Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168479.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_78, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 117733
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.41
Warning! 1000 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:39552 original size:17 final size:16
Alignment explanation
Indices: 39510--39553 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 16
39500 TGTTAATTAA
39510 AAATAAATTTTATTATT
1 AAAT-AATTTTATTATT
39527 AGTAATAATTTTATATATT
1 A--AATAATTTTAT-TATT
39546 AAATAATT
1 AAATAATT
39554 AAACTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 8 0.33
18 8 0.33
19 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
AAATAATTTTATTATT
Found at i:39736 original size:19 final size:18
Alignment explanation
Indices: 39696--39756 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 18
39686 ATATAAGTTA
* *
39696 TTATAATACTTAAATTAAT
1 TTATAATAATTTAA-TAAT
39715 TTATAATAATTTAATAAT
1 TTATAATAATTTAATAAT
* *
39733 TT-TAAAAATTT-AGAAT
1 TTATAATAATTTAATAAT
39749 TTATAATA
1 TTATAATA
39757 TATAATATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 6 0.17
17 12 0.33
18 6 0.17
19 12 0.33
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (18 bp):
TTATAATAATTTAATAAT
Found at i:40492 original size:13 final size:14
Alignment explanation
Indices: 40462--40494 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
40452 GAAATATTAT
40462 TAATATTATCTAATA
1 TAAT-TTATCTAATA
40477 TAATTTATCT-ATA
1 TAATTTATCTAATA
40490 TAATT
1 TAATT
40495 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 6 0.33
15 4 0.22
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTTATCTAATA
Found at i:40853 original size:17 final size:18
Alignment explanation
Indices: 40818--40856 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
40808 TTAATATAAA
*
40818 TATAATATATTTAAGTAT
1 TATAATATATTTAAATAT
40836 TATAATATA-TTAAATAT
1 TATAATATATTTAAATAT
40853 TATA
1 TATA
40857 TTTAATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TATAATATATTTAAATAT
Found at i:40864 original size:17 final size:17
Alignment explanation
Indices: 40773--40865 Score: 50
Period size: 17 Copynumber: 5.4 Consensus size: 17
40763 ATTGAATAAA
* *
40773 AATTAATTA-TATATCT
1 AATTAAATATTATATAT
*
40789 AATTATAATAATTATATTGTT
1 AATTA-AAT-ATTATA-T-AT
40810 AATATAAATA-TA-ATAT
1 AAT-TAAATATTATATAT
* *
40826 ATTTAAGTATTATA-AT
1 AATTAAATATTATATAT
*
40842 ATATTAAATATTATATTT
1 A-ATTAAATATTATATAT
40860 AATTAA
1 AATTAA
40866 TACAATCAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
15 5 0.08
16 13 0.22
17 20 0.34
18 4 0.07
19 6 0.10
20 2 0.03
21 7 0.12
22 2 0.03
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (17 bp):
AATTAAATATTATATAT
Found at i:41543 original size:26 final size:27
Alignment explanation
Indices: 41492--41549 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
41482 CATTTTATTT
*
41492 TATTTTGTATTTTATTTTATTTTTATA
1 TATTTTGTATTTTATTTTATTCTTATA
* *
41519 TATTTT-TCTTTTATTTT-TATCTTATG
1 TATTTTGTATTTTATTTTAT-TCTTATA
41545 TATTT
1 TATTT
41550 ATATTTATCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 1 0.04
26 20 0.74
27 6 0.22
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.74
Consensus pattern (27 bp):
TATTTTGTATTTTATTTTATTCTTATA
Found at i:41572 original size:21 final size:21
Alignment explanation
Indices: 41548--41627 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 21
41538 TCTTATGTAT
41548 TTATATTTATCTGATTATATA
1 TTATATTTATCTGATTATATA
*
41569 TTATAATTTATCT-ATTATTTA
1 TTAT-ATTTATCTGATTATATA
* *
41590 TTTTTAGTTATCTG-TTA-ATA
1 -TTATATTTATCTGATTATATA
*
41610 TTTTATTTATCTGATTAT
1 TTATATTTATCTGATTAT
41628 TTTTTTTTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
19 12 0.24
20 5 0.10
21 21 0.43
22 11 0.22
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (21 bp):
TTATATTTATCTGATTATATA
Found at i:41601 original size:43 final size:42
Alignment explanation
Indices: 41540--41654 Score: 119
Period size: 42 Copynumber: 2.7 Consensus size: 42
41530 TATTTTTATC
* * *
41540 TTATGTATTTATATTTATCTGATTATATATTATAATTTATCT-A
1 TTATTTATTTTTAATTATCTGATTA-ATATT-TAATTTATCTGA
* *
41583 TTATTTATTTTTAGTTATCTG-TTAATATTTTATTTATCTGA
1 TTATTTATTTTTAATTATCTGATTAATATTTAATTTATCTGA
* *
41624 TTATTTTTTTTTTAATTATCT-ATTAACATTT
1 TTA-TTTATTTTTAATTATCTGATTAATATTT
41655 TTTATTTTCT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
40 9 0.15
41 9 0.15
42 26 0.42
43 18 0.29
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (42 bp):
TTATTTATTTTTAATTATCTGATTAATATTTAATTTATCTGA
Found at i:42478 original size:20 final size:20
Alignment explanation
Indices: 42437--42492 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
42427 TTTTTTCATT
*
42437 TTATTTTTTTA-TAT-ATTA
1 TTATTTATTTATTATGATTA
42455 -TATTTATTTATTATGATTA
1 TTATTTATTTATTATGATTA
*
42474 TTATTTATTAATTA-GATTA
1 TTATTTATTTATTATGATTA
42493 GAATTGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 9 0.27
18 3 0.09
19 9 0.27
20 12 0.36
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (20 bp):
TTATTTATTTATTATGATTA
Found at i:42649 original size:46 final size:44
Alignment explanation
Indices: 42596--42685 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 44
42586 AAAAGTTGAA
* **
42596 AGTATCAATTTTCCTTGGAAATAAGCTTTCTAAAAAAATATTTTTG
1 AGTATCAATTTTCCATAAAAATAAGCTTTC--AAAAAATATTTTTG
*
42642 AGTATCAATTTTCCATAAAAATAAGCTTTCCAAAAATATTTTTG
1 AGTATCAATTTTCCATAAAAATAAGCTTTCAAAAAATATTTTTG
42686 GGGAAAAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 13 0.32
46 27 0.68
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.40
Consensus pattern (44 bp):
AGTATCAATTTTCCATAAAAATAAGCTTTCAAAAAATATTTTTG
Found at i:42711 original size:56 final size:54
Alignment explanation
Indices: 42642--42823 Score: 195
Period size: 57 Copynumber: 3.2 Consensus size: 54
42632 AATATTTTTG
*
42642 AGTATCAATTTTCCATAAAAATAAGCTTTCCAAAAATATTTTTGGGGAAAAGTTAAA
1 AGTATCAATTTTCC-TAAAAATAAG-TTTCCAAAAA-ATTTTTGGGAAAAAGTTAAA
* * * *
42699 AG-ATCAAATTTCCTTAAAAATAAGTTTTCAAAACGGATTTTTGAGAAAAAGTTAAA
1 AGTATCAATTTTCC-TAAAAATAAGTTTCCAAAA--AATTTTTGGGAAAAAGTTAAA
* * * *
42755 AGTATCAATTTTCCTCGAAATTAAAGTTTCTAAAAAATATTTTGGGAAAAAGTTGAA
1 AGTATCAATTTTCCT-AAAAAT-AAGTTTCCAAAAAAT-TTTTGGGAAAAAGTTAAA
42812 AGTATCAATTTT
1 AGTATCAATTTT
42824 TCCTGCACAA
Statistics
Matches: 105, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
55 8 0.08
56 43 0.41
57 44 0.42
58 10 0.10
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (54 bp):
AGTATCAATTTTCCTAAAAATAAGTTTCCAAAAAATTTTTGGGAAAAAGTTAAA
Found at i:43452 original size:17 final size:17
Alignment explanation
Indices: 43430--43462 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43420 AACTATTATT
43430 ATAATTATTAATATTTG
1 ATAATTATTAATATTTG
*
43447 ATAATTATTACTATTT
1 ATAATTATTAATATTT
43463 AGAATAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (17 bp):
ATAATTATTAATATTTG
Found at i:43693 original size:16 final size:16
Alignment explanation
Indices: 43664--43706 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
43654 ACATATTTAT
*
43664 TATAT-ATAATTATAA
1 TATATAATAAATATAA
43679 TATATAATAAATATAA
1 TATATAATAAATATAA
*
43695 TAT-TAATTAATA
1 TATATAATAAATA
43707 ATTGTATAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATATAATAAATATAA
Found at i:43759 original size:23 final size:22
Alignment explanation
Indices: 43732--43788 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
43722 AATTAGTAAA
43732 TATAATTAATTAATATTTAATAT
1 TATAATTAATTAATA-TTAATAT
* *
43755 TATAATATTATTAATATTACTAT
1 TATAAT-TAATTAATATTAATAT
*
43778 TATAAATAATT
1 TATAATTAATT
43789 TATTAAGAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 4 0.14
23 17 0.59
24 8 0.28
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TATAATTAATTAATATTAATAT
Found at i:43833 original size:24 final size:24
Alignment explanation
Indices: 43796--43843 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
43786 ATTTATTAAG
* *
43796 AATATTTAATCTATAAATTAATTA
1 AATATTTAACCTATAAATAAATTA
*
43820 AATATTTACCCTATAAATAAATTA
1 AATATTTAACCTATAAATAAATTA
43844 TCAATATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (24 bp):
AATATTTAACCTATAAATAAATTA
Found at i:45345 original size:135 final size:134
Alignment explanation
Indices: 45201--45454 Score: 357
Period size: 135 Copynumber: 1.9 Consensus size: 134
45191 ACCTATTCAG
* * * *
45201 AATAAAATAATACTAATTTATTAATATT-TGAAAAATTAATAAGTAGGAGATTTAAAAAATAAAT
1 AATAAAATAATACTAATCTAGTAATATTATG-AAAATTAATAACTAAGAGATTTAAAAAATAAAT
* * * * * *
45265 TTGTTTATCAAATCAGTTCAAATAGTTATGACTATTTGAACAATTATTTATCTTCATACAAGCTT
65 TTATTTATCAAACCAATTCAAATAGTTAAGACTATATGAACAATTATCTAT-TTCATACAAGCTT
45330 ATTTGA
129 ATTTGA
* *
45336 AATAAAATAATACTAATCTAGTAATATTATGAAATTTAATAACTAATAGATTTAAAAAATAAATT
1 AATAAAATAATACTAATCTAGTAATATTATGAAAATTAATAACTAAGAGATTTAAAAAATAAATT
* *
45401 TATTTATCAAACCAATTCAAATAGTTAAGGCTATATGAATAATTATCTATTTCA
66 TATTTATCAAACCAATTCAAATAGTTAAGACTATATGAACAATTATCTATTTCA
45455 AATCGTTATG
Statistics
Matches: 104, Mismatches: 14, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
134 4 0.04
135 98 0.94
136 2 0.02
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.38
Consensus pattern (134 bp):
AATAAAATAATACTAATCTAGTAATATTATGAAAATTAATAACTAAGAGATTTAAAAAATAAATT
TATTTATCAAACCAATTCAAATAGTTAAGACTATATGAACAATTATCTATTTCATACAAGCTTAT
TTGA
Found at i:46336 original size:180 final size:179
Alignment explanation
Indices: 46020--46449 Score: 488
Period size: 180 Copynumber: 2.4 Consensus size: 179
46010 TGACTATTTC
* * * * * *
46020 AATAATTATTTATTTCAAATCGTTATAACTTTTTATTTTATCATCAAACAATTGGTTTTATTCAT
1 AATAATTATCTATTTCAAATCATTATGACCTTTT-TTTTATCATAAAACAATT-GTTTTGTTCAT
* ** * * *
46085 ACTATTTTATTTAGAATAAAATAATACTAATTTAATAATATTTTGAAACTTAATCACCAAGAAAA
64 ACAAGCTTATTTAGAATAAAAGAATACTAATTTAATAATATTTTGAAAATTAATAACCAAGAAAA
* *
46150 TTAAAAAATAAATCTAATTGT-C-AAACCAGTTCAAATAGTTAAGATT-CTATG
129 TTAAAAAATAAAT-TAATT-TACTAAACCAGTTCAAATAGTTAAAATTATTA-G
* * *
46201 AATGATTATCTATTTCAAATCCTTATGACCTTTTCTTTTAACATAAAACAATTGTTTTGTTCATA
1 AATAATTATCTATTTCAAATCATTATGACCTTTT-TTTTATCATAAAACAATTGTTTTGTTCATA
* * * * *
