Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 54 of 226
Found at i:17756571 original size:101 final size:101
Alignment explanation
Indices: 17756392--17756576 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 101
17756382 GTTCGGTTCA
* * * *
17756392 CATAGTAGCCTGCACATAGTACTACATATGTGACCATTACCATCTAATACATGTAGTATCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCAATACACGTAGTAGCCTGCA
17756457 CATAGTACTACACACGTGATCGAAACTATCCGATACG
65 CATAGTACTACACACGTGATCGAAACTATCCGATACG
* * *
17756494 CATAGTAGCCTGCACATAGTACTACACATGCT-ACC-TATCATTCCAGTATACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATG-TGACCATACCA-TCCAATACACGTAGTAGCCTGC
17756557 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
17756577 CCATCACTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
100 4 0.05
101 37 0.50
102 32 0.43
103 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCAATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGATACG
Found at i:17760982 original size:34 final size:33
Alignment explanation
Indices: 17760894--17760983 Score: 87
Period size: 34 Copynumber: 2.7 Consensus size: 33
17760884 GAATATAATA
17760894 AAAAT-ATATTTTT-ATTTTTA-TTTTTTATTTT
1 AAAATAAT-TTTTTAATTTTTATTTTTTTATTTT
* **
17760925 AAAATACTTTTAAAATATTTTTATTTTTTTATTTTT
1 AAAATAATTTT-TTA-ATTTTTATTTTTTTA-TTTT
*
17760961 AAAATAATTTTTTAATGTTTATT
1 AAAATAATTTTTTAATTTTTATT
17760984 AAAAAATGGG
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
31 8 0.17
32 1 0.02
34 15 0.33
35 8 0.17
36 14 0.30
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (33 bp):
AAAATAATTTTTTAATTTTTATTTTTTTATTTT
Found at i:17767131 original size:21 final size:22
Alignment explanation
Indices: 17767105--17767151 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
17767095 CTCTGCTCAA
*
17767105 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
17767126 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
17767148 ACTC
1 ACTC
17767152 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:17771206 original size:21 final size:22
Alignment explanation
Indices: 17771182--17771236 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
17771172 GTCTTAAATT
17771182 TAAATATAATATAATA-TAAAA
1 TAAATATAATATAATATTAAAA
*** *
17771203 TAAATATTCGACAATATTAAAA
1 TAAATATAATATAATATTAAAA
17771225 -AAATATAATATA
1 TAAATATAATATA
17771237 TGCATTGGAA
Statistics
Matches: 25, Mismatches: 8, Indels: 2
0.71 0.23 0.06
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (22 bp):
TAAATATAATATAATATTAAAA
Found at i:17772651 original size:16 final size:17
Alignment explanation
Indices: 17772622--17772655 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
17772612 AGGTAAAAAG
17772622 ACTAAAAATATATTTAT
1 ACTAAAAATATATTTAT
*
17772639 ACTAAAAA-CTATTTAT
1 ACTAAAAATATATTTAT
17772655 A
1 A
17772656 AGACAGTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (17 bp):
ACTAAAAATATATTTAT
Found at i:17776059 original size:18 final size:17
Alignment explanation
Indices: 17776038--17776085 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
17776028 CTATTTTAAA
17776038 CTTTAATTAATTTTATTT
1 CTTTAATTAA-TTTATTT
*
17776056 CTTTAATT-ATTTCTTT
1 CTTTAATTAATTTATTT
*
17776072 -TTTAATTAAATTAT
1 CTTTAATTAATTTAT
17776086 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 7 0.27
16 10 0.38
17 1 0.04
18 8 0.31
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
CTTTAATTAATTTATTT
Found at i:17776092 original size:17 final size:18
Alignment explanation
Indices: 17776069--17776109 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
17776059 TAATTATTTC
*
17776069 TTTTTTAATTAAATTATA
1 TTTTTAAATTAAATTATA
*
17776087 TTTTTAAAATTATATTATA
1 TTTTT-AAATTAAATTATA
17776106 TTTT
1 TTTT
17776110 AAACTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTTAAATTAAATTATA
Found at i:17784765 original size:66 final size:65
Alignment explanation
Indices: 17784652--17784784 Score: 178
Period size: 66 Copynumber: 2.0 Consensus size: 65
17784642 CAAATTGCTT
* * *
17784652 AACTTAAAGCGGAGACAGCATCGAGGGAAGCAGAGGCTCAAAGAAAATATGAAGAACTCCAGCTA
1 AACTTAAAGCGGAGACAGCAGCGAGGGAAGCAGAGGC-CAAAAAAAATATGAAGAACTCCAACTA
17784717 C
65 C
* * *
17784718 AACTTAAAGTGGAGGCAGCAGCGAGGGAAGCAGAGG-CAAGCAAAAAATATGACGAACTCCAACT
1 AACTTAAAGCGGAGACAGCAGCGAGGGAAGCAGAGGCCAA--AAAAAATATGAAGAACTCCAACT
17784782 AC
64 AC
17784784 A
1 A
17784785 GCTTCAGAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
64 3 0.05
66 56 0.95
ACGTcount: A:0.43, C:0.20, G:0.26, T:0.11
Consensus pattern (65 bp):
AACTTAAAGCGGAGACAGCAGCGAGGGAAGCAGAGGCCAAAAAAAATATGAAGAACTCCAACTAC
Found at i:17786057 original size:23 final size:24
Alignment explanation
Indices: 17786022--17786067 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
17786012 TAATAAAAAT
17786022 ATATTTAAAATATTTTT-TAATTG
1 ATATTTAAAATATTTTTATAATTG
* *
17786045 ATATTTTATATATTTTTATAATT
1 ATATTTAAAATATTTTTATAATT
17786068 AAATTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
ATATTTAAAATATTTTTATAATTG
Found at i:17793836 original size:31 final size:30
Alignment explanation
Indices: 17793799--17793876 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 30
17793789 CCCTTTGACC
*
17793799 AAAAATACAAAGATTAAAATTAA-CAAATTT
1 AAAAATACAAAGACTAAAATTAATCAAA-TT
* *
17793829 AAAAAATATAAAAACTAAAATTAATCAAATT
1 -AAAAATACAAAGACTAAAATTAATCAAATT
17793860 -AAAATACAAAGACTAAA
1 AAAAATACAAAGACTAAA
17793877 TCTGCAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 15 0.37
31 22 0.54
32 4 0.10
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.23
Consensus pattern (30 bp):
AAAAATACAAAGACTAAAATTAATCAAATT
Found at i:17800053 original size:31 final size:31
Alignment explanation
Indices: 17800018--17800077 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
17800008 AAGTTTGGGT
*
17800018 AGTGGTGTCCATGGGAAAGGCGGCACCAAGG
1 AGTGGTGCCCATGGGAAAGGCGGCACCAAGG
*
17800049 AGTGGTGCCCATGGGAAAGGTGGCACCAA
1 AGTGGTGCCCATGGGAAAGGCGGCACCAA
17800078 AGTACTGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.40, T:0.13
Consensus pattern (31 bp):
AGTGGTGCCCATGGGAAAGGCGGCACCAAGG
Found at i:17803428 original size:22 final size:22
Alignment explanation
Indices: 17803401--17803502 Score: 84
Period size: 25 Copynumber: 4.4 Consensus size: 22
17803391 CACTAATGAA
17803401 CAGAGAGCACTAAAGTGCTATA-
1 CAGAGAGCAC-AAAGTGCTATAT
*
17803423 CAGAGAGCACATATGTGCTA-AT
1 CAGAGAGCACA-AAGTGCTATAT
*
17803445 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCA-CAAAGTGCT-AT-AT
17803470 CAGAGAGCACCAACA-TGCTAATAAT
1 CAGAGAGCA-CAA-AGTGCT-AT-AT
17803495 CAGAGAGC
1 CAGAGAGC
17803503 GCGCTAAAGT
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
21 2 0.03
22 32 0.46
23 3 0.04
25 33 0.47
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.17
Consensus pattern (22 bp):
CAGAGAGCACAAAGTGCTATAT
Found at i:17803475 original size:25 final size:25
Alignment explanation
Indices: 17803441--17803502 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
17803431 ACATATGTGC
*
17803441 TAATCAGAGAGCACCAACGTGCTAA
1 TAATCAGAGAGCACCAACATGCTAA
17803466 TAATCAGAGAGCACCAACATGCTAA
1 TAATCAGAGAGCACCAACATGCTAA
17803491 TAATCAGAGAGC
1 TAATCAGAGAGC
17803503 GCGCTAAAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (25 bp):
TAATCAGAGAGCACCAACATGCTAA
Found at i:17803489 original size:47 final size:44
Alignment explanation
Indices: 17803401--17803491 Score: 103
Period size: 44 Copynumber: 2.0 Consensus size: 44
17803391 CACTAATGAA
* **
17803401 CAGAGAGCACTAAAGTGCTATACAGAGAGCACATATGTGCTAAT
1 CAGAGAGCACCAAAGTGCTATACAGAGAGCACATACATGCTAAT
*
17803445 CAGAGAGCACCAACGTGCTAATAATCAGAGAGCACCA-ACATGCTAAT
1 CAGAGAGCACCAAAGTGCT-AT-A-CAGAGAGCA-CATACATGCTAAT
17803492 AATCAGAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
44 17 0.44
45 2 0.05
46 1 0.03
47 17 0.44
48 2 0.05
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.18
Consensus pattern (44 bp):
CAGAGAGCACCAAAGTGCTATACAGAGAGCACATACATGCTAAT
Found at i:17804391 original size:9 final size:9
Alignment explanation
Indices: 17804375--17804405 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
17804365 CAAATTCCCT
17804375 TTTC-TTTC
1 TTTCTTTTC
17804383 TTTCTTTTC
1 TTTCTTTTC
17804392 TTTCTTTTC
1 TTTCTTTTC
17804401 TTTCT
1 TTTCT
17804406 CCTTCTCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.18
9 18 0.82
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:17804405 original size:13 final size:14
Alignment explanation
Indices: 17804373--17804403 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
17804363 CCCAAATTCC
17804373 CTTTTCTTTC-TTT
1 CTTTTCTTTCTTTT
17804386 CTTTTCTTTCTTTT
1 CTTTTCTTTCTTTT
17804400 CTTT
1 CTTT
17804404 CTCCTTCTCT
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:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
CTTTTCTTTCTTTT
Found at i:17804476 original size:8 final size:8
Alignment explanation
Indices: 17804456--17804509 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
17804446 TTTCTATTTG
17804456 TTAT-ATA
1 TTATAATA
17804463 TATATAATA
1 T-TATAATA
17804472 TTATAATA
1 TTATAATA
17804480 TTATAATA
1 TTATAATA
*
17804488 ATATAATTA
1 TTATAA-TA
*
17804497 ATATAATA
1 TTATAATA
17804505 CTTAT
1 -TTAT
17804510 TTATTAAGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
7 1 0.02
8 25 0.61
9 15 0.37
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (8 bp):
TTATAATA
Found at i:17806457 original size:7 final size:7
Alignment explanation
Indices: 17806445--17806470 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
17806435 CGAAACAGAG
17806445 AAGGAGA
1 AAGGAGA
17806452 AAGGAGA
1 AAGGAGA
17806459 AAGGAGA
1 AAGGAGA
17806466 AAGGA
1 AAGGA
17806471 AAAAAAAAAA
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:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (7 bp):
AAGGAGA
Found at i:17807367 original size:25 final size:25
