Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold212
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: 1080337
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 10 of 10
Found at i:1029738 original size:39 final size:39
Alignment explanation
Indices: 1029668--1029751 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
1029658 GATAATTTTA
*
1029668 AATATAATATAAAAAATATAATATAAATATAATATATTT
1 AATATAATATAAAAAATATAATATAAATATAACATATTT
* *
1029707 AATA-AATATAAAAAATAATAA-ATAAGGTATAACCTATTT
1 AATATAATATAAAAAAT-ATAATATAA-ATATAACATATTT
1029746 AATATA
1 AATATA
1029752 TTTTTAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
38 16 0.41
39 22 0.56
40 1 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (39 bp):
AATATAATATAAAAAATATAATATAAATATAACATATTT
Found at i:1030918 original size:19 final size:16
Alignment explanation
Indices: 1030871--1030904 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1030861 TTCACATTTT
1030871 TATTAAATATTTATTA
1 TATTAAATATTTATTA
1030887 TATTAAATATTTATTA
1 TATTAAATATTTATTA
1030903 TA
1 TA
1030905 AAATTACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTAAATATTTATTA
Found at i:1031208 original size:15 final size:17
Alignment explanation
Indices: 1031174--1031216 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
1031164 TTTAGTATAA
*
1031174 TAAATGTAATAGATTTT
1 TAAATATAATAGATTTT
*
1031191 TAAATTTAATA-A-TTT
1 TAAATATAATAGATTTT
1031206 TAAATATAATA
1 TAAATATAATA
1031217 TAATTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.54
16 1 0.04
17 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (17 bp):
TAAATATAATAGATTTT
Found at i:1031793 original size:37 final size:36
Alignment explanation
Indices: 1031701--1031802 Score: 112
Period size: 32 Copynumber: 3.0 Consensus size: 36
1031691 TAAGACATTA
1031701 TTATATAA-ATAAAATATTAA-AAAATA-ATTAAAA-
1 TTATATAATAT-AAATATTAATAAAATATATTAAAAT
* *
1031734 ATATATAAT-TAAATA-T-AT-AAATATTTTAAAAT
1 TTATATAATATAAATATTAATAAAATATATTAAAAT
1031766 TTATATAATATAAATTATTAATAAAATATATTAAAAT
1 TTATATAATATAAA-TATTAATAAAATATATTAAAAT
1031803 AATATAAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
30 6 0.11
31 7 0.12
32 13 0.23
33 12 0.21
34 2 0.04
35 1 0.02
36 2 0.04
37 13 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (36 bp):
TTATATAATATAAATATTAATAAAATATATTAAAAT
Found at i:1031813 original size:37 final size:36
Alignment explanation
Indices: 1031707--1031815 Score: 96
Period size: 37 Copynumber: 2.9 Consensus size: 36
1031697 ATTATTATAT
* *
1031707 AAATAAAATATTAAAAAATAATTAAAAATATATAATTA
1 AAATAAAATATT-TAAAATAA-TATAAATATATAATTA
*
1031745 AATATATAAATATTTTAAAAT-TTATATAATATA-AATTA
1 AA-ATA-AAATA-TTTAAAATAATATA-AATATATAATTA
*
1031783 TTAATAAAATATATTAAAATAATATAAATATAT
1 -AAATAAAATAT-TTAAAATAATATAAATATAT
1031816 GAATATGGTA
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
36 1 0.02
37 18 0.31
38 17 0.29
39 10 0.17
40 10 0.17
41 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (36 bp):
AAATAAAATATTTAAAATAATATAAATATATAATTA
Found at i:1039620 original size:2 final size:2
Alignment explanation
Indices: 1039613--1039642 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1039603 GCTCAAATCA
*
1039613 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1039643 CTCCTCACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1041496 original size:30 final size:30
Alignment explanation
Indices: 1041460--1041522 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
1041450 ATTCATTCAG
1041460 TTAAATTTAATTGATTTCAGTAAAATTTAA
