Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 56 of 295
Found at i:16575596 original size:7 final size:7
Alignment explanation
Indices: 16575586--16575637 Score: 70
Period size: 7 Copynumber: 7.4 Consensus size: 7
16575576 GGTTTAAGGT
*
16575586 TTAGGTG
1 TTAGGGG
16575593 TTAGGGG
1 TTAGGGG
16575600 TTAGGGG
1 TTAGGGG
16575607 TTAGGGG
1 TTAGGGG
16575614 TT-GTGGG
1 TTAG-GGG
16575621 TTAGGGG
1 TTAGGGG
*
16575628 TTATGGG
1 TTAGGGG
16575635 TTA
1 TTA
16575638 TAGATTTAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 1 0.02
7 39 0.95
8 1 0.02
ACGTcount: A:0.13, C:0.00, G:0.50, T:0.37
Consensus pattern (7 bp):
TTAGGGG
Found at i:16575638 original size:7 final size:7
Alignment explanation
Indices: 16575501--16575638 Score: 64
Period size: 7 Copynumber: 19.6 Consensus size: 7
16575491 ATTTTAAGGT
*
16575501 TTATGGA
1 TTATGGG
*
16575508 TTATGGA
1 TTATGGG
*
16575515 TTATGGA
1 TTATGGG
*
16575522 TTATGGA
1 TTATGGG
16575529 TTATGGG
1 TTATGGG
*
16575536 TTTATGGA
1 -TTATGGG
*
16575544 TTATGGT
1 TTATGGG
** *
16575551 TTACAGT
1 TTATGGG
*
16575558 TTATGGT
1 TTATGGG
*
16575565 TTAAGGG
1 TTATGGG
*
16575572 TT-GGGG
1 TTATGGG
* *
16575578 TTTAAGGT
1 -TTATGGG
16575586 TTA-GGTG
1 TTATGG-G
*
16575593 TTAGGGG
1 TTATGGG
*
16575600 TTAGGGG
1 TTATGGG
*
16575607 TTAGGGG
1 TTATGGG
*
16575614 TTGTGGG
1 TTATGGG
*
16575621 TTAGGGG
1 TTATGGG
16575628 TTATGGG
1 TTATGGG
16575635 TTAT
1 TTAT
16575639 AGATTTAAGG
Statistics
Matches: 108, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
6 5 0.05
7 93 0.86
8 10 0.09
ACGTcount: A:0.19, C:0.01, G:0.38, T:0.42
Consensus pattern (7 bp):
TTATGGG
Found at i:16575814 original size:14 final size:14
Alignment explanation
Indices: 16575795--16575861 Score: 89
Period size: 14 Copynumber: 4.7 Consensus size: 14
16575785 GTTTGCAGGT
*
16575795 AAAATGTTTTCTGG
1 AAAATGATTTCTGG
16575809 AAAATGATTTCTGG
1 AAAATGATTTCTGG
* **
16575823 AAAATAATTTCTTCA
1 AAAATGATTTC-TGG
16575838 AAAATGATTTCTGG
1 AAAATGATTTCTGG
16575852 AAAATGATTT
1 AAAATGATTT
16575862 ACTTTTCTGG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 34 0.76
15 11 0.24
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:16576438 original size:22 final size:23
Alignment explanation
Indices: 16576413--16576471 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
16576403 AATTTTTTAA
*
16576413 AAAAATTATTTAAAATT-AATAT
1 AAAAATTATTAAAAATTCAATAT
16576435 AAAAGA-TA-TAAAAATTCAATAT
1 AAAA-ATTATTAAAAATTCAATAT
*
16576457 AAAAATTATAAAAAA
1 AAAAATTATTAAAAA
16576472 GTAAAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 8 0.26
22 17 0.55
23 6 0.19
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAAATTATTAAAAATTCAATAT
Found at i:16576726 original size:20 final size:18
Alignment explanation
Indices: 16576711--16576746 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16576701 TATTTCTCTC
*
16576711 CCCCGATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
*
16576729 TCCCAATTCCCTTTTCTT
1 CCCCAATTCCCTTTTCTT
16576747 TCTCAGCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.42, G:0.03, T:0.47
Consensus pattern (18 bp):
CCCCAATTCCCTTTTCTT
Found at i:16576852 original size:34 final size:34
Alignment explanation
Indices: 16576771--16576853 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 34
16576761 TGACTAAGCC
* *
16576771 ATTTGCCTAAATCATAGTTCCCCCGAAACCCTCA
1 ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCA
* *
16576805 TTTTCTCCCAAATCATAGTT-CCCCAAAACCC-CAAA
1 ATTTC-CCTAAATCATAGTTCCCCCAAAACCCTC--A
16576840 ATTTCCCTAAATCA
1 ATTTCCCTAAATCA
16576854 AACCCATTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
33 1 0.03
34 21 0.52
35 18 0.45
ACGTcount: A:0.33, C:0.35, G:0.05, T:0.28
Consensus pattern (34 bp):
ATTTCCCTAAATCATAGTTCCCCCAAAACCCTCA
Found at i:16580809 original size:241 final size:241
Alignment explanation
Indices: 16580386--16580860 Score: 932
Period size: 241 Copynumber: 2.0 Consensus size: 241
16580376 ATGAATAAAT
*
16580386 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTAACCTTCTCTCCAACCTT
*
16580451 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGGAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
16580516 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
16580581 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
16580627 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTAACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTAACCTTCTCTCCAACCTT
16580692 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
16580757 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
16580822 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTA
16580861 GGTGCAACAA
Statistics
Matches: 232, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
241 232 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTAACCTTCTCTCCAACCTT
TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:16581227 original size:31 final size:32
Alignment explanation
Indices: 16581168--16581240 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
16581158 TAGAATTAAT
* *
16581168 TTTTTGGTTGTATTTTTATGCTAAATTTGCTG
1 TTTTTGGTTGCATTTTTATACTAAATTTGCTG
* *
16581200 TTTTTGGTTGCA-TTTTATACTATATTTGTTG
1 TTTTTGGTTGCATTTTTATACTAAATTTGCTG
*
16581231 TATTTGGTTG
1 TTTTTGGTTG
16581241 GAATTTAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 25 0.69
32 11 0.31
ACGTcount: A:0.15, C:0.05, G:0.19, T:0.60
Consensus pattern (32 bp):
TTTTTGGTTGCATTTTTATACTAAATTTGCTG
Found at i:16581369 original size:43 final size:43
Alignment explanation
Indices: 16581335--16581437 Score: 179
Period size: 43 Copynumber: 2.4 Consensus size: 43
16581325 AAAGCCGTGA
*
16581335 CTTTTAGCGGCGTTTTTCCAATAAATGCCGCTAAAAGTCAAGG
1 CTTTTAGCGGCGTTTTTCCAACAAATGCCGCTAAAAGTCAAGG
* *
16581378 CTTTTAGCGGCGCTTTTCCCACAAATGCCGCTAAAAGTCAAGG
1 CTTTTAGCGGCGTTTTTCCAACAAATGCCGCTAAAAGTCAAGG
16581421 CTTTTAGCGGCGTTTTT
1 CTTTTAGCGGCGTTTTT
16581438 TTTCAATAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (43 bp):
CTTTTAGCGGCGTTTTTCCAACAAATGCCGCTAAAAGTCAAGG
Found at i:16581826 original size:21 final size:20
Alignment explanation
Indices: 16581801--16581844 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
16581791 CTCTTAACAA
16581801 AAATTATAAAAAAATCAAAAT
1 AAATT-TAAAAAAATCAAAAT
* * *
16581822 AAATTTCAAAAATTGAAAAT
1 AAATTTAAAAAAATCAAAAT
16581842 AAA
1 AAA
16581845 ATAATAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (20 bp):
AAATTTAAAAAAATCAAAAT
Found at i:16581896 original size:3 final size:3
Alignment explanation
Indices: 16581888--16581931 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
16581878 AATAATTTTC
16581888 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTAA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA T
16581932 GCTTTAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:16582182 original size:21 final size:21
Alignment explanation
Indices: 16582156--16582195 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16582146 ACTTTATCTA
**
16582156 AAGTTAAAAGTTAAAACTATC
1 AAGTTAAAAGGCAAAACTATC
16582177 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
16582196 CGTTCTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATC
Found at i:16584068 original size:20 final size:22
Alignment explanation
Indices: 16584029--16584069 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16584019 TAATATTACA
*
16584029 TATATATATTTTATAGTTGTTT
1 TATATATATTATATAGTTGTTT
16584051 TATATATATTAT-TA-TTGTT
1 TATATATATTATATAGTTGTT
16584070 CCTAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TATATATATTATATAGTTGTTT
Found at i:16590940 original size:18 final size:19
Alignment explanation
Indices: 16590909--16590951 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
16590899 ATTATAAAAT
* *
16590909 AATTCAAAATTATTTTTAA
1 AATTTAAAATTATTTATAA
16590928 AATTTAAAA-TATTTATAA
1 AATTTAAAATTATTTATAA
16590946 AATTTA
1 AATTTA
16590952 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTTAAAATTATTTATAA
Found at i:16596632 original size:6 final size:7
Alignment explanation
Indices: 16596616--16596641 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
16596606 ACCAATAAAC
16596616 AAAAATA
1 AAAAATA
16596623 AAAAATA
1 AAAAATA
16596630 AAAAATA
1 AAAAATA
16596637 AAAAA
1 AAAAA
16596642 AGAATTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:16596800 original size:16 final size:16
Alignment explanation
Indices: 16596774--16596817 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
16596764 GTCAAATTTG
16596774 AAGAATATAAAATAAAA
1 AAGAAT-TAAAATAAAA
16596791 AAGAATT-AAATAAAA
1 AAGAATTAAAATAAAA
* *
16596806 AATAAATAAAAT
1 AAGAATTAAAAT
16596818 TGTCTTCGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 5 0.21
17 6 0.25
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (16 bp):
AAGAATTAAAATAAAA