Alignment explanation
Indices: 17807339--17807419 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
17807329 ACTTTAGCGC
*
17807339 GCTCTCTGATTTTTAGCAC-TTCAGT
1 GCTCTCTGATTATTAGCACGTT-AGT
*
17807364 GCTCTTTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
* * *
17807389 GCTCCCTGATTACTAGCATGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
17807414 GCTCTC
1 GCTCTC
17807420 CGTTTAGCAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 46 0.96
26 2 0.04
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.41
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTAGT
Found at i:17808368 original size:16 final size:16
Alignment explanation
Indices: 17808347--17808377 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17808337 AAAATAAAAA
*
17808347 AAATTAATCAGAAACT
1 AAATTAATCAAAAACT
17808363 AAATTAATCAAAAAC
1 AAATTAATCAAAAAC
17808378 ATTTATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.13, G:0.03, T:0.23
Consensus pattern (16 bp):
AAATTAATCAAAAACT
Found at i:17808670 original size:26 final size:27
Alignment explanation
Indices: 17808641--17808712 Score: 74
Period size: 32 Copynumber: 2.5 Consensus size: 27
17808631 CCCTTTCTTC
*
17808641 TTTCCTTCTCTTCT-CTTTTTTTCCCT
1 TTTCCTTCTCTTCTCCTCTTTTTCCCT
17808667 TTTCCTTCTATTCTATTCTCCTCTTTTTCCCT
1 TTTCCTTC---TC--TTCTCCTCTTTTTCCCT
*
17808699 TCTCCTTCTCTTCT
1 TTTCCTTCTCTTCT
17808713 TTTCTCTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
26 8 0.21
27 4 0.11
29 4 0.11
31 4 0.11
32 18 0.47
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTCCTTCTCTTCTCCTCTTTTTCCCT
Found at i:17808694 original size:32 final size:32
Alignment explanation
Indices: 17808658--17808718 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
17808648 CTCTTCTCTT
*
17808658 TTTTTCCCTTTTCCTTCTATTCTATTCTCCTC
1 TTTTTCCCTTCTCCTTCTATTCTATTCTCCTC
* *
17808690 TTTTTCCCTTCTCCTTCTCTTCTTTTCTC
1 TTTTTCCCTTCTCCTTCTATTCTATTCTC
17808719 TATTCTGCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.61
Consensus pattern (32 bp):
TTTTTCCCTTCTCCTTCTATTCTATTCTCCTC
Found at i:17811185 original size:3 final size:3
Alignment explanation
Indices: 17811177--17811208 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
17811167 AATTAAGTAA
17811177 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
17811209 AAACAAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:17813399 original size:14 final size:13
Alignment explanation
Indices: 17813379--17813413 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
17813369 CATAAAAGAG
17813379 ATAAATAATTAAA
1 ATAAATAATTAAA
17813392 ATTAAATAATTAAA
1 A-TAAATAATTAAA
17813406 ATAAATAA
1 ATAAATAA
17813414 GCAAGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAATAATTAAA
Found at i:17814846 original size:31 final size:30
Alignment explanation
Indices: 17814806--17814863 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
17814796 CATTATTATC
* *
17814806 CAAAAAAATGAATAGCAAAGTTGGAGCTCT
1 CAAAAAAATGAAAAGCAAAGTTAGAGCTCT
*
17814836 CAAAATAAATGAAAAGCAACGTTAGAGC
1 CAAAA-AAATGAAAAGCAAAGTTAGAGC
17814864 GATGATTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.50, C:0.14, G:0.19, T:0.17
Consensus pattern (30 bp):
CAAAAAAATGAAAAGCAAAGTTAGAGCTCT
Found at i:17816127 original size:21 final size:21
Alignment explanation
Indices: 17816103--17816143 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
17816093 GTGGCGACCA
*
17816103 GGGAAAAAGAAAACGAAAAAT
1 GGGAAAAAGAAAAAGAAAAAT
17816124 GGGAAAAAGAAAAAGAAAAA
1 GGGAAAAAGAAAAAGAAAAA
17816144 AAGGTACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.02
Consensus pattern (21 bp):
GGGAAAAAGAAAAAGAAAAAT
Found at i:17831841 original size:17 final size:16
Alignment explanation
Indices: 17831815--17831855 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
17831805 TAATCTAATT
*
17831815 TATTTGATATATTTAAA
1 TATTTTATATA-TTAAA
17831832 TATTTTATATATTAAA
1 TATTTTATATATTAAA
17831848 TATATTTA
1 TAT-TTTA
17831856 AAAACATCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (16 bp):
TATTTTATATATTAAA
Found at i:17832283 original size:17 final size:19
Alignment explanation
Indices: 17832252--17832291 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
17832242 CGTAGCTTTT
17832252 AAAATAAAATAAAAACT-A
1 AAAATAAAATAAAAACTGA
*
17832270 AAAATAAAGT-AAAACTGA
1 AAAATAAAATAAAAACTGA
17832288 AAAA
1 AAAA
17832292 AGTGAGGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAATAAAATAAAAACTGA
Found at i:17835394 original size:37 final size:36
Alignment explanation
Indices: 17835343--17835412 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
17835333 ATTCCAAAAA
*
17835343 TAATATTATTTTAATAGT-TTATTATTAAATTAAATT
1 TAATATTATCTTAATAGTATT-TTATTAAATTAAATT
*
17835379 TAATAATTATCTTAATAGTATTTTATTAATTTAA
1 TAAT-ATTATCTTAATAGTATTTTATTAAATTAA
17835413 TATTAAAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 4 0.13
37 24 0.80
38 2 0.07
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTTTATTAAATTAAATT
Found at i:17836520 original size:21 final size:21
Alignment explanation
Indices: 17836463--17836531 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
17836453 AAGTTCATGA
*
17836463 ATAAACCACCAATCTTTACAG
1 ATAAACCACCAATGTTTACAG
* *
17836484 ATAAACCACTAATGTTTGCAG
1 ATAAACCACCAATGTTTACAG
* * *
17836505 ATAAACCACCAGTGTTCATAG
1 ATAAACCACCAATGTTTACAG
17836526 ATAAAC
1 ATAAAC
17836532 TGCCAGTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (21 bp):
ATAAACCACCAATGTTTACAG
Found at i:17838462 original size:37 final size:37
Alignment explanation
Indices: 17838412--17838485 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
17838402 CGGGATACAT
17838412 GGCATAAGGGCTAGCTTACGCTTTTCGAAGTATAGTC
1 GGCATAAGGGCTAGCTTACGCTTTTCGAAGTATAGTC
17838449 GGCATAAGGGCTAGCTTACGCTTTTCGAAGTATAGTC
1 GGCATAAGGGCTAGCTTACGCTTTTCGAAGTATAGTC
17838486 TGTTTAAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (37 bp):
GGCATAAGGGCTAGCTTACGCTTTTCGAAGTATAGTC
Found at i:17842310 original size:4 final size:4
Alignment explanation
Indices: 17842303--17842330 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
17842293 TACAATAAAT
17842303 ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC
17842331 TGATTTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:17842687 original size:27 final size:27
Alignment explanation
Indices: 17842656--17842707 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
17842646 CACACATTTC
*
17842656 ATTT-ATTTCACATTTTAGTCCCTAAAA
1 ATTTAATTTCACAATTTAG-CCCTAAAA
17842683 ATTTAATTTCACAATTTAGCCCTAA
1 ATTTAATTTCACAATTTAGCCCTAA
17842708 TTACTCAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.35, C:0.19, G:0.04, T:0.42
Consensus pattern (27 bp):
ATTTAATTTCACAATTTAGCCCTAAAA
Found at i:17842717 original size:27 final size:28
Alignment explanation
Indices: 17842660--17842721 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
17842650 CATTTCATTT
* * *
17842660 ATTTCACATTTTAGTCCCTAAAAATTTA
1 ATTTCACAATTTAGTCCCTAAAAACTCA
**
17842688 ATTTCACAATTTAG-CCCTAATTACTCA
1 ATTTCACAATTTAGTCCCTAAAAACTCA
17842715 ATTTCAC
1 ATTTCAC
17842722 CAATAATTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (28 bp):
ATTTCACAATTTAGTCCCTAAAAACTCA
Found at i:17843964 original size:29 final size:30
Alignment explanation
Indices: 17843931--17844040 Score: 138
Period size: 29 Copynumber: 3.8 Consensus size: 30
17843921 TAAACACAAA
* *
17843931 AAAAAT-TTAGAAAATTAAAAAAAGTATTTT
1 AAAAATATTATAAAAAT-AAAAAAGTATTTT
*
17843961 AAAAATATTTTAAAAATAAAAAAGTATTTT
1 AAAAATATTATAAAAATAAAAAAGTATTTT
* *
17843991 -AAAATATTTTAAAAATAAAAAATTATTTT
1 AAAAATATTATAAAAATAAAAAAGTATTTT
17844020 -AAAATATT-TAAAAATAAAAAA
1 AAAAATATTATAAAAATAAAAAA
17844041 TATATATTTA
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
28 13 0.17
29 36 0.48
30 19 0.25
31 7 0.09
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAAATATTATAAAAATAAAAAAGTATTTT
Found at i:17843982 original size:30 final size:29
Alignment explanation
Indices: 17843948--17844040 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
17843938 TAGAAAATTA
17843948 AAAAAAGTATTTTAAAAATATTTTAAAAAT
1 AAAAAAGTATTTT-AAAATATTTTAAAAAT
17843978 AAAAAAGTATTTTAAAATATTTTAAAAAT
1 AAAAAAGTATTTTAAAATATTTTAAAAAT
*
17844007 AAAAAATTATTTTAAAATA-TTTAAAAAT
1 AAAAAAGTATTTTAAAATATTTTAAAAAT
17844035 AAAAAA
1 AAAAAA
17844041 TATATATTTA
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
28 15 0.24
29 34 0.55
30 13 0.21
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAAAAGTATTTTAAAATATTTTAAAAAT
Found at i:17852262 original size:15 final size:15
Alignment explanation
Indices: 17852237--17852290 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
17852227 TAAGGAAAAG
17852237 GAAAGGAAAAAGAATA
1 GAAA-GAAAAAGAATA
* *
17852253 GAAAGAAAAAAAAAA
1 GAAAGAAAAAGAATA
* *
17852268 GAATGAAAAGGAAT-
1 GAAAGAAAAAGAATA
17852282 GAAAGAAAA
1 GAAAGAAAA
17852291 GAAAATAAGG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
14 8 0.26
15 19 0.61
16 4 0.13
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (15 bp):
GAAAGAAAAAGAATA
Found at i:17859629 original size:20 final size:20
Alignment explanation
Indices: 17859592--17859634 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
17859582 TAAAATACCA
** * *
17859592 AAAAACCCAACGATCAAAGC
1 AAAAACCCAAAAAACAAACC
17859612 AAAAACCCAAAAAACAAACC
1 AAAAACCCAAAAAACAAACC
17859632 AAA
1 AAA
17859635 TCCGAAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.65, C:0.28, G:0.05, T:0.02
Consensus pattern (20 bp):
AAAAACCCAAAAAACAAACC
Found at i:17859901 original size:24 final size:23
Alignment explanation
Indices: 17859853--17859906 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
17859843 ACAAATACGT
* *
17859853 TTTCAGATACAGATTCAAATATA
1 TTTCATATACAGAATCAAATATA
* *
17859876 TTCTCATATACAGAATCAATTGTA
