Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold230
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: 2055625
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 7 of 14
Found at i:685331 original size:46 final size:45
Alignment explanation
Indices: 685220--685401 Score: 226
Period size: 46 Copynumber: 4.0 Consensus size: 45
685210 TAATAATTAT
* *
685220 TTTTATCTTTAATTAAATAAAATTAATTAAGAGATAAATAAAAA-A
1 TTTTATC-TTAATTAAATTAAATTAATTAAGAAATAAATAAAAATA
* *
685265 TTTTATCTCTAAATAAATTAAATTAATTATGAAATAAATAAAAATA
1 TTTTATCT-TAATTAAATTAAATTAATTAAGAAATAAATAAAAATA
* * *
685311 TTTTATCTATAATTAAATTAAATTAATTAAGAGATAAGTAAAAAAA
1 TTTTATCT-TAATTAAATTAAATTAATTAAGAAATAAATAAAAATA
* *
685357 TTATT-T-TTAATAAAATTAAATTAATTAAAAAATAAATAAAAATA
1 TT-TTATCTTAATTAAATTAAATTAATTAAGAAATAAATAAAAATA
685401 T
1 T
685402 AAATCCTATT
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
44 34 0.29
45 39 0.33
46 44 0.37
47 2 0.02
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.38
Consensus pattern (45 bp):
TTTTATCTTAATTAAATTAAATTAATTAAGAAATAAATAAAAATA
Found at i:685394 original size:90 final size:91
Alignment explanation
Indices: 685220--685401 Score: 269
Period size: 91 Copynumber: 2.0 Consensus size: 91
685210 TAATAATTAT
* *
685220 TTTTATCTTTAATTAAATAAAATTAATTAAGAGATAAATAAAAAATTTTATCTCTAAATAAATTA
1 TTTTATCTATAATTAAATAAAATTAATTAAGAGATAAATAAAAAATATTATCTCTAAATAAATTA
**
685285 AATTAATTATGAAATAAATAAAAATA
66 AATTAATTAAAAAATAAATAAAAATA
* * * *
685311 TTTTATCTATAATTAAATTAAATTAATTAAGAGATAAGTAAAAAA-ATTAT-TTTTAATAAAATT
1 TTTTATCTATAATTAAATAAAATTAATTAAGAGATAAATAAAAAATATTATCTCTAAAT-AAATT
685374 AAATTAATTAAAAAATAAATAAAAATA
65 AAATTAATTAAAAAATAAATAAAAATA
685401 T
1 T
685402 AAATCCTATT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
89 5 0.06
90 35 0.43
91 42 0.51
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.38
Consensus pattern (91 bp):
TTTTATCTATAATTAAATAAAATTAATTAAGAGATAAATAAAAAATATTATCTCTAAATAAATTA
AATTAATTAAAAAATAAATAAAAATA
Found at i:690171 original size:3 final size:3
Alignment explanation
Indices: 690163--690196 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
690153 CTGCTAATCC
690163 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
690197 GTATCCCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:690594 original size:9 final size:9
Alignment explanation
Indices: 690582--690620 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
690572 TTATTGTTTA
690582 TTTAATATT
1 TTTAATATT
*
690591 TTTAACATT
1 TTTAATATT
690600 TTTAATATT
1 TTTAATATT
*
690609 TATAATTATT
1 TTTAA-TATT
690619 TT
1 TT
690621 AATTCAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
9 20 0.80
10 5 0.20
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTAATATT
Found at i:691101 original size:16 final size:16
Alignment explanation
Indices: 691082--691117 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
691072 AATTCAGATT
*
691082 ATTTTGGTTTTCGATC
1 ATTTTAGTTTTCGATC
*
691098 ATTTTAGTTTTGGATC
1 ATTTTAGTTTTCGATC
691114 ATTT
1 ATTT
691118 CGAATTTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.08, G:0.17, T:0.58
Consensus pattern (16 bp):
ATTTTAGTTTTCGATC
Found at i:692365 original size:21 final size:23
Alignment explanation
Indices: 692323--692386 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
692313 ACTCATTTTA
*
692323 TTATTTTAAAATTTTAAAATATT
1 TTATATTAAAATTTTAAAATATT
*
692346 TTATATTAAAA-TTT-ATATATT
1 TTATATTAAAATTTTAAAATATT
*
692367 TTATAATT-ATATTTTAAAAT
1 TTAT-ATTAAAATTTTAAAAT
692387 TTATTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 12 0.35
22 9 0.26
23 13 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTATATTAAAATTTTAAAATATT
Found at i:692394 original size:13 final size:14
Alignment explanation
Indices: 692333--692395 Score: 58
Period size: 13 Copynumber: 4.4 Consensus size: 14
692323 TTATTTTAAA
*
692333 ATTTTAAAATATTTT
1 ATTTTAAAAT-TTAT
*
692348 ATATTAAAATTTATAT
1 ATTTTAAAA-TT-TAT
*
692364 ATTTTATAA-TTAT
1 ATTTTAAAATTTAT
692377 ATTTTAAAATTTAT
1 ATTTTAAAATTTAT
692391 -TTTTA
1 ATTTTA
692396 TTTAAATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
13 16 0.40
14 5 0.12
15 9 0.22
16 10 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTTAAAATTTAT
Found at i:692419 original size:44 final size:44
Alignment explanation
Indices: 692333--692419 Score: 99
Period size: 44 Copynumber: 2.0 Consensus size: 44
692323 TTATTTTAAA
* *
692333 ATTTTAAAATATTTTATATTAAAATTTATATATTTTATAATTAT
1 ATTTTAAAATATTTTATATTAAAATATATATAATTTATAATTAT
*
692377 ATTTTAAAATTTATTTT-TATTTAAATA-ATAATAATTTA-AATTA
1 ATTTTAAAA--TATTTTATATTAAAATATAT-ATAATTTATAATTA
692420 AATTAATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
44 16 0.43
45 15 0.41
46 6 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (44 bp):
ATTTTAAAATATTTTATATTAAAATATATATAATTTATAATTAT
Found at i:692967 original size:23 final size:23
Alignment explanation
Indices: 692917--692990 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
692907 GTGATGATGA
* *
692917 AATTAAATTAAAAAATAATTTATAT
1 AATTAAATTTAAAAAT--TATATAT
*
692942 AATTATATTTAAAAATTATATAT
1 AATTAAATTTAAAAATTATATAT
**
692965 AA-TAAATTTAAATTTTATAATAT
1 AATTAAATTTAAAAATTAT-ATAT
692988 AAT
1 AAT
692991 ATTCGTGATT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
22 13 0.32
23 14 0.34
25 14 0.34
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AATTAAATTTAAAAATTATATAT
Found at i:692969 original size:26 final size:25
Alignment explanation
Indices: 692917--692972 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
692907 GTGATGATGA
*
692917 AATTAAATTAAAAAATAATTTATAT
1 AATTAAATTAAAAAATAATATATAT
* *
692942 AATTATATTTAAAAAT--TATATAT
1 AATTAAATTAAAAAATAATATATAT
692965 AA-TAAATT
1 AATTAAATT
692973 TAAATTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 5 0.19
23 8 0.30
25 14 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
AATTAAATTAAAAAATAATATATAT
Found at i:692991 original size:23 final size:22
Alignment explanation
Indices: 692933--692991 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
692923 ATTAAAAAAT
*
692933 AATT-TATATAATTATATTTAAA
1 AATTATATATAA-TAAATTTAAA
692955 AATTATATATAATAAATTTAAA
1 AATTATATATAATAAATTTAAA
**
692977 TTTTATAATATAATA
1 AATTAT-ATATAATA
692992 TTCGTGATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.53
23 15 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTATATATAATAAATTTAAA
Found at i:694208 original size:15 final size:15
Alignment explanation
Indices: 694180--694225 Score: 69
Period size: 14 Copynumber: 3.1 Consensus size: 15
694170 TAATTCGAGT
694180 TAAATTTA-ATTAAA
1 TAAATTTATATTAAA
694194 TAAATTTATATTAAA
1 TAAATTTATATTAAA
694209 -AAATTTATATTTAAA
1 TAAATTTATA-TTAAA
694224 TA
1 TA
694226 TAACTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 17 0.59
15 11 0.38
16 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TAAATTTATATTAAA
Found at i:697287 original size:16 final size:16
Alignment explanation
Indices: 697243--697288 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
697233 TTTAAAATAC
697243 TATAAATTTAATA-TA
1 TATAAATTTAATATTA
697258 T-TAATAATTT-ATATTA
1 TAT-A-AATTTAATATTA
697274 TATAAATTTAATATT
1 TATAAATTTAATATT
697289 TTCAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
14 1 0.04
15 10 0.38
16 14 0.54
17 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATAAATTTAATATTA
Found at i:697413 original size:23 final size:23
Alignment explanation
Indices: 697387--697460 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
697377 TAAACTCATT
*
697387 TTTTTTAAAAAAATATTAAAATA
1 TTTTTTAAATAAATATTAAAATA
* * *
697410 TTTTTTATATTAATATTAATATA
1 TTTTTTAAATAAATATTAAAATA
* *
697433 TTTTTT-ATTAAAT-TTAAATTA
1 TTTTTTAAATAAATATTAAAATA
697454 TTTTTTA
1 TTTTTTA
697461 TTAAATTAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 12 0.29