1 TTAAATTTAATTGATTTCAGTAAAATTTAA
1041490 TTAAATTTAATTGATTTCAGTAAAATTTAA
1 TTAAATTTAATTGATTTCAGTAAAATTTAA
1041520 TTA
1 TTA
1041523 GATAAATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (30 bp):
TTAAATTTAATTGATTTCAGTAAAATTTAA
Found at i:1042328 original size:19 final size:19
Alignment explanation
Indices: 1042301--1042349 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
1042291 ATATATACAC
*
1042301 ATTATATATAATAAAAATT
1 ATTAAATATAATAAAAATT
**
1042320 ATTAAATAT-ATTTAAATT
1 ATTAAATATAATAAAAATT
1042338 -TTAAATATAATA
1 ATTAAATATAATA
1042350 TAATATAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 8 0.32
18 9 0.36
19 8 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTAAATATAATAAAAATT
Found at i:1042334 original size:10 final size:10
Alignment explanation
Indices: 1042321--1042419 Score: 60
Period size: 10 Copynumber: 9.1 Consensus size: 10
1042311 ATAAAAATTA
1042321 TTAAATATAT
1 TTAAATATAT
1042331 TT-AA-AT-T
1 TTAAATATAT
1042338 TTAAATATAAT
1 TTAAATAT-AT
1042349 ATAATATAATATAT
1 -T--TA-AATATAT
1042363 ATTAAATATAT
1 -TTAAATATAT
*
1042374 TTTAATAATAT
1 TTAAAT-ATAT
1042385 TTAAATATTATTAT
1 TT-AA-A-TA-TAT
*
1042399 TTAATTATAT
1 TTAAATATAT
1042409 TTAAATATAT
1 TTAAATATAT
1042419 T
1 T
1042420 ATGTTTATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 26
0.71 0.04 0.25
Matches are distributed among these distances:
7 3 0.04
8 4 0.06
9 4 0.06
10 20 0.28
11 16 0.22
12 4 0.06
13 4 0.06
14 12 0.17
15 5 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTAAATATAT
Found at i:1042366 original size:43 final size:45
Alignment explanation
Indices: 1042303--1042419 Score: 131
Period size: 45 Copynumber: 2.7 Consensus size: 45
1042293 ATATACACAT
*
1042303 TATATATAATA-AAAAT-TATTAAATATATTT-A-AAT-TTTAAA
1 TATATATAATATAATATATATTAAATATATTTAATAATATTTAAA
1042343 TATAATATAATATAATATATATTAAATATATTTTAATAATATTTAAA
1 TAT-ATATAATATAATATATATTAAATATA-TTTAATAATATTTAAA
* *
1042390 TAT-TATTATTTAAT-TATATTTAAATATATT
1 TATATATAATATAATATATA-TTAAATATATT
1042420 ATGTTTATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
40 3 0.05
41 8 0.12
42 4 0.06
43 11 0.17
44 9 0.14
45 19 0.29
46 3 0.05
47 9 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (45 bp):
TATATATAATATAATATATATTAAATATATTTAATAATATTTAAA
Found at i:1042372 original size:21 final size:21
Alignment explanation
Indices: 1042346--1042417 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
1042336 TTTTAAATAT
1042346 AATATAATATAAT-ATATATTA
1 AATATAATATAATAATAT-TTA
* *
1042367 AATATATTTTAATAATATTTA
1 AATATAATATAATAATATTTA
* *
1042388 AATATTATTATTTAATTATATTTA
1 AATA-TA--ATATAATAATATTTA
1042412 AATATA
1 AATATA
1042418 TTATGTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
21 18 0.42
22 6 0.14
23 2 0.05
24 17 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATAATATAATAATATTTA
Found at i:1042401 original size:24 final size:22
Alignment explanation
Indices: 1042328--1042421 Score: 88
Period size: 24 Copynumber: 4.1 Consensus size: 22
1042318 TTATTAAATA
1042328 TATTTAA-AT-TTTAAATATAAT
1 TATTTAATATATTTAAATAT-AT
*
1042349 ATAATATAATATATATTAAATATA-
1 -T-ATTTAATATAT-TTAAATATAT
1042373 T-TTTAATAATATTTAAATATTAT
1 TATTTAAT-ATATTTAAATA-TAT
1042396 TATTTAATTATATTTAAATATAT
1 TATTTAA-TATATTTAAATATAT
1042419 TAT
1 TAT
1042422 GTTTATTTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 17
0.76 0.03 0.21
Matches are distributed among these distances:
21 12 0.20
22 7 0.11
23 13 0.21
24 18 0.30
25 3 0.05
