Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 290 of 318
Found at i:92454134 original size:45 final size:45
Alignment explanation
Indices: 92454058--92454248 Score: 276
Period size: 45 Copynumber: 4.3 Consensus size: 45
92454048 ACATCAAAGT
* *
92454058 AGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* * *
92454103 AAATCAGAGATAACAGATTTGGCATCTCTGTATTTGACGGGGAGC
1 AGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* * *
92454148 AGATTAAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGC
1 AGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* * *
92454192 AGATCGAAGATAACAGATATGGCGTCTCTGTATTAGACGGGGAGC
1 AGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
92454237 AGATCAAAGATA
1 AGATCAAAGATA
92454249 GCATATATCG
Statistics
Matches: 129, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 39 0.30
45 90 0.70
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (45 bp):
AGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
Found at i:92454190 original size:89 final size:90
Alignment explanation
Indices: 92454058--92454251 Score: 286
Period size: 89 Copynumber: 2.2 Consensus size: 90
92454048 ACATCAAAGT
*
92454058 AGATCCAAGAT-GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATC-AGAGATAACAGAT
1 AGATCAAAGATAG-CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGA-AGATAACAGAT
* *
92454121 TTGGCATCTCTGTATTTGACGGGGAGC
64 ATGGCATCTCTGTATTAGACGGGGAGC
* * *
92454148 AGATTAAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATAT
1 AGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATAT
*
92454212 GGCGTCTCTGTATTAGACGGGGAGC
66 GGCATCTCTGTATTAGACGGGGAGC
92454237 AGATCAAAGATAGCA
1 AGATCAAAGATAGCA
92454252 TATATCGCCT
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
89 79 0.85
90 14 0.15
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (90 bp):
AGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATAT
GGCATCTCTGTATTAGACGGGGAGC
Found at i:92454616 original size:17 final size:19
Alignment explanation
Indices: 92454594--92454671 Score: 94
Period size: 19 Copynumber: 4.4 Consensus size: 19
92454584 ATGGAAATAT
92454594 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
92454611 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
*
92454630 AATCTTAGATATGATA--C
1 AATCTTACATATGATATGC
*
92454647 AATCTTAGATATGAT-TGC
1 AATCTTACATATGATATGC
92454665 AATCTTA
1 AATCTTA
92454672 AAAGATATGA
Statistics
Matches: 56, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
17 22 0.39
18 9 0.16
19 25 0.45
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:92454626 original size:19 final size:19
Alignment explanation
Indices: 92454602--92454671 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
92454592 ATAATCTTCA
92454602 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
92454621 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
92454640 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
92454657 ATGAT-TGCAATCTTA
1 ATGATATGCAATCTTA
92454672 AAAGATATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.33
18 8 0.16
19 25 0.51
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:92454634 original size:36 final size:34
Alignment explanation
Indices: 92454594--92454672 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 34
92454584 ATGGAAATAT
92454594 AATCTTCAATGATATGCAATCTTAGATATGATATGC
1 AATCTT-AATGATATGCAATCTTAGATATGAT-TGC
*
92454630 AATCTTAGAT-ATGATACAATCTTAGATATGATTGC
1 AATCTTA-ATGAT-ATGCAATCTTAGATATGATTGC
92454665 AATCTTAA
1 AATCTTAA
92454673 AAGATATGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
34 1 0.03
35 13 0.32
36 26 0.65
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (34 bp):
AATCTTAATGATATGCAATCTTAGATATGATTGC
Found at i:92454984 original size:17 final size:18
Alignment explanation
Indices: 92454962--92454995 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
92454952 GTTTCCCTAT
*
92454962 TTTTTTATAT-ATTTTAA
1 TTTTTTAAATAATTTTAA
92454979 TTTTTTAAATAATTTTA
1 TTTTTTAAATAATTTTA
92454996 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTAAATAATTTTAA
Found at i:92456199 original size:16 final size:18
Alignment explanation
Indices: 92456173--92456205 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
92456163 TAGAACTGGG
92456173 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
92456190 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
92456206 GTTAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:92457401 original size:29 final size:29
Alignment explanation
Indices: 92457361--92457418 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
92457351 GAATCTTGAG
92457361 TTTTGAACTGCAGTAAGTGAGAATTAGGT
1 TTTTGAACTGCAGTAAGTGAGAATTAGGT
92457390 TTTTGAACTGCAGTAAGTGAGAATTAGGT
1 TTTTGAACTGCAGTAAGTGAGAATTAGGT
92457419 GAGTCTCTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (29 bp):
TTTTGAACTGCAGTAAGTGAGAATTAGGT
Found at i:92459356 original size:8 final size:8
Alignment explanation
Indices: 92459343--92459374 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
92459333 AGATATATAT
92459343 ATAAAATA
1 ATAAAATA
92459351 ATAAAATA
1 ATAAAATA
92459359 ATAAAATA
1 ATAAAATA
*
92459367 ATAGAATA
1 ATAAAATA
92459375 TATATTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (8 bp):
ATAAAATA
Found at i:92459391 original size:37 final size:36
Alignment explanation
Indices: 92459327--92459399 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 36
92459317 AATTATGCAT
*
92459327 AATAATAGATATATATATAAAATAATAAAATAATAA
1 AATAATAGATATATATATAAAAGAATAAAATAATAA
*
92459363 AATAATAGA-ATATATATTATAAAGAATAAAGTAATAA
1 AATAATAGATATATATA-TA-AAAGAATAAAATAATAA
92459400 TATAGATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 7 0.21
36 11 0.33
37 15 0.45
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (36 bp):
AATAATAGATATATATATAAAAGAATAAAATAATAA
Found at i:92459397 original size:29 final size:27
Alignment explanation
Indices: 92459358--92459412 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
92459348 ATAATAAAAT
*
92459358 AATAAAATAATAGAATATATATTATAAAG
1 AATAAAATAAT--AATATAGATTATAAAG
*
92459387 AATAAAGTAATAATATAGATTATAAA
1 AATAAAATAATAATATAGATTATAAA
92459413 ATGAAGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 14 0.58
29 10 0.42
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (27 bp):
AATAAAATAATAATATAGATTATAAAG
Found at i:92459507 original size:29 final size:30
Alignment explanation
Indices: 92459475--92459557 Score: 71
Period size: 34 Copynumber: 2.6 Consensus size: 30
92459465 TTTCAAAATT
*
92459475 ATATATAATAATATATAA-TAAAATATGAAA
1 ATATATAATAATATATAATTAAAACAT-AAA
*
92459505 TATCCTATTATATAATATATATATTAAAACATAAA
1 -AT-ATA-TA-ATAATATATA-ATTAAAACATAAA
92459540 ATAATATAAT-ATATATAA
1 AT-ATATAATAATATATAA
92459558 CATTTAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
30 1 0.02
31 9 0.21
32 4 0.09
33 4 0.09
34 14 0.33
35 4 0.09
36 7 0.16
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (30 bp):
ATATATAATAATATATAATTAAAACATAAA
Found at i:92459548 original size:5 final size:5
Alignment explanation
Indices: 92459477--92459613 Score: 59
Period size: 5 Copynumber: 27.0 Consensus size: 5
92459467 TCAAAATTAT
* * * *
92459477 ATATA ATA-A TATATA ATAAA ATATGAA ATATC CTATT ATATA ATAT-
1 ATATA ATATA -ATATA ATATA ATAT--A ATATA ATATA ATATA ATATA
* * * * * *
92459523 ATATA TTAAA ACATA AAATA ATATA ATAT- ATATAA CATTTA ATAAA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATAT-A -ATATA ATATA ATATA
* * *
92459574 AAATA ATAT- ATGTTA ATATA ATATAA AAATA ATAT- ATATA
1 ATATA ATATA AT-ATA ATATA ATAT-A ATATA ATATA ATATA
92459614 CTTGGAAATG
Statistics
Matches: 96, Mismatches: 24, Indels: 24
0.67 0.17 0.17
Matches are distributed among these distances:
4 15 0.16
5 65 0.68
6 8 0.08
7 8 0.08
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:92459553 original size:36 final size:36
Alignment explanation
Indices: 92459475--92459613 Score: 114
Period size: 36 Copynumber: 4.0 Consensus size: 36
92459465 TTTCAAAATT
* *
92459475 ATATATAATAATATATAATAAAATATGAAATATCCTA
1 ATATATAATAATATATAATAAAATATAAAATAT-ATA
* * *
92459512 TTATATAAT-ATATATATTAAAACATAAAATAATATA
1 ATATATAATAATATATAATAAAATATAAAAT-ATATA
* *
92459548 ATATAT-ATAACATTTAATAAAATATAAAATA-AT-
1 ATATATAATAATATATAATAAAATATAAAATATATA
* *
92459581 ATATGT--TAATATA-ATATAAAA-ATAATATATATA
1 ATATATAATAATATATA-ATAAAATATAAAATATATA
92459614 CTTGGAAATG
Statistics
Matches: 83, Mismatches: 14, Indels: 14
0.75 0.13 0.13
Matches are distributed among these distances:
31 8 0.10
32 13 0.16
33 5 0.06
34 2 0.02
35 3 0.04
36 42 0.51
37 10 0.12
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (36 bp):
ATATATAATAATATATAATAAAATATAAAATATATA
Found at i:92459596 original size:25 final size:26
Alignment explanation
Indices: 92459561--92459610 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
92459551 TATATAACAT
92459561 TTAATAAAATAT-AAAATAATATATG
1 TTAATAAAATATAAAAATAATATATG
*
92459586 TTAATATAATATAAAAATAATATAT
1 TTAATAAAATATAAAAATAATATAT
92459611 ATACTTGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (26 bp):
TTAATAAAATATAAAAATAATATATG
Found at i:92459723 original size:15 final size:16
Alignment explanation
Indices: 92459703--92459732 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92459693 TAAAAATATA
92459703 TAAAAA-GATTAAAAT
1 TAAAAATGATTAAAAT
92459718 TAAAAATGATTAAAA
1 TAAAAATGATTAAAA
92459733 CTTTGGGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (16 bp):
TAAAAATGATTAAAAT
Found at i:92465660 original size:23 final size:22
Alignment explanation
Indices: 92465591--92465665 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 22