46266 CAAGCTTATTTGGATTAAAAGAATACTAATTTAATAATATTTTGAAAATTAATAAGCAAGAGATT
65 CAAGCTTATTTAGAATAAAAGAATACTAATTTAATAATATTTTGAAAATTAATAACCAAGAAAAT
* * * *
46331 TAAAAAATAAATTTATTTACTGAATCAGTTCAAATGGTTAAAATTATTAG
130 TAAAAAATAAATTAATTTACTAAACCAGTTCAAATAGTTAAAATTATTAG
* * * * *
46381 AATAATTATCTATTTCATATCATTTTGATCTTTTGTTTAGTCATAAAACAATTGTTTCAGTTCAT
1 AATAATTATCTATTTCAAATCATTATGACCTTTTTTTTA-TCATAAAACAATTGTTT-TGTTCAT
46446 ACAA
64 ACAA
46450 TAATATTATA
Statistics
Matches: 210, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
178 1 0.00
179 9 0.04
180 143 0.68
181 57 0.27
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.41
Consensus pattern (179 bp):
AATAATTATCTATTTCAAATCATTATGACCTTTTTTTTATCATAAAACAATTGTTTTGTTCATAC
AAGCTTATTTAGAATAAAAGAATACTAATTTAATAATATTTTGAAAATTAATAACCAAGAAAATT
AAAAAATAAATTAATTTACTAAACCAGTTCAAATAGTTAAAATTATTAG
Found at i:46552 original size:15 final size:16
Alignment explanation
Indices: 46521--46553 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
46511 TGTATTCAAA
46521 TAATATATTAATAATT
1 TAATATATTAATAATT
*
46537 TAATAT-TTAATTATT
1 TAATATATTAATAATT
46552 TA
1 TA
46554 TCATAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATATATTAATAATT
Found at i:47140 original size:12 final size:13
Alignment explanation
Indices: 47112--47144 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
47102 TCTTATTATT
47112 TTATTATAGCTTA
1 TTATTATAGCTTA
*
47125 TTATTATATC-TA
1 TTATTATAGCTTA
47137 TTATTATA
1 TTATTATA
47145 ACATTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (13 bp):
TTATTATAGCTTA
Found at i:47726 original size:41 final size:42
Alignment explanation
Indices: 47666--47745 Score: 103
Period size: 41 Copynumber: 1.9 Consensus size: 42
47656 TTACTTAATA
47666 TAATTACATTAATTGTTATAAT-ATAATTAAACTATTTAAATT
1 TAATTACATTAATTGTTATAATGATAA-TAAACTATTTAAATT
* *
47708 TAATTAC-TTAATAT-TTATAATGATTATAAATTATTTAA
1 TAATTACATTAAT-TGTTATAATGATAATAAACTATTTAA
47746 TTATATTAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 23 0.68
42 11 0.32
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (42 bp):
TAATTACATTAATTGTTATAATGATAATAAACTATTTAAATT
Found at i:47792 original size:14 final size:14
Alignment explanation
Indices: 47771--47807 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
47761 ATACATAAAA
47771 ATAA-AAATATAAT
1 ATAATAAATATAAT
47784 ATAATAAATATAAT
1 ATAATAAATATAAT
47798 ATAATTAAAT
1 ATAA-TAAAT
47808 TTTTATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 4 0.18
14 13 0.59
15 5 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATAAATATAAT
Found at i:49191 original size:8 final size:8
Alignment explanation
Indices: 49180--49204 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
49170 TATTTGTTTA
49180 TTAATTAT
1 TTAATTAT
49188 TTAATTAT
1 TTAATTAT
49196 TTAATTAT
1 TTAATTAT
49204 T
1 T
49205 ATGTTAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTAATTAT
Found at i:49284 original size:15 final size:15
Alignment explanation
Indices: 49264--49293 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49254 TTTTGATTTA
49264 AAATATAAAATATAT
1 AAATATAAAATATAT
*
49279 AAATATAAATTATAT
1 AAATATAAAATATAT
49294 TTTAAATAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAATATAAAATATAT
Found at i:49301 original size:18 final size:18
Alignment explanation
Indices: 49276--49320 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
49266 ATATAAAATA
49276 TATAAATATA-AATTATAT
1 TATAAATATATAATT-TAT
* *
49294 TTTAAATAGATAATTTAT
1 TATAAATATATAATTTAT
49312 TATAAATAT
1 TATAAATAT
49321 TATCTAAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TATAAATATATAATTTAT
Found at i:49433 original size:11 final size:11
Alignment explanation
Indices: 49417--49468 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
49407 TATCTCAATT
49417 TATAATTATAA
1 TATAATTATAA
49428 TATAATTATTAA
1 TATAATTA-TAA
*
49440 TAATAACTATAA
1 T-ATAATTATAA
*
49452 -ATTAATTATAT
1 TA-TAATTATAA
49463 TATAAT
1 TATAAT
49469 AATTAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 1 0.03
11 19 0.56
12 8 0.24
13 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
TATAATTATAA
Found at i:49499 original size:35 final size:35
Alignment explanation
Indices: 49419--49497 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
49409 TCTCAATTTA
* *
49419 TAATTATAATATAATTATTAATAATAACTATAAAT
1 TAATTATATTATAATAATTAATAATAACTATAAAT
49454 TAATTATATTATAATAATTAAT-A-AACTATATAA-
1 TAATTATATTATAATAATTAATAATAACTATA-AAT
49487 TAATT-TATTAT
1 TAATTATATTAT
49498 TACATTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
32 6 0.15
33 12 0.29
34 3 0.07
35 20 0.49
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (35 bp):
TAATTATATTATAATAATTAATAATAACTATAAAT
Found at i:50094 original size:21 final size:21
Alignment explanation
Indices: 50055--50094 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
50045 ATATTGTTAA
*
50055 TTATAATTTATAATATAATAT
1 TTATAATATATAATATAATAT
50076 TTATAATATATTAAT-TAAT
1 TTATAATATA-TAATATAAT
50095 TTGTGAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATAATATATAATATAATAT
Found at i:50282 original size:34 final size:34
Alignment explanation
Indices: 50244--50322 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 34
50234 GAATAATTTA
* *
50244 ATAATTTATATATAATTATAAATAAT-TTTGGTGT
1 ATAATTTATATATAATTAT-AATAATATTTGATAT
50278 ATAA-TTAT-TAT-ATTATAATAATATTTGATAT
1 ATAATTTATATATAATTATAATAATATTTGATAT
50309 -TATATTTATATATA
1 ATA-ATTTATATATA
50323 GTTAAGTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
30 8 0.21
31 12 0.32
32 7 0.18
33 7 0.18
34 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (34 bp):
ATAATTTATATATAATTATAATAATATTTGATAT
Found at i:50829 original size:15 final size:16
Alignment explanation
Indices: 50809--50860 Score: 65
Period size: 15 Copynumber: 3.4 Consensus size: 16
50799 ATTATTTTAT
50809 ATTATAA-TTATTATTA
1 ATTATAAGTTA-TATTA
50825 A-TATAAGTTATATTA
1 ATTATAAGTTATATTA
*
50840 ATTATAACTTA-ATTA
1 ATTATAAGTTATATTA
50855 ATTATA
1 ATTATA
50861 TCAAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
15 21 0.64
16 12 0.36
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (16 bp):
ATTATAAGTTATATTA
Found at i:51213 original size:23 final size:23
Alignment explanation
Indices: 51167--51220 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
51157 CATATTAATA
* * **
51167 TAAATTATTTTAGTTTATGTATT
1 TAAATTATTATAATTTATCAATT
51190 TAAATTATTATAATTTATCAATT
1 TAAATTATTATAATTTATCAATT
51213 TAATATTA
1 TAA-ATTA
51221 AACAATATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (23 bp):
TAAATTATTATAATTTATCAATT
Found at i:52050 original size:20 final size:20
Alignment explanation
Indices: 52025--52092 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
52015 AAGTATAACT
*
52025 AATAATATTACTATTATATA
1 AATAATATTAATATTATATA
* *
52045 AATAATAATATTTATT-TATA
1 AATAATATTA-ATATTATATA
52065 AATTTAATATTTAATAGTTATATA
1 AA--TAATA-TTAATA-TTATATA
52089 AATA
1 AATA
52093 TTAATTATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
20 15 0.39
21 4 0.11
22 9 0.24
23 4 0.11
24 6 0.16
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (20 bp):
AATAATATTAATATTATATA
Found at i:52074 original size:19 final size:21
Alignment explanation
Indices: 52018--52077 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 21
52008 ACTTAATAAG
*
52018 TATAACTAATAATATTACTATTA
1 TATAAATAATAATATT--TATTA
52041 TATAAATAATAATATTTATT-
1 TATAAATAATAATATTTATTA
*
52061 TATAAAT-TTAATATTTA
1 TATAAATAATAATATTTA
52078 ATAGTTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.26
20 7 0.20
21 4 0.11
23 15 0.43
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (21 bp):
TATAAATAATAATATTTATTA
Found at i:53929 original size:33 final size:32
Alignment explanation
Indices: 53845--53930 Score: 88
Period size: 33 Copynumber: 2.6 Consensus size: 32
53835 TTAAATTAAT
53845 TAAATTATTATTATTAATA-ATATAATAGTATA
1 TAAA-TATTATTATTAATATATATAATAGTATA
*
53877 TAAATATATATTAAATAATATAT-TAAT-GCTATA
1 TAAATAT-TATT-ATTAATATATATAATAG-TATA
53910 TAATCATATTATTATTAATAT
1 TAA--ATATTATTATTAATAT
53931 TTATTAATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
31 3 0.07
32 9 0.20
33 24 0.52
34 6 0.13
35 4 0.09
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (32 bp):
TAAATATTATTATTAATATATATAATAGTATA
Found at i:54161 original size:27 final size:27
Alignment explanation
Indices: 54114--54169 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
54104 TGTATGTTAT
*
54114 ATTATATTTAAATATAATATATT-TTA
1 ATTATATTAAAATATAATATATTATTA
54140 ATTATAATTAAAATA-ATATATATTATTA
1 ATTAT-ATTAAAATATA-ATATATTATTA
54168 AT
1 AT
54170 AGTATTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 6 0.23
27 15 0.58
28 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTATATTAAAATATAATATATTATTA
Found at i:54176 original size:27 final size:26
Alignment explanation
Indices: 54114--54164 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
54104 TGTATGTTAT
* *
54114 ATTATATTTAAATATAATATATTTTA
1 ATTATAATTAAATATAATATATATTA
54140 ATTATAATTAAA-ATAATATATATTA
1 ATTATAATTAAATATAATATATATTA
54165 TTAATAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTATAATTAAATATAATATATATTA
Found at i:54177 original size:12 final size:12
Alignment explanation
Indices: 54160--54190 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
54150 AAATAATATA
54160 TATTATTAATAG
1 TATTATTAATAG
54172 TATTATTAATAG
1 TATTATTAATAG
54184 -ATTATTA
1 TATTATTA
54191 TACATTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (12 bp):
TATTATTAATAG
Found at i:54250 original size:28 final size:28
Alignment explanation
Indices: 54219--54284 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
54209 TTTAATGATT
54219 ATTA-ATAATAACTAAATTTAATTAATTA
1 ATTATATAAT-ACTAAATTTAATTAATTA
* * *
54247 ATTATTTAATATTAAATTTATTTAA-TA
1 ATTATATAATACTAAATTTAATTAATTA
54274 TATTATA-AATA
1 -ATTATATAATA
54285 ATTTAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
27 6 0.19
28 22 0.69
29 4 0.12
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTATATAATACTAAATTTAATTAATTA
Found at i:54360 original size:18 final size:17
Alignment explanation
Indices: 54275--54367 Score: 52
