Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167934.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_197, 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: 52816
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
File 1 of 2
Found at i:65 original size:21 final size:21
Alignment explanation
Indices: 18--67 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
8 GTTTAATTGT
*
18 TATAACTAAAAATATAATGTA
1 TATAATTAAAAATATAATGTA
* *
39 TTTAATTAAAATTATAAT-TA
1 TATAATTAAAAATATAATGTA
59 GTATAATTA
1 -TATAATTA
68 TTTAACTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (21 bp):
TATAATTAAAAATATAATGTA
Found at i:531 original size:23 final size:24
Alignment explanation
Indices: 472--531 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
462 ATATTGAATC
472 AATAATTTATTAGTCAATAATTAA
1 AATAATTTATTAGTCAATAATTAA
496 AAT-ATTTAAATTA-T-AATAATTATA
1 AATAATTT--ATTAGTCAATAATTA-A
*
520 ATTAATTTATTA
1 AATAATTTATTA
532 AGTTATTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
23 16 0.52
24 7 0.23
25 8 0.26
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (24 bp):
AATAATTTATTAGTCAATAATTAA
Found at i:785 original size:14 final size:15
Alignment explanation
Indices: 766--794 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
756 TTCAAATAGA
766 TAATAATATA-AATT
1 TAATAATATATAATT
780 TAATAATATATAATT
1 TAATAATATATAATT
795 AGATTAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATAATATATAATT
Found at i:1184 original size:25 final size:25
Alignment explanation
Indices: 1136--1237 Score: 66
Period size: 25 Copynumber: 4.0 Consensus size: 25
1126 TAACTTATTA
* * *
1136 ATTA-TATATAATAATCTATTTAAT
1 ATTATTATATAATATTATATATAAT
1160 ATTATTATATAATATTATATATAAT
1 ATTATTATATAATATTATATATAAT
* * * *
1185 TTTAATA-ATATTAATTATATAGTTAT
1 ATTATTATATAAT-ATTATATA-TAAT
*
1211 ATTATAACTAGTAATA-TAGTATATAAT
1 ATTATTA-TA-TAATATTA-TATATAAT
1238 TATATACTAA
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
24 8 0.14
25 30 0.51
26 7 0.12
27 5 0.08
28 6 0.10
29 3 0.05
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (25 bp):
ATTATTATATAATATTATATATAAT
Found at i:1190 original size:53 final size:53
Alignment explanation
Indices: 1133--1238 Score: 119
Period size: 53 Copynumber: 2.0 Consensus size: 53
1123 ATTTAACTTA
* * * *
1133 TTAATTATATATAATAATCTATTTAATATTATTA-TA-TAATATTA-TATATAATT
1 TTAATAATAT-TAATAATATAGTT-ATATTATAACTAGTAATA-TAGTATATAATT
*
1186 TTAATAATATTAATTATATAGTTATATTATAACTAGTAATATAGTATATAATT
1 TTAATAATATTAATAATATAGTTATATTATAACTAGTAATATAGTATATAATT
1239 ATATACTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
51 8 0.18
52 14 0.31
53 23 0.51
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (53 bp):
TTAATAATATTAATAATATAGTTATATTATAACTAGTAATATAGTATATAATT
Found at i:1390 original size:39 final size:38
Alignment explanation
Indices: 1317--1392 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
1307 TAAACAATTA
* * **
1317 TAATAATATAAATTATTATTTATACTATTTATTTATTT
1 TAATAATATAAATTATCATTTATAATATAAATTTATTT
1355 TAATAATATTATAA-TATCATTTATAATATAAATTTATT
1 TAATAATA-TA-AATTATCATTTATAATATAAATTTATT
1393 AAAATTCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 8 0.25
39 22 0.69
40 2 0.06
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (38 bp):
TAATAATATAAATTATCATTTATAATATAAATTTATTT
Found at i:1434 original size:23 final size:22
Alignment explanation
Indices: 1392--1434 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
1382 ATAAATTTAT
*
1392 TAAAATTCTAAAAATTAATAAA
1 TAAAATTCTAAAAATAAATAAA
*
1414 TAAAATTTTAAAAAATAAATA
1 TAAAATTCT-AAAAATAAATA
1435 TGTTTTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATTCTAAAAATAAATAAA
Found at i:1695 original size:181 final size:179
Alignment explanation
Indices: 1377--2241 Score: 578
Period size: 181 Copynumber: 4.9 Consensus size: 179
1367 AATATCATTT
* * * *
1377 ATAATATAAATTTATTAA-AATTCTAAAAATTAATAAATAAAA-TTTTAAAAAATAAATATGTTT
1 ATAATATTAATTTATTAATATTTCT-AAAATTAATAAGTAAAAGATTTAAAAAAT-AA-ATGTTT
* * * * *
1440 TTTGAAC-ACA-TTC-AACAGTTATGAATATTTGAACAATTATCCTATTTCAAATCGTTACGATA
63 TTT-AACAACAGTTCAAATAGTTATGACTATTTGAACAATTAT-ATATTTCAAATCGTTATGATC
* * * * *
1502 ATTTATTTTGTCATAAACCAATTATTTTTATTTATACAAGCTTATTCGAACTAAA
126 TTTTATTTTGTCATAAAACAATTATTTCTATTCATACAAGATTATTCGAA-TAAA
* *
1557 ATAATATTTATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAATAATAAAT-TTTTTT
1 ATAATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAAAAATAAATGTTTTTT
* * *
1621 AACGAGCAAGTTCAAATAGTTATTACTATTTGAACAATTATATATTTCAAATCTTTATGATCTTT
66 AAC-AAC-AGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAATCGTTATGATCTTT
* * * *
1686 TCTTTTGTCATAAAACAATTATTTCTATTCACACAAGTTTATTTGAAATAAA
129 TATTTTGTCATAAAACAATTATTTCTATTCATACAAGATTATTCG-AATAAA
* * * * * *
1738 ATAATACTAATTTATTATTA-TTCTTAAAATTAATAAGTTAGAGATTTAAAAAATAAAT-ATGTT
1 ATAATATTAATTTATTAATATTTC-TAAAATTAATAAGTAAAAGATTTAAAAAATAAATGTTTTT
* * * * * ** *
1801 TACCGAACAAGTTTAAATAGTCATGCCCATTTGAACTGTTATTTATTTCAAATCGTTATGA-CAT
65 TAAC-AAC-AGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAATCGTTATGATC-T
* * * * * * *
1865 TTTGTTTTATTAGAAAATAATTGTTTCTATTCATACAAAATTATTCAGAATAAA
127 TTTATTTTGTCATAAAACAATTATTTCTATTCATACAAGATTATTC-GAATAAA
* * * *
1919 ATAATATCAATTTATTACTTTTTCAAAAATTAATAAG-----GATTT-AAAAATAAATGTGTTTT
1 ATAATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAAAAATAAATGT-TTTT
* * * * * ** * *
1978 TAA-AACAGTTTAAATAGTTAAGACTATTAGAACAATTATGTATTCCAAATTATTCTGATATTTT
65 TAACAACAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAATCGTTATGATCTTTT
* ** * * * * * * *
2042 GTTAAGT-AAAAAAAAATTGTTTC-AGTTCATACATGCTTATTCAAAATATA
130 ATTTTGTCATAAAACAATTATTTCTA-TTCATACAAGATTATTC-GAATAAA
* * * * * * *
2092 GTAATACTAATTTATTAAAAATT-TAAAA-AAATTAA-TAAGAA-ATTTTAAAAA-AAAT-TTAT
1 ATAATATTAATTTATTAATATTTCTAAAATTAA-TAAGTAA-AAGATTTAAAAAATAAATGTTTT
* * * * * * * *
2151 TTACCTAATAAGTTC-AATAATTATGATTA-TTGAATAATTATCTATTTAAAATCGTTTAT-AAC
64 TTAAC-AA-CAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAATCG-TTATGATC
* *
2213 ATTTTATTTTATCATAAAACAATTGTTTC
126 -TTTTATTTTGTCATAAAACAATTATTTC
2242 AATACATAAA
Statistics
Matches: 541, Mismatches: 114, Indels: 63
0.75 0.16 0.09
Matches are distributed among these distances:
171 2 0.00
172 8 0.01
173 50 0.09
174 53 0.10
175 33 0.06
176 36 0.07
177 31 0.06
178 6 0.01
179 3 0.01
180 39 0.07
181 250 0.46
182 30 0.06
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.42
Consensus pattern (179 bp):
ATAATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAAAAATAAATGTTTTTT
AACAACAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAATCGTTATGATCTTTTA
TTTTGTCATAAAACAATTATTTCTATTCATACAAGATTATTCGAATAAA
Found at i:2116 original size:11 final size:11
Alignment explanation
Indices: 2100--2149 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
2090 TAGTAATACT
*
2100 AATTTATTAAA
1 AATTTAATAAA
2111 AATTTAA-AAA
1 AATTTAATAAA
2121 AA-TTAATAAGA
1 AATTTAATAA-A
*
2132 AATTTTAAAAAA
1 AA-TTTAATAAA
2144 AATTTA
1 AATTTA
2150 TTTACCTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
9 4 0.12
10 7 0.21
11 13 0.39
12 3 0.09
13 6 0.18
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
AATTTAATAAA
Found at i:2124 original size:21 final size:24
Alignment explanation
Indices: 2100--2151 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
2090 TAGTAATACT
2100 AATTTATTAA-AAA-TTT-AAAAA
1 AATTTATTAAGAAATTTTAAAAAA
*
2121 AA-TTAATAAGAAATTTTAAAAAA
1 AATTTATTAAGAAATTTTAAAAAA
2144 AATTTATT
1 AATTTATT
2152 TACCTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
20 6 0.24
21 5 0.20
22 3 0.12
23 7 0.28
24 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AATTTATTAAGAAATTTTAAAAAA
Found at i:2395 original size:14 final size:14
Alignment explanation
Indices: 2376--2408 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
2366 TAGTTTAAAA
2376 TAATATAATATTAT
1 TAATATAATATTAT
*
2390 TAATATTATATTAT
1 TAATATAATATTAT
2404 TAATA
1 TAATA
2409 AATCAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATATAATATTAT
Found at i:2464 original size:22 final size:22
Alignment explanation
Indices: 2379--2498 Score: 76
Period size: 22 Copynumber: 5.6 Consensus size: 22
2369 TTTAAAATAA
* *
2379 TATAATAT-TATTAATATTATAT
1 TATAATATAAATTAATAAT-TAT
* *
2401 TATTA-ATAAATCAATAATATAT
1 TATAATATAAATTAATAAT-TAT
2423 T-T-ATAT-AATTAATAA-T-T
1 TATAATATAAATTAATAATTAT
2440 TATAATATAAATTAA-AATTAAT
1 TATAATATAAATTAATAATT-AT
*
2462 TATAAAATATTAATTAATAATTAT
1 TAT--AATATAAATTAATAATTAT
* *
2486 CATACTATAAATT
1 TATAATATAAATT
2499 GTTGCTTATA
Statistics
Matches: 78, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
17 2 0.03
18 2 0.03
19 6 0.08
20 16 0.21
21 5 0.06
22 28 0.36
24 15 0.19
25 4 0.05
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (22 bp):
TATAATATAAATTAATAATTAT
Found at i:2544 original size:27 final size:26
Alignment explanation
Indices: 2505--2555 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
2495 AATTGTTGCT
2505 TATAATTTATATTAAACTATAAATTA
1 TATAATTTATATTAAACTATAAATTA
*
2531 TATAATATTATATTATACTATAAAT
1 TATAAT-TTATATTAAACTATAAAT
2556 CAAATATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (26 bp):
TATAATTTATATTAAACTATAAATTA
Found at i:2778 original size:19 final size:20
Alignment explanation
Indices: 2732--2796 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 20
2722 ACTATATAAT
* **
2732 ATAAATAT-ATTAGTAACAA
1 ATAAATATAATTAATAATTA
2751 ATAAAATATAATTAAT-ATTA
1 AT-AAATATAATTAATAATTA
*
2771 ATAAATATTATTAATAAATTA
1 ATAAATATAATTAAT-AATTA
2792 ATAAA
1 ATAAA
2797 ATATTATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
19 14 0.37
20 10 0.26
21 14 0.37
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
ATAAATATAATTAATAATTA
Found at i:2801 original size:19 final size:21
Alignment explanation
Indices: 2750--2802 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 21
2740 ATTAGTAACA
2750 AATAAAATA-TAATTAATATT
1 AATAAAATATTAATTAATATT
2770 AAT-AAATATT-ATTAATAAATT
1 AATAAAATATTAATTAAT--ATT
2791 AATAAAATATTA
1 AATAAAATATTA
2803 TTTTATAACG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 11 0.39
20 4 0.14
21 6 0.21
22 7 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAAAATATTAATTAATATT
Found at i:3845 original size:474 final size:484
Alignment explanation
Indices: 2826--5117 Score: 2297
Period size: 487 Copynumber: 4.8 Consensus size: 484
2816 TACTATCGAT
* * * *
2826 TATTTGGATATTATTTGCGAAATCATTATTGGTGCCTGATGTGATTAACTATGTACTAACTTGTT
1 TATTTGGATATCATTTGTGAAATCATTATTGGTGCCTGATGTGATTAACTGTGTGCTAACTTGTT
* * * * *
2891 TTTATATAATATGCACAAGCTCAAAAGCTTAATGTTTTTTTGAAGCATTATGTTTTGCTTTGAAA
66 TTTATATATTATGAACAAGCTCAAAAGC-T--TG-TTTTTCGTAGCATTATGCTTTGCTTTGAAA
* * *
2956 ACCATTTTCTGCTAGAGCAGAGATTTGAAGTATGAAATATTGTTTTAGCAAGCTTTTAAAATGGA
127 ACCA-TTTCTGCTAGAGCCGAGCTTTGAAGTATGAAATATTGTTTTAGCAAG-TTTTTAAATGGA
* *
3021 AATGAGTTTGAATATCTTGGAATCCAATGTTTTAAACTTGCTCAACCAGAGAAATATGATAACTT
190 AATGAGTTTGAATATCTT-GAATCCAATGTTTTAAACTTGCTCAAACAGAGAAACATGATAACTT
* * * * *
3086 GGATTGGTTTTAATTTTTCACAGTGGTTAAAGTGCGAGTTACGAAGGATTTTGGAGCCCAAAATG
254 GCATTGGTTTTAATTTTTCACAGT-GTTAAAGTGCAAGTTATGGAGGATTTTGGAGCTCAAAATG
* * *
3151 TCAAAATTTTGGTTTTGAGCGATTATAGGAATGAAAAACCATTTCCATGATTTCAAATTGTGATA
318 TCAAAATTTTGTTTTTGAGCGATTATAGGAATGAAAAACCATTTCCACGATTTCAAATTGTGACA
*
3216 CAAAAACCATCTGAAACGATTTTAACATTTCATTGGCATTTCTGCTCTAGGCGCATTTTTTAAGG
383 CAAAAACCATCTGAAACGATTTTAACATTT-ATTGGCATTTCTGCTCTAGGCGCATTATTTAAGG
* * *
3281 GGATTTATGAAGCTCTAAAGAATGTGTGATGCTGCTGA
447 GGATTCATGAAGCTCTAAAGAATGTGGGATACTGCTGA
*
3319 TATTTGGATATCATTTGTG-AATCATTATTGGCGCCTGATGTGATTAACTGTGTGCTAACTTGTT
1 TATTTGGATATCATTTGTGAAATCATTATTGGTGCCTGATGTGATTAACTGTGTGCTAACTTGTT
* * *
3383 TTTATATATTATGTAGAAGCTCAAAA-C-TGTTTTTCGTAGCTTTATGCTTTGCTTTGAAAACCA
66 TTTATATATTATGAACAAGCTCAAAAGCTTGTTTTTCGTAGCATTATGCTTTGCTTTGAAAACCA
* *
3446 TTTCTGCTAAAGCCGAGCTTTGAAGTATGAAATATTGTTTTAGAAAGTTTTTAAATGGAAATGAG
131 TTTCTGCTAGAGCCGAGCTTTGAAGTATGAAATATTGTTTTAGCAAGTTTTTAAATGGAAATGAG
* * * *
3511 CTTGAATATCTTGAATCTAATGTTTTAAACTTGCTCAAACAGAGAAACATTATAGCTTGCATTGG
196 TTTGAATATCTTGAATCCAATGTTTTAAACTTGCTCAAACAGAGAAACATGATAACTTGCATTGG
*
3576 TTTTAATTTTTCACAGTGTTAAAGTGCAAGTTATGGAGGATTTTAGAGCTCAAAATGTCAAAATT
261 TTTTAATTTTTCACAGTGTTAAAGTGCAAGTTATGGAGGATTTTGGAGCTCAAAATGTCAAAATT
* * * * * *
3641 TTGTTTTTGAGTGATTATGGGAGTG-AAAACCATTTGCACGATTTCAAATTGTGACATAAAATCC
326 TTGTTTTTGAGCGATTATAGGAATGAAAAACCATTTCCACGATTTCAAATTGTGACACAAAAACC
* *** *
3705 ATTTG-TGTGATTTT-A-ATTT-TT-G-ATTTC-G-TCTA-GCGTATTATTTAAGGGGATTCATG
391 ATCTGAAACGATTTTAACATTTATTGGCATTTCTGCTCTAGGCGCATTATTTAAGGGGATTCATG
* * *
3761 AATGCTCTAAGGATTTTGTGGGATACTGCTTA
456 AA-GCTCTAAAGA--ATGTGGGATACTGCTGA
** *
3793 TATTTGGATATCATTT-TGAAATTGTTATTGGTACCTGATGTGATTAACTGTGTGTGCTAACTTG
1 TATTTGGATATCATTTGTGAAATCATTATTGGTGCCTGATGTGATTAAC--TGTGTGCTAACTTG
* *
3857 TTTTTATATATTATGAACAAGCTTAAAAGCTTAAAGTTTTTCATAGCATTATGCTTTGCTTTGAA
64 TTTTTATATATTATGAACAAGCTCAAAAGCTT---GTTTTTCGTAGCATTATGCTTTGCTTTGAA
* * * * *
3922 AACCAATTCTGCTAGAGCCGAGCTTTGAACTATGAAATATTGTTTT-CCAAGTGTTTAAATGAAA
126 AACCATTTCTGCTAGAGCCGAGCTTTGAAGTATGAAATATTGTTTTAGCAAGTTTTTAAATGGAA
*
3986 ATGAGTTTGAATATCTTGAATCCAATGTTTTAAACTTGCTTAAACAGAGAAACATGATAACTTGC
191 ATGAGTTTGAATATCTTGAATCCAATGTTTTAAACTTGCTCAAACAGAGAAACATGATAACTTGC
* * * *
4051 ATTGGTTTTAATTTTTCAGAATGTTAAAATGCAAGATATGGAGGATTTTGGAGCTCAAAATGTCA
256 ATTGGTTTTAATTTTTCACAGTGTTAAAGTGCAAGTTATGGAGGATTTTGGAGCTCAAAATGTCA
* * * * ** * * * * *