26 8 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTTAATATATTTAAATATAT
Found at i:1043316 original size:18 final size:18
Alignment explanation
Indices: 1043293--1043349 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
1043283 TACATTGAAA
*
1043293 AAATAATTAAGATTTAAT
1 AAATAATTAAAATTTAAT
1043311 AAATAATTAAAATTTAAT
1 AAATAATTAAAATTTAAT
* *
1043329 AAA-ATTTAAAA-ATAAT
1 AAATAATTAAAATTTAAT
1043345 AAATA
1 AAATA
1043350 GGTGAAAGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
16 7 0.20
17 8 0.23
18 20 0.57
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AAATAATTAAAATTTAAT
Found at i:1043767 original size:5 final size:5
Alignment explanation
Indices: 1043757--1043826 Score: 58
Period size: 5 Copynumber: 14.4 Consensus size: 5
1043747 AATTTAAGAA
* * * *
1043757 ATAAT ATAAT A-AAT ATGAT ATAAT AT-AT TTAA- ATAAA ATTAAT ATGAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT
1043805 AT-AT ATAAT ATAAAT ATAAT AT
1 ATAAT ATAAT AT-AAT ATAAT AT
1043827 TTATATTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
4 14 0.26
5 30 0.57
6 9 0.17
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:1043800 original size:29 final size:29
Alignment explanation
Indices: 1043759--1043825 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
1043749 TTTAAGAAAT
* *
1043759 AATATAATAAATATGATATA-ATATATTTA
1 AATAAAATAAATATGATATATATA-ATATA
*
1043788 AATAAAATTAATATGATATATATAATATA
1 AATAAAATAAATATGATATATATAATATA
*
1043817 AATATAATA
1 AATAAAATA
1043826 TTTATATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 29 0.91
30 3 0.09
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
AATAAAATAAATATGATATATATAATATA
Found at i:1043837 original size:24 final size:25
Alignment explanation
Indices: 1043765--1043837 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 25
1043755 AAATAATATA
*
1043765 ATAAATATGATATAATATATTTAA-
1 ATAAATATAATATAATATATTTAAT
* *
1043789 ATAAA-ATTAATATGATATATATAAT
1 ATAAATA-TAATATAATATATTTAAT
*
1043814 ATAAATATAATAT-TTATATTTAAT
1 ATAAATATAATATAATATATTTAAT
1043838 GAATTTATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
23 1 0.02
24 28 0.68
25 11 0.27
26 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (25 bp):
ATAAATATAATATAATATATTTAAT
Found at i:1044416 original size:12 final size:13
Alignment explanation
Indices: 1044399--1044440 Score: 61
Period size: 12 Copynumber: 3.4 Consensus size: 13
1044389 AATAATATTC
1044399 ATTTT-ATTTTAT
1 ATTTTAATTTTAT
1044411 ATTTTAATTTTAT
1 ATTTTAATTTTAT
*
1044424 -TTTTAATTTAAT
1 ATTTTAATTTTAT
1044436 ATTTT
1 ATTTT
1044441 TAAAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 16 0.59
13 11 0.41
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTAATTTTAT
Found at i:1044422 original size:18 final size:17
Alignment explanation
Indices: 1044399--1044435 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
1044389 AATAATATTC
*
1044399 ATTTTATTTTATATTTTA
1 ATTTTATTTT-TAATTTA
1044417 ATTTTATTTTTAATTTA
1 ATTTTATTTTTAATTTA
1044434 AT
1 AT
1044436 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTATTTTTAATTTA
Found at i:1044768 original size:15 final size:16
Alignment explanation
Indices: 1044741--1044770 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1044731 TAAAAAATTA
1044741 TTTAAAGATTTTATTT
1 TTTAAAGATTTTATTT
1044757 TTTAAA-ATTTTATT
1 TTTAAAGATTTTATT
1044771 GTAAGGGAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTAAAGATTTTATTT
Found at i:1045041 original size:10 final size:10
Alignment explanation