92465581 CTGAGCTGAT
* *
92465591 GCTGAAAGGGTAAGCTCTATTGA
1 GCTGAAA-GGTAAGCTCCAATGA
* *
92465614 GCTGAATA-GTAAACT-CATACGA
1 GCTGAA-AGGTAAGCTCCA-ATGA
92465636 GCTGAAACGGTAAGCTCCAATGA
1 GCTGAAA-GGTAAGCTCCAATGA
92465659 GCTGAAA
1 GCTGAAA
92465666 ATAGTATATC
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
21 2 0.05
22 14 0.34
23 22 0.54
24 3 0.07
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (22 bp):
GCTGAAAGGTAAGCTCCAATGA
Found at i:92467874 original size:130 final size:130
Alignment explanation
Indices: 92467510--92467876 Score: 407
Period size: 130 Copynumber: 2.8 Consensus size: 130
92467500 AGAGCCGAGT
* * * * * *
92467510 GAAATTTTGAAGGGATATTTGATTGTTTTAAAC-AATCGAGAAATTGCTACCCAACACGTTAGGG
1 GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAAT-GCGAAATTGCAACCCAACACGTTAGGG
* ** * * * * * * *
92467574 CACGATCCCACGAATTGCCAAATACCAGATATCGCCTTCGTTTTAGGGATTTTAAAAGACACGAG
65 CACGATTCTGCGAATTGCCGAACATCAAATATCGTCTTCGTTTAAGGGATTTTAAAAGACACGAA
92467639 C
130 C
* * *
92467640 GAAATTTTAAAGTGATATTCGATTATTTTGAGCAAATACGAAATTGCAACCCAACACGTTAGGGC
1 GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
* * * * ***
92467705 ACGATT-TCGAGAATTG-CGAAACATCAAATCTCATATTCGTTTAAGGGATTTTAAAAGATGTGA
66 ACGATTCT-GCGAATTGCCG-AACATCAAATATCGTCTTCGTTTAAGGGATTTTAAAAGACACGA
*
92467768 AT
129 AC
* * *
92467770 GGAATTTTGAAGGGAAATTCGATTATTTTGAGCAAATGCGAAATTACAACCCAACACGTTAGGGC
1 GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
*
92467835 ACGATTCTGCGAATTGCCGAACATCAAATTTCGTCTTCGTTT
66 ACGATTCTGCGAATTGCCGAACATCAAATATCGTCTTCGTTT
92467877 TGAAGAATTT
Statistics
Matches: 195, Mismatches: 37, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
129 1 0.01
130 188 0.96
131 6 0.03
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (130 bp):
GAAATTTTGAAGGGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGC
ACGATTCTGCGAATTGCCGAACATCAAATATCGTCTTCGTTTAAGGGATTTTAAAAGACACGAAC
Found at i:92468900 original size:23 final size:23
Alignment explanation
Indices: 92468870--92468915 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
92468860 ATATAAACAT
92468870 GTATAAAAATAATTTAAACTTTA
1 GTATAAAAATAATTTAAACTTTA
92468893 GTATAAAAATAATTTAAACTTTA
1 GTATAAAAATAATTTAAACTTTA
92468916 CGTAGTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (23 bp):
GTATAAAAATAATTTAAACTTTA
Found at i:92471126 original size:132 final size:132
Alignment explanation
Indices: 92470802--92471452 Score: 743
Period size: 132 Copynumber: 4.9 Consensus size: 132
92470792 CAATCGTCAG
* * *
92470802 CCTACTCCACTACAACTTTAGGGAGCTAGG--ACGAT-AGTCTAAATCTACTTCACTGCAACATC
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTA-G-TGACT-TAAATCTGCTTCACTGCAACTTC
* * * * * * * * *
92470864 AGGAAGCCTAGATTCACCGTCTTTGATCTGTTCCACTGCAA-TCCCAGGGAAACAAAATCTATAT
63 AGGAAGCCAAGATTCATCATCTTCGATCTGCTCCACTGCAACT-TCAGGGAAACAAGATCTAAAA
*
92470928 TTCTCAG
127 TT-TCAA
* *
92470935 CCTACTCCAATACAAATTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGG
* * * * *
92471000 AAGTCAAGATTCGTCATCTTCGATCTGCTCCACTACAACTTTAGGGAAACGAGATCTAAAATTTC
66 AAGCCAAGATTCATCATCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTC
92471065 AA
131 AA
* * * *
92471067 CCTGCTCCACTGCAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGGTTCACTGCAACTTTAGG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGG
* *
92471132 AAGCCAAGATTCATCATCTTCGATCTGCTCTACTGTAACTTCAGGGAAACAAGATCTAAAATTTC
66 AAGCCAAGATTCATCATCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTC
92471197 AA
131 AA
* ** * *
92471199 CCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGTTTTAATCTGCCTCACTGCAACTTCAGG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGG
* * * * * **
92471264 AAGCCAAGATCCGTCGTCTTCAATCTGCTCCATTGCAACTTCAGATAAACAAGATCTAAAATTTC
66 AAGCCAAGATTCATCATCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTC
92471329 AA
131 AA
* * * * *
92471331 CCTACTCCATTACAACTTTAGGGAGCTAGGTTGGTGGCTTTAATCTGCCTCACTGCAACTTCAGG
1 CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGG
* *** * * * * * **
92471396 AAGCCTAGATTTGCCGTCTTTGATATGCTTCACTGTAACTTCAAAGAAACAAGATCT
66 AAGCCAAGATTCATCATCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCT
92471453 GTAGGATCAG
Statistics
Matches: 449, Mismatches: 65, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
132 344 0.77
133 100 0.22
134 4 0.01
135 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (132 bp):
CCTACTCCACTACAACTTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAACTTCAGG
AAGCCAAGATTCATCATCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTAAAATTTC
AA
Found at i:92471128 original size:43 final size:43
Alignment explanation
Indices: 92470951--92471131 Score: 139
Period size: 43 Copynumber: 4.1 Consensus size: 43
92470941 CCAATACAAA
* *
92470951 TTTAGGGAGCTAGGTTAGTGACTTAAATCTGCTTCACTGCAAC
1 TTTAGGGAGCTAGATTAGTGACTTAAATCTGCTCCACTGCAAC
* * * * * ** *
92470994 TTCAGGAAGTCAAGATTCGTCATCTTCGATCTGCTCCACTACAAC
1 TTTAGGGAG-CTAGATTAGTGA-CTTAAATCTGCTCCACTGCAAC
* * ** * * *
92471039 TTTAGGGAAACGAGATCTA-AAATTTCAACCTGCTCCACTGCAAC
1 TTTAGGG-AGCTAGAT-TAGTGACTTAAATCTGCTCCACTGCAAC
* * *
92471083 TTTAGGGAGCTAGGTTAGTGACTTAAATCTGGTTCACTGCAAC
1 TTTAGGGAGCTAGATTAGTGACTTAAATCTGCTCCACTGCAAC
92471126 TTTAGG
1 TTTAGG
92471132 AAGCCAAGAT
Statistics
Matches: 102, Mismatches: 31, Indels: 10
0.71 0.22 0.07
Matches are distributed among these distances:
42 2 0.02
43 36 0.35
44 33 0.32
45 29 0.28
46 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
TTTAGGGAGCTAGATTAGTGACTTAAATCTGCTCCACTGCAAC
Found at i:92471222 original size:44 final size:43
Alignment explanation
Indices: 92471024--92471222 Score: 132
Period size: 44 Copynumber: 4.5 Consensus size: 43
92471014 CATCTTCGAT
* *
92471024 CTGCTCCACTACAACTTTAGGGAAACGAGATCTAAAATTTCAAC
1 CTGCTCCACTGCAACTTTAGGGAAACAAGAT-TAAAATTTCAAC
* * * ** * * *
92471068 CTGCTCCACTGCAACTTTAGGG-AGCTAGGTTAGTGACTTAAAT
1 CTGCTCCACTGCAACTTTAGGGAAACAAGATTA-AAATTTCAAC
* * * ** * *
92471111 CTGGTTCACTGCAACTTTA-GGAAGCCAAGATTCATCATCTTCGAT
1 CTGCTCCACTGCAACTTTAGGGAA-ACAAGATT-AAAAT-TTCAAC
* * *
92471156 CTGCTCTACTGTAACTTCAGGGAAACAAGATCTAAAATTTCAAC
1 CTGCTCCACTGCAACTTTAGGGAAACAAGAT-TAAAATTTCAAC
* *
92471200 CTACTCCACTACAACTTTAGGGA
1 CTGCTCCACTGCAACTTTAGGGA
92471223 GCTAGGTTGG
Statistics
Matches: 115, Mismatches: 33, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
42 4 0.03
43 28 0.24
44 50 0.43
45 28 0.24
46 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTTAGGGAAACAAGATTAAAATTTCAAC
Found at i:92480090 original size:22 final size:22
Alignment explanation
Indices: 92480064--92480108 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
92480054 GCTCTTAATT
*
92480064 CCCATCGCTTTTTTCTGCTTTC
1 CCCATCGCTTATTTCTGCTTTC
92480086 CCCATCGCTTATTTCTGCTTTC
1 CCCATCGCTTATTTCTGCTTTC
92480108 C
1 C
92480109 GACAGACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.07, C:0.38, G:0.09, T:0.47
Consensus pattern (22 bp):
CCCATCGCTTATTTCTGCTTTC
Found at i:92483201 original size:131 final size:129
Alignment explanation
Indices: 92483053--92483394 Score: 325
Period size: 130 Copynumber: 2.6 Consensus size: 129
92483043 AATAAAGACC
* * * * * *
92483053 TAAAGGAATACTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAAGGCATGATTC
1 TAAAGGGATATTCGATTGTTTTGAACAAA-GAGAAATTACAACCCAACACGATAAGGCACGATCC
* *
92483118 C-CGAATTGTCAAACACCA-AGTATTGCCATCGTTTTAAAGGATTTTTAGAAGAGC-CGAG-TGA
65 CACGAATTGCCAAACACCAGA-TATTGCCATCGTTTT-AAGGA-TTTTAAAAGA-CACGAGCT-A
92483179 AATTT
125 AATTT
* * * * * * * *
92483184 TGAAGGGATATTTGATTGTTTTAAACAATAGAGAAATTGCTACCCAACATGTTAGGGCACGATCC
1 TAAAGGGATATTCGATTGTTTTGAACAA-AGAGAAATTACAACCCAACACGATAAGGCACGATCC
* * *
92483249 CACGAATTGCCAAATACCAGATATTGCCTTCGTTTTAGGGATTTTAAAAGACACGAGCTAAATTT
65 CACGAATTGCCAAACACCAGATATTGCCATCGTTTTAAGGATTTTAAAAGACACGAGCTAAATTT
* * * * *
92483314 TAAAGTGATATTCGATTATTTTGAGCAAATACGAAATTACAACCCAACACGAT-AGTGCACGATT
1 TAAAGGGATATTCGATTGTTTTGAACAAAGA-GAAATTACAACCCAACACGATAAG-GCACGATC
***
92483378 TTGCGAATTGCCAAACA
64 CCACGAATTGCCAAACA
92483395 TCAAATCTCA
Statistics
Matches: 168, Mismatches: 36, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
129 4 0.02
130 78 0.46
131 55 0.33
132 30 0.18
133 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (129 bp):
TAAAGGGATATTCGATTGTTTTGAACAAAGAGAAATTACAACCCAACACGATAAGGCACGATCCC
ACGAATTGCCAAACACCAGATATTGCCATCGTTTTAAGGATTTTAAAAGACACGAGCTAAATTT
Found at i:92483350 original size:130 final size:127
Alignment explanation
Indices: 92483092--92483524 Score: 390
Period size: 130 Copynumber: 3.3 Consensus size: 127
92483082 CGAGAAATCA
* * * * * * *
92483092 CAACCCAGCACGATAAGGCATGATTCC-CGAATTGTCAAACACCAAGTATTGCCATCGTTTTAAA
1 CAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACACCAA-TATTGCCTTCGTTTT-AG
* * * * * *
92483156 GGATTTTTAGAAGAGCCGAGTGAAATTTTGAAGGGATATTTGATTGTTTTAAAC-AATAGAGAAA
64 GGA-TTTTAAAAGA-CCGAGTGAAATTTTGAA-GGATATTCGATTATTTTGAGCAAATA-CGAAA
92483220 TTG
125 TTG
* * * * *
92483223 CTACCCAACATGTTAGGGCACGATCCCACGAATTGCCAAATACCAGATATTGCCTTCGTTTTAGG
1 CAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACACCA-ATATTGCCTTCGTTTTAGG
*
92483288 GATTTTAAAAGACACGAGCT-AAATTTTAAAGTGATATTCGATTATTTTGAGCAAATACGAAATT
65 GATTTTAAAAGAC-CGAG-TGAAATTTTGAAG-GATATTCGATTATTTTGAGCAAATACGAAATT
*
92483352 A
127 G
* * ** * *
92483353 CAACCCAACACGATAGTGCACGATTTTGCGAATTGCCAAACATCAA-ATCT-CATCTTCGTTTAA
1 CAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACACCAATAT-TGC--CTTCGTTTTA
** * * * * *
92483416 GGGATTTTAAAAGATGTGAATGGAATTTCGAAGGAAAATTCGATTATTTTGAGCAAATGCGAAAT
63 GGGATTTTAAAAGA-CCGAGTGAAATTTTGAAGG-ATATTCGATTATTTTGAGCAAATACGAAAT
92483481 TG
126 TG
*