4116 AAATTTTGTTTTTGAGCTATTGTGGGTATG-AAAGTCATTTGCACAATTTTAATTTTTG------
321 AAATTTTGTTTTTGAGCGATTATAGGAATGAAAAACCATTTCCACGATTTCAAATTGTGACACAA
* * *** * * * * *
4174 -----GTC-G---CG-TTTCT-AC-TATAGAAGCATTT-T--T-TCGGGGGATTCA-TGAA--TG
386 AAACCATCTGAAACGATTT-TAACATTTATTGGCATTTCTGCTCTAGGCGCATT-ATTTAAGGGG
* *** * *
4220 -CTC-T-AAG----AAATTTTGTGGGATGCTGTTGA
449 ATTCATGAAGCTCTAAAGAATGTGGGATACTGCTGA
* * * * *
4249 TATTTAGATATCATTTGCGAAATCGTTATTGGTGCCAGATGTGATTAACTGTGTGTTAACTTGTT
1 TATTTGGATATCATTTGTGAAATCATTATTGGTGCCTGATGTGATTAACTGTGTGCTAACTTGTT
* * * * * * * *
4314 TTTATATATTATGCATAAGGTGAAAAGCTTAATGTTTTTTTGAAGCATTATG-TTGGTTTTGAAA
66 TTTATATATTATGAACAAGCTCAAAAGC-T--TG-TTTTTCGTAGCATTATGCTTTGCTTTGAAA
* * *
4378 ACCATTTCTGCTAGA-CCAGAGCTTTGAAGTTTGAAATATTGTTTTAGTAAGTTTTTAAATGAAA
127 ACCATTTCTGCTAGAGCC-GAGCTTTGAAGTATGAAATATTGTTTTAGCAAGTTTTTAAATGGAA
* * *
4442 ATGAGTTTGAATATCTTGAATCCAATGTTTTAAACATGCTCAAAAAG-GAAACATGATAACTTGT
191 ATGAGTTTGAATATCTTGAATCCAATGTTTTAAACTTGCTCAAACAGAGAAACATGATAACTTGC
* * *
4506 ATTGATTTTAATTTTTCACAGTGTTAAAGTGCAAGTTATGAAAGATTTTGGAGCTCAAAATGTCA
256 ATTGGTTTTAATTTTTCACAGTGTTAAAGTGCAAGTTATGGAGGATTTTGGAGCTCAAAATGTCA
* * * * * * * *
4571 AAATTTTGTTATTGTGTGATTA-CGAGCATG-AAAACCATTTGCACGATTTCAAATTGTGATATA
321 AAATTTTGTTTTTGAGCGATTATAG-GAATGAAAAACCATTTCCACGATTTCAAATTGTGACACA
* * ** * ** ** * * *
4634 AAAACCGTTTG-TGCAATTTTAATTTTTCA-TCACGTTTCTGCTCTAGAG-GCATTTTTTATGGG
385 AAAACCATCTGAAACGATTTTAACATTT-ATTGGCATTTCTGCTCTAG-GCGCATTATTTAAGGG
* * * * *
4696 GATTCCTGAATGTTCTAAGGAATTTGTGAGATACTGTTGA
448 GATTCATGAA-GCTCTAAAGAA--TGTGGGATACTGCTGA
** * ** * * *
4736 TATTTGGATATCATTTACGAAATCGTTATTGGCACTTGATCTGATTAACTGCT-TGCTAACTTAT
1 TATTTGGATATCATTTGTGAAATCATTATTGGTGCCTGATGTGATTAACTG-TGTGCTAACTTGT
* * * * *
4800 TTTTATATATTATGCACAAGCTCAAAAGCTTAATATTTTTTGAAGCTTTATGCTTTGCTTTGAAA
65 TTTTATATATTATGAACAAGCTCAAAAGC-T--TGTTTTTCGTAGCATTATGCTTTGCTTTGAAA
* * ** * * *
4865 ACCATTTCTACTAAAGTTGAGCTTGGAAGTATGAAATATTATTTTAGCAAGTTTTTAAATGAAAA
127 ACCATTTCTGCTAGAGCCGAGCTTTGAAGTATGAAATATTGTTTTAGCAAGTTTTTAAATGGAAA
* * * * *
4930 TGAGTTTAAATATCTTGAATCCAATATTTTAAACTTGCTAAAACAGAGAAACATAATAACTTACA
192 TGAGTTTGAATATCTTGAATCCAATGTTTTAAACTTGCTCAAACAGAGAAACATGATAACTTGCA
* * * **
4995 TTGGTTTTAAATTTTAACAATGTTAAAGTGCAAGTTATAAAGGATTTTGGAGCTCAAAATGTCAA
257 TTGGTTTTAATTTTTCACAGTGTTAAAGTGCAAGTTATGGAGGATTTTGGAGCTCAAAATGTCAA
* * * * *
5060 AATTTTGTTTTTAAACAATTATAGGCAT-AAAAACCATTTGCACGATTTCAAATTGTGA
322 AATTTTGTTTTTGAGCGATTATAGGAATGAAAAACCATTTCCACGATTTCAAATTGTGA
5118 TATAAAAATC
Statistics
Matches: 1514, Mismatches: 216, Indels: 143
0.81 0.12 0.08
Matches are distributed among these distances:
454 3 0.00
455 206 0.14
456 103 0.07
457 28 0.02
458 3 0.00
462 1 0.00
463 2 0.00
464 1 0.00
465 5 0.00
466 8 0.01
467 2 0.00
468 11 0.01
469 8 0.01
470 4 0.00
471 29 0.02
472 15 0.01
473 3 0.00
474 60 0.04
475 9 0.01
476 42 0.03
477 2 0.00
478 7 0.00
479 2 0.00
480 189 0.12
481 110 0.07
482 64 0.04
483 64 0.04
484 28 0.02
485 45 0.03
486 46 0.03
487 207 0.14
488 123 0.08
489 1 0.00
491 1 0.00
492 65 0.04
493 17 0.01
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.39
Consensus pattern (484 bp):
TATTTGGATATCATTTGTGAAATCATTATTGGTGCCTGATGTGATTAACTGTGTGCTAACTTGTT
TTTATATATTATGAACAAGCTCAAAAGCTTGTTTTTCGTAGCATTATGCTTTGCTTTGAAAACCA
TTTCTGCTAGAGCCGAGCTTTGAAGTATGAAATATTGTTTTAGCAAGTTTTTAAATGGAAATGAG
TTTGAATATCTTGAATCCAATGTTTTAAACTTGCTCAAACAGAGAAACATGATAACTTGCATTGG
TTTTAATTTTTCACAGTGTTAAAGTGCAAGTTATGGAGGATTTTGGAGCTCAAAATGTCAAAATT
TTGTTTTTGAGCGATTATAGGAATGAAAAACCATTTCCACGATTTCAAATTGTGACACAAAAACC
ATCTGAAACGATTTTAACATTTATTGGCATTTCTGCTCTAGGCGCATTATTTAAGGGGATTCATG
AAGCTCTAAAGAATGTGGGATACTGCTGA
Found at i:3924 original size:481 final size:486
Alignment explanation
Indices: 2826--5117 Score: 2334
Period size: 455 Copynumber: 4.8 Consensus size: 486
2816 TACTATCGAT
* * * *
2826 TATTTGGATATTATTTGCGAAATCATTATTGGTGCCTGATGTGATTAACTATGTACTAACTTGTT
1 TATTTGGATATCATTTGTGAAATCATTATTGGTGCCTGATGTGATTAACTGTGTGCTAACTTGTT
* * * *
2891 TTTATATAATATGCACAAGCTCAAAAGCTTAATGTTTTT-TTGAAGCATTATGTTTTGCTTTGAA
66 TTTATATATTATGAACAAGCTCAAAAGCTTAA-GTTTTTCAT--AGCATTATGCTTTGCTTTGAA
* * *
2955 AACCATTTTCTGCTAGAGCAGAGATTTGAAGTATGAAATATTGTTTTAGCAAGCTTTTAAAATGG
128 AACCA-TTTCTGCTAGAGCCGAGCTTTGAAGTATGAAATATTGTTTTAGCAAG-TTTTTAAATGG
* *
3020 AAATGAGTTTGAATATCTTGGAATCCAATGTTTTAAACTTGCTCAACCAGAGAAATATGATAACT
191 AAATGAGTTTGAATATCTT-GAATCCAATGTTTTAAACTTGCTCAAACAGAGAAACATGATAACT
* * * * *
3085 TGGATTGGTTTTAATTTTTCACAGTGGTTAAAGTGCGAGTTACGAAGGATTTTGGAGCCCAAAAT
255 TGCATTGGTTTTAATTTTTCACAGT-GTTAAAGTGCAAGTTATGGAGGATTTTGGAGCTCAAAAT
* * *
3150 GTCAAAATTTTGGTTTTGAGCGATTATAGGAATGAAAAACCATTTCCATGATTTCAAATTGTGAT
319 GTCAAAATTTTGTTTTTGAGCGATTATAGGAATGAAAAACCATTTCCACGATTTCAAATTGTGAC
*
3215 ACAAAAACCATCTGAAACGATTTTAACATTTCATTGGCATTTCTGCTCTAGGCGCATTTTTTAAG
384 ACAAAAACCATCTGAAACGATTTTAACATTT-ATTGGCATTTCTGCTCTAGGCGCATTATTTAAG
* * *
3280 GGGATTTATGAAGCTCTAAAGAATGTGTGATGCTGCTGA
448 GGGATTCATGAAGCTCTAAAGAATGTGGGATACTGCTGA
*
3319 TATTTGGATATCATTTGTG-AATCATTATTGGCGCCTGATGTGATTAACTGTGTGCTAACTTGTT
1 TATTTGGATATCATTTGTGAAATCATTATTGGTGCCTGATGTGATTAACTGTGTGCTAACTTGTT
* * * *
3383 TTTATATATTATGTAGAAGCTCAAAA-C-T--GTTTTTCGTAGCTTTATGCTTTGCTTTGAAAAC
66 TTTATATATTATGAACAAGCTCAAAAGCTTAAGTTTTTCATAGCATTATGCTTTGCTTTGAAAAC
* *
3444 CATTTCTGCTAAAGCCGAGCTTTGAAGTATGAAATATTGTTTTAGAAAGTTTTTAAATGGAAATG
131 CATTTCTGCTAGAGCCGAGCTTTGAAGTATGAAATATTGTTTTAGCAAGTTTTTAAATGGAAATG
* * * *
3509 AGCTTGAATATCTTGAATCTAATGTTTTAAACTTGCTCAAACAGAGAAACATTATAGCTTGCATT
196 AGTTTGAATATCTTGAATCCAATGTTTTAAACTTGCTCAAACAGAGAAACATGATAACTTGCATT
*
3574 GGTTTTAATTTTTCACAGTGTTAAAGTGCAAGTTATGGAGGATTTTAGAGCTCAAAATGTCAAAA
261 GGTTTTAATTTTTCACAGTGTTAAAGTGCAAGTTATGGAGGATTTTGGAGCTCAAAATGTCAAAA
* * * * * *
3639 TTTTGTTTTTGAGTGATTATGGGAGTG-AAAACCATTTGCACGATTTCAAATTGTGACATAAAAT
326 TTTTGTTTTTGAGCGATTATAGGAATGAAAAACCATTTCCACGATTTCAAATTGTGACACAAAAA
* *** *
3703 CCATTTG-TGTGATTTT-A-ATTT-TT-G-ATTTC-G-TCTA-GCGTATTATTTAAGGGGATTCA
391 CCATCTGAAACGATTTTAACATTTATTGGCATTTCTGCTCTAGGCGCATTATTTAAGGGGATTCA
* * *
3759 TGAATGCTCTAAGGATTTTGTGGGATACTGCTTA
456 TGAA-GCTCTAAAGA--ATGTGGGATACTGCTGA
** *
3793 TATTTGGATATCATTT-TGAAATTGTTATTGGTACCTGATGTGATTAACTGTGTGTGCTAACTTG
1 TATTTGGATATCATTTGTGAAATCATTATTGGTGCCTGATGTGATTAAC--TGTGTGCTAACTTG
*
3857 TTTTTATATATTATGAACAAGCTTAAAAGCTTAAAGTTTTTCATAGCATTATGCTTTGCTTTGAA
64 TTTTTATATATTATGAACAAGCTCAAAAGCTT-AAGTTTTTCATAGCATTATGCTTTGCTTTGAA
* * * * *
3922 AACCAATTCTGCTAGAGCCGAGCTTTGAACTATGAAATATTGTTTT-CCAAGTGTTTAAATGAAA
128 AACCATTTCTGCTAGAGCCGAGCTTTGAAGTATGAAATATTGTTTTAGCAAGTTTTTAAATGGAA
*
3986 ATGAGTTTGAATATCTTGAATCCAATGTTTTAAACTTGCTTAAACAGAGAAACATGATAACTTGC
193 ATGAGTTTGAATATCTTGAATCCAATGTTTTAAACTTGCTCAAACAGAGAAACATGATAACTTGC
* * * *
4051 ATTGGTTTTAATTTTTCAGAATGTTAAAATGCAAGATATGGAGGATTTTGGAGCTCAAAATGTCA
258 ATTGGTTTTAATTTTTCACAGTGTTAAAGTGCAAGTTATGGAGGATTTTGGAGCTCAAAATGTCA
* * * * ** * * * * *
4116 AAATTTTGTTTTTGAGCTATTGTGGGTATG-AAAGTCATTTGCACAATTTTAATTTTTG------
323 AAATTTTGTTTTTGAGCGATTATAGGAATGAAAAACCATTTCCACGATTTCAAATTGTGACACAA
* * *** * * * * *
4174 -----GTC-G---CG-TTTCT-AC-TATAGAAGCATTT-T--T-TCGGGGGATTCA-TGAA--TG
388 AAACCATCTGAAACGATTT-TAACATTTATTGGCATTTCTGCTCTAGGCGCATT-ATTTAAGGGG
* *** * *
4220 -CTC-T-AAG----AAATTTTGTGGGATGCTGTTGA
451 ATTCATGAAGCTCTAAAGAATGTGGGATACTGCTGA
* * * * *
4249 TATTTAGATATCATTTGCGAAATCGTTATTGGTGCCAGATGTGATTAACTGTGTGTTAACTTGTT
1 TATTTGGATATCATTTGTGAAATCATTATTGGTGCCTGATGTGATTAACTGTGTGCTAACTTGTT
* * * * * * *
4314 TTTATATATTATGCATAAGGTGAAAAGCTTAATGTTTTT-TTGAAGCATTATG-TTGGTTTTGAA
66 TTTATATATTATGAACAAGCTCAAAAGCTTAA-GTTTTTCAT--AGCATTATGCTTTGCTTTGAA
* * *
4377 AACCATTTCTGCTAGA-CCAGAGCTTTGAAGTTTGAAATATTGTTTTAGTAAGTTTTTAAATGAA
128 AACCATTTCTGCTAGAGCC-GAGCTTTGAAGTATGAAATATTGTTTTAGCAAGTTTTTAAATGGA
* *
4441 AATGAGTTTGAATATCTTGAATCCAATGTTTTAAACATGCTCAAAAAG-GAAACATGATAACTTG
192 AATGAGTTTGAATATCTTGAATCCAATGTTTTAAACTTGCTCAAACAGAGAAACATGATAACTTG
* * * *
4505 TATTGATTTTAATTTTTCACAGTGTTAAAGTGCAAGTTATGAAAGATTTTGGAGCTCAAAATGTC
257 CATTGGTTTTAATTTTTCACAGTGTTAAAGTGCAAGTTATGGAGGATTTTGGAGCTCAAAATGTC
* * * * * * * *
4570 AAAATTTTGTTATTGTGTGATTA-CGAGCATG-AAAACCATTTGCACGATTTCAAATTGTGATAT
322 AAAATTTTGTTTTTGAGCGATTATAG-GAATGAAAAACCATTTCCACGATTTCAAATTGTGACAC
* * ** * ** ** * * *
4633 AAAAACCGTTTG-TGCAATTTTAATTTTTCA-TCACGTTTCTGCTCTAGAG-GCATTTTTTATGG
386 AAAAACCATCTGAAACGATTTTAACATTT-ATTGGCATTTCTGCTCTAG-GCGCATTATTTAAGG
* * * * *
4695 GGATTCCTGAATGTTCTAAGGAATTTGTGAGATACTGTTGA
449 GGATTCATGAA-GCTCTAAAGAA--TGTGGGATACTGCTGA
** * ** * * *
4736 TATTTGGATATCATTTACGAAATCGTTATTGGCACTTGATCTGATTAACTGCT-TGCTAACTTAT
1 TATTTGGATATCATTTGTGAAATCATTATTGGTGCCTGATGTGATTAACTG-TGTGCTAACTTGT
* * * *
4800 TTTTATATATTATGCACAAGCTCAAAAGCTTAATATTTTTTGA-AGCTTTATGCTTTGCTTTGAA
65 TTTTATATATTATGAACAAGCTCAAAAGCTT-A-AGTTTTTCATAGCATTATGCTTTGCTTTGAA
* * ** * * *
4864 AACCATTTCTACTAAAGTTGAGCTTGGAAGTATGAAATATTATTTTAGCAAGTTTTTAAATGAAA
128 AACCATTTCTGCTAGAGCCGAGCTTTGAAGTATGAAATATTGTTTTAGCAAGTTTTTAAATGGAA
* * * * *
4929 ATGAGTTTAAATATCTTGAATCCAATATTTTAAACTTGCTAAAACAGAGAAACATAATAACTTAC
193 ATGAGTTTGAATATCTTGAATCCAATGTTTTAAACTTGCTCAAACAGAGAAACATGATAACTTGC
* * * **
4994 ATTGGTTTTAAATTTTAACAATGTTAAAGTGCAAGTTATAAAGGATTTTGGAGCTCAAAATGTCA
258 ATTGGTTTTAATTTTTCACAGTGTTAAAGTGCAAGTTATGGAGGATTTTGGAGCTCAAAATGTCA
* * * * *
5059 AAATTTTGTTTTTAAACAATTATAGGCAT-AAAAACCATTTGCACGATTTCAAATTGTGA
323 AAATTTTGTTTTTGAGCGATTATAGGAATGAAAAACCATTTCCACGATTTCAAATTGTGA
5118 TATAAAAATC
Statistics
Matches: 1513, Mismatches: 214, Indels: 149
0.81 0.11 0.08
Matches are distributed among these distances:
454 6 0.00
455 213 0.14
456 97 0.06
457 28 0.02
458 2 0.00
462 1 0.00
463 2 0.00
464 1 0.00
465 5 0.00
466 8 0.01
467 2 0.00
468 11 0.01
469 8 0.01
470 4 0.00
471 29 0.02
472 15 0.01
473 3 0.00
474 60 0.04
475 9 0.01
476 42 0.03
477 2 0.00
478 7 0.00
479 2 0.00
480 189 0.12
481 110 0.07
482 64 0.04
483 64 0.04
484 28 0.02
485 45 0.03
486 32 0.02
487 208 0.14
488 130 0.09
489 2 0.00
490 1 0.00
491 1 0.00
492 65 0.04
493 17 0.01
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.39
Consensus pattern (486 bp):
TATTTGGATATCATTTGTGAAATCATTATTGGTGCCTGATGTGATTAACTGTGTGCTAACTTGTT
TTTATATATTATGAACAAGCTCAAAAGCTTAAGTTTTTCATAGCATTATGCTTTGCTTTGAAAAC
CATTTCTGCTAGAGCCGAGCTTTGAAGTATGAAATATTGTTTTAGCAAGTTTTTAAATGGAAATG
AGTTTGAATATCTTGAATCCAATGTTTTAAACTTGCTCAAACAGAGAAACATGATAACTTGCATT
GGTTTTAATTTTTCACAGTGTTAAAGTGCAAGTTATGGAGGATTTTGGAGCTCAAAATGTCAAAA
TTTTGTTTTTGAGCGATTATAGGAATGAAAAACCATTTCCACGATTTCAAATTGTGACACAAAAA
CCATCTGAAACGATTTTAACATTTATTGGCATTTCTGCTCTAGGCGCATTATTTAAGGGGATTCA
TGAAGCTCTAAAGAATGTGGGATACTGCTGA
Found at i:5146 original size:488 final size:486
Alignment explanation
Indices: 4160--5260 Score: 1417
Period size: 488 Copynumber: 2.3 Consensus size: 486
4150 TCATTTGCAC
** * * * **
4160 AATTTTAATTTTTGGTCGCGTTTCTACTATAGAAGCATTTTTTCGGGGGATTCATGAATGCTCTA
1 AATTTTAATTTTTCATCACGTTTCTGCTCTAGAAGCATTTTTTAAGGGGATTCATGAATGCTCTA
* * ** *
4225 AGAAATTTTGTGGGATGCTGTTGATATTTAGATATCATTTGCGAAATCGTTATTGGTGCCAGATG
66 AGAAA-TTTGTGAGATGCTGTTGATATTTGGATATCATTTGCGAAATCGTTATTGGCACCAGATC
* * * * * *
4290 TGATTAACTGTGTGTTAACTTGTTTTTATATATTATGCATAAGGTGAAAAGCTTAATGTTTTTTT
130 TGATTAACTGTGTGCTAACTTATTTTTATATATTATGCACAAGCTCAAAAGCTTAATGATTTTTT
* * * * * *
4355 GAAGCATTATGTTGGTTTTGAAAACCATTTCTGCTAGACCAGAGCTTTGAAGTTTGAAATATTGT
195 GAAGCATTATGTTGGCTTTGAAAACCATTTCTACTAAACCAGAGCTTGGAAGTATGAAATATTAT
* * *
4420 TTTAGTAAGTTTTTAAATGAAAATGAGTTTGAATATCTTGAATCCAATGTTTTAAACATGCTCAA
260 TTTAGCAAGTTTTTAAATGAAAATGAGTTTAAATATCTTGAATCCAATATTTTAAACATGCTCAA
* ** * * *
4485 AAAGGAAACATGATAACTTGTATTGATTTTAATTTTTCACAGTGTTAAAGTGCAAGTTATGAAAG
325 AAAGGAAACATAATAACTTACATTGATTTTAAATTTTAACAATGTTAAAGTGCAAGTTATGAAAG
***** * *
4550 ATTTTGGAGCTCAAAATGTCAAAATTTTGTTATTGTGTGATTACGAGCATGAAAACCATTTGCAC
390 ATTTTGGAGCTCAAAATGTCAAAATTTTGTTATTAAACAATTAAGAGCATAAAAACCATTTGCAC
4615 GATTTCAAATTGTGATATAAAAACCGTTTGTG
455 GATTTCAAATTGTGATATAAAAACCGTTTGTG
* * * *
4647 CAATTTTAATTTTTCATCACGTTTCTGCTCTAGAGGCATTTTTTATGGGGATTCCTGAATGTTCT
1 -AATTTTAATTTTTCATCACGTTTCTGCTCTAGAAGCATTTTTTAAGGGGATTCATGAATGCTCT
* * * **
4712 AAGGAATTTGTGAGATACTGTTGATATTTGGATATCATTTACGAAATCGTTATTGGCACTTGATC
65 AAGAAATTTGTGAGATGCTGTTGATATTTGGATATCATTTGCGAAATCGTTATTGGCACCAGATC
4777 TGATTAACTGCT-TGCTAACTTATTTTTATATATTATGCACAAGCTCAAAAGCTTAAT-ATTTTT
130 TGATTAACTG-TGTGCTAACTTATTTTTATATATTATGCACAAGCTCAAAAGCTTAATGATTTTT
* * ***
4840 TGAAGCTTTATGCTTTGCTTTGAAAACCATTTCTACTAAAGTTGAGCTTGGAAGTATGAAATATT
194 TGAAGCATTATG-TTGGCTTTGAAAACCATTTCTACTAAACCAGAGCTTGGAAGTATGAAATATT
*
4905 ATTTTAGCAAGTTTTTAAATGAAAATGAGTTTAAATATCTTGAATCCAATATTTTAAACTTGCT-
258 ATTTTAGCAAGTTTTTAAATGAAAATGAGTTTAAATATCTTGAATCCAATATTTTAAACATGCTC
*
4969 AAAACAGAGAAACATAATAACTTACATTGGTTTTAAATTTTAACAATGTTAAAGTGCAAGTTAT-
323 AAAA-AG-GAAACATAATAACTTACATTGATTTTAAATTTTAACAATGTTAAAGTGCAAGTTATG
*
5033 AAAGGATTTTGGAGCTCAAAATGTCAAAATTTTGTTTTTAAACAATTATAG-GCATAAAAACCAT
386 AAA-GATTTTGGAGCTCAAAATGTCAAAATTTTGTTATTAAACAATTA-AGAGCATAAAAACCAT
*
5097 TTGCACGATTTCAAATTGTGATATAAAAATCGTTTGCATG
449 TTGCACGATTTCAAATTGTGATATAAAAACCGTTTG--TG
* * * * * *
5137 -ATTTTAATTTTTTATCACTTTTTTGCTCTA-AACGCATTTTTTTAAGAGAAGTCATGAATGCTC
1 AATTTTAATTTTTCATCACGTTTCTGCTCTAGAA-GCA-TTTTTTAAGGGGATTCATGAATGCTC
* * * *
5200 TAAAAAATTTGT-ATGATGCTGTTGATATTTGGATACCATTTGTGAAATCATTATTGGCACC
64 TAAGAAATTTGTGA-GATGCTGTTGATATTTGGATATCATTTGCGAAATCGTTATTGGCACC
5261 TAATTTGATT
Statistics
