Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 4 of 187
Found at i:724988 original size:41 final size:41
Alignment explanation
Indices: 724847--725002 Score: 118
Period size: 41 Copynumber: 3.7 Consensus size: 41
724837 AAAGAAACCG
** *
724847 ATCTTATCTCCCT-AAGCAGTAGTAGAGCAGATCGCAT-CA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGCATCCA
* * ** *** * *
724886 AGTCTTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAAAACAAA
1 A-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-T-CGCATC-CA
*
724931 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCA
1 -ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGCATCCA
* *
724973 ATCTTATCTCCCTGAAGTTGTAGTGGAGCA
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCA
725003 AACTAAAAAC
Statistics
Matches: 85, Mismatches: 25, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
39 1 0.01
40 12 0.14
41 38 0.45
42 2 0.02
43 3 0.04
44 1 0.01
45 27 0.32
46 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (41 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGCATCCA
Found at i:725010 original size:86 final size:83
Alignment explanation
Indices: 724722--725011 Score: 300
Period size: 83 Copynumber: 3.5 Consensus size: 83
724712 AAAAAACCGA
** * *
724722 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-TGAAAGAAACCGATCTTATCTCCCTAAGCAGTA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AAA-AAACAGATCTTATCTCCCTAAGCAGCA
* * *
724785 GTGGAGTAGATCACATCAAG
64 GTAGAGCAGATCGCATCAAG
** * * *
724805 TCTTATCTCCCT-AAGCAGTAGTGGAGCAGACGAAAGAAACCGATCTTATCTCCCTAAGCAGTAG
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAA-AAACAGATCTTATCTCCCTAAGCAGCAG
724869 TAGAGCAGATCGCATCAAG
65 TAGAGCAGATCGCATCAAG
** ** * * **
724888 TCTTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAAAACAAAGATCTTATCTCTCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAAAAC--AGATCTTATCTCCCT-AAGCAGC
724953 AGTAGAGCAGATCGCATCCAA-
63 AGTAGAGCAGATCGCAT-CAAG
*
724974 TCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTAAAAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAAA
725012 CTCGAATCTC
Statistics
Matches: 178, Mismatches: 23, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
83 94 0.53
84 15 0.08
85 13 0.07
86 53 0.30
87 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (83 bp):
TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAAAACAGATCTTATCTCCCTAAGCAGCAGT
AGAGCAGATCGCATCAAG
Found at i:726394 original size:3 final size:3
Alignment explanation
Indices: 726386--726456 Score: 135
Period size: 3 Copynumber: 24.0 Consensus size: 3
726376 GGGTCTGTTA
726386 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
726433 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
726457 ATAATAGCTT
Statistics
Matches: 67, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:729329 original size:3 final size:3
Alignment explanation
Indices: 729321--729403 Score: 75
Period size: 3 Copynumber: 28.0 Consensus size: 3
729311 ATTAGCTTGC
*
729321 TAT TAT TAT TAT TAT TAT TAT TAT TAT TACT CTAT TGT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT TAT
* * *
729367 TCAT TA- TAT TA- TAT T-T TAC TAT TAT TCT TAG TAT TAT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
729404 AGATTACTAT
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
2 8 0.12
3 51 0.78
4 4 0.06
5 2 0.03
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:735502 original size:18 final size:19
Alignment explanation
Indices: 735479--735522 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
735469 ATAACAATAT
*
735479 TAATAAAATTA-AATATTA
1 TAATAAAATTATAATATGA
*
735497 TAATAATATTATAATATGA
1 TAATAAAATTATAATATGA
735516 -AATAAAA
1 TAATAAAA
735523 AGTAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
TAATAAAATTATAATATGA
Found at i:740428 original size:21 final size:20
Alignment explanation
Indices: 740390--740456 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
740380 GAACACAATC
*
740390 GAAAAAG-AGAAATCAAAGAA
1 GAAAAAGAAGAAA-GAAAGAA
740410 GTAAAAAGAAGAAAGAAAG--
1 G-AAAAAGAAGAAAGAAAGAA
*
740429 GAAAAATAA-AAAGAAAGAA
1 GAAAAAGAAGAAAGAAAGAA
740448 GAAGAAAGA
1 GAA-AAAGA
740457 GTACAAAACG
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 8 0.21
18 7 0.18
19 4 0.10
20 5 0.13
21 10 0.26
22 5 0.13
ACGTcount: A:0.72, C:0.01, G:0.22, T:0.04
Consensus pattern (20 bp):
GAAAAAGAAGAAAGAAAGAA
Found at i:742743 original size:50 final size:50
Alignment explanation
Indices: 742686--742780 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
742676 AGCGAGTCAA
* *
742686 TATCGGGAAGCTCCGGAGAGCC-ATTAATCGGGAAGCTCATAAGAGCCAGT
1 TATCGGGAAGCTCCGAAGAGCCAATT-ATAGGGAAGCTCATAAGAGCCAGT
742736 TATCGGGAAGCTCCGAAGAGCCAATTATAGGGAAGCTCATAAGAG
1 TATCGGGAAGCTCCGAAGAGCCAATTATAGGGAAGCTCATAAGAG
742781 TCATAATGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
50 39 0.93
51 3 0.07
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (50 bp):
TATCGGGAAGCTCCGAAGAGCCAATTATAGGGAAGCTCATAAGAGCCAGT
Found at i:742779 original size:25 final size:24
Alignment explanation
Indices: 742686--742854 Score: 128
Period size: 25 Copynumber: 6.9 Consensus size: 24
742676 AGCGAGTCAA
***
742686 TATCGGGAAGCTCCGGAGAGCCAT
1 TATCGGGAAGCTCATAAGAGCCAT
742710 TAATCGGGAAGCTCATAAGAGCCAGT
1 T-ATCGGGAAGCTCATAAGAGCCA-T
**
742736 TATCGGGAAGCTCCGAAGAGCCAAT
1 TATCGGGAAGCTCATAAGAGCC-AT
* *
742761 TATAGGGAAGCTCATAAGAGTCAT
1 TATCGGGAAGCTCATAAGAGCCAT
* * * *
742785 AAT-GAGAAGCTCACAAGAACCAT
1 TATCGGGAAGCTCATAAGAGCCAT
* * *
742808 ATAAT-AGGAAGTTTCA-GAGAGCCAT
1 -T-ATCGGGAAG-CTCATAAGAGCCAT
742833 ATATCGGGAAGCTCATAAGAGC
1 -TATCGGGAAGCTCATAAGAGC
742855 TGCGGTGTGT
Statistics
Matches: 114, Mismatches: 23, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
23 16 0.14
24 10 0.09
25 82 0.72
26 6 0.05
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (24 bp):
TATCGGGAAGCTCATAAGAGCCAT
Found at i:744163 original size:29 final size:29
Alignment explanation
Indices: 744130--744186 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
744120 CATAATGAAG
*
744130 ACCATGAAATAATGTAAAAATAAATTTTA
1 ACCATGAAATAATATAAAAATAAATTTTA
744159 ACCATGAAATAATATAAAAATAAATTTT
1 ACCATGAAATAATATAAAAATAAATTTT
744187 TCTTCCGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.32
Consensus pattern (29 bp):
ACCATGAAATAATATAAAAATAAATTTTA
Found at i:746125 original size:244 final size:244
Alignment explanation
Indices: 745670--746207 Score: 635
Period size: 244 Copynumber: 2.2 Consensus size: 244
745660 CAAAGGAAAG
*
745670 CAAACTAACAA-AAATAAGAAA-ATGCT---AGGAGTTCTGAAATTTTAGAAATCATACATACGA
1 CAAACTAACAAGAAA-AAGAAATATGCTAAAAGGAGTTCTGAAATTTTAGAAATCACACATACGA
** * * * *
745730 ACATTTGTTGCCCTAATATAGATGTTAGTGATTAAAAGTATTTCATTACCTTTATTGATGATCAT
65 ACATTTGTAACCCTAATATAGATGCTAGTGATAAAAAATATTTCATCACCTTTATTGATGATCAT
* * * * *
745795 TTGCAATACATGTATCTCTAATTTCTCCATCACAAAAGTGAGGCATTAGTTGCCTTTAAGGCATG
130 TTGCAATACATGTATCTCTAATTGCTCCATCACAAAACTAAGGCATTAGATGCCTTTAAGGCATA
* *
745860 CAAAACATTAGTAGAGAAACAATGTAAAAACCAAACTAAGATTATGAGAT
195 CAAAACATAAGTAGAGAAACAATGCAAAAACCAAACTAAGATTATGAGAT
* *
745910 CAAACTAACAAGAACAAGAAATATGCTAAAAGGAGTTCT-AGAATTTTAGACATCTTACACATA-
1 CAAACTAACAAGAAAAAGAAATATGCTAAAAGGAGTTCTGA-AATTTTAGAAATC--ACACATAC
* * *
745973 G-ACATTTGTAACCTTAATATATATGCTAGTGGTAAAAAATATTTCATCACCTTTATTGATGATC
63 GAACATTTGTAACCCTAATATAGATGCTAGTGATAAAAAATATTTCATCACCTTTATTGATGATC
* * * * * ** * *
746037 -TTTCTCGATACATGTATCTCTACTTGCTTCATCATAAAACTAATTCATTAGATGCTTTTAAGGT
128 ATTT-GCAATACATGTATCTCTAATTGCTCCATCACAAAACTAAGGCATTAGATGCCTTTAAGGC
* *
746101 ATACAAAGCATAAGTAGAGAAACAATGCAAAAAGCAAACTAAGATTATGAGAT
192 ATACAAAACATAAGTAGAGAAACAATGCAAAAACCAAACTAAGATTATGAGAT
* * * * *
746154 TAGACTAACACGAATAAAAAAAATATGCTAAAAGGAGTTCTGTAATTTTAGAAA
1 CAAACTAACAAG-A-AAAAGAAATATGCTAAAAGGAGTTCTGAAATTTTAGAAA
746208 CCATACACGC
Statistics
Matches: 249, Mismatches: 37, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
240 17 0.07
241 7 0.03
243 4 0.02
244 179 0.72
245 2 0.01
246 40 0.16
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (244 bp):
CAAACTAACAAGAAAAAGAAATATGCTAAAAGGAGTTCTGAAATTTTAGAAATCACACATACGAA
CATTTGTAACCCTAATATAGATGCTAGTGATAAAAAATATTTCATCACCTTTATTGATGATCATT
TGCAATACATGTATCTCTAATTGCTCCATCACAAAACTAAGGCATTAGATGCCTTTAAGGCATAC
AAAACATAAGTAGAGAAACAATGCAAAAACCAAACTAAGATTATGAGAT
Found at i:750021 original size:18 final size:16
Alignment explanation
Indices: 749981--750015 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
749971 TAAAAAAAAT
749981 TATTTAATTTTTATTA
1 TATTTAATTTTTATTA
749997 TATTTAATTTTT-TTA
1 TATTTAATTTTTATTA
750012 TATT
1 TATT
750016 CATTAAGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTAATTTTTATTA
Found at i:751187 original size:27 final size:26
Alignment explanation