Found at i:16598370 original size:21 final size:21
Alignment explanation
Indices: 16598346--16598414 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
16598336 TTTGCTGTTC
16598346 TTATTATCTTCATTTAAATAT
1 TTATTATCTTCATTTAAATAT
* ****
16598367 TTATTAT-TTTATTGCTGT-T
1 TTATTATCTTCATTTAAATAT
16598386 CTTATTATCTTCATTTAAATAT
1 -TTATTATCTTCATTTAAATAT
16598408 TTATTAT
1 TTATTAT
16598415 TTTATCATTT
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
19 1 0.03
20 13 0.37
21 20 0.57
22 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.61
Consensus pattern (21 bp):
TTATTATCTTCATTTAAATAT
Found at i:16598382 original size:41 final size:41
Alignment explanation
Indices: 16598337--16598419 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
16598327 TTCTAAATAT
16598337 TTGCTGTTCTTATTATCTTCATTTAAATATTTATTATTTTA
1 TTGCTGTTCTTATTATCTTCATTTAAATATTTATTATTTTA
16598378 TTGCTGTTCTTATTATCTTCATTTAAATATTTATTATTTTA
1 TTGCTGTTCTTATTATCTTCATTTAAATATTTATTATTTTA
16598419 T
1 T
16598420 CATTTTCACG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.61
Consensus pattern (41 bp):
TTGCTGTTCTTATTATCTTCATTTAAATATTTATTATTTTA
Found at i:16598870 original size:18 final size:17
Alignment explanation
Indices: 16598823--16598876 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
16598813 TTATTGTACG
*
16598823 TATATA-TATACTTTTA
1 TATATAGTATATTTTTA
16598839 TATATAGTATTATTTTTA
1 TATATAGTA-TATTTTTA
*
16598857 TATATCATTATATTTATTA
1 TATAT-AGTATATTT-TTA
16598876 T
1 T
16598877 TATGGTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 17 0.53
19 7 0.22
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TATATAGTATATTTTTA
Found at i:16599486 original size:18 final size:17
Alignment explanation
Indices: 16599465--16599498 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16599455 TTCGGATCCC
*
16599465 AAAAATTTTCGTGTTTTA
1 AAAAATTCTCGT-TTTTA
16599483 AAAAATTCTCGTTTTT
1 AAAAATTCTCGTTTTT
16599499 CAATCGGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (17 bp):
AAAAATTCTCGTTTTTA
Found at i:16611259 original size:73 final size:73
Alignment explanation
Indices: 16611168--16611449 Score: 374
Period size: 73 Copynumber: 3.8 Consensus size: 73
16611158 TTGATGTTTT
* * *
16611168 ATTTCT-GTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGGTATGCTGAGG
1 ATTTCTGGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
*
16611232 TAATTTCA
66 TATTTTCA
* *
16611240 ATTT-TTGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 ATTTCTGGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
16611304 GTATTTTCA
65 GTATTTTCA
* *
16611313 ATTTCTGGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGCTGA
1 ATTTCTGGTTTT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
16611378 GGTATTTTCA
64 GGTATTTTCA
* * * * *
16611388 ATTTCTGGTTTTCAAAAATATCAACTTACATT--GAGAGGTGAGTTGGGCCTCAAGACACGCTG
1 ATTTCTGGTTTTC-AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTG
16611450 TGTGACACCC
Statistics
Matches: 187, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
71 1 0.01
72 8 0.04
73 88 0.47
74 9 0.05
75 81 0.43
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (73 bp):
ATTTCTGGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
TATTTTCA
Found at i:16611448 original size:148 final size:147
Alignment explanation
Indices: 16611180--16611449 Score: 391
Period size: 148 Copynumber: 1.8 Consensus size: 147
16611170 TTCTGTTTTC
* * *
16611180 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGGTATGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTAAGTTGAACCTCAGGGCACGCTGAGGTAATTTCAATTTT
* * * *
16611245 TGTTTGTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
66 GGTTTGTCAAAAATCAACTCACATTG-AAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTT
16611310 TCAATTTCTGGTTTTAAA
130 TCAATTTCTGGTTTTAAA
* *
16611328 AAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTAAGTTGAACCTCAGGGCACGCTGAGGTAATTTCAATTT-
* *
16611393 TGGTTT-TCAAAAATATCAACTTACATTG-AGAGGTGAGTTGGGCCTCAAGACACGCTG
65 TGGTTTGTC-AAAA-ATCAACTCACATTGAAGAGGTGAGTTGAGCCTCAAGACACGCTG
16611450 TGTGACACCC
Statistics
Matches: 108, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
148 87 0.81
149 9 0.08
150 12 0.11
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (147 bp):
AAAAATCAACTCATATTGCGAGAGGTAAGTTGAACCTCAGGGCACGCTGAGGTAATTTCAATTTT
GGTTTGTCAAAAATCAACTCACATTGAAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
CAATTTCTGGTTTTAAA
Found at i:16614752 original size:47 final size:47
Alignment explanation
Indices: 16614671--16614921 Score: 337
Period size: 47 Copynumber: 5.4 Consensus size: 47
16614661 TAATTGAATA
* * *
16614671 AATGTGAA-AGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTGTATGTGAG-ATAAGGCCGAATGGCCAATGTGATG
** *
16614719 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
*
16614766 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
* * * *
16614813 AAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
* * *
16614860 AATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
16614907 AATGTGAA-A-GTGTAT
1 AATGTGAACATGTGTAT
16614922 AAATGTGATA
Statistics
Matches: 183, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
45 6 0.03
46 1 0.01
47 158 0.86
48 17 0.09
49 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.26
Consensus pattern (47 bp):
AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
Found at i:16615108 original size:37 final size:37
Alignment explanation
Indices: 16615052--16615131 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
16615042 CCGGACTCTA
* * *
16615052 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
16615089 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
16615126 AAGACT
1 AAGACT
16615132 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:16616591 original size:72 final size:71
Alignment explanation
Indices: 16616464--16616607 Score: 211
Period size: 72 Copynumber: 2.0 Consensus size: 71
16616454 CGGGGTGTTA
*
16616464 CACGCTGAGGTAATTTCAATTTCTGTTTGCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 CACGCTGAGGTAATTTCAATTTCTGTTT-CCAAAAATCAACTCATATTACGAGAGGTGAGTTGAG
16616529 CCTCAGGG
65 CCT-AGGG
* *
16616537 CACGCTGAGGTATTTTCAATTATGCT-TTT-CAAAAATCAACTCATATTACTAGAGGTGAGTTGA
1 CACGCTGAGGTAATTTCAATT-T-CTGTTTCCAAAAATCAACTCATATTACGAGAGGTGAGTTGA
16616600 GCCTAGGG
64 GCCTAGGG
16616608 TTACATGCCG
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
71 4 0.06
72 36 0.55
73 20 0.30
74 4 0.06
75 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (71 bp):
CACGCTGAGGTAATTTCAATTTCTGTTTCCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
CTAGGG
Found at i:16616741 original size:88 final size:86
Alignment explanation
Indices: 16616547--16616779 Score: 211
Period size: 88 Copynumber: 2.7 Consensus size: 86
16616537 CACGCTGAGG
* * * * *
16616547 TATTTTC-AATTATGCTTTTCAAAAATCAACTCATATTACTAGAGGTGAGTTGAGCCTAGGGTTA
1 TATTTTCAAATTCTG-TTTTCAAAAATCAACTCATATT-GTAGAAGTGAGTTGAGCCTAGGCTCA
*
16616611 CATGCCGAGGTATTTTCAAAATC
64 CATGCCGAGCTATTTTCAAAATC
* *
16616634 TATTTTGCAAATTCTGTTTTCAAAAATCAACTCATATTGTAAGAAGCGAGTTGAGCCTTGGCTCA
1 TATTTT-CAAATTCTGTTTTCAAAAATCAACTCATATTGT-AGAAGTGAGTTGAGCCTAGGCTCA
* * **
16616699 CGTGCTGAGCTATTTTCAATTTC
64 CATGCCGAGCTATTTTCAAAATC
* * * * * *
16616722 TGTTTT-TAATGTCTAGTTTT-AAAGAGTCAATTCATATTGCGAGAAATGAGTTGAGCCT
1 TATTTTCAAAT-TCT-GTTTTCAAA-AATCAACTCATATTG-TAGAAGTGAGTTGAGCCT
16616780 CGGGGTCACA
Statistics
Matches: 120, Mismatches: 19, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
86 3 0.03
87 13 0.11
88 98 0.82
89 6 0.05
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.37
Consensus pattern (86 bp):
TATTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGTAGAAGTGAGTTGAGCCTAGGCTCACA
TGCCGAGCTATTTTCAAAATC
Found at i:16616928 original size:21 final size:21
Alignment explanation
Indices: 16616903--16616953 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
16616893 GCAGAGCCTT
**
16616903 GAAGTTACAATGGAGCTGATC
1 GAAGTTACAATGGAGCACATC
* * *
16616924 GAAGTTGCAGTGGAGCACATT
1 GAAGTTACAATGGAGCACATC
16616945 GAAGTTACA
1 GAAGTTACA
16616954 GATCCTATCC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (21 bp):
GAAGTTACAATGGAGCACATC
Found at i:16618816 original size:18 final size:17
Alignment explanation
Indices: 16618769--16618822 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
16618759 TTATTGTACG
*
16618769 TATATA-TATACTTTTA
1 TATATAGTATATTTTTA
16618785 TATATAGTATTATTTTTA
1 TATATAGTA-TATTTTTA
*
16618803 TATATCATTATATTTATTA
1 TATAT-AGTATATTT-TTA
16618822 T
1 T
16618823 TATGCTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 17 0.53
19 7 0.22
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TATATAGTATATTTTTA
Found at i:16619448 original size:17 final size:18
Alignment explanation