Period size: 16 Copynumber: 5.5 Consensus size: 17
54265 TATTTAATAT
* *
54275 ATTATAAATAATTTAATA
1 ATTATAAA-AAATTATTA
* *
54293 ATT-TAATATATTATTA
1 ATTATAAAAAATTATTA
54309 ATT-TAAAATAATTA-T-
1 ATTATAAAA-AATTATTA
* *
54324 ATTA-ATAATAATTGTTTA
1 ATTATA-AAAAATT-ATTA
54342 ATTAATAAAAAATTATTA
1 ATT-ATAAAAAATTATTA
54360 ATTATAAA
1 ATTATAAA
54368 TAAAGTAAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 17
0.68 0.12 0.20
Matches are distributed among these distances:
15 8 0.14
16 16 0.28
17 13 0.23
18 12 0.21
19 7 0.12
20 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (17 bp):
ATTATAAAAAATTATTA
Found at i:54764 original size:14 final size:15
Alignment explanation
Indices: 54747--54789 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
54737 TTTAATTAGC
54747 TATAA-ATTATTATA
1 TATAATATTATTATA
54761 TATATTATATTATTAT-
1 TATA--ATATTATTATA
54777 TATAATATTATTA
1 TATAATATTATTA
54790 AAATAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 13 0.50
16 5 0.19
17 8 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATATTATTATA
Found at i:54779 original size:11 final size:10
Alignment explanation
Indices: 54747--54789 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
54737 TTTAATTAGC
*
54747 TATAAATTAT
1 TATATATTAT
54757 TATATA-TAT
1 TATATATTAT
54766 TATATTATTAT
1 TATA-TATTAT
54777 TATAATATTAT
1 TAT-ATATTAT
54788 TA
1 TA
54790 AAATAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 7 0.24
10 7 0.24
11 14 0.48
12 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TATATATTAT
Found at i:54856 original size:31 final size:32
Alignment explanation
Indices: 54776--54857 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 32
54766 TATATTATTA
* *
54776 TTATAATATT-ATTAAAA-TAAATTTAATATAT
1 TTAT-ATATTAATTAAAATTATATATAATATAT
* * *
54807 TGATATATCAATT-TAATTATATATAATA-AT
1 TTATATATTAATTAAAATTATATATAATATAT
54837 TTATATATTAATTAAAATTAT
1 TTATATATTAATTAAAATTAT
54858 TAACTGTTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
30 19 0.47
31 21 0.52
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (32 bp):
TTATATATTAATTAAAATTATATATAATATAT
Found at i:55070 original size:117 final size:118
Alignment explanation
Indices: 54944--55179 Score: 438
Period size: 117 Copynumber: 2.0 Consensus size: 118
54934 TTTATATTAA
* *
54944 ATATTTAAAATAATAATTATATGATTTTATTATAAATGTTATATTATAATATAATAAATAACATC
1 ATATTTAAAATAATAATTATATGATTTTATTATAAATGTTATATTATAATATAATAAAGAACATA
55009 TGTTT-AATTTTATTAGCAATTATGTTTTATAATTATCGATTAGTTTCCTCGT
66 TGTTTAAATTTTATTAGCAATTATGTTTTATAATTATCGATTAGTTTCCTCGT
*
55061 ATATTTAAAATAATAATTGTATGATTTTATTATAAATGTTATATTATAATATAATAAAGAACATA
1 ATATTTAAAATAATAATTATATGATTTTATTATAAATGTTATATTATAATATAATAAAGAACATA
55126 TGTTTAAATTTTATTAGCAATTATGTTTTATAATTATCGATTAGTTTCCTCGT
66 TGTTTAAATTTTATTAGCAATTATGTTTTATAATTATCGATTAGTTTCCTCGT
55179 A
1 A
55180 CTAAACAATA
Statistics
Matches: 115, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
117 67 0.58
118 48 0.42
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.48
Consensus pattern (118 bp):
ATATTTAAAATAATAATTATATGATTTTATTATAAATGTTATATTATAATATAATAAAGAACATA
TGTTTAAATTTTATTAGCAATTATGTTTTATAATTATCGATTAGTTTCCTCGT
Found at i:55214 original size:8 final size:8
Alignment explanation
Indices: 55201--55250 Score: 68
Period size: 8 Copynumber: 6.4 Consensus size: 8
55191 TAATCAAATA
55201 AATATTAT
1 AATATTAT
55209 AATATTAT
1 AATATTAT
55217 AATTATTA-
1 AA-TATTAT
*
55225 ATTATTAT
1 AATATTAT
55233 AATATTAT
1 AATATTAT
55241 AATATT-T
1 AATATTAT
55248 AAT
1 AAT
55251 TATAATTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
7 9 0.24
8 24 0.63
9 5 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
AATATTAT
Found at i:55224 original size:118 final size:115
Alignment explanation
Indices: 54949--55210 Score: 350
Period size: 117 Copynumber: 2.3 Consensus size: 115
54939 ATTAAATATT
* * ** * *
54949 TAAAATAATAATTATATGATTTTATTATAAATGTTATATTATAATATAATAAATAACATCTGTTT
1 TAAAATAATAATCAAATGATAATATTATAAATGTTATATTATAATATAATAAAGAACATATGTTT
55014 AATTTTATTAGCAATTATGTTTTATAATTATCGATTAGTTTCCTCGTATA
66 AATTTTATTAGCAATTATGTTTTATAATTATCGATTAGTTTCCTCGTATA
*** **
55064 TTTAAAATAATAATTGTATGATTTTATTATAAATGTTATATTATAATATAATAAAGAACATATGT
1 --TAAAATAATAATCAAATGATAATATTATAAATGTTATATTATAATATAATAAAGAACATATGT
55129 TTAAATTTTATTAGCAATTATGTTTTATAATTATCGATTAGTTTCCTCGTACTA
64 TT-AATTTTATTAGCAATTATGTTTTATAATTATCGATTAGTTTCCTCGTA-TA
*
55183 -AACAATATTAATCAAAT-A-AATATTATAA
1 TAA-AATAATAATCAAATGATAATATTATAA
55211 TATTATAATT
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
115 8 0.06
116 3 0.02
117 72 0.54
118 48 0.36
119 2 0.02
ACGTcount: A:0.41, C:0.06, G:0.07, T:0.46
Consensus pattern (115 bp):
TAAAATAATAATCAAATGATAATATTATAAATGTTATATTATAATATAATAAAGAACATATGTTT
AATTTTATTAGCAATTATGTTTTATAATTATCGATTAGTTTCCTCGTATA
Found at i:55233 original size:24 final size:24
Alignment explanation
Indices: 55203--55253 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 24
55193 ATCAAATAAA
55203 TATTATAATATTATAAT-TATTAAT
1 TATTATAATATTATAATAT-TTAAT
55227 TATTATAATATTATAATATTTAAT
1 TATTATAATATTATAATATTTAAT
55251 TAT
1 TAT
55254 AATTATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTATAATATTATAATATTTAAT
Found at i:55254 original size:21 final size:23
Alignment explanation
Indices: 55204--55264 Score: 76
Period size: 24 Copynumber: 2.8 Consensus size: 23
55194 TCAAATAAAT
*
55204 ATTATAATATTATAATTATTAATT
1 ATTATAATATTATAATTATT-ATA
55228 ATTATAATATTATAA-TATT-TA
1 ATTATAATATTATAATTATTATA
55249 ATTAT-A-ATTATAATTA
1 ATTATAATATTATAATTA
55265 ATAAATGTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 7 0.20
20 3 0.09
21 6 0.17
23 4 0.11
24 15 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTATAATATTATAATTATTATA
Found at i:55258 original size:6 final size:6
Alignment explanation
Indices: 55212--55264 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
55202 ATATTATAAT
* * *
55212 ATTATA ATTATTA ATTATT ATAAT- ATTATA ATATTTA ATTATA ATTATA
1 ATTATA ATTA-TA ATTATA ATTATA ATTATA AT-TATA ATTATA ATTATA
55261 ATTA
1 ATTA
55265 ATAAATGTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
5 4 0.10
6 24 0.62
7 11 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
ATTATA
Found at i:55265 original size:16 final size:15
Alignment explanation
Indices: 55204--55259 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 15
55194 TCAAATAAAT
55204 ATTATAA-TATTATA
1 ATTATAATTATTATA
55218 ATTATTAATTATTATAA
1 ATTA-TAATTATTAT-A
55235 TATTATAA-TATT-TA
1 -ATTATAATTATTATA
55249 ATTATAATTAT
1 ATTATAATTAT
55260 AATTAATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
13 7 0.19
14 8 0.22
15 4 0.11
16 10 0.27
17 4 0.11
18 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATAATTATTATA
Found at i:55402 original size:22 final size:21
Alignment explanation
Indices: 55371--55411 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
55361 TTAAAATATT
55371 ATAAACATTAATAATATAATTG
1 ATAAACATTAAT-ATATAATTG
*
55393 ATAAATATTAATATATAAT
1 ATAAACATTAATATATAAT
55412 AATTAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
ATAAACATTAATATATAATTG
Found at i:55420 original size:22 final size:21
Alignment explanation
Indices: 55368--55420 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
55358 TATTTAAAAT
*
55368 ATTATAAACATTAATAATATA
1 ATTATAAATATTAATAATATA
55389 ATTGATAAATATTAATATATAATA
1 ATT-ATAAATATTAATA-AT-ATA
55413 ATTA-AAAT
1 ATTATAAAT
55421 CATTGTGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 3 0.11
22 16 0.57
23 3 0.11
24 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
ATTATAAATATTAATAATATA
Found at i:56978 original size:181 final size:181
Alignment explanation
Indices: 56221--57391 Score: 1018
Period size: 181 Copynumber: 6.5 Consensus size: 181
56211 TAAAAACTTA
* * **
56221 TGTTTCTATTCATACAAGTTTATTCAAAATAAAATAATACTAATCAATTAATATTCTAAAAATTA
1 TGTTTCTATTCATACAAGATTATTCAGAATAAAATAATACTAATTTATTAATATT-TAAAAATTA
* * * * * * * * *
56286 ACAAGT-TGAAGATTTTAAAAA-AAAT-TGTTTAC-CAAACAAATTTAAATAGTCATGTCCATTT
65 ATAAGTAAGAA-ATTTAAAAAATAAATATATTTACTGAAATAAGTTCAAATAGTTATGTCCATTT
* * * *
56347 GAACTATTATCTATTTCAAATTGTTATGACATTTTGTTTTGGTCCTAAAACAAT
129 GAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTT-GTCATAAAACAAT
* * * *
56401 TGTTTCTATTCAAACAAGCTTATTCTGAGTAAAATAATA-TAAATTTATTAATATTTCAAAAATT
1 TGTTTCTATTCATACAAGATTATTCAGAATAAAATAATACT-AATTTATTAATATTT-AAAAATT
* * * * * **
56465 AATAAGTAA-AAATTTAAAAAATAAATATGTTTTCT-AAACATGTTCACATAGTTATGAAC-TTT
64 AATAAGTAAGAAATTTAAAAAATAAATATATTTACTGAAATAAGTTCAAATAGTTATGTCCATTT
* * * *
56527 GAACAATTATTTATTTCAAATAGTTATGACCCTTTGTTTTGTCATAAACCAGT
129 GAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAAACAAT
* *
56580 TGTTTCTATTCATACAAGCA-TATT-TGAAACAAAATAATACTAATTTATTAATATTTCAAAAAT
1 TGTTTCTATTCATACAAG-ATTATTCAG-AATAAAATAATACTAATTTATTAATATTT-AAAAAT
* * * ** * **
56643 TAATAAGTAAAAAAATTT-AAAAATAAATCTGTTTACTGAGCTAA-TTCAAATCGTTATGAT-TG
63 TAATAAGT-AAGAAATTTAAAAAATAAATATATTTACTGAAATAAGTTCAAATAGTTATG-TCCA
* * *
56705 TTTGAACAATTTTTTATTTCAAAATTGTTATGATCTTTTGTTTTGTCCTAAAACAAT
126 TTTGAACAATTATTTATTTC-AAATTGTTATGACCTTTTGTTTTGTCATAAAACAAT
* * * * *
56762 TGTTTCTATTCATACAAGTTTATTTAGAATAAAATAATACTAATTGATTAATACTTTGAAAGTTA
1 TGTTTCTATTCATACAAGATTATTCAGAATAAAATAATACTAATTTATTAATA-TTTAAAAATTA
* * * * * *
56827 GTAGGTAGGAGATTTAAAAAATAAATATATTTACT-AAATAAGTCCAAATAGTCATGTCCATTTG
65 ATAAGTAAGAAATTTAAAAAATAAATATATTTACTGAAATAAGTTCAAATAGTTATGTCCATTTG
* * *
56891 AACAATTATCTATTTCAAATAGTTATGACCTTTTTTTTTGTCATAAAACAAT
130 AACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAAACAAT
* * * * *
56943 TGTTTCTGTTCATGCAAAATTATTCAGAATAAAATAATATTAATCTATTAATATTTTAAAAATTA
1 TGTTTCTATTCATACAAGATTATTCAGAATAAAATAATACTAATTTATTAATA-TTTAAAAATTA
* * * * * *
57008 ATAAG--AG--ATTTAAAAACTAAATTTATTTACTGAAA-CAGTTCAAATAGTTATGACTATTTA
65 ATAAGTAAGAAATTTAAAAAATAAATATATTTACTGAAATAAGTTCAAATAGTTATGTCCATTTG
* * * *
57068 AACAATTATTTATATCAAATTGTTATGATC-TTTATTTTGTCATAAAAAAAT
130 AACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAAACAAT
* * * * * * *
57119 TGTTTCTTTTTATATAAGATTATTCATATTAAAATAATACTAATTTAATAATATTCCAAAAATTA
1 TGTTTCTATTCATACAAGATTATTCAGAATAAAATAATACTAATTTATTAATATT-TAAAAATTA