1 TT-TCATATACAGAATCAAATATA
17859900 TTTCATA
1 TTTCATA
17859907 ATCGGATACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (23 bp):
TTTCATATACAGAATCAAATATA
Found at i:17866840 original size:17 final size:17
Alignment explanation
Indices: 17866818--17866852 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17866808 AAGACCATAT
17866818 ATGGGATATTACGTGTA
1 ATGGGATATTACGTGTA
17866835 ATGGGATATTACGTGTA
1 ATGGGATATTACGTGTA
17866852 A
1 A
17866853 GACCATATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.34
Consensus pattern (17 bp):
ATGGGATATTACGTGTA
Found at i:17866982 original size:43 final size:43
Alignment explanation
Indices: 17866842--17867002 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 43
17866832 GTAATGGGAT
* *
17866842 ATTACGTGTAAGACCATATCTGGGATA-TGGCATTGATATGAG
1 ATTACGTGTAAGACCATGTCTGGGATATTGGCATCGATATGAG
* * *
17866884 ACTT-CGTGTAAGTCCATGTCTGGGATATTGACATCGATATGTG
1 A-TTACGTGTAAGACCATGTCTGGGATATTGGCATCGATATGAG
* * ** * *
17866927 ATTTCGTATAAGACCATGGATGGGCTATTGGCATCGATACGAG
1 ATTACGTGTAAGACCATGTCTGGGATATTGGCATCGATATGAG
* * * *
17866970 ATTACATGTAAGACTATATATGGGATA-TGGCAT
1 ATTACGTGTAAGACCATGTCTGGGATATTGGCAT
17867003 TGTTACAGTA
Statistics
Matches: 96, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 30 0.31
43 66 0.69
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (43 bp):
ATTACGTGTAAGACCATGTCTGGGATATTGGCATCGATATGAG
Found at i:17873391 original size:43 final size:42
Alignment explanation
Indices: 17873236--17873400 Score: 152
Period size: 43 Copynumber: 3.9 Consensus size: 42
17873226 TTAGGGTTAT
*
17873236 CGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 CGAGATTACGTGTAAGACCATATATGGGATATGGCATCGATA
* * * * ** * *
17873278 TGAGACTT-TGTGTAAGTCCATGTCCGTGACATTGGCATCGATA
1 CGAGA-TTACGTGTAAGACCATATATGGGATA-TGGCATCGATA
* * * ** *
17873321 TGTGATTTCGTGTAAGACCATGGATGGGCTATTGGCATCGATA
1 CGAGATTACGTGTAAGACCATATATGGGATA-TGGCATCGATA
*
17873364 CGAGATTACATGTAAGACCATATATGGGATATGGCAT
1 CGAGATTACGTGTAAGACCATATATGGGATATGGCAT
17873401 TGTTACAGTA
Statistics
Matches: 97, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
42 29 0.30
43 68 0.70
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (42 bp):
CGAGATTACGTGTAAGACCATATATGGGATATGGCATCGATA
Found at i:17878838 original size:37 final size:36
Alignment explanation
Indices: 17878797--17878869 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 36
17878787 CTTGAAATAA
*
17878797 AATATAATT-TAATAAGAATTTAATTTTATATTATTTT
1 AATATAATTCTAA-AAGAATTAAATTTT-TATTATTTT
*
17878834 AATATAATTCTAAATGAATTAAATTTTTATTATTTT
1 AATATAATTCTAAAAGAATTAAATTTTTATTATTTT
17878870 GTAATTAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 9 0.27
37 21 0.64
38 3 0.09
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (36 bp):
AATATAATTCTAAAAGAATTAAATTTTTATTATTTT
Found at i:17879438 original size:45 final size:47
Alignment explanation
Indices: 17879388--17879481 Score: 138
Period size: 45 Copynumber: 2.0 Consensus size: 47
17879378 ATTGGCCACT
* *
17879388 TATAAATAATTAATAATAAATAATATGTAATTTATTTAAA-A-TTAG
1 TATAAATAATTAATAATAAATAATATATAATTTAATTAAATATTTAG
* *
17879433 TATAAATAATTCATAATAAATATTATATAATTTAATTAAATATTTAG
1 TATAAATAATTAATAATAAATAATATATAATTTAATTAAATATTTAG
17879480 TA
1 TA
17879482 AGCCAAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 36 0.84
46 1 0.02
47 6 0.14
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (47 bp):
TATAAATAATTAATAATAAATAATATATAATTTAATTAAATATTTAG
Found at i:17881912 original size:38 final size:38
Alignment explanation
Indices: 17881806--17881917 Score: 118
Period size: 38 Copynumber: 2.9 Consensus size: 38
17881796 ACCTAGTGAG
* * *
17881806 TACATGTTAAGCGTGTCAACTGCTAGTGTTAAATTGAA
1 TACATGTTAAGCATGTTAACTGCTAGTGTTGAATTGAA
* * * * *
17881844 TGCATGATAAGCATGTTGATTGGC-AATGTTGAATTGAA
1 TACATGTTAAGCATGTTAACT-GCTAGTGTTGAATTGAA
* *
17881882 TACATGTTAAGCATGTTTACTACTAGTGTTGAATTG
1 TACATGTTAAGCATGTTAACTGCTAGTGTTGAATTG
17881918 TTCATAGCTT
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
37 1 0.02
38 55 0.95
39 2 0.03
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (38 bp):
TACATGTTAAGCATGTTAACTGCTAGTGTTGAATTGAA
Found at i:17886666 original size:85 final size:86
Alignment explanation
Indices: 17886522--17886683 Score: 238
Period size: 85 Copynumber: 1.9 Consensus size: 86
17886512 CAAATAAGTA
* * * *
17886522 GTGGCTCGTCCACAAAACCCAGTGGCAGTTTGTTTAATCTGCAAATAAGTTGTACACTCACAACA
1 GTGGCTCGTCCACAAAACCCAATGGCAGTTTGTTTAACCTGCAAACAAGTCGTACACTCACAACA
17886587 AGTGGCAGTAACTGTAAATAT
66 AGTGGCAGTAACTGTAAATAT
* *
17886608 GTGGCTCGTCCAC-AAACCCAATGGCAGTTTGTTTAACCTG-AAACCATGTCGTGCACTCACAAC
1 GTGGCTCGTCCACAAAACCCAATGGCAGTTTGTTTAACCTGCAAA-CAAGTCGTACACTCACAAC
*
17886671 AAGTGGTAGTAAC
65 AAGTGGCAGTAAC
17886684 CGAAAATGAT
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
84 3 0.04
85 52 0.76
86 13 0.19
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (86 bp):
GTGGCTCGTCCACAAAACCCAATGGCAGTTTGTTTAACCTGCAAACAAGTCGTACACTCACAACA
AGTGGCAGTAACTGTAAATAT
Found at i:17886905 original size:165 final size:165
Alignment explanation
Indices: 17886633--17886958 Score: 526
Period size: 165 Copynumber: 2.0 Consensus size: 165
17886623 ACCCAATGGC
* *
17886633 AGTTTGTTTAACCTGAAACCATGTCGTGCACTCACAACAAGTGGTAGTAACCGAAAATGATTTTA
1 AGTTTGTTTAACCTGAAACCATGTCGTGCACTCACAACAAGTGGCAGCAACCGAAAATGATTTTA
* *
17886698 TCTAATATACTAGTGGTTTACCTACATTTTTCTTTACAAAGTGGCAGTTTATCTACAAACTAGTG
66 TCTAATATACTAGTGGTTTACCCACATTTTTCTTTACAAAGTGGCAGTTTATCTACAAACCAGTG
* * *
17886763 GTGGCTCGTCTACAATCCAGATTGATATGTTAGAT
131 GTGGCTCGTCCACAATCAAGAGTGATATGTTAGAT
* * * *
17886798 AGTTTGTTTAACCTGAAACCATGTTGTGCACTCACAATAAGTGGCAGCAACTGCAAATGATTTTA
1 AGTTTGTTTAACCTGAAACCATGTCGTGCACTCACAACAAGTGGCAGCAACCGAAAATGATTTTA
* *
17886863 TCTAATATACTAGTGGTTTACCCACGTTTTTCTTTACAAAGTGGCAGTTTATCTGCAAACCAGTG
66 TCTAATATACTAGTGGTTTACCCACATTTTTCTTTACAAAGTGGCAGTTTATCTACAAACCAGTG
*
17886928 GTGGCTCGTCCACAATCAAGAGTGATGTGTT
131 GTGGCTCGTCCACAATCAAGAGTGATATGTT
17886959 GCAGAGTTGG
Statistics
Matches: 147, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
165 147 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (165 bp):
AGTTTGTTTAACCTGAAACCATGTCGTGCACTCACAACAAGTGGCAGCAACCGAAAATGATTTTA
TCTAATATACTAGTGGTTTACCCACATTTTTCTTTACAAAGTGGCAGTTTATCTACAAACCAGTG
GTGGCTCGTCCACAATCAAGAGTGATATGTTAGAT
Found at i:17888438 original size:22 final size:22
Alignment explanation
Indices: 17888413--17888455 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17888403 TCTTTAAATC
*
17888413 TCAAA-GAGTAAGTGGATATTTT
1 TCAAATGAGAAAGT-GATATTTT
17888435 TCAAATGAGAAAGTGATATTT
1 TCAAATGAGAAAGTGATATTT
17888456 CCCTAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (22 bp):
TCAAATGAGAAAGTGATATTTT
Found at i:17907969 original size:86 final size:84
Alignment explanation
Indices: 17907823--17907987 Score: 240
Period size: 86 Copynumber: 1.9 Consensus size: 84
17907813 CACATGCATA
* * * * *
17907823 AGGTTGAGTTCTTACTCTTAATGAATTCATAGCCAGGGTTTGGATGGTCCTATTGAGACAGACTT
1 AGGTTGAGTTATTACTCTTAATGAATTCATAACCAGAGTTTGGATGATCCTACTGAGACAGACTT
17907888 GATGAATTCACTGACATGT
66 GATGAATTCACTGACATGT
* * *
17907907 AGGTTGAGTTTATTACTCTTAATGAGTTCATATATCAGAGTTTGGGTGATCCTACTGAGACAGAC
1 AGGTTGAG-TTATTACTCTTAATGAATTCATA-ACCAGAGTTTGGATGATCCTACTGAGACAGAC
17907972 TTGATGAATTCACTGA
64 TTGATGAATTCACTGA
17907988 ATTTAAATTT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
84 8 0.11
85 21 0.30
86 42 0.59
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (84 bp):
AGGTTGAGTTATTACTCTTAATGAATTCATAACCAGAGTTTGGATGATCCTACTGAGACAGACTT
GATGAATTCACTGACATGT
Found at i:17909722 original size:28 final size:28
Alignment explanation
Indices: 17909682--17909738 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
17909672 CTTTGTATAG
17909682 ATGTCCTCATTGGTTTTGCTTGACAAAC
1 ATGTCCTCATTGGTTTTGCTTGACAAAC
17909710 ATGTCCTCATTGGTTTTGCTTGACAAAC
1 ATGTCCTCATTGGTTTTGCTTGACAAAC
17909738 A
1 A
17909739 AATGACTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (28 bp):
ATGTCCTCATTGGTTTTGCTTGACAAAC
Found at i:17931620 original size:17 final size:17
Alignment explanation
Indices: 17931580--17931622 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
17931570 TATTCGGTAA
17931580 TATTATTATTAATCTAT
1 TATTATTATTAATCTAT
* * *
17931597 TAGTATTATTAATTTTT
1 TATTATTATTAATCTAT
17931614 TATTATTAT
1 TATTATTAT
17931623 CACCGTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
TATTATTATTAATCTAT
Found at i:17933744 original size:54 final size:54
Alignment explanation
Indices: 17933660--17933768 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
17933650 TAGATTGATG
* * *
17933660 TCAACTAACTTGTGACACCAAACCCGTAAAATATTTAATATTTGTACAGATACA
1 TCAACTAACTTGTGACACCAAACCCATAAAAGACTTAATATTTGTACAGATACA
*
17933714 TCAACTAACTTGTGACACCAAACCCATAAAAGACTTGATATTTGTACAGATACA
1 TCAACTAACTTGTGACACCAAACCCATAAAAGACTTAATATTTGTACAGATACA
17933768 T
1 T
17933769 AGACCTTGGC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.28
Consensus pattern (54 bp):
TCAACTAACTTGTGACACCAAACCCATAAAAGACTTAATATTTGTACAGATACA
Found at i:17936298 original size:237 final size:237
Alignment explanation
Indices: 17935883--17936357 Score: 932
Period size: 237 Copynumber: 2.0 Consensus size: 237
17935873 ACCAAATCAT
17935883 AAGACATCTTGAAAATCCAAAGCTTGAAAACATGCACCAAGGAAAACTATCCTCTTGACAAATCA
1 AAGACATCTTGAAAATCCAAAGCTTGAAAACATGCACCAAGGAAAACTATCCTCTTGACAAATCA
*
17935948 ACATTCTCAACAAAGTACTAAAAAACAGGACATAATGTCTTTCATCAGATTTTAAATTTTTAAAT
66 ACATTCTCAACAAAGTACTAAAAAACAGGAAATAATGTCTTTCATCAGATTTTAAATTTTTAAAT
17936013 AAATAAGAATCTGACCTGTAATAGTTATTAGATGTAGAACTCAATGGAAGGCCCAACCCCAAGAA
131 AAATAAGAATCTGACCTGTAATAGTTATTAGATGTAGAACTCAATGGAAGGCCCAACCCCAAGAA
17936078 AGATTAGAAATCATCAATTAAATGCATCAAACTAAACTATAA
196 AGATTAGAAATCATCAATTAAATGCATCAAACTAAACTATAA