Indices: 751157--751222 Score: 60
Period size: 27 Copynumber: 2.5 Consensus size: 26
751147 TTTTTTTCCT
751157 TTTTACTTTTTCCAAGCCCCCAAAAC
1 TTTTACTTTTTCCAAGCCCCCAAAAC
** * *** *
751183 ATTTTTGTTTTTGCTTTCCCCCAAATC
1 -TTTTACTTTTTCCAAGCCCCCAAAAC
751210 TTTTACTTTTTCC
1 TTTTACTTTTTCC
751223 CAAACCCCAA
Statistics
Matches: 29, Mismatches: 10, Indels: 1
0.73 0.25 0.03
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.18, C:0.29, G:0.05, T:0.48
Consensus pattern (26 bp):
TTTTACTTTTTCCAAGCCCCCAAAAC
Found at i:752769 original size:16 final size:16
Alignment explanation
Indices: 752748--752797 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
752738 TAAAAAACGA
752748 ATACAGAACATATCAG
1 ATACAGAACATATCAG
*
752764 ATACAG---TTA-CAG
1 ATACAGAACATATCAG
*
752776 ATACAGAACATATTAG
1 ATACAGAACATATCAG
752792 ATACAG
1 ATACAG
752798 TTACAAATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
15 2 0.07
16 14 0.52
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (16 bp):
ATACAGAACATATCAG
Found at i:752810 original size:28 final size:28
Alignment explanation
Indices: 752747--752810 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
752737 ATAAAAAACG
752747 AATACAGAACATATCAGATACAGTTACA
1 AATACAGAACATATCAGATACAGTTACA
* *
752775 GATACAGAACATATTAGATACAGTTACA
1 AATACAGAACATATCAGATACAGTTACA
*
752803 AATTCAGA
1 AATACAGA
752811 TACAAATGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.23
Consensus pattern (28 bp):
AATACAGAACATATCAGATACAGTTACA
Found at i:753515 original size:63 final size:63
Alignment explanation
Indices: 753413--753556 Score: 200
Period size: 63 Copynumber: 2.3 Consensus size: 63
753403 CTCAAATTCC
* * *
753413 CAAAACAGTGAGTTACATGGCCTGGACACACGCCCGTGTCTCTAGCCCGTGTGACCCT-AATT
1 CAAAACAGTGAGTTACACGGCCTGGACACACACCCGTGTCTCTAGCCCGTGTAACCCTAAATT
** * *
753475 CACAAACAGTGAGTTACACGGCCTGGACACACACTTGTGTCTCTAGCCTGTGTAATCCTAAATT
1 CA-AAACAGTGAGTTACACGGCCTGGACACACACCCGTGTCTCTAGCCCGTGTAACCCTAAATT
*
753539 CAAAATAGTGAGTTACAC
1 CAAAACAGTGAGTTACAC
753557 AGCTTGCCAC
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
62 2 0.03
63 64 0.89
64 6 0.08
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (63 bp):
CAAAACAGTGAGTTACACGGCCTGGACACACACCCGTGTCTCTAGCCCGTGTAACCCTAAATT
Found at i:756506 original size:19 final size:19
Alignment explanation
Indices: 756482--756528 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
756472 GCTTAAAGGG
756482 AAATTAGTATG-AAAATATA
1 AAATTAGTATGAAAAATA-A
* *
756501 AAATTAAATGTGAAAAATAA
1 AAATT-AGTATGAAAAATAA
756521 AAATTAGT
1 AAATTAGT
756529 CTTGGTTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.30
20 10 0.43
21 6 0.26
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.30
Consensus pattern (19 bp):
AAATTAGTATGAAAAATAA
Found at i:759042 original size:22 final size:22
Alignment explanation
Indices: 758998--759042 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
758988 TGTCTTCAGG
* * * *
758998 AATTATCAGCATTCTTTGGAAT
1 AATTACCACCATTCTTCGAAAT
759020 AATTACCACCATTCTTCGAAAT
1 AATTACCACCATTCTTCGAAAT
759042 A
1 A
759043 TATTCACTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (22 bp):
AATTACCACCATTCTTCGAAAT
Found at i:760448 original size:14 final size:13
Alignment explanation
Indices: 760423--760465 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
760413 AATTAAAGAG
760423 ATAAAAAGAAATAA
1 ATAAAAA-AAATAA
760437 ATAAAGAAAAATAA
1 ATAAA-AAAAATAA
* *
760451 ACAAACAAAATAA
1 ATAAAAAAAATAA
760464 AT
1 AT
760466 CAATAAACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 8 0.32
14 15 0.60
15 2 0.08
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (13 bp):
ATAAAAAAAATAA
Found at i:771379 original size:11 final size:11
Alignment explanation
Indices: 771365--771438 Score: 65
Period size: 11 Copynumber: 7.3 Consensus size: 11
771355 ATTTTTTTAA
771365 TTTTAAAATAT
1 TTTTAAAATAT
*
771376 TTTTAAAATAC
1 TTTTAAAATAT
771387 TTTT-AAAT-T
1 TTTTAAAATAT
771396 TTTT---A-A-
1 TTTTAAAATAT
771402 TTTTAAAATAT
1 TTTTAAAATAT
771413 TTTTAAAATACTT
1 TTTTAAAATA--T
771426 TTTTAAAAT-T
1 TTTTAAAATAT
771436 TTT
1 TTT
771439 GTTTTAATTT
Statistics
Matches: 53, Mismatches: 2, Indels: 17
0.74 0.03 0.24
Matches are distributed among these distances:
6 4 0.08
7 1 0.02
9 5 0.09
10 9 0.17
11 24 0.45
13 10 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:771406 original size:37 final size:38
Alignment explanation
Indices: 771349--771427 Score: 151
Period size: 37 Copynumber: 2.1 Consensus size: 38
771339 ATATTTTTAT
771349 TTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
771387 TTTTAAA-TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
771424 TTTT
1 TTTT
771428 TTAAAATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 34 0.83
38 7 0.17
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (38 bp):
TTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:779609 original size:26 final size:26
Alignment explanation
Indices: 779555--779648 Score: 95
Period size: 26 Copynumber: 3.6 Consensus size: 26
779545 TTATGAAATG
*
779555 GCTCACACAAGCCTTCGTATTTAGG-TT
1 GCTCACACAAG-CTTCATA-TTAGGATT
779582 GCTCACACAAGCTTCATATTAGGATT
1 GCTCACACAAGCTTCATATTAGGATT
* *
779608 GCTCATACAAGCTT-AGT-TTGATGATT
1 GCTCACACAAGCTTCA-TATT-AGGATT
*
779634 TCTCACACAAGCTTC
1 GCTCACACAAGCTTC
779649 GGAATATCCA
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
25 8 0.14
26 39 0.67
27 11 0.19
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (26 bp):
GCTCACACAAGCTTCATATTAGGATT
Found at i:783655 original size:22 final size:20
Alignment explanation
Indices: 783630--783680 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
783620 TAAATAATCC
783630 ATATTAATAAATAATTTAGAAT
1 ATATTAATAAAT-ATTTA-AAT
* *
783652 ATA-TATATAACTTTTTAAAT
1 ATATTA-ATAAATATTTAAAT
783672 ATATTAATA
1 ATATTAATA
783681 TTTAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 9 0.36
21 8 0.32
22 8 0.32
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
ATATTAATAAATATTTAAAT
Found at i:807535 original size:3 final size:3
Alignment explanation
Indices: 807489--807523 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
807479 AACATAAACA
807489 AAT AAGT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
807524 ACAAAATAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:809483 original size:12 final size:12
Alignment explanation
Indices: 809466--809501 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
809456 AATTTAATTT
809466 AAAAAATTATAA
1 AAAAAATTATAA
809478 AAAAAATTATTAA
1 AAAAAATTA-TAA
*
809491 AATAAATTATA
1 AAAAAATTATA
809502 TTATTTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAAATTATAA
Found at i:809491 original size:13 final size:13
Alignment explanation
Indices: 809466--809500 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
809456 AATTTAATTT
809466 AAAAAATTA-TAA
1 AAAAAATTATTAA
809478 AAAAAATTATTAA
1 AAAAAATTATTAA
*
809491 AATAAATTAT
1 AAAAAATTAT
809501 ATTATTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAAATTATTAA
Found at i:817772 original size:39 final size:41
Alignment explanation
Indices: 817727--817813 Score: 124
Period size: 39 Copynumber: 2.2 Consensus size: 41
817717 AAAATTTATA
* * *
817727 TTTAATACAATAAAATATTTATTATATTTAT-TTGTG-TTT
1 TTTAATACAATAAAACATTTATTATATTAATGTAGTGTTTT
*
817766 TTTAATATAATAAAACATTTATTATATTAATGTAGTGTTTT
1 TTTAATACAATAAAACATTTATTATATTAATGTAGTGTTTT
817807 TTTAATA
1 TTTAATA
817814 TGAATACTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 28 0.67
40 4 0.10
41 10 0.24
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (41 bp):
TTTAATACAATAAAACATTTATTATATTAATGTAGTGTTTT
Found at i:817872 original size:11 final size:10
Alignment explanation
Indices: 817844--817886 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
817834 AGAAAACTTT
817844 TATTTTAGTG
1 TATTTTAGTG
817854 TATTTTAGTG
1 TATTTTAGTG
817864 TATTTTTAGTG
1 TA-TTTTAGTG
*
817875 CA-TTTAGTG
1 TATTTTAGTG
817884 TAT
1 TAT
817887 ATTTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.28
10 12 0.41
11 9 0.31
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.58
Consensus pattern (10 bp):
TATTTTAGTG
Found at i:818991 original size:18 final size:17
Alignment explanation
Indices: 818970--819004 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
818960 TTATTATTAA
*
818970 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
818988 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
819005 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:819119 original size:16 final size:16
Alignment explanation
Indices: 819098--819141 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
819088 ATAAATAATT
819098 TAATTATATTTAAATA
1 TAATTATATTTAAATA
819114 TAATTAT-TATTAAATA