Indices: 16619414--16619451 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16619404 ATTCGGATCC
16619414 CAAAAATTTTCGTGTTTT
1 CAAAAATTTTCGTGTTTT
16619432 CAAAAATTCTT-GT-TTTT
1 CAAAAATT-TTCGTGTTTT
16619449 CAA
1 CAA
16619452 TCGGATCACG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 10 0.53
19 2 0.11
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (18 bp):
CAAAAATTTTCGTGTTTT
Found at i:16628410 original size:27 final size:26
Alignment explanation
Indices: 16628373--16628487 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
16628363 AGCATGGCTG
* *
16628373 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
16628399 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
16628427 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
16628454 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
16628481 CCAGAAC
1 CCAGAAC
16628488 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:16628432 original size:54 final size:54
Alignment explanation
Indices: 16628373--16628487 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
16628363 AGCATGGCTG
*
16628373 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
16628427 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
16628481 CCAGAAC
1 CCAGAAC
16628488 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:16630150 original size:26 final size:26
Alignment explanation
Indices: 16630114--16630223 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
16630104 CATGAAATTC
16630114 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
16630140 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
16630166 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
16630192 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
16630218 TTATCA
1 TTATCA
16630224 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:16634233 original size:27 final size:26
Alignment explanation
Indices: 16634196--16634310 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
16634186 AGCATGGCTG
* *
16634196 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
16634222 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
16634250 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
16634277 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
16634304 CCAGAAC
1 CCAGAAC
16634311 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:16634255 original size:54 final size:54
Alignment explanation
Indices: 16634196--16634310 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
16634186 AGCATGGCTG
*
16634196 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
16634250 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
16634304 CCAGAAC
1 CCAGAAC
16634311 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:16635978 original size:26 final size:26
Alignment explanation
Indices: 16635939--16636047 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
16635929 CATGAAATTC
16635939 TTATCAT-AAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
16635964 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
16635990 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
16636016 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
16636042 TTATCA
1 TTATCA
16636048 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
25 7 0.09
26 71 0.89
27 2 0.03
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:16636058 original size:10 final size:10
Alignment explanation
Indices: 16636043--16636067 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16636033 CCTAACCTAT
16636043 TATCAATTTG
1 TATCAATTTG
16636053 TATCAATTTG
1 TATCAATTTG
16636063 TATCA
1 TATCA
16636068 TAAATTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (10 bp):
TATCAATTTG
Found at i:16636743 original size:23 final size:22
Alignment explanation
Indices: 16636705--16636765 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 22
16636695 GACACATAAA
*
16636705 GTGCCTTAA-ACGACACACGAG
1 GTGCCTGAATACGACACACGAG
16636726 GTGCCTG-ATACGACACACGAG
1 GTGCCTGAATACGACACACGAG
*
16636747 GTGCTTGAAATACGACACA
1 GTGCCTG-AATACGACACA
16636766 TAAAGTGCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.03
21 24 0.69
23 10 0.29
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.16
Consensus pattern (22 bp):
GTGCCTGAATACGACACACGAG
Found at i:16636773 original size:23 final size:22
Alignment explanation
Indices: 16636692--16636773 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 22
16636682 CTGATTAGAG
*
16636692 TACGACACATAAAGTGCCTT-AA
1 TACGACACACAAAGTG-CTTGAA
* * *
16636714 -ACGACACACGAGGTGCCTG-A
1 TACGACACACAAAGTGCTTGAA
* *
16636734 TACGACACACGAGGTGCTTGAAA
1 TACGACACACAAAGTGCTTG-AA
*
16636757 TACGACACATAAAGTGC
1 TACGACACACAAAGTGC
16636774 CTGATCGGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
20 3 0.06
21 30 0.62
23 15 0.31
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (22 bp):
TACGACACACAAAGTGCTTGAA
Found at i:16637176 original size:15 final size:15
Alignment explanation
Indices: 16637150--16637206 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
16637140 CATATATATT
16637150 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
16637164 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
16637179 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
16637194 ATATAAATTCAAT
1 ATATAATTTCAAT
16637207 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:16637537 original size:5 final size:5
Alignment explanation
Indices: 16637529--16637555 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
16637519 TCTTTAGTTT
16637529 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
16637556 TAAAACATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:16639401 original size:6 final size:6
Alignment explanation
Indices: 16639382--16639414 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
16639372 AAATTAATAT
16639382 GGGCT- GGG-TC GGGCTC GGGCTC GGGCTC GGGCT
1 GGGCTC GGGCTC GGGCTC GGGCTC GGGCTC GGGCT
16639415 TAGCAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 1 0.04
5 6 0.23
6 19 0.73
ACGTcount: A:0.00, C:0.27, G:0.55, T:0.18
Consensus pattern (6 bp):
GGGCTC
Found at i:16641238 original size:19 final size:20
Alignment explanation
Indices: 16641211--16641253 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
16641201 AAAAAATAAT
16641211 AATTAAAA-TAATTTTCAAA
1 AATTAAAATTAATTTTCAAA
* *
16641230 AATTCAAATTAATTTTTAAA
1 AATTAAAATTAATTTTCAAA
16641250 AATT
1 AATT
16641254 TTAAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTAAAATTAATTTTCAAA
Found at i:16641257 original size:9 final size:9
Alignment explanation
Indices: 16641243--16641324 Score: 64
Period size: 9 Copynumber: 9.4 Consensus size: 9
16641233 TCAAATTAAT
16641243 TTTTAAAAA
1 TTTTAAAAA
16641252 TTTTAAAAA
1 TTTTAAAAA
* *
16641261 -TTT-ATAT
1 TTTTAAAAA
*
16641268 TTTTGAAAA
1 TTTTAAAAA
16641277 TTTTAAAAA
1 TTTTAAAAA
*
16641286 TTCTAAAAAA
1 TT-TTAAAAA
* *
16641296 ATATAAAAA
1 TTTTAAAAA
*
16641305 -GTT-AAAA
1 TTTTAAAAA
16641312 TTTTAAAAA
1 TTTTAAAAA
16641321 TTTT
1 TTTT
16641325 CTAAAATAAT
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
7 6 0.11
8 9 0.16
9 34 0.61
10 7 0.12
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:16641264 original size:8 final size:8
Alignment explanation
Indices: 16641244--16641323 Score: 52
Period size: 8 Copynumber: 9.4 Consensus size: 8
16641234 CAAATTAATT
16641244 TTTAAAAA
1 TTTAAAAA
16641252 TTTTAAAAA
1 -TTTAAAAA
* **
16641261 TTTATATT
1 TTTAAAAA
*
16641269 TTTGAAAAT
1 TTT-AAAAA
16641278 TTTAAAAA
1 TTTAAAAA
16641286 TTCTAAAAAAA
1 TT-T--AAAAA
*
16641297 TATAAAAA
1 TTTAAAAA
* *
16641305 GTTAAAAT
1 TTTAAAAA
16641313 TTTAAAAA
1 TTTAAAAA
16641321 TTT
1 TTT
16641324 TCTAAAATAA
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
8 33 0.60
9 15 0.27
10 1 0.02
11 6 0.11
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (8 bp):
TTTAAAAA
Found at i:16645086 original size:42 final size:42
Alignment explanation
Indices: 16645018--16645155 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 42
16645008 ATCTCAGATG
* *
16645018 TGGT-TTACATGT-AATAAAATATCGATGCCACTGTCCCAGACA
1 TGGTCTTACACGTAAATCAAATA-CGATGCCA-TGTCCCAGACA
* * *
16645060 AGTTCTTACACG-AAATCAAATACGATGCCGATGTCCCAAACA
1 TGGTCTTACACGTAAATCAAATACGATGCC-ATGTCCCAGACA
* *
16645102 TGGTCTTATACGTAAATCATAAGT-CGAGGCCAATGTCCCAGACA
1 TGGTCTTACACGTAAATCA-AA-TACGATGCC-ATGTCCCAGACA
16645146 TGGTCTTACA
1 TGGTCTTACA
16645156 TGAACTCACA
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
42 28 0.36
43 21 0.27
44 28 0.36
45 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (42 bp):
TGGTCTTACACGTAAATCAAATACGATGCCATGTCCCAGACA
Found at i:16645139 original size:44 final size:41
Alignment explanation
Indices: 16645038--16645155 Score: 137
Period size: 44 Copynumber: 2.8 Consensus size: 41