22 4 0.10
23 25 0.61
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTTTAAATAAATATTAAAATA
Found at i:697430 original size:21 final size:19
Alignment explanation
Indices: 697406--697471 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 19
697396 AAAATATTAA
697406 AATATTTTTTATATTAATATT
1 AATATTTTTT-TATTAA-ATT
697427 AATATATTTTTTATTAAATTT
1 AATAT-TTTTTTATTAAA-TT
697448 AA-ATTATTTTTTATTAAATT
1 AATA-T-TTTTTTATTAAATT
697468 AATA
1 AATA
697472 ATAATTCGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.15
21 30 0.73
22 5 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AATATTTTTTTATTAAATT
Found at i:698130 original size:9 final size:9
Alignment explanation
Indices: 698116--698146 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
698106 TTTTAAATAA
698116 ATAAAAAAT
1 ATAAAAAAT
698125 ATAAAAAAT
1 ATAAAAAAT
698134 AT-AAAAAT
1 ATAAAAAAT
698142 ATAAA
1 ATAAA
698147 TATGTATCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:698139 original size:17 final size:17
Alignment explanation
Indices: 698109--698148 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
698099 AATAACCTTT
698109 TAAATAAATAAAAAATA
1 TAAATAAATAAAAAATA
698126 TAAA-AAATATAAAAATA
1 TAAATAAATA-AAAAATA
698143 TAAATA
1 TAAATA
698149 TGTATCTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 15 0.71
18 1 0.05
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
TAAATAAATAAAAAATA
Found at i:700122 original size:24 final size:23
Alignment explanation
Indices: 700095--700140 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
700085 GTTTTGAGTT
700095 TTTTTAATTTTAAATATAAAAATA
1 TTTTTAATTTTAAA-ATAAAAATA
*
700119 TTTTTAATTTTTAAATAAAAAT
1 TTTTTAATTTTAAAATAAAAAT
700141 TTAAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTTTAATTTTAAAATAAAAATA
Found at i:700618 original size:2 final size:2
Alignment explanation
Indices: 700611--700639 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
700601 CATCCCTCAA
700611 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
700640 CTTCTCTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:703997 original size:24 final size:24
Alignment explanation
Indices: 703969--704015 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
703959 TTTTAAAATT
* *
703969 TAATTATAAATATTAATATAAAAA
1 TAATTATAAATAATAAAATAAAAA
*
703993 TAATTTTAAATAATAAAATAAAA
1 TAATTATAAATAATAAAATAAAA
704016 TTTTAAAACG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
TAATTATAAATAATAAAATAAAAA
Found at i:704364 original size:8 final size:8
Alignment explanation
Indices: 704351--704422 Score: 58
Period size: 8 Copynumber: 8.8 Consensus size: 8
704341 TGGGAATATA
704351 ATATAAAT
1 ATATAAAT
704359 ATATAAAT
1 ATATAAAT
*
704367 AAATTAAA-
1 ATA-TAAAT
* *
704375 ATTTATAT
1 ATATAAAT
704383 AATATAAAT
1 -ATATAAAT
*
704392 -TATTAAT
1 ATATAAAT
704399 ATATTAAAAT
1 ATA-T-AAAT
704409 ATATAAAT
1 ATATAAAT
704417 ATATAA
1 ATATAA
704423 TTTTAAACAT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
7 9 0.18
8 23 0.46
9 12 0.24
10 6 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATAAAT
Found at i:704383 original size:33 final size:32
Alignment explanation
Indices: 704346--704429 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 32
704336 ATTAATGGGA
*
704346 ATATAATATAAATATATAAATAAATTAAAATTT
1 ATATAATATAAAT-TATAAATAAATTAAAATAT
* *
704379 ATATAATATAAATTATTAATATATTAAAATAT
1 ATATAATATAAATTATAAATAAATTAAAATAT
*
704411 ATA-AATATATAATTTTAAA
1 ATATAATATA-AATTATAAA
704430 CATAATTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
31 6 0.13
32 26 0.58
33 13 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (32 bp):
ATATAATATAAATTATAAATAAATTAAAATAT
Found at i:704400 original size:18 final size:19
Alignment explanation
Indices: 704345--704419 Score: 74
Period size: 18 Copynumber: 4.3 Consensus size: 19
704335 AATTAATGGG
704345 AATATAATATAAATATATA
1 AATATAATATAAATATATA
704364 AATA-AAT-TAAA-AT-T-
1 AATATAATATAAATATATA
* *
704378 TATATAATATAAAT-TATT
1 AATATAATATAAATATATA
*
704396 AATATATTA-AAATATATA
1 AATATAATATAAATATATA
704414 AATATA
1 AATATA
704420 TAATTTTAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
14 3 0.07
15 4 0.09
16 7 0.15
17 9 0.20
18 19 0.41
19 4 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATATAATATAAATATATA
Found at i:704429 original size:23 final size:25
Alignment explanation
Indices: 704345--704416 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
704335 AATTAATGGG
* *
704345 AATATAATATAAATATATAAATAAATT
1 AATATATTA-AAATATATAAAT-TATT
* *
704372 AA-A-ATTTATATAATATAAATTATT
1 AATATATTAAAAT-ATATAAATTATT
704396 AATATATTAAAATATATAAAT
1 AATATATTAAAATATATAAAT
704417 ATATAATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
24 8 0.22
25 19 0.53
26 7 0.19
27 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
AATATATTAAAATATATAAATTATT
Found at i:704583 original size:27 final size:27
Alignment explanation
Indices: 704548--704602 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
704538 TTTTGAGATC
* *
704548 ATATTTTATTGGGCTCAAAAGAGACTT
1 ATATCTTATTGGGCCCAAAAGAGACTT
*
704575 ATATCTTATTGGGCCCAAAAGAGCCTT
1 ATATCTTATTGGGCCCAAAAGAGACTT
704602 A
1 A
704603 GAACCTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (27 bp):
ATATCTTATTGGGCCCAAAAGAGACTT
Found at i:704709 original size:16 final size:18
Alignment explanation
Indices: 704664--704721 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
704654 TATATTCGTG
* *
704664 TTATATATTTTTATATATT
1 TTATATATTTATATA-ATA
704683 TTAATTATATTTA-A-AATA
1 TT-A-TATATTTATATAATA
704701 TTATATATTTATATAATA
1 TTATATATTTATATAATA
704719 TTA
1 TTA
704722 ATAGTGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
16 8 0.24
17 2 0.06
18 11 0.33
19 3 0.09
20 2 0.06
21 7 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATATATTTATATAATA
Found at i:710069 original size:19 final size:19
Alignment explanation
Indices: 710045--710093 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
710035 AAATTATTAT
710045 TTTATTATTTTTAAAAAAA
1 TTTATTATTTTTAAAAAAA
* *
710064 TTTATTA-ATTTAAATAAA
1 TTTATTATTTTTAAAAAAA
*
710082 TAT-TTATTTTTA
1 TTTATTATTTTTA
710094 TAATATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 15 0.60
19 7 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TTTATTATTTTTAAAAAAA
Found at i:710531 original size:18 final size:19
Alignment explanation
Indices: 710508--710553 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
710498 TAAAATTTTA
710508 AAAATAATTAT-AATATAT
1 AAAATAATTATAAATATAT
710526 AAAATAA-TATAAATATAT
1 AAAATAATTATAAATATAT
710544 AAAATTAATT
1 AAAA-TAATT
710554 TTATGTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 3 0.12
20 1 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATAATTATAAATATAT
Found at i:710539 original size:27 final size:26
Alignment explanation
Indices: 710490--710540 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
710480 GTGAATTTAA
**
710490 TATAAATATAAAATTTTAAAAATAAT
1 TATAAATATAAAATAATAAAAATAAT
*
710516 TATAATATATAAAATAATATAAATA
1 TATAA-ATATAAAATAATAAAAATA
710541 TATAAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
TATAAATATAAAATAATAAAAATAAT
Found at i:713900 original size:243 final size:243
Alignment explanation
Indices: 713489--713991 Score: 745
Period size: 243 Copynumber: 2.1 Consensus size: 243
713479 CACGTCGAAG
* * * *
713489 TCAATATTATAAGTAACACCAAGTCACTCTGATCCCGTTCGCCACTTTGGCTTCACCCTAATCCT
1 TCAATATTATCAGTAACACCAAGTCACTCTGATCCCGCTCGCCACCTTGGCCTCACCCTAATCCT
* *
713554 GATCGCCACATTGGCATCAATATTATCAATGACACCAAGTCACTCTGATCCTGCTCGCTACCATG
66 GATCGCCACATTGGCATCAATATTATCAATGACACCAAGTCACTCTGATCCTGCTCACCACCATG
* **
713619 GCTTCACCCTTATCCTGATCGTCACATTGGCATCAATATTATCAATGACATCAAGTCACTCTGAT
131 GCTTCACCCTAATCCTGATCACCACATTGGCATCAATATTATCAATGACATCAAGTCACTCTGAT
* *
713684 CTTGCTCGCCACCATGGCTTCACCCTGATCCTGATCGCCACTTTGGCA