1 TAATTATAT-TTAAATA
*
819130 T-ATTATAATTAA
1 TAATTATATTTAA
819142 TAAGTAACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 10 0.40
16 15 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTATATTTAAATA
Found at i:822389 original size:28 final size:28
Alignment explanation
Indices: 822358--822412 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
822348 GCAAATCGGT
*
822358 AGAAAAGAAAAGAAAATAAACAGAGGGC
1 AGAAAAGAAAAGAAAAGAAACAGAGGGC
*
822386 AGAAAAGAAAAGAAAAGAAACGGAGGG
1 AGAAAAGAAAAGAAAAGAAACAGAGGG
822413 AGCAAATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.64, C:0.05, G:0.29, T:0.02
Consensus pattern (28 bp):
AGAAAAGAAAAGAAAAGAAACAGAGGGC
Found at i:826588 original size:21 final size:21
Alignment explanation
Indices: 826534--826586 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
826524 ATATAAGAAA
* *
826534 ATAAAATTATATAAAATTATC
1 ATAAAAATAAATAAAATTATC
826555 ATAAAAATAAATAACAATT-TC
1 ATAAAAATAAATAA-AATTATC
826576 ATAAATAATAA
1 ATAAA-AATAA
826587 TATATCTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAAAAATAAATAAAATTATC
Found at i:828704 original size:12 final size:13
Alignment explanation
Indices: 828684--828724 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
828674 TTTAATTATT
*
828684 AAATTATAA-TTA
1 AAATAATAATTTA
828696 AAATAATAATTTA
1 AAATAATAATTTA
828709 AAGA-AATAATTTA
1 AA-ATAATAATTTA
828722 AAA
1 AAA
828725 GTCATCTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 9 0.35
13 16 0.62
14 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
AAATAATAATTTA
Found at i:829905 original size:3 final size:3
Alignment explanation
Indices: 829848--829896 Score: 55
Period size: 3 Copynumber: 16.3 Consensus size: 3
829838 AGTACTTTGC
* * *
829848 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CT-T TAC TAT TAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
829893 TAT T
1 TAT T
829897 GGTATTATTG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
2 1 0.03
3 37 0.97
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:830104 original size:35 final size:36
Alignment explanation
Indices: 830025--830104 Score: 94
Period size: 35 Copynumber: 2.2 Consensus size: 36
830015 AATTGGTTTA
*
830025 ATATATATACGTATACTCATATTTCTTTTTTATATAT
1 ATATATATACATATAC-CATATTTCTTTTTTATATAT
*
830062 ATCTATATACATATA-CATATTT-TATTTTTATA-AGT
1 ATATATATACATATACCATATTTCT-TTTTTATATA-T
830097 ATATATAT
1 ATATATAT
830105 TTATATGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
34 2 0.05
35 23 0.61
37 13 0.34
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACCATATTTCTTTTTTATATAT
Found at i:830367 original size:18 final size:19
Alignment explanation
Indices: 830329--830366 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
830319 TATACACCTA
830329 TATATATATGTACATATTTT
1 TATATATATG-ACATATTTT
830349 TATATATATG-CAT-TTTT
1 TATATATATGACATATTTT
830366 T
1 T
830367 TTTAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 3 0.17
20 10 0.56
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (19 bp):
TATATATATGACATATTTT
Found at i:842804 original size:46 final size:45
Alignment explanation
Indices: 842737--843017 Score: 189
Period size: 46 Copynumber: 6.5 Consensus size: 45
842727 ATTATACAGG
*
842737 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAA-TTCAGA
* * * *
842783 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGGATAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGA-ATTCAGA
* * * * * *
842827 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG------GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAATTCAGA
* * * *
842866 TCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--A-CA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGAATTCAGA
* *
842907 TCTTATCTTCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAA-TTCAGA
* * ** * *
842953 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA--GAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-AATTCAGA
842997 TCTTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACA
843018 CCGGAGCAGA
Statistics
Matches: 182, Mismatches: 36, Indels: 36
0.72 0.14 0.14
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 23 0.13
40 1 0.01
41 26 0.14
42 1 0.01
43 1 0.01
44 55 0.30
45 1 0.01
46 70 0.38
47 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAATTCAGA
Found at i:843017 original size:44 final size:43
Alignment explanation
Indices: 842737--843072 Score: 178
Period size: 44 Copynumber: 7.8 Consensus size: 43
842727 ATTATACAGG
* * * *
842737 TCTTATCTCCCTGAGATTACAGTGGAACAGA-CCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTC-AAGCA---GAGA
* * *
842783 TCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCAAGGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTCAAGCAGAG--A
* * * *
842827 TCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTCAAGCAGAGA
* * * *
842866 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACATCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTCA-AGCAGAGA
* * * * *
842907 TCTTATCTTCCTGAGATTACAGTGGAACAGA-CCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTC-AAGCA---GAGA
* *
842953 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTCAAG-CAGAGA
** **
842997 TCTTATCTCCCTGAGATTACACCGGAGCAGA-TCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTC-AAG-CAGAGA
* *
843040 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATT
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT
843073 AAAATATGAG
Statistics
Matches: 225, Mismatches: 45, Indels: 42
0.72 0.14 0.13
Matches are distributed among these distances:
38 2 0.01
39 24 0.11
40 1 0.00
41 28 0.12
42 9 0.04
43 27 0.12
44 66 0.29
45 6 0.03
46 61 0.27
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTCAAGCAGAGA
Found at i:843097 original size:71 final size:72
Alignment explanation
Indices: 843008--843147 Score: 196
Period size: 72 Copynumber: 2.0 Consensus size: 72
842998 CTTATCTCCC
*
843008 TGAGATTACACCGGAGCAGATCGAA-GACACT-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGG
1 TGAGATTACACCGGAGCAGATC-AAGGACACTAATCCTATCTCCCTGAGA-TTACAATGGAGCGG
843070 ATTAAAATA
64 ATTAAAATA
* * * *
843079 TGAGATTACAGCGGAGCAGATCAAGGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGAT
1 TGAGATTACACCGGAGCAGATCAAGGACACTAATCCTATCTCCCTGAGATTACAATGGAGCGGAT
843144 TAAA
66 TAAA
843148 GGATCTTATC
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
70 2 0.03
71 25 0.41
72 33 0.54
73 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (72 bp):
TGAGATTACACCGGAGCAGATCAAGGACACTAATCCTATCTCCCTGAGATTACAATGGAGCGGAT
TAAAATA
Found at i:843371 original size:174 final size:170
Alignment explanation
Indices: 843079--843392 Score: 393
Period size: 174 Copynumber: 1.8 Consensus size: 170
843069 GATTAAAATA
* * *
843079 TGAGATTACAGCGGAGCAGATCAAGGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGAT
1 TGAGATTACAGCGGAGCAGATCAAGGACACTAATCCTATCTCCCTGAGATTACAATGGAGCGGAT
* *
843144 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTG-AGA
66 TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAAGTCTTATCTCCCTGAAGA
843208 TTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCC
131 -TACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCC
* * *
843249 TGAGGTTACAGCGGAGCAGATCGAA-GACACT-ATCCTATCTCCCTGA-AGTTACAGTGGAGTGG
1 TGAGATTACAGCGGAGCAGATC-AAGGACACTAATCCTATCTCCCTGAGA-TTACAATGGAGCGG
* * * * * *
843311 ATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGGTCGCATTAAGTCTTATTTCC
64 A-T----TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAAGTCTTATCTCC
*
843376 CTGAAGATGCAGTGGAA
124 CTGAAGATACAGTGGAA
843393 TGGATTGAAA
Statistics
Matches: 121, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
168 1 0.01
169 27 0.22
170 26 0.21
171 2 0.02
174 62 0.51
175 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (170 bp):
TGAGATTACAGCGGAGCAGATCAAGGACACTAATCCTATCTCCCTGAGATTACAATGGAGCGGAT
TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAAGTCTTATCTCCCTGAAGA
TACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCC
Found at i:845008 original size:3 final size:3
Alignment explanation
Indices: 844828--844999 Score: 310
Period size: 3 Copynumber: 57.3 Consensus size: 3
844818 AGTACTTTGC
844828 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
844876 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
844924 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
844972 TAT TAT TAT CT-T TAC TAT TAT TAG TAT T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT T
845000 GGTATTATTG
Statistics
Matches: 163, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
2 1 0.01
3 161 0.99
4 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:845207 original size:35 final size:36
Alignment explanation