16645028 GTAATAAAAT
* * *
16645038 ATCGATGCCACTGTCCCAGACAAGTTCTTACACGAAATCAA
1 ATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
* * *
16645079 ATACGATGCCGATGTCCCAAACATGGTCTTATACGTAAATCATA
1 AT-CGATGCCAATGTCCCAGACATGGTCTTACACG-AAATCA-A
*
16645123 AGTCGAGGCCAATGTCCCAGACATGGTCTTACA
1 A-TCGATGCCAATGTCCCAGACATGGTCTTACA
16645156 TGAACTCACA
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.03
42 26 0.41
43 6 0.10
44 28 0.44
45 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (41 bp):
ATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:16649780 original size:19 final size:19
Alignment explanation
Indices: 16649756--16649794 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
16649746 GTAAAACTAC
16649756 CAGTTATAACATCTGAAGA
1 CAGTTATAACATCTGAAGA
16649775 CAGTTATAACATCTGAAGA
1 CAGTTATAACATCTGAAGA
16649794 C
1 C
16649795 GAAGCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (19 bp):
CAGTTATAACATCTGAAGA
Found at i:16651229 original size:21 final size:20
Alignment explanation
Indices: 16651205--16651259 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 20
16651195 TAATAAAATT
*
16651205 TATAAATAAAATGTATAATAA
1 TATAAATAAAATGAATAAT-A
16651226 TATAAATAATATAATGAATAATA
1 TATAAAT-A-A-AATGAATAATA
16651249 TATAAATAAAA
1 TATAAATAAAA
16651260 ATAATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.07
21 8 0.27
22 2 0.07
23 9 0.30
24 9 0.30
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
TATAAATAAAATGAATAATA
Found at i:16651263 original size:24 final size:25
Alignment explanation
Indices: 16651206--16651264 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
16651196 AATAAAATTT
*
16651206 ATAAATAA-AATGTATAATAATATAA
1 ATAAA-AATAATGAATAATAATATAA
*
16651231 AT-AATATAATGAATAAT-ATATAA
1 ATAAAAATAATGAATAATAATATAA
16651254 ATAAAAATAAT
1 ATAAAAATAAT
16651265 ATATACACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 9 0.31
24 18 0.62
25 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAAAAATAATGAATAATAATATAA
Found at i:16652554 original size:13 final size:14
Alignment explanation
Indices: 16652536--16652566 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
16652526 TATTTCCTTA
16652536 ATTTTTATTT-TTT
1 ATTTTTATTTATTT
16652549 ATTTTTATTTATTT
1 ATTTTTATTTATTT
16652563 ATTT
1 ATTT
16652567 CATGGGCCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
ATTTTTATTTATTT
Found at i:16653428 original size:44 final size:44
Alignment explanation
Indices: 16652839--16653420 Score: 777
Period size: 44 Copynumber: 13.2 Consensus size: 44
16652829 CAAATGTCAG
* *
16652839 ATCTACTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
*
16652883 ATCTGCTATCTTCGATCTGTTCTCTGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* ** * **
16652927 ATCTGCTATTTTCGATCTGCTCTCTACCAATACAGAGAGGTTAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
16652971 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACGCTAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
** *
16653015 ATCTGCTATCTTCGATCTGCTCTCTAACAATACAGAGACGTCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
16653059 ATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
16653103 ATCGGCTATCTTCGATATGCTCTCTGTCAAGACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
16653147 ATCTACTATCTTTGATCTGCTCTCTGTCAATACAGAGACACCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
16653191 ATCTGTTATCTTCGATCTGCTCACTGTCAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* ** * * *
16653235 ATCTGCTATCTTCAATCTGCTCTCTACCAATATAGAGATGTCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * *
16653279 ATCTACTATCTTCGATCCGCTCTCTGCCAATACAGAGACGTCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * * *
16653323 ATCTACTATATTCGATCTACTCTCTGACAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
16653367 ATCTGTTATCTTCGATCTGCTCTCTGTTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
16653411 ATCTGCTATC
1 ATCTGCTATC
16653421 GGTGATCTAT
Statistics
Matches: 472, Mismatches: 66, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 472 1.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
Found at i:16663665 original size:550 final size:551
Alignment explanation
Indices: 16662578--16663677 Score: 1767
Period size: 550 Copynumber: 2.0 Consensus size: 551
16662568 AAACTACCCC
* *
16662578 GCTTTGTATTGCCTTAGGAAGAGTAATGATGCATAACCAATGACTCCCCAAATTCCAAGAAGAGG
1 GCTTTGTATTGCCTTAAGAAGAGTAATGATGCATAACCAACGACTCCCCAAATTCCAAGAAGAGG
16662643 TACCCAATCAAAACTTCCACAACGATAAAGGACTTCATTAGGAGCCATCCAAGAAGCTTTCCACA
66 TACCCAATCAAAACTTCCACAACGATAAAGGACTTCATTAGGAGCCATCCAAGAAGCTTTCCACA
* * * *
16662708 TTATATCTTTCTCTTGGAGATTCTGAAGTATTTCCGTCCATCTTTCCTCTGTAATGTCGTCCCTC
131 TTATATCTTCCTCTCGGAGATTCTAAAGTATTTCCGTCCATATTTCCTCTGTAATGTCGTCCCTC
* * * *
16662773 CTTGGTGTAGCTGCAGCTTCCGTTAAGGGAGAATAATCCTCAAAGGACACTCGGCAAGGAATCTT
196 CTTCGTGTAGCTGCAGCTTCCCTTAAGGGAGAATAATCCTCAAAGGACACTCGACAAGGAACCTT
16662838 ATCAACATTCCAAAAGTGACTATGGAACCACACTAATAACAACTGTGCACATACAATGAATCTAC
261 ATCAACATTCCAAAAGTGACTATGGAACCACACTAATAACAACTGTGCACATACAATGAATCTAC
** * *
16662903 CTTCACCAGCTCTTTGACGTGCGCTCAAGAATCTAAACGTCTCAGCTAGGATTGCAGGCACAGGT
326 CTTCACCAGCTCTCCGACGTGCGCTCAAGAATCTAAACGTCTCAGCTAAGATTGCAGGCACAAGT
* *
16662968 GTGTTCTGTTTACCAAGTCGATCGAATAAATCGGCAACCGCCTCATCTATATGCCCAATAGCTTT
391 GTGTTCTATTTACCAAGTCGATCGAATAAATCCGCAACCGCCTCATCTATATGCCCAATAGCTTT
*
16663033 AGGGAAAATCACCAAACCATAAATACTTAAGGCCAGAACATCAACCCTCTTCTTCACATCTAGGT
456 AGGGAAAATCACCAAACCATAAATACTTAAGGCCAAAACATCAACCCTCTTCTTCACATCTAGGT
***
16663098 GTGCCAATATCAAATCCCTCAAACTTGCCCT
521 ACACCAATATCAAATCCCTCAAACTTGCCCT
* * *
16663129 GCTTTGTATTGCCTTAAGACGAGTAATGGTGCATAACCAACGACT-CCCAAATTCCATGAAGAGG
1 GCTTTGTATTGCCTTAAGAAGAGTAATGATGCATAACCAACGACTCCCCAAATTCCAAGAAGAGG
* *
16663193 TACCCAATCAAAACTTCCACAATGATAAAGGACTTCATTAGGAGCCATCTAATG-AGCTTTCCAC
66 TACCCAATCAAAACTTCCACAACGATAAAGGACTTCATTAGGAGCCATCCAA-GAAGCTTTCCAC
* * *
16663257 ATTATATCTTCCTCTCGGAGATTCTAAAGTATTTCTGTCCATATTTCTTCTGTAATTTCGTCCCT
130 ATTATATCTTCCTCTCGGAGATTCTAAAGTATTTCCGTCCATATTTCCTCTGTAATGTCGTCCCT
16663322 CC-TCGTCGTAGCTGCAGCTTCCCTTAAGGGAGAATAATCCTCAAAGGACACTCGACAAGGAACC
195 CCTTCGT-GTAGCTGCAGCTTCCCTTAAGGGAGAATAATCCTCAAAGGACACTCGACAAGGAACC
* * * * *
16663386 TTATCAACCTTCTAAAAGTGACTATGGAACCATACTTATAACAACTGTGCACAT-CAAATTAATC
259 TTATCAACATTCCAAAAGTGACTATGGAACCACACTAATAACAACTGTGCACATAC-AATGAATC
*
16663450 TACCTTCACCAGCTCTCCGACGTGCGCTCAAGGATCTAAACGTCTCAGCTAAGATTGCAGGCACA
323 TACCTTCACCAGCTCTCCGACGTGCGCTCAAGAATCTAAACGTCTCAGCTAAGATTGCAGGCACA
* * ** *
16663515 AGTGTGTTCTATTTACCAAGTTGATCGAATAAATCCGTAATTGCCTCATCTATGTGCCCAATAGC
388 AGTGTGTTCTATTTACCAAGTCGATCGAATAAATCCGCAACCGCCTCATCTATATGCCCAATAGC
* *
16663580 TTTAGGGAAAGTCACCAAACCATAAATACTTAAGGCCAAAACATCAACCCTCTTCTTCACATCTG
453 TTTAGGGAAAATCACCAAACCATAAATACTTAAGGCCAAAACATCAACCCTCTTCTTCACATCTA
*
16663645 GGTACACCAATATTAAATCCCTCAAACTTGCCC
518 GGTACACCAATATCAAATCCCTCAAACTTGCCC
16663678 ACCGAATGTA
Statistics
Matches: 504, Mismatches: 42, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
549 4 0.01
550 458 0.91
551 42 0.08
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (551 bp):
GCTTTGTATTGCCTTAAGAAGAGTAATGATGCATAACCAACGACTCCCCAAATTCCAAGAAGAGG
TACCCAATCAAAACTTCCACAACGATAAAGGACTTCATTAGGAGCCATCCAAGAAGCTTTCCACA
TTATATCTTCCTCTCGGAGATTCTAAAGTATTTCCGTCCATATTTCCTCTGTAATGTCGTCCCTC
CTTCGTGTAGCTGCAGCTTCCCTTAAGGGAGAATAATCCTCAAAGGACACTCGACAAGGAACCTT
ATCAACATTCCAAAAGTGACTATGGAACCACACTAATAACAACTGTGCACATACAATGAATCTAC
CTTCACCAGCTCTCCGACGTGCGCTCAAGAATCTAAACGTCTCAGCTAAGATTGCAGGCACAAGT
GTGTTCTATTTACCAAGTCGATCGAATAAATCCGCAACCGCCTCATCTATATGCCCAATAGCTTT
AGGGAAAATCACCAAACCATAAATACTTAAGGCCAAAACATCAACCCTCTTCTTCACATCTAGGT
ACACCAATATCAAATCCCTCAAACTTGCCCT
Found at i:16666030 original size:19 final size:19
Alignment explanation
Indices: 16666008--16666106 Score: 62
Period size: 19 Copynumber: 5.0 Consensus size: 19
16665998 AAGGAATGAT
*
16666008 ATATATAGTAAAATATATA
1 ATATATAATAAAATATATA
*
16666027 ATATATAATAAAATTTATA
1 ATATATAATAAAATATATA
* *
16666046 A-ATAAAATGTATAATAATATAA
1 ATATATAA--TAAAAT-ATAT-A
16666068 ATAATATAATGAATAATATATA
1 AT-ATATAAT-AA-AATATATA
16666090 A-ATA-AA-AATAATATATA
1 ATATATAATAA-AATATATA
16666107 CACTATTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
17 11 0.17
18 5 0.08
19 20 0.31
20 8 0.12
21 3 0.05
22 5 0.08
23 5 0.08
24 8 0.12
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATATAATAAAATATATA
Found at i:16666066 original size:21 final size:20
Alignment explanation
Indices: 16666019--16666096 Score: 70
Period size: 19 Copynumber: 3.8 Consensus size: 20
16666009 TATATAGTAA
*
16666019 AATATATAATATATAAT-AA-
1 AATATATAA-ATAAAATGAAT
* *
16666038 AATTTATAAATAAAATGTAT
1 AATATATAAATAAAATGAAT
16666058 AATAATATAAATAATATAATGAAT
1 AAT-ATATAAAT-A-A-AATGAAT
16666082 AATATATAAATAAAA
