATATTGATAGATAAATAAAT-T
* *
38799 AATAATTATTA-T-ATA-ATAAATAGATT
1 AATAATTAATATTGATAGATAAATAAATT
38825 AATA
1 AATA
38829 TATATTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.18
27 9 0.32
28 3 0.11
29 1 0.04
30 10 0.36
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (29 bp):
AATAATTAATATTGATAGATAAATAAATT
Found at i:38823 original size:35 final size:35
Alignment explanation
Indices: 38783--38855 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
38773 ATTAATATTG
38783 ATAGATAAATAAATATAATAATTA-TTATA-TAATAA
1 ATAGATAAAT--ATATAATAATTATTTATATTAATAA
* * *
38818 ATAGATTAATATATATTAATTATTTATATTATTAA
1 ATAGATAAATATATAATAATTATTTATATTAATAA
38853 ATA
1 ATA
38856 ATATAAACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 11 0.33
34 5 0.15
35 17 0.52
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (35 bp):
ATAGATAAATATATAATAATTATTTATATTAATAA
Found at i:38825 original size:19 final size:19
Alignment explanation
Indices: 38794--38832 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
38784 TAGATAAATA
*
38794 AATATAATAATTATTATAT
1 AATATAATAATTAATATAT
38813 AATA-AATAGATTAATATAT
1 AATATAATA-ATTAATATAT
38832 A
1 A
38833 TTAATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
AATATAATAATTAATATAT
Found at i:39095 original size:20 final size:20
Alignment explanation
Indices: 39072--39124 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 20
39062 TATTAATAGT
*
39072 AATTATTAATATTTATGATA
1 AATTATTAATATTTATAATA
39092 AATTA--AA-ATTTATAATA
1 AATTATTAATATTTATAATA
*
39109 AATAATTAATATTTAT
1 AATTATTAATATTTAT
39125 TATTAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
17 13 0.46
18 2 0.07
19 2 0.07
20 11 0.39
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AATTATTAATATTTATAATA
Done.