196 CTTGCTCGCCACCATGGCTTCACCCTGATCCTAATCGCCACCTTGGCA
* ** *
713732 TCAATATTATCAGTGACACCAAGTCACTCTGATCTTGCTCGCCACCTTGGCCTCGCCCTAATCCT
1 TCAATATTATCAGTAACACCAAGTCACTCTGATCCCGCTCGCCACCTTGGCCTCACCCTAATCCT
* * * * *
713797 GATCGCCACATTGGCATCATTATTATCAGTGACGCCGAGTCACTCTGATCCTGCTCACCACCTTG
66 GATCGCCACATTGGCATCAATATTATCAATGACACCAAGTCACTCTGATCCTGCTCACCACCATG
* * * * *
713862 TCTTCGCCCTAATCCTGATCACCACATTGGCATCAATATTATCAGTGACGTCGAGTCACTCTGAT
131 GCTTCACCCTAATCCTGATCACCACATTGGCATCAATATTATCAATGACATCAAGTCACTCTGAT
* * *
713927 CTTGCTCTCCACCATGGCTTCACCTTGATCCTAATTGCCACCTTGGCA
196 CTTGCTCGCCACCATGGCTTCACCCTGATCCTAATCGCCACCTTGGCA
*
713975 CCAATATTATCAGTAAC
1 TCAATATTATCAGTAAC
713992 GCAGAGTCAC
Statistics
Matches: 230, Mismatches: 30, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
243 230 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (243 bp):
TCAATATTATCAGTAACACCAAGTCACTCTGATCCCGCTCGCCACCTTGGCCTCACCCTAATCCT
GATCGCCACATTGGCATCAATATTATCAATGACACCAAGTCACTCTGATCCTGCTCACCACCATG
GCTTCACCCTAATCCTGATCACCACATTGGCATCAATATTATCAATGACATCAAGTCACTCTGAT
CTTGCTCGCCACCATGGCTTCACCCTGATCCTAATCGCCACCTTGGCA
Found at i:713987 original size:81 final size:81
Alignment explanation
Indices: 713489--713988 Score: 658
Period size: 81 Copynumber: 6.2 Consensus size: 81
713479 CACGTCGAAG
* * ** * **
713489 TCAATATTATAAGTAACACCAAGTCACTCTGATCCCGTTCGCCACTTTGGCTTCACCCTAATCCT
1 TCAATATTATCAGTGACACCAAGTCACTCTGATCTTGCTCGCCACCATGGCTTCACCCTAATCCT
713554 GATCGCCACATTGGCA
66 GATCGCCACATTGGCA
* * * *
713570 TCAATATTATCAATGACACCAAGTCACTCTGATCCTGCTCGCTACCATGGCTTCACCCTTATCCT
1 TCAATATTATCAGTGACACCAAGTCACTCTGATCTTGCTCGCCACCATGGCTTCACCCTAATCCT
*
713635 GATCGTCACATTGGCA
66 GATCGCCACATTGGCA
* * *
713651 TCAATATTATCAATGACATCAAGTCACTCTGATCTTGCTCGCCACCATGGCTTCACCCTGATCCT
1 TCAATATTATCAGTGACACCAAGTCACTCTGATCTTGCTCGCCACCATGGCTTCACCCTAATCCT
*
713716 GATCGCCACTTTGGCA
66 GATCGCCACATTGGCA
* * *
713732 TCAATATTATCAGTGACACCAAGTCACTCTGATCTTGCTCGCCACCTTGGCCTCGCCCTAATCCT
1 TCAATATTATCAGTGACACCAAGTCACTCTGATCTTGCTCGCCACCATGGCTTCACCCTAATCCT
713797 GATCGCCACATTGGCA
66 GATCGCCACATTGGCA
* * * * * * * *
713813 TCATTATTATCAGTGACGCCGAGTCACTCTGATCCTGCTCACCACCTTGTCTTCGCCCTAATCCT
1 TCAATATTATCAGTGACACCAAGTCACTCTGATCTTGCTCGCCACCATGGCTTCACCCTAATCCT
*
713878 GATCACCACATTGGCA
66 GATCGCCACATTGGCA
** * * * *
713894 TCAATATTATCAGTGACGTCGAGTCACTCTGATCTTGCTCTCCACCATGGCTTCACCTTGATCCT
1 TCAATATTATCAGTGACACCAAGTCACTCTGATCTTGCTCGCCACCATGGCTTCACCCTAATCCT
* * *
713959 AATTGCCACCTTGGCA
66 GATCGCCACATTGGCA
*
713975 CCAATATTATCAGT
1 TCAATATTATCAGT
713989 AACGCAGAGT
Statistics
Matches: 374, Mismatches: 45, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 374 1.00
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (81 bp):
TCAATATTATCAGTGACACCAAGTCACTCTGATCTTGCTCGCCACCATGGCTTCACCCTAATCCT
GATCGCCACATTGGCA
Found at i:716397 original size:17 final size:15
Alignment explanation
Indices: 716377--716426 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
716367 TTAAGTAAAA
716377 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
716394 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
*
716408 AA-AAAGAAA-AAAA
1 AAGAAAGAAAGAAAG
716421 AAGAAA
1 AAGAAA
716427 AAAATATGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.17
14 12 0.40
15 1 0.03
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:716415 original size:10 final size:10
Alignment explanation
Indices: 716374--716430 Score: 62
Period size: 10 Copynumber: 5.4 Consensus size: 10
716364 AAGTTAAGTA
716374 AAAAAGAAAG
1 AAAAAGAAAG
716384 AAAGAAGATGAAG
1 AAA-AAGA--AAG
716397 AAGAAAGAAAG
1 AA-AAAGAAAG
*
716408 AAAAAGAAAA
1 AAAAAGAAAG
716418 AAAAAGAAA-
1 AAAAAGAAAG
716427 AAAA
1 AAAA
716431 TATGAAATGG
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
9 4 0.10
10 19 0.45
11 9 0.21
13 9 0.21
14 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:719306 original size:18 final size:18
Alignment explanation
Indices: 719283--719420 Score: 61
Period size: 18 Copynumber: 8.1 Consensus size: 18
719273 TGATATCTTT
719283 AAATATAATATAATTATA
1 AAATATAATATAATTATA
*
719301 AAATATGATTATAA-TAT-
1 AAATAT-AATATAATTATA
719318 AAA-A-AAT-TAA--ATA
1 AAATATAATATAATTATA
*
719331 AAATATAAAAT-ATGATATAA
1 AAATATAATATAAT--TAT-A
* *
719351 AAATATATTAAAATT-TA
1 AAATATAATATAATTATA
719368 TAAA-AT-ATA-AATTAT-
1 -AAATATAATATAATTATA
* *
719383 TAATATAATAAAATTTATA
1 AAATATAATATAA-TTATA
719402 TAAATA-AATATAATTATA
1 -AAATATAATATAATTATA
719420 A
1 A
719421 CTTATAAAAT
Statistics
Matches: 91, Mismatches: 10, Indels: 39
0.65 0.07 0.28
Matches are distributed among these distances:
12 2 0.02
13 6 0.07
14 5 0.05
15 9 0.10
16 8 0.09
17 9 0.10
18 22 0.24
19 15 0.16
20 13 0.14
21 2 0.02
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (18 bp):
AAATATAATATAATTATA
Found at i:719335 original size:19 final size:19
Alignment explanation
Indices: 719313--719378 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
719303 ATATGATTAT
*
719313 AATATAAAAAATTAAATAA
1 AATATAAAAAATTATATAA
* *
719332 AATATAAAATATGATATAAA
1 AATATAAAAAATTATAT-AA
*
719352 AATATATTAAAATT-TATAA
1 AATATA-AAAAATTATATAA
719371 AATATAAA
1 AATATAAA
719379 TTATTAATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
18 1 0.03
19 22 0.58
20 11 0.29
21 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
AATATAAAAAATTATATAA
Found at i:719371 original size:39 final size:37
Alignment explanation
Indices: 719297--719378 Score: 103
Period size: 39 Copynumber: 2.2 Consensus size: 37
719287 ATAATATAAT
*
719297 TATAAAATATGATTATAATATAAAAAATTAAATAAAA
1 TATAAAATATGATTAAAATATAAAAAATTAAATAAAA
* *
719334 TATAAAATATGATATAAAAATATATTAAAATT-TATAAAA
1 TATAAAATATGAT-T-AAAATATA-AAAAATTAAATAAAA
719373 TATAAA
1 TATAAA
719379 TTATTAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
37 13 0.33
38 1 0.03
39 19 0.49
40 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (37 bp):
TATAAAATATGATTAAAATATAAAAAATTAAATAAAA
Found at i:719404 original size:14 final size:14
Alignment explanation
Indices: 719353--719409 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 14
719343 TGATATAAAA
*
719353 ATATATTAAAATTT
1 ATATAATAAAATTT
*
719367 ATAAAATATAAATTATT
1 ATATAATA-AAA-T-TT
719384 AATATAATAAAATTT
1 -ATATAATAAAATTT
719399 ATATAAATAAA
1 ATAT-AATAAA
719410 TATAATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
14 10 0.29
15 11 0.31
16 2 0.06
17 5 0.14
18 7 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATAATAAAATTT
Found at i:719409 original size:15 final size:15
Alignment explanation
Indices: 719359--719409 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
719349 AAAAATATAT
719359 TAAAATTTATA-AAA
1 TAAAATTTATATAAA
719373 TATAAA-TTATTAATATAA
1 TA-AAATTTA-T-ATA-AA
719391 TAAAATTTATATAAA
1 TAAAATTTATATAAA
719406 TAAA
1 TAAA
719410 TATAATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
14 5 0.16
15 10 0.32
16 4 0.13
17 5 0.16
18 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAAATTTATATAAA
Found at i:719430 original size:24 final size:24
Alignment explanation
Indices: 719384--719431 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
719374 ATAAATTATT
*
719384 AATATAATAAAATTTATATAAATA
1 AATATAATAAAACTTATATAAATA
*
719408 AATATAATTATAACTTATA-AAATA
1 AATATAA-TAAAACTTATATAAATA
719432 CATAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AATATAATAAAACTTATATAAATA
Found at i:726203 original size:43 final size:46
Alignment explanation
Indices: 726113--726208 Score: 120
Period size: 49 Copynumber: 2.0 Consensus size: 46
726103 TGGTCTAAGT
*
726113 TAAGCCGGATTTAATATTAATATTATAATTTATATTTATTCAGATTTAA
1 TAAGCCGGATTTAATATTAATATCATAATTTATA-TTATT-A-ATTTAA
* * *
726162 TAAGTCGGATTTAATATTTATATCATAATTTATATTTATTTATTTAA
1 TAAGCCGGATTTAATATTAATATCATAATTTATA-TTATTAATTTAA