Matches: 527, Mismatches: 75, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
486 20 0.04
487 208 0.39
488 225 0.43
489 72 0.14
490 2 0.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (486 bp):
AATTTTAATTTTTCATCACGTTTCTGCTCTAGAAGCATTTTTTAAGGGGATTCATGAATGCTCTA
AGAAATTTGTGAGATGCTGTTGATATTTGGATATCATTTGCGAAATCGTTATTGGCACCAGATCT
GATTAACTGTGTGCTAACTTATTTTTATATATTATGCACAAGCTCAAAAGCTTAATGATTTTTTG
AAGCATTATGTTGGCTTTGAAAACCATTTCTACTAAACCAGAGCTTGGAAGTATGAAATATTATT
TTAGCAAGTTTTTAAATGAAAATGAGTTTAAATATCTTGAATCCAATATTTTAAACATGCTCAAA
AAGGAAACATAATAACTTACATTGATTTTAAATTTTAACAATGTTAAAGTGCAAGTTATGAAAGA
TTTTGGAGCTCAAAATGTCAAAATTTTGTTATTAAACAATTAAGAGCATAAAAACCATTTGCACG
ATTTCAAATTGTGATATAAAAACCGTTTGTG
Found at i:7713 original size:20 final size:18
Alignment explanation
Indices: 7670--7714 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 18
7660 ATAAGCACAT
*
7670 AAAAAAAATAAAAAACTA
1 AAAAAAAATAAAAAACCA
7688 AGAAAAAACATAAAAATACCA
1 A-AAAAAA-ATAAAAA-ACCA
7709 AAAAAA
1 AAAAAA
7715 CAAAATGGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 1 0.04
19 6 0.26
20 12 0.52
21 4 0.17
ACGTcount: A:0.80, C:0.09, G:0.02, T:0.09
Consensus pattern (18 bp):
AAAAAAAATAAAAAACCA
Found at i:8146 original size:25 final size:22
Alignment explanation
Indices: 8125--8228 Score: 70
Period size: 21 Copynumber: 4.6 Consensus size: 22
8115 AAGTATTGTA
8125 ATAATAATTAATATTAAATATT
1 ATAATAATTAATATTAAATATT
* * *
8147 ATATTAATTAATATT-ATTAAT
1 ATAATAATTAATATTAAATATT
*
8168 -TAATAATTTAATATAATAAATATA
1 ATAATAA-TTAATAT--TAAATATT
* * * *
8192 ATATTTATTAAT-TTATATATA
1 ATAATAATTAATATTAAATATT
8213 ATATATAATTATATAT
1 ATA-ATAATTA-ATAT
8229 ATATAGATTA
Statistics
Matches: 62, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
20 5 0.08
21 21 0.34
22 19 0.31
23 4 0.06
24 9 0.15
25 4 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAATAATTAATATTAAATATT
Found at i:8164 original size:13 final size:13
Alignment explanation
Indices: 8129--8185 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
8119 ATTGTAATAA
8129 TAATTAATATTA-
1 TAATTAATATTAT
*
8141 -AA-TATTA-TAT
1 TAATTAATATTAT
8151 TAATTAATATTAT
1 TAATTAATATTAT
*
8164 TAATTAATAAT-T
1 TAATTAATATTAT
8176 TAATATAATA
1 TAAT-TAATA
8186 AATATAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
9 2 0.05
10 4 0.11
11 4 0.11
12 9 0.24
13 18 0.49
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TAATTAATATTAT
Found at i:8169 original size:35 final size:36
Alignment explanation
Indices: 8129--8218 Score: 96
Period size: 36 Copynumber: 2.5 Consensus size: 36
8119 ATTGTAATAA
*
8129 TAATTAATATTAAATATTATATTAAT-TAATA-TTAT
1 TAATTAATATTAAATATTA-ATAAATATAATATTTAT
*
8164 TAATTAATAATTTAATA-TAATAAATATAATATTTAT
1 TAATTAAT-ATTAAATATTAATAAATATAATATTTAT
*
8200 TAATTTATATATAATATAT
1 TAATTAATAT-TAA-ATAT
8219 AATTATATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
34 5 0.11
35 17 0.38
36 20 0.44
37 3 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (36 bp):
TAATTAATATTAAATATTAATAAATATAATATTTAT
Found at i:8172 original size:45 final size:44
Alignment explanation
Indices: 8123--8231 Score: 125
Period size: 45 Copynumber: 2.4 Consensus size: 44
8113 TTAAGTATTG
*
8123 TAATAATAATTAATAT-TAAATATTATATTAATTAATATTAT-TA
1 TAATAATAATTAATATATAAATATAATATTAATTAAT-TTATATA
* *
8166 -ATTAATAATTTAATATAATAAATATAATATTTATTAATTTATATA
1 TAATAATAA-TTAATAT-ATAAATATAATATTAATTAATTTATATA
8211 TAATATATAATTATATATATA
1 TAATA-ATAATTA-ATATATA
8232 TAGATTATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
42 7 0.13
43 7 0.13
44 4 0.07
45 20 0.36
46 9 0.16
47 8 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (44 bp):
TAATAATAATTAATATATAAATATAATATTAATTAATTTATATA
Found at i:8211 original size:21 final size:21
Alignment explanation
Indices: 8187--8249 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
8177 AATATAATAA
* *
8187 ATATAATAT-TTATTAATTTAT
1 ATATAATATATAATT-ATATAT
8208 ATATAATATATAATTATATAT
1 ATATAATATATAATTATATAT
8229 ATATAGATTATATATATTATA
1 ATATA-A-TATATA-ATTATA
8250 GTAAATAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 19 0.53
22 5 0.14
23 6 0.17
24 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATAATATATAATTATATAT
Found at i:8219 original size:9 final size:9
Alignment explanation
Indices: 8178--8249 Score: 51
Period size: 9 Copynumber: 8.1 Consensus size: 9
8168 TAATAATTTA
*
8178 ATATAATAA
1 ATATAATAT
8187 ATATAATAT
1 ATATAATAT
* *
8196 TTATTAATTT
1 ATA-TAATAT
8206 ATAT-ATAAT
1 ATATAAT-AT
8215 ATATAAT-T
1 ATATAATAT
8223 ATAT-ATAT
1 ATATAATAT
* *
8231 ATAGATTAT
1 ATATAATAT
*
8240 ATATATTAT
1 ATATAATAT
8249 A
1 A
8250 GTAAATAAGA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
7 2 0.04
8 11 0.22
9 28 0.56
10 9 0.18
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (9 bp):
ATATAATAT
Found at i:8233 original size:25 final size:24
Alignment explanation
Indices: 8123--8249 Score: 78
Period size: 22 Copynumber: 5.6 Consensus size: 24
8113 TTAAGTATTG
*
8123 TAATA-ATAATTA-ATATTAAATA
1 TAATATATAATTATATATTATATA
*
8145 TTATAT-TAATTA-ATATTAT-TA
1 TAATATATAATTATATATTATATA
* * *
8166 -ATTA-ATAATTTAATATAATAAATA
1 TAATATATAA-TT-ATATATTATATA
*
8190 TAATAT-TTATTA-AT-TTATATA
1 TAATATATAATTATATATTATATA
8211 TAATATATAATTATATA-TATATA
1 TAATATATAATTATATATTATATA
* *
8234 GATTATATATATTATA
1 TAATATATA-ATTATA
8250 GTAAATAAGA
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
20 5 0.06
21 15 0.19
22 24 0.30
23 21 0.26
24 10 0.12
25 5 0.06
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
TAATATATAATTATATATTATATA
Found at i:8243 original size:15 final size:15
Alignment explanation
Indices: 8207--8250 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
8197 TATTAATTTA
8207 TATATAATATATA-AT
1 TATAT-ATATATAGAT
8222 TATATATATATAGAT
1 TATATATATATAGAT
8237 TATATATATTATAG
1 TATATATA-TATAG
8251 TAAATAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.26
15 15 0.56
16 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (15 bp):
TATATATATATAGAT
Found at i:8657 original size:13 final size:12
Alignment explanation
Indices: 8639--8711 Score: 53
Period size: 11 Copynumber: 6.1 Consensus size: 12
8629 ATAATTATAG
*
8639 TTAATATATCAT
1 TTAATATATAAT
*
8651 TTGAATATTTAAT
1 TT-AATATATAAT
*
8664 TTAATATA-ATT
1 TTAATATATAAT
8675 TTAATAATTATAAT
1 TTAAT-A-TATAAT
* *
8689 ATAATA-ATTA-
1 TTAATATATAAT
8699 TTAATATATAAT
1 TTAATATATAAT
8711 T
1 T
8712 ATATTTATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
10 5 0.11
11 13 0.28
12 9 0.20
13 13 0.28
14 6 0.13
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (12 bp):
TTAATATATAAT
Found at i:8675 original size:23 final size:26
Alignment explanation
Indices: 8628--8694 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 26
8618 TTATATTATT
*
8628 AATAATTAT-AGTTAATATATCATTTG
1 AATAATTATAATTTAATATA-CATTTG
*
8654 AAT-ATT-TAATTTAATATA-ATTTT
1 AATAATTATAATTTAATATACATTTG
*
8677 AATAATTATAATATAATA
1 AATAATTATAATTTAATA
8695 ATTATTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
23 7 0.20
24 4 0.11
25 21 0.60
26 3 0.09
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (26 bp):
AATAATTATAATTTAATATACATTTG
Found at i:8693 original size:14 final size:14
Alignment explanation
Indices: 8676--8714 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
8666 AATATAATTT
8676 TAATAATTATAATA
1 TAATAATTATAATA
8690 TAATAATTATTAATA
1 TAATAATTA-TAATA
8705 T-ATAATTATA
1 TAATAATTATA
8715 TTTATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 2 0.08
14 16 0.67
15 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
TAATAATTATAATA
Found at i:8706 original size:20 final size:19
Alignment explanation
Indices: 8659--8706 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
8649 ATTTGAATAT
* *
8659 TTAATTTAATATAATTTTA
1 TTAATATAATATAATATTA
*
8678 ATAATTATAATATAATAATTA
1 TTAA-TATAATATAAT-ATTA
8699 TTAATATA
1 TTAATATA
8707 TAATTATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.13
20 14 0.61
21 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAATATAATATAATATTA
Found at i:8724 original size:47 final size:46
Alignment explanation
Indices: 8594--8726 Score: 133
Period size: 47 Copynumber: 2.7 Consensus size: 46
8584 TATTTGTTAT
* *
8594 TAATTAATAATATTATAATTATATTTATATTATTAATAATTATAGTTAA
1 TAATTATTAATA-TATAATTATATTTAT-TT-TTAATAATTATAATTAA
* * * *
8643 TATATCATTTGAATATTTAATT-TAATATAATTTTAATAATTATAATATAA
1 TA-ATTA-TT-AATATATAATTAT-ATTTATTTTTAATAATTATAAT-TAA
8693 TAATTATTAATATATAATTATATTTATTTTTAAT
1 TAATTATTAATATATAATTATATTTATTTTTAAT
8727 TTTTTTACTT
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
47 21 0.31
48 3 0.04
49 18 0.26
50 11 0.16
51 11 0.16
52 4 0.06
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.53
Consensus pattern (46 bp):
TAATTATTAATATATAATTATATTTATTTTTAATAATTATAATTAA
Found at i:9324 original size:21 final size:23
Alignment explanation
Indices: 9298--9349 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
9288 AATTATAAAC
*
9298 AATTATTAAAT-TTATATTAT-T
1 AATTATTAAATAATATATTATAT
9319 AATTATT-AATAATATATTATAT
1 AATTATTAAATAATATATTATAT
*
9341 ACTTATTAA
1 AATTATTAA
9350 TATTATTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 3 0.12
21 15 0.58
22 7 0.27
23 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTATTAAATAATATATTATAT
Found at i:10943 original size:24 final size:25
Alignment explanation
Indices: 10916--10970 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
10906 TAAAACAAAT
*
10916 ATTTAT-AATTAA-TAATTATAATTA
1 ATTTATCAAGTAATTAATTA-AATTA
10940 ATTT-TCAAGTAATTAATTAAATTA
1 ATTTATCAAGTAATTAATTAAATTA
10964 ATATTAT
1 AT-TTAT
10971 TTTATTCGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 1 0.04
24 16 0.62
25 8 0.31
26 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
ATTTATCAAGTAATTAATTAAATTA
Found at i:11058 original size:6 final size:6
Alignment explanation
Indices: 11047--11085 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
11037 TCAATATTGT
* *
11047 TTAATA TTAATA CTAAT- TTAATA TTGATA TTAATA TTAA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAA
11086 GCTTTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (6 bp):
TTAATA
Found at i:11068 original size:17 final size:17
Alignment explanation
Indices: 11046--11085 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
11036 ATCAATATTG
11046 TTTAATATTAATACTAA
1 TTTAATATTAATACTAA
* *
11063 TTTAATATTGATATTAA
1 TTTAATATTAATACTAA
11080 TATTAA
1 T-TTAA
11086 GCTTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAATATTAATACTAA
Found at i:11914 original size:182 final size:176
Alignment explanation
Indices: 11450--11968 Score: 514
Period size: 176 Copynumber: 2.9 Consensus size: 176
11440 TTCCCCATAC
* *
11450 TAAATT-A-TTATTTTTTAAATCTCTTAGTTATTCATTTTTAGAATATTGCTAAATTAGTATTAT
1 TAAATTAATTTATTTTTTAAATGTCTTA-TTA---ATTTTTA-AATATTACTAAATTAGTATTAT
* * *
11513 TTTATTTCAAATAAGCTTGTATGAACAAAAACAATTGTTTTATGATAGAACAAAAGGTTATAACA
61 TTTATTTCAAATAAGCTTGTATGAACTAAAACAATTGTTTTATGATAAAACAAAAGGTAATAACA
* *
11578 ATTTGAAATAGAAAATTGTTCAAATAGTCATAACTATTTGAACTGGTTCAA
126 ATTTGAAATAGAAAATTGTTCAAATAGTCATAACTATGTGAACTGATTCAA
* * * *
11629 TAAATTAATTTATTTTTTAAATGTCTTATTAATCTTAAAATATTAATAAATTGGTATTATTTTAT
1 TAAATTAATTTATTTTTTAAATGTCTTATTAATTTTTAAATATTACTAAATTAGTATTATTTTAT
*
11694 TTCAAATAAGCTTGTATG--TTGACAAACAATTGTTTTATGATAAAACAAAAGGTAATAACAATT
66 TTCAAATAAGCTTGTATGAACT-A-AAACAATTGTTTTATGATAAAACAAAAGGTAATAACAATT
* * * * * ***
11757 TGAAATAGATAGTTGTTTAAAT-GGCTATAATTATGTGAACTGATTGGG
129 TGAAATAGAAAATTGTTCAAATAGTC-ATAACTATGTGAACTGATTCAA
* * * *
11805 TAAATTGATTTGTTCTTTTAAATTAATTACTTATTAATTTTTGAAATATTACTAAAGTAGTATTA
1 TAAATTAATTTATT-TTTTAAA-T--GT-CTTATTAATTTTT-AAATATTACTAAATTAGTATTA
*** * * * *
11870 TTTTATTTTGGATAAAG-TTTTATGAACTAAAACAATTATTTTATGACAAAACAAATA-GTCATA
60 TTTTATTTCAAAT-AAGCTTGTATGAACTAAAACAATTGTTTTATGATAAAACAAA-AGGTAATA
** * *
11933 ATTATTTTAAATA-AATAATTGTTCAAATAGCCATAA
123 ACAATTTGAAATAGAA-AATTGTTCAAATAGTCATAA
11969 TTATTCGAAC
Statistics
Matches: 280, Mismatches: 43, Indels: 31
0.79 0.12 0.09
Matches are distributed among these distances:
175 3 0.01
176 127 0.45
177 12 0.04
178 1 0.00
179 6 0.02
180 5 0.02
181 30 0.11
182 88 0.31
183 7 0.03
184 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (176 bp):
TAAATTAATTTATTTTTTAAATGTCTTATTAATTTTTAAATATTACTAAATTAGTATTATTTTAT
TTCAAATAAGCTTGTATGAACTAAAACAATTGTTTTATGATAAAACAAAAGGTAATAACAATTTG
AAATAGAAAATTGTTCAAATAGTCATAACTATGTGAACTGATTCAA
Found at i:12973 original size:28 final size:28
Alignment explanation
Indices: 12942--12996 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
12932 ATTATACTTT
*
12942 TTAAAATTATTAACT-ATATTTATAAATA
1 TTAAAATTA-TAACTAATAATTATAAATA
* *
12970 TTAAATTTATAATTAATAATTATAAAT
1 TTAAAATTATAACTAATAATTATAAAT
12997 TATAATTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TTAAAATTATAACTAATAATTATAAATA
Found at i:12980 original size:21 final size:22
Alignment explanation
Indices: 12965--13040 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 22
12955 CTATATTTAT
*
12965 AAATATTAAATTTATAATTAAT
1 AAATATTAAATTTATAATTTAT
*
12987 AATTA-TAAA-TTATAATTATAT
1 AAATATTAAATTTATAATT-TAT
* *
13008 AATTATAAAAATATTAT-ATTTAT
1 AAATAT-TAAAT-TTATAATTTAT
*
13031 ATAT-TTAAAT
1 AAATATTAAAT
13041 ATAAATATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
20 8 0.19
21 15 0.35
22 5 0.12
23 8 0.19
24 3 0.07
25 4 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATATTAAATTTATAATTTAT
Found at i:13503 original size:29 final size:29