Indices: 1045026--1045059 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1045016 CATATCTTAA
1045026 AAAAAAATAT
1 AAAAAAATAT
1045036 AAAAAAATAT
1 AAAAAAATAT
*
1045046 AAAATAAT-T
1 AAAAAAATAT
1045055 AAAAA
1 AAAAA
1045060 TAATGAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAAAATAT
Found at i:1045057 original size:31 final size:30
Alignment explanation
Indices: 1044996--1045059 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
1044986 AAATTTTCCT
** *
1044996 AAAAAAATTAAAAAAATTATCATATCTTAA
1 AAAAAAATTAAAAAAATTAAAATATATTAA
1045026 AAAAAAATATAAAAAAATATAAAATA-ATTAA
1 AAAAAAAT-TAAAAAAAT-TAAAATATATTAA
1045057 AAA
1 AAA
1045060 TAATGAACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 8 0.28
31 16 0.55
32 5 0.17
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (30 bp):
AAAAAAATTAAAAAAATTAAAATATATTAA
Found at i:1049484 original size:81 final size:79
Alignment explanation
Indices: 1049399--1049612 Score: 198
Period size: 87 Copynumber: 2.6 Consensus size: 79
1049389 CTTACCGATC
* * *
1049399 TCTGGTTCCCCACCTCT-TCCACCTCCACCAACCCCATCGATGTCTGGTTCCCCACCACCTTCCT
1 TCTGGTTCCCCACCTCTCTCCACCTCCACCAACCCCATCGATGTCTAGTGCCCCACCACC-TCCA
*
1049463 CTCTACCCCCATTAATG
65 C-C-ACCCCCATCAATG
* * * * *
1049480 TCTGGTGTCCTACCTTCTCTCTCTCCTCCTCCACCACCCCCATCGATATCTAGTGCCCCACCTCC
1 TCTGGT-TCC--CC-AC-CTCTCTCCACCTCCACCAACCCCATCGATGTCTAGTGCCCCACCACC
*
1049545 TCCACCACCCCCATCGATG
61 TCCACCACCCCCATCAATG
* * *
1049564 TCTAGTGCCCCACCTCCTCCTCCACCTCCACC-ACCCCTATTGATGTCTA
1 TCTGGTTCCCCACCT-CT-CTCCACCTCCACCAACCCC-ATCGATGTCTA
1049613 ATGTCCCCCT
Statistics
Matches: 107, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
79 2 0.02
80 7 0.07
81 29 0.27
82 3 0.03
83 2 0.02
84 18 0.17
85 2 0.02
86 8 0.07
87 36 0.34
ACGTcount: A:0.15, C:0.49, G:0.09, T:0.27
Consensus pattern (79 bp):
TCTGGTTCCCCACCTCTCTCCACCTCCACCAACCCCATCGATGTCTAGTGCCCCACCACCTCCAC
CACCCCCATCAATG
Found at i:1049551 original size:36 final size:36
Alignment explanation
Indices: 1049504--1049589 Score: 154
Period size: 36 Copynumber: 2.4 Consensus size: 36
1049494 TTCTCTCTCT
1049504 CCTCCTCCACCACCCCCATCGATATCTAGTGCCCCA
1 CCTCCTCCACCACCCCCATCGATATCTAGTGCCCCA
*
1049540 CCTCCTCCACCACCCCCATCGATGTCTAGTGCCCCA
1 CCTCCTCCACCACCCCCATCGATATCTAGTGCCCCA
*
1049576 CCTCCTCCTCCACC
1 CCTCCTCCACCACC
1049590 TCCACCACCC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.16, C:0.56, G:0.08, T:0.20
Consensus pattern (36 bp):
CCTCCTCCACCACCCCCATCGATATCTAGTGCCCCA
Found at i:1049817 original size:33 final size:32
Alignment explanation
Indices: 1049775--1049967 Score: 244
Period size: 33 Copynumber: 5.9 Consensus size: 32
1049765 GGAGCTCCTT
* * *
1049775 CACCTCCACCGCCATCTCCTGGAGGTGGAGTAC
1 CACCGCCACCGCCACCTCCTGGAGGTGG-GCAC
*
1049808 CACCTCCACC-CACACCTCCTGGAGGTCGGGCAC
1 CACCGCCACCGC-CACCTCCTGGAGGT-GGGCAC
* *
1049841 CACCACCACCGCCACCTCCTGGGGGTTGGGCAC
1 CACCGCCACCGCCACCTCCTGGAGG-TGGGCAC
* *
1049874 CACCCCCACCGCCACCTCCTGGGGGTTGGGCAC
1 CACCGCCACCGCCACCTCCTGGAGG-TGGGCAC
*
1049907 CACCGCCACCGCCTCCTCCTGGAGGTGGGGCAC
1 CACCGCCACCGCCACCTCCTGGAGGT-GGGCAC
1049940 CACCGCCACCGCCACCTCCTGGAGGTGG
1 CACCGCCACCGCCACCTCCTGGAGGTGG
1049968 AGCTCCTGGC
Statistics
Matches: 146, Mismatches: 9, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
32 4 0.03
33 138 0.95
34 4 0.03
ACGTcount: A:0.15, C:0.46, G:0.26, T:0.13
Consensus pattern (32 bp):
CACCGCCACCGCCACCTCCTGGAGGTGGGCAC
Found at i:1049909 original size:99 final size:99
Alignment explanation
Indices: 1049775--1049961 Score: 270
Period size: 99 Copynumber: 1.9 Consensus size: 99