726209 GTATGATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 6 0.14
49 37 0.86
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (46 bp):
TAAGCCGGATTTAATATTAATATCATAATTTATATTATTAATTTAA
Found at i:726339 original size:33 final size:33
Alignment explanation
Indices: 726294--726374 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
726284 ATTTATTTAG
* *
726294 ATTTTAAGTTTTTCATATAAACAATAGATAC-A
1 ATTTTAAATTTTTCATATAAACAATAAATACTA
* *
726326 ATATTTAAATTTTTAATATAAATAATAAATACTTA
1 AT-TTTAAATTTTTCATATAAACAATAAATAC-TA
726361 ATTTT-AATTTTTCA
1 ATTTTAAATTTTTCA
726375 AAGAGTGCGA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 2 0.05
33 33 0.80
34 3 0.07
35 3 0.07
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.47
Consensus pattern (33 bp):
ATTTTAAATTTTTCATATAAACAATAAATACTA
Found at i:726853 original size:3 final size:3
Alignment explanation
Indices: 726845--726871 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
726835 TCCTTGGTTA
726845 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
726872 TATCGGTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:730574 original size:13 final size:13
Alignment explanation
Indices: 730556--730580 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
730546 AGTAATAAAA
730556 ATAAATTTTAATG
1 ATAAATTTTAATG
730569 ATAAATTTTAAT
1 ATAAATTTTAAT
730581 TTTTACTCAT
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:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
ATAAATTTTAATG
Found at i:733010 original size:15 final size:15
Alignment explanation
Indices: 732990--733120 Score: 60
Period size: 15 Copynumber: 8.6 Consensus size: 15
732980 GAGTCATTCG
732990 ATTTTAAATTAAATT
1 ATTTTAAATTAAATT
733005 ATTTTAAATTTTTAAATT
1 ATTTTAAA---TTAAATT
*
733023 -TTTAAAATT---TT
1 ATTTTAAATTAAATT
* **
733034 AAATTTAAATTATTTT
1 -ATTTTAAATTAAATT
733050 AATTTTAAATT-AATT
1 -ATTTTAAATTAAATT
*
733065 AATTTAATAATTAAATT
1 -ATTTTA-AATTAAATT
* *
733082 A-ATCAAATTTAAATT
1 ATTTTAAA-TTAAATT
*
733097 ATTCTAAACTTAAA-T
1 ATTTTAAA-TTAAATT
733112 ATTTTAAAT
1 ATTTTAAAT
733121 ACAATAAACA
Statistics
Matches: 90, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
11 2 0.02
13 7 0.08
14 5 0.06
15 34 0.38
16 25 0.28
17 10 0.11
18 7 0.08
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTTAAATTAAATT
Found at i:733030 original size:9 final size:8
Alignment explanation
Indices: 733006--733060 Score: 62
Period size: 8 Copynumber: 7.1 Consensus size: 8
732996 AATTAAATTA
733006 TTTTAAAT
1 TTTTAAAT
733014 TTTTAAAT
1 TTTTAAAT
*
733022 TTTTAAAA
1 TTTTAAAT
733030 TTTTAAA-
1 TTTTAAAT
733037 -TTTAAAT
1 TTTTAAAT
*
733044 TATTTTAA-
1 T-TTTAAAT
733052 TTTTAAAT
1 TTTTAAAT
733060 T
1 T
733061 AATTAATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 6 0.15
7 5 0.12
8 24 0.60
9 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TTTTAAAT
Found at i:733061 original size:16 final size:16
Alignment explanation
Indices: 732990--733061 Score: 71
Period size: 16 Copynumber: 4.7 Consensus size: 16
732980 GAGTCATTCG
**
732990 ATTTTAAATTAAATT-
1 ATTTTAAATTATTTTA
*
733005 ATTTTAAATT-TTTAA
1 ATTTTAAATTATTTTA
733020 ATTTTTAAA--ATTTTA
1 A-TTTTAAATTATTTTA
*
733035 AATTTAAATTATTTTA
1 ATTTTAAATTATTTTA
733051 ATTTTAAATTA
1 ATTTTAAATTA
733062 ATTAATTTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
14 7 0.15
15 16 0.35
16 23 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTTAAATTATTTTA
Found at i:733069 original size:21 final size:20
Alignment explanation
Indices: 732990--733084 Score: 72
Period size: 21 Copynumber: 4.7 Consensus size: 20
732980 GAGTCATTCG
*
732990 ATTTTAAATTAAATTATTTTAA
1 ATTTTAAATT-AATTAATTT-A
*
733012 ATTTTTAAATT-TTTAA---A
1 A-TTTTAAATTAATTAATTTA
*
733029 ATTTTAAATTTAAATTATTTTA
1 ATTTTAAA-TT-AATTAATTTA
733051 ATTTTAAATTAATTAATTTA
1 ATTTTAAATTAATTAATTTA
*
733071 ATAATTAAATTAAT
1 AT-TTTAAATTAAT
733085 CAAATTTAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
16 7 0.12
17 4 0.07
19 3 0.05
20 11 0.19
21 15 0.25
22 10 0.17
23 9 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTAAATTAATTAATTTA
Found at i:733069 original size:30 final size:29
Alignment explanation
Indices: 732990--733071 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 29
732980 GAGTCATTCG
*
732990 ATTTTAAATTAAATTATTTTAAATTTTTAA
1 ATTTTAAATT-AATTAATTTAAATTTTTAA
*
733020 ATTTTTAAAATT--TTAAATTTAAATTATTTTA
1 A-TTTT-AAATTAATT-AATTTAAATT-TTTAA
733051 ATTTTAAATTAATTAATTTAA
1 ATTTTAAATTAATTAATTTAA
733072 TAATTAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
29 7 0.16
30 21 0.48
31 11 0.25
32 5 0.11
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
ATTTTAAATTAATTAATTTAAATTTTTAA
Found at i:738098 original size:50 final size:50
Alignment explanation
Indices: 738009--738213 Score: 257
Period size: 50 Copynumber: 4.1 Consensus size: 50
737999 ATTGTCATTG
* * *
738009 TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTAATTA
1 TTGACGATTCTTCACCAACCTTTGACAATTGAGAGAGGTGACCATAATTA
* * ** *
738059 TTAACGATTCTTCACCAACCTTTGACAATTGAGAAAGGTGGTCATAATTG
1 TTGACGATTCTTCACCAACCTTTGACAATTGAGAGAGGTGACCATAATTA
* * ** * ** *
738109 TTGACTATTCTTTACCAACCTTTGATGATAGAGAGAGGTGACTGTAATTG
1 TTGACGATTCTTCACCAACCTTTGACAATTGAGAGAGGTGACCATAATTA
*
738159 TTGACGATTCTTCACCAATCTTTGACAATTGAGAGAGGTGACCATAATTA
1 TTGACGATTCTTCACCAACCTTTGACAATTGAGAGAGGTGACCATAATTA
738209 TTGAC
1 TTGAC
738214 AATTGTTGAC
Statistics
Matches: 127, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 127 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGACGATTCTTCACCAACCTTTGACAATTGAGAGAGGTGACCATAATTA
Found at i:738182 original size:100 final size:100
Alignment explanation
Indices: 738005--738213 Score: 310
Period size: 100 Copynumber: 2.1 Consensus size: 100
737995 AGGTATTGTC
*
738005 ATTGTTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGACCGTAATTATTAACGATTCT
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGACCGTAATTATTAACGATTCT
**
738070 TCACCAACCTTTGACAATTGAGAAAGGTGGTCATA
66 TCACCAACCTTTGACAATTGAGAAAGGTGACCATA
* ** * * *
738105 ATTGTTGACTATTCTTTACCAACCTTTGATGATAGAGAGAGGTGACTGTAATTGTTGACGATTCT
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGACCGTAATTATTAACGATTCT
* *
738170 TCACCAATCTTTGACAATTGAGAGAGGTGACCATA
66 TCACCAACCTTTGACAATTGAGAAAGGTGACCATA
*
738205 ATTATTGAC
1 ATTGTTGAC
738214 AATTGTTGAC
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (100 bp):
ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGACCGTAATTATTAACGATTCT
TCACCAACCTTTGACAATTGAGAAAGGTGACCATA
Found at i:738322 original size:50 final size:49
Alignment explanation
Indices: 738247--738406 Score: 158
Period size: 50 Copynumber: 3.2 Consensus size: 49
738237 AGATGTTGCC
* *
738247 ATTGTTGACTATTCTTCACCAACCTTTAACAATCGAGAGAGGTAGTCGTA
1 ATTGTTGACTA-TCTTCACCAACCTTTGACAATAGAGAGAGGTAGTCGTA
* * * * *
738297 ATTGTTGACGATCATTCACCAACCTTTGACAATTGAGAGAGTTGGTCATA
1 ATTGTTGACTATC-TTCACCAACCTTTGACAATAGAGAGAGGTAGTCGTA
* * * * * * * *
738347 ATTATTAACTATTTTTTACCAACATTTGATAATAAAGAGAGGTTGTCGTA
1 ATTGTTGACTA-TCTTCACCAACCTTTGACAATAGAGAGAGGTAGTCGTA
738397 ATTGTTGACT
1 ATTGTTGACT
738407 CTAAGCAACT
Statistics
Matches: 88, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
49 2 0.02
50 85 0.97
51 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (49 bp):
ATTGTTGACTATCTTCACCAACCTTTGACAATAGAGAGAGGTAGTCGTA
Found at i:739309 original size:11 final size:11
Alignment explanation
Indices: 739282--739401 Score: 58
Period size: 11 Copynumber: 10.9 Consensus size: 11
739272 ATAATGCTAG
739282 ATATAATATAA
1 ATATAATATAA
739293 TTATATAATATAA
1 --ATATAATATAA
* *
739306 ATATGATGTAA
1 ATATAATATAA
*
739317 A-ATAAGATATGA
1 ATAT-A-ATATAA
739329 A-ATAA-A-AA
1 ATATAATATAA
739337 ATA-AA-ATAA
1 ATATAATATAA
739346 ATATAATATAA
1 ATATAATATAA
739357 ATATAA-A-AA
1 ATATAATATAA
* **
739366 TATTATAAAATTT
1 -A-TATAATATAA