Alignment explanation
Indices: 13448--13503 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
13438 TAAAATATTT
* * *
13448 ATAATTATATTTAATATTTATATAAATTA
1 ATAATTATATATAATATATATACAAATTA
13477 ATAATTATATATAATATA-ATTACAAAT
1 ATAATTATATATAATATATA-TACAAAT
13504 ATTTTAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 1 0.04
29 22 0.96
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (29 bp):
ATAATTATATATAATATATATACAAATTA
Found at i:13683 original size:25 final size:26
Alignment explanation
Indices: 13652--13708 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 26
13642 ATGTATATTT
13652 ATAAAT-ATATAAATTAATTATTATTAATA
1 ATAAATAATAT-AA-TAATTATTA-T-ATA
13681 ATAAATAATATAATAATTATTATATA
1 ATAAATAATATAATAATTATTATATA
13707 AT
1 AT
13709 TATTATTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
26 5 0.19
27 1 0.04
28 9 0.33
29 8 0.30
30 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAAATAATATAATAATTATTATATA
Found at i:13707 original size:14 final size:14
Alignment explanation
Indices: 13666--13715 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
13656 ATATATAAAT
13666 TAATTATTAT-TAA
1 TAATTATTATATAA
* *
13679 TAATAAATAATATAA
1 TAAT-TATTATATAA
13694 TAATTATTATATAA
1 TAATTATTATATAA
*
13708 TTATTATT
1 TAATTATT
13716 TCAATAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 4 0.13
14 19 0.63
15 7 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATTATTATATAA
Found at i:13835 original size:18 final size:18
Alignment explanation
Indices: 13814--13865 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
13804 AATATAATTT
13814 ATTATTTATTAATAATAA
1 ATTATTTATTAATAATAA
* *
13832 ATTACTTATTAATAATTA
1 ATTATTTATTAATAATAA
*
13850 ATAATTTTATT-ATAAT
1 ATTA-TTTATTAATAAT
13866 TTTTTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTATTTATTAATAATAA
Found at i:14395 original size:19 final size:19
Alignment explanation
Indices: 14371--14427 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 19
14361 CATACAAATT
14371 TATAATAATAATTAAATAA
1 TATAATAATAATTAAATAA
14390 TATAATTATATATAATTATAATAA
1 TAT-A--ATA-ATAATTA-AATAA
*
14414 -ATATTAATAATTAA
1 TATAATAATAATTAA
14428 TTTATTAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
18 1 0.03
19 10 0.31
20 3 0.09
22 4 0.12
23 9 0.28
24 5 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATAATAATAATTAAATAA
Found at i:14410 original size:29 final size:29
Alignment explanation
Indices: 14371--14426 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
14361 CATACAAATT
14371 TATAATAATAATTAAATAAT-ATAATTATA
1 TATAATAATAA-TAAATAATAATAATTATA
* *
14400 TATAATTATAATAAATATTAATAATTA
1 TATAATAATAATAAATAATAATAATTA
14427 ATTTATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
TATAATAATAATAAATAATAATAATTATA
Found at i:14521 original size:22 final size:19
Alignment explanation
Indices: 14485--14531 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
14475 ATAACATATA
14485 ATTTTAATATAAATATTAT
1 ATTTTAATATAAATATTAT
14504 ATTTATAATAATAGAATATTAT
1 ATTT-TAAT-ATA-AATATTAT
14526 AATTTT
1 -ATTTT
14532 TAGTTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.17
20 4 0.17
21 3 0.12
22 9 0.38
23 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
ATTTTAATATAAATATTAT
Found at i:14632 original size:15 final size:15
Alignment explanation
Indices: 14612--14642 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
14602 GCATATTTAA
14612 TATAGTTAATAATTT
1 TATAGTTAATAATTT
14627 TATAGTTAATAATTT
1 TATAGTTAATAATTT
14642 T
1 T
14643 TAATTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
TATAGTTAATAATTT
Found at i:14718 original size:30 final size:31
Alignment explanation
Indices: 14645--14718 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 31
14635 ATAATTTTTA
*
14645 ATTATTAATTAA-ATTATTAATTTTCATAAT
1 ATTATTAATTAATATTATTAATTTACATAAT
14675 ATTATTAAATTAATATTA-T-ATTTACA-AATT
1 ATTATT-AATTAATATTATTAATTTACATAA-T
14705 ATTAGTTAATTAAT
1 ATTA-TTAATTAAT
14719 TAATATAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
29 2 0.05
30 24 0.62
31 9 0.23
32 4 0.10
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (31 bp):
ATTATTAATTAATATTATTAATTTACATAAT
Found at i:14761 original size:20 final size:19
Alignment explanation
Indices: 14713--14767 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
14703 TTATTAGTTA
*
14713 ATTAATTAATATAACATAT
1 ATTATTTAATATAACATAT
*
14732 ATTATTTAATATAAGCATGT
1 ATTATTTAATATAA-CATAT
14752 A-TAGTTTAATTATAAC
1 ATTA-TTTAA-TATAAC
14768 TTATTATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 15 0.48
20 11 0.35
21 5 0.16
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (19 bp):
ATTATTTAATATAACATAT
Found at i:14824 original size:3 final size:3
Alignment explanation
Indices: 14773--14805 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
14763 ATAACTTATT
14773 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14806 GTTACAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14843 original size:9 final size:9
Alignment explanation
Indices: 14758--14843 Score: 59
Period size: 9 Copynumber: 9.4 Consensus size: 9
14748 ATGTATAGTT
14758 TAATTATAA
1 TAATTATAA
*
14767 CTTATTATAA
1 -TAATTATAA
*
14777 TAATAATAA
1 TAATTATAA
*
14786 TAATAATAA
1 TAATTATAA
*
14795 TAATAATAA
1 TAATTATAA
* *
14804 TAGTTACAA
1 TAATTATAA
*
14813 T--TTGTTAA
1 TAATT-ATAA
14821 TAATTTATAA
1 TAA-TTATAA
*
14831 TAATTATAT
1 TAATTATAA
14840 TAAT
1 TAAT
14844 ATTAATTTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
7 2 0.03
8 3 0.05
9 41 0.66
10 14 0.23
11 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (9 bp):
TAATTATAA
Found at i:14866 original size:24 final size:25
Alignment explanation
Indices: 14779--14874 Score: 81
Period size: 24 Copynumber: 4.0 Consensus size: 25
14769 TATTATAATA
* *
14779 ATAATAATAATAATAATAATAA-TA
1 ATAATAATAATATTAATAATAATTT
* * * **
14803 ATAGTTACAAT-TTGTTAATAATTT
1 ATAATAATAATATTAATAATAATTT
* *
14827 ATAATAATTATATTAATATTAATTT
1 ATAATAATAATATTAATAATAATTT
*
14852 AT-ATAATAATCTTAATAATAATT
1 ATAATAATAATATTAATAATAATT
14875 ACAATTAAAT
Statistics
Matches: 53, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
23 7 0.13
24 34 0.64
25 12 0.23
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
ATAATAATAATATTAATAATAATTT
Found at i:14920 original size:14 final size:13
Alignment explanation
Indices: 14773--14923 Score: 64
Period size: 12 Copynumber: 11.2 Consensus size: 13
14763 ATAACTTATT
14773 ATAATAATAA-TA
1 ATAATAATAATTA
14785 ATAATAATAA-TA
1 ATAATAATAATTA
*
14797 ATAATAATAGTTACA
1 ATAATAATAATT--A
** *
14812 ATTTGTTAATAATTT
1 A--TAATAATAATTA
14827 ATAATAATTATATTA
1 ATAATAA-TA-ATTA
*
14842 ATATTAAT--TTA
1 ATAATAATAATTA
*
14853 TATAATAAT-CTTA
1 -ATAATAATAATTA
14866 ATAATAATTACAATT-
1 ATAATAA-T--AATTA
* *
14881 A-AATATTCATTA
1 ATAATAATAATTA
14893 CATAATAATAATTA
1 -ATAATAATAATTA
*
14907 ATAATATTATATTA
1 ATAATAATA-ATTA
14921 ATA
1 ATA
14924 CGTTATACAT
Statistics
Matches: 106, Mismatches: 16, Indels: 32
0.69 0.10 0.21
Matches are distributed among these distances:
11 6 0.06
12 35 0.33
13 19 0.18
14 23 0.22
15 13 0.12
16 2 0.02
17 8 0.08
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (13 bp):
ATAATAATAATTA
Found at i:15826 original size:32 final size:31
Alignment explanation
Indices: 15740--15826 Score: 85
Period size: 32 Copynumber: 2.9 Consensus size: 31
15730 GGATTTTATC
15740 TATTAATTTAT-AAT-TACTAGATAAA-ATTA
1 TATTAATTTATAAATATACTA-ATAAATATTA
* *
15769 -AATAA-TTATAAATATTCTAATTAAATATTA
1 TATTAATTTATAAATATACTAA-TAAATATTA
*
15799 TATTAATTTATAAATATAATATATAAAT
1 TATTAATTTATAAATATACTA-ATAAAT
15827 TGTTAAATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
27 4 0.09
28 8 0.17
29 8 0.17
30 4 0.09
31 4 0.09
32 17 0.37
33 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (31 bp):
TATTAATTTATAAATATACTAATAAATATTA
Found at i:16340 original size:17 final size:17
Alignment explanation
Indices: 16320--16395 Score: 52
Period size: 17 Copynumber: 4.5 Consensus size: 17
16310 TATATATAGT
*
16320 TTTATATATTTTAATTA
1 TTTATATATATTAATTA
16337 TTTA-ATATCATTAATTA
1 TTTATATAT-ATTAATTA
* *
16354 TTAAT-TA-ATGAA-TA
1 TTTATATATATTAATTA
* *
16368 TTGATATATTTTAATTTAA
1 TTTATATATATTAA-TT-A
16387 TTTATATAT
1 TTTATATAT
16396 CATTGATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
14 6 0.13
15 6 0.13
16 7 0.16
17 16 0.36
18 1 0.02
19 9 0.20
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATATATTAATTA
Found at i:16381 original size:24 final size:23
Alignment explanation
Indices: 16323--16383 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
16313 ATATAGTTTT
* *
16323 ATATATTTTAATTATTTAATATC
1 ATATATTTTAATTAATGAATATC
*
16346 AT-TAATTATTAATTAATGAATATTG
1 ATAT-ATT-TTAATTAATGAATA-TC
16371 ATATATTTTAATT
1 ATATATTTTAATT
16384 TAATTTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 1 0.03
23 5 0.16
24 18 0.58
25 6 0.19
26 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (23 bp):
ATATATTTTAATTAATGAATATC
Found at i:17174 original size:178 final size:180
Alignment explanation
Indices: 16804--17575 Score: 707
Period size: 181 Copynumber: 4.3 Consensus size: 180
16794 GAATTGAAGT
* * * * * *
16804 AATTATTTTATTACAAAAC-AAAAGCTCACAATGATTTGAAATAGATTATTATTTAAATAGTCAT
1 AATTATTTTATGACAAAACAAAAAG-TCATAACGATTTGAAATAAATAATTATTCAAATAGTCAT
* * ** * * * * *
16868 GACTATTTGAACTTGTTTGGCAAACATATTTATTTTTTAAATCTATTACTTATAAATTATCAAAA
65 AACGATTTGAACTTGTTCAGTAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTGTCAAAA
*
16933 TATTAATAAATTAATATTATTTTATTTCGAATAAGCTAGTATGAACA-AAAA
130 TATTAATAAATTAATATTATTTTA-TTCGAATAAGCTTGTATGAACAGAAAA
* * *
16984 TAATTGTTTTATGACAAAACAAAAAGTCATAACAATTTGAAATAAATAATTGTTCAAATAGTCAT
1 -AATTATTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAAATAATTATTCAAATAGTCAT
* **
17049 AACGATTTGAACTTGTTCAATAAA-AGATTTA-TTTTTAAATCTTTTACTTATTAATTGTCTTAA
65 AACGATTTGAACTTGTTCAGTAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTGTCAAAA
** *
17112 T-TTAATAAATTTGTATTATTTTATTCAAAATAAGCTTGTATGAACAGAAAA
130 TATTAATAAATTAATATTATTTTATTC-GAATAAGCTTGTATGAACAGAAAA
* * * * ** * *
17163 AATCATTTTATGACAAAGCAAAATGTTA-AAGCGATTTCCAATAAATAATTATTCAAATAATTAT
1 AATTATTTTATGACAAAACAAAAAGTCATAA-CGATTTGAAATAAATAATTATTCAAATAGTCAT
*** * * * * * *
17227 AATTTTTTAAACTTGTTCAGTAAATAGATTCATTTTTTAAATCTCTTAATTATTAATTTTCAAAA
65 AACGATTTGAACTTGTTCAGTAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTGTCAAAA
* * * ** *
17292 TATTAATAACTTAATATTATTTTATTTTGAATAAGCTTATATGAATTGAAAT
130 TATTAATAAATTAATATTATTTTA-TTCGAATAAGCTTGTATGAACAGAAAA
* * * * * * * *
17344 AATTTTTTTATGACAGAAGAAAAGGTCATAACGATTTGAAATAGATAACTATTCAAATAGCCATG
1 AATTATTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAAATAATTATTCAAATAGTCATA
* * * ** *
17409 ACTG-TTTG-ATTTAGTTTAGTAAACATATTTAATTTTTTTACGTATTTTACTTATTAATTGTCA
66 AC-GATTTGAACTT-GTTCAGTAAACAGATTT-A-TTTTTTAAATCTTTTACTTATTAATTGTCA
** * * * * *
17472 AAA-ATTAATAAATTTGTATTATTTTAATCCGAATAAGCTTGAATAAATAGAAAC
127 AAATATTAATAAATTAATATTATTTT-ATTCGAATAAGCTTGTATGAACAGAAAA
* * * * * *
17526 TATTATCTTATAACAGAACAAAAAGTTATAATGATTTGAAATAAATAATT
1 AATTATTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAAATAATT
17576 GCTTAAATAA
Statistics
Matches: 472, Mismatches: 105, Indels: 27
0.78 0.17 0.04
Matches are distributed among these distances:
177 5 0.01
178 106 0.22
179 38 0.08
180 37 0.08
181 169 0.36
182 89 0.19
183 28 0.06
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (180 bp):
AATTATTTTATGACAAAACAAAAAGTCATAACGATTTGAAATAAATAATTATTCAAATAGTCATA
ACGATTTGAACTTGTTCAGTAAACAGATTTATTTTTTAAATCTTTTACTTATTAATTGTCAAAAT
ATTAATAAATTAATATTATTTTATTCGAATAAGCTTGTATGAACAGAAAA
Found at i:18057 original size:16 final size:17
Alignment explanation
Indices: 18036--18068 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18026 TAACAATTTG
18036 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
18052 AAATAGCCATAATTATT
1 AAATAG-CATAATTATT
18069 TGAATAATTT
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:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:18187 original size:180 final size:177
Alignment explanation
Indices: 17655--18863 Score: 740
Period size: 175 Copynumber: 6.8 Consensus size: 177
17645 TTGATTATTT
* * * * * *
17655 AAACAAAAGGTAATAACGATTTGAAATAAAAAATTGTTCATATAGCCTTAAATATTTGAACTAGT
1 AAACAAAAGGTCATAACAATTTGAAATATATAATTGTTCAAATAGCCATAAATATTTGAACTAGT
* * * * * *
17720 TCAGTAAATAAATTTATTTTTTAAATCTCGTAGTTATTAATTTTTAAAATATTATTATATTAGTA
66 TCAGTAAAT-AATTTATTTTTTAAAACTC-CACTTATTAATTTTTGAAATATTAATAAATTAGTA
* * *
17785 TTATTTTATTTTGAATAAACTTGTGTGAATAGAAATAATTGTTTTATGAGA
129 TTATTTTATTTTGAA-AAACTTTTATG-ATAGAAATAATTGTTTTATGACA
* * ** * *
17836 TAACAAAAGGTTATAACAATTTGAAATATATAATTGTTCAAATAATCATAACTATTTGAACTGGT
1 AAACAAAAGGTCATAACAATTTGAAATATATAATTGTTCAAATAGCCATAAATATTTGAACTAGT
* * ** *
17901 TCAGTAAATAGATTAACTTTTT-AAA-T-CTTTTATTAATTTTTGAAATATTAGTAAATTAGTAT
66 TCAGTAAATA-ATTTATTTTTTAAAACTCCACTTATTAATTTTTGAAATATTAATAAATTAGTAT
** * *
17963 TATTTTA-TTCCAAATAGGCTTTTATGATGAGAAACAATTGTTTTATGACA
130 TATTTTATTTTGAAA-A-ACTTTTATGAT-AGAAATAATTGTTTTATGACA
* * * * *
18013 AAACAAAAGTTCATAACAATTTGAAATAGATAATTATTCAAATAGCCATAATTATTTGAA-TAAT
1 AAACAAAAGGTCATAACAATTTGAAATATATAATTGTTCAAATAGCCATAAATATTTGAACTAGT
* * * ** *
18077 T-TGATAAACTAATTTATTTTTTAAAACTCCAACTTCTTAATTTTGGAAATATTAATAAAGCAAT
66 TCAG-TAAA-TAATTTATTTTTTAAAACTCC-ACTTATTAATTTTTGAAATATTAATAAATTAGT
* *
18141 ATTATTTTATTTTGGAAAAACTTTTATG-TACTGAAATAGTTGTTTTATGATA