1049765 GGAGCTCCTT
* * * *
1049775 CACCTCCACCGCCATCTCCTGGAGGTGGAGTACCACCTCCACC-CACACCTCCTGGAGGTCGGGC
1 CACCCCCACCGCCACCTCCTGGAGGTGGAGCACCACCGCCACCGC-CACCTCCTGGAGGTCGGGC
1049839 ACCACCACCACCGCCACCTCCTGGGGGTTGGGCAC
65 ACCACCACCACCGCCACCTCCTGGGGGTTGGGCAC
* * *
1049874 CACCCCCACCGCCACCTCCTGGGGGTTGG-GCACCACCGCCACCGCCTCCTCCTGGAGGTGGGGC
1 CACCCCCACCGCCACCTCCTGGAGG-TGGAGCACCACCGCCACCGCCACCTCCTGGAGGTCGGGC
*
1049938 ACCACCGCCACCGCCACCTCCTGG
65 ACCACCACCACCGCCACCTCCTGG
1049962 AGGTGGAGCT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
99 74 0.95
100 4 0.05
ACGTcount: A:0.15, C:0.47, G:0.25, T:0.13
Consensus pattern (99 bp):
CACCCCCACCGCCACCTCCTGGAGGTGGAGCACCACCGCCACCGCCACCTCCTGGAGGTCGGGCA
CCACCACCACCGCCACCTCCTGGGGGTTGGGCAC
Found at i:1062394 original size:24 final size:25
Alignment explanation
Indices: 1062346--1062408 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
1062336 TTATATTTAA
* *
1062346 AATATTTTATATTTATATAAATTTT
1 AATAATTTATATTTACATAAATTTT
1062371 AATAATTTATA-TTACATAAATTTT
1 AATAATTTATATTTACATAAATTTT
1062395 AA-AATATT-TATTTA
1 AATAAT-TTATATTTA
1062409 TTTATTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 5 0.15
24 19 0.56
25 10 0.29
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
AATAATTTATATTTACATAAATTTT
Found at i:1063384 original size:18 final size:20
Alignment explanation
Indices: 1063350--1063387 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1063340 TTTTAGACGT
1063350 AAAATAATTATATAATATAA
1 AAAATAATTATATAATATAA
1063370 AAAATAATTA-A-AATATAA
1 AAAATAATTATATAATATAA
1063388 TATGATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 1 0.06
20 10 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATAATTATATAATATAA
Found at i:1063415 original size:28 final size:28
Alignment explanation
Indices: 1063359--1063425 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
1063349 TAAAATAATT
*
1063359 ATATAATATAAAAAATAATTAAAATATA
1 ATATAATATAAAAAATAATTAAAACATA
* *
1063387 ATATGATATAAAAAATAATTTAAACATA
1 ATATAATATAAAAAATAATTAAAACATA
*
1063415 ACATTAATATA
1 ATA-TAATATA
1063426 TGAATTTATC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 27 0.82
29 6 0.18
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (28 bp):
ATATAATATAAAAAATAATTAAAACATA
Found at i:1064000 original size:3 final size:3
Alignment explanation
Indices: 1063994--1064045 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
1063984 TGATGATGAC
1063994 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1064042 AAT A
1 AAT A
1064046 TGACATTATT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1065830 original size:22 final size:23
Alignment explanation
Indices: 1065787--1065831 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
1065777 ATTATTTTAC
*
1065787 TATTTAAAAATATTTTTTATTAA
1 TATTTAAAAATATTTTTAATTAA
*
1065810 TATTTTAAAAT-TTTTTAATTAA
1 TATTTAAAAATATTTTTAATTAA
1065832 AGTTAAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTTAAAAATATTTTTAATTAA
Found at i:1068007 original size:24 final size:25
Alignment explanation
Indices: 1067959--1068007 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
1067949 TTTAAAGTAC
* *
1067959 AATTTTTTATTTATTAAGTTAATTT
1 AATTTATTATTTATTAAATTAATTT
*
1067984 AATTTATTA-TTATTAAATTTATTT
1 AATTTATTATTTATTAAATTAATTT
1068008 TTACATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
AATTTATTATTTATTAAATTAATTT
Found at i:1068150 original size:21 final size:21
Alignment explanation