739379 ATATAATATAA
1 ATATAATATAA
739390 ATTATTAATATA
1 A-TA-TAATATA
739402 TTAAAATTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 24
0.71 0.09 0.20
Matches are distributed among these distances:
8 5 0.06
9 9 0.11
10 7 0.08
11 34 0.40
12 11 0.13
13 18 0.21
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
ATATAATATAA
Found at i:739372 original size:17 final size:16
Alignment explanation
Indices: 739337--739390 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
739327 GAAATAAAAA
*
739337 ATAAAATAAATATAAT
1 ATAAAATAAAAATAAT
*
739353 ATAAATATAAAAATATT
1 ATAAA-ATAAAAATAAT
** *
739370 ATAAAATTTATATAAT
1 ATAAAATAAAAATAAT
739386 ATAAA
1 ATAAA
739391 TTATTAATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAAAATAAAAATAAT
Found at i:739373 original size:28 final size:29
Alignment explanation
Indices: 739286--739390 Score: 80
Period size: 28 Copynumber: 3.7 Consensus size: 29
739276 TGCTAGATAT
*
739286 AATATAATTATATAATATAAATATGATGTA-A
1 AATATAA-TATATAATATAAAAAT-AT-TATA
**
739317 AATA-AGATATGA-AATA-AAAAATAAAATA
1 AATATA-ATAT-ATAATATAAAAATATTATA
739345 AATATAATATA-AATATAAAAATATTATA
1 AATATAATATATAATATAAAAATATTATA
*
739373 AA-AT-TTATATAATATAAA
1 AATATAATATATAATATAAA
739391 TTATTAATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
26 4 0.06
27 16 0.26
28 22 0.35
29 6 0.10
30 8 0.13
31 6 0.10
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (29 bp):
AATATAATATATAATATAAAAATATTATA
Found at i:739418 original size:31 final size:33
Alignment explanation
Indices: 739337--739418 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
739327 GAAATAAAAA
**
739337 ATAAAATAAATATAATATAAATATAAAAATATT
1 ATAAAATTTATATAATATAAATATAAAAATATT
**
739370 ATAAAATTTATATAATATAAAT-TATTAATA-T
1 ATAAAATTTATATAATATAAATATAAAAATATT
739401 ATTAAAATTT-TATAATAT
1 A-TAAAATTTATATAATAT
739419 GAATGTGATT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
31 10 0.23
32 14 0.32
33 20 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (33 bp):
ATAAAATTTATATAATATAAATATAAAAATATT
Found at i:739657 original size:12 final size:12
Alignment explanation
Indices: 739642--739666 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
739632 TCAATGCTCA
739642 GGTCAAATTAAG
1 GGTCAAATTAAG
739654 GGTCAAATTAAG
1 GGTCAAATTAAG
739666 G
1 G
739667 CTAGATTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.28, T:0.24
Consensus pattern (12 bp):
GGTCAAATTAAG
Found at i:744077 original size:2 final size:2
Alignment explanation
Indices: 744070--744108 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
744060 TCCGAAGTGT
744070 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG TAG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -AG AG
744109 TATGAGCTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.03
Consensus pattern (2 bp):
AG
Found at i:746286 original size:14 final size:14
Alignment explanation
Indices: 746267--746295 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
746257 TTCATAAACT
746267 TGGTTAGGGTTAGA
1 TGGTTAGGGTTAGA
746281 TGGTTAGGGTTAGA
1 TGGTTAGGGTTAGA
746295 T
1 T
746296 CGAATCGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (14 bp):
TGGTTAGGGTTAGA
Found at i:749207 original size:24 final size:22
Alignment explanation
Indices: 749175--749226 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
749165 TTTATATTCT
749175 TATATAAAAATATGATTTTTTAAA
1 TATATAAAAATA--ATTTTTTAAA
749199 TATAT-AAAATAATTTTTTAAA
1 TATATAAAAATAATTTTTTAAA
749220 TA-ATAAA
1 TATATAAA
749227 TAATGTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 2 0.07
21 14 0.52
23 6 0.22
24 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TATATAAAAATAATTTTTTAAA
Found at i:753982 original size:2 final size:2
Alignment explanation
Indices: 753975--754002 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
753965 TTTCCACAGC
753975 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
754003 AACACACGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:754958 original size:20 final size:22
Alignment explanation
Indices: 754910--754961 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
754900 AAAAGTAAAA
754910 TTTTAATTTATCATTATAATTT
1 TTTTAATTTATCATTATAATTT
754932 TAGTTTAATTTAT-A-TATAATTT
1 T--TTTAATTTATCATTATAATTT
754954 TTTTAATT
1 TTTTAATT
754962 GAGTTAATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 7 0.25
22 10 0.36
23 1 0.04
24 10 0.36
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTAATTTATCATTATAATTT
Found at i:758447 original size:15 final size:18
Alignment explanation
Indices: 758413--758449 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
758403 TAATGTAAAA
758413 ATTTTTGAAATTATTTTT
1 ATTTTTGAAATTATTTTT
758431 ATTTTT-AAA-TA-TTTT
1 ATTTTTGAAATTATTTTT
758446 ATTT
1 ATTT
758450 ATAGGTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
16 2 0.11
17 3 0.16
18 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTTTGAAATTATTTTT
Found at i:758710 original size:3 final size:3
Alignment explanation
Indices: 758695--758732 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
758685 ACCTAAAAAT
* *
758695 TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA CAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
758733 TTTTGATAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:759093 original size:19 final size:17
Alignment explanation
Indices: 759061--759111 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
759051 ATTTAAAATA
759061 ATATTAAAATTATTTTT
1 ATATTAAAATTATTTTT
759078 ATATTATAATATTATTTTT
1 ATATTA-AA-ATTATTTTT
*
759097 A-A-TAAAAATATTTTT
1 ATATTAAAATTATTTTT
759112 TAATATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 8 0.26
16 2 0.06
17 8 0.26
18 3 0.10
19 10 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTAAAATTATTTTT
Found at i:761120 original size:17 final size:18
Alignment explanation
Indices: 761084--761125 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
761074 ATTTATTTAA
*
761084 ATTTTATATAAAAAAGTG
1 ATTTTTTATAAAAAAGTG
*
761102 ATTTTTTAT-AAAAATTG
1 ATTTTTTATAAAAAAGTG
761119 ATTTTTT
1 ATTTTTT
761126 TCAAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (18 bp):
ATTTTTTATAAAAAAGTG
Found at i:761126 original size:18 final size:17
Alignment explanation
Indices: 761093--761135 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
761083 AATTTTATAT
*
761093 AAAAAAGTGATTTTTT-
1 AAAAAATTGATTTTTTC
761109 ATAAAAATTGATTTTTTTC
1 A-AAAAATTGA-TTTTTTC
761128 AAAAAATT
1 AAAAAATT
761136 TTATATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.04
17 8 0.35
18 13 0.57
19 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (17 bp):
AAAAAATTGATTTTTTC
Found at i:762600 original size:2 final size:2
Alignment explanation
Indices: 762593--762620 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
762583 TATTTAGCCA
762593 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
762621 GTAAAGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:763004 original size:29 final size:28
Alignment explanation
Indices: 762949--763004 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
762939 ATTTATAAAA
***
762949 AAATTTATAATAAAATATATTTTTATTT
1 AAATTTATAATAAAATATATAAATATTT
*
762977 AAATTTAATTATAAAATATATAAATATT
1 AAATTT-ATAATAAAATATATAAATATT
763005 ATTATTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
AAATTTATAATAAAATATATAAATATTT
Found at i:763016 original size:22 final size:21
Alignment explanation
Indices: 762976--763026 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
762966 TATTTTTATT
762976 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
*
762997 TAAATATT-ATTATTAAA-ATA
1 TAAAT-TTAATTATAAAATATA
763017 -AAATTTAATT
1 TAAATTTAATT
763027 TTTTTATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.07
19 7 0.26
20 3 0.11
21 13 0.48
22 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:763862 original size:23 final size:22