92483483 CAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCGAACA
1 CAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACA
92483525 TCAAATTTCG
Statistics
Matches: 246, Mismatches: 44, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
128 3 0.01
129 6 0.02
130 178 0.72
131 29 0.12
132 29 0.12
133 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (127 bp):
CAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACACCAATATTGCCTTCGTTTTAGGG
ATTTTAAAAGACCGAGTGAAATTTTGAAGGATATTCGATTATTTTGAGCAAATACGAAATTG
Found at i:92484678 original size:2 final size:2
Alignment explanation
Indices: 92484673--92484697 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
92484663 ATGTACACAC
92484673 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
92484698 AAAGAGCATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:92487364 original size:16 final size:17
Alignment explanation
Indices: 92487343--92487401 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 17
92487333 ATATTTAGTC
92487343 ATATAATAAATTA-TTA
1 ATATAATAAATTATTTA
92487359 ATATAATAAATATAATTTA
1 ATATAATAAAT-T-ATTTA
92487378 TTATATTAATAAATTATTTA
1 --ATA-TAATAAATTATTTA
92487398 ATAT
1 ATAT
92487402 TTCAATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
16 11 0.30
17 2 0.05
18 4 0.11
19 3 0.08
20 5 0.14
21 4 0.11
22 8 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAATAAATTATTTA
Found at i:92487373 original size:22 final size:22
Alignment explanation
Indices: 92487348--92487391 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
92487338 TAGTCATATA
92487348 ATAAATTATTA-ATATAATAAAT
1 ATAAATTATTATAT-TAATAAAT
*
92487370 ATAATTTATTATATTAATAAAT
1 ATAAATTATTATATTAATAAAT
92487392 TATTTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTATATTAATAAAT
Found at i:92487427 original size:13 final size:14
Alignment explanation
Indices: 92487411--92487452 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
92487401 TTTCAATTTT
92487411 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
92487424 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
92487439 ATTTTAAATAATAT
1 ATTTT-AATAATAT
92487453 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:92487437 original size:16 final size:16
Alignment explanation
Indices: 92487415--92487451 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
92487405 AATTTTATTT
92487415 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
92487432 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
92487447 TAATA
1 TAATA
92487452 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:92487504 original size:15 final size:15
Alignment explanation
Indices: 92487484--92487539 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
92487474 ATTCAATATT
92487484 AATATTTTAATAATA
1 AATATTTTAATAATA
*
92487499 AATATTTATTAAAATTATA
1 AATA-TT-TT--AATAATA
*
92487518 AATATATTAATAATA
1 AATATTTTAATAATA
92487533 AAT-TTTT
1 AATATTTT
92487540 TGTAATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
14 3 0.09
15 13 0.39
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:92490470 original size:19 final size:18
Alignment explanation
Indices: 92490446--92490481 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
92490436 TCTAGATTTT
92490446 ACACAAAAAAAATATTTAC
1 ACACAAAAAAAA-ATTTAC
92490465 ACACAAAAAAAAATTTA
1 ACACAAAAAAAAATTTA
92490482 GATTGAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (18 bp):
ACACAAAAAAAAATTTAC
Found at i:92493468 original size:21 final size:21
Alignment explanation
Indices: 92493440--92493488 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
92493430 TTTACTCCTC
*
92493440 TCTT-GTTCATTTTATAATTT
1 TCTTAGTTCATTTTACAATTT
92493460 TCTTAGTTCATTTTACAATTT
1 TCTTAGTTCATTTTACAATTT
*
92493481 TATTAGTT
1 TCTTAGTT
92493489 TATGAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.22, C:0.10, G:0.06, T:0.61
Consensus pattern (21 bp):
TCTTAGTTCATTTTACAATTT
Found at i:92493885 original size:16 final size:16
Alignment explanation
Indices: 92493866--92493898 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
92493856 AATTAATGTA
92493866 TTATATCATT-TATATT
1 TTATAT-ATTATATATT
92493882 TTATATATTATATATT
1 TTATATATTATATATT
92493898 T
1 T
92493899 GAATTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATATATTATATATT
Found at i:92501037 original size:9 final size:9
Alignment explanation
Indices: 92501025--92501075 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
92501015 TAAAAAATAT
92501025 TTTTTATAA
1 TTTTTATAA
92501034 TTTTTATACA
1 TTTTTATA-A
92501044 TTTTTAATAA
1 TTTTT-ATAA
* *
92501054 TTTTAATGA
1 TTTTTATAA
92501063 -TTTTA-AA
1 TTTTTATAA
92501070 TTTTTA
1 TTTTTA
92501076 AAAAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
7 1 0.03
8 9 0.26
9 11 0.31
10 11 0.31
11 3 0.09
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:92510664 original size:29 final size:32
Alignment explanation
Indices: 92510582--92510679 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 32
92510572 TAAGCCTGAC
* * *
92510582 TATATTATT-TTTTAATTTCTTTTAAAAA-TAT
1 TATA-TATTATTTTAATTTATATTAAAAATTTT
* *
92510613 T-TATATTATTTTAATTTAATATTTAATATTTT
1 TATATATTATTTTAATTT-ATATTAAAAATTTT
92510645 TATATATTATTTT-A-TT-TATTAAAAATTTT
1 TATATATTATTTTAATTTATATTAAAAATTTT
92510674 TATATA
1 TATATA
92510680 GTCATCTTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
29 21 0.38
30 11 0.20
31 9 0.16
32 4 0.07
33 11 0.20
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (32 bp):
TATATATTATTTTAATTTATATTAAAAATTTT
Found at i:92511160 original size:34 final size:34
Alignment explanation
Indices: 92511117--92511184 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
92511107 CCTAAATTAT
92511117 GCTAATATCTCTCTTCAAGGCTAAAAATAACTAA
1 GCTAATATCTCTCTTCAAGGCTAAAAATAACTAA
*
92511151 GCTAATATCTCTCTTCAAGGTTAAAAATAACTAA
1 GCTAATATCTCTCTTCAAGGCTAAAAATAACTAA
92511185 CTCTAGGTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (34 bp):
GCTAATATCTCTCTTCAAGGCTAAAAATAACTAA
Found at i:92512764 original size:21 final size:21
Alignment explanation
Indices: 92512739--92512783 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
92512729 TTAATTATAA
* *
92512739 ATTCTAAATTCTCACTTTTTG
1 ATTCTAAATTCTCAATTCTTG
* *
92512760 ATTCTCAATTGTCAATTCTTG
1 ATTCTAAATTCTCAATTCTTG
92512781 ATT
1 ATT
92512784 TTTTATTCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.51
Consensus pattern (21 bp):
ATTCTAAATTCTCAATTCTTG
Found at i:92514643 original size:63 final size:63
Alignment explanation
Indices: 92514543--92514714 Score: 177
Period size: 63 Copynumber: 2.7 Consensus size: 63
92514533 ATTTTTTTGT
* * * ** *
92514543 CACAAACATCACAGCACACACACTTATTCCCCACATCATCACCTTCACAT-CC-GATTTATTTTA
1 CACAAACACCACAGCACACACAATCATTCCTTACATCAACACCTTCA-ATACCAG-TTTATTTTA
* * * * *
92514606 CACAACCACCACAGCACACACAATCATTCCTTGCATCAACACATTTAGTACCAGTTTATTTTA
1 CACAAACACCACAGCACACACAATCATTCCTTACATCAACACCTTCAATACCAGTTTATTTTA
* * * *
92514669 CACAAGCACCACAACACGCACAATCATTCCTTACATTAACACCTTC
1 CACAAACACCACAGCACACACAATCATTCCTTACATCAACACCTTC
92514715 TCTAAAGATA
Statistics
Matches: 89, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
62 1 0.01
63 87 0.98
64 1 0.01
ACGTcount: A:0.35, C:0.35, G:0.05, T:0.25
Consensus pattern (63 bp):
CACAAACACCACAGCACACACAATCATTCCTTACATCAACACCTTCAATACCAGTTTATTTTA
Found at i:92518492 original size:49 final size:49
Alignment explanation
Indices: 92518415--92518511 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
92518405 TACAATATTG
92518415 TATCAACATTTGTTATTAATGAAGTCAGGTTAATTTCAAATCACATGCA
1 TATCAACATTTGTTATTAATGAAGTCAGGTTAATTTCAAATCACATGCA
* *
92518464 TATCTACATTTGTTATTAATGAAGTCAGGTTAATTTCAAGTCACATGC
1 TATCAACATTTGTTATTAATGAAGTCAGGTTAATTTCAAATCACATGC
92518512 TTTCTATCCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.38
Consensus pattern (49 bp):
TATCAACATTTGTTATTAATGAAGTCAGGTTAATTTCAAATCACATGCA
Found at i:92531467 original size:21 final size:20
Alignment explanation
Indices: 92531413--92531469 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
92531403 ACCTTTCAAT
* *
92531413 GGTATTGCGATATCCTTTTT
1 GGTATTGTGATATCCTTTTA
* *
92531433 GGATATCGTAATATCCTCTTTA
1 GG-TATTGTGATATCCT-TTTA
92531455 GGTATTGTGATATCC
1 GGTATTGTGATATCC
92531470 ACCCTTCAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.07
21 22 0.76
22 5 0.17
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (20 bp):
GGTATTGTGATATCCTTTTA
Found at i:92531510 original size:30 final size:30
Alignment explanation
Indices: 92531474--92531534 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
92531464 ATATCCACCC
*
92531474 TTCAAAGAGGA-CCTCAAGGTTCAACATTGA
1 TTCAAAGAGGACCCT-AAGGCTCAACATTGA
92531504 TTCAAAGAGGACCCTAAGGCTCAACATTGA
1 TTCAAAGAGGACCCTAAGGCTCAACATTGA
92531534 T
1 T
92531535 CGAGGTATCG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (30 bp):
TTCAAAGAGGACCCTAAGGCTCAACATTGA
Found at i:92534487 original size:15 final size:16
Alignment explanation
Indices: 92534467--92534499 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
92534457 TCACAATTAT
92534467 TTTATA-AAGTAAATA
1 TTTATAGAAGTAAATA
*
92534482 TTTATAGAAGTTAATA
1 TTTATAGAAGTAAATA
92534498 TT
1 TT
92534500 CTTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (16 bp):
TTTATAGAAGTAAATA
Found at i:92540616 original size:25 final size:26
Alignment explanation
Indices: 92540559--92540617 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
92540549 ATTAACAATG
92540559 TATATATGATAATAATAGTAATAATA
1 TATATATGATAATAATAGTAATAATA
* * *
92540585 CAAATATGA-AATAATAGTGAACATATA
1 TATATATGATAATAATAGT-AATA-ATA
92540612 TATATA
1 TATATA
92540618 AAACATATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