Indices: 1068107--1068155 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1068097 ATTATTACTT
* ***
1068107 TTTATTTATAAATTATTTTAA
1 TTTATTTATAAAATATACAAA
1068128 TTTATTTATAAAATATACAAA
1 TTTATTTATAAAATATACAAA
1068149 TTTATTT
1 TTTATTT
1068156 TTATTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTATTTATAAAATATACAAA
Found at i:1068370 original size:295 final size:297
Alignment explanation
Indices: 1068060--1068641 Score: 1017
Period size: 295 Copynumber: 2.0 Consensus size: 297
1068050 CTTTTATCTA
1068060 TATTATTTTTATTAAAATTAATTAATATTGTGCATGTATTATTACTTTTTATTTATAAATTA-TT
1 TATTATTTTTATTAAAATTAATTAATA-TGTGCATGTATTATTACTTTTTATTTATAAATTATTT
* *
1068124 TTAATTTATTTATAAAATATACAAATTTATTTTTATTAAAATTAATTAATATTGTATATGTATTA
65 TTAATTTATTTATAAAATATACAAATTTATTTTTATTAAAATTAATTAATATTGTACATATATTA
* *
1068189 TTTTTATAATT-ATAGAACTTAAATTTATGTTAATCAACAATAAATTACTTTTTTCGATAACGAT
130 TTTTTATAATTAATAGAACTTAAATTTATGTTAACCAACAATAAATTACTTTTTTCGATAACAAT
* *
1068253 TTATTTCAGATTTACAGACGCACATATTTCA-TTTTCAGTAACGACTTAAATATGAGCTTTCCTT
195 TTATTTCAGATTTACAGACGCACACATTTCATTTTTCAGTAACGACTTAAATACGAGCTTTCCTT
*
1068317 TATCTGTAAAATAACTAAGAAAAAATTTATTGTACATG
260 TATCTGTAAAATAACCAAGAAAAAATTTATTGTACATG
1068355 TATTATTTTTATTAAAATTAATTAATATGTGCATGTATTATTACTTTTTATTTATAAATTATTTT
1 TATTATTTTTATTAAAATTAATTAATATGTGCATGTATTATTACTTTTTATTTATAAATTATTTT
*
1068420 TAATTTATTTATAAATTATACAAATTTATTTTTATTAAAATTAATTAATATTGTACATATATTAT
66 TAATTTATTTATAAAATATACAAATTTATTTTTATTAAAATTAATTAATATTGTACATATATTAT
*
1068485 TTTTATAATTAATAGAACTTAAATTTATGTTAGCCAACAATAAATTACTTTTTTCGATAACAATT
131 TTTTATAATTAATAGAACTTAAATTTATGTTAACCAACAATAAATTACTTTTTTCGATAACAATT
* *
1068550 TATTTCGGATTTACAGACGCACACATTTCATTTTTCGGTAACGACTTAAATACGAGCTTTCCTTT
196 TATTTCAGATTTACAGACGCACACATTTCATTTTTCAGTAACGACTTAAATACGAGCTTTCCTTT
* *
1068615 TTCTGTAAAATGACCAAGAAAAAATTT
261 ATCTGTAAAATAACCAAGAAAAAATTT
1068642 TCTTCAACTT
Statistics
Matches: 271, Mismatches: 13, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
294 34 0.13
295 102 0.38
296 79 0.29
297 56 0.21
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (297 bp):
TATTATTTTTATTAAAATTAATTAATATGTGCATGTATTATTACTTTTTATTTATAAATTATTTT
TAATTTATTTATAAAATATACAAATTTATTTTTATTAAAATTAATTAATATTGTACATATATTAT
TTTTATAATTAATAGAACTTAAATTTATGTTAACCAACAATAAATTACTTTTTTCGATAACAATT
TATTTCAGATTTACAGACGCACACATTTCATTTTTCAGTAACGACTTAAATACGAGCTTTCCTTT
ATCTGTAAAATAACCAAGAAAAAATTTATTGTACATG
Found at i:1068418 original size:11 final size:11
Alignment explanation
Indices: 1068402--1068438 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
1068392 TTATTACTTT
1068402 TTATTTATAAA
1 TTATTTATAAA
* *
1068413 TTATTTTTAAT
1 TTATTTATAAA
1068424 TTATTTATAAA
1 TTATTTATAAA
1068435 TTAT
1 TTAT
1068439 ACAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:1072384 original size:89 final size:89
Alignment explanation
Indices: 1072284--1072854 Score: 685
Period size: 89 Copynumber: 6.4 Consensus size: 89
1072274 TCTTGTAATC
* *
1072284 TTTTTTTTCTATAAAAAAGAATCTGATTTTCAGATATAATTTATGCATTAGTCTAATCTTTACAG
1 TTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCTTTACAG
* * * *
1072349 TTTGACATTTACAATCAGTTAACT
66 TCTAACATTTACAATCAATCAACT
* * * **
1072373 TTTTTTTTCTATAAAAAAAAATCTGATTCTCATATATAATTCATGCATTAGTCTAATCCTTGTAG
1 TTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCTTTACAG
** *
1072438 TCTGTCATTTACAATCAATCAGTCT
66 TCTAACATTTACAATCAATCA-ACT
* * * * * *
1072463 TTATGTATATATATATATAAAAGAATCTGATTCTCAGATTTAATTCATGTATTAGTCTAATCCTT
1 TT-T-T-T-TTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCTTT
* *
1072528 ACAGTCTAACATTTACATTCAGTCAACT
62 ACAGTCTAACATTTACAATCAATCAACT
* * *
1072556 TTTTTTTTCTATAAAAAAAAATCTGATTTTCAGATATAATTTATGCATTAGTCTAATCTTTACAG
1 TTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCTTTACAG
1072621 TCTAACATTTACAATCAATCAACT
66 TCTAACATTTACAATCAATCAACT
* * *
1072645 TTTTTTTT-TATAAAAAA-AATCTGATTCTCAGATATAATTCATGTATTAATCTAATCTTTGCAG
1 TTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCTTTACAG
* *
1072708 TCTGATATTTACAATCAATCAACT
66 TCTAACATTTACAATCAATCAACT
* * *
1072732 TTTTTTTTATATAAAAGA-AATCTGATTCTCAGTTATAATTCATGCATTAGTCTAATCATTGTA-
1 TTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATC-TT-TAC
* *
1072795 A-TTTAACAATTACAATCAATCAAC-
64 AGTCTAACATTTACAATCAATCAACT
*
1072819 --TTTTTTCTATAAAAAAG--TCTGATTCTCATATATAAT
1 TTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAAT
1072855 CACATTTATT
Statistics
Matches: 416, Mismatches: 57, Indels: 23
0.84 0.11 0.05
Matches are distributed among these distances:
84 17 0.04
85 14 0.03
87 71 0.17
88 72 0.17
89 159 0.38
90 6 0.01
91 2 0.00
92 2 0.00
93 5 0.01
94 68 0.16
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.43
Consensus pattern (89 bp):
TTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCTTTACAG
TCTAACATTTACAATCAATCAACT
Found at i:1072604 original size:183 final size:176
Alignment explanation
Indices: 1072283--1072854 Score: 738
Period size: 183 Copynumber: 3.2 Consensus size: 176
1072273 TTCTTGTAAT
* * * *
1072283 CTTTTTTTTCTATAAAAAAGAATCTGATTTTCAGATATAATTTATGCATTAGTCTAATCTTTACA
1 CTTTTTTTTATAT-AAAAAGAATCTGATTCTCAGATATAATTCATGTATTAGTCTAATCTTTACA
* * *
1072348 GTTTGACATTTACAATCAGTTAACTTTTTTTTTCTATAAAAAAAAATCTGATTCTCATATATAAT
65 GTCTGACATTTACAATCAGTCAACTTTTTTTTTCTATAAAAAAAAATCTGATTCTCAGATATAAT
* ** *
1072413 TCATGCATTAGTCTAATCCTTGTAGTCTGTCATTTACAATCAATCAGT
130 TCATGCATTAGTCTAATCATTGTAGTCTAACATTTACAATCAATCA-A
* *
1072461 CTTTATGTATATATATATATAAAAGAATCTGATTCTCAGATTTAATTCATGTATTAGTCTAATCC
1 CTTT-T-T-T-T-TATATA-AAAAGAATCTGATTCTCAGATATAATTCATGTATTAGTCTAATCT
* * *
1072526 TTACAGTCTAACATTTACATTCAGTCAACTTTTTTTTTCTATAAAAAAAAATCTGATTTTCAGAT
60 TTACAGTCTGACATTTACAATCAGTCAACTTTTTTTTTCTATAAAAAAAAATCTGATTCTCAGAT
* * **
1072591 ATAATTTATGCATTAGTCTAATCTTTACAGTCTAACATTTACAATCAATCAA
125 ATAATTCATGCATTAGTCTAATCATTGTAGTCTAACATTTACAATCAATCAA
* * * *
1072643 CTTTTTTTTTTATAAAAAAAATCTGATTCTCAGATATAATTCATGTATTAATCTAATCTTTGCAG
1 CTTTTTTTTATATAAAAAGAATCTGATTCTCAGATATAATTCATGTATTAGTCTAATCTTTACAG
* * * * *
1072708 TCTGATATTTACAATCAATCAACTTTTTTTTTATAT-AAAAGAAATCTGATTCTCAGTTATAATT
66 TCTGACATTTACAATCAGTCAACTTTTTTTTTCTATAAAAAAAAATCTGATTCTCAGATATAATT
* * *
1072772 CATGCATTAGTCTAATCATTGTAATTTAACAATTACAATCAATCAA
131 CATGCATTAGTCTAATCATTGTAGTCTAACATTTACAATCAATCAA
* *
1072818 CTTTTTTCTATA-AAAAAG--TCTGATTCTCATATATAAT
1 CTTTTTTTTATATAAAAAGAATCTGATTCTCAGATATAAT
1072855 CACATTTATT
Statistics
Matches: 344, Mismatches: 44, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
172 18 0.05
174 5 0.01
175 74 0.22
176 77 0.22
177 5 0.01
178 5 0.01
179 2 0.01
180 2 0.01
181 2 0.01
182 6 0.02
183 148 0.43
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.43
Consensus pattern (176 bp):
CTTTTTTTTATATAAAAAGAATCTGATTCTCAGATATAATTCATGTATTAGTCTAATCTTTACAG
TCTGACATTTACAATCAGTCAACTTTTTTTTTCTATAAAAAAAAATCTGATTCTCAGATATAATT
CATGCATTAGTCTAATCATTGTAGTCTAACATTTACAATCAATCAA
Found at i:1073581 original size:22 final size:22
Alignment explanation
Indices: 1073539--1073581 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1073529 AATTTAATAA