* * * * ** * * * * *
57184 GTAAGTAAGAAATTTAAAAAATAAATGTGTTT-GTCGAACCAA-TGCAAATAGTTAAGACTATTA
65 ATAAGTAAGAAATTTAAAAAATAAATATATTTACT-GAAATAAGTTCAAATAGTTATGTCCATTT
* * * * ** * * *
57247 GGATAATTATCTATTTCAGATCATTTTGACCTTTTGTTTAGTCACAAAACAAT
129 GAACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAAACAAT
* * * * * * * * *
57300 TATTTCAATTTATACAAGCTTATTTAGAATAAATTAATACTAATTTTTTAACATTCAAAAAATTA
1 TGTTTCTATTCATACAAGATTATTCAGAATAAAATAATACTAATTTATTAATATT-TAAAAATTA
* * *
57365 ATAAGCATGAGATTTTAAAAAATAAAT
65 ATAAGTAAGA-AATTTAAAAAATAAAT
57392 TTGTTTATTG
Statistics
Matches: 807, Mismatches: 153, Indels: 60
0.79 0.15 0.06
Matches are distributed among these distances:
175 2 0.00
176 74 0.09
177 67 0.08
178 7 0.01
179 84 0.10
180 195 0.24
181 227 0.28
182 147 0.18
183 4 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (181 bp):
TGTTTCTATTCATACAAGATTATTCAGAATAAAATAATACTAATTTATTAATATTTAAAAATTAA
TAAGTAAGAAATTTAAAAAATAAATATATTTACTGAAATAAGTTCAAATAGTTATGTCCATTTGA
ACAATTATTTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAAACAAT
Found at i:57264 original size:539 final size:538
Alignment explanation
Indices: 56221--57392 Score: 1315
Period size: 539 Copynumber: 2.2 Consensus size: 538
56211 TAAAAACTTA
* * *
56221 TGTTTCTATTCATACAAGTTTATTCAAAATAAAATAATACTAATCAATTAATATTCTAAAAATTA
1 TGTTTCTATTCATACAAGTTTATTTAGAATAAAATAATACTAATTAATTAATATTCTAAAAATTA
* * * **
56286 ACAAGTTGAAGATTTTAAAAAAAATTGTTTACCAAACAAATTTAAATAGTCATGTCCATTTGAAC
66 ACAAGTAGAAGATTTAAAAAAAAATTATTTACCAAACAAATCCAAATAGTCATGTCCATTTGAAC
* * *
56351 TATTATCTATTTCAAATTGTTATGACATTTTGTTTTGGTCCTAAAACAATTGTTTCTATTCAAAC
131 AATTATCTATTTCAAATAGTTATGACATTTTGTTTTGGTCATAAAACAATTGTTTCTATTCAAAC
** * * *
56416 AAGCTTATTCTGAGTAAAATAATATAAATTTATTAATATTTCAAAAATTAATAAGTAAAAATTTA
196 AAAATTATTCAGAATAAAATAATATAAATCTATTAATATTTCAAAAATTAATAAG--AAAATTTA
* * * * *
56481 AAAAATAAATATGTTTTCTAAACATGTTCACATAGTTATGAACTTTGAACAATTATTTATTTCAA
259 AAAAATAAATATATTTACTAAACATGTTCAAATAGTTATGAACTTTAAACAATTATTTATATCAA
* ** * *
56546 ATAGTTATGACCCTTTGTTTTGTCATAAACCAGTTGTTTCTATTCATACAAGCATATTTGAAACA
324 ATAGTTATGACCCTTTATTTTGTCATAAAAAAATTGTTTCTATTCATACAAGCATATTTCAAACA
* *
56611 AAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAAATTTAAAAATAAATCTGTT
389 AAATAATACTAATTTAATAATATTCCAAAAATTAATAAGTAAAAAAATTTAAAAATAAATCTGTT
* * * * * * * * * * ** *
56676 TACTGAGCTAATTCAAATCGTTATGATTGTTTGAACAATTTTTTATTTCAAAATTGTTATGATCT
454 TACTGAACCAATGCAAATAGTTAAGACTATTAGAACAATTATCTATTTC-AAATCATTATGACCT
*
56741 TTTGTTTTGTC-CTAAAACAAT
518 TTTGTTTAGTCAC-AAAACAAT
* * *
56762 TGTTTCTATTCATACAAGTTTATTTAGAATAAAATAATACTAATTGATTAATACTT-TGAAAGTT
1 TGTTTCTATTCATACAAGTTTATTTAGAATAAAATAATACTAATTAATTAATA-TTCTAAAAATT
** * * * * *
56826 AGTAGGTAGGAGATTTAAAAAATAAATATATTTACTAAATAAGTCCAAATAGTCATGTCCATTTG
65 AACAAGTAGAAGATTTAAAAAA-AAAT-TATTTACCAAACAAATCCAAATAGTCATGTCCATTTG
* * *
56891 AACAATTATCTATTTCAAATAGTTATGACCTTTT-TTTTTGTCATAAAACAATTGTTTCTGTTCA
128 AACAATTATCTATTTCAAATAGTTATGACATTTTGTTTTGGTCATAAAACAATTGTTTCTATTCA
** * * *
56955 TGCAAAATTATTCAGAATAAAATAATATTAATCTATTAATATTTTAAAAATTAATAAG-AGATTT
193 AACAAAATTATTCAGAATAAAATAATATAAATCTATTAATATTTCAAAAATTAATAAGAAAATTT
* *
57019 AAAAACTAAATTTATTTACTGAAACA-GTTCAAATAGTTATG-ACTATTTAAACAATTATTTATA
258 AAAAAATAAATATATTTACT-AAACATGTTCAAATAGTTATGAAC--TTTAAACAATTATTTATA
* * * * *
57082 TCAAATTGTTATGA-TCTTTATTTTGTCATAAAAAAATTGTTTCTTTTTATATAAG-AT-TATTC
320 TCAAATAGTTATGACCCTTTATTTTGTCATAAAAAAATTGTTTCTATTCATACAAGCATAT-TTC
** * *
57144 ATATTAAAATAATACTAATTTAATAATATTCCAAAAATTAGTAAGT-AAGAAATTTAAAAAATAA
384 A-AACAAAATAATACTAATTTAATAATATTCCAAAAATTAATAAGTAAAAAAATTT-AAAAATAA
* * * * *
57208 ATGTGTTT-GTCGAACCAATGCAAATAGTTAAGACTATTAGGATAATTATCTATTTCAGATCATT
447 ATCTGTTTACT-GAACCAATGCAAATAGTTAAGACTATTAGAACAATTATCTATTTCAAATCATT
*
57272 TTGACCTTTTGTTTAGTCACAAAACAAT
511 ATGACCTTTTGTTTAGTCACAAAACAAT
* * * * * ** * *
57300 TATTTCAATTTATACAAGCTTATTTAGAATAAATTAATACTAATTTTTTAACATTCAAAAAATTA
1 TGTTTCTATTCATACAAGTTTATTTAGAATAAAATAATACTAATTAATTAATATTCTAAAAATTA
* *
57365 ATAAGCATG-AGATTTTAAAAAATAAATT
66 ACAAGTA-GAAGA-TTTAAAAAA-AAATT
57393 TGTTTATTGA
Statistics
Matches: 526, Mismatches: 91, Indels: 31
0.81 0.14 0.05
Matches are distributed among these distances:
537 3 0.01
538 103 0.20
539 171 0.33
540 34 0.06
541 71 0.13
542 82 0.16
543 62 0.12
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (538 bp):
TGTTTCTATTCATACAAGTTTATTTAGAATAAAATAATACTAATTAATTAATATTCTAAAAATTA
ACAAGTAGAAGATTTAAAAAAAAATTATTTACCAAACAAATCCAAATAGTCATGTCCATTTGAAC
AATTATCTATTTCAAATAGTTATGACATTTTGTTTTGGTCATAAAACAATTGTTTCTATTCAAAC
AAAATTATTCAGAATAAAATAATATAAATCTATTAATATTTCAAAAATTAATAAGAAAATTTAAA
AAATAAATATATTTACTAAACATGTTCAAATAGTTATGAACTTTAAACAATTATTTATATCAAAT
AGTTATGACCCTTTATTTTGTCATAAAAAAATTGTTTCTATTCATACAAGCATATTTCAAACAAA
ATAATACTAATTTAATAATATTCCAAAAATTAATAAGTAAAAAAATTTAAAAATAAATCTGTTTA
CTGAACCAATGCAAATAGTTAAGACTATTAGAACAATTATCTATTTCAAATCATTATGACCTTTT
GTTTAGTCACAAAACAAT
Found at i:57279 original size:357 final size:356
Alignment explanation
Indices: 56221--57437 Score: 1167
Period size: 357 Copynumber: 3.4 Consensus size: 356
56211 TAAAAACTTA
* * *
56221 TGTTTCTATTCATACAAGTTTATTCAAAATAAAATAATACTAATCAATTAATATTCTAAAAATTA
1 TGTTTCTATTCATACAAGATTATTCAGAATAAAATAATACTAATCTATTAATATTCTAAAAATTA
* * * * * *
56286 ACAAGTTGAAGATTTTAAAAA-AAA-TTGTTTAC-CAAACAAATTTAAATAGTCATGTCCATTTG
66 ATAA---GAAGA-TTTAAAAATAAATTTGTTTACTGAAACAAATTCAAATAGTTATGACTATTTG
* *
56348 AACTATTATCTATTTCAAATTGTTATGA-CATTTTGTTTTGGTCCTAAAACAATTGTTTCTATTC
127 AACAATTATTTATTTCAAATTGTTATGATC-TTTTGTTTT-GTCCTAAAACAATTGTTTCTATTC
* * * *
56412 AAACAAGCTTATTC-TGAGTAAAATAATA-TAAATTTATTAATATTTCAAAAATTAATAAGTAA-
190 ATACAAGATTATTCAT-AATAAAATAATACT-AATTTATTAATA-TTCAAAAATTAGTAAGTAAG
*
56474 AAATTTAAAAAATAAATATGTTTTCTAAAC-ATGTTCACATAGTTATGAACT-TTGAACAATTAT
252 AAATTTAAAAAATAAATATGTTTTCTAAACAATG--CAAATAGTTATG-ACTATTGAACAATTAT
* * * *
56537 TTATTTCAAATAGTTATGACCCTTTGTTTTGTCATAAACCAGT
314 CTATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAAT
* * *
56580 TGTTTCTATTCATACAAGCA-TATT-TGAAACAAAATAATACTAATTTATTAATATT-TCAAAAA
1 TGTTTCTATTCATACAAG-ATTATTCAG-AATAAAATAATACTAATCTATTAATATTCT-AAAAA
* * * * * * *
56642 TTAATAAGTAAAAAAATTTAAAAATAAATCTGTTTACTG-AGCTAATTCAAATCGTTATGATTGT
63 TTAATAAG----AAGATTTAAAAATAAATTTGTTTACTGAAACAAATTCAAATAGTTATGACTAT
*
56706 TTGAACAATTTTTTATTTCAAAATTGTTATGATCTTTTGTTTTGTCCTAAAACAATTGTTTCTAT
124 TTGAACAATTATTTATTTC-AAATTGTTATGATCTTTTGTTTTGTCCTAAAACAATTGTTTCTAT
* * * * ** * * *
56771 TCATACAAGTTTATTTAGAATAAAATAATACTAATTGATTAATACTTTGAAAGTTAGTAGGTAGG
188 TCATACAAGATTATTCATAATAAAATAATACTAATTTATTAATA-TTCAAAAATTAGTAAGTAAG
* * * * * * * *
56836 AGATTTAAAAAATAAATATATTTACTAAATAAGTCCAAATAGTCATGTCCATTTGAACAATTATC
252 AAATTTAAAAAATAAATATGTTTTCTAAACAA-TGCAAATAGTTATGACTA-TTGAACAATTATC
*
56901 TATTTCAAATAGTTATGACCTTTTTTTTTGTCATAAAACAAT
315 TATTTCAAATAGTTATGACCTTTTGTTTTGTCATAAAACAAT
* * * * *
56943 TGTTTCTGTTCATGCAAAATTATTCAGAATAAAATAATATTAATCTATTAATATTTTAAAAATTA
1 TGTTTCTATTCATACAAGATTATTCAGAATAAAATAATACTAATCTATTAATATTCTAAAAATTA
* * *
57008 ATAAG-AGATTTAAAAACTAAATTTATTTACTGAAAC-AGTTCAAATAGTTATGACTATTTAAAC
66 ATAAGAAGATTTAAAAA-TAAATTTGTTTACTGAAACAAATTCAAATAGTTATGACTATTTGAAC
* * * * * * *
57071 AATTATTTATATCAAATTGTTATGATC-TTTATTTTGTCATAAAAAAATTGTTTCTTTTTATATA
130 AATTATTTATTTCAAATTGTTATGATCTTTTGTTTTGTCCTAAAACAATTGTTTCTATTCATACA
* *
57135 AGATTATTCATATTAAAATAATACTAATTTAATAATATTCCAAAAATTAGTAAGTAAGAAATTTA
195 AGATTATTCATAATAAAATAATACTAATTTATTAATATT-CAAAAATTAGTAAGTAAGAAATTTA
* * * * * *
57200 AAAAATAAATGTGTTTGTCGAACCAATGCAAATAGTTAAGACTATTAGGATAATTATCTATTTCA
259 AAAAATAAATATGTTT-TCTAAACAATGCAAATAGTTATGACTATT-GAACAATTATCTATTTCA
* * * *
57265 GATCA-TTTTGACCTTTTGTTTAGTCACAAAACAAT
322 AAT-AGTTATGACCTTTTGTTTTGTCATAAAACAAT
* * * * * * * * * *
57300 TATTTCAATTTATACAAGCTTATTTAGAATAAATTAATACTAATTTTTTAACATTCAAAAAATTA
1 TGTTTCTATTCATACAAGATTATTCAGAATAAAATAATACTAATCTATTAATATTCTAAAAATTA
* * * * *
57365 ATAAGCATGAGATTTTAAAAAATAAATTTGTTTATTG-AATAAATTAAAAGAGATT-TGATTATT
66 ATAAG-A--AGA-TTT-AAAAATAAATTTGTTTACTGAAACAAATTCAAATAG-TTATGACTATT
*
57428 TAAACAATTA
125 TGAACAATTA
57438 AATATAATCA
Statistics
Matches: 697, Mismatches: 125, Indels: 69
0.78 0.14 0.08
Matches are distributed among these distances:
356 5 0.01
357 207 0.30
358 31 0.04
359 112 0.16
360 8 0.01
361 115 0.16
362 100 0.14
363 116 0.17
364 3 0.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.40
Consensus pattern (356 bp):
TGTTTCTATTCATACAAGATTATTCAGAATAAAATAATACTAATCTATTAATATTCTAAAAATTA
ATAAGAAGATTTAAAAATAAATTTGTTTACTGAAACAAATTCAAATAGTTATGACTATTTGAACA
ATTATTTATTTCAAATTGTTATGATCTTTTGTTTTGTCCTAAAACAATTGTTTCTATTCATACAA
GATTATTCATAATAAAATAATACTAATTTATTAATATTCAAAAATTAGTAAGTAAGAAATTTAAA
AAATAAATATGTTTTCTAAACAATGCAAATAGTTATGACTATTGAACAATTATCTATTTCAAATA
GTTATGACCTTTTGTTTTGTCATAAAACAAT
Found at i:57576 original size:19 final size:20
Alignment explanation
Indices: 57548--57585 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
57538 CTCTTTATCA
57548 ATATTGATTAT-TTATTATT
1 ATATTGATTATGTTATTATT
*
57567 ATATTTATTATGTTATTAT
1 ATATTGATTATGTTATTAT
57586 ATAATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
ATATTGATTATGTTATTATT
Found at i:58107 original size:181 final size:178
Alignment explanation
Indices: 57606--58168 Score: 518
Period size: 178 Copynumber: 3.2 Consensus size: 178
57596 AATTATATTA
* * * * * * *
57606 ATAACGATTTGAAATAAATAATTTGTT-AAATGGTCATAACTATTT-AACTGATTTA-ATAAATA
1 ATAACGATTTAAAATACACAA-TTGTTCAAATAGTCATAAATATTTAAACTG-GTTAGATAAACA
* * * * * *
57668 GATTTAT-TTTTTAAATCTCTTATTAGTTTTCAAAATATTAATAGATTAGCATTACTTTATTCCG
64 GAATTATATTTTTAAATCTCTTATTAATTTTTAAAATATTAATAGATTAGTATTATTTTATTTCG
* * * * **
57732 AACAAACTTATATGAACA-AAAACATTTGTTTTATGGCAAAACAAAAGGTC
129 AATAAGCTTATATGAATAGAAAA-TTTTGTTTTATGATAAAACAAAAGGTC
* * * * *
57782 ATAATGATTTAAAATACACAATTGTTCAAATAGTCATAACTATTTGAATTGGTTAGGTAAACAGA
1 ATAACGATTTAAAATACACAATTGTTCAAATAGTCATAAATATTTAAACTGGTTAGATAAACAGA
* * * *
57847 ATTATTTTTTTAAATCTCTTATTAATTTTTGAAATATTAATAGATTCA-TTTTATTTTATTTTGA
66 ATTATATTTTTAAATCTCTTATTAATTTTTAAAATATTAATAGATT-AGTATTATTTTATTTCGA
* *
57911 ATAAG-TTAGTATGAATTGAAAATTTTGTTTTATGATAAAACAAAAAGTC