1 AATATATAAATAAAA
16666097 ATAATATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
18 6 0.12
19 9 0.19
20 5 0.10
21 8 0.17
22 2 0.04
23 9 0.19
24 9 0.19
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
AATATATAAATAAAATGAAT
Found at i:16666100 original size:24 final size:25
Alignment explanation
Indices: 16666043--16666101 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
16666033 AATAAAATTT
*
16666043 ATAAATAA-AATGTATAATAATATAA
1 ATAAA-AATAATGAATAATAATATAA
*
16666068 AT-AATATAATGAATAAT-ATATAA
1 ATAAAAATAATGAATAATAATATAA
16666091 ATAAAAATAAT
1 ATAAAAATAAT
16666102 ATATACACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 9 0.31
24 18 0.62
25 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAAAAATAATGAATAATAATATAA
Found at i:16671227 original size:21 final size:21
Alignment explanation
Indices: 16671183--16671227 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
16671173 ACTAAAACTA
** *
16671183 TTTTATTTTTCTCTTTTATTT
1 TTTTATTTTTAGCTTTTATGT
*
16671204 TTTTATTTTTAGCTTTTCTGT
1 TTTTATTTTTAGCTTTTATGT
16671225 TTT
1 TTT
16671228 CATATTCTCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTATTTTTAGCTTTTATGT
Found at i:16673392 original size:14 final size:14
Alignment explanation
Indices: 16673350--16673385 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
16673340 AGAATAGCAT
16673350 TGTGTTTGTGTAGC
1 TGTGTTTGTGTAGC
16673364 TGTGTTTGTGTAGC
1 TGTGTTTGTGTAGC
16673378 TGTGTTTG
1 TGTGTTTG
16673386 ATTAGCTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.06, C:0.06, G:0.36, T:0.53
Consensus pattern (14 bp):
TGTGTTTGTGTAGC
Found at i:16691734 original size:30 final size:30
Alignment explanation
Indices: 16691700--16691762 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
16691690 ACTTAACAAG
16691700 CAAATG-CTTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTT-TAAAATAATAAAAAAATTAA
*
16691730 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
16691760 CAA
1 CAA
16691763 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:16694618 original size:21 final size:19
Alignment explanation
Indices: 16694588--16694626 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
16694578 TAAATGGACT
16694588 TTTATTTATTTTTAGTTTTA
1 TTTATTTATTTTTA-TTTTA
16694608 TTTATTTTATTTTTATTTT
1 TTTA-TTTATTTTTATTTT
16694627 GGGTTTATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTATTTATTTTTATTTTA
Found at i:16694621 original size:15 final size:16
Alignment explanation
Indices: 16694587--16694625 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
16694577 GTAAATGGAC
16694587 TTTTATTTATTTTTAG
1 TTTTATTTATTTTTAG
*
16694603 TTTTATTTA-TTTTAT
1 TTTTATTTATTTTTAG
16694618 TTTTATTT
1 TTTTATTT
16694626 TGGGTTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTATTTATTTTTAG
Found at i:16694672 original size:3 final size:3
Alignment explanation
Indices: 16694666--16694695 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
16694656 TTGCTACAAC
16694666 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16694696 GGCATTTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16696172 original size:9 final size:8
Alignment explanation
Indices: 16696155--16696197 Score: 52
Period size: 9 Copynumber: 5.1 Consensus size: 8
16696145 AGCCTAGTCC
16696155 TAATCTATT
1 TAAT-TATT
16696164 TAATTTATT
1 TAA-TTATT
16696173 TAATTATT
1 TAATTATT
16696181 ATAATTATT
1 -TAATTATT
16696190 T-ATTATT
1 TAATTATT
16696197 T
1 T
16696198 CAGTTCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.22
8 6 0.19
9 18 0.56
10 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (8 bp):
TAATTATT
Found at i:16696441 original size:41 final size:41
Alignment explanation
Indices: 16696396--16696476 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
16696386 TAAACTATTT
*
16696396 TATATATATTATCTAT-TTAAATT-TTTTATATGTTATTTAGA
1 TATAT-TATTATATATGTTAAATTCTTTTAT-TGTTATTTAGA
*
16696437 TATATTATTCTATATGTTAAATTCCTTTTATTGTTATTTA
1 TATATTATTATATATGTTAAATT-CTTTTATTGTTATTTA
16696477 TTTTAAACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
40 8 0.23
41 12 0.34
42 9 0.26
43 6 0.17
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (41 bp):
TATATTATTATATATGTTAAATTCTTTTATTGTTATTTAGA
Found at i:16696573 original size:25 final size:26
Alignment explanation
Indices: 16696526--16696591 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 26
16696516 CAATACATAG
* *
16696526 TTTAAACTATTTTATATATTATTCAC
1 TTTAAACTTTTTTATATAATATTCAC
*
16696552 TTTAAA-TTTTTTATATAATATTCAT
1 TTTAAACTTTTTTATATAATATTCAC
16696577 TTTAAACTGTTTTTA
1 TTTAAACT-TTTTTA
16696592 ATACATGTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 22 0.63
26 7 0.20
27 6 0.17
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTAAACTTTTTTATATAATATTCAC
Found at i:16696873 original size:46 final size:43
Alignment explanation
Indices: 16696801--16696886 Score: 109
Period size: 46 Copynumber: 1.9 Consensus size: 43
16696791 ACATTATTTA
*
16696801 TTTTATTTTTTTATATATATTTTTTATGTTAAACTGTTTTTTGTT
1 TTTTATTTTTTTATATATATTATTTATGTTAAA-T-TTTTTTGTT
* * *
16696846 TTTTTTTTATTTTATGTATATTATTTATTTTAAATTTTTTT
1 TTTTATTT-TTTTATATATATTATTTATGTTAAATTTTTTT
16696887 ACGTATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 6 0.17
45 8 0.22
46 22 0.61
ACGTcount: A:0.21, C:0.01, G:0.05, T:0.73
Consensus pattern (43 bp):
TTTTATTTTTTTATATATATTATTTATGTTAAATTTTTTTGTT
Found at i:16696882 original size:25 final size:23
Alignment explanation
Indices: 16696743--16697043 Score: 123
Period size: 25 Copynumber: 12.3 Consensus size: 23
16696733 TTTTATATGG
16696743 ATTATTTATTTTCAAATTTTTATAT
1 ATTATTTATTTT-AAATTTTT-TAT
* * * * * *
16696768 GTTGTGTATCTTAAACTCTTTATAC
1 ATTATTTATTTTAAA-T-TTTTTAT
*
16696793 ATTATTTATTTT-ATTTTTTTAT
1 ATTATTTATTTTAAATTTTTTAT
*
16696815 ATATATTTTTTATGTTAAACTGTTTTT-T
1 AT-TA---TTTATTTTAAA-T-TTTTTAT
* *
16696843 GTT-TTT-TTTT-TATTTTATGTAT
1 ATTATTTATTTTAAATTTT-T-TAT
16696865 ATTATTTATTTTAAATTTTTTTACGT
1 ATTATTTATTTTAAA-TTTTTTA--T
* *
16696891 ATTATTTATTTTAGACTTTTTAT
1 ATTATTTATTTTAAATTTTTTAT
* * *
16696914 -TGA-TGATTTTAAATTGTTTTCT
1 ATTATTTATTTTAAATT-TTTTAT
*
16696936 ATTATTTACTTTAAATTGCTTTTAT
1 ATTATTTATTTTAAATT--TTTTAT
*
16696961 AGTATTTATTTTAAACCTTTTATACATAT
1 ATTATTTATTTTAAA--TTTT-T---TAT
* *
16696990 ATTATTTATTTAAAATTATCTTAT
1 ATTATTTATTTTAAATT-TTTTAT
*
16697014 ATTATTTGA-TTTAAGTTGTTTTAT
1 ATTATTT-ATTTTAAATT-TTTTAT
16697038 ATTATT
1 ATTATT
16697044 ACTTCATTTC
Statistics
Matches: 205, Mismatches: 41, Indels: 61
0.67 0.13 0.20
Matches are distributed among these distances:
19 3 0.01
20 2 0.01
21 11 0.05
22 20 0.10
23 12 0.06
24 47 0.23
25 48 0.23
26 30 0.15
27 7 0.03
28 4 0.02
29 21 0.10
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.62
Consensus pattern (23 bp):
ATTATTTATTTTAAATTTTTTAT
Found at i:16696884 original size:26 final size:27
Alignment explanation
Indices: 16696855--16696914 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
16696845 TTTTTTTTTA
16696855 TTTTATGTA-TATTATTTATTTTA-AAT
1 TTTTAT-TACTATTATTTATTTTAGAAT
*
16696881 TTTT-TTACGTATTATTTATTTTAGACT
1 TTTTATTAC-TATTATTTATTTTAGAAT
16696908 TTTTATT
1 TTTTATT
16696915 GATGATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 2 0.07
25 1 0.03
26 18 0.62
27 6 0.21
28 2 0.07
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (27 bp):
TTTTATTACTATTATTTATTTTAGAAT
Found at i:16710615 original size:37 final size:39
Alignment explanation
Indices: 16710518--16710617 Score: 150
Period size: 41 Copynumber: 2.6 Consensus size: 39
16710508 AAAAATTATT
* *
16710518 TATATTATCAATATATAATAAAAGTATTTAAATAAAATA
1 TATATTATTAATATATAATAAAAATATTTAAATAAAATA
16710557 TATATTAAATTAATATATAATAAAAATATTTAAAT-AAA-A
1 TATATT--ATTAATATATAATAAAAATATTTAAATAAAATA
16710596 TATATTATTAATATATAATAAA
1 TATATTATTAATATATAATAAA
16710618 TATTTTTTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
37 16 0.28
39 13 0.23
40 3 0.05
41 25 0.44
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (39 bp):
TATATTATTAATATATAATAAAAATATTTAAATAAAATA
Found at i:16714707 original size:25 final size:25
Alignment explanation
Indices: 16714677--16714726 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
16714667 GAATATTTTA
*
16714677 ACAATTTAACAATCATATTTAATAT
1 ACAATTTAACAATCATATCTAATAT
* *
16714702 ACAATTTAATAATTATATCTAATAT
1 ACAATTTAACAATCATATCTAATAT
16714727 TCCAATCATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (25 bp):
ACAATTTAACAATCATATCTAATAT
Found at i:16715289 original size:24 final size:24
Alignment explanation
Indices: 16715262--16715311 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
16715252 ATCTAAATTC
*
16715262 ATTTGATATGTGTTT-TTTTTAATA
1 ATTTGATATAT-TTTATTTTTAATA
*
16715286 ATTTTATATATTTTCATTTTTAATA
1 ATTTGATATATTTT-ATTTTTAATA
16715311 A
1 A