Indices: 845128--845207 Score: 94
Period size: 35 Copynumber: 2.2 Consensus size: 36
845118 AATTGGTTTA
*
845128 ATATATATACGTATATTCATATTTCTTTTTTATATAT
1 ATATATATACG-ATATACATATTTCTTTTTTATATAT
*
845165 ATCTATATAC-ATATACATATTT-TATTTTTATA-AGT
1 ATATATATACGATATACATATTTCT-TTTTTATATA-T
845200 ATATATAT
1 ATATATAT
845208 TTATATGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
34 2 0.05
35 27 0.71
37 9 0.24
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (36 bp):
ATATATATACGATATACATATTTCTTTTTTATATAT
Found at i:845470 original size:18 final size:19
Alignment explanation
Indices: 845432--845469 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
845422 TATACACCTA
845432 TATATATATGTACATATTTT
1 TATATATATG-ACATATTTT
845452 TATATATATG-CAT-TTTT
1 TATATATATGACATATTTT
845469 T
1 T
845470 TTTAAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 3 0.17
20 10 0.56
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (19 bp):
TATATATATGACATATTTT
Found at i:846808 original size:33 final size:32
Alignment explanation
Indices: 846771--846850 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 32
846761 TACCCAAATG
*
846771 GTACAATTTGAAAAGGTTATGTACACCTTGTGT
1 GTAC-ATTTGAAAAGGTTAGGTACACCTTGTGT
* * *
846804 GTACACTTG-AAAGGTTAGGTATACTTTGTGT
1 GTACATTTGAAAAGGTTAGGTACACCTTGTGT
* *
846835 ATACCATATGAAAAGG
1 GTA-CATTTGAAAAGG
846851 AAAGGTATAC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 21 0.55
32 8 0.21
33 9 0.24
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (32 bp):
GTACATTTGAAAAGGTTAGGTACACCTTGTGT
Found at i:846883 original size:33 final size:33
Alignment explanation
Indices: 846801--846885 Score: 95
Period size: 33 Copynumber: 2.6 Consensus size: 33
846791 GTACACCTTG
** *
846801 TGTGTA-CACTT-GAAAGGTTAGGTATACTTTG
1 TGTGTACCACTTGGAAAGGAAAGGTATACTTTA
* *
846832 TGTATACCA-TATGAAAAGGAAAGGTATACTTTA
1 TGTGTACCACT-TGGAAAGGAAAGGTATACTTTA
846865 TGTGTACCACTTGGAAAGGAA
1 TGTGTACCACTTGGAAAGGAA
846886 TGTACACCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
31 6 0.14
32 3 0.07
33 33 0.77
34 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (33 bp):
TGTGTACCACTTGGAAAGGAAAGGTATACTTTA
Found at i:851774 original size:4 final size:4
Alignment explanation
Indices: 851765--851798 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
851755 ACTAATTTAG
*
851765 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AGGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
851799 TCCCTGATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:856313 original size:23 final size:23
Alignment explanation
Indices: 856287--856330 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
856277 AAACGTGGAG
856287 CTTA-AAAATTAATATTTAATAAA
1 CTTAGAAAATT-ATATTTAATAAA
*
856310 CTTAGAAAATTTTATTTAATA
1 CTTAGAAAATTATATTTAATA
856331 TTTAATAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (23 bp):
CTTAGAAAATTATATTTAATAAA
Found at i:861099 original size:240 final size:240
Alignment explanation
Indices: 860676--861156 Score: 899
Period size: 240 Copynumber: 2.0 Consensus size: 240
860666 GCCCAACAAA
*
860676 GCTTGAACAAGAGCTTCCTTGTTAAAAATATTGCCTAGTTTATCAATGACGCAAGGTTTTCTTAA
1 GCTTGAACAAGAGCTTCCTTGTTAAAAATATTGCCTAGTTTATCAATGACGCAAGGTTCTCTTAA
*
860741 GGGGTCATTGGATAAAGCATAATTGAGTCACTTACCGAACCTTTGCTCATTCGGGTCGACTTTGT
66 GGGGTCATTGGATAAAGCACAATTGAGTCACTTACCGAACCTTTGCTCATTCGGGTCGACTTTGT
*
860806 CGGGCTTTTTAACAGCGTACATATTGAGGTAACAGTCGCGAGACTCGACTCCGGTGGCTCCGCGA
131 CGGGCTTTTTAACAGCGTACATATTGAGGTAACAGTCGCGAGACTCGACTCCGGTGGCTCCGCCA
*
860871 TCGCCTCCGCCGCGGAGCGGGAAAGGAGAAAGCGGGTGAATTAGG
196 TCGCCTCCGCCGAGGAGCGGGAAAGGAGAAAGCGGGTGAATTAGG
860916 GCTTGAACAAGAGCTTCCTTGTTAAAAATATTGCCTAGTTTATCAATGACGCAAGGTTCTCTTAA
1 GCTTGAACAAGAGCTTCCTTGTTAAAAATATTGCCTAGTTTATCAATGACGCAAGGTTCTCTTAA
*
860981 GGGGTCATTGGATAAAGCGCAATTGAGTCACTTACCGAACCTTTGCTCATTCGGGTCGACTTTGT
66 GGGGTCATTGGATAAAGCACAATTGAGTCACTTACCGAACCTTTGCTCATTCGGGTCGACTTTGT
* *
861046 CGGGCTTTTTAACAGCGTAGATCTTGAGGTAACAGTCGCGAGACTCGACTCCGGTGGCTCCGCCA
131 CGGGCTTTTTAACAGCGTACATATTGAGGTAACAGTCGCGAGACTCGACTCCGGTGGCTCCGCCA
861111 TCGCCTCCGCCGAGGAGCGGGAAAGGAGAAAGCGGGTGAATTAGG
196 TCGCCTCCGCCGAGGAGCGGGAAAGGAGAAAGCGGGTGAATTAGG
861156 G
1 G
861157 ATTTGGTTTA
Statistics
Matches: 234, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
240 234 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (240 bp):
GCTTGAACAAGAGCTTCCTTGTTAAAAATATTGCCTAGTTTATCAATGACGCAAGGTTCTCTTAA
GGGGTCATTGGATAAAGCACAATTGAGTCACTTACCGAACCTTTGCTCATTCGGGTCGACTTTGT
CGGGCTTTTTAACAGCGTACATATTGAGGTAACAGTCGCGAGACTCGACTCCGGTGGCTCCGCCA
TCGCCTCCGCCGAGGAGCGGGAAAGGAGAAAGCGGGTGAATTAGG
Found at i:861716 original size:7 final size:7
Alignment explanation
Indices: 861704--861748 Score: 90
Period size: 7 Copynumber: 6.4 Consensus size: 7
861694 GTTATTGCAT
861704 GTGATGG
1 GTGATGG
861711 GTGATGG
1 GTGATGG
861718 GTGATGG
1 GTGATGG
861725 GTGATGG
1 GTGATGG
861732 GTGATGG
1 GTGATGG
861739 GTGATGG
1 GTGATGG
861746 GTG
1 GTG
861749 TCTTTAGGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.13, C:0.00, G:0.58, T:0.29
Consensus pattern (7 bp):
GTGATGG
Found at i:863681 original size:93 final size:93
Alignment explanation
Indices: 863494--863685 Score: 255
Period size: 93 Copynumber: 2.1 Consensus size: 93
863484 CATGAAACTG
* * * *
863494 AAAGAAAATTTCTTTAGTGGTTTGGCCGAGAAATATGCTGGTGTGTTATATGGTCTTGGTGTTGA
1 AAAGAAAACTTCTTTAGTGGTTCGACCGAGAAATATGCTGGTGTGTTATATGGTCTTGGTGTTCA
863559 GAATGGACAGAATACTCTCTAATAAATC
66 GAATGGACAGAATACTCTCTAATAAATC
* * *
863587 AAAGAAAACTTCTTTAGTTGG-TCGACTGAGAGATATGCTGGTTTGTTATATGGTCTTGGTCGTT
1 AAAGAAAACTTCTTTAG-TGGTTCGACCGAGAAATATGCTGGTGTGTTATATGGTCTTGGT-GTT
* *
863651 CAGAATTGACAGAATACT-TCTTAA-ATATC
64 CAGAATGGACAGAATACTCTC-TAATAAATC
863680 AAAGAA
1 AAAGAA
863686 TTATGAAATA
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
93 62 0.71
94 25 0.29
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (93 bp):
AAAGAAAACTTCTTTAGTGGTTCGACCGAGAAATATGCTGGTGTGTTATATGGTCTTGGTGTTCA
GAATGGACAGAATACTCTCTAATAAATC
Found at i:868653 original size:17 final size:16
Alignment explanation
Indices: 868628--868659 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
868618 GGTACAAGAT
868628 TTTAATTTTTTTTATC
1 TTTAATTTTTTTTATC
868644 TTTAACTTTTTTTTAT
1 TTTAA-TTTTTTTTAT
868660 ATAATTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTAATTTTTTTTATC
Found at i:887412 original size:17 final size:17
Alignment explanation
Indices: 887386--887420 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
887376 TATCAAGATT
* *
887386 AAAATTTAAAAATTTAA
1 AAAATATAAAAACTTAA
887403 AAAATATAAAAACTTAA
1 AAAATATAAAAACTTAA
887420 A
1 A
887421 TATAACCCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATATAAAAACTTAA
Found at i:895649 original size:19 final size:19
Alignment explanation
Indices: 895625--895667 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
895615 ATATTTGTTT
*
895625 AAATGAAAATGGTTCTAAA
1 AAATGAAAATGATTCTAAA
*
895644 AAATG--AATTATTCTAAA
1 AAATGAAAATGATTCTAAA
895661 AAATGAA
1 AAATGAA
895668 TTACCTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
17 15 0.75
19 5 0.25
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.28
Consensus pattern (19 bp):
AAATGAAAATGATTCTAAA
Found at i:895659 original size:17 final size:17
Alignment explanation
Indices: 895637--895670 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
895627 ATGAAAATGG
895637 TTCTAAAAAATGAATTA
1 TTCTAAAAAATGAATTA
895654 TTCTAAAAAATGAATTA
1 TTCTAAAAAATGAATTA
895671 CCTTTATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (17 bp):
TTCTAAAAAATGAATTA
Found at i:897577 original size:23 final size:23
Alignment explanation
Indices: 897542--897635 Score: 127
Period size: 23 Copynumber: 4.1 Consensus size: 23
897532 AAGTTAGAAG
897542 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
897565 AGTGAAAAAACTTGAATAT-AAA
1 AGTGAAGAGACTTGAATATGAAA
*
897587 TAGTGAAGAGACTTGAAGATGAAA
1 -AGTGAAGAGACTTGAATATGAAA
* *
897611 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
897634 AG
1 AG
897636 ATACACACAT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
22 3 0.05
23 55 0.90
24 3 0.05
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:902075 original size:23 final size:23
Alignment explanation
Indices: 902049--902142 Score: 127
Period size: 23 Copynumber: 4.1 Consensus size: 23
902039 AAGTTAGAAG
902049 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
902072 AGTGAAAAAACTTGAATAT-AAA
1 AGTGAAGAGACTTGAATATGAAA
*
902094 TAGTGAAGAGACTTGAAGATGAAA
1 -AGTGAAGAGACTTGAATATGAAA
* *
902118 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
902141 AG
1 AG
902143 ATACACACAT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
22 3 0.05
23 55 0.90
24 3 0.05