17936120 AAGACATCTTGAAAATCCAAAGCTTGAAAACATGCACCAAGGAAAACTATCCTCTTGACAAATCA
1 AAGACATCTTGAAAATCCAAAGCTTGAAAACATGCACCAAGGAAAACTATCCTCTTGACAAATCA
17936185 ACATTCTCAACAAAGTACTAAAAAACAGGAAATAATGTCTTTCATCAGATTTTAAATTTTTAAAT
66 ACATTCTCAACAAAGTACTAAAAAACAGGAAATAATGTCTTTCATCAGATTTTAAATTTTTAAAT
17936250 AAATAAGAATCTGACCTGTAATAGTTATTAGATGTAGAACTCAATGGAAGGCCCAACCCCAAGAA
131 AAATAAGAATCTGACCTGTAATAGTTATTAGATGTAGAACTCAATGGAAGGCCCAACCCCAAGAA
*
17936315 AGATTAGAAATCATCAATTAAATGTATCAAACTAAACTATAA
196 AGATTAGAAATCATCAATTAAATGCATCAAACTAAACTATAA
17936357 A
1 A
17936358 CCCCATGAAA
Statistics
Matches: 236, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
237 236 1.00
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (237 bp):
AAGACATCTTGAAAATCCAAAGCTTGAAAACATGCACCAAGGAAAACTATCCTCTTGACAAATCA
ACATTCTCAACAAAGTACTAAAAAACAGGAAATAATGTCTTTCATCAGATTTTAAATTTTTAAAT
AAATAAGAATCTGACCTGTAATAGTTATTAGATGTAGAACTCAATGGAAGGCCCAACCCCAAGAA
AGATTAGAAATCATCAATTAAATGCATCAAACTAAACTATAA
Found at i:17936933 original size:21 final size:20
Alignment explanation
Indices: 17936909--17936949 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
17936899 TTAAAATCAG
*
17936909 GTTTGGTTTGAAAAGCTGCTT
1 GTTTGGGTTGAAAAG-TGCTT
17936930 GTTTGGGTTGAAAAGTGCTT
1 GTTTGGGTTGAAAAGTGCTT
17936950 TTGAATCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.07, G:0.32, T:0.41
Consensus pattern (20 bp):
GTTTGGGTTGAAAAGTGCTT
Found at i:17937484 original size:19 final size:19
Alignment explanation
Indices: 17937462--17937519 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
17937452 ATTTTTTTAT
* *
17937462 TTTTTATATATTCTTTAGAT
1 TTTTTATATATT-TTTAAAA
17937482 TTTTTA-ATATTTTTAAAA
1 TTTTTATATATTTTTAAAA
*
17937500 TTTTTATAATTTTTTTAAAA
1 TTTTTAT-ATATTTTTAAAA
17937520 ATATAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 11 0.33
19 5 0.15
20 17 0.52
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTATATATTTTTAAAA
Found at i:17937509 original size:20 final size:20
Alignment explanation
Indices: 17937462--17937519 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 20
17937452 ATTTTTTTAT
*
17937462 TTTTTAT-ATATTCTTT-AGA
1 TTTTTATAATATT-TTTAAAA
17937481 TTTTT-TAATATTTTTAAAA
1 TTTTTATAATATTTTTAAAA
*
17937500 TTTTTATAATTTTTTTAAAA
1 TTTTTATAATATTTTTAAAA
17937520 ATATAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 4 0.12
19 17 0.50
20 13 0.38
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTTATAATATTTTTAAAA
Found at i:17937543 original size:18 final size:17
Alignment explanation
Indices: 17937521--17937576 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 17
17937511 TTTTTAAAAA
17937521 TATAAATTTTGGAATTT
1 TATAAATTTTGGAATTT
17937538 TCATAAATACTTT-GAATTT
1 T-ATAAAT--TTTGGAATTT
*
17937557 TAAAAATTATTGTGAATTT
1 TATAAATT-TTG-GAATTT
17937576 T
1 T
17937577 TTTGTAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 1 0.03
17 3 0.09
18 11 0.34
19 14 0.44
20 3 0.09
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.50
Consensus pattern (17 bp):
TATAAATTTTGGAATTT
Found at i:17942327 original size:3 final size:3
Alignment explanation
Indices: 17942319--17942359 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
17942309 TTTAGTTTCC
* *
17942319 TAT TAT TAT TAT TAT TAT TAT TAC TAC TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
17942360 ACCCCTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:17948283 original size:65 final size:65
Alignment explanation
Indices: 17948179--17948309 Score: 208
Period size: 65 Copynumber: 2.0 Consensus size: 65
17948169 CAATTAATTG
* * *
17948179 AAGGTATTAACTATTCGTGTTAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAA
1 AAGGTATCAACTATACGAGTTAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAA
* * *
17948244 AAGGTATCAATTATACGAGTTAATTTTGATGTCTCAAGCTTTTGATATAACAATATTTAAGATAA
1 AAGGTATCAACTATACGAGTTAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAA
17948309 A
1 A
17948310 TTTTTTTATA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (65 bp):
AAGGTATCAACTATACGAGTTAATTTTGATATCTCAAGCTTTTGATATAACAACATTTAAGATAA
Found at i:17948553 original size:22 final size:22
Alignment explanation
Indices: 17948523--17948579 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
17948513 TGGGTTGCAA
*
17948523 GTCTAGAGACAT-TGGCCTATAT
1 GTCTCGAGACATAT-GCCTATAT
* * *
17948545 GTCTCGAGACATATGTCTGTTT
1 GTCTCGAGACATATGCCTATAT
17948567 GTCTCGAGACATA
1 GTCTCGAGACATA
17948580 GCCCGCCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (22 bp):
GTCTCGAGACATATGCCTATAT
Found at i:17956772 original size:102 final size:101
Alignment explanation
Indices: 17956590--17956929 Score: 484
Period size: 102 Copynumber: 3.3 Consensus size: 101
17956580 AAGTATTTTA
* * * *
17956590 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGCTGCTAAGTGCTTATTCCCCGACTC
1 AATGTAAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTAATTCCCCGAATC
* *
17956655 ATTGGTGGTTACTAAGTGCTGATTCCATCGTATCTTG
66 ATTGGTGGTTGCTAAGTGCTGATTCCA-CATATCTTG
* *
17956692 AATATAAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTAATTCCCCGATTC
1 AATGTAAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTAATTCCCCGAATC
* * * *
17956757 ATTGGTTGTTGCTAAGTGCTGATCCCACCATATTTTA
66 ATTGGTGGTTGCTAAGTGCTGATTCCA-CATATCTTG
* * * *
17956794 AATGTGAAGGGGGTTGCTAAGTGCTGATTCCCTCAAGGGGTTGCTATGTGCTGATTCCCCGAATC
1 AATGTAAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTAATTCCCCGAATC
17956859 ATTGGTGGTTGCTAAGTGCTGATTCCACTATATCTTTG
66 ATTGGTGGTTGCTAAGTGCTGATTCCAC-ATATC-TTG
17956897 AATGTGAAA-GGGGTTGCTAAGTGCTGATTCCCC
1 AATGT-AAAGGGGGTTGCTAAGTGCTGATTCCCC
17956930 GAATCACTGG
Statistics
Matches: 211, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
101 1 0.00
102 178 0.84
103 30 0.14
104 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (101 bp):
AATGTAAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTAATTCCCCGAATC
ATTGGTGGTTGCTAAGTGCTGATTCCACATATCTTG
Found at i:17956839 original size:27 final size:29
Alignment explanation
Indices: 17956803--17956884 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 29
17956793 AAATGTGAAG
17956803 GGGGTTGCTAAGTGCTGATTCCC-TCA-A
1 GGGGTTGCTAAGTGCTGATTCCCATCATA
* *
17956830 GGGGTTGCTATGTGCTGATTCCCCGAATCATT
1 GGGGTTGCTAAGTGCTGATT-CCC--ATCATA
17956862 GGTGGTTGCTAAGTGCTGATTCC
1 GG-GGTTGCTAAGTGCTGATTCC
17956885 ACTATATCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
27 19 0.41
28 3 0.07
31 3 0.07
32 4 0.09
33 17 0.37
ACGTcount: A:0.16, C:0.21, G:0.30, T:0.33
Consensus pattern (29 bp):
GGGGTTGCTAAGTGCTGATTCCCATCATA
Found at i:17956878 original size:33 final size:33
Alignment explanation
Indices: 17956805--17956965 Score: 118
Period size: 33 Copynumber: 4.7 Consensus size: 33
17956795 ATGTGAAGGG
*
17956805 GGTTGCTAAGTGCTGATT-CCC---TCA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
17956832 GGTTGCTATGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
17956865 GGTTGCTAAGTGCTGATTCCACTATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCCCGA-ATC-----AT-TG---GT
*
17956908 GGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
17956941 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
17956966 TAACGGTTAA
Statistics
Matches: 106, Mismatches: 11, Indels: 27
0.74 0.08 0.19
Matches are distributed among these distances:
27 17 0.16
28 3 0.03
31 3 0.03
32 2 0.02
33 41 0.39
34 7 0.07
36 2 0.02
37 1 0.01
39 2 0.02
40 2 0.02
42 3 0.03
43 23 0.22
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:17959481 original size:16 final size:17
Alignment explanation
Indices: 17959454--17959498 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
17959444 TTAATAGTTT
* *
17959454 TTAAAAGGTTAATTTAG
1 TTAAAAGATTAATTAAG
*
17959471 -TAAATGATTAATTAAG
1 TTAAAAGATTAATTAAG
17959487 TTAAAAGATTAA
1 TTAAAAGATTAA
17959499 ATAAAACAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (17 bp):
TTAAAAGATTAATTAAG
Found at i:17965965 original size:4 final size:4
Alignment explanation
Indices: 17965956--17965987 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
17965946 CTATTGACAC
17965956 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
17965988 CACCTCAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:17966050 original size:38 final size:38
Alignment explanation
Indices: 17965964--17966036 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
17965954 ACATGTATGT
**
17965964 ATGTATGTATGTATGTATGTATGTCACCTCAGTGACAC
1 ATGTATGTATGTATGTATGTATGTCACCTCAGAAACAC
17966002 ATGTATGTATGTATGTATGTATGTCACCTCAGAAA
1 ATGTATGTATGTATGTATGTATGTCACCTCAGAAA
17966037 ATCCAGTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.37
Consensus pattern (38 bp):
ATGTATGTATGTATGTATGTATGTCACCTCAGAAACAC
Found at i:17966946 original size:18 final size:19
Alignment explanation
Indices: 17966924--17966971 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
17966914 TTGTTCAGAA
17966924 ATATTTATTTTGATGT-TT
1 ATATTTATTTTGATGTATT
*
17966942 TTA-TTATTTTTGATGTATT
1 ATATTTA-TTTTGATGTATT
*
17966961 ATATGTATTTT
1 ATATTTATTTT
17966972 AAAATTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 3 0.12
18 11 0.46
19 8 0.33
20 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (19 bp):
ATATTTATTTTGATGTATT
Found at i:17970223 original size:7 final size:7
Alignment explanation
Indices: 17970211--17970248 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
17970201 AGATAGACAT
17970211 GCAGATA
1 GCAGATA
17970218 GCAGATA
1 GCAGATA
17970225 GCAGATA
1 GCAGATA
17970232 GCAGATA
1 GCAGATA
*
17970239 GCACATA
1 GCAGATA
17970246 GCA
1 GCA
17970249 ATAATAATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.42, C:0.18, G:0.26, T:0.13
Consensus pattern (7 bp):
GCAGATA
Found at i:17978208 original size:40 final size:40
Alignment explanation