25 9 0.35
26 10 0.38
27 7 0.27
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.34
Consensus pattern (26 bp):
TATATATGATAATAATAGTAATAATA
Found at i:92540849 original size:27 final size:25
Alignment explanation
Indices: 92540778--92540911 Score: 117
Period size: 25 Copynumber: 5.1 Consensus size: 25
92540768 AAGTATATAC
* *
92540778 ATAGTATTAGAAATATGTACATAAT
1 ATAGTATTAAAAATATATACATAAT
** *
92540803 ATAGCGTTAAAAATACATACATAAT
1 ATAGTATTAAAAATATATACATAAT
92540828 ATAGTTATTAAAAAATATATACATAAGAT
1 ATAG-TATT-AAAAATATATACAT-A-AT
** *
92540857 AATATGTAAGAAAAAATATATAAATAAT
1 -ATA-GT-ATTAAAAATATATACATAAT
*
92540885 ATAGTATT-AAAATATTTACATAAT
1 ATAGTATTAAAAATATATACATAAT
92540909 ATA
1 ATA
92540912 TACATATTAG
Statistics
Matches: 87, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
24 17 0.20
25 25 0.29
26 4 0.05
27 16 0.18
28 3 0.03
29 3 0.03
30 17 0.20
31 2 0.02
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.34
Consensus pattern (25 bp):
ATAGTATTAAAAATATATACATAAT
Found at i:92540984 original size:21 final size:20
Alignment explanation
Indices: 92540958--92541007 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
92540948 CTACATAAAT
* *
92540958 ATATATATTAAAGATATATAC
1 ATATATAATAAA-ACATATAC
92540979 ATATATAATAAAACATATAC
1 ATATATAATAAAACATATAC
92540999 -TA-ATAATAA
1 ATATATAATAA
92541008 TAATAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 7 0.26
19 2 0.07
20 7 0.26
21 11 0.41
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATATAATAAAACATATAC
Found at i:92541021 original size:15 final size:15
Alignment explanation
Indices: 92541001--92541046 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
92540991 ACATATACTA
92541001 ATAATAATAAT-AAT
1 ATAATAATAATAAAT
*
92541015 ATAAATAATAGTAAAT
1 AT-AATAATAATAAAT
*
92541031 ATAATAATAGTAAAT
1 ATAATAATAATAAAT
92541046 A
1 A
92541047 ATATTAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 2 0.07
15 22 0.76
16 5 0.17
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (15 bp):
ATAATAATAATAAAT
Found at i:92541021 original size:18 final size:17
Alignment explanation
Indices: 92540999--92541073 Score: 68
Period size: 18 Copynumber: 4.5 Consensus size: 17
92540989 AAACATATAC
*
92540999 TAATAATAATAATAATA
1 TAATAATAGTAATAATA
92541016 TAAATAATAGT-A-AATA
1 T-AATAATAGTAATAATA
92541032 TAATAATAGTAAATAATA
1 TAATAATAGT-AATAATA
* *
92541050 T--TAAAAGTAATTAATT
1 TAATAATAGTAA-TAATA
92541066 TAATAATA
1 TAATAATA
92541074 AAGAAATGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
15 11 0.23
16 16 0.34
17 3 0.06
18 17 0.36
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (17 bp):
TAATAATAGTAATAATA
Found at i:92541060 original size:25 final size:24
Alignment explanation
Indices: 92541007--92541054 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
92540997 ACTAATAATA
92541007 ATAATAATATAAATAATAGTAAAT
1 ATAATAATATAAATAATAGTAAAT
*
92541031 ATAATAATAGTAAATAATATTAAA
1 ATAATAATA-TAAATAATAGTAAA
92541055 AGTAATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (24 bp):
ATAATAATATAAATAATAGTAAAT
Found at i:92544038 original size:5 final size:5
Alignment explanation
Indices: 92544028--92544056 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
92544018 TCTATGTGTT
92544028 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
92544057 TCATAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:92547229 original size:53 final size:53
Alignment explanation
Indices: 92547073--92547238 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
92547063 GACGAAAAAT
* **
92547073 ATGTGATAA-GTGCAC-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAATGTG-ACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
92547125 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
92547178 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
92547232 TATGTGA
1 -ATGTGA
92547239 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
52 12 0.12
53 84 0.82
54 1 0.01
55 6 0.06
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:92554196 original size:53 final size:53
Alignment explanation
Indices: 92554117--92554270 Score: 215
Period size: 53 Copynumber: 2.9 Consensus size: 53
92554107 CGAAAAATAC
* **
92554117 GTGATAA-GTG-CGTCCGTTTAAGACCATAGCTGGGATATGGCATCGGTGCAAT
1 GTGATAATGTGAC-TCCGTATAAGACCATAGCTGGGATATGGCATCGGTAAAAT
*
92554169 GTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTAAAAT
1 GTGATAATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAAAAT
* *
92554222 GTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTA
1 GTGATAATGTGACTCCGTATAAGACCATAG-CTGGGATATGGCATCGGTA
92554271 TGATATGTGA
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
52 8 0.09
53 83 0.90
54 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (53 bp):
GTGATAATGTGACTCCGTATAAGACCATAGCTGGGATATGGCATCGGTAAAAT
Found at i:92560956 original size:17 final size:18
Alignment explanation
Indices: 92560924--92560957 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
92560914 AATTCAACTT
92560924 TAATTAAATTTCTTAAAA
1 TAATTAAATTTCTTAAAA
*
92560942 TAATT-AATTTTTTAAA
1 TAATTAAATTTCTTAAA
92560958 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTTCTTAAAA
Found at i:92561534 original size:27 final size:27
Alignment explanation
Indices: 92561511--92561581 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
92561501 GAGTATGGTT
* *
92561511 TTGAGTTTAATGTTTAAGCTTATGGGC
1 TTGAATTTAAGGTTTAAGCTTATGGGC
92561538 TTGAATTTAAGGTTTAAGCTTATGGGC
1 TTGAATTTAAGGTTTAAGCTTATGGGC
* *
92561565 TCGAATTTAGGGTTTAA
1 TTGAATTTAAGGTTTAA
92561582 AAGTTTAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.42
Consensus pattern (27 bp):
TTGAATTTAAGGTTTAAGCTTATGGGC
Found at i:92562290 original size:21 final size:20
Alignment explanation
Indices: 92562264--92562330 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
92562254 TATGGTTTAT
92562264 GATTTTATATTTTAGGGTTGA
1 GATTTTATA-TTTAGGGTTGA
* * *
92562285 GATTTTAGATTTAAGGTTTA
1 GATTTTATATTTAGGGTTGA
*
92562305 TGA-TTTATAGTTTATGGTTTGA
1 -GATTTTATA-TTTA-GGGTTGA
92562327 GATT
1 GATT
92562331 CATGGTTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
20 14 0.40
21 16 0.46
22 5 0.14
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.52
Consensus pattern (20 bp):
GATTTTATATTTAGGGTTGA
Found at i:92562405 original size:22 final size:21
Alignment explanation
Indices: 92562364--92562406 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
92562354 ATATTTATTA
*
92562364 ATTTTAGGGTTTATGGTTTAG
1 ATTTTAGGGTTTATGATTTAG
92562385 ATTTTAAGGGTTTAAT-ATTTAG
1 ATTTT-AGGGTTT-ATGATTTAG
92562407 TGTTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
22 12 0.63
23 2 0.11
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (21 bp):
ATTTTAGGGTTTATGATTTAG
Found at i:92563780 original size:16 final size:16
Alignment explanation
Indices: 92563759--92563789 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92563749 CTATGAATAC
*
92563759 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
92563775 AAAATACAAAAGACA
1 AAAATACAAAAGACA
92563790 TAATAGTGAA
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:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:92564062 original size:22 final size:22
Alignment explanation
Indices: 92564032--92564097 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 22
92564022 AGTATTTTAA
* *
92564032 TTTAGGGTTTATGATTATAGTG
1 TTTAAGGTTTATGATTATAGAG
*
92564054 TTTAAGG-TTAT-A-TATCTGAG
1 TTTAAGGTTTATGATTAT-AGAG
*
92564074 TTTAAGGTTTA-GATTATATAG
1 TTTAAGGTTTATGATTATAGAG
92564095 TTT
1 TTT
92564098 TTAGTTTAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
19 3 0.09
20 10 0.29
21 13 0.37
22 9 0.26
ACGTcount: A:0.27, C:0.02, G:0.21, T:0.50
Consensus pattern (22 bp):
TTTAAGGTTTATGATTATAGAG
Found at i:92564642 original size:7 final size:7
Alignment explanation
Indices: 92564632--92564665 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
92564622 TATGTGTTTG
92564632 GGTTTAA
1 GGTTTAA
92564639 GGTTTAA
1 GGTTTAA
* *
92564646 GATTTCA
1 GGTTTAA
92564653 GGTTTAA
1 GGTTTAA
92564660 GGTTTA
1 GGTTTA
92564666 GAGTTTTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.44
Consensus pattern (7 bp):
GGTTTAA
Found at i:92564930 original size:29 final size:29
Alignment explanation
Indices: 92564882--92564950 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
92564872 TTAGTTTATG
*
92564882 GTTTAAGGTTTAGGATTTATGA-TTA-TAA
1 GTTTAAGGTTTAGGACTTAT-ATTTATTAA
92564910 GTTTAAAGGTTTAGTG-CTTATATTTATTAA
1 GTTT-AAGGTTTAG-GACTTATATTTATTAA
92564940 GTTTAAGGTTT
1 GTTTAAGGTTT
92564951 GGGTTCAGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
28 5 0.14
29 23 0.64
30 8 0.22
ACGTcount: A:0.29, C:0.01, G:0.20, T:0.49
Consensus pattern (29 bp):
GTTTAAGGTTTAGGACTTATATTTATTAA
Found at i:92565148 original size:27 final size:25
Alignment explanation
Indices: 92565096--92565216 Score: 80
Period size: 27 Copynumber: 4.5 Consensus size: 25
92565086 TAAGGTTATG
* *
92565096 TGATTTATGGTTACATGTTTGAGTTTA
1 TGATTTAT-GTT-TATGTTTGGGTTTA
*
92565123 TTATTTAGTGTTTATGTTTAGGGTTTA
1 TGATTTA-TGTTTATGTTT-GGGTTTA
* * *
92565150 GGGTTTATGGTTTATAGTTTGGGTTGA
1 TGATTTAT-GTTTAT-GTTTGGGTTTA
*
92565177 TGATTTATGATTCTAGGTTTAGGGTTTA
1 TGATTTATG-TT-TATGTTT-GGGTTTA
* *
92565205 TGGTTTAAGTTT
1 TGATTTATGTTT
92565217 TAGTGTTATG
Statistics
Matches: 74, Mismatches: 13, Indels: 15
0.73 0.13 0.15
Matches are distributed among these distances:
26 9 0.12
27 45 0.61
28 20 0.27
ACGTcount: A:0.19, C:0.02, G:0.26, T:0.53
Consensus pattern (25 bp):
TGATTTATGTTTATGTTTGGGTTTA
Found at i:92565155 original size:14 final size:14
Alignment explanation