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:904591 original size:204 final size:203
Alignment explanation
Indices: 904270--904842 Score: 1074
Period size: 204 Copynumber: 2.8 Consensus size: 203
904260 AACTTGACTT
904270 CAACTCAACTCAAATATTTATATATTCTGAAATTTTAAATAGATTAGATTGAAGTCGAGTTTTTT
1 CAACTCAACTCAAATATTTATATATTCTGAAATTTTAAATAGATTAGATTGAAGTCGAGTTTTTT
904335 CTTTAGATAAACTAATTAGTATTCTTTTATTTGAAAAAATAAAAATTTATATGAATTTTTCTAAA
66 CTTTAGATAAACTAATTAGTATTCTTTTATTTGAAAAAATAAAAATTTATATGAATTTTTCTAAA
*
904400 ACTTTATATTTGATGAAAAATGTTTTGAGTTATACTTTGATAAAACTTTAGACTATTAAAACGGA
131 ACTTTATATTTGATGAAAAATGTTTTGAGTTATACTTTGATAAAACTTGAGACTATTAAAACGGA
904465 TTTAATTA
196 TTTAATTA
904473 CAACTCAACTCAAATATTTATATATTCTGAAATTTTAAATAGATTAGATTGAAGTCGAGTTTTTT
1 CAACTCAACTCAAATATTTATATATTCTGAAATTTTAAATAGATTAGATTGAAGTCGAG-TTTTT
*
904538 TTTTTAGATAAACTAATTAGTATTCTTTTATTTGAAAAAATAAAAATTTATATGAATTTTTCTAA
65 TCTTTAGATAAACTAATTAGTATTCTTTTATTTGAAAAAATAAAAATTTATATGAATTTTTCTAA
* * *
904603 AAATTTATATTTGATGAAAAATGTTTTGAGTTATACTTTGATGAAACTTGAGACTATTGAAACGG
130 AACTTTATATTTGATGAAAAATGTTTTGAGTTATACTTTGATAAAACTTGAGACTATTAAAACGG
904668 ATTTAATTA
195 ATTTAATTA
904677 CAACTCAACTCAAATATTTATATATTCTGAAATTTTAAATAGATTAGATTGAAGTCGAGTTTTTT
1 CAACTCAACTCAAATATTTATATATTCTGAAATTTTAAATAGATTAGATTGAAGTCGAGTTTTTT
*
904742 CTTTAGATAAACTAATTAGTATTCTTTTATTTGAAAAAAATAAAAATTTATATGAAATTTTCTAA
66 CTTTAGATAAACTAATTAGTATTCTTTTATTTG-AAAAAATAAAAATTTATATGAATTTTTCTAA
904807 AACTTTATATTTGATGAAAAATGTTTTGAGTTATAC
130 AACTTTATATTTGATGAAAAATGTTTTGAGTTATAC
904843 GGATTTAATT
Statistics
Matches: 360, Mismatches: 8, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
203 97 0.27
204 263 0.73
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.43
Consensus pattern (203 bp):
CAACTCAACTCAAATATTTATATATTCTGAAATTTTAAATAGATTAGATTGAAGTCGAGTTTTTT
CTTTAGATAAACTAATTAGTATTCTTTTATTTGAAAAAATAAAAATTTATATGAATTTTTCTAAA
ACTTTATATTTGATGAAAAATGTTTTGAGTTATACTTTGATAAAACTTGAGACTATTAAAACGGA
TTTAATTA
Found at i:907613 original size:5 final size:5
Alignment explanation
Indices: 907603--907628 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
907593 CTATAACATC
907603 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
907629 TGTATCTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:908386 original size:16 final size:16
Alignment explanation
Indices: 908361--908395 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
908351 TAGGAATTGG
*
908361 TTTGTTTTTGTTGGGA
1 TTTGTCTTTGTTGGGA
908377 TTTGTCTTTGTTGGGA
1 TTTGTCTTTGTTGGGA
908393 TTT
1 TTT
908396 TTTCAGCATA
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:0.06, C:0.03, G:0.29, T:0.63
Consensus pattern (16 bp):
TTTGTCTTTGTTGGGA
Found at i:914612 original size:28 final size:28
Alignment explanation
Indices: 914580--914636 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
914570 TAACTTTAAC
914580 TACAATGGTTAAAAAATATAAACTATCT
1 TACAATGGTTAAAAAATATAAACTATCT
914608 TACAATGGTTAAAAAATATAAACTATCT
1 TACAATGGTTAAAAAATATAAACTATCT
914636 T
1 T
914637 TTTCTCGTGT
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:0.49, C:0.11, G:0.07, T:0.33
Consensus pattern (28 bp):
TACAATGGTTAAAAAATATAAACTATCT
Found at i:918241 original size:19 final size:19
Alignment explanation
Indices: 918204--918243 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
918194 CAAAAGCATA
* *
918204 TTATAATTTATCAATTTTT
1 TTATAATTTATAAAGTTTT
*
918223 TTATAATTTTTAAAGTTTT
1 TTATAATTTATAAAGTTTT
918242 TT
1 TT
918244 CCAATTTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
TTATAATTTATAAAGTTTT
Found at i:918288 original size:21 final size:21
Alignment explanation
Indices: 918255--918298 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
918245 CAATTTTTCA
*
918255 TTTTTGATGATTTTTTAAATT
1 TTTTTGATGATTTTTGAAATT
918276 TTTTCTGAT-ATTTTTGAAATT
1 TTTT-TGATGATTTTTGAAATT
918297 TT
1 TT
918299 AGGATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (21 bp):
TTTTTGATGATTTTTGAAATT
Found at i:921624 original size:16 final size:16
Alignment explanation
Indices: 921591--921620 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
921581 ATAAGTCTAT
921591 TTTTTTTAAGTATTTA
1 TTTTTTTAAGTATTTA
921607 TTTTTTTAA-TATTT
1 TTTTTTTAAGTATTT
921621 TATTGTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTTTTTAAGTATTTA
Found at i:921952 original size:27 final size:24
Alignment explanation
Indices: 921909--921963 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 24
921899 GTATATCAAG
921909 ATTTTATAACATAAGATGAAATTGCAT
1 ATTTTATAACATAAGAT-AAA-TG-AT
921936 ATTTTATAACA-ATAGATAAATGAT
1 ATTTTATAACATA-AGATAAATGAT
921960 ATTT
1 ATTT
921964 ACAATTTACA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.22
25 2 0.07
26 4 0.15
27 15 0.56
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.40
Consensus pattern (24 bp):
ATTTTATAACATAAGATAAATGAT
Found at i:924294 original size:22 final size:22
Alignment explanation
Indices: 924267--924309 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
924257 ACTAGACTAA
924267 AAAATATAT-TTTAAATATTTTT
1 AAAATATATATTTAAA-ATTTTT
924289 AAAATATATATTTAAAATTTT
1 AAAATATATATTTAAAATTTT
924310 ATGTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAAATATATATTTAAAATTTTT
Found at i:924297 original size:24 final size:22
Alignment explanation
Indices: 924264--924309 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
924254 CTCACTAGAC
924264 TAAAAAATATATTTTAAATATTTT
1 TAAAAAATATA-TTTAAA-ATTTT
*
924288 TAAAATATATATTTAAAATTTT
1 TAAAAAATATATTTAAAATTTT
924310 ATGTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.24
23 6 0.29
24 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAAAAATATATTTAAAATTTT
Found at i:925761 original size:10 final size:9
Alignment explanation
Indices: 925746--925792 Score: 78
Period size: 9 Copynumber: 5.2 Consensus size: 9
925736 TAAATAATTT
925746 AAAAATTACA
1 AAAAATTA-A
925756 AAAAATTAA
1 AAAAATTAA
925765 AAAAATTAA
1 AAAAATTAA
925774 AAAAATT-A
1 AAAAATTAA
925782 AAAAATTAA
1 AAAAATTAA
925791 AA
1 AA
925793 TTAAAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.22
9 20 0.56
10 8 0.22
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATTAA
Found at i:925766 original size:8 final size:8
Alignment explanation
Indices: 925736--925792 Score: 60
Period size: 8 Copynumber: 6.6 Consensus size: 8
925726 GTCACATTAA
*
925736 TAAATAAT
1 TAAAAAAT
*
925744 TTAAAAAT
1 TAAAAAAT
925752 TACAAAAAAT
1 T--AAAAAAT
925762 TAAAAAAAT
1 T-AAAAAAT
925771 TAAAAAAAT
1 T-AAAAAAT
925780 TAAAAAAT
1 TAAAAAAT
925788 TAAAA
1 TAAAA
925793 TTAAAAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
8 19 0.44
9 17 0.40
10 7 0.16
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (8 bp):
TAAAAAAT
Found at i:925767 original size:18 final size:17
Alignment explanation
Indices: 925731--925792 Score: 79
Period size: 19 Copynumber: 3.4 Consensus size: 17
925721 TATATGTCAC
*
925731 ATTAATAAATAATTTAAAA
1 ATTAA-AAA-AATTAAAAA
925750 ATTACAAAAAATTAAAAAA
1 ATTA-AAAAAATT-AAAAA
925769 ATTAAAAAAATTAAAAA
1 ATTAAAAAAATTAAAAA
925786 ATTAAAA
1 ATTAAAA
925793 TTAAAAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
17 12 0.30
18 12 0.30
19 15 0.38
20 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
ATTAAAAAAATTAAAAA
Found at i:936215 original size:22 final size:22
Alignment explanation
Indices: 936190--936234 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
936180 TTTAATAAAG
936190 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
936212 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
936234 A
1 A
936235 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:937446 original size:22 final size:22
Alignment explanation
Indices: 937421--937463 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
937411 GACTTCTTCC
937421 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
937443 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
937464 CACTCCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:938561 original size:22 final size:22
Alignment explanation
Indices: 938510--938561 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
938500 TTTAATAAAG
*
938510 AAAATATCTACAAAATATTCCT
1 AAAATATTTACAAAATATTCCT
*
938532 AAAATATTTACAGAATATTCCT
1 AAAATATTTACAAAATATTCCT
*
938554 ACAATATT
1 AAAATATT
938562 AGTATTGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (22 bp):
AAAATATTTACAAAATATTCCT
Found at i:939311 original size:11 final size:10
Alignment explanation
Indices: 939286--939319 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
939276 AATTATAAAT
*
939286 TAAAACATAG
1 TAAAAAATAG
939296 TAAAAAATAG
1 TAAAAAATAG
939306 TAAAAAATA-
1 TAAAAAATAG
939315 TAAAA
1 TAAAA
939320 GTATTAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 5 0.22