130 ATAAGCTTA-TATGAATAGAAAATTTTGTTTTATGATAAAACAAAAGGTC
* * * * * *
57960 ATAACGTTTTAAAATACATAATTGTT-ATTATAGTCTTAAATATTTTAAACTGGTTTGATAAATA
1 ATAACGATTTAAAATACACAATTGTTCA-AATAGTCATAAATA-TTTAAACTGGTTAGATAAACA
* *
58024 -AATT-TATTTTTAATTCTCTTAGTTATTAATTTTTAAAATATTATTAGATTAGTATTATTTTAT
64 GAATTATATTTTTAAATCTC----TTATTAATTTTTAAAATATTAATAGATTAGTATTATTTTAT
* * * * *
58087 TTCGAATAAGCTTTTATGAATAG-AAATAGTTGTTTTACGATAGAACAAAAGGTT
125 TTCGAATAAGCTTATATGAATAGAAAAT-TTTGTTTTATGATAAAACAAAAGGTC
* * * *
58141 ATAACAATTTGAAGTATACAATTGTTCA
1 ATAACGATTTAAAATACACAATTGTTCA
58169 GTATTATATA
Statistics
Matches: 314, Mismatches: 56, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
175 5 0.02
176 37 0.12
177 31 0.10
178 118 0.38
179 21 0.07
180 5 0.02
181 94 0.30
182 3 0.01
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.43
Consensus pattern (178 bp):
ATAACGATTTAAAATACACAATTGTTCAAATAGTCATAAATATTTAAACTGGTTAGATAAACAGA
ATTATATTTTTAAATCTCTTATTAATTTTTAAAATATTAATAGATTAGTATTATTTTATTTCGAA
TAAGCTTATATGAATAGAAAATTTTGTTTTATGATAAAACAAAAGGTC
Found at i:58470 original size:11 final size:11
Alignment explanation
Indices: 58451--58489 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
58441 TTTTAAATAA
*
58451 TATACTATTAT
1 TATATTATTAT
58462 TATATTATTAT
1 TATATTATTAT
*
58473 TATTATTAATAT
1 TA-TATTATTAT
58485 TATAT
1 TATAT
58490 CTAATAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TATATTATTAT
Found at i:60215 original size:35 final size:35
Alignment explanation
Indices: 60148--60216 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
60138 AATTAAAACA
*
60148 ATTATAATATTAATTGTTTAATAAAATTATATAAT
1 ATTATAATATTAATTGTTTAATAAAATCATATAAT
*
60183 ATTATAA-ATTATATT-TTTATATAATATCATATAA
1 ATTATAATATTA-ATTGTTTA-ATAAAATCATATAA
60217 AAAAATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 8 0.27
35 22 0.73
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (35 bp):
ATTATAATATTAATTGTTTAATAAAATCATATAAT
Found at i:60549 original size:32 final size:33
Alignment explanation
Indices: 60508--60577 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 33
60498 ATTATATACA
60508 AATAATATAATAAATAT-ATTA-TAATTAA-AAAT
1 AATAATATAAT--ATATGATTATTAATTAATAAAT
60540 AATAATATAATATATGATTATTAATTAATAAAT
1 AATAATATAATATATGATTATTAATTAATAAAT
60573 AATAA
1 AATAA
60578 ATTATTATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
30 4 0.11
31 4 0.11
32 18 0.51
33 9 0.26
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (33 bp):
AATAATATAATATATGATTATTAATTAATAAAT
Found at i:60562 original size:28 final size:29
Alignment explanation
Indices: 60491--60588 Score: 98
Period size: 28 Copynumber: 3.4 Consensus size: 29
60481 TGGAATTGTT
*
60491 AATAT-TTATTA-TATACAAATAATATAATA
1 AATATATTATTATTA-ATAAATAA-ATAATA
*
60520 AATATATTATAATTAA-AAAT-AATAATA
1 AATATATTATTATTAATAAATAAATAATA
* *
60547 TAATATATGATTATTAATTAATAAATAATA
1 -AATATATTATTATTAATAAATAAATAATA
60577 AAT-TATTATTAT
1 AATATATTATTAT
60589 ATTCTTAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
27 6 0.10
28 23 0.39
29 15 0.25
30 13 0.22
31 2 0.03
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (29 bp):
AATATATTATTATTAATAAATAAATAATA
Found at i:60574 original size:25 final size:26
Alignment explanation
Indices: 60539--60587 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
60529 TAATTAAAAA
*
60539 TAATAATATAATATATGATTATTAAT
1 TAATAATATAATAAATGATTATTAAT
*
60565 TAATAA-ATAATAAATTATTATTA
1 TAATAATATAATAAATGATTATTA
60588 TATTCTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
TAATAATATAATAAATGATTATTAAT
Found at i:60687 original size:22 final size:22
Alignment explanation
Indices: 60659--60700 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
60649 TATATGAATT
60659 ATTGATATT-TATAACAATTAAA
1 ATTGATATTATATAA-AATTAAA
60681 ATTGATATTATATAAAATTA
1 ATTGATATTATATAAAATTA
60701 CCTATTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTGATATTATATAAAATTAAA
Found at i:60983 original size:18 final size:19
Alignment explanation
Indices: 60953--60991 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
60943 TATTAAGTTT
60953 TATTATCTTAATTATTAAA
1 TATTATCTTAATTATTAAA
60972 TATTAT-TTAATTATTAAA
1 TATTATCTTAATTATTAAA
60990 TA
1 TA
60992 ATAAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTATCTTAATTATTAAA
Found at i:61000 original size:18 final size:18
Alignment explanation
Indices: 60961--61000 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
60951 TTTATTATCT
* **
60961 TAATTATTAAATATTATT
1 TAATTATTAAATAATAAA
60979 TAATTATTAAATAATAAA
1 TAATTATTAAATAATAAA
60997 TAAT
1 TAAT
61001 AATATATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATTATTAAATAATAAA
Found at i:61083 original size:16 final size:16
Alignment explanation
Indices: 61045--61113 Score: 63
Period size: 16 Copynumber: 4.3 Consensus size: 16
61035 ATAATAATAG
*
61045 TTATATTTATATTATTA
1 TTATAATTA-ATTATTA
61062 TTATAATTAATTA-TA
1 TTATAATTAATTATTA
*
61077 TTAATAATT-ATTGTTA
1 TT-ATAATTAATTATTA
*
61093 TTATATAGTAA-TATTA
1 TTATA-ATTAATTATTA
61109 TTATA
1 TTATA
61114 TAATTTATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
15 10 0.23
16 25 0.57
17 9 0.20
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTATAATTAATTATTA
Found at i:61121 original size:25 final size:25
Alignment explanation
Indices: 61053--61124 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 25
61043 AGTTATATTT
* *
61053 ATATTATTATTATAATTAATTATATTA
1 ATATTATTA-TATAATTTA-TATAGTA
*
61080 ATAATTATTGT-T-A-TTATATAGTA
1 AT-ATTATTATATAATTTATATAGTA
61103 ATATTATTATATAATTTATATA
1 ATATTATTATATAATTTATATA
61125 ATTATCGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
22 7 0.19
23 9 0.24
24 3 0.08
25 8 0.22
26 1 0.03
27 3 0.08
28 6 0.16
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (25 bp):
ATATTATTATATAATTTATATAGTA
Found at i:61126 original size:42 final size:44
Alignment explanation
Indices: 61057--61171 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 44
61047 ATATTTATAT
* *
61057 TATTATTATAATTAATTATATTAATAATTATTG-TTATTATATAG-TAA
1 TATTATTAT-AGTAATTATA-T-ATAATTATCGATTA-TAT-TAGATAA
61104 TATTATTATA-TAATT-TATATAATTATCGATTATATTAGATAA
1 TATTATTATAGTAATTATATATAATTATCGATTATATTAGATAA
* *
61146 TATTATAATAGTAATTATAAATAATT
1 TATTATTATAGTAATTATATATAATT
61172 TATAATTAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
41 3 0.05
42 24 0.39
43 9 0.15
44 10 0.16
45 5 0.08
46 1 0.02
47 9 0.15
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (44 bp):
TATTATTATAGTAATTATATATAATTATCGATTATATTAGATAA
Found at i:61291 original size:18 final size:17
Alignment explanation
Indices: 61249--61293 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
61239 TAATAAAGTG
* *
61249 TATTAATATTTATATTA
1 TATTAATAATTATAGTA
61266 TATATAATAATTATAGTA
1 TAT-TAATAATTATAGTA
61284 TAATTAATAA
1 T-ATTAATAA
61294 CTTAATGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 19 0.79
19 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
TATTAATAATTATAGTA
Found at i:61342 original size:23 final size:23
Alignment explanation
Indices: 61316--61378 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
61306 TTGAGCTTAT
*
61316 TAGTAATTAATATAATA-TAAATA
1 TAGTAATT-ATAAAATATTAAATA
61339 TAGTAATTATAAAATATTAAATTTA
1 TAGTAATTATAAAATATTAAA--TA
61364 TA-TAATT-TAAAATAT
1 TAGTAATTATAAAATAT
61379 AATTATAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 7 0.19
23 20 0.56
24 5 0.14
25 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (23 bp):
TAGTAATTATAAAATATTAAATA
Found at i:61390 original size:11 final size:11
Alignment explanation
Indices: 61324--61396 Score: 51
Period size: 11 Copynumber: 6.1 Consensus size: 11
61314 ATTAGTAATT
61324 AATATAATATAA
1 AATATAAT-TAA
61336 ATATAGTAATTATA
1 A-ATA-TAATTA-A
61350 AA-AT-ATTAA
1 AATATAATTAA
61359 ATTTATATAATTTAA
1 A---ATATAA-TTAA
*
61374 AATATAATTAT
1 AATATAATTAA
61385 AATATAATTAA
1 AATATAATTAA
61396 A
1 A
61397 CAAAATAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 19
0.70 0.03 0.27
Matches are distributed among these distances:
9 2 0.04
10 4 0.08
11 15 0.30
12 9 0.18
13 8 0.16
14 7 0.14
15 5 0.10
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (11 bp):
AATATAATTAA
Found at i:61407 original size:25 final size:27
Alignment explanation
Indices: 61372--61421 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
61362 TATATAATTT
61372 AAAATATAATTA-TAATA-TAATTAAAC
1 AAAATATAATTACT-ATACTAATTAAAC
61398 AAAATA-AATTACTATACTAATTAA
1 AAAATATAATTACTATACTAATTAA
61422 GTTATACGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (27 bp):
AAAATATAATTACTATACTAATTAAAC
Found at i:62079 original size:21 final size:22
Alignment explanation
Indices: 62045--62091 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
62035 TATTTAATTT
62045 TATTATATATAATTCTTTAAAG
1 TATTATATATAATTCTTTAAAG
* *
62067 TATTA-ATTTAATTCTTTAAAT
1 TATTATATATAATTCTTTAAAG
62088 TATT
1 TATT
62092 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTATATATAATTCTTTAAAG
Found at i:62411 original size:15 final size:15
Alignment explanation
Indices: 62378--62432 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
62368 CTAATCTAAC
62378 ATTAATAAAAATGTT-
1 ATTAATAAAAAT-TTA
62393 ATTAATAAAAATTTA
1 ATTAATAAAAATTTA
* *
62408 ATTATTAATAA-TTA
1 ATTAATAAAAATTTA
*
62422 A-TAATATAAAT
1 ATTAATAAAAAT
62433 AGTTTTGTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
13 6 0.18
14 6 0.18
15 21 0.64
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
ATTAATAAAAATTTA
Found at i:63319 original size:15 final size:14
Alignment explanation
Indices: 63278--63324 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 14
63268 ATTATATATA
*
63278 ATTAATATTAAA--
1 ATTAATATAAAATT
63290 ATTAAT-TAAAATT
1 ATTAATATAAAATT
63303 ATTAATATAATAATT
1 ATTAATATAA-AATT
63318 ATTAATA
1 ATTAATA
63325 AGTAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 4 0.13
12 6 0.20
13 6 0.20
14 3 0.10
15 11 0.37
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTAATATAAAATT
Found at i:63338 original size:35 final size:33
Alignment explanation
Indices: 63268--63349 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 33
63258 TTATAATCAA