Indices: 92565126--92565211 Score: 70
Period size: 14 Copynumber: 6.3 Consensus size: 14
92565116 GAGTTTATTA
*
92565126 TTTAGTGTTTAT-G
1 TTTAGGGTTTATGG
*
92565139 TTTAGGGTTTAGGG
1 TTTAGGGTTTATGG
* *
92565153 TTTATGGTTTATAG
1 TTTAGGGTTTATGG
* *
92565167 TTT-GGGTTGATGA
1 TTTAGGGTTTATGG
* *
92565180 TTTATGATTCTA-GG
1 TTTAGGGTT-TATGG
92565194 TTTAGGGTTTATGG
1 TTTAGGGTTTATGG
92565208 TTTA
1 TTTA
92565212 AGTTTTAGTG
Statistics
Matches: 54, Mismatches: 15, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
13 21 0.39
14 32 0.59
15 1 0.02
ACGTcount: A:0.17, C:0.01, G:0.29, T:0.52
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:92565173 original size:20 final size:21
Alignment explanation
Indices: 92565118--92565211 Score: 63
Period size: 20 Copynumber: 4.6 Consensus size: 21
92565108 ACATGTTTGA
*
92565118 GTTTATTA-TTTAGTGTTTAT-
1 GTTTA-TAGTTTAGGGTTTATG
**
92565138 GTTTAGGGTTTAGGGTTTATG
1 GTTTATAGTTTAGGGTTTATG
*
92565159 GTTTATAGTTT-GGGTTGATG
1 GTTTATAGTTTAGGGTTTATG
* *
92565179 ATTTAT-GATTCTA-GGTTTAGG
1 GTTTATAG-TT-TAGGGTTTATG
*
92565200 GTTTATGGTTTA
1 GTTTATAGTTTA
92565212 AGTTTTAGTG
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
19 1 0.02
20 33 0.57
21 23 0.40
22 1 0.02
ACGTcount: A:0.18, C:0.01, G:0.28, T:0.53
Consensus pattern (21 bp):
GTTTATAGTTTAGGGTTTATG
Found at i:92565462 original size:20 final size:20
Alignment explanation
Indices: 92565439--92565592 Score: 61
Period size: 20 Copynumber: 7.6 Consensus size: 20
92565429 AATTGTAGTT
92565439 TTTATGGTTTATATTTAGGG
1 TTTATGGTTTATATTTAGGG
* * *
92565459 TTTATAGTTTATGGTTT-TGG
1 TTTATGGTTTAT-ATTTAGGG
*
92565479 TTT-TGGTATTATGTTTAGGG
1 TTTATGGT-TTATATTTAGGG
** * *
92565499 TTTAAAGTTTGTTATTTTA-GA
1 TTTATGGTTT-ATA-TTTAGGG
* *
92565520 TTTAGGGTTTA-AGTTTAGTG
1 TTTATGGTTTATA-TTTAGGG
* * *
92565540 TTTAT-ATTTATGGTTTATGG
1 TTTATGGTTTAT-ATTTAGGG
92565560 TTTAT-GTTTA-AGGTTTAGGG
1 TTTATGGTTTATA--TTTAGGG
92565580 TTTTATGGTTTAT
1 -TTTATGGTTTAT
92565593 GGTTTAAATT
Statistics
Matches: 96, Mismatches: 24, Indels: 25
0.66 0.17 0.17
Matches are distributed among these distances:
19 16 0.17
20 51 0.53
21 20 0.21
22 9 0.09
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.56
Consensus pattern (20 bp):
TTTATGGTTTATATTTAGGG
Found at i:92565468 original size:7 final size:7
Alignment explanation
Indices: 92565439--92565598 Score: 86
Period size: 7 Copynumber: 23.6 Consensus size: 7
92565429 AATTGTAGTT
92565439 TTTATGG
1 TTTATGG
*
92565446 TTTAT-A
1 TTTATGG
*
92565452 TTTAGGG
1 TTTATGG
*
92565459 TTTATAG
1 TTTATGG
92565466 TTTATGG
1 TTTATGG
92565473 TTT-TGG
1 TTTATGG
92565479 TTT-TGG
1 TTTATGG
92565485 TATTAT-G
1 T-TTATGG
*
92565492 TTTAGGG
1 TTTATGG
**
92565499 TTTAAAG
1 TTTATGG
* **
92565506 TTTGTTA
1 TTTATGG
*
92565513 TTT-TAGA
1 TTTAT-GG
*
92565520 TTTAGGG
1 TTTATGG
*
92565527 TTTA-AG
1 TTTATGG
92565533 TTTA-GTG
1 TTTATG-G
*
92565540 TTTAT-A
1 TTTATGG
92565546 TTTATGG
1 TTTATGG
92565553 TTTATGG
1 TTTATGG
92565560 TTTAT-G
1 TTTATGG
*
92565566 TTTAAGG
1 TTTATGG
*
92565573 TTTAGGG
1 TTTATGG
92565580 TTTTATGG
1 -TTTATGG
92565588 TTTATGG
1 TTTATGG
92565595 TTTA
1 TTTA
92565599 AATTCAGAGT
Statistics
Matches: 119, Mismatches: 23, Indels: 22
0.73 0.14 0.13
Matches are distributed among these distances:
6 33 0.28
7 79 0.66
8 7 0.06
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.56
Consensus pattern (7 bp):
TTTATGG
Found at i:92565568 original size:13 final size:13
Alignment explanation
Indices: 92565439--92565598 Score: 78
Period size: 13 Copynumber: 11.8 Consensus size: 13
92565429 AATTGTAGTT
*
92565439 TTTATGGTTTATA
1 TTTATGGTTTATG
*
92565452 TTTAGGGTTTATAG
1 TTTATGGTTTAT-G
92565466 TTTATGGTTT-TGG
1 TTTATGGTTTAT-G
92565479 TTT-TGGTATTATG
1 TTTATGGT-TTATG
* *
92565492 TTTAGGGTTTAAAG
1 TTTATGGTTT-ATG
* **
92565506 TTTGTTATTT-TAG
1 TTTATGGTTTAT-G
* *
92565519 ATTTAGGGTTTAAG
1 -TTTATGGTTTATG
*
92565533 TTTA-GTGTTTATA
1 TTTATG-GTTTATG
92565546 TTTATGGTTTATGG
1 TTTATGGTTTAT-G
*
92565560 TTTAT-GTTTAAGG
1 TTTATGGTTT-ATG
*
92565573 TTTAGGGTTTTATGG
1 TTTATGG-TTTAT-G
92565588 TTTATGGTTTA
1 TTTATGGTTTA
92565599 AATTCAGAGT
Statistics
Matches: 109, Mismatches: 23, Indels: 29
0.68 0.14 0.18
Matches are distributed among these distances:
12 5 0.05
13 53 0.49
14 41 0.38
15 10 0.09
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.56
Consensus pattern (13 bp):
TTTATGGTTTATG
Found at i:92565610 original size:28 final size:28
Alignment explanation
Indices: 92565553--92565610 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
92565543 ATATTTATGG
* * *
92565553 TTTATGGTTTATGTTTAAGGTTTAGGGT
1 TTTATGGTTTATGTTTAAGATTCAGAGT
92565581 TTTATGGTTTATGGTTTAA-ATTCAGAGT
1 TTTATGGTTTAT-GTTTAAGATTCAGAGT
92565609 TT
1 TT
92565611 ATTATTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.21, C:0.02, G:0.24, T:0.53
Consensus pattern (28 bp):
TTTATGGTTTATGTTTAAGATTCAGAGT
Found at i:92565656 original size:20 final size:20
Alignment explanation
Indices: 92565532--92565657 Score: 71
Period size: 20 Copynumber: 6.2 Consensus size: 20
92565522 TAGGGTTTAA
92565532 GTTTAGTGTTTATA-TTTATG
1 GTTTA-TGTTTATAGTTTATG
*
92565552 GTTTATGGTTTAT-GTTTAAG
1 GTTTAT-GTTTATAGTTTATG
* *
92565572 GTTTAGGGTTTTATGGTTTATG
1 GTTTA-TG-TTTATAGTTTATG
** * * *
92565594 GTTTAAATTCAGAGTTTATT
1 GTTTATGTTTATAGTTTATG
* * *
92565614 ATTTCAT-TATAATA-TTTAGG
1 GTTT-ATGT-TTATAGTTTATG
92565634 GTTTATGTTTATAGTTTATG
1 GTTTATGTTTATAGTTTATG
92565654 GTTT
1 GTTT
92565658 TAATTTTGTT
Statistics
Matches: 79, Mismatches: 18, Indels: 18
0.69 0.16 0.16
Matches are distributed among these distances:
19 7 0.09
20 52 0.66
21 9 0.11
22 11 0.14
ACGTcount: A:0.22, C:0.02, G:0.21, T:0.56
Consensus pattern (20 bp):
GTTTATGTTTATAGTTTATG
Found at i:92565778 original size:21 final size:21
Alignment explanation
Indices: 92565748--92565791 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
92565738 AGGGTTTAAT
* *
92565748 TTTAGTGTTTATAATTTAGGG
1 TTTAGCGTTTATAATTTAAGG
*
92565769 TTTAGCGTTTATTATTTAAGG
1 TTTAGCGTTTATAATTTAAGG
92565790 TT
1 TT
92565792 ATGGTTTAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.02, G:0.20, T:0.55
Consensus pattern (21 bp):
TTTAGCGTTTATAATTTAAGG
Found at i:92565986 original size:13 final size:14
Alignment explanation
Indices: 92565934--92565993 Score: 79
Period size: 14 Copynumber: 4.4 Consensus size: 14
92565924 AGGGTTTATA
*
92565934 GTTT-GAGTTTAAG
1 GTTTAGAGTTTAGG
*
92565947 GTTTATAGTTTAGG
1 GTTTAGAGTTTAGG
*
92565961 GTTTAGAGTTTAGT
1 GTTTAGAGTTTAGG
92565975 GTTT-GAGTTTAGG
1 GTTTAGAGTTTAGG
92565988 GTTTAG
1 GTTTAG
92565994 GATTTGTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
13 16 0.40
14 24 0.60
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (14 bp):
GTTTAGAGTTTAGG
Found at i:92565993 original size:20 final size:20
Alignment explanation
Indices: 92565921--92565992 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
92565911 ATGGCTTATA
92565921 TTTAGGGTTTATAGTTTGAG
1 TTTAGGGTTTATAGTTTGAG
* *
92565941 TTTAAGGTTTATAGTTTAGGG
1 TTTAGGGTTTATAGTTT-GAG
*
92565962 TTTAGAGTTTAGT-GTTTGAG
1 TTTAGGGTTTA-TAGTTTGAG
92565982 TTTAGGGTTTA
1 TTTAGGGTTTA
92565993 GGATTTGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
20 28 0.64
21 15 0.34
22 1 0.02
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (20 bp):
TTTAGGGTTTATAGTTTGAG
Found at i:92565994 original size:7 final size:7
Alignment explanation
Indices: 92565921--92565993 Score: 62
Period size: 7 Copynumber: 10.7 Consensus size: 7
92565911 ATGGCTTATA
*
92565921 TTTAGGG
1 TTTAGAG
*
92565928 TTTATAG
1 TTTAGAG
92565935 TTT-GAG
1 TTTAGAG
92565941 TTTA-AGG
1 TTTAGA-G
*
92565948 TTTATAG
1 TTTAGAG
*
92565955 TTTAGGG
1 TTTAGAG
92565962 TTTAGAG
1 TTTAGAG
*
92565969 TTTAGTG
1 TTTAGAG
92565976 TTT-GAG
1 TTTAGAG
*
92565982 TTTAGGG
1 TTTAGAG
92565989 TTTAG
1 TTTAG
92565994 GATTTGTTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
6 11 0.21
7 41 0.77
8 1 0.02
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (7 bp):
TTTAGAG
Found at i:92566010 original size:27 final size:27
Alignment explanation
Indices: 92565952--92566011 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
92565942 TTAAGGTTTA
*
92565952 TAGTTTAGGGTTTAGAGTTTAGTGTTT
1 TAGTTTAGGGTTTAGAGTTTAGTATTT
*
92565979 GAGTTTAGGGTTTAG-GATTT-GTTATTT
1 TAGTTTAGGGTTTAGAG-TTTAG-TATTT
92566006 TAGTTT
1 TAGTTT
92566012 TAAGGTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.53
Consensus pattern (27 bp):
TAGTTTAGGGTTTAGAGTTTAGTATTT
Found at i:92566102 original size:20 final size:20
Alignment explanation
Indices: 92566052--92566122 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
92566042 AATTATAGTA
*
92566052 TTTAAGGTTTATA-TTTAGGG
1 TTTAAGGTTTATAGTTT-GAG
* *
92566072 TTTATA-ATTTATAGTTTGTG
1 TTTA-AGGTTTATAGTTTGAG
92566092 TTTAAGGTTTAGT-GTTTGAG
1 TTTAAGGTTTA-TAGTTTGAG
92566112 TTT-AGGTTTAT
1 TTTAAGGTTTAT
92566123 GGGTTATGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 1 0.02
19 8 0.19
20 29 0.67
21 5 0.12
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (20 bp):
TTTAAGGTTTATAGTTTGAG
Found at i:92566153 original size:7 final size:7
Alignment explanation
Indices: 92566111--92566157 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
92566101 TAGTGTTTGA
92566111 GTTTA-G
1 GTTTATG
92566117 GTTTATG
1 GTTTATG
*
92566124 GGTTATG
1 GTTTATG
*
92566131 GTTTATA
1 GTTTATG
92566138 GTTTATG
1 GTTTATG
*
92566145 GTTTGTG
1 GTTTATG
92566152 GTTTAT
1 GTTTAT
92566158 ATATAGGTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
6 5 0.15
7 29 0.85
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.55
Consensus pattern (7 bp):
GTTTATG