Indices: 17978153--17978232 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
17978143 AGCCCGTAGG
17978153 CATAAAATGTATATACATATACAAATATATCACTACACCA
1 CATAAAATGTATATACATATACAAATATATCACTACACCA
* *
17978193 CATAAAATGTATATACATTTACAAATATATCCCTACACCA
1 CATAAAATGTATATACATATACAAATATATCACTACACCA
17978233 TACCAAGGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (40 bp):
CATAAAATGTATATACATATACAAATATATCACTACACCA
Found at i:17983344 original size:42 final size:42
Alignment explanation
Indices: 17983208--17983416 Score: 226
Period size: 42 Copynumber: 5.0 Consensus size: 42
17983198 TACTGAAGTA
* *
17983208 CACCGGCATGAAGCCTGCCAGACA-ATAAGTCTG-AAATAATT
1 CACCGGCATCAAGCCTGCTAGACATA-AAGTCTGAAAATAATT
* * *
17983249 TACCGGCATCAAGCCTGCTAAACATAAAGTCTG-AAGTAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAAATAATT
* *
17983290 CACTGGCATCAAGCTTGCTAGACATAAAGTCTGAAAATAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAAATAATT
* * * * *
17983332 CACCGGCATCAAGCTTGCTAGGCATTAAGCCTAAAAATAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAAATAATT
* * * * *
17983374 CACTGGCATCAAGCCTACTAGGCATTAAGCCTGAAAATCAATT
1 CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAAAT-AATT
17983417 ATATTCCAAT
Statistics
Matches: 146, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
41 63 0.43
42 79 0.54
43 4 0.03
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (42 bp):
CACCGGCATCAAGCCTGCTAGACATAAAGTCTGAAAATAATT
Found at i:17991924 original size:42 final size:42
Alignment explanation
Indices: 17991849--17991996 Score: 172
Period size: 42 Copynumber: 3.5 Consensus size: 42
17991839 ATAATTCACC
* * *
17991849 GGCATAAAGTCTG-AAGTAATTCACCGGTATCAAGCCTGCTA
1 GGCATAAAGCCTGAAAATAATTCACCGGCATCAAGCCTGCTA
* * * * *
17991890 GACATAAAGTCTGAAAATAATTTACCAGCATCAAGCTTGCTA
1 GGCATAAAGCCTGAAAATAATTCACCGGCATCAAGCCTGCTA
* * *
17991932 GGCATTAAGCCTAAAAATAATTCACCGGCATCAAGCCTACTA
1 GGCATAAAGCCTGAAAATAATTCACCGGCATCAAGCCTGCTA
*
17991974 GGCATTAAGCCTGAAAATCAATT
1 GGCATAAAGCCTGAAAAT-AATT
17991997 ATATTCCAAT
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 12 0.13
42 74 0.82
43 4 0.04
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (42 bp):
GGCATAAAGCCTGAAAATAATTCACCGGCATCAAGCCTGCTA
Found at i:17992994 original size:30 final size:30
Alignment explanation
Indices: 17992954--17993020 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
17992944 AGAGACCATG
17992954 GATGAGTTCCCTTACACATTCGGCTTTCAAA
1 GATGA-TTCCCTTACACATTCGGCTTTCAAA
17992985 GATGATTCCCTTACACATTCGGCTTTCAAA
1 GATGATTCCCTTACACATTCGGCTTTCAAA
17993015 GATGAT
1 GATGAT
17993021 AAAAATCATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 31 0.86
31 5 0.14
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (30 bp):
GATGATTCCCTTACACATTCGGCTTTCAAA
Found at i:17993308 original size:13 final size:13
Alignment explanation
Indices: 17993290--17993314 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17993280 TCAAACGATT
17993290 AAATTTTCACACG
1 AAATTTTCACACG
17993303 AAATTTTCACAC
1 AAATTTTCACAC
17993315 ATATAACCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:17997564 original size:19 final size:20
Alignment explanation
Indices: 17997529--17997566 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
17997519 AAGAAAAAAA
17997529 ACAACCTATAACATATATTT
1 ACAACCTATAACATATATTT
17997549 ACAA-CTAT-ACACTATATT
1 ACAACCTATAACA-TATATT
17997567 CTTTAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 10 0.59
20 4 0.24
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (20 bp):
ACAACCTATAACATATATTT
Found at i:18005088 original size:31 final size:31
Alignment explanation
Indices: 18005049--18005117 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
18005039 CTTAACATAC
**
18005049 CAATGACTTAAATAAAAACTTTTGAATAGTT
1 CAATGACTTAAATAAAAACTTTCAAATAGTT
* *
18005080 CAGTGACTTAAATGAAAACTTTCAAATAGTT
1 CAATGACTTAAATAAAAACTTTCAAATAGTT
18005111 CAATGAC
1 CAATGAC
18005118 CAAATTATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTCAAATAGTT
Found at i:18008177 original size:2 final size:2
Alignment explanation
Indices: 18008170--18008194 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18008160 CTTGTAAAGG
18008170 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18008195 GTTTTCGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18008490 original size:27 final size:27
Alignment explanation
Indices: 18008460--18008511 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
18008450 GGACATGGGT
* *
18008460 TGTCACACGGTCATTCCACACACAGGA
1 TGTCACACAGTCATGCCACACACAGGA
*
18008487 TGTCACACAGTCGTGCCACACACAG
1 TGTCACACAGTCATGCCACACACAG
18008512 TCGTGTGTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.17
Consensus pattern (27 bp):
TGTCACACAGTCATGCCACACACAGGA
Found at i:18011385 original size:21 final size:21
Alignment explanation
Indices: 18011359--18011405 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
18011349 TAACCGAAAA
18011359 ACATTAAAAATAAACTAAGAC
1 ACATTAAAAATAAACTAAGAC
18011380 ACATTAAAAATAAACTAAGAC
1 ACATTAAAAATAAACTAAGAC
*
18011401 TCATT
1 ACATT
18011406 TTACAACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.57, C:0.15, G:0.04, T:0.23
Consensus pattern (21 bp):
ACATTAAAAATAAACTAAGAC
Found at i:18014342 original size:92 final size:90
Alignment explanation
Indices: 18014103--18014393 Score: 296
Period size: 92 Copynumber: 3.2 Consensus size: 90
18014093 TTTCAGAGAT
* * * *
18014103 TTTGGCAGGTTATCGGGGGAGAATATTTAGCCTACAGGTTTTGTACTATGCGTATCTAGCGTGTT
1 TTTGGCATGTTATC-GGGGAGAATATTTAGCCTAC-GGTTTTGCACTATGTGCATCTAGCGTGTT
* * *
18014168 ATCGGTTGTAATAACTTTTATGAACAA
64 ATCGGTTGAAATAACTCTTATGAGCAA
* * * * * *
18014195 TTTGGCAT-TTATAGGAGGATAACATTTAGCCTAAGGGTTTTACACTATGTGCATCTAACGTGTT
1 TTTGGCATGTTATCGG-GGAGAATATTTAGCCT-ACGGTTTTGCACTATGTGCATCTAGCGTGTT
* * * *
18014259 ATTGATTGAAATAGCTCTTATTAGCAA
64 ATCGGTTGAAATAACTCTTATGAGCAA
* * * *
18014286 TTTGGCATGTTATCGGGGAAGAATATTTAACCTACGTGCTTTGCACTATGTGCATCTGGCGTATT
1 TTTGGCATGTTATCGGGG-AGAATATTTAGCCTACG-GTTTTGCACTATGTGCATCTAGCGTGTT
*
18014351 ATCGGTTGAAATATCTCTTATGAGCAA
64 ATCGGTTGAAATAACTCTTATGAGCAA
* * *
18014378 TCTAGCGTGTTATCGG
1 TTTGGCATGTTATCGG
18014394 TTAGAATAGC
Statistics
Matches: 160, Mismatches: 34, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
90 2 0.01
91 74 0.46
92 84 0.52
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (90 bp):
TTTGGCATGTTATCGGGGAGAATATTTAGCCTACGGTTTTGCACTATGTGCATCTAGCGTGTTAT
CGGTTGAAATAACTCTTATGAGCAA
Found at i:18014407 original size:38 final size:38
Alignment explanation
Indices: 18014339--18014418 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
18014329 CACTATGTGC
* * *
18014339 ATCTGGCGTATTATCGGTTGAAATATCTCTTATGAGCA
1 ATCTAGCGTATTATCGGTTGAAATAGCTCTTATAAGCA
*
18014377 ATCTAGCGTGTTATCGGTT-AGAATAGCTCTTATAAGCA
1 ATCTAGCGTATTATCGGTTGA-AATAGCTCTTATAAGCA
18014415 ATCT
1 ATCT
18014419 GGCACGTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (38 bp):
ATCTAGCGTATTATCGGTTGAAATAGCTCTTATAAGCA
Found at i:18014428 original size:38 final size:38
Alignment explanation
Indices: 18014349--18014430 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 38
18014339 ATCTGGCGTA
* * **
18014349 TTATCGGTTGAAATATCTCTTATGAGCAATCTAGCGTG
1 TTATCGGTTGAAATAGCTCTTATAAGCAATCTAGCACG
*
18014387 TTATCGGTT-AGAATAGCTCTTATAAGCAATCTGGCACG
1 TTATCGGTTGA-AATAGCTCTTATAAGCAATCTAGCACG
18014425 TTATCG
1 TTATCG
18014431 AATGGATACC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
37 1 0.03
38 37 0.97
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (38 bp):
TTATCGGTTGAAATAGCTCTTATAAGCAATCTAGCACG
Found at i:18015950 original size:5 final size:5
Alignment explanation
Indices: 18015928--18015967 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
18015918 TAGATTTGCG
*
18015928 TTTAT GTTTAT TTCAT TTTAT TTTATT TTTAT TTTAT TTT
1 TTTAT -TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTT
18015968 CTACATAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
5 21 0.68
6 10 0.32
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:18015959 original size:11 final size:11
Alignment explanation
Indices: 18015928--18015967 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
18015918 TAGATTTGCG
*
18015928 TTTATGTTTAT
1 TTTATTTTTAT
*
18015939 TTCA-TTTTAT
1 TTTATTTTTAT
18015949 TTTATTTTTAT
1 TTTATTTTTAT
18015960 TTTATTTT
1 TTTATTTT
18015968 CTACATAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:18015961 original size:16 final size:15
Alignment explanation
Indices: 18015928--18015967 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
18015918 TAGATTTGCG
18015928 TTTATGTTTATTTCAT
1 TTTAT-TTTATTTCAT
*
18015944 TTTATTTTATTTTTAT
1 TTTATTTTA-TTTCAT
18015960 TTTATTTT
1 TTTATTTT
18015968 CTACATAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (15 bp):
TTTATTTTATTTCAT
Found at i:18021640 original size:6 final size:6
Alignment explanation
Indices: 18021629--18021658 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
18021619 CAAAGAATGC
18021629 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
18021659 GAGAGGCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:18023279 original size:100 final size:100
Alignment explanation
Indices: 18023106--18024023 Score: 954
Period size: 100 Copynumber: 9.2 Consensus size: 100
18023096 CATAGTTTGT
* * *
18023106 AATTAAAAGATTGAAGCCACAACGGCGAATCTTA-CTCTCCTAGGCGGTGCAATGGAACAGATTG
1 AATTAAAAGATTGAAGCCACAACGGCGAATCTTACCT-TCCCAGGCGATGCAGTGGAACAGATTG
* * ** *
18023170 AAGCCACAACGGCGAATCTCACTTCCCCGACATTGT
65 AAGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
* *
18023206 AATTAAAAGATTGAGGCCACAACGGCGAATCTTACCTTCCCAGGCGATGTAGTGGAACAGATTGA
1 AATTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGTGGAACAGATTGA
*
18023271 AGCTACAACGGTGAATCTTGCTTCCCCGACACTGC
66 AGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