128 ATTATTTTATTTT-GAAAAACTTTTATGATA--GAAATAATTGTTTTATGACA
* * * * *
18193 AAATAAAAGGTCATAACGATTTTAAATATATAATTGTTCAAATAGTCATAACA-ATTTAAACTTA
1 AAACAAAAGGTCATAACAATTTGAAATATATAATTGTTCAAATAGCCATAA-ATATTTGAAC-TA
** * ** * *
18257 -TTTGGTAAATAGA--T-TTTTTGAAAA-T-TTCTCATTAATTTTCT-AAATTTTAATAAATTAG
64 GTTCAGTAAATA-ATTTATTTTTTAAAACTCCACTTATTAATTTT-TGAAATATTAATAAATTAG
* * * * * * * * * *
18315 TATTACTATATTTCGAATAAGCATGTATGAACTA-AAACAATTATTTTTTGACT
127 TATTATTTTATTTTGAA-AAACTTTTATG-A-TAGAAATAATTGTTTTATGACA
* * * * * * * * * * *
18368 AAACAAAAGATCAAAATAATTTGGAATAGATAATTATTCTAATAGTCTTAACTATTTGAACTACT
1 AAACAAAAGGTCATAACAATTTGAAATATATAATTGTTCAAATAGCCATAAATATTTGAACTAGT
** * * * * * *
18433 TTGGAAAACACATTTA-TTTTT-AAA-T-C-TTTATTAATTTTTGAAATAGTAATATATTGGTAT
66 TCAGTAAATA-ATTTATTTTTTAAAACTCCACTTATTAATTTTTGAAATATTAATAAATTAGTAT
* * * * * * *
18493 TATTTTATTTTGTATAATTTTGTATGAATAGAAACAATTATTTTATAATA
130 TATTTTATTTTGAAAAACTTT-TATG-ATAGAAATAATTGTTTTATGACA
* ** * * * ** * ** * * * *
18543 AAATAAAATATCATAACGATTTAAAATAAATAACAGTTCAAATGGATATGACTATTTAAACTTGT
1 AAACAAAAGGTCATAACAATTTGAAATATATAATTGTTCAAATAGCCATAAATATTTGAACTAGT
* * * * * *
18608 TCGGTAAACATATTTATTTTTTAAATCTCTAACTTATTAATTTTT-AGAATAATAATAAACTAGT
66 TCAGTAAATA-ATTTATTTTTTAAAACTC-CACTTATTAATTTTTGA-AATATTAATAAATTAGT
*** * * * * *
18672 ATTATTTTATTCCAAATAAACTTGTGTGAATAGAAACAATTATTTTATGATA
128 ATTATTTTATTTTGAA-AAACTTTTATG-ATAGAAATAATTGTTTTATGACA
* ** * * *
18724 AAACAAAAGATCATAA-AGATTTGAAATATATAATTGTTCAAATAGTAAT-ATTATTTGAATTTG
1 AAACAAAAGGTCATAACA-ATTTGAAATATATAATTGTTCAAATAGCCATAAATATTTGAACTAG
* * * * ** * *
18787 CTC-GATAAACAAATTTATTATTTAAATATTTTACTTATTAATTTTAGAAATATTAATAAATTAA
65 TTCAG-TAAA-TAATTTATTTTTTAAA-ACTCCACTTATTAATTTTTGAAATATTAATAAATTAG
18851 TATTATTTTATTT
127 TATTATTTTATTT
18864 CGAATAAGCT
Statistics
Matches: 796, Mismatches: 187, Indels: 91
0.74 0.17 0.08
Matches are distributed among these distances:
174 10 0.01
175 229 0.29
176 32 0.04
177 127 0.16
178 14 0.02
179 5 0.01
180 183 0.23
181 186 0.23
182 10 0.01
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (177 bp):
AAACAAAAGGTCATAACAATTTGAAATATATAATTGTTCAAATAGCCATAAATATTTGAACTAGT
TCAGTAAATAATTTATTTTTTAAAACTCCACTTATTAATTTTTGAAATATTAATAAATTAGTATT
ATTTTATTTTGAAAAACTTTTATGATAGAAATAATTGTTTTATGACA
Found at i:18704 original size:181 final size:180
Alignment explanation
Indices: 18512--18880 Score: 454
Period size: 180 Copynumber: 2.0 Consensus size: 180
18502 TTGTATAATT
* * *
18512 TTGTATGAATAGAAACAATTATTTTATAATAAAATAAAATATCATAACGATTTAAAATAAATAAC
1 TTGTATGAATAGAAACAATTATTTTATAATAAAACAAAAGATCATAAAGATTTAAAATAAATAAC
* * * * * *
18577 AGTTCAAAT-GGATATGACTATTTAAACTTGTTCGGTAAACATATTTATTTTTTAAATCTCTAAC
66 AGTTCAAATAGTA-AT-ACTATTTAAACTTGCTCGATAAACAAATTTATTATTTAAATATCTAAC
*
18641 TTATTAATTTTTAG-AATAATAATAAACTAGTATTATTTTATTCCAAATAAAC
129 TTATTAA-TTTTAGAAATAATAATAAACTAATATTATTTTATTCCAAATAAAC
* * * * *
18693 TTGTGTGAATAGAAACAATTATTTTATGATAAAACAAAAGATCATAAAGATTTGAAATATATAAT
1 TTGTATGAATAGAAACAATTATTTTATAATAAAACAAAAGATCATAAAGATTTAAAATAAATAAC
* * * * * *
18758 TGTTCAAATAGTAATATTATTTGAATTTGCTCGATAAACAAATTTATTATTTAAATATTTTACTT
66 AGTTCAAATAGTAATACTATTTAAACTTGCTCGATAAACAAATTTATTATTTAAATATCTAACTT
* * * * *
18823 ATTAATTTTAGAAATATTAATAAATTAATATTATTTTATTTCGAATAAGC
131 ATTAATTTTAGAAATAATAATAAACTAATATTATTTTATTCCAAATAAAC
*
18873 TTATATGA
1 TTGTATGA
18881 CAAAATAAAT
Statistics
Matches: 158, Mismatches: 28, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
179 6 0.04
180 83 0.53
181 67 0.42
182 2 0.01
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (180 bp):
TTGTATGAATAGAAACAATTATTTTATAATAAAACAAAAGATCATAAAGATTTAAAATAAATAAC
AGTTCAAATAGTAATACTATTTAAACTTGCTCGATAAACAAATTTATTATTTAAATATCTAACTT
ATTAATTTTAGAAATAATAATAAACTAATATTATTTTATTCCAAATAAAC
Found at i:18907 original size:159 final size:159
Alignment explanation
Indices: 18734--19033 Score: 392
Period size: 159 Copynumber: 1.9 Consensus size: 159
18724 AAACAAAAGA
* * * * * *
18734 TCATAAAGATTTGAAATATATAATTGTTCAAATAGTAAT-ATTATTTGAATTTGCTC-GATAAAC
1 TCATAAAGATTTGAAATAGATAATTGTTCAAACAGTAATAACTA-TTGAATGTGCTCAAAAAAAC
18797 AAATTTATTATTT-AAATATTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTATTTTA
65 AAATTTATT-TTTAAAAT-TTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTATTTTA
18861 TTTCG-AATAAGCTTATATGACAAAATAAATTG
128 -TTCGAAATAAGCTTATATGACAAAATAAATTG
* * *
18893 TCATAACGATTTGAAATAGATAATTGTTCAAACAGTTATAACTATTGAATGTGTTCAAAAAAACA
1 TCATAAAGATTTGAAATAGATAATTGTTCAAACAGTAATAACTATTGAATGTGCTCAAAAAAACA
* * * * * * *
18958 TATTTATTTTTAAAATTTTTATTTATTAATTTTTGGAGTTTTAATAAATTTATATTATTTTATTC
66 AATTTATTTTTAAAATTTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTATTTTATTC
19023 GAAATAAGCTT
131 GAAATAAGCTT
19034 GCATGAACAT
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
158 4 0.03
159 97 0.80
160 20 0.17
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (159 bp):
TCATAAAGATTTGAAATAGATAATTGTTCAAACAGTAATAACTATTGAATGTGCTCAAAAAAACA
AATTTATTTTTAAAATTTTTACTTATTAATTTTAGAAATATTAATAAATTAATATTATTTTATTC
GAAATAAGCTTATATGACAAAATAAATTG
Found at i:19350 original size:181 final size:179
Alignment explanation
Indices: 18876--19350 Score: 448
Period size: 181 Copynumber: 2.6 Consensus size: 179
18866 AATAAGCTTA
* * * * * * * * **
18876 TATGACAAAATAAATTGTCATAACGATTTGAAATAGATAATTGTTCAAACAGTTATAACTA-TTG
1 TATGACAAAACAAATGGTCACAATGTTTTGAAATAGATAAATATTCAAATAGCCATAACTATTTG
*** * * * *
18940 AA-TGTGTTCAAAAAAACATATTTATTTTTAAAATTTTTATTTATTAATTTTTGGAGTTTTAATA
66 AACT-TGTTC-GGTAAACATATTTATTTTTTAAATCTTTACTTATTAATTTTTGGAGTATTAATA
* *
19004 AATTTATATTATTTTATTCGAAATAAGCTTGCATGAACATAACTAATTATTT
129 AATTTAGACTATTTTATTCGAAATAAGCTT-CATGAACATAACTAATTATTT
* * *
19056 TATGACAAAACAAATGGTCATAATGTTTTGAAATAGATAAATATTTAGATAGCCATAACTATTTG
1 TATGACAAAACAAATGGTCACAATGTTTTGAAATAGATAAATATTCAAATAGCCATAACTATTTG
* * *
19121 AACTTGTTCGGTAAACATATTCATTTTTTAATTCTCTTACTCATTAATTTTTGGTA-TATTAATA
66 AACTTGTTCGGTAAACATATTTATTTTTTAAATCT-TTACTTATTAATTTTTGG-AGTATTAATA
19185 AA-TTAGAGCTATTTTATTTC-AAATAAGCTT-ATGTTAAC-TGAAAC-AATTATTT
129 AATTTAGA-CTATTTTA-TTCGAAATAAGCTTCATG--AACAT--AACTAATTATTT
* * * * * **
19237 TATTACAAAATAGAA-GGTCACAAT-TATTTGAAATAGATAATTATTCAAATAGTCTTGGCTATT
1 TATGACAAAACA-AATGGTCACAATGT-TTTGAAATAGATAAATATTCAAATAGCCATAACTATT
* *
19300 TGAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTCGCTTATTAATT
64 TGAACTTGTTCGGTAAACATATTTATTTTTTAAATCTTT-ACTTATTAATT
19351 GTCAAAATAT
Statistics
Matches: 244, Mismatches: 38, Indels: 25
0.79 0.12 0.08
Matches are distributed among these distances:
179 3 0.01
180 77 0.32
181 154 0.63
182 10 0.04
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (179 bp):
TATGACAAAACAAATGGTCACAATGTTTTGAAATAGATAAATATTCAAATAGCCATAACTATTTG
AACTTGTTCGGTAAACATATTTATTTTTTAAATCTTTACTTATTAATTTTTGGAGTATTAATAAA
TTTAGACTATTTTATTCGAAATAAGCTTCATGAACATAACTAATTATTT
Found at i:19411 original size:181 final size:181
Alignment explanation
Indices: 18998--19412 Score: 446
Period size: 181 Copynumber: 2.3 Consensus size: 181
18988 TTTTGGAGTT
* * *
18998 TTAATAAATTTATATTATTTT-ATTCGAAATAAGCTTGCATGAACA-TAACTAATTATTTTATGA
1 TTAATAAATTAATATTATTTTAATTCG-AATAAGCTTGTATGAACAGAAAC-AATTATTTTATGA
* * *
19061 CAAAACAAATGGTCATAATGTTTTGAAATAGATAAATATTTAGATAGCCATAACTATTTGAACTT
64 CAAAACAAATGGTCACAATGTTTTGAAATAGATAAATATTCAAATAGCCATAACTATTTGAACTT
* * ****
19126 GTTCGGTAAACATATTCATTTTTTAATTCTCTTACTCATTAATTTTTGGTATA
129 GTTCGGTAAACATATTCATTTTTTAAATCTCTTACTCATTAATTGTCAAAATA
** * * * * * * *
19179 TTAATAAATTAGA-GCTATTTTATTTCAAATAAGCTTATGTTAACTGAAACAATTATTTTATTAC
1 TTAATAAATTA-ATATTATTTTAATTCGAATAAGCTTGTATGAACAGAAACAATTATTTTATGAC
* * * * **
19243 AAAATAGAA-GGTCACAAT-TATTTGAAATAGATAATTATTCAAATAGTCTTGGCTATTTGAACT
65 AAAACA-AATGGTCACAATGT-TTTGAAATAGATAAATATTCAAATAGCCATAACTATTTGAACT
* * * *
19306 TGTTTGGTAAACATATTTATTTTTTAAATCT-TTCGCTTATTAATTGTCAAAATA
128 TGTTCGGTAAACATATTCATTTTTTAAATCTCTT-ACTCATTAATTGTCAAAATA
*
19360 TTAATAAATTAATATTATTTTAATCCGAATAAGCTTGTATGAACAGAAACAAT
1 TTAATAAATTAATATTATTTTAATTCGAATAAGCTTGTATGAACAGAAACAAT
19413 CATAACAATT
Statistics
Matches: 187, Mismatches: 40, Indels: 14
0.78 0.17 0.06
Matches are distributed among these distances:
180 4 0.02
181 174 0.93
182 9 0.05
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (181 bp):
TTAATAAATTAATATTATTTTAATTCGAATAAGCTTGTATGAACAGAAACAATTATTTTATGACA
AAACAAATGGTCACAATGTTTTGAAATAGATAAATATTCAAATAGCCATAACTATTTGAACTTGT
TCGGTAAACATATTCATTTTTTAAATCTCTTACTCATTAATTGTCAAAATA
Found at i:19758 original size:181 final size:179
Alignment explanation
Indices: 19439--20079 Score: 648
Period size: 181 Copynumber: 3.5 Consensus size: 179
19429 ACAAAACTAT
* * * *
19439 TTCAAATCATTATGACTATTTGAATAATTATCTATTTCAAATTATTATTACCTTTTGTTTTGTCA
1 TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTATTATGACCTTTTGTTTTGTCA
* * * * * *
19504 TAAAACAAATGTTTTTGTTCATATAAGTTTGTTTGGAATAAAATAATATTAATTTATTAATATTT
66 TAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAAT-AAATAAT-TTAATTTATTAATATTT
* * *
19569 CAAAAATTAATACA-TAAGAGATTTTAAAAATAAATATGTTTGCCAT-ACCAA
129 CAAAAATTAATA-AGTAAGAGATTTTAAAAATGAATCTGTTTGAC-TGACCAA
* * * * * * * *
19620 TTCAATTAGTTATAACTATTTGACCAAATATTTATTTCAAATTGTTATGACCATTTGTTTTATCA
1 TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTATTATGACCTTTTGTTTTGTCA
* * * * *
19685 TAAAACAATTGTTTCTGTTCATATAATCTTATTGGGAAGAAAGCAATGTTAATTTATTAATATTT
66 TAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAATAAA-TAAT-TTAATTTATTAATATTT
** * * *
19750 TGAAAATTAATAAGTAATG-GA-TTTAGAAAATGTATCT-TTTGGCTTGACCAG
129 CAAAAATTAATAAGTAA-GAGATTTTA-AAAATGAATCTGTTTGAC-TGACCAA
* * * * * * *
19801 TGCAAACAATTATGACTATTTGAATAATTATCTACTTCAAATCATTATGACCTTTTGTTTTCTCA
1 TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTATTATGACCTTTTGTTTTGTCA
* * *
19866 CAAAACAATTGTTTTTGTTCATACAAGCTTATTCAGAATAACATAATTCTAATTTATTAATATTT
66 TAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAATAA-ATAATT-TAATTTATTAATATTT
* * *
19931 CAAAAATTAATAAGTGAGAGATTTAAAAAATGAATCTGTTT-ACTGAACAA
129 CAAAAATTAATAAGTAAGAGATTTTAAAAATGAATCTGTTTGACTGACCAA
* ** * * *
19981 GTTCAAATAATTATAACTATTTGAACAATTATCTAGTTCAAATTGCTATAACTTTTTGTATTGTC
1 -TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTATTATGACCTTTTGTTTTGTC
* *
20046 ATAAAATAATT-TTTGCTATTCATACAAGCTTATT
65 ATAAAACAATTGTTT-CTGTTCATACAAGCTTATT
20080 TCAAATTTGT
Statistics
Matches: 373, Mismatches: 75, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
180 24 0.06
181 341 0.91
182 8 0.02
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.42
Consensus pattern (179 bp):
TTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATTATTATGACCTTTTGTTTTGTCA
TAAAACAATTGTTTCTGTTCATACAAGCTTATTCGGAATAAATAATTTAATTTATTAATATTTCA
AAAATTAATAAGTAAGAGATTTTAAAAATGAATCTGTTTGACTGACCAA
Found at i:20761 original size:18 final size:18
Alignment explanation
Indices: 20709--20761 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
20699 GAGTGAGTTC
20709 AAATAATTATGACTA-TTT
1 AAATAATTATGA-TATTTT
*
20727 AAATAATTAT-TTATTTT
1 AAATAATTATGATATTTT
*
20744 AAATCATTATGATATTTT
1 AAATAATTATGATATTTT
20762 GTTTTGTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 2 0.07
17 12 0.40
18 16 0.53
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (18 bp):
AAATAATTATGATATTTT
Found at i:21161 original size:68 final size:69
Alignment explanation
Indices: 21087--21218 Score: 162
Period size: 68 Copynumber: 1.9 Consensus size: 69
21077 ACTATTATAA
* * *
21087 TAATTATC-TATTTCAAATCATTCTGATATTTTG-TTTAGTCATAAAATAATTG-TTCAATTCAT
1 TAATTATCAT-TTTAAAATCATTATGACATTTTGTTTTA-TCATAAAATAATTGTTTCAATTCAT
21149 ACATGC
64 ACATGC
** * *
21155 TAATTATCATTTTAAAATTGTTATGACCTTTTGTTTTATCATAAAATAATTGTTTCATTTCATA
1 TAATTATCATTTTAAAATCATTATGACATTTTGTTTTATCATAAAATAATTGTTTCAATTCATA
21219 AAAGCTTAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
68 39 0.72
69 15 0.28
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.48
Consensus pattern (69 bp):
TAATTATCATTTTAAAATCATTATGACATTTTGTTTTATCATAAAATAATTGTTTCAATTCATAC
ATGC
Found at i:21635 original size:14 final size:16
Alignment explanation
Indices: 21618--21649 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
21608 TTTATAGTAT
21618 TATAATTA-TA-AATA
1 TATAATTACTATAATA
21632 TATAATTACTATAATA
1 TATAATTACTATAATA
21648 TA
1 TA
21650 ATTTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
TATAATTACTATAATA
Found at i:21886 original size:31 final size:31
Alignment explanation
Indices: 21850--21911 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
21840 ATAATTAAAA
*
21850 TTATTACTATTAGTT-ATATT-TTGACTATTAT
1 TTATTACTA-TAATTAATATTATT-ACTATTAT
*
21881 TTATTATTATAATTAATATTATTACTATTAT
1 TTATTACTATAATTAATATTATTACTATTAT
21912 AATATAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 4 0.15
31 21 0.78
32 2 0.07
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (31 bp):
TTATTACTATAATTAATATTATTACTATTAT
Found at i:22090 original size:40 final size:39
Alignment explanation
Indices: 22004--22131 Score: 93
Period size: 39 Copynumber: 3.2 Consensus size: 39
21994 ATAAAGTAGT
*
22004 TAATTAT-TAAATAAATAATTTAATATTTATTATAAAAA
1 TAATTATATAAATAAATAATTTAATATTTATAATAAAAA
* * *
22042 TAAATATATAACTAAATAGA-TTAATTATTT-TAATAAATTA
1 TAATTATATAAATAAATA-ATTTAA-TATTTATAATAAA-AA
* * * *
22082 TAATTATAT-ATTATAATTATTTAATATGATTTATATTATAAA
1 TAATTATATAAATA-AATAATTT-A-AT-ATTTATAATAAAAA
22124 TAATTATA
1 TAATTATA
22132 ACTATTTAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