Found at i:92566247 original size:13 final size:13
Alignment explanation
Indices: 92566226--92566260 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
92566216 TAGTTTAGGA
92566226 TATGATTAGGGTT
1 TATGATTAGGGTT
*
92566239 TATGCTTAGGGTT
1 TATGATTAGGGTT
92566252 TATGATTAG
1 TATGATTAG
92566261 TAATTTTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.23, C:0.03, G:0.29, T:0.46
Consensus pattern (13 bp):
TATGATTAGGGTT
Found at i:92566287 original size:13 final size:13
Alignment explanation
Indices: 92566052--92566287 Score: 54
Period size: 13 Copynumber: 17.3 Consensus size: 13
92566042 AATTATAGTA
* *
92566052 TTTAAGGTTTATA
1 TTTAGGGTTTATG
*
92566065 TTTAGGGTTTATAA
1 TTTAGGGTTTAT-G
** *
92566079 TTTATAGTTTGTG
1 TTTAGGGTTTATG
*
92566092 TTTAAGGTTTAGTG
1 TTTAGGGTTTA-TG
* *
92566106 TTT-GAGTTTAGG
1 TTTAGGGTTTATG
92566118 TTTATGGG-TTATGG
1 TTTA-GGGTTTAT-G
**
92566132 TTTATAGTTTATGG
1 TTTAGGGTTTAT-G
*
92566146 TTT-GTGGTTTATA
1 TTTAG-GGTTTATG
* *
92566159 TATAGGTTTTAGTG
1 TTTAGGGTTTA-TG
*
92566173 TTT-TGGTTTGAT-
1 TTTAGGGTTT-ATG
*
92566185 TTTAGGGTTTAATA
1 TTTAGGGTTT-ATG
*
92566199 TTTAGTGTTTGATG
1 TTTAGGGTTT-ATG
*
92566213 TTATAGTTTAGG-ATATG
1 TT-TAG----GGTTTATG
*
92566230 ATTAGGGTTTATG
1 TTTAGGGTTTATG
*
92566243 CTTAGGGTTTATG
1 TTTAGGGTTTATG
* **
92566256 ATTAGTAATTTTACT-
1 TTTAG--GGTTTA-TG
92566271 TTTAGGGTTTATG
1 TTTAGGGTTTATG
92566284 TTTA
1 TTTA
92566288 TAGTTTAGTA
Statistics
Matches: 161, Mismatches: 40, Indels: 44
0.66 0.16 0.18
Matches are distributed among these distances:
12 10 0.06
13 75 0.47
14 55 0.34
15 11 0.07
16 4 0.02
17 4 0.02
18 1 0.01
19 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.25, T:0.53
Consensus pattern (13 bp):
TTTAGGGTTTATG
Found at i:92566341 original size:21 final size:21
Alignment explanation
Indices: 92566311--92566350 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
92566301 GTGACCAGGG
*
92566311 TTTAGTATTTAAGG-TTTATTT
1 TTTAGGATTT-AGGATTTATTT
92566332 TTTAGGATTTAGGATTTAT
1 TTTAGGATTTAGGATTTAT
92566351 GATTTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.57
Consensus pattern (21 bp):
TTTAGGATTTAGGATTTATTT
Found at i:92566572 original size:7 final size:7
Alignment explanation
Indices: 92566560--92566791 Score: 139
Period size: 7 Copynumber: 33.9 Consensus size: 7
92566550 TTATACTTAG
92566560 GGTTTAA
1 GGTTTAA
92566567 GGTTTATA
1 GGTTTA-A
*
92566575 -ATTTAA
1 GGTTTAA
*
92566581 TGTTT-A
1 GGTTTAA
92566587 GGTTTAA
1 GGTTTAA
92566594 GGTTTAA
1 GGTTTAA
92566601 GGTTTAA
1 GGTTTAA
92566608 GGTTTAA
1 GGTTTAA
92566615 GGTTTATA
1 GGTTTA-A
*
92566623 -ATTTATA
1 GGTTTA-A
92566630 --TTTAA
1 GGTTTAA
*
92566635 CGTTTAA
1 GGTTTAA
92566642 GGTTT-A
1 GGTTTAA
* *
92566648 TGTTTAG
1 GGTTTAA
*
92566655 GGTTTAG
1 GGTTTAA
*
92566662 GGTTTAT
1 GGTTTAA
*
92566669 GGTTTAT
1 GGTTTAA
92566676 GGTTT-A
1 GGTTTAA
*
92566682 TGTTTAA
1 GGTTTAA
*
92566689 GGTATAA
1 GGTTTAA
92566696 GGTTTATA
1 GGTTTA-A
92566704 -GTTTATA
1 GGTTTA-A
*
92566711 -GTTTAG
1 GGTTTAA
92566717 GGTTTATA
1 GGTTTA-A
*
92566725 -GTTTAG
1 GGTTTAA
*
92566731 GGTTTAT
1 GGTTTAA
*
92566738 GATTCT-A
1 GGTT-TAA
*
92566745 GTTTTAA
1 GGTTTAA
*
92566752 GGTTTAT
1 GGTTTAA
92566759 GGTTTAA
1 GGTTTAA
92566766 GGTTTATA
1 GGTTTA-A
92566774 --TTTAA
1 GGTTTAA
*
92566779 GGTTTAG
1 GGTTTAA
92566786 GGTTTA
1 GGTTTA
92566792 TGATTTAATT
Statistics
Matches: 183, Mismatches: 25, Indels: 34
0.76 0.10 0.14
Matches are distributed among these distances:
5 2 0.01
6 24 0.13
7 152 0.83
8 5 0.03
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.50
Consensus pattern (7 bp):
GGTTTAA
Found at i:92566647 original size:20 final size:20
Alignment explanation
Indices: 92566433--92566799 Score: 112
Period size: 20 Copynumber: 18.2 Consensus size: 20
92566423 GAGTTTAAAG
* *
92566433 TTTAGGGTTTAAAGTTTA-A
1 TTTAAGGTTTAAGGTTTATA
* *
92566452 TCATAAGGTTTAAGATTTATA
1 T-TTAAGGTTTAAGGTTTATA
* * *
92566473 TTTAGGGTTTAAGATTTGTTA
1 TTTAAGGTTTAAGGTTT-ATA
* *
92566494 TTCT-AGTTTTAAGGTTTTAAGA
1 TT-TAAGGTTTAAGG-TTT-ATA
*
92566516 TTTAAGGTTT-AGG-ATATAA
1 TTTAAGGTTTAAGGTTTAT-A
*
92566535 TTCTAATGG-TT-AGGGTTATA
1 TT-TAA-GGTTTAAGGTTTATA
* *
92566555 CTTAGGGTTTAAGGTTTATAA
1 TTTAAGGTTTAAGGTTTAT-A
*
92566576 TTTAATGTTT-AGG------
1 TTTAAGGTTTAAGGTTTATA
92566589 TTTAAGGTTTAAGGTTTA-A
1 TTTAAGGTTTAAGGTTTATA
*
92566608 GGTTTAAGGTTTATA-ATTTATA
1 --TTTAAGGTTTA-AGGTTTATA
* *
92566630 TTTAACGTTTAAGGTTTATG
1 TTTAAGGTTTAAGGTTTATA
* *
92566650 TTTAGGGTTT-AGGGTT-TA
1 TTTAAGGTTTAAGGTTTATA
* *
92566668 --T--GGTTTATGGTTTATG
1 TTTAAGGTTTAAGGTTTATA
*
92566684 TTTAAGGTATAAGGTTTATA
1 TTTAAGGTTTAAGGTTTATA
*
92566704 GTTTATA-GTTTAGGGTTTATA
1 -TTTA-AGGTTTAAGGTTTATA
* * *
92566725 GTTTAGGGTTTATGATTCTAGTTTTAA
1 -TTTAAGGTTTAAGGTT-TA----T-A
*
92566752 GGTTTATGGTTTAAGGTTTATA
1 --TTTAAGGTTTAAGGTTTATA
*
92566774 TTTAAGGTTTAGGGTTTATGA
1 TTTAAGGTTTAAGGTTTAT-A
92566795 TTTAA
1 TTTAA
92566800 TTGTAAGGTT
Statistics
Matches: 259, Mismatches: 48, Indels: 80
0.67 0.12 0.21
Matches are distributed among these distances:
13 9 0.03
14 8 0.03
15 4 0.02
16 2 0.01
18 5 0.02
19 15 0.06
20 99 0.38
21 80 0.31
22 18 0.07
23 1 0.00
26 1 0.00
27 3 0.01
28 14 0.05
ACGTcount: A:0.27, C:0.02, G:0.23, T:0.49
Consensus pattern (20 bp):
TTTAAGGTTTAAGGTTTATA
Found at i:92566799 original size:34 final size:34
Alignment explanation
Indices: 92566589--92566799 Score: 134
Period size: 34 Copynumber: 6.1 Consensus size: 34
92566579 AATGTTTAGG
*
92566589 TTTAAGGTTTA-AGGTTTAAGGTTTAAGGTTTATAA
1 TTTAAGGTTTATA-GTTTAAGGTTT-AGGTTTATGA
* * *
92566624 TTTATA--TTTA-ACGTTTAAGGTTTATGTTTAGGG
1 TTTA-AGGTTTATA-GTTTAAGGTTTAGGTTTATGA
* * * * * *
92566657 TTTAGGGTTTATGGTTTATGGTTTATGTTTAAGG
1 TTTAAGGTTTATAGTTTAAGGTTTAGGTTTATGA
*
92566691 TATAAGGTTTATAGTTTATA-GTTTAGGGTTTAT-A
1 TTTAAGGTTTATAGTTTA-AGGTTTA-GGTTTATGA
* * *
92566725 GTTTAGGGTTTAT-GATTCT-AGTTTTAAGGTTTATGG
1 -TTTAAGGTTTATAG-TT-TAAGGTTT-AGGTTTATGA
92566761 TTTAAGGTTTATA-TTTAAGGTTTAGGGTTTATGA
1 TTTAAGGTTTATAGTTTAAGGTTTA-GGTTTATGA
92566795 TTTAA
1 TTTAA
92566800 TTGTAAGGTT
Statistics
Matches: 138, Mismatches: 23, Indels: 31
0.72 0.12 0.16
Matches are distributed among these distances:
33 12 0.09
34 81 0.59
35 42 0.30
36 3 0.02
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.50
Consensus pattern (34 bp):
TTTAAGGTTTATAGTTTAAGGTTTAGGTTTATGA
Found at i:92566816 original size:27 final size:26
Alignment explanation
Indices: 92566560--92566828 Score: 143
Period size: 27 Copynumber: 9.9 Consensus size: 26
92566550 TTATACTTAG
* * *
92566560 GGTTTAAGGTTTATAATTTAATGTTTA
1 GGTTTATGGTTTATGATTTAAT-TTAA
* * *
92566587 GGTTTAAGGTTTAAGGTTTAAGGTTTAA
1 GGTTTATGGTTTATGATTTAA--TTTAA
**
92566615 GGTTTATAATTTAT-ATTTAACGTTTAA
1 GGTTTATGGTTTATGATTTAA--TTTAA
* * * *
92566642 GGTTTAT-GTTTAGGGTTTAGGGTTTAT
1 GGTTTATGGTTTATGATTTA--ATTTAA
*
92566669 GGTTTATGGTTTATG-TTTAAGGTATAA
1 GGTTTATGGTTTATGATTTAA--TTTAA
* *
92566696 GGTTTATAGTTTAT-AGTTTAGGGTTTATA
1 GGTTTATGGTTTATGA-TTTA--ATTTA-A
* *
92566725 -GTTTAGGGTTTATGATTCTAGTTTTAA
1 GGTTTATGGTTTATGATT-TA-ATTTAA
* *
92566752 GGTTTATGGTTTAAGGTTTATATTTAA
1 GGTTTATGGTTTATGATTTA-ATTTAA
*
92566779 GGTTTAGGGTTTATGATTTAATTGTAA
1 GGTTTATGGTTTATGATTTAATT-TAA
* * *
92566806 GGTTTTTGGTTTGTGATTCAATT
1 GGTTTATGGTTTATGATTTAATT
92566829 AAATATCATT
Statistics
Matches: 188, Mismatches: 37, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
26 7 0.04
27 118 0.63
28 58 0.31
29 5 0.03
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.51
Consensus pattern (26 bp):
GGTTTATGGTTTATGATTTAATTTAA
Found at i:92567456 original size:3 final size:3
Alignment explanation
Indices: 92567448--92567506 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
92567438 TTCCATTTTC
* *
92567448 TCT TCT TCT TCT T-T TCT TCT TCT TCT CCA T-T TCT TC- TCT TCT T-T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
92567492 TTT TGT TCT TCT TCT
1 TCT TCT TCT TCT TCT
92567507 ATTGCCCAGG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 7 0.15
3 39 0.85
ACGTcount: A:0.02, C:0.29, G:0.02, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:92567464 original size:11 final size:11
Alignment explanation
Indices: 92567445--92567504 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
92567435 TACTTCCATT
*
92567445 TTCTCTTCTTC
1 TTCTTTTCTTC
92567456 TTCTTTTCTTC
1 TTCTTTTCTTC
* *
92567467 TTCTTCTCCAT-
1 TTCTT-TTCTTC
*
92567478 TTCTTCTCTTC
1 TTCTTTTCTTC
* *
92567489 TTTTTTTGTTC
1 TTCTTTTCTTC
92567500 TTCTT
1 TTCTT
92567505 CTATTGCCCA
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
10 2 0.05
11 32 0.86
12 3 0.08
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.68
Consensus pattern (11 bp):
TTCTTTTCTTC
Found at i:92567467 original size:14 final size:14
Alignment explanation
Indices: 92567448--92567504 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
92567438 TTCCATTTTC
92567448 TCTTCTTCTTCTTT
1 TCTTCTTCTTCTTT
92567462 TCTTCTTCTTCTCCATT
1 TCTTCTTCTTCT---TT
92567479 TCTTC-TCTTCTTT
1 TCTTCTTCTTCTTT
* *
92567492 TTTTGTTCTTCTT
1 TCTTCTTCTTCTT
92567505 CTATTGCCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 5 0.14
14 19 0.51
16 6 0.16
17 7 0.19
ACGTcount: A:0.02, C:0.28, G:0.02, T:0.68
Consensus pattern (14 bp):
TCTTCTTCTTCTTT
Found at i:92570454 original size:15 final size:15
Alignment explanation
Indices: 92570425--92570470 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
92570415 GAAATGAATG
*
92570425 AAGTTTTGCTCAATTT
1 AAGTTTGGCT-AATTT
*
92570441 AAGTTTGGCTAATTC
1 AAGTTTGGCTAATTT
*
92570456 AAGTTTGGTTAATTT
1 AAGTTTGGCTAATTT
92570471 TGGTCCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (15 bp):
AAGTTTGGCTAATTT