* *
1073539 AAATAAATTAAATTAATTTTAT
1 AAATAAATAAAATTAACTTTAT
1073561 AAATAAA-AAAATTATACTTTA
1 AAATAAATAAAATTA-ACTTTA
1073582 AAAAGTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATAAATAAAATTAACTTTAT
Found at i:1073945 original size:18 final size:19
Alignment explanation
Indices: 1073911--1073948 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
1073901 TTTAATTATT
1073911 ATTTAATAATAAAAATATA
1 ATTTAATAATAAAAATATA
*
1073930 ATTTAATTAT-AAAATATA
1 ATTTAATAATAAAAATATA
1073948 A
1 A
1073949 AAATAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTTAATAATAAAAATATA
Found at i:1074319 original size:2 final size:2
Alignment explanation
Indices: 1074312--1074336 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1074302 TGGTTTGGAA
1074312 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
1074337 AGCAATCAAA
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:1074774 original size:19 final size:19
Alignment explanation
Indices: 1074738--1074775 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1074728 GAATTTTGAT
1074738 GTTTTACTTGAAATTTTGG
1 GTTTTACTTGAAATTTTGG
*
1074757 GTTTTGCTT-AAATATTTGG
1 GTTTTACTTGAAAT-TTTGG
1074776 AAAAGTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.53
Consensus pattern (19 bp):
GTTTTACTTGAAATTTTGG
Found at i:1075265 original size:23 final size:25
Alignment explanation
Indices: 1075222--1075267 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1075212 TTGAAAGATT
*
1075222 AAAAAATAAAATCTCATTATTTATA
1 AAAAAATAAAATATCATTATTTATA
1075247 AAAAAATAAAATAT-A-TATTTA
1 AAAAAATAAAATATCATTATTTA
1075268 AATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 1 0.05
25 13 0.65
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAAAATAAAATATCATTATTTATA
Found at i:1075541 original size:2 final size:2
Alignment explanation
Indices: 1075534--1075563 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1075524 AGGGAAAACA
1075534 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1075564 TTGCATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1075681 original size:14 final size:15
Alignment explanation
Indices: 1075662--1075696 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
1075652 GACTTAAAAT
1075662 TTATTTA-ATATTAA
1 TTATTTACATATTAA
1075676 TTATTTACATATTAA
1 TTATTTACATATTAA
1075691 -TATTTA
1 TTATTTA
1075697 TATAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTTACATATTAA
Found at i:1079063 original size:3 final size:3
Alignment explanation
Indices: 1079055--1079103 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
1079045 GGCCCACCAA
1079055 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1079103 T
1 T
1079104 CCTATTGCAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1080040 original size:22 final size:22
Alignment explanation
Indices: 1079997--1080040 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1079987 AAATTTAAAT
* *
1079997 TAAATTATTATAATAAATTATA
1 TAAAATATTATAATAAACTATA
* *
1080019 TAAAATATTTTAATTAACTATA
1 TAAAATATTATAATAAACTATA
1080041 ACTTTTAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAAATATTATAATAAACTATA
Found at i:1080241 original size:21 final size:21
Alignment explanation
Indices: 1080204--1080244 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1080194 ATTAAACACT
1080204 ATAATATAAAAAAATATAAAC
1 ATAATATAAAAAAATATAAAC
*
1080225 ATAA-ATAGAAAACATATAAA
1 ATAATATA-AAAAAATATAAA
1080245 AATCTACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (21 bp):
ATAATATAAAAAAATATAAAC
Done.