* * * *
18023306 AATTAAAAGATTGAAGCCACAACAGCAAATCTTACTTTCCCAGGCGGTGCAGTGGAACAGATTGA
1 AATTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGTGGAACAGATTGA
*
18023371 AGCTACAACGGTGAATCTCGCTTCCCCGACATTGC
66 AGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
** * * * **
18023406 AATTAAAA-ATTGAAGCCACAACGGTAAATCTTACTTTCCCAGGTGGTGCAACGGAACAGATTGA
1 AATTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGTGGAACAGATTGA
*** *
18023470 AGCTACAACGACAAATCTCGCTTCCCCGACATTGC
66 AGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
* * * * *
18023505 AATTAAAAGATTGAAGCCACAACGGCAAATCTTACTTTCCCAGAC-AGTGCAATGGAACAGATTA
1 AATTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGA-TGCAGTGGAACAGATTG
*
18023569 AAGCTACAATGGTGAATCTTGCTTCCCCGACATTGC
65 AAGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
* * * * * * * * *
18023605 AATTGAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAAGTGGTGCAGTAGAGCAAATTAA
1 AATTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGTGGAACAGATTGA
* * *
18023670 AGCTACGACGGTGAATCTTACTTCCCCGATATTGC
66 AGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
* ** * * *
18023705 AATTAAAAATATTGAAGCTGCAACGGCGAATCTTA-CTTCCCTGGC-AGTACAGTGGAGCAGATT
1 AATT-AAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGA-TGCAGTGGAACAGATT
* * * **
18023768 AAAGCTACGACGGTGAATCTTGCTTCCCTGATTTTGC
64 GAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
* * ** * * * *
18023805 AATTTAAAAGATTGAAGCCGCAATGAAGAATCTTA-CTTCTCTGGC-AGTGCAATGGAGCAGATT
1 AA-TTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGA-TGCAGTGGAACAGATT
* * * ** *
18023868 AAAGATACGACGGCAAATCTTGCTTCCCCGATATTGC
64 GAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
* * * ** *
18023905 AATTTAAAAGATTGAAGCCGCAATGACGAATCTTA-CTTCCTTGGC-AGTGTAGTGGAACAGATT
1 AA-TTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGA-TGCAGTGGAACAGATT
** * *
18023968 GAAGCTACAACGACGAATTTTGTTTCCCCGACATTGC
64 GAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
*
18024005 AGTTTAAAAAGATTGAAGC
1 A-ATT-AAAAGATTGAAGC
18024024 TATATATTGC
Statistics
Matches: 714, Mismatches: 95, Indels: 17
0.86 0.12 0.02
Matches are distributed among these distances:
99 91 0.13
100 580 0.81
101 43 0.06
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (100 bp):
AATTAAAAGATTGAAGCCACAACGGCGAATCTTACCTTCCCAGGCGATGCAGTGGAACAGATTGA
AGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
Found at i:18023656 original size:299 final size:300
Alignment explanation
Indices: 18023106--18024023 Score: 1094
Period size: 299 Copynumber: 3.1 Consensus size: 300
18023096 CATAGTTTGT
* *
18023106 AATT-AAAAGATTGAAGCCACAACGGCGAATCTTACTCTCCTAGGCGGTGCAATGGAACAGATTG
1 AATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAATGGAACAGATTG
* * * * *
18023170 AAGCCACAACGGCGAATCTCACTTCCCCGACATTGTAATTAAAAGATTGAGGCCACAACGGCGAA
66 AAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACGGCAAA
* * *
18023235 TCTTACCTTCCCAGGC-GATGTAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCG
131 TCTTA-CTTCCCAGGCAG-TGCAATGGAACAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCG
* * *
18023299 ACACTGCAATTAAAAGATTGAAGCCACAACAGCAAATCTTACTTTCCCAGGCGGTGCAGTGGAAC
194 ACATTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAGTGGAAC
*
18023364 AGATTGAAGCTACAACGGTGAATCTCGCTTCCCCGACATTGC
259 AGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
** * *
18023406 AATT-AAAA-ATTGAAGCCACAACGGTAAATCTTACTTTCCCAGGTGGTGCAACGGAACAGATTG
1 AATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAATGGAACAGATTG
* *
18023469 AAGCTACAACGACAAATCTCGCTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACGGCAAA
66 AAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACGGCAAA
* *
18023534 TCTTACTTTCCCAGACAGTGCAATGGAACAGATTAAAGCTACAATGGTGAATCTTGCTTCCCCGA
131 TCTTAC-TTCCCAGGCAGTGCAATGGAACAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGA
* * * * *
18023599 CATTGCAATTGAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAAGTGGTGCAGTAGAGCA
195 CATTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAGTGGAACA
* * * * *
18023664 AATTAAAGCTACGACGGTGAATCTTACTTCCCCGATATTGC
260 GATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
* ** * * * * * *
18023705 AATTAAAAATATTGAAGCTGCAACGGCGAATCTTAC-TTCCCTGGCAGTACAGTGGAGCAGATTA
1 AATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAATGGAACAGATTG
* * * * ** * * *
18023769 AAGCTACGACGGTGAATCTTGCTTCCCTGATTTTGCAATTTAAAAGATTGAAGCCGCAA-TGAAG
66 AAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAA-TTAAAAGATTGAAGCCACAACGGCA-
* * * * * **
18023833 AATCTTACTTCTCTGGCAGTGCAATGGAGCAGATTAAAGATACGACGGCAAATCTTGCTTCCCCG
129 AATCTTACTTCCCAGGCAGTGCAATGGAACAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCG
* * * * ** * *
18023898 ATATTGCAATTTAAAAGATTGAAGCCGCAATGACGAATCTTAC-TTCCTTGGCAGTGTAGTGGAA
194 ACATTGCAA-TTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAGTGGAA
** * *
18023962 CAGATTGAAGCTACAACGACGAATTTTGTTTCCCCGACATTGC
258 CAGATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
*
18024005 AGTTTAAAAAGATTGAAGC
1 A-ATTAAAAAGATTGAAGC
18024024 TATATATTGC
Statistics
Matches: 522, Mismatches: 88, Indels: 15
0.84 0.14 0.02
Matches are distributed among these distances:
298 1 0.00
299 259 0.50
300 169 0.32
301 93 0.18
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (300 bp):
AATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAATGGAACAGATTG
AAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACGGCAAA
TCTTACTTCCCAGGCAGTGCAATGGAACAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGAC
ATTGCAATTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCCAGGCGGTGCAGTGGAACAG
ATTGAAGCTACAACGGTGAATCTTGCTTCCCCGACATTGC
Found at i:18024139 original size:44 final size:42
Alignment explanation
Indices: 18024078--18024403 Score: 278
Period size: 44 Copynumber: 7.6 Consensus size: 42
18024068 TCATATCAAG
* *
18024078 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACTAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-TGAA-AAACCAA
* * * *
18024122 TCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATGAAAAAC-CA-A
* * * * * *
18024166 TCTTATCTCTCTAAAGTTGCAGTAGAGTAGAT-CACATCCAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATGAAAAACCAA
*
18024207 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGAAACTAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-TGAA-AAACCAA
* * * * * *
18024251 TCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAATCACAGA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATGAAAAAC-CA-A
* * * * * *
18024295 TCTTATCTCTCTAACGTTGCAGTAGAGCAGAT-CACATCCAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATGAAAAACCAA
*
18024336 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACCAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-TGAA-AAACCAA
* * * *
18024380 TCATATCTTCCTGAAGTTACAGTG
1 TCTTATCTCCCTAAAGTTGCAGTG
18024404 AAGCGGATTA
Statistics
Matches: 226, Mismatches: 46, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
41 57 0.25
42 12 0.05
43 18 0.08
44 139 0.62
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (42 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATGAAAAACCAA
Found at i:18024218 original size:85 final size:85
Alignment explanation
Indices: 18024078--18024455 Score: 318
Period size: 85 Copynumber: 4.4 Consensus size: 85
18024068 TCATATCAAG
* * * * *
18024078 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAACTAATCCTATCTCCCTAAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TTAA-AATCCAATCTTATCTCCCTAAAGTTGCA
*
18024143 GTGGAGCGGATTAAAATCACAGA
64 GTGGAGCAGATTAAAATCACA-A
* * * * *
18024166 TCTTATCTCTCTAAAGTTGCAGTAGAGTAGA-TCACATCCAATCTTATCTCCCTAAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATCCAATCTTATCTCCCTAAAGTTGCAGT
*
18024230 GGAGCAGACTGAAGAA--ACTAA
66 GGAGCAGA-TTAA-AATCAC-AA
* * * *
18024251 TCCTATCTCCCTGAAGTTGCAGT-GAAGCGGATTAAAATCACAGATCTTATCTCTCTAACGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTAG-AGCAGATTAAAATC-CA-ATCTTATCTCCCTAAAGTTGC
* * *
18024315 AGTAGAGCAGA-TCACATC-CAA
63 AGTGGAGCAGATTAAAATCACAA
* * * * * *
18024336 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACCAATCATATCTTCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT-AA-AATCCAATCTTATCTCCCTAAAGTTGCA
* * * * *
18024401 GTGAAGCGGATTAAAATGATAGG
64 GTGGAGCAGATTAAAATCACA-A
* *
18024424 TCTTATCTCTCTGAAGTTGCAGAAGAGCAGAT
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
18024456 CACATCAGAC
Statistics
Matches: 230, Mismatches: 45, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
84 1 0.00
85 115 0.50
86 21 0.09
87 8 0.03
88 85 0.37
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (85 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAATCCAATCTTATCTCCCTAAAGTTGCAGT
GGAGCAGATTAAAATCACAA
Found at i:18024268 original size:129 final size:129
Alignment explanation
Indices: 18024050--18024461 Score: 655
Period size: 129 Copynumber: 3.2 Consensus size: 129
18024040 TATATCTTTG
* *
18024050 AAGTTGCAGTAGAGTAGATCATAT-CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
1 AAGTTGCAGTAGAGCAGATCACATCCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
* *
18024114 GAAACTAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTA
65 GAAACTAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTA
* *
18024179 AAGTTGCAGTAGAGTAGATCACATCCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAG
1 AAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
18024244 AAACTAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTA
66 AAACTAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTA
* *
18024308 ACGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
1 AAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
* * * * * * * *