16715312 AACATCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 3 0.14
24 9 0.41
25 10 0.45
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (24 bp):
ATTTGATATATTTTATTTTTAATA
Found at i:16715589 original size:5 final size:5
Alignment explanation
Indices: 16715581--16715637 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
16715571 AATAAAAAAA
* *
16715581 TAATT TAATT TAGTT TGATT T--TT ATAATT TAATT TAATTT TAATT TAA-T
1 TAATT TAATT TAATT TAATT TAATT -TAATT TAATT TAA-TT TAATT TAATT
16715630 TAATT TAA
1 TAATT TAA
16715638 AAATGTCAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
3 2 0.05
4 5 0.11
5 30 0.68
6 7 0.16
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:16715626 original size:16 final size:15
Alignment explanation
Indices: 16715605--16715635 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
16715595 TTGATTTTTA
16715605 TAATTTAATTTAATTT
1 TAATTTAA-TTAATTT
16715621 TAATTTAATTAATTT
1 TAATTTAATTAATTT
16715636 AAAAATGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TAATTTAATTAATTT
Found at i:16715633 original size:25 final size:24
Alignment explanation
Indices: 16715579--16715637 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
16715569 AAAATAAAAA
* *
16715579 AATAATTTAATTTAGTTTGATTTT
1 AATAATTTAATTTAATTTGAATTT
* *
16715603 TATAATTTAATTTAATTTTAATTT
1 AATAATTTAATTTAATTTGAATTT
16715627 AATTAATTTAA
1 AA-TAATTTAA
16715638 AAATGTCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 21 0.72
25 8 0.28
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (24 bp):
AATAATTTAATTTAATTTGAATTT
Found at i:16726455 original size:44 final size:44
Alignment explanation
Indices: 16726405--16726495 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 44
16726395 TTGAAACTAA
* * * *
16726405 AATAGAAGTTGTGATAATTATACATTTAATAATTATTATAAGTT
1 AATAGAAATTCTGATAATTATACATTTAAAAATAATTATAAGTT
* * *
16726449 AATAGAAATTCTTATAATTATGCATTTAAAAATAATTATAATTT
1 AATAGAAATTCTGATAATTATACATTTAAAAATAATTATAAGTT
16726493 AAT
1 AAT
16726496 TTATAATTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (44 bp):
AATAGAAATTCTGATAATTATACATTTAAAAATAATTATAAGTT
Found at i:16730937 original size:27 final size:27
Alignment explanation
Indices: 16730907--16730968 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
16730897 TGCGTACAGA
*
16730907 GGTTCGCAAATAT-GGTTCGTACCTAGG
1 GGTTCGCAAATATGGGTTCGCACCTA-G
* *
16730934 GGTTCGTACATATGGGTTCGCACCTAG
1 GGTTCGCAAATATGGGTTCGCACCTAG
16730961 GGTTCGCA
1 GGTTCGCA
16730969 TATTAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 19 0.63
28 11 0.37
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (27 bp):
GGTTCGCAAATATGGGTTCGCACCTAG
Found at i:16730939 original size:14 final size:13
Alignment explanation
Indices: 16730920--16730966 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
16730910 TCGCAAATAT
16730920 GGTTCGTACCTAGG
1 GGTTCGTACCTA-G
*
16730934 GGTTCGTACATATG
1 GGTTCGTACCTA-G
*
16730948 GGTTCGCACCTAG
1 GGTTCGTACCTAG
16730961 GGTTCG
1 GGTTCG
16730967 CATATTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 7 0.24
14 22 0.76
ACGTcount: A:0.15, C:0.21, G:0.34, T:0.30
Consensus pattern (13 bp):
GGTTCGTACCTAG
Found at i:16731272 original size:18 final size:18
Alignment explanation
Indices: 16731226--16731283 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
16731216 AGGGGCTCAC
*
16731226 CTATAA-GGGTTTACACA
1 CTATAAGGGGTTTACATA
* * *
16731243 ATATCAGTGGTTTACATA
1 CTATAAGGGGTTTACATA
* *
16731261 CTATAAGGGGTTCACTTA
1 CTATAAGGGGTTTACATA
16731279 CTATA
1 CTATA
16731284 GGGTTTTCAT
Statistics
Matches: 31, Mismatches: 9, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
17 4 0.13
18 27 0.87
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (18 bp):
CTATAAGGGGTTTACATA
Found at i:16732941 original size:11 final size:11
Alignment explanation
Indices: 16732927--16732967 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
16732917 TGTTTTCTCT
16732927 CTATTTTGCTA
1 CTATTTTGCTA
*
16732938 CTATTTTACTA
1 CTATTTTGCTA
* *
16732949 TTATGTTGCTA
1 CTATTTTGCTA
16732960 CTATTTTG
1 CTATTTTG
16732968 TTGTTATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:16733038 original size:29 final size:30
Alignment explanation
Indices: 16733004--16733067 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
16732994 TTTTATTTTA
16733004 TTGTTAATTTT-TTATTATTTTA-AACGCAT
1 TTGTTAATTTTGTTATTATTTTAGAA-GCAT
16733033 TTGTTAATTTTGTTATTATTTTAGAAGCAT
1 TTGTTAATTTTGTTATTATTTTAGAAGCAT
16733063 TTGTT
1 TTGTT
16733068 TGTTAAATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 11 0.33
30 20 0.61
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAAGCAT
Found at i:16733210 original size:12 final size:12
Alignment explanation
Indices: 16733189--16733222 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16733179 TATATATTTT
*
16733189 AAAATTATATAA
1 AAAATAATATAA
16733201 AAAATAATATAA
1 AAAATAATATAA
*
16733213 AAATTAATAT
1 AAAATAATAT
16733223 GGGTTGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:16733625 original size:117 final size:117
Alignment explanation
Indices: 16733487--16733723 Score: 411
Period size: 117 Copynumber: 2.0 Consensus size: 117
16733477 GAAAGTCACA
* *
16733487 TTTCAACAATTATTTTTAATCATTATTATTAAATATTTTTATTAATTTAATATAAAATATTTCGT
1 TTTCAACAATTATTTTTAATCATTATTATTAAATATGTTTATTAATTTAATATAAAATATTTCAT
*
16733552 ATTTATCATGAACTATTATTATGATCCTTGGATGTTGCTTAATCTAATTTTT
66 ATTTATCATGAACTATTATTATGATCCTTGCATGTTGCTTAATCTAATTTTT
* * * *
16733604 TTTCAACAATTATTTTTAATCATTATTATTAAATGTGTTTATTAATTTAGTGTAACATATTTCAT
1 TTTCAACAATTATTTTTAATCATTATTATTAAATATGTTTATTAATTTAATATAAAATATTTCAT
16733669 ATTTATCATGAACTATTATTATGATCCTTGCATGTTGCTTAATCTAATTTTT
66 ATTTATCATGAACTATTATTATGATCCTTGCATGTTGCTTAATCTAATTTTT
16733721 TTT
1 TTT
16733724 TCAAATTAAT
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 113 1.00
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (117 bp):
TTTCAACAATTATTTTTAATCATTATTATTAAATATGTTTATTAATTTAATATAAAATATTTCAT
ATTTATCATGAACTATTATTATGATCCTTGCATGTTGCTTAATCTAATTTTT
Found at i:16736444 original size:19 final size:20
Alignment explanation
Indices: 16736395--16736445 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
16736385 TTTCCCATTA
16736395 AACTTAATTAATAACTAATT
1 AACTTAATTAATAACTAATT
* * *
16736415 TATTATAATTAA-ACCTAATT
1 AACT-TAATTAATAACTAATT
16736435 AACTTAATTAA
1 AACTTAATTAA
16736446 CTAAGATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 7 0.28
20 11 0.44
21 7 0.28
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (20 bp):
AACTTAATTAATAACTAATT
Found at i:16740284 original size:14 final size:15
Alignment explanation
Indices: 16740257--16740285 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16740247 TATAATTTAA
16740257 AATAAACAATACTCT
1 AATAAACAATACTCT
16740272 AATAAAC-ATACTCT
1 AATAAACAATACTCT
16740286 CTAACTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAAACAATACTCT
Found at i:16741566 original size:28 final size:28
Alignment explanation
Indices: 16741530--16741595 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
16741520 TTTTTTCAAG
16741530 AAGAAAATAC-CAAGCTACTATTGATTCA
1 AAGAAAATACACAA-CTACTATTGATTCA
* *
16741558 AAGAAAATACACAACTATTGTTGATTCA
1 AAGAAAATACACAACTACTATTGATTCA
16741586 AAGAAAATAC
1 AAGAAAATAC
16741596 TCAAATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 32 0.91
29 3 0.09
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (28 bp):
AAGAAAATACACAACTACTATTGATTCA
Found at i:16743450 original size:24 final size:26
Alignment explanation
Indices: 16743382--16743452 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 26
16743372 AGCGAGCCAT
*
16743382 ATCGGGAAGCTCATAAAGAGCCAATTA
1 ATCGGAAAGCTCAT-AAGAGCCAATTA
* * *
16743409 ATGGGAAA-CTCACGAAGAGTC-A-TA
1 ATCGGAAAGCTCA-TAAGAGCCAATTA
16743433 ATCGGAAAGCTCATAAGAGC
1 ATCGGAAAGCTCATAAGAGC
16743453 TAAGGTGTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
24 14 0.40
25 5 0.14
26 10 0.29
27 6 0.17
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (26 bp):
ATCGGAAAGCTCATAAGAGCCAATTA
Found at i:16744414 original size:18 final size:18
Alignment explanation
Indices: 16744377--16744415 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16744367 GTGGAAATCA
*
16744377 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
16744395 AAATTATTAAAAAGA-AAT
1 AAATTATT-AAAAGATAAT
16744413 AAA
1 AAA
16744416 AGTCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:16749457 original size:14 final size:14
Alignment explanation
Indices: 16749447--16749474 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16749437 CTGAAATTTT
16749447 GAATCGAAAATTGA
1 GAATCGAAAATTGA
16749461 GAATCGAAAATTGA
1 GAATCGAAAATTGA
16749475 CTTACATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.21, T:0.21
Consensus pattern (14 bp):