10 18 0.78
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.21
Consensus pattern (10 bp):
TAAAAAATAG
Found at i:944283 original size:16 final size:17
Alignment explanation
Indices: 944246--944283 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
944236 AGATAACGGA
*
944246 AAAAAGAAAGATAAAAT
1 AAAAAGAAACATAAAAT
*
944263 TAAAAG-AACATAAAAT
1 AAAAAGAAACATAAAAT
944279 AAAAA
1 AAAAA
944284 ATTTGCTCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAAAGAAACATAAAAT
Found at i:945329 original size:25 final size:25
Alignment explanation
Indices: 945300--945352 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
945290 TTTTTTTAAT
945300 AAATTAAATT-ATGAAATATAATTTA
1 AAATTAAATTAAT-AAATATAATTTA
*
945325 AAATTAAGTTAAATAAATATAATTTA
1 AAATTAAATT-AATAAATATAATTTA
945351 AA
1 AA
945353 TATTTTATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 14 0.56
27 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (25 bp):
AAATTAAATTAATAAATATAATTTA
Found at i:950541 original size:20 final size:21
Alignment explanation
Indices: 950503--950546 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
950493 ATTTTGATTT
950503 TTTTTATAAATTTCATATA-A
1 TTTTTATAAATTTCATATATA
*
950523 TTTTTATAATATTT-TTATATA
1 TTTTTATAA-ATTTCATATATA
950544 TTT
1 TTT
950547 CCATAGGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTATAAATTTCATATATA
Found at i:950874 original size:18 final size:20
Alignment explanation
Indices: 950842--950886 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
950832 GAAAAATTTT
*
950842 AAAAATTATATAAAATCTAA
1 AAAAATTATATAAAATATAA
950862 AAAAATTA-A-AAAATATAA
1 AAAAATTATATAAAATATAA
950880 ATAAAAT
1 A-AAAAT
950887 ATTAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
19 6 0.26
20 8 0.35
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAATTATATAAAATATAA
Found at i:951703 original size:6 final size:6
Alignment explanation
Indices: 951692--951728 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
951682 GTCACTTCAA
951692 ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC A
1 ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC ACCCAC A
951729 ACAGCACATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCCAC
Found at i:953445 original size:17 final size:17
Alignment explanation
Indices: 953423--953457 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
953413 TACCATGTAT
*
953423 TTTAAAGTTTTTACATA
1 TTTAAAATTTTTACATA
*
953440 TTTAAAATTTTTATATA
1 TTTAAAATTTTTACATA
953457 T
1 T
953458 CATGTAGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTAAAATTTTTACATA
Found at i:956459 original size:25 final size:25
Alignment explanation
Indices: 956429--956482 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
956419 TCATTTCATT
956429 TATTATTTATTTTAAAATTTTTATA
1 TATTATTTATTTTAAAATTTTTATA
* *
956454 TATTATTTATTTTAAACTTTTTATG
1 TATTATTTATTTTAAAATTTTTATA
956479 TATT
1 TATT
956483 TTTTTTACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (25 bp):
TATTATTTATTTTAAAATTTTTATA
Found at i:956806 original size:25 final size:25
Alignment explanation
Indices: 956761--956815 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
956751 TTCATATTTT
* *
956761 TTATTATTATTGTTTGGATGTGAAC
1 TTATTACTATTGTGTGGATGTGAAC
* * *
956786 TTATTACTATTGTGTGTATGTTAAT
1 TTATTACTATTGTGTGGATGTGAAC
956811 TTATT
1 TTATT
956816 TTTTTTATCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.56
Consensus pattern (25 bp):
TTATTACTATTGTGTGGATGTGAAC
Found at i:959161 original size:17 final size:17
Alignment explanation
Indices: 959134--959181 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
959124 AAACAAACTT
959134 ATAATAATAATAAAAATG
1 ATAA-AATAATAAAAATG
*
959152 ATAAAATAATAATAATG
1 ATAAAATAATAAAAATG
*
959169 CTATAAAT-ATAAA
1 ATA-AAATAATAAA
959182 TAAGTATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (17 bp):
ATAAAATAATAAAAATG
Found at i:959585 original size:22 final size:19
Alignment explanation
Indices: 959539--959581 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
959529 TAATAGAAAG
*
959539 AATACAAAAATATAGTAAT
1 AATAAAAAAATATAGTAAT
959558 AATAAAAAAATATAGTAAT
1 AATAAAAAAATATAGTAAT
959577 AATAA
1 AATAA
959582 TAAACAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (19 bp):
AATAAAAAAATATAGTAAT
Found at i:959644 original size:3 final size:3
Alignment explanation
Indices: 959631--959779 Score: 79
Period size: 3 Copynumber: 48.7 Consensus size: 3
959621 AAAAAAGCAG
* * * * *
959631 TAA TGA TAA TAA TAA TAG GAG TAA TAA TAA TAA T-A TAA TGA TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * * * * * * *
959679 CAA TAA TAA -AA GGAA CAA AAA TAA TAG TAA TAA TAA AAA TATT TAG
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* * *
959725 TAA TAG TAA TAA TAA CAA TAA T-A TAAA TAA TAA TATA TACA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TA-A TAA TAA
959772 TAA TAA TA
1 TAA TAA TA
959780 GTTAGAAATA
Statistics
Matches: 111, Mismatches: 27, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
2 6 0.05
3 91 0.82
4 14 0.13
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:959674 original size:11 final size:11
Alignment explanation
Indices: 959654--959779 Score: 54
Period size: 11 Copynumber: 11.8 Consensus size: 11
959644 AATAGGAGTA
959654 ATAATAATAAT
1 ATAATAATAAT
*
959665 ATAATGATAAT
1 ATAATAATAAT
*
959676 A-AACAATAAT
1 ATAATAATAAT
* * *
959686 AAAAGGAACAA-
1 ATAA-TAATAAT
*
959697 A-AATAATAGT
1 ATAATAATAAT
*
959707 AATAATAAAAAT
1 -ATAATAATAAT
* *
959719 AT-TTAGTAAT
1 ATAATAATAAT
*
959729 AGTAATAATAACA
1 A-TAATAATAA-T
959742 ATAAT-ATAA-
1 ATAATAATAAT
959751 ATAATAAT-AT
1 ATAATAATAAT
959761 ATACATAA-AA-
1 ATA-ATAATAAT
959771 ATAATAATA
1 ATAATAATA
959780 GTTAGAAATA
Statistics
Matches: 86, Mismatches: 16, Indels: 27
0.67 0.12 0.21
Matches are distributed among these distances:
9 13 0.15
10 25 0.29
11 27 0.31
12 20 0.23
13 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:959924 original size:16 final size:16
Alignment explanation
Indices: 959903--959933 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
959893 GTTTGGAACG
959903 ATATATACAAATGTAT
1 ATATATACAAATGTAT
*
959919 ATATATATAAATGTA
1 ATATATACAAATGTA
959934 CATGTAAATA
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:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
ATATATACAAATGTAT
Found at i:960027 original size:27 final size:29
Alignment explanation
Indices: 959996--960051 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
959986 TATTTAAAGA
959996 ATAATA-GGTA-AAAATAATATAATAATG
1 ATAATATGGTAGAAAATAATATAATAATG
* *
960023 ATAATATGTTAGTATAATAATATAATAAT
1 ATAATATGGTAG-AAAATAATATAATAAT
960052 AACAATAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.25
28 3 0.12
30 15 0.62
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (29 bp):
ATAATATGGTAGAAAATAATATAATAATG
Found at i:960092 original size:15 final size:15
Alignment explanation
Indices: 960037--960093 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
960027 TATGTTAGTA
*
960037 TAATAAT-ATAATAA
1 TAATAATAATAATAG
* *
960051 TAACAATAGTAATAG
1 TAATAATAATAATAG
*
960066 TAATAA-AGATAACAG
1 TAATAATA-ATAATAG
960081 TAATAATAATAAT
1 TAATAATAATAAT
960094 TAATTTAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
14 7 0.21
15 25 0.76
16 1 0.03
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.30
Consensus pattern (15 bp):
TAATAATAATAATAG
Found at i:961193 original size:16 final size:17
Alignment explanation
Indices: 961159--961193 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
961149 TTTTTTTTTT
961159 GTTTTGGGTCTAATTGG
1 GTTTTGGGTCTAATTGG
*
961176 GTTTTGGGT-TATTTGG
1 GTTTTGGGTCTAATTGG
961192 GT
1 GT
961194 AGGTAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.09, C:0.03, G:0.37, T:0.51
Consensus pattern (17 bp):
GTTTTGGGTCTAATTGG
Found at i:970302 original size:20 final size:20
Alignment explanation
Indices: 970274--970332 Score: 72
Period size: 17 Copynumber: 3.1 Consensus size: 20
970264 AAAAATATAA
970274 TTAATATATTTTATATAAAAT
1 TTAATATATTTTAT-TAAAAT
970295 TTAA-ATATTTTATTAAAA-
1 TTAATATATTTTATTAAAAT
*
970313 -TAATAT-TTTTATTAAGAT
1 TTAATATATTTTATTAAAAT
970331 TT
1 TT
970333 TTTTTAATTC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 13 0.38
18 2 0.06
19 6 0.18
20 9 0.26
21 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
TTAATATATTTTATTAAAAT
Found at i:972329 original size:24 final size:24
Alignment explanation
Indices: 972294--972344 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
972284 CAAGCTTGCA
*
972294 ATCTTCGCATTTCTTGTATGAAAC
1 ATCTTCGCATTTCTTGTACGAAAC
* *
972318 ATCTTCGTATTTTTTGTACGAAAC
1 ATCTTCGCATTTCTTGTACGAAAC
972342 ATC
1 ATC
972345 ATAGCTCAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (24 bp):