Found at i:92582419 original size:64 final size:63
Alignment explanation
Indices: 92582317--92582435 Score: 202
Period size: 64 Copynumber: 1.9 Consensus size: 63
92582307 TTTACTAATA
*
92582317 CTAAAACTGCAGTTAGTCTTCACAGCAACATACGTACGAAAAAGTGCCTGGCAACCCAACCTAT
1 CTAAAACTGCAGTTAGTCTTCACAGCAACATACATACG-AAAAGTGCCTGGCAACCCAACCTAT
* *
92582381 CTAAAAGTGCAGTTAGTCTTCACAGCAACATACATACGAAAAGTGTCTGGCAACC
1 CTAAAACTGCAGTTAGTCTTCACAGCAACATACATACGAAAAGTGCCTGGCAACC
92582436 ACCACCGATA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
63 16 0.31
64 36 0.69
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (63 bp):
CTAAAACTGCAGTTAGTCTTCACAGCAACATACATACGAAAAGTGCCTGGCAACCCAACCTAT
Found at i:92588798 original size:52 final size:51
Alignment explanation
Indices: 92588736--92588840 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 51
92588726 AACTGAAATC
92588736 CAACCTAAGCAATCCATGCAATAATTCCAAAATATCATAAAGGAAAAATTCT
1 CAACCTAAGCAATCCATGCAATAATTCCAAAATATCATAAAGG-AAAATTCT
92588788 CAACCTAAGCAATCCATGCAATAATTCCAAAATATCATAAAGGAAAATTCT
1 CAACCTAAGCAATCCATGCAATAATTCCAAAATATCATAAAGGAAAATTCT
92588839 CA
1 CA
92588841 CGCCACAGTC
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 10 0.19
52 43 0.81
ACGTcount: A:0.48, C:0.22, G:0.08, T:0.23
Consensus pattern (51 bp):
CAACCTAAGCAATCCATGCAATAATTCCAAAATATCATAAAGGAAAATTCT
Found at i:92590735 original size:15 final size:18
Alignment explanation
Indices: 92590705--92590742 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
92590695 TTTGTTTGTT
92590705 AAAAAGGAGATAAAAT-A
1 AAAAAGGAGATAAAATGA
92590722 AAAAAGGA-AT-AAATGA
1 AAAAAGGAGATAAAATGA
92590738 AAAAA
1 AAAAA
92590743 ATGAGAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 8 0.40
17 8 0.40
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (18 bp):
AAAAAGGAGATAAAATGA
Found at i:92601491 original size:40 final size:40
Alignment explanation
Indices: 92601446--92601526 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
92601436 ATTATGCTTG
* * *
92601446 AAAAAAAGAAAATCAAGATGAAAACTCGAAAAGGGCATCTT
1 AAAAAAA-AGAATCAAGATGAAAACCCAAAAAGGGCATCTT
* *
92601487 AAAAAAAAGGATCAAGGTGAAAACCCAAAAAGGGCATCTT
1 AAAAAAAAGAATCAAGATGAAAACCCAAAAAGGGCATCTT
92601527 GATTAACACA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 28 0.80
41 7 0.20
ACGTcount: A:0.54, C:0.14, G:0.19, T:0.14
Consensus pattern (40 bp):
AAAAAAAAGAATCAAGATGAAAACCCAAAAAGGGCATCTT
Found at i:92602650 original size:88 final size:88
Alignment explanation
Indices: 92602361--92602682 Score: 461
Period size: 86 Copynumber: 3.6 Consensus size: 88
92602351 TCTGTTCGTC
* * **
92602361 AAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTATTTCCAATGTTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATGTTG
92602426 GCTTTTCAATTTTGCTTTTC--A
66 GCTTTTCAATTTTGCTTTTCAAA
* *
92602447 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTTAATGTTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATGTTG
92602512 GCTTTTCAATTTCTGCTTTTCAAA
66 GCTTTTCAATTT-TGCTTTTCAAA
* * * **
92602536 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATTAGGACACACTGAGGTATTTTAAATCCT-
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATGTTG
* *
92602600 GTTTTTCAATTTATGTTTTTCAAA
66 GCTTTTCAATTT-TGCTTTTCAAA
*
92602624 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTT
92602683 TAGCTTCTGC
Statistics
Matches: 212, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
86 72 0.34
87 8 0.04
88 58 0.27
89 58 0.27
90 16 0.08
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (88 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAAATGTTG
GCTTTTCAATTTTGCTTTTCAAA
Found at i:92602833 original size:77 final size:77
Alignment explanation
Indices: 92602613--92602837 Score: 360
Period size: 78 Copynumber: 2.9 Consensus size: 77
92602603 TTTCAATTTA
92602613 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
1 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
92602678 ATTTTTAGCTTC
66 ATTTTTAGCTTC
* * * * *
92602690 TGCTTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCATCGGGTCACACACTAAGG
1 TGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGG
*
92602755 TATTTTTAGTTTC
65 TATTTTTAGCTTC
* * *
92602768 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGGTGAGGT
1 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
92602833 ATTTT
66 ATTTT
92602838 CAAAATCTAT
Statistics
Matches: 133, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
77 62 0.47
78 71 0.53
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (77 bp):
TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
ATTTTTAGCTTC
Found at i:92602851 original size:77 final size:77
Alignment explanation
Indices: 92602613--92602855 Score: 351
Period size: 77 Copynumber: 3.1 Consensus size: 77
92602603 TTTCAATTTA
92602613 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
1 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
*
92602678 ATTTTTAGCTTC
66 ATTTTTAGATTC
* * * * *
92602690 TGCTTTTCAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCATCGGGTCACACACTAAGG
1 TGTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGG
*
92602755 TATTTTTAGTTTC
65 TATTTTTAGATTC
* * *
92602768 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGGTGAGGT
1 TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
* * *
92602833 ATTTTCAAAATC
66 ATTTTTAGATTC
*
92602845 TATTTTTCAAA
1 TGTTTTTCAAA
92602856 TTAAGTTTCA
Statistics
Matches: 146, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
77 75 0.51
78 71 0.49
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (77 bp):
TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGT
ATTTTTAGATTC
Found at i:92603666 original size:14 final size:14
Alignment explanation
Indices: 92603647--92603673 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
92603637 ACCCTAGCTC
92603647 CCCACTTGCCTCTT
1 CCCACTTGCCTCTT
92603661 CCCACTTGCCTCT
1 CCCACTTGCCTCT
92603674 GCCACCACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.52, G:0.07, T:0.33
Consensus pattern (14 bp):
CCCACTTGCCTCTT
Found at i:92604066 original size:15 final size:15
Alignment explanation
Indices: 92604032--92604086 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
92604022 TTTTACACAC
92604032 ATATATAAAAATACTAA
1 ATATATAAAAATA-T-A
92604049 ATATATAAAAATATA
1 ATATATAAAAATATA
* *
92604064 ATACAAAAAAATAATA
1 ATATATAAAAAT-ATA
92604080 ATA-ATAA
1 ATATATAA
92604087 TAATTTTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 14 0.41
16 7 0.21
17 13 0.38
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (15 bp):
ATATATAAAAATATA
Found at i:92604831 original size:22 final size:22
Alignment explanation
Indices: 92604798--92604840 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
92604788 GTTTCAATTA
92604798 ATACTTATATATATATGTATAT
1 ATACTTATATATATATGTATAT
*
92604820 ATACTT-TCATATATATTTATA
1 ATACTTAT-ATATATATGTATA
92604841 GTTTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (22 bp):
ATACTTATATATATATGTATAT
Found at i:92605084 original size:26 final size:27
Alignment explanation
Indices: 92605028--92605085 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
92605018 ATTATGTACA
* * *
92605028 TTTTTAATACTATATTGTATTTTTATT
1 TTTTTAATACTATATTGTATGTATATG
* *
92605055 TTTTTAATA-TATGTTGTGTGTATATG
1 TTTTTAATACTATATTGTATGTATATG
92605081 TTTTT
1 TTTTT
92605086 TTTAATATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.66
Consensus pattern (27 bp):
TTTTTAATACTATATTGTATGTATATG
Found at i:92605084 original size:27 final size:27
Alignment explanation
Indices: 92605028--92605086 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
92605018 ATTATGTACA
* *
92605028 TTTTTAATACTATATTGTATTTTTATT
1 TTTTTAATACTATATTGTATGTATATT
* *
92605055 TTTTTAATA-TATGTTGTGTGTATATGT
1 TTTTTAATACTATATTGTATGTATAT-T
92605082 TTTTT
1 TTTTT
92605087 TTAATATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.66
Consensus pattern (27 bp):
TTTTTAATACTATATTGTATGTATATT
Found at i:92605198 original size:19 final size:19
Alignment explanation
Indices: 92605161--92605199 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
92605151 TACTATTTTA
*
92605161 TGTATATTTCTAATATCAT
1 TGTATATTTCTAACATCAT
*
92605180 TGTATATTTCTAACCTCAT
1 TGTATATTTCTAACATCAT
92605199 T
1 T
92605200 ATTATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.51
Consensus pattern (19 bp):
TGTATATTTCTAACATCAT
Found at i:92605689 original size:36 final size:31
Alignment explanation
Indices: 92605620--92605708 Score: 92
Period size: 36 Copynumber: 2.8 Consensus size: 31
92605610 ACATATATAC
92605620 ATATTTATTA-ATATATTGT-TATGTCATTA
1 ATATTTATTATATATATTGTGTATGTCATTA
* *
92605649 ATATTTATAATATATATTGTGTATGTTCATTTTC
1 ATATTTATTATATATATTGTGTATG-TCA--TTA
*
92605683 ATATATTATGTATATATATTATGTAT
1 ATAT-TTAT-TATATATATTGTGTAT
92605709 ATATTTTAGT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
29 9 0.18
30 9 0.18
31 4 0.08
32 3 0.06
34 6 0.12
35 4 0.08
36 14 0.29
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (31 bp):
ATATTTATTATATATATTGTGTATGTCATTA
Found at i:92605701 original size:13 final size:13
Alignment explanation
Indices: 92605683--92605712 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
92605673 GTTCATTTTC
92605683 ATATATTATGTAT
1 ATATATTATGTAT
92605696 ATATATTATGTAT
1 ATATATTATGTAT
92605709 ATAT
1 ATAT
92605713 TTTAGTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (13 bp):
ATATATTATGTAT
Found at i:92605779 original size:12 final size:12
Alignment explanation
Indices: 92605764--92605788 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92605754 ATATACTTTA
92605764 ATATATATATCT
1 ATATATATATCT
92605776 ATATATATATCT
1 ATATATATATCT
92605788 A