*
63268 ATTATATATAATTAATATTAAAATTAATTAAAATT
1 ATTA-ATATAA-TAATATTAAAAGTAATTAAAATT
*
63303 ATTAATATAATAATTATTAATAAGTAATTTAAATT
1 ATTAATATAATAA-TATTAA-AAGTAATTAAAATT
*
63338 ATTACTA-AATAA
1 ATTAATATAATAA
63350 AGAAAATTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
33 3 0.07
34 17 0.40
35 22 0.52
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (33 bp):
ATTAATATAATAATATTAAAAGTAATTAAAATT
Found at i:63849 original size:181 final size:178
Alignment explanation
Indices: 63639--64109 Score: 484
Period size: 181 Copynumber: 2.6 Consensus size: 178
63629 CAAAAATTAA
* *
63639 TAAGAGATTTAAAAAATGAATCTGTTTGCCAAACCAATTCAAATAGTTATGACTGTTTGAACAAT
1 TAAGAGATTTAAAAAAT-AATTTGTTTGCCAAACCAATTCAAATAGTTATGACTATTTGAACAAT
* * * **
63704 TTTATACTTCAAATCATTATAACCTTTTGTTATGTCATAAAAAAATTATT-TCTGTTCATA-TAA
65 TATATATTTCAAATTATTATAACCTTTTGTT-TGTCATAAAAAAATT-TTCTCAATTCATACT-A
* *
63767 GCTTATTCAAAATAAAACAATACT-AACCTAATAATATTCTAAAAATTAATAAC
127 GCTTATTCAAAATAAAACAA-AATGAACCTAATAATATTC-AAAAAATAATAAC
* * * * *
63820 TAAGGGATTTAAAAAATAAATTTGTTTGCCGAACTAATTCAAATAGTTAAGACTATATGAACAAT
1 TAAGAGATTTAAAAAAT-AATTTGTTTGCCAAACCAATTCAAATAGTTATGACTATTTGAACAAT
** * * * *
63885 TACCTATTTCAAATTGTTATGACCTTTTGTCTTATCATAAAACAATTTTCTCAATTCATACTAGC
65 TATATATTTCAAATTATTATAACCTTTTGT-TTGTCATAAAAAAATTTTCTCAATTCATACTAGC
* * ** * * *
63950 TTATTCGAAATAAAATAAAATGAATTTATTAATTTTCAAAAAATAATAAG
129 TTATTCAAAATAAAACAAAATGAACCTAATAATATTCAAAAAATAATAAC
* * * * * *
64000 TATGAGATTTAAAAAATAATTCTGTTTACCTAGCCAGTTCAAA-AATTAT-ACTATTTGAACAAT
1 TAAGAGATTTAAAAAATAATT-TGTTTGCCAAACCAATTCAAATAGTTATGACTATTTGAACAAT
* * * *
64063 TATATATTTCAAATTATTATTACTTTTTGTTTTGTTATAAAATAATT
65 TATATATTTCAAATTATTATAACCTTTTG-TTTGTCATAAAAAAATT
64110 GATAGCTAAT
Statistics
Matches: 238, Mismatches: 46, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
178 50 0.21
179 9 0.04
180 46 0.19
181 131 0.55
182 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.39
Consensus pattern (178 bp):
TAAGAGATTTAAAAAATAATTTGTTTGCCAAACCAATTCAAATAGTTATGACTATTTGAACAATT
ATATATTTCAAATTATTATAACCTTTTGTTTGTCATAAAAAAATTTTCTCAATTCATACTAGCTT
ATTCAAAATAAAACAAAATGAACCTAATAATATTCAAAAAATAATAAC
Found at i:64277 original size:23 final size:23
Alignment explanation
Indices: 64216--64278 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
64206 TATTAATTTA
*
64216 TAAT-ATAGTTATAA-AAACTAT
1 TAATAATATTTATAATAAACTAT
64237 TAATATATAATTTA-AATAAA-TAT
1 TAATA-AT-ATTTATAATAAACTAT
64260 TAATAATATCTTATAATAA
1 TAATAATAT-TTATAATAA
64279 TAATTAAGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
21 6 0.17
22 5 0.14
23 17 0.49
24 7 0.20
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (23 bp):
TAATAATATTTATAATAAACTAT
Found at i:64360 original size:18 final size:17
Alignment explanation
Indices: 64311--64362 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
64301 AATATAGAGA
64311 TTATAATATTAATAA-T
1 TTATAATATTAATAATT
*
64327 TTA-AATAGTAACTAATT
1 TTATAATATTAA-TAATT
64344 TTATAATAATTAATAATT
1 TTATAAT-ATTAATAATT
64362 T
1 T
64363 AAATATCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 7 0.23
16 6 0.20
17 4 0.13
18 9 0.30
19 4 0.13
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
TTATAATATTAATAATT
Found at i:64484 original size:16 final size:17
Alignment explanation
Indices: 64465--64516 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
64455 TTATTTATGT
64465 TTATA-ATTATATAAAA
1 TTATACATTATATAAAA
*
64481 TTATACATAATATAAATA
1 TTATACATTATATAAA-A
* *
64499 ATATATATT-TATAAAA
1 TTATACATTATATAAAA
64515 TT
1 TT
64517 TTCATTAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 7 0.24
17 15 0.52
18 7 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
TTATACATTATATAAAA
Found at i:64755 original size:11 final size:12
Alignment explanation
Indices: 64734--64819 Score: 56
Period size: 12 Copynumber: 7.2 Consensus size: 12
64724 ATATATATTG
64734 TTATATTTATAA
1 TTATATTTATAA
64746 TTAT-TTTATAAA
1 TTATATTTAT-AA
* * *
64758 TAAGATATATAA
1 TTATATTTATAA
* *
64770 TATACATATATAA
1 T-TATATTTATAA
64783 -TATA--TATAGA
1 TTATATTTATA-A
64793 -TATATTTATAA
1 TTATATTTATAA
64804 TTATATTTATATA
1 TTATATTTATA-A
64817 TTA
1 TTA
64820 AATATAAATT
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
9 4 0.07
10 5 0.08
11 9 0.15
12 25 0.42
13 17 0.28
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (12 bp):
TTATATTTATAA
Found at i:64796 original size:15 final size:13
Alignment explanation
Indices: 64762--64786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64752 TATAAATAAG
64762 ATATATAATATAC
1 ATATATAATATAC
64775 ATATATAATATA
1 ATATATAATATA
64787 TATAGATATA
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATATAATATAC
Found at i:65063 original size:18 final size:18
Alignment explanation
Indices: 65014--65064 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
65004 AATTGTTATT
*
65014 ATTAAGATGATAATAATA
1 ATTAAGATAATAATAATA
*
65032 ATGT--TATAATTAATAATA
1 AT-TAAGATAA-TAATAATA
65050 ATTAAGATAATAATA
1 ATTAAGATAATAATA
65065 TAGTTTGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
17 4 0.15
18 17 0.65
19 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (18 bp):
ATTAAGATAATAATAATA
Found at i:65135 original size:25 final size:24
Alignment explanation
Indices: 65077--65136 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
65067 GTTTGTCATT
* *
65077 ATTATAACTATTAAACTATTATAAC
1 ATTATAA-TATTAAAATATTATAAA
65102 ATTATTAATATGTAAAATA-TATAATA
1 ATTA-TAATAT-TAAAATATTATAA-A
65128 ATTATAATA
1 ATTATAATA
65137 AATATTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (24 bp):
ATTATAATATTAAAATATTATAAA
Found at i:65343 original size:22 final size:22
Alignment explanation
Indices: 65312--65356 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
65302 ATATCTCAAT
* *
65312 TATTATTAATAATTATTATATA
1 TATTACTAATAATTAATATATA
65334 TATTACTAATAATTAATATATA
1 TATTACTAATAATTAATATATA
65356 T
1 T
65357 TAGTTAAATA
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:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTACTAATAATTAATATATA
Found at i:65366 original size:22 final size:21
Alignment explanation
Indices: 65312--65366 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
65302 ATATCTCAAT
*
65312 TATTATT-AATAATTATTATA
1 TATTATTAAATAATTAATATA
65332 TA-TATTACTAATAATTAATATA
1 TATTATTA--AATAATTAATATA
65354 TATTAGTTAAATA
1 TATTA-TTAAATA
65367 TAACGATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
19 4 0.14
20 2 0.07
22 18 0.62
23 2 0.07
24 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTATTAAATAATTAATATA
Found at i:66087 original size:67 final size:68
Alignment explanation
Indices: 66003--66138 Score: 195
Period size: 68 Copynumber: 2.0 Consensus size: 68
65993 AATTGATACA
*
66003 TTCAACTTTTCCCCAAAAATATTCTTTTG-AAACTTT-AATTTCGAGGAAAATTGATACTTTCAA
1 TTCAACTTTTCCCCAAAAATATT-TTTTGAAAACTTTGAATTTCAAGGAAAATTGATACTTTCAA
66066 CTTT
65 CTTT
* * * * *
66070 TTCAACTTTTTCTCAAAAATATTTTTTGAAAATTTTGATTTTCAAGTAAAATTGATACTTTCAAC
1 TTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTGAATTTCAAGGAAAATTGATACTTTCAAC
66135 TTT
66 TTT
66138 T
1 T
66139 CCCAAAAATG
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
66 5 0.08
67 27 0.44
68 29 0.48
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.46
Consensus pattern (68 bp):
TTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTGAATTTCAAGGAAAATTGATACTTTCAAC
TTT
Found at i:66213 original size:60 final size:61
Alignment explanation
Indices: 66069--66237 Score: 238
Period size: 59 Copynumber: 2.8 Consensus size: 61
66059 CTTTCAACTT
*
66069 TTTCAACTTTTTCTCAAAAATA-TTTTTTGAAAA-TTTTGATTTTCAAGTAAAATTGATAC
1 TTTCAACTTTTTCTCAAAAATATTTTTTTGAAAACTTTTGATTTTCAAGAAAAATTGATAC
* * *
66128 TTTCAAC-TTTTCCCAAAAATGTTTTTTTGAAAACTTTT-ATTTTCGAGAAAAATTGATAC
1 TTTCAACTTTTTCTCAAAAATATTTTTTTGAAAACTTTTGATTTTCAAGAAAAATTGATAC
* * *
66187 TTTCAACTTTTTCTCAAAAATATTTTTTTTAAAATCTTTTTATCTTCAAGA
1 TTTCAACTTTTTCTCAAAAATATTTTTTTGAAAA-CTTTTGATTTTCAAGA
66238 GTTATTTAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
58 12 0.12
59 44 0.46
60 27 0.28
61 5 0.05
62 8 0.08
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (61 bp):
TTTCAACTTTTTCTCAAAAATATTTTTTTGAAAACTTTTGATTTTCAAGAAAAATTGATAC
Found at i:68216 original size:18 final size:18
Alignment explanation
Indices: 68193--68227 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
68183 TTTTTTTTCT
*
68193 CCTATTCGGATTCCTCCC
1 CCTATTCAGATTCCTCCC
68211 CCTATTCAGATTCCTCC
1 CCTATTCAGATTCCTCC
68228 TCTATCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.43, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTATTCAGATTCCTCCC
Found at i:68743 original size:30 final size:31
Alignment explanation
Indices: 68701--68760 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
68691 ATTGCTTGGA
68701 TAAATTTAAATAAATAATTTACT-AATTTAT
1 TAAATTTAAATAAATAATTTACTAAATTTAT
* *
68731 TAAAGTTT-AATAAGTAATTTATTAAATTTA
1 TAAA-TTTAAATAAATAATTTACTAAATTTA
68761 ATTGTCCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (31 bp):
TAAATTTAAATAAATAATTTACTAAATTTAT
Found at i:69011 original size:15 final size:15
Alignment explanation
Indices: 68989--69021 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
68979 CATTTTATTA
68989 ATTA-ATAAATAATT
1 ATTATATAAATAATT
69003 ATTATATAAATAATT
1 ATTATATAAATAATT
69018 -TTAT
1 ATTAT
69022 CATTATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATATAAATAATT
Found at i:69174 original size:19 final size:18
Alignment explanation
Indices: 69141--69185 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
69131 AAGCTTGTAT
*
69141 ATATATTAAATTAAAATAA
1 ATAT-TTAAAATAAAATAA
*
69160 CATATTTAAAATAAATTAA
1 -ATATTTAAAATAAAATAA
69179 ATATTTA
1 ATATTTA
69186 TAATTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 12 0.52
20 4 0.17
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATTTAAAATAAAATAA
Found at i:69383 original size:3 final size:3
Alignment explanation
Indices: 69369--69430 Score: 96
Period size: 3 Copynumber: 22.0 Consensus size: 3
69359 TAATAATATA
69369 ATT ATT -TT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
69415 ATT ATT A-T ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT
69431 TATAATATCA
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 8 0.14
3 48 0.86
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:69578 original size:14 final size:14
Alignment explanation
Indices: 69540--69580 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
69530 AATATTATTT
69540 TAATTTAATTATATA
1 TAATTTAATTA-ATA
69555 TAA--TAATTAATA
1 TAATTTAATTAATA
69567 TAATTTAATTAATA
1 TAATTTAATTAATA
69581 ATATCGTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
14 9 0.38
15 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATTTAATTAATA
Found at i:70706 original size:19 final size:17
Alignment explanation
Indices: 70671--70721 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
70661 ATTAAATGTT
70671 TAATAATTATATAATTA
1 TAATAATTATATAATTA
70688 TAATAATTATAACTAATTA
1 TAATAATTAT-A-TAATTA
70707 TAA-ATATTA-ATAATT
1 TAATA-ATTATATAATT
70722 CAATATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.16
17 11 0.35
18 2 0.06
19 13 0.42
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATAATTATATAATTA
Found at i:70765 original size:18 final size:18
Alignment explanation
Indices: 70724--70765 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
70714 TAATAATTCA
70724 ATATTAATTAAAAAATTT
1 ATATTAATTAAAAAATTT
* *
70742 AAATTAATTATAAGAA-TT
1 ATATTAATTA-AAAAATTT
70760 ATATTA
1 ATATTA
70766 GGTTATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
ATATTAATTAAAAAATTT
Found at i:70816 original size:27 final size:26
Alignment explanation
Indices: 70785--70874 Score: 74
Period size: 29 Copynumber: 3.2 Consensus size: 26
70775 ATTGAATATT
70785 ATAATTTAATTAATAGATATATTATAA
1 ATAATTTAATTAATA-ATATATTATAA
* *
70812 ATAATTATAATATTATTAATATAATATAA
1 ATAATT-T-A-ATTAATAATATATTATAA
*
70841 ATAGATGTAATTATATAATCA-ATATATAA
1 ATA-ATTTAATTA-ATAAT-ATAT-TATAA
70870 ATAAT
1 ATAAT
70875 AATATAAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
27 10 0.20
28 9 0.18
29 24 0.47
30 8 0.16
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.42
Consensus pattern (26 bp):
ATAATTTAATTAATAATATATTATAA
Found at i:70940 original size:14 final size:15
Alignment explanation
Indices: 70921--70992 Score: 73
Period size: 14 Copynumber: 4.9 Consensus size: 15
70911 AGTTAATATT
70921 TTATATAT-ATTATA
1 TTATATATAATTATA
70935 TTATATATAAATTATA
1 TTATATAT-AATTATA
*
70951 TTA-ATTTAATT-TAA
1 TTATATATAATTAT-A
70965 TTA-ATATATATTATA
1 TTATATATA-ATTATA
70980 TTATA-ATAATTAT
1 TTATATATAATTAT
70993 TATTTTAATT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
13 1 0.02
14 25 0.50
15 13 0.26
16 11 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATATATAATTATA
Found at i:70989 original size:29 final size:30
Alignment explanation
Indices: 70934--70990 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
70924 TATATATTAT
*
70934 ATTATATATAAATTATATTAATTTAATTTA
1 ATTATATATAAATTATATTAATATAATTTA
*
70964 ATTA-ATATATATTATATT-ATAATAATT
1 ATTATATATAAATTATATTAAT-ATAATT
70991 ATTATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 18 0.75
30 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
ATTATATATAAATTATATTAATATAATTTA
Found at i:71156 original size:17 final size:17
Alignment explanation
Indices: 71136--71202 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
71126 AATATAAGTC
71136 TTATATTAGTAATATTA
1 TTATATTAGTAATATTA
71153 TTATACTTA-TATATATTA
1 TTATA-TTAGTA-ATATTA
* *
71171 TAATATAAGTAATATTA
1 TTATATTAGTAATATTA
* * *
71188 ATAAATTAGTTATAT
1 TTATATTAGTAATAT
71203 CATATTAAGA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
17 25 0.62
18 15 0.38
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (17 bp):
TTATATTAGTAATATTA
Found at i:71769 original size:21 final size:22
Alignment explanation
Indices: 71745--71790 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
71735 TTCTTAGTTA
*
71745 TAAATCTAATTGTATTT-ATTT
1 TAAATATAATTGTATTTAATTT
* *
71766 TAAATATTATTTTATTTAATTT
1 TAAATATAATTGTATTTAATTT
71788 TAA
1 TAA
71791 TAATCAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TAAATATAATTGTATTTAATTT
Found at i:71965 original size:14 final size:15
Alignment explanation
Indices: 71946--71981 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
71936 TTGTATTTTA
71946 AATTATTATT-TAAT
1 AATTATTATTATAAT
71960 AATTATTATTATAAT
1 AATTATTATTATAAT
71975 AA-TATTA
1 AATTATTA
71982 AATCTAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTATTATTATAAT
Found at i:73573 original size:54 final size:52
Alignment explanation
Indices: 73472--73573 Score: 116
Period size: 54 Copynumber: 1.9 Consensus size: 52
73462 AATAAGTTAA
* * *
73472 ATTATTATTTTATCAAATAAAATTAATCAATAGTATTTAACTGATAAACTACT
1 ATTATTATATTATCAAATAAAATTAA-CAATAGTATTTAAATAATAAACTACT
* *
73525 ATTATTATATTATCATAATATAATTAA-AATTATTTATTTAAATAATAAA
1 ATTATTATATTATCA-AATAAAATTAACAA-TA-GTATTTAAATAATAAA
73574 TTTAAAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.05
53 16 0.39
54 23 0.56
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (52 bp):
ATTATTATATTATCAAATAAAATTAACAATAGTATTTAAATAATAAACTACT
Found at i:74544 original size:39 final size:40
Alignment explanation
Indices: 74472--74547 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
74462 TTCAATATGC
* *
74472 TTATTTATTAAACCCAATTATTGGATAATAATTATATGTT
1 TTATTAATTAAACCCAATTATTAGATAATAATTATATGTT
74512 TTATTAATTAAACCACAATTATTAGAT-A-AATTATAT
1 TTATTAATTAAACC-CAATTATTAGATAATAATTATAT
74548 TATGATTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 8 0.24
40 14 0.42
41 11 0.33
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (40 bp):
TTATTAATTAAACCCAATTATTAGATAATAATTATATGTT
Found at i:74827 original size:17 final size:17
Alignment explanation
Indices: 74785--74837 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
74775 AAATAATTGT
74785 TATAATTAA--ATAATAA
1 TATAATTAATTATAAT-A
*
74801 TCTAATTTAATTATAATA
1 TATAA-TTAATTATAATA
*
74819 TATAATTAATTAAAATA
1 TATAATTAATTATAATA
74836 TA
1 TA
74838 ATATAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 4 0.13
17 17 0.55
18 5 0.16
19 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TATAATTAATTATAATA
Found at i:74828 original size:22 final size:23
Alignment explanation
Indices: 74787--74842 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
74777 ATAATTGTTA
74787 TAATTA-AATA-ATAATCTAATT
1 TAATTATAATATATAATCTAATT
74808 TAATTATAATATATAAT-TAATT
1 TAATTATAATATATAATCTAATT
* *
74830 AAAATATAATATA
1 TAATTATAATATA
74843 AATATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 6 0.19
22 20 0.65
23 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATTATAATATATAATCTAATT
Found at i:76601 original size:21 final size:22
Alignment explanation
Indices: 76577--76632 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
76567 ACAAATAATT
76577 ATAATTATT-TTATATACTAAA
1 ATAATTATTATTATATACTAAA
*
76598 ATAATTAAGTTATTATATATTAAA
1 ATAATT-A-TTATTATATACTAAA
76622 ATAATATATTA
1 ATAAT-TATTA
76633 AGAATTATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.20
22 1 0.03
23 5 0.17
24 17 0.57
25 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
ATAATTATTATTATATACTAAA
Found at i:76884 original size:23 final size:24
Alignment explanation
Indices: 76820--76884 Score: 57
Period size: 23 Copynumber: 2.8 Consensus size: 24
76810 AGATCTATTT
76820 ATAATTATTATTTACAATAATATCTA
1 ATAATT-TTATTTACAATAATA-CTA
*
76846 ATAA-TTTA-TTAGAATAA-A-TA
1 ATAATTTTATTTACAATAATACTA
*
76866 ATAATTGTTATTTATAATA
1 ATAATT-TTATTTACAATA
76885 TTATGATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
20 6 0.18
21 1 0.03
22 4 0.12
23 15 0.44
24 3 0.09
25 1 0.03
26 4 0.12
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (24 bp):
ATAATTTTATTTACAATAATACTA
Found at i:77392 original size:18 final size:19
Alignment explanation
Indices: 77358--77393 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
77348 TAATAGTCAT
77358 ATATTAGTTAATATTTATA
1 ATATTAGTTAATATTTATA
*
77377 ATATTA-TTACTATTTAT
1 ATATTAGTTAATATTTAT
77394 TATAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
ATATTAGTTAATATTTATA
Found at i:77470 original size:14 final size:15
Alignment explanation
Indices: 77429--77538 Score: 56
Period size: 14 Copynumber: 7.3 Consensus size: 15
77419 ATGTAATAAT
77429 TTAATAA-ATTATTA
1 TTAATAATATTATTA
77443 -TAATTAA-A-TATTA
1 TTAA-TAATATTATTA
77456 TTAATAATATT-TTA
1 TTAATAATATTATTA
* *
77470 TGAATCATATTAATTA
1 TTAATAATATT-ATTA
77486 TT-ATAATATGTAATTA
1 TTAATAATAT-T-ATTA
**
77502 -TAATTGTA-TATTA
1 TTAATAATATTATTA
77515 TATAATAATTATTTATTA
1 T-TAATAA-TA-TTATTA
77533 TATAAT
1 T-TAAT
77539 TTAATTGGAC
Statistics
Matches: 75, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
13 15 0.20
14 21 0.28
15 12 0.16
16 16 0.21
18 11 0.15
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (15 bp):
TTAATAATATTATTA
Found at i:77503 original size:13 final size:13
Alignment explanation
Indices: 77484--77516 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
77474 TCATATTAAT
77484 TATTATAATATGTA
1 TATTATAAT-TGTA
77498 -ATTATAATTGTA
1 TATTATAATTGTA
77510 TATTATA
1 TATTATA
77517 TAATAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (13 bp):
TATTATAATTGTA
Found at i:77522 original size:18 final size:18
Alignment explanation
Indices: 77501--77538 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
77491 ATATGTAATT
*
77501 ATAATTGTATATTATATA
1 ATAATTATATATTATATA
*
77519 ATAATTATTTATTATATA
1 ATAATTATATATTATATA
77537 AT
1 AT
77539 TTAATTGGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATAATTATATATTATATA
Found at i:77561 original size:40 final size:40
Alignment explanation
Indices: 77480--77562 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
77470 TGAATCATAT
* * *
77480 TAATTATTATAATATGTAATTATAATTGTATATTATATAA
1 TAATTATTATAATATATAATTATAATTGGACATTATATAA
*
77520 TAATTATT-TATTATATAATT-TAATTGGACATATATATTAA
1 TAATTATTATAATATATAATTATAATTGGACAT-TATA-TAA
77560 TAA
1 TAA
77563 GTAAATAACA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
38 9 0.24
39 14 0.38
40 14 0.38
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (40 bp):
TAATTATTATAATATATAATTATAATTGGACATTATATAA
Found at i:77663 original size:29 final size:28
Alignment explanation