38 6 0.09
39 23 0.33
40 20 0.29
41 2 0.03
42 14 0.20
43 5 0.07
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.47
Consensus pattern (39 bp):
TAATTATATAAATAAATAATTTAATATTTATAATAAAAA
Found at i:22094 original size:13 final size:13
Alignment explanation
Indices: 22078--22122 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
22068 ATTTTAATAA
22078 ATTATAATTATAT
1 ATTATAATTATAT
*
22091 ATTATAATTATTT
1 ATTATAATTATAT
* *
22104 AATATGATT-TAT
1 ATTATAATTATAT
22116 ATTATAA
1 ATTATAA
22123 ATAATTATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 7 0.27
13 19 0.73
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (13 bp):
ATTATAATTATAT
Found at i:22246 original size:15 final size:16
Alignment explanation
Indices: 22218--22247 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22208 AATTTAATTA
22218 ATTAATATATATAATG
1 ATTAATATATATAATG
22234 ATTAATA-ATATAAT
1 ATTAATATATATAAT
22248 TTCATATTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTAATATATATAATG
Found at i:23164 original size:9 final size:9
Alignment explanation
Indices: 23150--23174 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23140 AATATTATTA
23150 TTTAAATAT
1 TTTAAATAT
23159 TTTAAATAT
1 TTTAAATAT
23168 TTTAAAT
1 TTTAAAT
23175 CAATAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTAAATAT
Found at i:23474 original size:6 final size:6
Alignment explanation
Indices: 23463--23501 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
23453 AATAAAAAGC
* *
23463 TTAATA TTAATA TCAATA TTAA-A TTAGTA TTAATA TTAA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAA
23502 ACAATATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (6 bp):
TTAATA
Found at i:23497 original size:17 final size:17
Alignment explanation
Indices: 23463--23502 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
23453 AATAAAAAGC
23463 TTAATATTAATATCAATA
1 TTAA-ATTAATATCAATA
* *
23481 TTAAATTAGTATTAATA
1 TTAAATTAATATCAATA
23498 TTAAA
1 TTAAA
23503 CAATATTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAATTAATATCAATA
Found at i:24151 original size:24 final size:23
Alignment explanation
Indices: 24120--24191 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
24110 TTGTTATTAA
24120 AAAT-TATAATAAGTAATTAGTAT
1 AAATATATAATAAGTAATTA-TAT
24143 AAATATATAATAAG-AATT-TA-
1 AAATATATAATAAGTAATTATAT
*
24163 AATTA-ATAATAAGTAATTAATAT
1 AAATATATAATAAGTAATT-ATAT
24186 AAATAT
1 AAATAT
24192 TATTTTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
19 8 0.20
20 8 0.20
21 2 0.05
22 2 0.05
23 12 0.29
24 9 0.22
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (23 bp):
AAATATATAATAAGTAATTATAT
Found at i:24690 original size:18 final size:18
Alignment explanation
Indices: 24640--24701 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
24630 AATGATTTAA
24640 TAATT-TAGTAATTATAT
1 TAATTATAGTAATTATAT
* *
24657 T-A-TAT--TATTTAAAT
1 TAATTATAGTAATTATAT
24671 TAATTATAGTAATTATAT
1 TAATTATAGTAATTATAT
*
24689 TAAATATAGTAAT
1 TAATTATAGTAAT
24702 AAATTATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
14 8 0.23
15 2 0.06
16 5 0.14
17 1 0.03
18 19 0.54
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (18 bp):
TAATTATAGTAATTATAT
Found at i:24741 original size:21 final size:21
Alignment explanation
Indices: 24703--24742 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24693 TATAGTAATA
*
24703 AATTATTAAATAATTTATTGG
1 AATTATTAAATAACTTATTGG
24724 AATTATT-AATATACTTATT
1 AATTATTAAATA-ACTTATT
24743 TATTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
AATTATTAAATAACTTATTGG
Found at i:24884 original size:32 final size:32
Alignment explanation
Indices: 24824--24885 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
24814 TATAACTAGT
*
24824 ATAATATAATATTACAATTATATGATATTTGA
1 ATAATATAATATTACAATTATATAATATTTGA
24856 ATAATATAA-ATTATACAATTA-ATAATATTT
1 ATAATATAATA-T-TACAATTATATAATATTT
24886 TTTATAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 1 0.04
32 18 0.67
33 8 0.30
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (32 bp):
ATAATATAATATTACAATTATATAATATTTGA
Found at i:25131 original size:16 final size:15
Alignment explanation
Indices: 25110--25144 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
25100 GTTTATACAT
25110 GTTATAATTATAATAA
1 GTTATAATTATAAT-A
*
25126 GTTATAATTTTAATA
1 GTTATAATTATAATA
25141 GTTA
1 GTTA
25145 ATTTAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (15 bp):
GTTATAATTATAATA
Found at i:25255 original size:25 final size:23
Alignment explanation
Indices: 25227--25291 Score: 58
Period size: 27 Copynumber: 2.5 Consensus size: 23
25217 TTAAATATAT
25227 TTATATTATTAAACTAATAATTAAG
1 TTATATTATTAAA-T-ATAATTAAG
25252 TTATAAGTTTATTATAATATAATTAAG
1 TTAT-A--TTATTA-AATATAATTAAG
*
25279 TTACTATAATTAA
1 TTA-TATTATTAA
25292 TAACTACAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
24 1 0.03
25 9 0.26
26 1 0.03
27 13 0.38
28 8 0.24
29 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (23 bp):
TTATATTATTAAATATAATTAAG
Found at i:25433 original size:16 final size:15
Alignment explanation
Indices: 25400--25437 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
25390 TAATTAATTA
25400 TAATAATTATTATTT
1 TAATAATTATTATTT
25415 TAATACATTATT-TTAT
1 TAATA-ATTATTATT-T
25431 TAATAAT
1 TAATAAT
25438 AACAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TAATAATTATTATTT
Found at i:26182 original size:24 final size:21
Alignment explanation
Indices: 26127--26195 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
26117 ACTAAATAAC
*
26127 TATT-AATATTATTAATAAAT
1 TATTCAATATAATTAATAAAT
26147 TATTC-ATGATAATTAATATTAAT
1 TATTCAAT-ATAATTAATA--AAT
26170 TATATCAATATAAGTT-ATAAAT
1 TAT-TCAATATAA-TTAATAAAT
26192 TATT
1 TATT
26196 GCTATTAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
20 6 0.15
21 10 0.24
22 6 0.15
23 6 0.15
24 9 0.22
25 4 0.10
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (21 bp):
TATTCAATATAATTAATAAAT
Found at i:26470 original size:25 final size:22
Alignment explanation
Indices: 26439--26490 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 22
26429 TTAAACTAAA
26439 AATAATTAATATTAATAACTTTATT
1 AATAATTAATATT-ATAA--TTATT
**
26464 AATAATTTCTATTATAATTATT
1 AATAATTAATATTATAATTATT
26486 AATAA
1 AATAA
26491 AGTTTATCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.40
24 4 0.16
25 11 0.44
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAATTAATATTATAATTATT
Found at i:26555 original size:22 final size:23
Alignment explanation
Indices: 26507--26565 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 23
26497 TCCAAAATAA
*
26507 AATAACTATTTATTATAATATTAT
1 AATAA-TATTTATTATAATAGTAT
26531 AAT-ATATTTATTATAAT-GTACT
1 AATAATATTTATTATAATAGTA-T
26553 AATAAATATTTAT
1 AAT-AATATTTAT
26566 ACTTATGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 2 0.06
22 17 0.55
23 1 0.03
24 11 0.35
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (23 bp):
AATAATATTTATTATAATAGTAT
Found at i:26917 original size:18 final size:20
Alignment explanation
Indices: 26871--26917 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
26861 TTATAAATAT
26871 TATTATAAATTTATATAGTA
1 TATTATAAATTTATATAGTA
*
26891 T-TTATAAATTTA-ATTGTA
1 TATTATAAATTTATATAGTA
26909 TATTA-AAAT
1 TATTATAAAT
26918 AGTAATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 10 0.40
19 14 0.56
20 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
TATTATAAATTTATATAGTA
Found at i:27406 original size:143 final size:143
Alignment explanation
Indices: 27221--27504 Score: 333
Period size: 143 Copynumber: 2.0 Consensus size: 143
27211 AATAGAACAA
* * * *
27221 ATTATTTGATGATAAAATAAAAAGTTATAACGATTCGAAATAGATAATT-TTGAAAATAGTCAAA
1 ATTATTTGATGACAAAACAAAAAGTAATAACGATTCGAAATAGATAATTGTT-AAAATAATCAAA
* * * *
27285 ACTATTTAAAATGGTT-TGATAACCA-AATTTACTTTTTAAATCTCTTA-TTGATTAATTTTTTA
65 ACTATTTAAAATGGTTCAG-TAAACAGAA-TTACTTTTTAAATCTCTTACTT-ATAAATTTTTAA
27347 AATATTAATAAATTAGT
127 AATATTAATAAATTAGT
* * * * * *
27364 ATTATTTTATGACAAAACAAAAAGTAATAATGATTTGAAATAGATAATTGTTTAAATAATTATAA
1 ATTATTTGATGACAAAACAAAAAGTAATAACGATTCGAAATAGATAATTGTTAAAATAATCAAAA
* * * * *
27429 TTATTTGAACTGGTTCAGTAAATAGAATTATTTTTTAAATCTCTTACTTATAAATTTTTAAAATA
66 CTATTTAAAATGGTTCAGTAAACAGAATTACTTTTTAAATCTCTTACTTATAAATTTTTAAAATA
27494 TTAATAAATTA
131 TTAATAAATTA
27505 CTTTCATTCT
Statistics
Matches: 118, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
143 111 0.94
144 7 0.06
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (143 bp):
ATTATTTGATGACAAAACAAAAAGTAATAACGATTCGAAATAGATAATTGTTAAAATAATCAAAA
CTATTTAAAATGGTTCAGTAAACAGAATTACTTTTTAAATCTCTTACTTATAAATTTTTAAAATA
TTAATAAATTAGT
Found at i:27693 original size:324 final size:323
Alignment explanation
Indices: 27045--27697 Score: 699
Period size: 323 Copynumber: 2.0 Consensus size: 323
27035 AAAACAATTG
* * * ** *
27045 TTTTACGACAAAAGAAAAAGTCATAACGATTTGAAATAGATAATCATTTCTATAGTCTTAACTAT
1 TTTTATGACAAAACAAAAAGTAATAACGATTTGAAATAGATAATCATTTAAATAATCTTAACTAT
* * * * ** * * *
27110 TTCAACTGGTTCGATAATTAGATTTATTTTTTAATTTTCTTGGTTATTAAGTTTTAGAATATTAT
66 TTCAACTGGTTCGATAAATAGAATTATTTTTTAAATCTCTTACTTATAAAGTTTTAAAATATTAA
* * *
27175 TAAATTAGTTTTATTTTATTCCGAAAAAATAGTATAAATAGAACAAATTATTTGATGATAAAATA
131 TAAATTACTTTCATTCTATTCCGAAAAAATAGTATAAATAGAACAAATTATTTGATGATAAAATA
* * * * *
27240 AAAAGTTATAACGATTCGAAATAGATAATTTTGAAAATAGTCAAAACTATTTAAAATGGTTTGAT
196 AAAAGTTATAACAATTCGAAATAAATAATTTTGAAAATAGACAAAACTATTTAAAAGGGTTTGAC
27305 AACCAAATTTACTTTTTAAATCTCTTATTGATTAATTTTTTAAATATTAATAAATTAGTATTA
261 AACCAAATTTACTTTTTAAATCTCTTATTGATTAATTTTTTAAATATTAATAAATTAGTATTA
* ** *
27368 TTTTATGACAAAACAAAAAGTAATAATGATTTGAAATAGATAATTGTTTAAATAAT-TATAATTA
1 TTTTATGACAAAACAAAAAGTAATAACGATTTGAAATAGATAATCATTTAAATAATCT-TAACTA
* *
27432 TTTGAACTGGTTC-AGTAAATAGAATTATTTTTTAAATCTCTTACTTATAAATTTTTAAAATATT
65 TTTCAACTGGTTCGA-TAAATAGAATTATTTTTTAAATCTCTTACTTATAAAGTTTTAAAATATT
* * ** * ** *
27496 AATAAATTACTTTCATTCTATTTCGAATTAGCTTGTATGAGCT-GAA-ATAATTATTTTATGATA
129 AATAAATTACTTTCATTCTATTCCGAA-AAAATAGTAT-AAATAGAACA-AATTATTTGATGATA
* * * * * ** * *
27559 AAATAAAAGGTTATAACAATTTGAAATAAATACTTGTT-CATATAGACTTAACTGTTTGAAAGGG
191 AAATAAAAAGTTATAACAATTCGAAATAAATAATT-TTGAAAATAGACAAAACTATTTAAAAGGG
* ** * * **
27623 TTTGACAAGCGGATTTATTTTTTAAATCTCTTAGTT-ATTCA-TTTTTAGAATATTGCTAAATTA
255 TTTGACAACCAAATTTACTTTTTAAATCTCTTA-TTGATTAATTTTTTA-AATATTAATAAATTA
*
27686 TTATTA
318 GTATTA
27692 TTTTAT
1 TTTTAT
27698 TTCGAATAAG
Statistics
Matches: 268, Mismatches: 54, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
322 2 0.01
323 133 0.50
324 127 0.47
325 6 0.02
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (323 bp):
TTTTATGACAAAACAAAAAGTAATAACGATTTGAAATAGATAATCATTTAAATAATCTTAACTAT
TTCAACTGGTTCGATAAATAGAATTATTTTTTAAATCTCTTACTTATAAAGTTTTAAAATATTAA
TAAATTACTTTCATTCTATTCCGAAAAAATAGTATAAATAGAACAAATTATTTGATGATAAAATA
AAAAGTTATAACAATTCGAAATAAATAATTTTGAAAATAGACAAAACTATTTAAAAGGGTTTGAC
AACCAAATTTACTTTTTAAATCTCTTATTGATTAATTTTTTAAATATTAATAAATTAGTATTA
Found at i:27822 original size:181 final size:181
Alignment explanation
Indices: 27368--29033 Score: 1139
Period size: 181 Copynumber: 9.3 Consensus size: 181
27358 ATTAGTATTA
* * * ** * * *
27368 TTTTATGACAAAACAAAAAGTAATAATGATTTGAAATAGATAATTGTTTAAATAATTATAATTAT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAATTAT
* * * * * *
27433 TTGAACTGGTTCAGTAAATAGAATTATTTTTTAAATCTCTTACTTATAAATTTTTAAAATATTAA
66 TTGAACTGGTTCGGTAAACAGATTTATTTTTTAAATCTCTTAGTTATTAATTTTTAGAATATTAA
* * * * * * *
27498 TAAATTACT-TTCATTCTATTTCGAATTAGCTTGTATG-AGCTGAAATAATTA
131 TAAATTAGTATT-ATTTTATTTCAAATAAGCTTGTATGAAG-AGAAACAATTG
* * * * * * * *
27549 TTTTATGATAAAATAAAAGGTTATAACAATTTGAAATAAATACTTGTTCATATAGACTTAACTGT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAATTAT
** * ** * * * **
27614 TTGAAAGGGTTTGACAAGCGGATTTATTTTTTAAATCTCTTAGTTATTCATTTTTAGAATATTGC
66 TTGAACTGGTTCGGTAAACAGATTTATTTTTTAAATCTCTTAGTTATTAATTTTTAGAATATTAA
* *
27679 TAAATTATTATTATTTTATTTCGAATAAGCTTGTATGAAGAGAAACAATTG
131 TAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAAGAGAAACAATTG
* * * * * *
27730 TTTTATGATAGAACAAAAGGTTGTAACAATTTGAAATAAAAAATTATTCAAATAGTCATAACTAT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAATTAT
* * ** * * *
27795 TTAAACTAGTTCAATAAACTA-ATTTATTTTTTAAATGTC----TTATTAATTCTTAAAATATTA
66 TTGAACTGGTTCGGTAAAC-AGATTTATTTTTTAAATCTCTTAGTTATTAATTTTTAGAATATTA
* * ** *
27855 CTAAATTAGTA-TATTTTATCTCAAATAAGCTTGTATGTTGAAAAACAATTG
130 ATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAAGAGAAACAATTG
* * * * * *
27906 TTTTATGACAAAAGAAAAGGTAATAACAATTTGAAATAGATAGTTGTTTAAAT-GGCTATAATTA
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGATAATTGTTCAAATAGTC-ATAATTA
* * * * *
27970 TTTGAACTGATTGGGTAAACTGATTTATTCTTTTAAAT-TAGTTACTTATTAATTTTT-GAAATA
65 TTTGAACTGGTTCGGTAAACAGATTTATT-TTTTAAATCT-CTTAGTTATTAATTTTTAG-AATA
* * *** * * *
28033 TTACTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGAACTA-AAACAATTG
127 TTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAA-GAGAAACAATTG
* * * ** * * *
28088 TTTTATGACAAAACAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAATAGCCATAATTAT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAATTAT
** * * * * * *
28153 TCAAACTTGTTTGGTAAACAGATTTGTTTTTATAAATCTCAT-GATTATTAATTTTTTGAATGTT
66 TTGAACTGGTTCGGTAAACAGATTTATTTTT-TAAATCTCTTAG-TTATTAATTTTTAGAATATT
* * ** * *
28217 AATAAATTAGTATTATTTTCTTCCAAATAAGCTTGTATGAACTGAAGCAATTA
129 AATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAAGAGAAACAATTG
** * * * * ** * * * *
28270 TTACATGACT-CAAGAAAAGGTCAGAATGATTTGAAATTGATAATTATTCTAATAGTCTTAATTA
1 TTTTATGA-TAAAACAAAAGGTTATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAATTA
* * * *
28334 TTTGAATTGGTTCGGTAAACACATTTATTTTTTGAATCTC----TTATTAA-TTTTGGAATATTA
65 TTTGAACTGGTTCGGTAAACAGATTTATTTTTTAAATCTCTTAGTTATTAATTTTTAGAATATTA
* * * ** * *
28394 TTAAATTAGTAATATTTT-TATCTAAATAAGCTTGTATGATCAGAAATAATTA
130 ATAAATTAGTATTATTTTATTTC-AAATAAGCTTGTATGAAGAGAAACAATTG
* * * * * * *
28446 TTTTATGAGAAAAC-AAAGATCA-AGACAATTT-AAGATTGATATTTATTCAAATAGCCATAATT
1 TTTTATGATAAAACAAAAGGTTATA-ACAATTTGAA-ATAGATAATTGTTCAAATAGTCATAATT
** * * * ** * *
28508 ATTTGAACTAATTTGGAAAACA-ATTTTAGTTTTTAAAAATCTT-GCTTATTAATTTTCAAAATA
64 ATTTGAACTGGTTCGGTAAACAGA-TTTATTTTTTAAATCTCTTAG-TTATTAATTTTTAGAATA
* * * * * * * **
28571 TTAATAAAGTAGTATTATTTCATTTTAGATAAGTTTTTATAAATTGAAACAATTG
127 TTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAAGAGAAACAATTG
* * * * * *
28626 TTTTATGACAAAACAAAAGGTCATAATGACTTT-AAATAGATAATTGTTTAAATAATCA-AATCT
1 TTTTATGATAAAACAAAAGGTTATAA-CAATTTGAAATAGATAATTGTTCAAATAGTCATAAT-T
* * ** * * * * *
28689 ATTTTAATTTATTCGATAAGCAGATTTATTTTTTAAATCTCAT-GCTTATTAATTTTTTGAATGT
64 ATTTGAACTGGTTCGGTAAACAGATTTATTTTTTAAATCTCTTAG-TTATTAATTTTTAGAATAT
* ** *
28753 TAATAAATTAGTATTAATTTA-TTCTAAATAAGCTTGTATGAATTGAAATAATTG
128 TAATAAATTAGTATTATTTTATTTC-AAATAAGCTTGTATGAAGAGAAACAATTG
* * * ** * * ** **
28807 TTTTGTAACT-AAACAAAAGGTTAAAATGATTTGAAATAGATAATT-ATCTTAATAGTTTTAACA
1 TTTTATGA-TAAAACAAAAGGTTATAACAATTTGAAATAGATAATTGTTC-AAATAGTCATAATT
* * * * * *
28870 ATTTGAACTGGTTTGGCAAACACATTTATTTTTTAAATCTCTTACTTACTAATTTTTGGAATATT
64 ATTTGAACTGGTTCGGTAAACAGATTTATTTTTTAAATCTCTTAGTTATTAATTTTTAGAATATT
* * * * *
28935 ATTAAATTAGTATTATTTTAATAT-GAATAAGCTTATATGAAAAGAAACAATTG
129 AATAAATTAGTATTATTTT-ATTTCAAATAAGCTTGTATGAAGAGAAACAATTG
* * * * * *
28988 TTTTATGACAAAA-TAAAGATCATAACAATTTGATATAAATAATTGT
1 TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGATAATTGT
29034 GAACTGTTTC
Statistics
Matches: 1148, Mismatches: 290, Indels: 94
0.75 0.19 0.06
Matches are distributed among these distances:
174 4 0.00
175 70 0.06
176 166 0.14
177 42 0.04
179 7 0.01
180 89 0.08
181 512 0.45
182 252 0.22
183 6 0.01
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (181 bp):
TTTTATGATAAAACAAAAGGTTATAACAATTTGAAATAGATAATTGTTCAAATAGTCATAATTAT
TTGAACTGGTTCGGTAAACAGATTTATTTTTTAAATCTCTTAGTTATTAATTTTTAGAATATTAA
TAAATTAGTATTATTTTATTTCAAATAAGCTTGTATGAAGAGAAACAATTG
Found at i:28876 original size:537 final size:536
Alignment explanation
Indices: 27629--29020 Score: 1548
Period size: 540 Copynumber: 2.6 Consensus size: 536
27619 AGGGTTTGAC
* * * * * ** *
27629 AAGCGGATTTATTTTTTAAATCTCTTAGTTATTCATTTTTAGAATATTGCTAAATTATTATTATT
1 AAGCAGATTTATTTTTTAAATCTCAT-GTTATTAATTTTTTGAATGTTAATAAATTAGTATTATT
* ** ** *
27694 TTATT-TCGAATAAGCTTGTATGAAGAGAAACAATTGTTTTATGA-TAGAACAAAAGGTTGTAAC
65 TTATTCT-AAATAAGCTTGTATGAACTGAAACAATTGTTTTATGACTA-AACAAAAGGTTAAAAT
* * * * * * * **
27757 AATTTGAAATAAAAAATTATTCAAATAGTCATAACTATTTAAACTAGTTCAATAAACTA-ATTTA
128 GATTTGAAATAGATAATTATTCTAATAGTCTTAACTATTTGAACTGGTTCGGTAAAC-ACATTTA
* ** *
27821 TTTTTTAAATGTCTTATTAATTCTTAAAATATTACTAAATTAGT-ATA-TTTTATCTCAAATAAG
192 TTTTTTAAATCTCTTATTAATT-TTGGAATATTATTAAATTAGTAATATTTTTATCT-AAATAAG
* * *
27884 CTTGTATGTTGAA-AAACAATTGTTTTATGACAAAAGAAAAGGTAATAACAATTTGAAATAGATA
255 CTTGTATGAT-AAGAAACAATTGTTTTATGACAAAA-AAAAGATCA-AACAATTTGAAATAGATA
* * * * * * * * * *
27948 GTTGTTTAAATGGCTATAATTATTTGAACTGATTGGGTAAACTGATTTATTCTTTTAAATTAGTT
317 GTTATTCAAATAGCCATAATTATTTGAACTAATTGGGAAAACTAATTTATTCTTTAAAAATACTT
** * * * *
28013 ACTTATTAATTTTTGAAATATTACTAAAGTAGTATTATTTTATTTTGGATAAACTTTTATGAACT
382 ACTTATTAATTTTCAAAATATTAATAAAGTAGTATTATTTCATTTTAGATAAACTTTTATAAACT
* * * *
28078 AAAACAATTGTTTTATGACAAAACAAATGGTCATAATTATTTTAAATAAATAATTGTTCAAATAG
447 AAAACAATTGTTTTATGACAAAACAAAAGGTCATAATGACTTTAAATAAATAATTGTTCAAATAA
* * *
28143 CCATAATTATTCAAACTTGTTTGGT
512 CCATAATTATTCAAACTTATTCGAT
* *
28168 AAACAGATTTGTTTTTATAAATCTCATGATTATTAATTTTTTGAATGTTAATAAATTAGTATTAT
1 AAGCAGATTTATTTTT-TAAATCTCATG-TTATTAATTTTTTGAATGTTAATAAATTAGTATTAT
* * * * ** * * * *
28233 TTTCTTCCAAATAAGCTTGTATGAACTGAAGCAATTATTACATGACTCAAGAAAAGGTCAGAATG
64 TTTATTCTAAATAAGCTTGTATGAACTGAAACAATTGTTTTATGACTAAACAAAAGGTTAAAATG
* * *
28298 ATTTGAAATTGATAATTATTCTAATAGTCTTAATTATTTGAATTGGTTCGGTAAACACATTTATT
129 ATTTGAAATAGATAATTATTCTAATAGTCTTAACTATTTGAACTGGTTCGGTAAACACATTTATT
*
28363 TTTTGAATCTCTTATTAATTTTGGAATATTATTAAATTAGTAATATTTTTATCTAAATAAGCTTG
194 TTTTAAATCTCTTATTAATTTTGGAATATTATTAAATTAGTAATATTTTTATCTAAATAAGCTTG
* * * * * * *
28428 TATGATCAGAAATAATTATTTTATGAGAAAACAAAGATCAAGACAATTT-AAGATTGATATTTAT
259 TATGATAAGAAACAATTGTTTTATGACAAAAAAAAGATCAA-ACAATTTGAA-ATAGATAGTTAT
* *
28492 TCAAATAGCCATAATTATTTGAACTAATTTGGAAAAC-AATTTTAGTT-TTTAAAAAT-CTTGCT
322 TCAAATAGCCATAATTATTTGAACTAATTGGGAAAACTAA-TTTA-TTCTTTAAAAATACTTACT
** * *
28554 TATTAATTTTCAAAATATTAATAAAGTAGTATTATTTCATTTTAGATAAGTTTTTATAAATTGAA
385 TATTAATTTTCAAAATATTAATAAAGTAGTATTATTTCATTTTAGATAAACTTTTATAAACTAAA
* * *
28619 ACAATTGTTTTATGACAAAACAAAAGGTCATAATGACTTTAAATAGATAATTGTTTAAATAATCA
450 ACAATTGTTTTATGACAAAACAAAAGGTCATAATGACTTTAAATAAATAATTGTTCAAATAACCA
** *
28684 -AATCTATTTTAATTTATTCGAT
515 TAAT-TATTCAAACTTATTCGAT
*
28706 AAGCAGATTTATTTTTTAAATCTCATGCTTATTAATTTTTTGAATGTTAATAAATTAGTATTAAT
1 AAGCAGATTTATTTTTTAAATCTCATG-TTATTAATTTTTTGAATGTTAATAAATTAGTATTATT
* * * *
28771 TTATTCTAAATAAGCTTGTATGAATTGAAATAATTGTTTTGTAACTAAACAAAAGGTTAAAATGA
65 TTATTCTAAATAAGCTTGTATGAACTGAAACAATTGTTTTATGACTAAACAAAAGGTTAAAATGA
* * * *
28836 TTTGAAATAGATAATTA-TCTTAATAGTTTTAACAATTTGAACTGGTTTGGCAAACACATTTATT
130 TTTGAAATAGATAATTATTC-TAATAGTCTTAACTATTTGAACTGGTTCGGTAAACACATTTATT
* * * *
28900 TTTTAAATCTCTTACTTACTAATTTTTGGAATATTATTAAATTAGTATTATTTTAATATGAATAA
194 TTTTAAATCTCTTA--T--TAA-TTTTGGAATATTATTAAATTAGTAATATTTTTATCTAAATAA
* * *
28965 GCTTATATGAAAAGAAACAATTGTTTTATGACAAAATAAAGATCATAACAATTTGA
254 GCTTGTATGATAAGAAACAATTGTTTTATGACAAAAAAAAGATCA-AACAATTTGA
29021 TATAAATAAT
Statistics
Matches: 708, Mismatches: 124, Indels: 38
0.81 0.14 0.04
Matches are distributed among these distances:
536 2 0.00
537 168 0.24
538 147 0.21
539 99 0.14
540 195 0.28
541 12 0.02
542 83 0.12
543 2 0.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (536 bp):
AAGCAGATTTATTTTTTAAATCTCATGTTATTAATTTTTTGAATGTTAATAAATTAGTATTATTT
TATTCTAAATAAGCTTGTATGAACTGAAACAATTGTTTTATGACTAAACAAAAGGTTAAAATGAT
TTGAAATAGATAATTATTCTAATAGTCTTAACTATTTGAACTGGTTCGGTAAACACATTTATTTT
TTAAATCTCTTATTAATTTTGGAATATTATTAAATTAGTAATATTTTTATCTAAATAAGCTTGTA
TGATAAGAAACAATTGTTTTATGACAAAAAAAAGATCAAACAATTTGAAATAGATAGTTATTCAA
ATAGCCATAATTATTTGAACTAATTGGGAAAACTAATTTATTCTTTAAAAATACTTACTTATTAA
TTTTCAAAATATTAATAAAGTAGTATTATTTCATTTTAGATAAACTTTTATAAACTAAAACAATT
GTTTTATGACAAAACAAAAGGTCATAATGACTTTAAATAAATAATTGTTCAAATAACCATAATTA
TTCAAACTTATTCGAT
Found at i:29465 original size:181 final size:182
Alignment explanation
Indices: 29042--29539 Score: 512
Period size: 181 Copynumber: 2.8 Consensus size: 182
29032 GTGAACTGTT
* * * *
29042 TCAGTAAATAAATTTAGTTTTT-AAA-T-CT--CTTATTAATTTTCAAAATATTAATAAATCAGT
1 TCAGTAAACAAATTTATTTTTTAAAACTCCTAGCTTATTAATTTTTAAAATATTAATAAATTAGT
* ** ** * *
29102 ATTATTTGATTCTGAATAATTTTGCATGAACAGAAACAATTGTTTTATGACAAAA-AAAAGGTCA
66 ATTATTTTATTCCAAATAAACTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCA
* * * * ** * * * *
29166 TAACTTTTTTAAATAGATAATTGTTCAAATGGACATGACTATTTGGACTTAT
131 TAACTATTTGAAATAAAAAATTGTTCAAACAGACATAACGATTTGGAATTAC
* * * * * * * * *
29218 TCAGTAAATAGATTTATTTTTTAAAACTCCTAGC-TACTAACTTTCAAAGTTTTAATCAACTAGT
1 TCAGTAAACAAATTTATTTTTTAAAACTCCTAGCTTATTAATTTTTAAAATATTAATAAATTAGT
* * *
29282 ATTATTTTATTCCAAATAAACTTGTATGAACAAAAATAATTGTTTTAGGACAAAACAAAAGATCA
66 ATTATTTTATTCCAAATAAACTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCA
* *
29347 TAACTATTTGAAATAAAAAATTGTTCAAACAGTCATAAGGATTT-GAATTAGC
131 TAACTATTTGAAATAAAAAATTGTTCAAACAGACATAACGATTTGGAATTA-C
* ** *
29399 TCAGTAAACAAATTTA-TTTTTAAAATTTTTTA-CTTATTAATTTTTGAAATATTAATAAATTAG
1 TCAGTAAACAAATTTATTTTTTAAAA-CTCCTAGCTTATTAATTTTTAAAATATTAATAAATTAG
* ** * *
29462 TATTATTTTATTTCAAATATGCTTGTATGAACAAAAACAATTGGTTTATGACAAAACAAAGGGTC
65 TATTATTTTATTCCAAATAAACTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTC
29527 ATAACTATTTGAA
130 ATAACTATTTGAA
29540 CGTGTTTAGA
Statistics
Matches: 261, Mismatches: 52, Indels: 13
0.80 0.16 0.04
Matches are distributed among these distances:
176 20 0.08
177 3 0.01
178 1 0.00
179 2 0.01
180 84 0.32
181 151 0.58
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (182 bp):
TCAGTAAACAAATTTATTTTTTAAAACTCCTAGCTTATTAATTTTTAAAATATTAATAAATTAGT
ATTATTTTATTCCAAATAAACTTGTATGAACAAAAACAATTGTTTTATGACAAAACAAAAGGTCA
TAACTATTTGAAATAAAAAATTGTTCAAACAGACATAACGATTTGGAATTAC
Found at i:29674 original size:145 final size:146
Alignment explanation
Indices: 29404--29684 Score: 390
Period size: 145 Copynumber: 1.9 Consensus size: 146
29394 TTAGCTCAGT
*
29404 AAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATT
1 AAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTAATATT
* * * *
29469 TTATTTCAAATATGCTTGTATGAACAAAAACAATTGGTTTATGACAAAACAAAGGGTCATAACTA
66 TTATTTCAAATAAGCTTGTATGAACAAAAACAATTGGTTTAGGACAAAACAAAGGATCATAACAA
29534 TTTGAACGTGTTTAGA
131 TTTGAACGTGTTTAGA
* * *
29550 AAACATATTTATTTTTTAAA-TTTTTAGTTATTAATTTTTGAAATATTAATAAATTTA-TAATAT
1 AAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAA-TTAGTAATAT
* * * * *
29613 TTTA-TTCAGAATAAGCTTGTTTGAATAGAAACAATTGTTTTAGGACAAAACGAAA-TATCATAA
65 TTTATTTCA-AATAAGCTTGTATGAACAAAAACAATTGGTTTAGGACAAAAC-AAAGGATCATAA
29676 CAATTTGAA
128 CAATTTGAA
29685 ATAGATAATA
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
144 4 0.03
145 91 0.76
146 24 0.20
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (146 bp):
AAACAAATTTATTTTTAAAATTTTTTACTTATTAATTTTTGAAATATTAATAAATTAGTAATATT
TTATTTCAAATAAGCTTGTATGAACAAAAACAATTGGTTTAGGACAAAACAAAGGATCATAACAA
TTTGAACGTGTTTAGA
Found at i:29879 original size:137 final size:138
Alignment explanation
Indices: 29723--29980 Score: 373
Period size: 138 Copynumber: 1.9 Consensus size: 138
29713 ATTTAAATTT
* *
29723 GTTTGGTAAACAAATTTTTTTT-TAAATCTCCAACTTATTAATTTTTAG-AATATTAATT-AATT
1 GTTTGGTAAACAAATTTTTTTTAAAAATCTCCAACTTACTAATTTTT-GTAATATT-ATTAAATT
* *
29785 AGTATTATTTT-ATTTCGAATAAACTTGTATGAATAGAAAC-ATATGTTTTATGACAAAACCTAA
64 AGTATTATTTTAATAT-GAATAAACTTGTATGAAAAGAAACAAT-TGTTTTATGACAAAACCTAA
29848 CTATTTGAACTG
127 CTATTTGAACTG
* **
29860 GTTTGGTAAACACATTTTTTTTAAAAATCTCTTACTTACTAATTTTTGTAATATTATTAAATTAG
1 GTTTGGTAAACAAATTTTTTTTAAAAATCTCCAACTTACTAATTTTTGTAATATTATTAAATTAG
*
29925 TATTATTTTAATATGAATAAGCTTGTATGAAAAGAAACAATTGTTTTATGACAAAA
66 TATTATTTTAATATGAATAAACTTGTATGAAAAGAAACAATTGTTTTATGACAAAA
29981 TAAAAATCAT
Statistics
Matches: 108, Mismatches: 8, Indels: 9
0.86 0.06 0.07
Matches are distributed among these distances:
137 25 0.23
138 78 0.72
139 5 0.05
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.44
Consensus pattern (138 bp):
GTTTGGTAAACAAATTTTTTTTAAAAATCTCCAACTTACTAATTTTTGTAATATTATTAAATTAG
TATTATTTTAATATGAATAAACTTGTATGAAAAGAAACAATTGTTTTATGACAAAACCTAACTAT
TTGAACTG
Found at i:30463 original size:181 final size:180
Alignment explanation
Indices: 30118--30550 Score: 501
Period size: 181 Copynumber: 2.4 Consensus size: 180
30108 ACAATTTTAC
* * *
30118 ATGAACAGAAACAATTGTTTTATGACAAAATAAAAAAGGTCATAACAATTTAAAATAAATAATTG
1 ATGAACAGAAACAATTGTTTTATGAC-AAA-ACAAAAGGTCATAACTATTTGAAATAAATAATTG
** * *** * * *
30183 TTCAAATGGACATGACTATTTAAACTTGTTCGACGAACATATTTATTTTTTAAATCTCCTACCTG
64 TTCAAATCAACATGACGATTTAAACTAACTCGACAAACAGATTTATTTTTAAAATCTCCTACCT-
* ** *
30248 CTAATTTTTAGAGTATTAATCAATTAGTATTATTTTATTCCAAATAAACTTGT
128 CTAATTTTTAGAATATTAAGAAATTAGAATTATTTTATTCCAAATAAACTTGT
* * *
30301 ATGAACAGAAACAATTGTTTTAGGACAAAACAAAAGATCATAATTATTTGAAATAAATAATTGTT
1 ATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTT
* * **
30366 CAAA-CAATCATGACGATTTAAACTAACTCGATAAACAGATTTATTTTTAAAATTTTTTA-CTCA
66 CAAATCAA-CATGACGATTTAAACTAACTCGACAAACAGATTTATTTTTAAAATCTCCTACCTC-
* * * * *
30429 TTAATTTTTGGAATATTAAGAAATTAGAATTATTTTATTTCGAATACATTTGT
129 -TAATTTTTAGAATATTAAGAAATTAGAATTATTTTATTCCAAATAAACTTGT
* * * * *
30482 ATGAATAGAAACAATTGGTTTATGACAAAACAAAGGGTCATACCTATTTGAAATAGATAATTGTT
1 ATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTT
30547 CAAA
66 CAAA
30551 AAGTCATAAC
Statistics
Matches: 211, Mismatches: 36, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
179 1 0.00
180 3 0.01
181 179 0.85
182 3 0.01
183 25 0.12
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (180 bp):
ATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACTATTTGAAATAAATAATTGTT
CAAATCAACATGACGATTTAAACTAACTCGACAAACAGATTTATTTTTAAAATCTCCTACCTCTA
ATTTTTAGAATATTAAGAAATTAGAATTATTTTATTCCAAATAAACTTGT
Found at i:30868 original size:22 final size:21
Alignment explanation
Indices: 30837--30877 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
30827 GATTTTAATT
30837 ATTATATATTAATATTTATCA
1 ATTATATATTAATATTTATCA
*
30858 ATTATATTATTAATGTTTAT
1 ATTATA-TATTAATATTTAT
30878 AATATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTATATATTAATATTTATCA
Found at i:31030 original size:31 final size:31
Alignment explanation
Indices: 30989--31059 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
30979 TTTATTAATT
* *
30989 ATAATT-ATAATTAAATATTATAATATTATA