ATCTTCGCATTTCTTGTACGAAAC
Found at i:980188 original size:33 final size:33
Alignment explanation
Indices: 980146--980269 Score: 221
Period size: 33 Copynumber: 3.8 Consensus size: 33
980136 TTTCTTCTTG
* *
980146 ACATTCCAGCTACTGTCCAGCAACCAAACATTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
980179 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
980212 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
980245 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
980270 TGAAACAGAG
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 87 1.00
ACGTcount: A:0.30, C:0.42, G:0.10, T:0.19
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:981388 original size:113 final size:113
Alignment explanation
Indices: 981190--981413 Score: 439
Period size: 113 Copynumber: 2.0 Consensus size: 113
981180 CTAGAAGGAA
981190 TGGAGAATTTAAAGAAATGCCTAGTAAAAGAATTTGAAGTCAAAGAGCTCGGTAAGTTAAAATAT
1 TGGAGAATTTAAAGAAATGCCTAGTAAAAGAATTTGAAGTCAAAGAGCTCGGTAAGTTAAAATAT
*
981255 TTCCTTGGTATTGAAGTGGCACAGTCTCGGGAAGGAATATTCATATAT
66 TTCCTTGGTATTGAAGTGGCACACTCTCGGGAAGGAATATTCATATAT
981303 TGGAGAATTTAAAGAAATGCCTAGTAAAAGAATTTGAAGTCAAAGAGCTCGGTAAGTTAAAATAT
1 TGGAGAATTTAAAGAAATGCCTAGTAAAAGAATTTGAAGTCAAAGAGCTCGGTAAGTTAAAATAT
981368 TTCCTTGGTATTGAAGTGGCACACTCTCGGGAAGGAATATTCATAT
66 TTCCTTGGTATTGAAGTGGCACACTCTCGGGAAGGAATATTCATAT
981414 CTCAGCAAAA
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 110 1.00
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (113 bp):
TGGAGAATTTAAAGAAATGCCTAGTAAAAGAATTTGAAGTCAAAGAGCTCGGTAAGTTAAAATAT
TTCCTTGGTATTGAAGTGGCACACTCTCGGGAAGGAATATTCATATAT
Found at i:993131 original size:117 final size:117
Alignment explanation
Indices: 992925--993165 Score: 464
Period size: 117 Copynumber: 2.1 Consensus size: 117
992915 ATTACATGCT
992925 AGGCAAGAGGAAATACTTATAAAGCTTCTCAATCAGTTACTGATCCCAACTACAGGATTTAATAT
1 AGGCAAGAGGAAATACTTATAAAGCTTCTCAATCAGTTACTGATCCCAACTACAGGATTTAATAT
**
992990 CTTTTGACATCTTTCAAAATTAATTGAAGGGAGAGGTTGGAAATATGAGCCA
66 CTTTTGACATCTTTCAAAATTAATTGAAGGGAGAGGTTAAAAATATGAGCCA
993042 AGGCAAGAGGAAATACTTATAAAGCTTCTCAATCAGTTACTGATCCCAACTACAGGATTTAATAT
1 AGGCAAGAGGAAATACTTATAAAGCTTCTCAATCAGTTACTGATCCCAACTACAGGATTTAATAT
993107 CTTTTGACATCTTTCAAAATTAATTGAAGGGAGAGGTTAAAAATATGAGCCA
66 CTTTTGACATCTTTCAAAATTAATTGAAGGGAGAGGTTAAAAATATGAGCCA
993159 AGGCAAG
1 AGGCAAG
993166 CATGCTATCA
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 122 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (117 bp):
AGGCAAGAGGAAATACTTATAAAGCTTCTCAATCAGTTACTGATCCCAACTACAGGATTTAATAT
CTTTTGACATCTTTCAAAATTAATTGAAGGGAGAGGTTAAAAATATGAGCCA
Found at i:993983 original size:28 final size:30
Alignment explanation
Indices: 993921--993983 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 30
993911 ATCATGATAA
993921 GTAAATAAATAAAGGTCTCCTTTCAAATCAAAT
1 GTAAATAAATAAAGGTCTCCTTT---ATCAAAT
993954 GTAAATAAATAAAGGTCTCC-TT-TCAAAT
1 GTAAATAAATAAAGGTCTCCTTTATCAAAT
993982 GT
1 GT
993984 GATTACAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
28 8 0.27
32 2 0.07
33 20 0.67
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (30 bp):
GTAAATAAATAAAGGTCTCCTTTATCAAAT
Found at i:997078 original size:28 final size:28
Alignment explanation
Indices: 997038--997095 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
997028 CAATCTTTAG
997038 AGATTCTGTGAGTTGCATCACAATAATA
1 AGATTCTGTGAGTTGCATCACAATAATA
*
997066 AGATTCTGTGAGTTGCATCACATTAATA
1 AGATTCTGTGAGTTGCATCACAATAATA
997094 AG
1 AG
997096 CAAATCATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (28 bp):
AGATTCTGTGAGTTGCATCACAATAATA
Found at i:1002368 original size:21 final size:21
Alignment explanation
Indices: 1002342--1002382 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1002332 AGACGAGCAA
* *
1002342 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1002363 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1002383 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1004321 original size:16 final size:16
Alignment explanation
Indices: 1004288--1004321 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1004278 GGAGATTGTT
* *
1004288 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
1004304 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
1004320 AA
1 AA
1004322 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:1006457 original size:28 final size:28
Alignment explanation
Indices: 1006417--1006474 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
1006407 CAATCTTTAG
1006417 AGATTCTGTGAGTTGCATCACATTAATA
1 AGATTCTGTGAGTTGCATCACATTAATA
*
1006445 AGATTCTGTGAGTTGCATCTCATTAATA
1 AGATTCTGTGAGTTGCATCACATTAATA
1006473 AG
1 AG
1006475 CAAATCATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (28 bp):
AGATTCTGTGAGTTGCATCACATTAATA
Found at i:1014310 original size:46 final size:46
Alignment explanation
Indices: 1014258--1014373 Score: 164
Period size: 46 Copynumber: 2.5 Consensus size: 46
1014248 TGTTTATGGG
*
1014258 GTTGAGTCTGAGTTCACTTATGGATGCGAACGT-CCGA-ACTCATTGA
1 GTTGAGTCCGAGTTCACTTATGGATGCGAAC-TCCCGAGA-TCATTGA
*
1014304 GTTGAGTCCGAGTTCACTTATGGATGCGAACTCCCGAGATCGTTGA
1 GTTGAGTCCGAGTTCACTTATGGATGCGAACTCCCGAGATCATTGA
* *
1014350 GTTGAGTCCGAGCTCGCTTATGGA
1 GTTGAGTCCGAGTTCACTTATGGA
1014374 CGGGTTACAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
45 1 0.02
46 62 0.97
47 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
GTTGAGTCCGAGTTCACTTATGGATGCGAACTCCCGAGATCATTGA
Found at i:1019318 original size:21 final size:22
Alignment explanation
Indices: 1019278--1019326 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
1019268 ACTTTCAACT
1019278 ACAT-TTGAAGCCAACAAAAAA
1 ACATCTTGAAGCCAACAAAAAA
1019299 ACATCTTGAAGCCAACAAAAAA
1 ACATCTTGAAGCCAACAAAAAA
1019321 ACATCT
1 ACATCT
1019327 ACTTTTGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.53, C:0.22, G:0.08, T:0.16
Consensus pattern (22 bp):
ACATCTTGAAGCCAACAAAAAA
Found at i:1021586 original size:94 final size:94
Alignment explanation
Indices: 1021425--1021608 Score: 296
Period size: 94 Copynumber: 2.0 Consensus size: 94
1021415 TTAGCCTGAG
* *
1021425 TGCTTCCTCTTTCATTGCCTCTGCGTGCTTCCCTTTTTGTTTTTGAAGTTCTAGAGCTGGCAATA
1 TGCTTCCTCTTTCATTGCCTCTGCGCGCTTCCCTTTTTGTTTTTGAAATTCTAGAGCTGGCAATA
*
1021490 CCATTCTTGCAGTAGGTACCTTTTTCTCA
66 CCATTCTTGCAGCAGGTACCTTTTTCTCA
* * **
1021519 TGCTTCCTCTTTCATTGCCTCTGTGCGCTTCCCTTTTTGTTTTTGAAATTCTAGAGTTGGTGATA
1 TGCTTCCTCTTTCATTGCCTCTGCGCGCTTCCCTTTTTGTTTTTGAAATTCTAGAGCTGGCAATA
*
1021584 CCATTCTTGCAGCAGGTACTTTTTT
66 CCATTCTTGCAGCAGGTACCTTTTT
1021609 TTCTCAATTA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 82 1.00
ACGTcount: A:0.14, C:0.24, G:0.17, T:0.45
Consensus pattern (94 bp):
TGCTTCCTCTTTCATTGCCTCTGCGCGCTTCCCTTTTTGTTTTTGAAATTCTAGAGCTGGCAATA
CCATTCTTGCAGCAGGTACCTTTTTCTCA
Found at i:1026124 original size:15 final size:15
Alignment explanation
Indices: 1026086--1026134 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
1026076 CCAGTTCAAA
1026086 AATAAT-TAAATAAA-
1 AATAATATAAA-AAAT
1026100 AA-AATCATAAAAAAT
1 AATAAT-ATAAAAAAT
1026115 AATAATATAAAAAAT
1 AATAATATAAAAAAT
*
1026130 CATAA
1 AATAA
1026135 CCGTTTAACC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 3 0.10
14 5 0.17
15 19 0.63
16 3 0.10
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAATATAAAAAAT
Found at i:1026126 original size:25 final size:26
Alignment explanation
Indices: 1026083--1026134 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 26
1026073 TTTCCAGTTC
1026083 AAAAATAATTAAATAAAAAAATCATA
1 AAAAATAATTAAATAAAAAAATCATA
1026109 AAAAATAA-T-AATATAAAAAATCATA
1 AAAAATAATTAAATA-AAAAAATCATA
1026134 A
1 A
1026135 CCGTTTAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 4 0.16
25 13 0.52
26 8 0.32
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (26 bp):
AAAAATAATTAAATAAAAAAATCATA
Found at i:1028116 original size:22 final size:21
Alignment explanation
Indices: 1028073--1028117 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
1028063 GCATTACTAA
* * *
1028073 ATTTTTTTTATATTTCTTTAT
1 ATTTTTTTTATATATATATAT
1028094 ATTTTTCTTTATATATATATAT
1 ATTTTT-TTTATATATATATAT
1028116 AT
1 AT
1028118 ATATATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (21 bp):
ATTTTTTTTATATATATATAT
Found at i:1028161 original size:9 final size:10
Alignment explanation
Indices: 1028131--1028199 Score: 56
Period size: 10 Copynumber: 7.2 Consensus size: 10
1028121 TATTTTTAAA
1028131 TTTTAATATT
1 TTTTAATATT
1028141 TTTTAATATT
1 TTTTAATATT
* *
1028151 TTTTATGTTTT
1 TTTTA-ATATT
*
1028162 TTTTAAGA--
1 TTTTAATATT
*
1028170 TTTTAATAAT
1 TTTTAATATT
*
1028180 TTTTCAT-TT
1 TTTTAATATT
1028189 TTTTAAT-TT
1 TTTTAATATT
1028198 TT
1 TT
1028200 AGAATCGATA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