18024373 AAACCAATCATATCTTCCTGAAGTTACAGTGAAGCGGATTAAAATGATAGGTCTTATCTCTCTG
66 AAACTAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTA
*
18024437 AAGTTGCAGAAGAGCAGATCACATC
1 AAGTTGCAGTAGAGCAGATCACATC
18024462 AGACTTTATG
Statistics
Matches: 264, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
129 261 0.99
130 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (129 bp):
AAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
AAACTAATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTA
Found at i:18027745 original size:9 final size:9
Alignment explanation
Indices: 18027731--18027761 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18027721 GTTAAACGAA
18027731 TCGAGTTAT
1 TCGAGTTAT
*
18027740 TCGAGTTAA
1 TCGAGTTAT
18027749 TCGAGTTAT
1 TCGAGTTAT
18027758 TCGA
1 TCGA
18027762 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:18027841 original size:9 final size:9
Alignment explanation
Indices: 18027814--18027850 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
18027804 TGAGTTTTCA
18027814 AATTCGAAT
1 AATTCGAAT
* *
18027823 AACTCAAAT
1 AATTCGAAT
18027832 AATTCGAAT
1 AATTCGAAT
18027841 AATTCGAAT
1 AATTCGAAT
18027850 A
1 A
18027851 TAAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:18030514 original size:40 final size:39
Alignment explanation
Indices: 18030467--18030554 Score: 124
Period size: 38 Copynumber: 2.3 Consensus size: 39
18030457 TTAAAAATAT
* *
18030467 TTATATTAAAAAAAATAATGTGAATATAATAAATATTTTA
1 TTATATTAAAAAAAATAA-ATAAATATAATAAATATTTTA
*
18030507 TTATATT-AAAAACATAAATAAATATAATAAATATTTTA
1 TTATATTAAAAAAAATAAATAAATATAATAAATATTTTA
*
18030545 TTGTATTAAA
1 TTATATTAAA
18030555 TATAATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 25 0.58
39 11 0.26
40 7 0.16
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (39 bp):
TTATATTAAAAAAAATAAATAAATATAATAAATATTTTA
Found at i:18030708 original size:35 final size:34
Alignment explanation
Indices: 18030659--18030729 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 34
18030649 TACTGATTTA
18030659 ATATAAATATATAAT-TATTATT-TAACATATATAT
1 ATATAAATATATAATAT-TTATTATAACA-ATATAT
* *
18030693 ATATAACTAATATAATATTTTTTATAACAATATAT
1 ATATAAAT-ATATAATATTTATTATAACAATATAT
18030728 AT
1 AT
18030730 TCTAACCAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
34 7 0.22
35 19 0.59
36 6 0.19
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (34 bp):
ATATAAATATATAATATTTATTATAACAATATAT
Found at i:18037099 original size:13 final size:13
Alignment explanation
Indices: 18037081--18037109 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18037071 AACATTTCCC
18037081 TCGTTGGGTTAAT
1 TCGTTGGGTTAAT
18037094 TCGTTGGGTTAAT
1 TCGTTGGGTTAAT
18037107 TCG
1 TCG
18037110 AGGGTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.10, G:0.31, T:0.45
Consensus pattern (13 bp):
TCGTTGGGTTAAT
Found at i:18041870 original size:18 final size:17
Alignment explanation
Indices: 18041847--18041896 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
18041837 ACTAGAAATC
18041847 ATATTTTTATTGTTTTGT
1 ATATTTTTATTGTTTT-T
*
18041865 ATA-TTTTCTT-TTTTT
1 ATATTTTTATTGTTTTT
18041880 ATGATTTTTA-TGTTTTT
1 AT-ATTTTTATTGTTTTT
18041897 TATGATTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 3 0.11
16 6 0.22
17 15 0.56
18 3 0.11
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.74
Consensus pattern (17 bp):
ATATTTTTATTGTTTTT
Found at i:18041897 original size:18 final size:18
Alignment explanation
Indices: 18041849--18041903 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
18041839 TAGAAATCAT
*
18041849 ATTTTTATTGTTTTGTAT-
1 ATTTTTA-TGTTTTTTATG
*
18041867 A-TTTTCT-TTTTTTATG
1 ATTTTTATGTTTTTTATG
18041883 ATTTTTATGTTTTTTATG
1 ATTTTTATGTTTTTTATG
18041901 ATT
1 ATT
18041904 AGATGACGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 7 0.23
16 2 0.06
17 9 0.29
18 13 0.42
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (18 bp):
ATTTTTATGTTTTTTATG
Found at i:18042013 original size:3 final size:3
Alignment explanation
Indices: 18042005--18042036 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18041995 TCTTGATTTA
18042005 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
18042037 ACTTTTTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:18044874 original size:167 final size:167
Alignment explanation
Indices: 18044593--18044937 Score: 674
Period size: 167 Copynumber: 2.1 Consensus size: 167
18044583 GACATTATCA
*
18044593 AGCATCATACAAAATGATGACTTTTTCTATTATTTTTATATTCAAATATGCAGTCTTATTGGTAT
1 AGCAACATACAAAATGATGACTTTTTCTATTATTTTTATATTCAAATATGCAGTCTTATTGGTAT
18044658 TGCTGAAAAAGAAAAGTTTTATCAGCCTTATCAAATATGGATTATTTAGAAGATAATTGCAAGCC
66 TGCTGAAAAAGAAAAGTTTTATCAGCCTTATCAAATATGGATTATTTAGAAGATAATTGCAAGCC
18044723 CTCAGTTATCTGCTGTTAAAGAAAATAAAGAACACTT
131 CTCAGTTATCTGCTGTTAAAGAAAATAAAGAACACTT
18044760 AGCAACATACAAAATGATGACTTTTTCTATTATTTTTATATTCAAATATGCAGTCTTATTGGTAT
1 AGCAACATACAAAATGATGACTTTTTCTATTATTTTTATATTCAAATATGCAGTCTTATTGGTAT
18044825 TGCTGAAAAAGAAAAGTTTTATCAGCCTTATCAAATATGGATTATTTAGAAGATAATTGCAAGCC
66 TGCTGAAAAAGAAAAGTTTTATCAGCCTTATCAAATATGGATTATTTAGAAGATAATTGCAAGCC
18044890 CTCAGTTATCTGCTGTTAAAGAAAATAAAGAACACTT
131 CTCAGTTATCTGCTGTTAAAGAAAATAAAGAACACTT
18044927 AGCAACA-ACAA
1 AGCAACATACAA
18044938 TTGACATGTG
Statistics
Matches: 177, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
166 4 0.02
167 173 0.98
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (167 bp):
AGCAACATACAAAATGATGACTTTTTCTATTATTTTTATATTCAAATATGCAGTCTTATTGGTAT
TGCTGAAAAAGAAAAGTTTTATCAGCCTTATCAAATATGGATTATTTAGAAGATAATTGCAAGCC
CTCAGTTATCTGCTGTTAAAGAAAATAAAGAACACTT
Found at i:18053710 original size:24 final size:26
Alignment explanation
Indices: 18053674--18053728 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
18053664 CATATATCAC
18053674 TAAGCACAAAGTGC-AAAT-A-ACGA
1 TAAGCACAAAGTGCGAAATAATACGA
18053697 TAAGCACCAAAGTGCGAAATAATACGA
1 TAAGCA-CAAAGTGCGAAATAATACGA
18053724 TAAGC
1 TAAGC
18053729 GCGCTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.21
24 8 0.29
25 4 0.14
26 1 0.04
27 9 0.32
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.15
Consensus pattern (26 bp):
TAAGCACAAAGTGCGAAATAATACGA
Found at i:18054910 original size:13 final size:13
Alignment explanation
Indices: 18054888--18054921 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18054878 GTATTCAATT
*
18054888 CAATCCAATTACC
1 CAATCTAATTACC
18054901 CAATCTAATTACC
1 CAATCTAATTACC
*
18054914 CAACCTAA
1 CAATCTAA
18054922 CCCAATCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (13 bp):
CAATCTAATTACC
Found at i:18055043 original size:9 final size:9
Alignment explanation
Indices: 18055031--18055071 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
18055021 TGAATTAGGT
18055031 TAATTCGGG
1 TAATTCGGG
*
18055040 TAATTCGGT
1 TAATTCGGG
18055049 TAATTCGGG
1 TAATTCGGG
*
18055058 TAATTCGGT
1 TAATTCGGG
18055067 TAATT
1 TAATT
18055072 TAGTTAATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.41
Consensus pattern (9 bp):
TAATTCGGG
Found at i:18055049 original size:18 final size:18
Alignment explanation
Indices: 18055023--18055089 Score: 98
Period size: 18 Copynumber: 3.7 Consensus size: 18
18055013 TGTATGATTG
*
18055023 AATTAGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
18055041 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
** *
18055059 AATTCGGTTAATTTAGTT
1 AATTCGGTTAATTCGGGT
18055077 AATTCGGTTAATT
1 AATTCGGTTAATT
18055090 TTTAACCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.43
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:18055061 original size:27 final size:27
Alignment explanation
Indices: 18055031--18055089 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
18055021 TGAATTAGGT
*
18055031 TAATTCGGGTAATTCGGTTAATTCGGG
1 TAATTCGGGTAATTCAGTTAATTCGGG
* * *
18055058 TAATTCGGTTAATTTAGTTAATTCGGT
1 TAATTCGGGTAATTCAGTTAATTCGGG
18055085 TAATT
1 TAATT
18055090 TTTAACCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.44
Consensus pattern (27 bp):
TAATTCGGGTAATTCAGTTAATTCGGG
Found at i:18058872 original size:20 final size:19
Alignment explanation
Indices: 18058825--18058873 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
18058815 ACTTAAATTT
18058825 ATTA-AAAATTAGAAAAAA
1 ATTATAAAATTAGAAAAAA
18058843 ATTATAAAATATAGAAAAAA
1 ATTATAAAAT-TAGAAAAAA
*
18058863 ATTGTAAAATT
1 ATTATAAAATT
18058874 TTATAAAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 4 0.14
19 6 0.21
20 18 0.64
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (19 bp):
ATTATAAAATTAGAAAAAA
Found at i:18059144 original size:21 final size:21
Alignment explanation
Indices: 18059118--18059165 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
18059108 ATTAAAGGGC
18059118 TTTTTTATGCA-TTTTAT-AAT
1 TTTTTTATG-ATTTTTATAAAT
18059138 TCTTTTTATGATTTTTATAAAT
1 T-TTTTTATGATTTTTATAAAT
18059160 TTTTTT
1 TTTTTT
18059166 CTAATTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.08
21 19 0.76
22 4 0.16
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTTTATGATTTTTATAAAT
Found at i:18059172 original size:21 final size:21
Alignment explanation
Indices: 18059129--18059173 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
18059119 TTTTTATGCA
*
18059129 TTTTATAATTCTTTTTATGAT
1 TTTTATAATTCTTTTTATAAT
*
18059150 TTTTATAAATT-TTTTTCTAAT
1 TTTTAT-AATTCTTTTTATAAT
18059171 TTT
1 TTT
18059174 AATAGGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTATAATTCTTTTTATAAT
Found at i:18059441 original size:95 final size:92
Alignment explanation
Indices: 18059332--18059503 Score: 211
Period size: 95 Copynumber: 1.8 Consensus size: 92
18059322 CAGTCAAAAT
* * *
18059332 GTCTTTTTGATGCAT-TTTAACAATTCAAATACTTAATAGAGTGCAAAAAAAAAAAACAGGCGCT
1 GTCTTTTTAATGCATGTTGAA-AATTCAAATACCTAATAGAGTGCAAAAAAAAAAAA-AGG-GCT
18059396 TAATTTTTTTATTTTTTGAAAAAGTTTAAAG