GAATCGAAAATTGA
Found at i:16757684 original size:23 final size:22
Alignment explanation
Indices: 16757612--16757699 Score: 74
Period size: 21 Copynumber: 4.1 Consensus size: 22
16757602 TACCTGATCA
*
16757612 GAATACGACACATAA-GTGCCT
1 GAATACGACACACAAGGTGCCT
*
16757633 GAA-ACGACACACGAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* **
16757654 G-CTGTGACACACAAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* * *
16757675 GAAATATGACACATAAAGTGCCT
1 G-AATACGACACACAAGGTGCCT
16757698 GA
1 GA
16757700 TCAGAAAAGC
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
20 9 0.17
21 26 0.49
22 1 0.02
23 17 0.32
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (22 bp):
GAATACGACACACAAGGTGCCT
Found at i:16757959 original size:23 final size:23
Alignment explanation
Indices: 16757890--16757960 Score: 72
Period size: 23 Copynumber: 2.9 Consensus size: 23
16757880 AAATGTCCAA
*
16757890 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
16757913 CCAAAACACACCAGTATCATATAATCCTT
1 CCAAAACACACCAG----A-ATAATCC-T
16757942 CC-AAACACACCAGAATAAT
1 CCAAAACACACCAGAATAAT
16757961 ATAATCCATT
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
23 19 0.46
24 1 0.02
28 18 0.44
29 3 0.07
ACGTcount: A:0.45, C:0.32, G:0.04, T:0.18
Consensus pattern (23 bp):
CCAAAACACACCAGAATAATCCT
Found at i:16757985 original size:29 final size:28
Alignment explanation
Indices: 16757904--16757987 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
16757894 AACACACCAG
* * *
16757904 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTTCAAAACACACCAGAATAA
*
16757932 TATAATCCTTCCAAACACACCAGAATAA
1 TATAATCCTTCAAAACACACCAGAATAA
16757960 TATAATCCATTCAAAACACACCAGAATA
1 TATAATCC-TTCAAAACACACCAGAATA
16757988 GCACAAAGTG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 32 0.64
29 18 0.36
ACGTcount: A:0.46, C:0.29, G:0.04, T:0.21
Consensus pattern (28 bp):
TATAATCCTTCAAAACACACCAGAATAA
Found at i:16762226 original size:24 final size:24
Alignment explanation
Indices: 16762162--16762232 Score: 63
Period size: 26 Copynumber: 2.8 Consensus size: 24
16762152 AAGTTCAAGT
*
16762162 GAGTCAT-ATCAGGAAGCTCACAAA
1 GAGTCATAATC-GGAAACTCACAAA
* * *
16762186 GAGCCAATTAATGGGAAACTCACGAA
1 GAGTC-A-TAATCGGAAACTCACAAA
16762212 GAGTCATAATCGGAAAGCTCA
1 GAGTCATAATCGGAAA-CTCA
16762233 TAAAAGCTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
24 13 0.35
25 6 0.16
26 16 0.43
27 2 0.05
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (24 bp):
GAGTCATAATCGGAAACTCACAAA
Found at i:16774785 original size:2 final size:2
Alignment explanation
Indices: 16774778--16774806 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16774768 TGGAATTTAG
16774778 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
16774807 AAGATGTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:16776124 original size:30 final size:30
Alignment explanation
Indices: 16776083--16776148 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
16776073 ATTTATACAT
*
16776083 TAATAAACAAATGTAA-ATTTTAAAATTAA
1 TAATAAACAAATGCAATATTTTAAAATTAA
*
16776112 TAATAATACAAATGCAATATTTTGAAATTAA
1 TAATAA-ACAAATGCAATATTTTAAAATTAA
16776143 -AATAAA
1 TAATAAA
16776149 AATATAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 7 0.21
30 14 0.42
31 12 0.36
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (30 bp):
TAATAAACAAATGCAATATTTTAAAATTAA
Found at i:16779879 original size:15 final size:14
Alignment explanation
Indices: 16779861--16779891 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
16779851 TTAATTTATT
16779861 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
16779876 TAATAATAATCTAA
1 TAATAATAATCTAA
16779890 TA
1 TA
16779892 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:16779902 original size:21 final size:20
Alignment explanation
Indices: 16779878--16779946 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
16779868 AATGCTAATA
16779878 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
16779899 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
16779918 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
16779939 ATAATAAT
1 ATAATAAT
16779947 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:16786861 original size:20 final size:19
Alignment explanation
Indices: 16786834--16786883 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
16786824 CAAAAAATCC
16786834 TTAAATATTAAATTGAAAA
1 TTAAATATTAAATTGAAAA
* *
16786853 TTCAAATATTAAGTTGAACA
1 TT-AAATATTAAATTGAAAA
16786873 TTAAA-ATTAAA
1 TTAAATATTAAA
16786884 CTTAGATACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 5 0.19
20 17 0.63
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (19 bp):
TTAAATATTAAATTGAAAA
Found at i:16787411 original size:21 final size:21
Alignment explanation
Indices: 16787365--16787425 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 21
16787355 ATCTCTATTT
*
16787365 TTATATTTAAAAATATGATATA
1 TTAT-TTTAAAAATATAATATA
*
16787387 --ATTTTAAAATTATAATATA
1 TTATTTTAAAAATATAATATA
* *
16787406 TTATTTGAATAATATTAATA
1 TTATTTTAAAAATA-TAATA
16787426 ATTCATAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 15 0.48
20 2 0.06
21 9 0.29
22 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (21 bp):
TTATTTTAAAAATATAATATA
Found at i:16798840 original size:3 final size:3
Alignment explanation
Indices: 16798832--16798863 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
16798822 TGAGAGCAGA
*
16798832 GGT GGT GGT GGT GGT GGT GGT GGT GAT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
16798864 AGGATAGGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.66, T:0.31
Consensus pattern (3 bp):
GGT
Found at i:16799286 original size:21 final size:21
Alignment explanation
Indices: 16799251--16799312 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 21
16799241 CATTTTACCC
*
16799251 TTAACTTAA-AAAATAATATT
1 TTAATTTAATAAAATAATATT
*
16799271 TTAATTTAATAAAAT-AT-TA
1 TTAATTTAATAAAATAATATT
*
16799290 TTAATTTAATATAA-AATATT
1 TTAATTTAATAAAATAATATT
16799310 TTA
1 TTA
16799313 TATTAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 16 0.46
20 14 0.40
21 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAATTTAATAAAATAATATT
Found at i:16799295 original size:19 final size:18
Alignment explanation
Indices: 16799265--16799312 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 18
16799255 CTTAAAAAAT
16799265 AATATTTTAATTTAATAA
1 AATATTTTAATTTAATAA
16799283 AATATTATTAATTTAATATAA
1 AATATT-TTAATTT-A-ATAA
16799304 AATATTTTA
1 AATATTTTA
16799313 TATTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.22
19 7 0.26
20 4 0.15
21 10 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATATTTTAATTTAATAA
Found at i:16799440 original size:21 final size:21
Alignment explanation
Indices: 16799402--16799441 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
16799392 TAAAATTTTA
*
16799402 TAATAATTACATATTTATATT
1 TAATAATTACATAATTATATT
16799423 TAATAATATAC-TAATTATA
1 TAATAAT-TACATAATTATA
16799442 AAAATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATAATTACATAATTATATT
Found at i:16800698 original size:31 final size:31
Alignment explanation
Indices: 16800663--16800721 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
16800653 ACGACCCTAT
*
16800663 GACTTAAATAAAAACTTT-AGAATAGTTTAGC
1 GACTTAAACAAAAACTTTCA-AATAGTTTAGC
*
16800694 GACTTAAACGAAAACTTTCAAATAGTTT
1 GACTTAAACAAAAACTTTCAAATAGTTT
16800722 TGTAACATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (31 bp):
GACTTAAACAAAAACTTTCAAATAGTTTAGC
Found at i:16802717 original size:16 final size:16
Alignment explanation
Indices: 16802680--16802715 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
16802670 AAAATTAATA
16802680 TTTTTACAACATCTAT
1 TTTTTACAACATCTAT
*
16802696 ATTTTACAACAT-TAT
1 TTTTTACAACATCTAT
16802711 TTTTT
1 TTTTT
16802716 TAAATTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTTACAACATCTAT
Found at i:16806668 original size:19 final size:19
Alignment explanation
Indices: 16806644--16806681 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
16806634 AAAATTAATA
* *
16806644 ACAAATTTGATTATGGTGG
1 ACAAATTTAATTACGGTGG
16806663 ACAAATTTAATTACGGTGG
1 ACAAATTTAATTACGGTGG
16806682 GTGAAAGTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.08, G:0.24, T:0.34
Consensus pattern (19 bp):
ACAAATTTAATTACGGTGG
Found at i:16814711 original size:20 final size:18
Alignment explanation
Indices: 16814683--16814732 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 18
16814673 ATTACAAAAT
16814683 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTT--AA
*
16814703 AATTTAAAATAAATTTTAA
1 AATTCAAAAT-AATTTTAA
16814722 AATTCAAAATA
1 AATTCAAAATA
16814733 TTTAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 1 0.04
19 11 0.41
20 9 0.33
21 6 0.22