Alignment explanation
Indices: 763839--763903 Score: 77
Period size: 18 Copynumber: 3.1 Consensus size: 22
763829 ATAATTAAAT
763839 TTAAATAAAAATATTATTTTAA
1 TTAAATAAAAATATTATTTTAA
763861 TT---T-AAAATATTATTTTGAA
1 TTAAATAAAAATATTATTTT-AA
763880 TTAAATAAAAA-ATTAATTTTAA
1 TTAAATAAAAATATT-ATTTTAA
763902 TT
1 TT
763904 TAATTTAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
18 13 0.35
19 5 0.14
22 10 0.27
23 9 0.24
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
TTAAATAAAAATATTATTTTAA
Found at i:763906 original size:23 final size:21
Alignment explanation
Indices: 763839--763903 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
763829 ATAATTAAAT
763839 TTAAATAAAAATATTATTTTAA
1 TTAAATAAAAA-ATTATTTTAA
*
763861 TT---TAAAATATTATTTTGAA
1 TTAAATAAAAAATTATTTT-AA
763880 TTAAATAAAAAATTAATTTTAA
1 TTAAATAAAAAATT-ATTTTAA
763902 TT
1 TT
763904 TAATTTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
18 8 0.22
19 9 0.25
22 14 0.39
23 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TTAAATAAAAAATTATTTTAA
Found at i:763927 original size:18 final size:17
Alignment explanation
Indices: 763904--763948 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
763894 AATTTTAATT
763904 TAATTTAATTTAAACAAG
1 TAATTTAATTTAAA-AAG
* *
763922 TAATTTAATTTATAAAT
1 TAATTTAATTTAAAAAG
763939 TAATTTAATT
1 TAATTTAATT
763949 ATTAATATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TAATTTAATTTAAAAAG
Found at i:764270 original size:18 final size:19
Alignment explanation
Indices: 764227--764271 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 19
764217 ATTTAAAATA
*
764227 ATAT-TAAAAATTATTTTT
1 ATATATAAATATTATTTTT
764245 ATA-A-AAATATT-TTTTT
1 ATATATAAATATTATTTTT
764261 ATATATAAATA
1 ATATATAAATA
764272 ATAATTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
16 8 0.35
17 7 0.30
18 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATATAAATATTATTTTT
Found at i:767515 original size:2 final size:2
Alignment explanation
Indices: 767508--767549 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
767498 TTTGGGATAA
767508 AT AT AT AT AT AT 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 AT AT AT AT AT AT
767550 GCTTTGCAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:767721 original size:23 final size:23
Alignment explanation
Indices: 767693--767745 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
767683 TATTATTTAT
767693 ATTAAAAATTT-ATTTAAATATAA
1 ATTAAAAATTTAATTTAAATAT-A
767716 ATT-AAAATTTAATTTAAATATA
1 ATTAAAAATTTAATTTAAATATA
767738 A-TAAAAAT
1 ATTAAAAAT
767746 ATAAAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 1 0.04
22 14 0.50
23 13 0.46
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTAAAAATTTAATTTAAATATA
Found at i:767757 original size:27 final size:28
Alignment explanation
Indices: 767708--767768 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
767698 AAATTTATTT
*
767708 AAATATAAATTAAAATTTAATTTAAATA
1 AAATAAAAATTAAAATTTAATTTAAATA
*
767736 TAATAAAAATATAAAA-TT-ATTTAAATA
1 AAATAAAAAT-TAAAATTTAATTTAAATA
767763 AAATAA
1 AAATAA
767769 TAAAATTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 14 0.48
28 10 0.34
29 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
AAATAAAAATTAAAATTTAATTTAAATA
Found at i:768171 original size:29 final size:28
Alignment explanation
Indices: 768116--768171 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
768106 ATTTATAAAC
***
768116 AAATTTATAATAAAATATATTTTTATTT
1 AAATTTATAATAAAATATATAAATATTT
*
768144 AAATTTAATTATAAAATATATAAATATT
1 AAATTT-ATAATAAAATATATAAATATT
768172 ATTATTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
AAATTTATAATAAAATATATAAATATTT
Found at i:768183 original size:22 final size:21
Alignment explanation
Indices: 768143--768193 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
768133 TATTTTTATT
768143 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
*
768164 TAAATATT-ATTATTAAA-ATA
1 TAAAT-TTAATTATAAAATATA
768184 -AAATTTAATT
1 TAAATTTAATT
768194 TTTTTATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.07
19 7 0.26
20 3 0.11
21 13 0.48
22 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:768983 original size:19 final size:20
Alignment explanation
Indices: 768953--768995 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
768943 TAAATTTGAA
*
768953 TAAAATATATTATTTTAATT
1 TAAAATATATTATTTTAAAT
768973 TAAAA-ATATTATTTTAAAT
1 TAAAATATATTATTTTAAAT
768992 TAAA
1 TAAA
768996 TTTGATTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAAATATATTATTTTAAAT
Found at i:770651 original size:18 final size:19
Alignment explanation
Indices: 770628--770679 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
770618 AAATAAATAT
* *
770628 AAAATTAT-AATTTTTAAA
1 AAAATTATAAATATATAAA
*
770646 AAAATTTTAAATATATAAA
1 AAAATTATAAATATATAAA
*
770665 AAAATTAAAAATATA
1 AAAATTATAAATATA
770680 CATGATAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTATAAATATATAAA
Found at i:770662 original size:26 final size:26
Alignment explanation
Indices: 770588--770663 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 26
770578 ATTAAACAAG
* *
770588 TAAAAAAATTTTTATTGA-ATATATTTT
1 TAAAAAAATTTTAAAT-ATATA-ATTTT
* *
770615 TAAAAATAAATATAAA-ATTATAATTTT
1 TAAAAA-AATTTTAAATA-TATAATTTT
770642 TAAAAAAATTTTAAATATATAA
1 TAAAAAAATTTTAAATATATAA
770664 AAAAATTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
26 13 0.33
27 18 0.46
28 8 0.21
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (26 bp):
TAAAAAAATTTTAAATATATAATTTT
Found at i:771431 original size:13 final size:13
Alignment explanation
Indices: 771413--771443 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
771403 TATTTAAAAT
*
771413 ATATTAAATATAA
1 ATATTAAATACAA
771426 ATATTAAATACAA
1 ATATTAAATACAA
771439 ATATT
1 ATATT
771444 TTATAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATTAAATACAA
Found at i:771847 original size:14 final size:14
Alignment explanation
Indices: 771809--771848 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
771799 TTCTATTAAA
771809 TAAATAAATATT-T
1 TAAATAAATATTAT
* *
771822 TATATTAATATTAT
1 TAAATAAATATTAT
771836 TAAATAAATATTA
1 TAAATAAATATTA
771849 ATATGACAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAATAAATATTAT
Found at i:771852 original size:33 final size:34
Alignment explanation
Indices: 771771--771852 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 34
771761 AATAAAAAAT
*
771771 TTAAAT-AATATTATTATTATTATTATTATTCTA
1 TTAAATAAATATTAATATTATTATTATTATTCTA
771804 TTAAATAAATA--AATATT-TTA-TATTAATAT-TA
1 TTAAATAAATATTAATATTATTATTATT-AT-TCTA
771835 TTAAATAAATATTAATAT
1 TTAAATAAATATTAATAT
771853 GACAAATAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
30 4 0.09
31 18 0.42
32 6 0.14
33 11 0.26
34 4 0.09
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (34 bp):
TTAAATAAATATTAATATTATTATTATTATTCTA
Found at i:771864 original size:20 final size:20
Alignment explanation
Indices: 771823--771862 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
771813 TAAATATTTT
* *
771823 ATATTAATATTATTAAATAA
1 ATATTAATATGATCAAATAA
771843 ATATTAATATGA-CAAATAA
1 ATATTAATATGATCAAATAA
771862 A
1 A
771863 ATCTAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
ATATTAATATGATCAAATAA
Found at i:773667 original size:9 final size:9
Alignment explanation
Indices: 773653--773677 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
773643 TGGCTTTGAC
773653 GATGATGGT
1 GATGATGGT
773662 GATGATGGT
1 GATGATGGT
773671 GATGATG
1 GATGATG
773678 ATGACTGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (9 bp):
GATGATGGT
Found at i:774234 original size:2 final size:2
Alignment explanation
Indices: 774227--774263 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
774217 GGCAGTGGAT