1 ATAATTAATAATTAAATATTAAAATATTAAA
* * * *
31019 TTAATTAATAATTTAGTTTTAAAATATTAAA
1 ATAATTAATAATTAAATATTAAAATATTAAA
31050 ATAATTAATA
1 ATAATTAATA
31060 TTTATTTGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (31 bp):
ATAATTAATAATTAAATATTAAAATATTAAA
Found at i:31788 original size:22 final size:20
Alignment explanation
Indices: 31763--31814 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 20
31753 TAGTAAAAAT
*
31763 TATTTTATAATCATATTATAAG
1 TATTTTAT-AT-AAATTATAAG
*
31785 TATTAGTTATATAAATTATAAT
1 TATT--TTATATAAATTATAAG
31807 TATTTTAT
1 TATTTTAT
31815 TAATTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 4 0.15
22 16 0.62
23 2 0.08
24 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (20 bp):
TATTTTATATAAATTATAAG
Found at i:31961 original size:13 final size:13
Alignment explanation
Indices: 31943--31984 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
31933 TTGATTGTAT
*
31943 TTATTAATTATAC
1 TTATTAATTATAA
31956 TTATTAATTATAA
1 TTATTAATTATAA
31969 TTA-TAATTATTAA
1 TTATTAATTA-TAA
31982 TTA
1 TTA
31985 AAAATTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATTAATTATAA
Found at i:31969 original size:6 final size:6
Alignment explanation
Indices: 31947--32029 Score: 50
Period size: 6 Copynumber: 13.7 Consensus size: 6
31937 TTGTATTTAT
* *
31947 TAATTA TACTTA TTAATTA TAATTA TAATTA TTAATTAA AAATT- T-ATTA
1 TAATTA TAATTA -TAATTA TAATTA TAATTA -TAATT-A TAATTA TAATTA
*
31996 GTTAA-TA TTAATTA -AATTA TAATCA -AATTA TAAT
1 --TAATTA -TAATTA TAATTA TAATTA TAATTA TAAT
32030 ACAAGTTAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
4 3 0.05
5 9 0.15
6 28 0.46
7 19 0.31
8 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (6 bp):
TAATTA
Found at i:31969 original size:19 final size:19
Alignment explanation
Indices: 31947--32029 Score: 70
Period size: 19 Copynumber: 4.5 Consensus size: 19
31937 TTGTATTTAT
*
31947 TAATTATACTTATTAATTA
1 TAATTATAATTATTAATTA
31966 TAATTATAATTATTAATTAA
1 TAATTATAATTATTAATT-A
*
31986 AAATT-T-ATTAGTTAA-TA
1 TAATTATAATTA-TTAATTA
*
32003 TTAATTA-AATTA-TAATCA
1 -TAATTATAATTATTAATTA
32021 -AATTATAAT
1 TAATTATAAT
32030 ACAAGTTAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
16 5 0.09
17 7 0.13
18 10 0.19
19 26 0.49
20 5 0.09
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (19 bp):
TAATTATAATTATTAATTA
Found at i:32887 original size:14 final size:14
Alignment explanation
Indices: 32836--32888 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
32826 ATTTAATTAC
*
32836 TTAATATTTATAAT
1 TTAATAATTATAAT
32850 TTAATAA-T-TAAT
1 TTAATAATTATAAT
*
32862 TT-ATACTATATAAT
1 TTAATAAT-TATAAT
32876 TTAATAATTATAA
1 TTAATAATTATAA
32889 ATGTATTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
11 3 0.09
12 6 0.19
13 2 0.06
14 17 0.53
15 4 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
TTAATAATTATAAT
Found at i:33139 original size:11 final size:10
Alignment explanation
Indices: 33118--33199 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 10
33108 TCTTATTTAC
33118 TATAA-TATA
1 TATAATTATA
33127 TATAATCTATA
1 TATAAT-TATA
33138 TATAATTATA
1 TATAATTATA
*
33148 TATTATT-TA
1 TATAATTATA
*
33157 TA-AATAAGTA
1 TATAATTA-TA
*
33167 -ATTATTATA
1 TATAATTATA
33176 T-TAATTA-A
1 TATAATTATA
33184 -ATAATTATA
1 TATAATTATA
33193 TTATAAT
1 -TATAAT
33200 ATTAATTATC
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
8 9 0.16
9 18 0.32
10 15 0.26
11 15 0.26
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (10 bp):
TATAATTATA
Found at i:33158 original size:17 final size:18
Alignment explanation
Indices: 33118--33208 Score: 73
Period size: 20 Copynumber: 4.9 Consensus size: 18
33108 TCTTATTTAC
*
33118 TATAATATATATAATCTATA
1 TATAAT-TATATAAT-TATT
33138 TATAATTATAT-ATTATT
1 TATAATTATATAATTATT
*
33155 TATAAATA-AGTAATTATT
1 TATAATTATA-TAATTATT
*
33173 ATATTAATTAAATAATTATAT
1 -TA-TAATTATATAATTAT-T
33194 TATAA-TAT-TAATTAT
1 TATAATTATATAATTAT
33209 CAATAATTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.02
17 18 0.30
18 10 0.16
19 10 0.16
20 20 0.33
21 2 0.03
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (18 bp):
TATAATTATATAATTATT
Found at i:33168 original size:25 final size:25
Alignment explanation
Indices: 33140--33214 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
33130 AATCTATATA
33140 TAATTATATATTATTTATAAATAAG
1 TAATTATATATTATTTATAAATAAG
* *
33165 TAATTAT-TA-TATTAATTAAATAAT
1 TAATTATATATTATTTA-TAAATAAG
* *
33189 TATATTATAATATTAATTATCAATAA
1 TA-ATTAT-ATATTATTTATAAATAA
33215 TTTTTTATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
23 5 0.12
24 11 0.28
25 12 0.30
27 8 0.20
28 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (25 bp):
TAATTATATATTATTTATAAATAAG
Found at i:33265 original size:21 final size:20
Alignment explanation
Indices: 33225--33268 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
33215 TTTTTTATAA
33225 AATATAATGTTAATAAATTT
1 AATATAATGTTAATAAATTT
*
33245 AATATTAAT-TTAACTATATTT
1 AATA-TAATGTTAA-TAAATTT
33266 AAT
1 AAT
33269 TATATATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (20 bp):
AATATAATGTTAATAAATTT
Found at i:33398 original size:14 final size:15
Alignment explanation
Indices: 33360--33415 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 15
33350 GACTAGAATA
*
33360 ATATAA-TATATTATG
1 ATATAATTA-ATTATT
33375 ATAATAATTAATTATT
1 AT-ATAATTAATTATT
33391 AT-TAATTAA-TATT
1 ATATAATTAATTATT
*
33404 TTATAATTAATT
1 ATATAATTAATT
33416 TATAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 5 0.14
14 14 0.40
15 3 0.09
16 11 0.31
17 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATATAATTAATTATT
Found at i:33466 original size:29 final size:30
Alignment explanation
Indices: 33357--33487 Score: 82
Period size: 29 Copynumber: 4.5 Consensus size: 30
33347 TGTGACTAGA
* *
33357 ATAATATAATATATTATGATAATAATTAATTATT
1 ATAAT-TAATATATTAT-A-AATTATTAA-TAAT
* *
33391 ATTAATTAATAT-TT-T--ATAATTAAT-TT
1 A-TAATTAATATATTATAAATTATTAATAAT
33417 ATAATT--TATATTATAAATTATT-A-AAT
1 ATAATTAATATATTATAAATTATTAATAAT
* *
33443 ATAATATAATATATTATGATTTATTAATAAT
1 ATAAT-TAATATATTATAAATTATTAATAAT
*
33474 ATAATTAAAATATT
1 ATAATTAATATATT
33488 TAATTAATAA
Statistics
Matches: 81, Mismatches: 5, Indels: 26
0.72 0.04 0.23
Matches are distributed among these distances:
23 3 0.04
24 2 0.02
25 6 0.07
26 10 0.12
27 7 0.09
28 8 0.10
29 14 0.17
30 9 0.11
31 8 0.10
32 1 0.01
33 2 0.02
34 7 0.09
35 4 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
ATAATTAATATATTATAAATTATTAATAAT
Found at i:33515 original size:16 final size:17
Alignment explanation
Indices: 33473--33519 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
33463 TTATTAATAA
33473 TATAATTAA-AA-TA-T
1 TATAATTAATAATTAGT
33487 T-TAATTAATAATTAGT
1 TATAATTAATAATTAGT
33503 TATAATT-ATAATTAGT
1 TATAATTAATAATTAGT
33519 T
1 T
33520 TGATGAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.24
14 3 0.10
15 2 0.07
16 12 0.41
17 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
TATAATTAATAATTAGT
Found at i:33647 original size:20 final size:20
Alignment explanation
Indices: 33618--33692 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
33608 TTTAATAACA
*
33618 TATTAATATAAATAAATTAT
1 TATTATTATAAATAAATTAT
** *
33638 TATTATTATATTTAACTTAT
1 TATTATTATAAATAAATTAT
* *
33658 TATTATAATAAGATTAATTAT
1 TATTATTATAA-ATAAATTAT
33679 TA-TATTATACAATA
1 TATTATTATA-AATA
33693 TTGTATTTTA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
20 33 0.79
21 9 0.21
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (20 bp):
TATTATTATAAATAAATTAT
Found at i:33728 original size:16 final size:18
Alignment explanation
Indices: 33707--33744 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
33697 ATTTTAAATG
33707 ATTATTTAAT-TTA-TAT
1 ATTATTTAATGTTATTAT
33723 ATTATTTAATGTTATTAT
1 ATTATTTAATGTTATTAT
33741 ATTA
1 ATTA
33745 ACTAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
17 3 0.15
18 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTATTTAATGTTATTAT
Found at i:34257 original size:27 final size:27
Alignment explanation
Indices: 34196--34258 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
34186 ATTGTATATT
* *
34196 TTAATAAATTTATTACAATTAAATTAG
1 TTAATAATTTTATTACAATCAAATTAG
34223 TTAATAATTTTA-TAGCAATCAAA-TAG
1 TTAATAATTTTATTA-CAATCAAATTAG
34249 TATAATAATT
1 T-TAATAATT
34259 AAATGTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (27 bp):
TTAATAATTTTATTACAATCAAATTAG
Found at i:34417 original size:28 final size:28
Alignment explanation
Indices: 34373--34429 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
34363 TATTTATTAA
34373 TAAATATCTATAATTAAATAATAAAAAT
1 TAAATATCTATAATTAAATAATAAAAAT
* * *
34401 TAAATAT-TTTAATTTAAATATTTAAAAT
1 TAAATATCTATAA-TTAAATAATAAAAAT
34429 T
1 T
34430 TTTAATTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
TAAATATCTATAATTAAATAATAAAAAT
Found at i:34931 original size:24 final size:23
Alignment explanation
Indices: 34886--34931 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
34876 ATATTAATTT
* *
34886 AAATAATAATTATTTATTATTAC
1 AAATAATAAATATTTATAATTAC
*
34909 AAATAATCAAATATTTGTAATTA
1 AAATAAT-AAATATTTATAATTA
34932 AATATTAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATAATAAATATTTATAATTAC
Found at i:35573 original size:15 final size:16
Alignment explanation
Indices: 35553--35599 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
35543 ATAGTAATGT
35553 TTATTAA-TATATAAA
1 TTATTAATTATATAAA
35568 TTATTAATTATAT-AA
1 TTATTAATTATATAAA
*
35583 -T-TCAATTATATAAA
1 TTATTAATTATATAAA
35597 TTA
1 TTA
35600 ACAATTAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
13 9 0.33
14 3 0.11
15 10 0.37
16 5 0.19
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATTAATTATATAAA
Found at i:35606 original size:16 final size:15
Alignment explanation
Indices: 35560--35606 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
35550 TGTTTATTAA
*
35560 TATATAAATTATTAAT
1 TATATAAATTA-CAAT
35576 TATAT-AATT-CAAT
1 TATATAAATTACAAT
35589 TATATAAATTAACAAT
1 TATATAAATT-ACAAT
35605 TA
1 TA
35607 GAATAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 8 0.30
14 4 0.15
15 4 0.15
16 11 0.41
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (15 bp):
TATATAAATTACAAT
Found at i:36069 original size:17 final size:17
Alignment explanation
Indices: 36053--36084 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36043 ATTAATATTA
36053 AATATTA-TAATTAATT
1 AATATTATTAATTAATT
36069 AATATTATTAATTAAT
1 AATATTATTAATTAAT
36085 AATTTAATAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AATATTATTAATTAATT
Found at i:36071 original size:23 final size:24
Alignment explanation
Indices: 36019--36075 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 24
36009 TTAGTATTCT
* *
36019 ATTAAT-TTAAGTATTGTAATAATA
1 ATTAATATTAAATATTATAAT-ATA
36043 ATTAATATTAAATATTATAAT-TA
1 ATTAATATTAAATATTATAATATA
36066 ATTAATATTA
1 ATTAATATTA
36076 TTAATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 12 0.40
24 6 0.20
25 12 0.40
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
ATTAATATTAAATATTATAATATA
Found at i:36078 original size:13 final size:13
Alignment explanation
Indices: 36041--36098 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
36031 ATTGTAATAA
36041 TAATTAATATTA-
1 TAATTAATATTAT
* *
36053 -AA-TATTATAAT
1 TAATTAATATTAT
36064 TAATTAATATTAT
1 TAATTAATATTAT
*
36077 TAATTAATAAT-T
1 TAATTAATATTAT
36089 TAATATAATA
1 TAAT-TAATA
36099 AATATAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
10 6 0.16
11 2 0.05
12 7 0.19
13 22 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATTAATATTAT
Found at i:36082 original size:23 final size:24
Alignment explanation
Indices: 36035--36111 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 24
36025 TTAAGTATTG
36035 TAATAA-TAATTAATATTAAATAT
1 TAATAATTAATTAATATTAAATAT
*
36058 T-ATAATTAATTAATATT-ATTAAT
1 TAATAATTAATTAATATTAAAT-AT
*
36081 TAATAATTTAA-T-ATAATAAATA-
1 TAATAA-TTAATTAATATTAAATAT
36103 TAATAATTA
1 TAATAATTA
36112 TTTATTTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
21 3 0.07
22 12 0.26
23 20 0.43
24 7 0.15
25 4 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TAATAATTAATTAATATTAAATAT
Found at i:36097 original size:17 final size:17
Alignment explanation
Indices: 36058--36162 Score: 53
Period size: 17 Copynumber: 6.1 Consensus size: 17
36048 TATTAAATAT
36058 TATAATTAATTAATATTA
1 TATAATTAA-TAATATTA
36076 T-TAATTAATAAT-TTAA
1 TATAATTAATAATATT-A
*
36092 TATAATAAATATAATAATTA
1 TATAAT-TA-ATAAT-ATTA
* * *
36112 T-TTATTTATATATAATA
1 TATAATTAATA-ATATTA
36129 TATAATT-AT-ATA-TA
1 TATAATTAATAATATTA
36143 TATAGATT-ATATATATTA
1 TATA-ATTAATA-ATATTA
36161 TA
1 TA
36163 GTAAATAAGA
Statistics
Matches: 69, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
14 6 0.09
15 10 0.14
16 6 0.09
17 23 0.33
18 12 0.17
19 8 0.12
20 2 0.03
21 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.50
Consensus pattern (17 bp):
TATAATTAATAATATTA
Found at i:36126 original size:21 final size:21
Alignment explanation
Indices: 36100--36162 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
36090 AATATAATAA
* *
36100 ATATAATA-ATTATTTATTTAT
1 ATATAATATA-TAATTATATAT
36121 ATATAATATATAATTATATAT
1 ATATAATATATAATTATATAT
36142 ATATAGATTATATATATTATA
1 ATATA-A-TATATA-ATTATA
36163 GTAAATAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 22 0.61
22 2 0.06
23 6 0.17
24 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATAATATATAATTATATAT
Done.