8 7 0.15
9 11 0.23
10 21 0.45
11 8 0.17
ACGTcount: A:0.25, C:0.01, G:0.03, T:0.71
Consensus pattern (10 bp):
TTTTAATATT
Found at i:1028710 original size:24 final size:24
Alignment explanation
Indices: 1028628--1028710 Score: 66
Period size: 24 Copynumber: 3.5 Consensus size: 24
1028618 ATTATTATTG
**
1028628 TTATT-AA-ATTTTAATAGGATTA
1 TTATTAAATATTTTAATAAAATTA
*
1028650 TTATTAAATATAATTTAATAAAA-AA
1 TTATTAAATAT--TTTAATAAAATTA
*
1028675 AT-TTAATCATATTTTAATAAAATTA
1 TTATTAA--ATATTTTAATAAAATTA
1028700 TTATTAAATAT
1 TTATTAAATAT
1028711 AATTTAACAA
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
22 5 0.11
23 2 0.04
24 20 0.43
25 4 0.09
26 16 0.34
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (24 bp):
TTATTAAATATTTTAATAAAATTA
Found at i:1028716 original size:26 final size:26
Alignment explanation
Indices: 1028637--1028717 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 26
1028627 GTTATTAAAT
**
1028637 TTTAATAGGATTATTATTAAATATAA
1 TTTAATAAAATTATTATTAAATATAA
* * *
1028663 TTTAATAAAA--A-AATTTAATCATAT
1 TTTAATAAAATTATTATTAAAT-ATAA
1028687 TTTAATAAAATTATTATTAAATATAA
1 TTTAATAAAATTATTATTAAATATAA
1028713 TTTAA
1 TTTAA
1028718 CAATAATAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
23 6 0.14
24 14 0.33
26 17 0.40
27 6 0.14
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (26 bp):
TTTAATAAAATTATTATTAAATATAA
Found at i:1028744 original size:53 final size:50
Alignment explanation
Indices: 1028637--1028745 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 50
1028627 GTTATTAAAT
** * * * *
1028637 TTTAATAGGATTATTATTAAATATAATTTAATAAAAAAATTTAATCATAT
1 TTTAATAAAATTATTATTAAATATAATTTAACAAAAAAATATAATAATAA
*
1028687 TTTAATAAAATTATTATTAAATATAATTTAACAATAATAATATATATAAATAA
1 TTTAATAAAATTATTATTAAATATAATTTAACAA-AAAAATATA-AT-AATAA
1028740 TTTAAT
1 TTTAAT
1028746 CATAATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
50 31 0.63
51 7 0.14
52 2 0.04
53 9 0.18
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (50 bp):
TTTAATAAAATTATTATTAAATATAATTTAACAAAAAAATATAATAATAA
Found at i:1030431 original size:18 final size:20
Alignment explanation
Indices: 1030408--1030459 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
1030398 TCGTTTTTGG
*
1030408 TTATTTCTCT-TC-CTCTGT
1 TTATTTCTCTCCCTCTCTGT
*
1030426 TTATTTTTCTCCCTCTCTGT
1 TTATTTCTCTCCCTCTCTGT
*
1030446 TTATTTTTCTCCCT
1 TTATTTCTCTCCCT
1030460 TTCTCCAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 9 0.30
19 1 0.03
20 20 0.67
ACGTcount: A:0.06, C:0.29, G:0.04, T:0.62
Consensus pattern (20 bp):
TTATTTCTCTCCCTCTCTGT
Found at i:1030436 original size:20 final size:20
Alignment explanation
Indices: 1030420--1030459 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1030410 ATTTCTCTTC
1030420 CTCTGTTTATTTTTCTCCCT
1 CTCTGTTTATTTTTCTCCCT
1030440 CTCTGTTTATTTTTCTCCCT
1 CTCTGTTTATTTTTCTCCCT
1030460 TTCTCCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.05, C:0.30, G:0.05, T:0.60
Consensus pattern (20 bp):
CTCTGTTTATTTTTCTCCCT
Found at i:1037981 original size:27 final size:26
Alignment explanation
Indices: 1037929--1037986 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
1037919 GCACAAACTT
**
1037929 AGAATTTATTTATATTTTTATTTTTA
1 AGAATTTATTTATATTTTTAGATTTA
1037955 AGAATTTAGTTT-TACTTTTTAGATTTA
1 AGAATTTA-TTTATA-TTTTTAGATTTA
1037982 A-AATT
1 AGAATT
1037987 CAGATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (26 bp):
AGAATTTATTTATATTTTTAGATTTA
Found at i:1048092 original size:17 final size:16
Alignment explanation
Indices: 1048072--1048115 Score: 63
Period size: 15 Copynumber: 2.7 Consensus size: 16
1048062 TTTATGAGTT
1048072 TTTTAATATTTTTTGAA
1 TTTTAA-ATTTTTTGAA
1048089 TTTT-AATTTTTTGAA
1 TTTTAAATTTTTTGAA
1048104 TTTATAAATTTT
1 TTT-TAAATTTT
1048116 AAATTATCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 13 0.52
16 2 0.08
17 10 0.40
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (16 bp):
TTTTAAATTTTTTGAA
Found at i:1048228 original size:12 final size:12
Alignment explanation
Indices: 1048211--1048239 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1048201 AACATTAAAA
1048211 ATTAATATTTTT
1 ATTAATATTTTT
1048223 ATTAATATTTTT
1 ATTAATATTTTT
1048235 ATTAA
1 ATTAA
1048240 AAAATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTAATATTTTT
Found at i:1051711 original size:190 final size:190
Alignment explanation
Indices: 1051388--1051767 Score: 724
Period size: 190 Copynumber: 2.0 Consensus size: 190
1051378 AGCACAACCT
1051388 GAAACCAAGAAAAATAACGGAATGATTCAACATGCAAATACATCATATTAATTCTTAGGGAATAT
1 GAAACCAAGAAAAATAACGGAATGATTCAACATGCAAATACATCATATTAATTCTTAGGGAATAT
* *
1051453 TCACATGTTTTGTTGAAGATAAAATCTACCCCAATTTATCAAATAGGACAAGATATATGATGAGA
66 TCACATGTTTTGTTAAAGATAAAATCTACCCCAAATTATCAAATAGGACAAGATATATGATGAGA
1051518 AATTAAACATAAATAAACTTTGATTTACAGGAACCATCAAAGTATTTTAAAGGAACTACA
131 AATTAAACATAAATAAACTTTGATTTACAGGAACCATCAAAGTATTTTAAAGGAACTACA
1051578 GAAACCAAGAAAAATAACGGAATGATTCAACATGCAAATACATCATATTAATTCTTAGGGAATAT
1 GAAACCAAGAAAAATAACGGAATGATTCAACATGCAAATACATCATATTAATTCTTAGGGAATAT
1051643 TCACATGTTTTGTTAAAGATAAAATCTACCCCAAATTATCAAATAGGACAAGATATATGATGAGA
66 TCACATGTTTTGTTAAAGATAAAATCTACCCCAAATTATCAAATAGGACAAGATATATGATGAGA
* *
1051708 AATTAAACATCAATAAACTTTGATTTACAGGAACCATCAAGGTATTTTAAAGGAACTACA
131 AATTAAACATAAATAAACTTTGATTTACAGGAACCATCAAAGTATTTTAAAGGAACTACA
1051768 TTCTAAGGGG
Statistics
Matches: 186, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
190 186 1.00
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (190 bp):
GAAACCAAGAAAAATAACGGAATGATTCAACATGCAAATACATCATATTAATTCTTAGGGAATAT
TCACATGTTTTGTTAAAGATAAAATCTACCCCAAATTATCAAATAGGACAAGATATATGATGAGA
AATTAAACATAAATAAACTTTGATTTACAGGAACCATCAAAGTATTTTAAAGGAACTACA
Found at i:1053090 original size:54 final size:57
Alignment explanation
Indices: 1053028--1053133 Score: 148
Period size: 54 Copynumber: 1.9 Consensus size: 57
1053018 ACTTCTCATC
* *
1053028 TATTTATTATTTATCTCATATTAATTTAA-TTAATT-AGAGA-AA-TAATAATATATT
1 TATTTATTATTTATCGCATAAT-ATTTAATTTAATTAAGAGATAAGTAATAATATATT
*
1053082 TATTTATTATTTATCGCTTAATATTTAATTTAATTAAGAGATAAGTAATAAT
1 TATTTATTATTTATCGCATAATATTTAATTTAATTAAGAGATAAGTAATAAT
1053134 TATGACATAG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
53 6 0.13
54 25 0.56
55 5 0.11
56 2 0.04
57 7 0.16
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.49
Consensus pattern (57 bp):
TATTTATTATTTATCGCATAATATTTAATTTAATTAAGAGATAAGTAATAATATATT
Found at i:1059683 original size:57 final size:57
Alignment explanation
Indices: 1059615--1059730 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
1059605 GTTCAAATCG
1059615 ATCTCTAAAAGATATATCAATAAAGAAGTTTGACATAATTATTAAAAAGAAAATGAA
1 ATCTCTAAAAGATATATCAATAAAGAAGTTTGACATAATTATTAAAAAGAAAATGAA
1059672 ATCTCTAAAAGATATATCAATAAAGAAGTTTGACATAATTATTAAAAAGAAAATGAA
1 ATCTCTAAAAGATATATCAATAAAGAAGTTTGACATAATTATTAAAAAGAAAATGAA
1059729 AT
1 AT
1059731 TTTGTTTATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.28
Consensus pattern (57 bp):
ATCTCTAAAAGATATATCAATAAAGAAGTTTGACATAATTATTAAAAAGAAAATGAA
Found at i:1068897 original size:30 final size:29
Alignment explanation
Indices: 1068854--1068911 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
1068844 GTCTTTTTTT
* *
1068854 ATTTTTAATAAATGGCCCAATATTTTTAA
1 ATTTTTAATAAATGACCCAATATGTTTAA
1068883 ATTTTTACATAAATGACCCAATATGTTTA
1 ATTTTTA-ATAAATGACCCAATATGTTTA
1068912 TACTTCTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (29 bp):
ATTTTTAATAAATGACCCAATATGTTTAA
Found at i:1069666 original size:13 final size:13
Alignment explanation
Indices: 1069648--1069672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1069638 AAAAATTTAT
1069648 CTTTTTTTTTCTG
1 CTTTTTTTTTCTG
1069661 CTTTTTTTTTCT
1 CTTTTTTTTTCT
1069673 TTTAATGCCC
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:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (13 bp):
CTTTTTTTTTCTG
Found at i:1071548 original size:14 final size:14
Alignment explanation
Indices: 1071523--1071555 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1071513 TACTCAATAT
1071523 TATTTTAATTTTA-
1 TATTTTAATTTTAG
1071536 TATTTTCAATTTTAG
1 TATTTT-AATTTTAG
1071551 TATTT
1 TATTT
1071556 ATGAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 7 0.39
15 5 0.28
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (14 bp):
TATTTTAATTTTAG
Found at i:1071813 original size:12 final size:14
Alignment explanation
Indices: 1071783--1071813 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1071773 AAATGTGAGT
1071783 AAAAAATTTATATA
1 AAAAAATTTATATA
*
1071797 AAAAAATTTAAATA
1 AAAAAATTTATATA
1071811 AAA
1 AAA
1071814 TTTTAGTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAAATTTATATA
Done.