774227 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
774264 TTGTTGATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:774971 original size:17 final size:17
Alignment explanation
Indices: 774949--774981 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
774939 TGATAAATTT
774949 TTATATTTATATTATAA
1 TTATATTTATATTATAA
*
774966 TTATATTTTTATTATA
1 TTATATTTATATTATA
774982 TTTTGCAAGA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATATTTATATTATAA
Found at i:774973 original size:25 final size:25
Alignment explanation
Indices: 774923--774977 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
774913 TACTATTTGA
* *
774923 TTTATAATTTATATTTTGATAAATT
1 TTTATAATTTATATTATAATAAATT
*
774948 TTTAT-ATTTATATTATAATTATATT
1 TTTATAATTTATATTATAA-TAAATT
774973 TTTAT
1 TTTAT
774978 TATATTTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
TTTATAATTTATATTATAATAAATT
Found at i:775264 original size:25 final size:25
Alignment explanation
Indices: 775195--775293 Score: 76
Period size: 27 Copynumber: 3.8 Consensus size: 25
775185 ATCACAGTTT
*
775195 AATTTTTTATAT-TTTTTATTTA-A
1 AATTTATTATATATTTTTATTTATA
* * *
775218 ATTTTGTTTTGATATTAATTTATTTATA
1 AATTTATTAT-ATATT--TTTATTTATA
**
775246 AATTTATTATATATTTTTATAAATA
1 AATTTATTATATATTTTTATTTATA
*
775271 AATTAATATTATTTATTTTTATT
1 AATT--TATTATATATTTTTATT
775294 AAATAAATAA
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
23 7 0.12
24 2 0.03
25 14 0.24
27 28 0.47
28 8 0.14
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (25 bp):
AATTTATTATATATTTTTATTTATA
Found at i:775265 original size:21 final size:21
Alignment explanation
Indices: 775231--775286 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
775221 TTGTTTTGAT
**
775231 ATTAAT-TTATTTATAAATTT
1 ATTAATATTATTTATAAATAA
775251 ATTATATATT-TTTATAAATAA
1 ATTA-ATATTATTTATAAATAA
775272 ATTAATATTATTTAT
1 ATTAATATTATTTAT
775287 TTTTATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 9 0.29
21 20 0.65
22 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTAATATTATTTATAAATAA
Found at i:775280 original size:27 final size:28
Alignment explanation
Indices: 775243--775314 Score: 91
Period size: 27 Copynumber: 2.7 Consensus size: 28
775233 TAATTTATTT
775243 ATAAATT--TATTATATATTTTTA-TAA
1 ATAAATTAATATTATATATTTTTATTAA
*
775268 ATAAATTAATATTATTTATTTTTATTAA
1 ATAAATTAATATTATATATTTTTATTAA
775296 ATAAA-TAATAATT-TATATT
1 ATAAATTAAT-ATTATATATT
775315 ACATTATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.17
27 23 0.56
28 11 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
ATAAATTAATATTATATATTTTTATTAA
Found at i:782681 original size:36 final size:37
Alignment explanation
Indices: 782621--782698 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 37
782611 TTATTATTAA
782621 ATAA-TAATTTAAATTAACTTAAATTTATAAAAAAATT
1 ATAATTAATTTAAATTAACTTAAATTT-TAAAAAAATT
*
782658 ATAATTAA-TTAAA-TAACTTAAATTTTAAATAAATT
1 ATAATTAATTTAAATTAACTTAAATTTTAAAAAAATT
782693 -TAATTA
1 ATAATTA
782699 TAAATTTGAG
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
34 6 0.15
35 9 0.23
36 12 0.31
37 9 0.23
38 3 0.08
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (37 bp):
ATAATTAATTTAAATTAACTTAAATTTTAAAAAAATT
Found at i:782687 original size:16 final size:16
Alignment explanation
Indices: 782628--782703 Score: 62
Period size: 16 Copynumber: 4.4 Consensus size: 16
782618 TAAATAATAA
*
782628 TTTAAATTAACTTAAAT
1 TTTAAA-TAAATTAAAT
*
782645 TTATAAAAAAATTATAAT
1 TT-TAAATAAATTA-AAT
*
782663 TAATTAAATAACTTAAAT
1 T--TTAAATAAATTAAAT
*
782681 TTTAAATAAATTTAAT
1 TTTAAATAAATTAAAT
*
782697 TATAAAT
1 TTTAAAT
782704 TTGAGATATA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
16 19 0.40
17 7 0.15
18 12 0.25
19 9 0.19
20 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTAAATAAATTAAAT
Found at i:783097 original size:22 final size:21
Alignment explanation
Indices: 783060--783102 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
783050 ACTTAAGAAA
* *
783060 ATAATGATTTTTAAAATTAAT
1 ATAATAATTTTTAAAAATAAT
783081 ATAATAATTTTTAAAAAATAAT
1 ATAATAATTTTT-AAAAATAAT
783103 TTTAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
ATAATAATTTTTAAAAATAAT
Found at i:783371 original size:32 final size:32
Alignment explanation
Indices: 783330--783392 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
783320 TGTTAGGTAT
783330 TTATATAAATTTTAATATATTAATA-ATTTATG
1 TTATATAAATTTTAATAT-TTAATATATTTATG
*
783362 TTATATAAATTTTAATATTTTATATATTTAT
1 TTATATAAATTTTAATATTTAATATATTTAT
783393 AAATTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 5 0.17
32 24 0.83
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (32 bp):
TTATATAAATTTTAATATTTAATATATTTATG
Found at i:783378 original size:24 final size:25
Alignment explanation
Indices: 783349--783402 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
783339 TTTTAATATA
*
783349 TTAATAATTTATGT-TATATAAATT
1 TTAATAATTTATATATATATAAATT
* *
783373 TTAATATTTTATATATTTATAAATT
1 TTAATAATTTATATATATATAAATT
783398 TTAAT
1 TTAAT
783403 GCTTTATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATAATTTATATATATATAAATT
Found at i:783390 original size:17 final size:17
Alignment explanation
Indices: 783327--783400 Score: 57
Period size: 17 Copynumber: 4.4 Consensus size: 17
783317 TCATGTTAGG
783327 TATTTATATAAATTTTAA
1 TATTT-TATAAATTTTAA
*
783345 TATATTA-ATAA-TTT-A
1 TATTTTATA-AATTTTAA
* *
783360 TGTTATATAAATTTTAA
1 TATTTTATAAATTTTAA
*
783377 TATTTTATATATTTATAA
1 TATTTTATAAATTT-TAA
783395 -ATTTTA
1 TATTTTA
783401 ATGCTTTATT
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
15 7 0.16
16 8 0.18
17 22 0.50
18 7 0.16
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (17 bp):
TATTTTATAAATTTTAA
Found at i:784906 original size:34 final size:34
Alignment explanation
Indices: 784868--784947 Score: 142
Period size: 34 Copynumber: 2.4 Consensus size: 34
784858 AAATATCAAT
784868 GATTATCTAAACATTAGCAGTATTCATCCAAAAC
1 GATTATCTAAACATTAGCAGTATTCATCCAAAAC
*
784902 GATTATCTAAACATTAGCAGTATTCATCCAAAAT
1 GATTATCTAAACATTAGCAGTATTCATCCAAAAC
*
784936 GATTACCTAAAC
1 GATTATCTAAAC
784948 TGATCTGCTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (34 bp):
GATTATCTAAACATTAGCAGTATTCATCCAAAAC
Found at i:787613 original size:16 final size:16
Alignment explanation
Indices: 787589--787623 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
787579 TTTTTTTCAT
*
787589 TTTTGAATTCAAATTA
1 TTTTAAATTCAAATTA
*
787605 TTTTAAATTTAAATTA
1 TTTTAAATTCAAATTA
787621 TTT
1 TTT
787624 CGGATTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTAAATTCAAATTA
Found at i:787634 original size:16 final size:16
Alignment explanation
Indices: 787595--787652 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
787585 TCATTTTTGA
* *
787595 ATTCAAATTATTTTAA
1 ATTCAAATTATTTCAG
* *
787611 ATTTAAATTATTTCGG
1 ATTCAAATTATTTCAG
*
787627 ATTCAAATCATTTCAG
1 ATTCAAATTATTTCAG
*
787643 ATTTAAATTA
1 ATTCAAATTA
787653 ATTAAATTTA
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (16 bp):
ATTCAAATTATTTCAG
Found at i:787730 original size:2 final size:2
Alignment explanation
Indices: 787723--787747 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
787713 ACATTTTTAG
787723 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
787748 TTTTTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:787933 original size:14 final size:17
Alignment explanation
Indices: 787902--787933 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
787892 ATATTAAATT
787902 AATAATAATTAATAAAA
1 AATAATAATTAATAAAA
787919 AATAA-AATT-ATAAAA
1 AATAATAATTAATAAAA
787934 TTATAAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAATAATTAATAAAA
Found at i:792584 original size:2 final size:2
Alignment explanation
Indices: 792577--792601 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
792567 TTCTATTTAC