Indices: 77630--77715 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
77620 ACTATTAACT
77630 ATTAATATTATAATTAATTATAAGTTATA
1 ATTAA-ATTATAATTAATTATAAGTTATA
*
77659 ATTAAATTTTAATTTAATTATTAA--TAGTA
1 ATTAAATTATAA-TTAATTA-TAAGTTA-TA
* *
77688 ATTAAGTTAT--TTTATTATAAGTTATA
1 ATTAAATTATAATTAATTATAAGTTATA
77714 AT
1 AT
77716 AATAATTGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
25 3 0.06
26 10 0.21
27 2 0.04
28 8 0.17
29 22 0.46
30 3 0.06
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (28 bp):
ATTAAATTATAATTAATTATAAGTTATA
Found at i:77905 original size:24 final size:20
Alignment explanation
Indices: 77875--77925 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
77865 ATTAAGCGTG
77875 TAATTTATTAATATACTAAATAA
1 TAATTTA-TAATA-A-TAAATAA
*
77898 TATATTTATAATAATAATTAA
1 TA-ATTTATAATAATAAATAA
77919 TAATTTA
1 TAATTTA
77926 ATTACTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.19
21 8 0.31
22 1 0.04
23 7 0.27
24 5 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATTTATAATAATAAATAA
Found at i:78600 original size:15 final size:15
Alignment explanation
Indices: 78580--78614 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
78570 AATATATTAC
78580 AATTTATAATG-TTAT
1 AATTTATAATGATT-T
78595 AATTTATAATGATTT
1 AATTTATAATGATTT
78610 AATTT
1 AATTT
78615 TACAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 17 0.89
16 2 0.11
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (15 bp):
AATTTATAATGATTT
Found at i:78906 original size:18 final size:18
Alignment explanation
Indices: 78882--78931 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
78872 TAATATTTGG
78882 ATAATATTATTATAAATA
1 ATAATATTATTATAAATA
* * *
78900 TTAATATAATTAATTAATA
1 ATAATATTATT-ATAAATA
78919 ATAA-ATTATTATA
1 ATAATATTATTATA
78932 TTTTTATTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
17 2 0.08
18 14 0.56
19 9 0.36
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAATATTATTATAAATA
Found at i:79427 original size:176 final size:177
Alignment explanation
Indices: 79155--79575 Score: 419
Period size: 176 Copynumber: 2.4 Consensus size: 177
79145 TTGTTCTGAC
* * * *
79155 TAAGCTTGTATGAACTGAAAACAATTGTTTTATGACT-AAACAAAAGATCAAAATGATATGAAAT
1 TAAGCTTGTATGAAC--AAAACAATTGTTTTATGA-TAAAACAAAAGGTCATAACGATTTGAAAT
* *
79219 AGATAATTATTCCAATAATTTTAAACATTTGAACTGATTTAGTA-AA-CAAATTTATTTTTTGAA
63 AGATAATCATTCCAATAATTTT-AACATTTGAACTG-GTTAG-ACAATCAAATTTATTTTTT-AA
* * * *
79282 -TC-T-CTTATTAATTTTCAAAATATTATTAAATTAGTATTCTTTTAATCCAAA
124 TTCTTGATTATTAAGTTTCAAAATATTATTAAATTAATATTATTTTAATCCAAA
* * *
79333 TAAGCTTGTACGAACAAAACAATTGTTTTATGTTAAAAGAAAAGGTCATAACGATTTGAAATAGA
1 TAAGCTTGTATGAACAAAACAATTGTTTTATGATAAAACAAAAGGTCATAACGATTTGAAATAGA
* * *
79398 TAATCATT-C-ATAGAGTCTTT-ACTATTTGAACTGGTTCGACAATTAGATTTATTTTTTAATTT
66 TAATCATTCCAATA-A-T-TTTAAC-ATTTGAACTGGTTAGACAATCAAATTTATTTTTTAA--T
* *
79460 TCTTGATTATTAAGTTTCAAAATATTATTAAATTAATATTATTTTATTCTAAA
125 TCTTGATTATTAAGTTTCAAAATATTATTAAATTAATATTATTTTAATCCAAA
** * * * * * *
79513 TAAAATAGTATGAACATAACCAATTGTTTGATGATAAAATAAAAAGTTATAACGATTTGAAAT
1 TAAGCTTGTATGAACA-AAACAATTGTTTTATGATAAAACAAAAGGTCATAACGATTTGAAAT
79576 GGTTTGGTAA
Statistics
Matches: 202, Mismatches: 28, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
174 4 0.02
175 12 0.06
176 72 0.36
177 3 0.01
178 16 0.08
179 1 0.00
180 54 0.27
181 40 0.20
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (177 bp):
TAAGCTTGTATGAACAAAACAATTGTTTTATGATAAAACAAAAGGTCATAACGATTTGAAATAGA
TAATCATTCCAATAATTTTAACATTTGAACTGGTTAGACAATCAAATTTATTTTTTAATTCTTGA
TTATTAAGTTTCAAAATATTATTAAATTAATATTATTTTAATCCAAA
Found at i:80280 original size:181 final size:180
Alignment explanation
Indices: 80054--80836 Score: 756
Period size: 181 Copynumber: 4.3 Consensus size: 180
80044 ATTAAATCTC
* * * * *
80054 TATTAATTTTTGA-AATATTAATAAATTAATATTATTTTATTTCGAACAAACTTATATGAACAAA
1 TATTAA-TTTTCATAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACAAA
* *
80118 AACATTTGTTTTATGACAAAACAAAAGGTTATAACGATTTGAAATAGATAATTATTCATATAGCC
65 AACAATTGTTTTATGACAAAACAAAAGGTTATAACGATTTGAAATAGATAATTATTCAAATAGCC
* * * * *
80183 TTAACTATTTGAATTGGTTCAATAAACAAATTTATTTTTTAAATCTATCAGT
130 ATAACTATTTGAACTGATTCGATAAACAAATTTATTTTTTAAATCT-TCACT
* * * * *
80235 TATTAAATTTCATAATATTACTAGATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAGATAA
1 TATTAATTTTCATAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACAAAA
* * * * * * *
80300 ATAATTGTTTTATGACAAAACAAAATGTTATAACGATTGGAAACATATAATTATTTAAATAGTCA
66 ACAATTGTTTTATGACAAAACAAAAGGTTATAACGATTTGAAATAGATAATTATTCAAATAGCCA
* * *
80365 TAACTATTTGAACTGATTTGATAAACATATTTATTTTTTAAATCTCCTACT
131 TAACTATTTGAACTGATTCGATAAACAAATTTATTTTTTAAATCTTC-ACT
* * * * **
80416 CATTAATTTTTCA-AATATTAAGAAATTAGTATTATTTTA-TTCTGAATAGGTTTGTATGATGAA
1 TATTAA-TTTTCATAATATTAATAAATTAGTATTATTTTATTTC-GAATAAGCTTGTATGAACAA
* * *
80479 AAACAATTGTTTTATGACAAAACAAAA-GTTCATAATGATTTGAAATAGATAATTATTTAAATGG
64 AAACAATTGTTTTATGACAAAACAAAAGGTT-ATAACGATTTGAAATAGATAATTATTCAAATAG
* * ** * *
80543 CCATAATTATTTGAACAGATTCGATAAACTGATTTATGTTTTAAATCTCTAACT
128 CCATAACTATTTGAACTGATTCGATAAACAAATTTATTTTTTAAATCT-TCACT
* * * * * **
80597 TATCAATTTTTATAATATTAATAAAGTAGTATTATTTTATTT-TAGATAAGCTTTTATGAACTGA
1 TATTAATTTTCATAATATTAATAAATTAGTATTATTTTATTTCGA-ATAAGCTTGTATGAACAAA
* * * * * * * * *
80661 AACAATTGCTTTATGATAAAATATAAGGTCATAACAATTTTAAATAAATAATTATTCAAATAGTC
65 AACAATTGTTTTATGACAAAACAAAAGGTTATAACGATTTGAAATAGATAATTATTCAAATAGCC
* * * * * *
80726 AAAAATATTTGAACTTG-TTC-AGTAAATAGATTTTTTTTTCTAATTTCTT-ACT
130 ATAACTATTTGAAC-TGATTCGA-TAAACAAATTTATTTTT-TAA-ATCTTCACT
* * * * * *
80778 TAATAATTTT-TTAAATGTTAATAAATTAGTATTATTTTATTTCAAATAAACATGTATGA
1 TATTAATTTTCAT-AATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGA
80837 GTTGAAGCAA
Statistics
Matches: 493, Mismatches: 93, Indels: 32
0.80 0.15 0.05
Matches are distributed among these distances:
180 19 0.04
181 456 0.92
182 15 0.03
183 3 0.01
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (180 bp):
TATTAATTTTCATAATATTAATAAATTAGTATTATTTTATTTCGAATAAGCTTGTATGAACAAAA
ACAATTGTTTTATGACAAAACAAAAGGTTATAACGATTTGAAATAGATAATTATTCAAATAGCCA
TAACTATTTGAACTGATTCGATAAACAAATTTATTTTTTAAATCTTCACT
Found at i:80536 original size:17 final size:18
Alignment explanation
Indices: 80509--80557 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
80499 AACAAAAGTT
*
80509 CATAATGATTTGAAATAG
1 CATAATTATTTGAAATAG
*
80527 -ATAATTATTT-AAATGG
1 CATAATTATTTGAAATAG
80543 CCATAATTATTTGAA
1 -CATAATTATTTGAA
80558 CAGATTCGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 5 0.19
17 9 0.35
18 10 0.38
19 2 0.08
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (18 bp):
CATAATTATTTGAAATAG
Found at i:80836 original size:362 final size:362
Alignment explanation
Indices: 80029--80880 Score: 888
Period size: 362 Copynumber: 2.4 Consensus size: 362
80019 ACTAGTATGG
* * * *
80029 TAAATAGATTTATTTATTAAATCT-CTA-T---TAATTTTTGAAATATTAATAAATTAATATTAT
1 TAAACAGATTTATTTTTTAAATCTCCTACTCAATAATTTTTCAAATATTAATAAATTAGTATTAT
* * ** * *
80089 TTTATTTCGAACAAACTTATATGAACAAAAACATTTGTTTTATGACAAAACAAAAGGTT-ATAAC
66 TTTATTTCGAATAAACTTGTATGATGAAAAACAATTGTTTTATGACAAAACAAAA-GTTCATAAT
* * ** *
80153 GATTTGAAATAGATAATTATTCATATAGCCTTAACTATTTGAATTGGTTCAATAAACAAATTTAT
130 GATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACAGATTCAATAAACAAATTTAT
* * * * * * * *
80218 TTTTTAAATCTATCAGTTATTAAATTTCATAATATTACTAGATTAGTATTATTTTATTTCGAATA
195 GTTTTAAATCTATAACTTATCAAATTTCATAATATTAATAAAGTAGTATTATTTTATTTAGAATA
* * * * * *
80283 AGCTTGTATGAAGATAAATAATTGTTTTATGACAAAACAAAATGTTATAACGATTGGAAACATAT
260 AGCTTGTATGAAGATAAACAATTGCTTTATGACAAAACAAAAGGTCATAACAATTGGAAACAAAT
* * * *
80348 AATTATTTAAATAGTCATAACTATTTGAACTGATTTGA
325 AATTATTCAAATAGTCAAAAATATTTGAACTGATTAGA
* * *
80386 TAAACATATTTATTTTTTAAATCTCCTACTCATTAATTTTTCAAATATTAAGAAATTAGTATTAT
1 TAAACAGATTTATTTTTTAAATCTCCTACTCAATAATTTTTCAAATATTAATAAATTAGTATTAT
***
80451 TTTA-TTCTGAATAGGTTTGTATGATGAAAAACAATTGTTTTATGACAAAACAAAAGTTCATAAT
66 TTTATTTC-GAATAAACTTGTATGATGAAAAACAATTGTTTTATGACAAAACAAAAGTTCATAAT
* * * * **
80515 GATTTGAAATAGATAATTATTTAAATGGCCATAATTATTTGAACAGATTCGATAAACTGATTTAT
130 GATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACAGATTCAATAAACAAATTTAT
* * *
80580 GTTTTAAATCTCTAACTTATCAATTTTTATAATATTAATAAAGTAGTATTATTTTATTTTAG-AT
195 GTTTTAAATCTATAACTTATCAAATTTCATAATATTAATAAAGTAGTATTATTTTA-TTTAGAAT
* * * * * ** *
80644 AAGCTTTTATGAA-CTGAAACAATTGCTTTATGATAAAATATAAGGTCATAACAATTTTAAATAA
259 AAGCTTGTATGAAGAT-AAACAATTGCTTTATGACAAAACAAAAGGTCATAACAATTGGAAACAA
80708 ATAATTATTCAAATAGTCAAAAATATTTGAACTTG-TTCAG-
323 ATAATTATTCAAATAGTCAAAAATATTTGAAC-TGATT-AGA
* * * * * * *
80748 TAAATAGATTT-TTTTTTCTAATTTCTTACTTAATAATTTTTTAAATGTTAATAAATTAGTATTA
1 TAAACAGATTTATTTTTT-AAATCTCCTACTCAATAATTTTTCAAATATTAATAAATTAGTATTA
* * * * * *
80812 TTTTATTTCAAATAAACATGTATGAGTTG--AAGCAATTATTTTATGACTAAACAAAA-TGTCAA
65 TTTTATTTCGAATAAACTTGTATGA--TGAAAAACAATTGTTTTATGACAAAACAAAAGT-TCAT
80874 AATGATT
127 AATGATT
80881 ATTGATAATC
Statistics
Matches: 405, Mismatches: 74, Indels: 27
0.80 0.15 0.05
Matches are distributed among these distances:
357 21 0.05
358 3 0.01
359 1 0.00
361 14 0.03
362 354 0.87
363 10 0.02
364 2 0.00
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (362 bp):
TAAACAGATTTATTTTTTAAATCTCCTACTCAATAATTTTTCAAATATTAATAAATTAGTATTAT
TTTATTTCGAATAAACTTGTATGATGAAAAACAATTGTTTTATGACAAAACAAAAGTTCATAATG
ATTTGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACAGATTCAATAAACAAATTTATG
TTTTAAATCTATAACTTATCAAATTTCATAATATTAATAAAGTAGTATTATTTTATTTAGAATAA
GCTTGTATGAAGATAAACAATTGCTTTATGACAAAACAAAAGGTCATAACAATTGGAAACAAATA
ATTATTCAAATAGTCAAAAATATTTGAACTGATTAGA
Found at i:80965 original size:20 final size:18
Alignment explanation
Indices: 80915--80967 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
80905 TTGTATATTT
80915 AATTTATT-TTAAATATAC
1 AATTTATTATT-AATATAC
*
80933 AATATATTAATTAATATAC
1 AATTTATT-ATTAATATAC
80952 TAATTTTATTATTAAT
1 -AA-TTTATTATTAAT
80968 TATTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 7 0.24
19 7 0.24
20 10 0.34
21 5 0.17
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTTATTATTAATATAC
Done.