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTCAAAATAATTTTAA
Found at i:16814762 original size:10 final size:9
Alignment explanation
Indices: 16814744--16814793 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
16814734 TTAAAAAAAA
16814744 TAAAAATTT
1 TAAAAATTT
16814753 TAAAATATTT
1 TAAAA-ATTT
*
16814763 TAAAAATATA
1 TAAAAAT-TT
*
16814773 TAAAAA-GT
1 TAAAAATTT
16814781 T-AAAATTT
1 TAAAAATTT
16814789 TAAAA
1 TAAAA
16814794 CTTCTCTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
7 4 0.12
8 3 0.09
9 10 0.30
10 16 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
TAAAAATTT
Found at i:16814767 original size:27 final size:28
Alignment explanation
Indices: 16814727--16814793 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
16814717 TTTAAAATTC
* *
16814727 AAAATA-TTTAAAAA-AAATAAAAATTTT
1 AAAATATTTTAAAAATATATAAAAA-GTT
16814754 AAAATATTTTAAAAATATATAAAAAGTT
1 AAAATATTTTAAAAATATATAAAAAGTT
16814782 -AAA-ATTTTAAAA
1 AAAATATTTTAAAA
16814794 CTTCTCTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 9 0.25
27 9 0.25
28 10 0.28
29 8 0.22
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (28 bp):
AAAATATTTTAAAAATATATAAAAAGTT
Found at i:16818654 original size:21 final size:19
Alignment explanation
Indices: 16818627--16818671 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 19
16818617 TAGGTTTTCA
16818627 TTTTTCTTTTCTCTTCTTTT
1 TTTTTCTTTTCT-TTCTTTT
16818647 TCTTTTCTTTTCTTTCTTTT
1 T-TTTTCTTTTCTTTCTTTT
16818667 TTTTT
1 TTTTT
16818672 GTTGTAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.17
20 9 0.38
21 11 0.46
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTCTTTTCTTTCTTTT
Found at i:16818668 original size:16 final size:16
Alignment explanation
Indices: 16818627--16818661 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
16818617 TAGGTTTTCA
16818627 TTTTTCTTTTCTCTTC
1 TTTTTCTTTTCTCTTC
*
16818643 TTTTTCTTTTCTTTTC
1 TTTTTCTTTTCTCTTC
16818659 TTT
1 TTT
16818662 CTTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTCTTTTCTCTTC
Found at i:16818671 original size:5 final size:5
Alignment explanation
Indices: 16818628--16818670 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
16818618 AGGTTTTCAT
*
16818628 TTTTC TTTTC TCTTC TTTTTC TTTTC TTTTC -TTTC TTTT- TTTT
1 TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
16818671 TGTTGTAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
4 8 0.24
5 22 0.65
6 4 0.12
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:16818671 original size:14 final size:14
Alignment explanation
Indices: 16818629--16818670 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
16818619 GGTTTTCATT
*
16818629 TTTCTTTTCTCTTCTT
1 TTTCTTTTCT-TT-TC
16818645 TTTCTTTTCTTTTC
1 TTTCTTTTCTTTTC
16818659 TTTCTTTT-TTTT
1 TTTCTTTTCTTTT
16818671 TGTTGTAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 4 0.16
14 9 0.36
15 2 0.08
16 10 0.40
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTCTTTTCTTTTC
Found at i:16821844 original size:30 final size:30
Alignment explanation
Indices: 16821762--16821845 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 30
16821752 TAGGTCCTTA
* *
16821762 TACTATTTACAAATTT-AAAATTTAGCCTATG
1 TACT-TTT-CAAATTTAAAAATTTAGCCCATC
*
16821793 TACTTTT---ATTTATAGAAATTTAGCCCCTC
1 TACTTTTCAAATTTA-A-AAATTTAGCCCATC
16821822 TACTTTTCAAATTTAAAAATTTAG
1 TACTTTTCAAATTTAAAAATTTAG
16821846 GTGCAATTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
26 4 0.09
28 1 0.02
29 18 0.41
30 11 0.25
31 5 0.11
32 5 0.11
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (30 bp):
TACTTTTCAAATTTAAAAATTTAGCCCATC
Found at i:16826705 original size:8 final size:8
Alignment explanation
Indices: 16826692--16826765 Score: 66
Period size: 8 Copynumber: 9.4 Consensus size: 8
16826682 AAGTTAATAT
16826692 ATATTATA
1 ATATTATA
16826700 ATATTATA
1 ATATTATA
16826708 ATATTATA
1 ATATTATA
16826716 ATATTAT-
1 ATATTATA
*
16826723 ATCTTA-A
1 ATATTATA
*
16826730 TTATTA-A
1 ATATTATA
*
16826737 GTATATTTATT
1 --ATA-TTATA
16826748 ATATTAT-
1 ATATTATA
16826755 ATATTATA
1 ATATTATA
16826763 ATA
1 ATA
16826766 AGTAAATATA
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
7 17 0.31
8 30 0.55
9 5 0.09
10 3 0.05
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (8 bp):
ATATTATA
Found at i:16826713 original size:16 final size:15
Alignment explanation
Indices: 16826689--16826765 Score: 84
Period size: 16 Copynumber: 4.9 Consensus size: 15
16826679 TTAAAGTTAA
16826689 TATATATTATAATAT
1 TATATATTATAATAT
16826704 TATAATATTATAATAT
1 TAT-ATATTATAATAT
* *
16826720 TATATCTTA-ATTAT
1 TATATATTATAATAT
*
16826734 TAAGTATATTTATTATAT
1 T-A-TATA-TTATAATAT
16826752 TATATATTATAATA
1 TATATATTATAATA
16826766 AGTAAATATA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
14 5 0.10
15 16 0.31
16 22 0.43
17 4 0.08
18 4 0.08
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (15 bp):
TATATATTATAATAT
Found at i:16826834 original size:10 final size:10
Alignment explanation
Indices: 16826783--16826844 Score: 52
Period size: 10 Copynumber: 5.7 Consensus size: 10
16826773 ATAATAAATG
*
16826783 AAAGAAACAA
1 AAAGAAAGAA
16826793 AAAGAAAGACA
1 AAAGAAAGA-A
16826804 AAAGGTTAAACGAA
1 AAA-G--AAA-GAA
*
16826818 ATAGAAAGAA
1 AAAGAAAGAA
*
16826828 AAGGAAAGAA
1 AAAGAAAGAA
16826838 AAAGAAA
1 AAAGAAA
16826845 AGGAGAAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
10 25 0.60
11 7 0.17
12 1 0.02
13 1 0.02
14 6 0.14
15 2 0.05
ACGTcount: A:0.71, C:0.05, G:0.19, T:0.05
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:16831907 original size:43 final size:43
Alignment explanation
Indices: 16831802--16831959 Score: 255
Period size: 43 Copynumber: 3.7 Consensus size: 43
16831792 TGTAATTACA
* *
16831802 TGTAAGACCATGTCTGGGACATTGGCATTGTATTATGA-TTAG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCG
*
16831844 TGTAAGACCATGTCTGGGACATTGGCATCGTATTGTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCG
*
16831887 TGTAAGACCATGTCTAGGACATTGGCATCGTATTATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCG
* *
16831930 TGTAAGACCTTGTCTGGGACAGTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
16831960 ATATGTGATA
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 36 0.34
43 71 0.66
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTATGATTTCG
Found at i:16831977 original size:86 final size:85
Alignment explanation
Indices: 16831799--16831980 Score: 267
Period size: 86 Copynumber: 2.1 Consensus size: 85
16831789 AGATGTAATT
* *
16831799 ACATGTAAGACCATGTCTGGGACATTGGCATTGTATTATGATTAGTGTAAGACCATGTCTGGGAC
1 ACATGTAAGACCATGTCTAGGACATTGGCATCGTATTATGATTAGTGTAAGACCATGTCTGGGAC
* *
16831864 ATTGGCATCGTATTGTGATT
66 AGTGGCATCGTATTGTGATA
* * * *
16831884 TCGTGTAAGACCATGTCTAGGACATTGGCATCGTATTATGATTTCGTGTAAGACCTTGTCTGGGA
1 ACATGTAAGACCATGTCTAGGACATTGGCATCGTATTATGA-TTAGTGTAAGACCATGTCTGGGA
16831949 CAGTGGCATCG-ATATGTGATA
65 CAGTGGCATCGTAT-TGTGATA
16831970 ACATGTAAGAC
1 ACATGTAAGAC
16831981 AATATTTGGG
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
85 39 0.46
86 46 0.54
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (85 bp):
ACATGTAAGACCATGTCTAGGACATTGGCATCGTATTATGATTAGTGTAAGACCATGTCTGGGAC
AGTGGCATCGTATTGTGATA
Found at i:16833020 original size:44 final size:44
Alignment explanation
Indices: 16832935--16833021 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
16832925 GCCATGTGCA
* **
16832935 ACACATGGTCATGCTGCACAGTCGTGTGTCACCTGGGGTACCAG
1 ACACACGGTCATGCTGCACAGTCGTGTGTCACCTGAAGTACCAG
* *
16832979 ACACACGGTCATGCTGTACGGTCGTGTGTC-CTCTGAAGTACCA
1 ACACACGGTCATGCTGCACAGTCGTGTGTCAC-CTGAAGTACCA
16833022 TTTCGAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 1 0.03
44 36 0.97
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.24
Consensus pattern (44 bp):
ACACACGGTCATGCTGCACAGTCGTGTGTCACCTGAAGTACCAG
Found at i:16837950 original size:22 final size:22
Alignment explanation
Indices: 16837918--16837963 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
16837908 TATTCTATAA
16837918 TAAAATATTAA-ATTTTTATATT
1 TAAAATATTAACATTTTT-TATT
*
16837940 TAAAATCTTAACTATTTTTTATT
1 TAAAATATTAAC-ATTTTTTATT
16837963 T
1 T
16837964 GGTATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 5 0.24
24 6 0.29
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
TAAAATATTAACATTTTTTATT
Found at i:16838199 original size:12 final size:12
Alignment explanation
Indices: 16838182--16838225 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
16838172 AGAGCAAAGT
16838182 TTTATTTTATTA
1 TTTATTTTATTA
16838194 TTTATTTTGA-TA
1 TTTATTTT-ATTA
16838206 -TTATTTTATTA
1 TTTATTTTATTA
16838217 TTTAATTTT
1 TTT-ATTTT
16838226 TTGTGCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 1 0.04
11 9 0.32
12 12 0.43
13 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTATTTTATTA
Done.