1 A
92605789 GCATTATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATATATATCT
Found at i:92609282 original size:45 final size:45
Alignment explanation
Indices: 92609231--92609317 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
92609221 ATCAATGCCT
* * *
92609231 AAAATGAGTAAGACCATATCTAAAAGATGTTATGACATCATGATA
1 AAAATGAGTAAGACCATAGCTAAAAGACGCTATGACATCATGATA
* * *
92609276 AAAATGAGTAAGACTATAGCTGAAAGACGCTATGGCATCATG
1 AAAATGAGTAAGACCATAGCTAAAAGACGCTATGACATCATG
92609318 TGAAAACACG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.44, C:0.13, G:0.20, T:0.24
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTAAAAGACGCTATGACATCATGATA
Found at i:92623746 original size:6 final size:6
Alignment explanation
Indices: 92623737--92623819 Score: 123
Period size: 6 Copynumber: 13.8 Consensus size: 6
92623727 AGCATTAGCA
* *
92623737 TCAGCT TCAGCT TCAGCA TCAGCT TCAGCT TCAGCA TCAGCT TCAGCT
1 TCAGCT TCAGCT TCAGCT TCAGCT TCAGCT TCAGCT TCAGCT TCAGCT
*
92623785 TCAGAAT T-AGCT TCAGCT TCAGCT TCAGCT TCAGC
1 TCAG-CT TCAGCT TCAGCT TCAGCT TCAGCT TCAGC
92623820 ATTAGCATCA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
5 2 0.03
6 65 0.94
7 2 0.03
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.30
Consensus pattern (6 bp):
TCAGCT
Found at i:92623754 original size:18 final size:18
Alignment explanation
Indices: 92623733--92623829 Score: 151
Period size: 18 Copynumber: 5.4 Consensus size: 18
92623723 CATTAGCATT
92623733 AGCATCAGCTTCAGCTTC
1 AGCATCAGCTTCAGCTTC
92623751 AGCATCAGCTTCAGCTTC
1 AGCATCAGCTTCAGCTTC
92623769 AGCATCAGCTTCAGCTTC
1 AGCATCAGCTTCAGCTTC
* *
92623787 AGAATTAGCTTCAGCTTC
1 AGCATCAGCTTCAGCTTC
*
92623805 AGCTTCAGCTTCAGCATT-
1 AGCATCAGCTTCAGC-TTC
92623823 AGCATCA
1 AGCATCA
92623830 CCATCATCAT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
18 70 0.97
19 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (18 bp):
AGCATCAGCTTCAGCTTC
Found at i:92626711 original size:188 final size:190
Alignment explanation
Indices: 92626392--92626756 Score: 628
Period size: 188 Copynumber: 1.9 Consensus size: 190
92626382 ATTCTTCACG
* *
92626392 CACACACGCACACACGCAATCTTGTTTTGCTAAAACATTTTGATAAGCCAAATGTAAGCAGAACC
1 CACACACACACACACACAATCTTGTTTTGCTAAAACATTTTGATAAGCCAAATGTAAGCAGAACC
92626457 TTGAAATGTTTAGCACAAACTCACAGGGAAATACAAATGCAAATCTAATGAAACAAGTTGATCAA
66 TTGAAATGTTTAGCACAAACTCACAGGGAAATACAAATGCAAATCTAATGAAACAAGTTGATCAA
* *
92626522 ACCAGACGTTTTATAGAAAAAA-AA-AGGTCCCAAAGATCAAGTCCAGAGTCCAGACATA
131 ACCAAACGTTTTATAGAAAAAAGAACAGGTCCCAAAGATCAAATCCAGAGTCCAGACATA
* * *
92626580 CACACACACACACACACAATCTTGTTTTGCTAAACCATTTTGCTAAGCCAAATGTAAGTAGAACC
1 CACACACACACACACACAATCTTGTTTTGCTAAAACATTTTGATAAGCCAAATGTAAGCAGAACC
92626645 TTGAAATGTTTAGCACAAACTCACAGGGAAATACAAATGCAAATCTAATGAAACAAGCTT-ATCA
66 TTGAAATGTTTAGCACAAACTCACAGGGAAATACAAATGCAAATCTAATGAAACAAG-TTGATCA
*
92626709 AACCAAAGGTTTTATAGAAAAAAGAACAGGTCCCAAAGATCAAATCCA
130 AACCAAACGTTTTATAGAAAAAAGAACAGGTCCCAAAGATCAAATCCA
92626757 CCAAAAAAAG
Statistics
Matches: 166, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
188 142 0.86
189 4 0.02
190 20 0.12
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.22
Consensus pattern (190 bp):
CACACACACACACACACAATCTTGTTTTGCTAAAACATTTTGATAAGCCAAATGTAAGCAGAACC
TTGAAATGTTTAGCACAAACTCACAGGGAAATACAAATGCAAATCTAATGAAACAAGTTGATCAA
ACCAAACGTTTTATAGAAAAAAGAACAGGTCCCAAAGATCAAATCCAGAGTCCAGACATA
Found at i:92627884 original size:14 final size:15
Alignment explanation
Indices: 92627865--92627893 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
92627855 TGATACAATT
92627865 AGAAAATTCA-AGAG
1 AGAAAATTCACAGAG
92627879 AGAAAATTCACAGAG
1 AGAAAATTCACAGAG
92627894 TAAAAAGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.10, G:0.21, T:0.14
Consensus pattern (15 bp):
AGAAAATTCACAGAG
Found at i:92632721 original size:9 final size:9
Alignment explanation
Indices: 92632707--92632781 Score: 96
Period size: 9 Copynumber: 8.3 Consensus size: 9
92632697 ATAAGTATAA
92632707 AATTAACCG
1 AATTAACCG
*
92632716 AATTAATCG
1 AATTAACCG
92632725 AATTAACCG
1 AATTAACCG
* *
92632734 AATTACCCA
1 AATTAACCG
* *
92632743 AATTACCCA
1 AATTAACCG
92632752 AATTAACCG
1 AATTAACCG
92632761 AATTAACCG
1 AATTAACCG
*
92632770 AATTAATCG
1 AATTAACCG
92632779 AAT
1 AAT
92632782 AAATTTATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.45, C:0.21, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:92632809 original size:5 final size:6
Alignment explanation
Indices: 92632794--92632834 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
92632784 ATTTATATGT
*
92632794 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
92632835 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:92635179 original size:26 final size:26
Alignment explanation
Indices: 92635140--92635198 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
92635130 CTATAACGCA
* *
92635140 ATCTCACCTTGCAACACCACCTTGCG
1 ATCTCACCTCGCAACACCACATTGCG
**
92635166 ATCTCACCTCGCAACACTGCATTGCG
1 ATCTCACCTCGCAACACCACATTGCG
92635192 ATCTCAC
1 ATCTCAC
92635199 GTTGCAGTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.24, C:0.41, G:0.12, T:0.24
Consensus pattern (26 bp):
ATCTCACCTCGCAACACCACATTGCG
Found at i:92639604 original size:17 final size:17
Alignment explanation
Indices: 92639582--92639623 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
92639572 TTGACAGGGT
*
92639582 AAAGAGAAAATAGAGGA
1 AAAGAGAAAATAGAGAA
*
92639599 AAAGAGAAAATCGAGAA
1 AAAGAGAAAATAGAGAA
92639616 AAAG-GAAA
1 AAAGAGAAA
92639624 TACTGAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.67, C:0.02, G:0.26, T:0.05
Consensus pattern (17 bp):
AAAGAGAAAATAGAGAA
Found at i:92643020 original size:22 final size:22
Alignment explanation
Indices: 92642995--92643036 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
92642985 TCAAAACTAT
*
92642995 TACCCATGTCGCGAA-ACCAATA
1 TACCAATGTCGC-AACACCAATA
92643017 TACCAATGTCGCAACACCAA
1 TACCAATGTCGCAACACCAA
92643037 AGACAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.38, C:0.33, G:0.12, T:0.17
Consensus pattern (22 bp):
TACCAATGTCGCAACACCAATA
Found at i:92644314 original size:20 final size:21
Alignment explanation
Indices: 92644277--92644315 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
92644267 TGCGAAAGGC
* *
92644277 ATATTTTATTATTGTAACTAA
1 ATATTTAATAATTGTAACTAA
92644298 ATATTTAATAATT-TAACT
1 ATATTTAATAATTGTAACT
92644316 GAGATGATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (21 bp):
ATATTTAATAATTGTAACTAA
Found at i:92652836 original size:20 final size:19
Alignment explanation
Indices: 92652813--92652862 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
92652803 AATATCCAAT
92652813 GATTTACCAATATTTCTAAG
1 GATTTACCAATATTTCT-AG
*
92652833 GATTTAACAATATTTCTAG
1 GATTTACCAATATTTCTAG
92652852 GACTTTACCAA
1 GA-TTTACCAA
92652863 AATATTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
GATTTACCAATATTTCTAG
Found at i:92653079 original size:25 final size:25
Alignment explanation
Indices: 92653051--92653101 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
92653041 TGTACCAAAG
92653051 TAAGTGTTGGCTTTCCCTGGTTTCA
1 TAAGTGTTGGCTTTCCCTGGTTTCA
92653076 TAAGTGTTGGCTTTCCCTGGTTTCA
1 TAAGTGTTGGCTTTCCCTGGTTTCA
92653101 T
1 T
92653102 TTCTTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.12, C:0.20, G:0.24, T:0.45
Consensus pattern (25 bp):
TAAGTGTTGGCTTTCCCTGGTTTCA
Found at i:92658748 original size:22 final size:22
Alignment explanation
Indices: 92658708--92658750 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
92658698 TAAATTATTA
*
92658708 ATATAATTTTATAATTGAGTTT
1 ATATAATTTTATAAATGAGTTT
92658730 ATATATATTTT-TAAATGAGTT
1 ATATA-ATTTTATAAATGAGTT
92658751 AGTGGTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (22 bp):
ATATAATTTTATAAATGAGTTT
Found at i:92658947 original size:6 final size:6
Alignment explanation
Indices: 92658936--92658960 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
92658926 CTATGTTTTT
92658936 ATATAA ATATAA ATATAA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA A
92658961 AACAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAA
Found at i:92658948 original size:23 final size:24
Alignment explanation
Indices: 92658904--92658948 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
92658894 GTAAAGTTTG
* * *
92658904 ATGTTTTTATTTTGAATTTAAACT
1 ATGTTTTTATTATAAATATAAACT
92658928 ATGTTTTTA-TATAAATATAAA
1 ATGTTTTTATTATAAATATAAA
92658949 TATAAATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (24 bp):
ATGTTTTTATTATAAATATAAACT
Found at i:92666610 original size:34 final size:34
Alignment explanation
Indices: 92666567--92666636 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
92666557 GAACTAAGCC
*
92666567 TTAGACTTAGTGTTGTCGAAGGTGCACTGTGCTG
1 TTAGACTTAGTGCTGTCGAAGGTGCACTGTGCTG
92666601 TTAGACTTAGTGCTGTCGAAGGTGCACTGTGCTG
1 TTAGACTTAGTGCTGTCGAAGGTGCACTGTGCTG
92666635 TT
1 TT
92666637 TTGGCTAGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.17, C:0.16, G:0.31, T:0.36
Consensus pattern (34 bp):
TTAGACTTAGTGCTGTCGAAGGTGCACTGTGCTG
Found at i:92671328 original size:20 final size:21
Alignment explanation
Indices: 92671303--92671363 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 21
92671293 TGTTGTGTGT
92671303 AATTACACAAAATATTATC-C-
1 AATTACACAAAATATTA-CACG
*
92671323 AATTACACAAATTATTACAACG
1 AATTACACAAAATATTAC-ACG
*
92671345 AATTACACAAAACATTACA
1 AATTACACAAAATATTACA
92671364 AATTATTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 1 0.03
20 16 0.46
21 2 0.06
22 16 0.46
ACGTcount: A:0.52, C:0.20, G:0.02, T:0.26
Consensus pattern (21 bp):
AATTACACAAAATATTACACG
Done.