792577 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
792602 CCATAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:792736 original size:12 final size:12
Alignment explanation
Indices: 792719--792756 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
792709 TAAAATATTA
792719 TTTTATATTAAT
1 TTTTATATTAAT
792731 TTTTATA-TAA-
1 TTTTATATTAAT
792741 TTTTATAATTAAT
1 TTTTAT-ATTAAT
792754 TTT
1 TTT
792757 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
10 6 0.26
11 4 0.17
12 10 0.43
13 3 0.13
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTATATTAAT
Found at i:792738 original size:22 final size:23
Alignment explanation
Indices: 792713--792756 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
792703 ATTTATTAAA
*
792713 ATATTATTTTAT-ATTAATTTTT
1 ATATAATTTTATAATTAATTTTT
792735 ATATAATTTTATAATTAATTTT
1 ATATAATTTTATAATTAATTTT
792757 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATAATTTTATAATTAATTTTT
Found at i:792757 original size:12 final size:11
Alignment explanation
Indices: 792713--792757 Score: 58
Period size: 11 Copynumber: 4.1 Consensus size: 11
792703 ATTTATTAAA
792713 ATATT-ATTTT
1 ATATTAATTTT
792723 ATATTAATTTT
1 ATATTAATTTT
792734 -TATATAATTTT
1 ATAT-TAATTTT
792745 ATAATTAATTTT
1 AT-ATTAATTTT
792757 A
1 A
792758 AATAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 8 0.26
11 12 0.39
12 9 0.29
13 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:792762 original size:22 final size:22
Alignment explanation
Indices: 792718--792762 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
792708 TTAAAATATT
*
792718 ATTTTATATTAATTTTTATATA
1 ATTTTATATTAATTTTTAAATA
792740 ATTTTATAATTAA-TTTTAAATA
1 ATTTTAT-ATTAATTTTTAAATA
792762 A
1 A
792763 AAATATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTTATATTAATTTTTAAATA
Found at i:794089 original size:18 final size:19
Alignment explanation
Indices: 794048--794091 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
794038 GTTTTAAAAA
*
794048 ATAAATTTTGTATTAATAT
1 ATAAATTTTATATTAATAT
* *
794067 GTAAATTTTAT-TTAATGT
1 ATAAATTTTATATTAATAT
794085 ATAAATT
1 ATAAATT
794092 ATATCATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (19 bp):
ATAAATTTTATATTAATAT
Found at i:794800 original size:19 final size:17
Alignment explanation
Indices: 794776--794858 Score: 65
Period size: 17 Copynumber: 5.1 Consensus size: 17
794766 TTTAATTTTA
794776 AATTTATTAAATATTAATT
1 AATTTA-TAAA-ATTAATT
794795 AATTTATAAAATTAATT
1 AATTTATAAAATTAATT
794812 AA--T-T-AAATT--TT
1 AATTTATAAAATTAATT
*
794823 AAATTTA-AATATTAATT
1 -AATTTATAAAATTAATT
794840 AA-TTATATAAATTAATT
1 AATTTATA-AAATTAATT
794857 AA
1 AA
794859 ATTAAATTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 20
0.71 0.03 0.27
Matches are distributed among these distances:
11 2 0.04
12 2 0.04
13 5 0.09
14 2 0.04
15 8 0.15
16 3 0.06
17 21 0.40
18 4 0.08
19 6 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTATAAAATTAATT
Found at i:794806 original size:28 final size:30
Alignment explanation
Indices: 794742--794813 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 30
794732 AAATCATAAT
* *
794742 TTTAAAAAAATTA-TAAATATTAGATTTAA
1 TTTATAAAATTTATTAAATATTAGATTTAA
794771 TTT-T-AAATTTATTAAATATTA-A-TTAA
1 TTTATAAAATTTATTAAATATTAGATTTAA
*
794797 TTTATAAAATTAATTAA
1 TTTATAAAATTTATTAA
794814 TTAAATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
26 7 0.19
27 8 0.22
28 19 0.51
29 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (30 bp):
TTTATAAAATTTATTAAATATTAGATTTAA
Found at i:794819 original size:13 final size:13
Alignment explanation
Indices: 794791--794863 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
794781 ATTAAATATT
* *
794791 AATTAATTTATAA
1 AATTAATTAATTA
794804 AATTAATTAATTA
1 AATTAATTAATTA
794817 AATT--TTAAATTTAA
1 AATTAATT-AA-TT-A
794831 ATATTAATTAATTA
1 A-ATTAATTAATTA
* *
794845 TATAAATTAATTA
1 AATTAATTAATTA
794858 AATTAA
1 AATTAA
794864 ATTTTAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.04
12 2 0.04
13 32 0.67
14 3 0.06
15 5 0.10
16 2 0.04
17 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTAATTAATTA
Found at i:794841 original size:45 final size:46
Alignment explanation
Indices: 794782--794877 Score: 169
Period size: 45 Copynumber: 2.1 Consensus size: 46
794772 TTTAAATTTA
794782 TTAAATATTAATTAATT-TATAAAATTAATT-AATTAAATTTTAAAT
1 TTAAATATTAATTAATTATAT-AAATTAATTAAATTAAATTTTAAAT
794827 TTAAATATTAATTAATTATATAAATTAATTAAATTAAATTTTAAAT
1 TTAAATATTAATTAATTATATAAATTAATTAAATTAAATTTTAAAT
794873 TTAAA
1 TTAAA
794878 AATATATATT
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
45 26 0.53
46 23 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (46 bp):
TTAAATATTAATTAATTATATAAATTAATTAAATTAAATTTTAAAT
Found at i:794876 original size:13 final size:12
Alignment explanation
Indices: 794812--794873 Score: 53
Period size: 13 Copynumber: 5.3 Consensus size: 12
794802 AAAATTAATT
794812 AATTAAATTTTA
1 AATTAAATTTTA
*
794824 AATTTAAATATT-
1 AA-TTAAATTTTA
794836 AATT-AATTATATA
1 AATTAAATT-T-TA
794849 AATT-AA--TTA
1 AATTAAATTTTA
794858 AATTAAATTTTA
1 AATTAAATTTTA
794870 AATT
1 AATT
794874 TAAAAATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
9 6 0.15
10 6 0.15
11 3 0.07
12 12 0.29
13 14 0.34
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATTAAATTTTA
Found at i:795010 original size:19 final size:19
Alignment explanation
Indices: 794986--795028 Score: 61
Period size: 21 Copynumber: 2.2 Consensus size: 19
794976 TTAGCTTAAC
794986 TTAAAAT-AATATTTTTAT
1 TTAAAATAAATATTTTTAT
795004 ATTAAAATAAAATATTTTTAT
1 -TTAAAAT-AAATATTTTTAT
795025 TTAA
1 TTAA
795029 TTTTAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.32
20 4 0.18
21 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAAATAAATATTTTTAT
Found at i:796164 original size:21 final size:19
Alignment explanation
Indices: 796122--796166 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
796112 TGTGAATATT
*
796122 ATAAATTTTAAATTTTTAA
1 ATAATTTTTAAATTTTTAA
*
796141 ATAATTTTTAATATATTTTGA
1 ATAATTTTTAA-AT-TTTTAA
796162 ATAAT
1 ATAAT
796167 AAAATAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.45
20 2 0.09
21 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
ATAATTTTTAAATTTTTAA
Found at i:796599 original size:6 final size:6
Alignment explanation
Indices: 796588--796623 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
796578 GCCCAATGGG
*
796588 TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT TGGGTT
1 TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT
796624 CGGGTTTGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (6 bp):
TTGGTT
Found at i:796629 original size:18 final size:18
Alignment explanation
Indices: 796590--796630 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
796580 CCAATGGGTT
* **
796590 GGTTTTGGTTTTGGTTTT
1 GGTTTTGGTTTGGGTTCG
796608 GGTTTTGGTTTGGGTTCG
1 GGTTTTGGTTTGGGTTCG
796626 GGTTT
1 GGTTT
796631 GGGTCAGTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.02, G:0.39, T:0.59
Consensus pattern (18 bp):
GGTTTTGGTTTGGGTTCG
Found at i:803454 original size:22 final size:23
Alignment explanation
Indices: 803429--803476 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
803419 ACGTGACGAA
*
803429 AAAAATTAATAT-GATATAATAT
1 AAAAATTAATATAAATATAATAT
803451 AAAAATTAATATAAATATAATAT
1 AAAAATTAATATAAATATAATAT
803474 AAA
1 AAA
803477 TATTTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
AAAAATTAATATAAATATAATAT
Found at i:803473 original size:11 final size:11
Alignment explanation
Indices: 803442--803479 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
803432 AATTAATATG
803442 ATATAATATAA
1 ATATAATATAA
*
803453 AAATTAATATAA
1 ATA-TAATATAA
803465 ATATAATATAA
1 ATATAATATAA
803476 ATAT
1 ATAT
803480 TTAAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATATAATATAA
Done.