63 TAATTTTTTT-TTTTTTGAAAAAGTTTAAAG
* * * * * **
18059427 GTCTTTTTAATGCATGTTGAAAGTTCTAGTACCTAATTGAGTGTAAAAAAAAAGTAAGGGCTTAA
1 GTCTTTTTAATGCATGTTGAAAATTCAAATACCTAATAGAGTGCAAAAAAAAAAAAAGGGCTTAA
18059492 TTTTTTTTTTTT
66 TTTTTTTTTTTT
18059504 AAGTTTGAGA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
92 5 0.08
93 13 0.20
94 3 0.05
95 41 0.62
96 4 0.06
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.41
Consensus pattern (92 bp):
GTCTTTTTAATGCATGTTGAAAATTCAAATACCTAATAGAGTGCAAAAAAAAAAAAAGGGCTTAA
TTTTTTTTTTTTTGAAAAAGTTTAAAG
Found at i:18059726 original size:62 final size:63
Alignment explanation
Indices: 18059613--18059738 Score: 209
Period size: 62 Copynumber: 2.0 Consensus size: 63
18059603 AATTGAGTAA
*
18059613 AAGGTGATACCAATTCAATCAAAATTTTAAATAATAGTATAAATAAATTATATAACCCTCACC
1 AAGGTGATACCAATTCAATCAAAACTTTAAATAATAGTATAAATAAATTATATAACCCTCACC
* * *
18059676 AAGGTGATACCAATTCAGTC-AAACTTTAAATAATAGTGTAAATAACTTATATAACCCTCACC
1 AAGGTGATACCAATTCAATCAAAACTTTAAATAATAGTATAAATAAATTATATAACCCTCACC
18059738 A
1 A
18059739 CTACAAAAGT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
62 40 0.68
63 19 0.32
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.29
Consensus pattern (63 bp):
AAGGTGATACCAATTCAATCAAAACTTTAAATAATAGTATAAATAAATTATATAACCCTCACC
Found at i:18062833 original size:16 final size:16
Alignment explanation
Indices: 18062812--18062848 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
18062802 ATTTCCAAAC
18062812 CAATCTCGAGAGACCA
1 CAATCTCGAGAGACCA
18062828 CAATCTCGAGAGACCA
1 CAATCTCGAGAGACCA
18062844 CAATC
1 CAATC
18062849 CCTAACAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.32, G:0.16, T:0.14
Consensus pattern (16 bp):
CAATCTCGAGAGACCA
Found at i:18069695 original size:22 final size:23
Alignment explanation
Indices: 18069634--18069698 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
18069624 GATAAACTCC
* *
18069634 TGAGCTGATAAACAGTAGGCTCTAT
1 TGAGCTG--AAACAGTAAGCTCTAA
18069659 TGAGCTGAAACAGTAAGCTCTAA
1 TGAGCTGAAACAGTAAGCTCTAA
18069682 TGAGCTG-AACAGTAAGC
1 TGAGCTGAAACAGTAAGC
18069699 CCATACGAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 10 0.26
23 21 0.55
25 7 0.18
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAA
Found at i:18069708 original size:22 final size:22
Alignment explanation
Indices: 18069660--18069712 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
18069650 AGGCTCTATT
* *
18069660 GAGCTGAAACAGTAAGCTCTAAT
1 GAGCTG-AACAGTAAGCCCTAAC
18069683 GAGCTGAACAGTAAGCCC-ATAC
1 GAGCTGAACAGTAAGCCCTA-AC
18069705 GAGCTGAA
1 GAGCTGAA
18069713 ATATCGGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 20 0.74
23 6 0.22
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.17
Consensus pattern (22 bp):
GAGCTGAACAGTAAGCCCTAAC
Found at i:18069960 original size:67 final size:67
Alignment explanation
Indices: 18069883--18070339 Score: 707
Period size: 67 Copynumber: 6.8 Consensus size: 67
18069873 AATAATTCAA
* * * * *
18069883 TTTCTCAAATCACATATATATAATCTATTCAATTAAATACATACATTTAAATACTCAATTTGCAT
1 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACTCAATTCGCAT
18069948 AC
66 AC
* * * * * *
18069950 CTTCTCAAATCATAAACATATAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGAAT
1 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACTCAATTCGCAT
18070015 AC
66 AC
* * * * *
18070017 TTTCTCAAATCACATATATATAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGCAT
1 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACTCAATTCGCAT
18070082 AC
66 AC
* *
18070084 TTTCTCAAATCATATACATATAATCCATTCAATTAAATACATACATTTAATTACTCAATTCACAT
1 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACTCAATTCGCAT
18070149 AC
66 AC
* *
18070151 TTTCTCAAATCACATACATATAATCAATTCAATTAAATACATACATTTAATTACTCAATTCGCGT
1 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACTCAATTCGCAT
18070216 AC
66 AC
*
18070218 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACTCAATTCACAT
1 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACTCAATTCGCAT
18070283 AC
66 AC
* *
18070285 TTTCTCAAATCATATACAAATAATCAATTCAATTAAACACATACATTTAATTACT
1 TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACT
18070340 ATTACAATTG
Statistics
Matches: 362, Mismatches: 28, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 362 1.00
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (67 bp):
TTTCTCAAATCATATACATATAATCAATTCAATTAAATACATACATTTAATTACTCAATTCGCAT
AC
Found at i:18076931 original size:27 final size:27
Alignment explanation
Indices: 18076901--18076955 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
18076891 AATTGGAGTT
18076901 TGTCAATTCCGCAATTTAACTCAAAAC
1 TGTCAATTCCGCAATTTAACTCAAAAC
18076928 TGTCAATTCCGCAATTTAACTCAAAAC
1 TGTCAATTCCGCAATTTAACTCAAAAC
18076955 T
1 T
18076956 TCTCCTCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (27 bp):
TGTCAATTCCGCAATTTAACTCAAAAC
Found at i:18082345 original size:94 final size:94
Alignment explanation
Indices: 18082184--18082370 Score: 302
Period size: 94 Copynumber: 2.0 Consensus size: 94
18082174 CCTTTTATTG
* * * *
18082184 TTCAATTTTGTTTTGAGAAAGGAAGTGAGATTTTGCATCATGAATCCCAAATAGTTCGAATCTTT
1 TTCAAGTTTATTTTGAGAAAGGAAGTGAGACTTCGCATCATGAATCCCAAATAGTTCGAATCTTT
*
18082249 GTATGAAAGTAAGGAAGACGAGAGGATTA
66 GTATGAAAGTAAGGAAGACAAGAGGATTA
* * *
18082278 TTCAAGTTTATTTTGAGAAAGGAAGTGAGACTTCGCATCATGGATTCCAAATAGTTCGAGTCTTT
1 TTCAAGTTTATTTTGAGAAAGGAAGTGAGACTTCGCATCATGAATCCCAAATAGTTCGAATCTTT
18082343 GTATGAAAGTAAGGAAGACAAGAGGATT
66 GTATGAAAGTAAGGAAGACAAGAGGATT
18082371 GAACTCAAGC
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 85 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (94 bp):
TTCAAGTTTATTTTGAGAAAGGAAGTGAGACTTCGCATCATGAATCCCAAATAGTTCGAATCTTT
GTATGAAAGTAAGGAAGACAAGAGGATTA
Found at i:18103632 original size:17 final size:17
Alignment explanation
Indices: 18103610--18103653 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
18103600 TCATGCTAAT
18103610 TTTTTTGAATTTT-TACA
1 TTTTTTGAATTTTATA-A
*
18103627 TTTTTTAAATTTTATAA
1 TTTTTTGAATTTTATAA
18103644 -TTTTTGAATT
1 TTTTTTGAATT
18103654 ATTTGTTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.38
17 13 0.54
18 2 0.08
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (17 bp):
TTTTTTGAATTTTATAA
Found at i:18104915 original size:31 final size:31
Alignment explanation
Indices: 18104866--18104924 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
18104856 TTCAAATATG
* *
18104866 TACAGTTGAATTAAAATTAAAGTTTCATTTA
1 TACACTTGAATTAAAATTAAAATTTCATTTA
**
18104897 TACACTTGAATTGTAATTAAAATTTCAT
1 TACACTTGAATTAAAATTAAAATTTCAT
18104925 GTGTATAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Consensus pattern (31 bp):
TACACTTGAATTAAAATTAAAATTTCATTTA
Found at i:18114040 original size:43 final size:42
Alignment explanation
Indices: 18113974--18114102 Score: 165
Period size: 43 Copynumber: 3.0 Consensus size: 42
18113964 ATAGGATTTC
18113974 CGATATGTGTTATCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
*
18114017 CGACT-TGTGTTTACGTGTAAGACC-CTGTCTGGGACAG-TGACAT
1 CGA-TATGTG-TTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
*
18114060 CGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
18114103 TGTACGAGTT
Statistics
Matches: 75, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
42 3 0.04
43 66 0.88
44 6 0.08
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (42 bp):
CGATATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:18115063 original size:92 final size:93
Alignment explanation
Indices: 18114953--18115280 Score: 588
Period size: 93 Copynumber: 3.5 Consensus size: 93
18114943 ATGAGTTGAA
*
18114953 CCAATTTGTTACATA-ATGCTGTCCAATTTTGATGCATAAATGCTGCCCAATTTGTTACATAATG
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
*
18115017 TTGTCCAATTTTGATGCTTAAATGCTGC
66 CTGTCCAATTTTGATGCTTAAATGCTGC
18115045 CCAATTTGTTACATA-ATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
18115109 CTGTCCAATTTTGATGCTTAAATGCTGC
66 CTGTCCAATTTTGATGCTTAAATGCTGC
*
18115137 CCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
18115202 CTGTCCAATTTTGATGCTTAAATGCTGC
66 CTGTCCAATTTTGATGCTTAAATGCTGC
* * *
18115230 CCAATTTGTTACATATATGCTGTCCAATTTTAATGCTTAAATGCTGCCCAA
1 CCAATTTGTTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAA
18115281 ACTGTTTTAT
Statistics
Matches: 228, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
92 104 0.46
93 124 0.54
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (93 bp):
CCAATTTGTTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGCCCAATTTGTTACATAATG
CTGTCCAATTTTGATGCTTAAATGCTGC
Found at i:18115298 original size:47 final size:46
Alignment explanation
Indices: 18114953--18115280 Score: 566
Period size: 46 Copynumber: 7.1 Consensus size: 46
18114943 ATGAGTTGAA
*
18114953 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCATAAATGCTGC
1 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
*
18114999 CCAATTTGTTACATAATGTTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
* *
18115045 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCATAAAAGCTGC
1 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
18115091 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
* * *
18115137 CCAATTTATTACATATATGCTGTCCAATTTTGATGCATAAAAGCTGC
1 CCAATTTGTTACATA-ATGCTGTCCAATTTTGATGCTTAAATGCTGC
18115184 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
1 CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
*
18115230 CCAATTTGTTACATATATGCTGTCCAATTTTAATGCTTAAATGCTGC
1 CCAATTTGTTACATA-ATGCTGTCCAATTTTGATGCTTAAATGCTGC
18115277 CCAA
1 CCAA
18115281 ACTGTTTTAT
Statistics
Matches: 266, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
46 189 0.71
47 77 0.29
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (46 bp):
CCAATTTGTTACATAATGCTGTCCAATTTTGATGCTTAAATGCTGC
Done.