Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold133
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: 2564099
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 17052 characters in sequence are not A, C, G, or T
File 6 of 17
Found at i:637002 original size:20 final size:19
Alignment explanation
Indices: 636956--637033 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 19
636946 TTTTGCCCTG
* *
636956 ATGTATCGATACATTTTTCA
1 ATGTATCGATACA-TTATGA
*
636976 ATATATCGATACATGTATGA
1 ATGTATCGATACAT-TATGA
* * *
636996 ATGTATCGATATAATCTGTA
1 ATGTATCGATACATTATG-A
637016 ATGTATCGATACATTATG
1 ATGTATCGATACATTATG
637034 TCTTTTTACC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
19 4 0.09
20 42 0.91
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTATGA
Found at i:637977 original size:22 final size:22
Alignment explanation
Indices: 637943--637996 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
637933 AGCCTTTGAC
637943 CATGCA-TTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
637964 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
637986 CATGCATTTTT
1 CATGCATTTTT
637997 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.61
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:640695 original size:14 final size:15
Alignment explanation
Indices: 640642--640701 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 15
640632 AAATAAAATA
* *
640642 ATAATTAAATCAATT
1 ATAATTAAATTATTT
640657 -TAATTAAATATATTT
1 ATAATTAAAT-TATTT
*
640672 AT-ACTAAATT-TTT
1 ATAATTAAATTATTT
640685 ATAATTAAATTGATTT
1 ATAATTAAATT-ATTT
640701 A
1 A
640702 AGCTTGACTT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
13 5 0.14
14 17 0.47
15 9 0.25
16 5 0.14
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (15 bp):
ATAATTAAATTATTT
Found at i:642165 original size:25 final size:26
Alignment explanation
Indices: 642125--642231 Score: 86
Period size: 26 Copynumber: 4.2 Consensus size: 26
642115 TATTAATTTT
642125 ATATATAAT-TATAAAAT-TTAAAA-A
1 ATATATAATATA-AAAATATTAAAATA
642149 ATTATATAATATAAAAATAATTAAAATA
1 A-TATATAATATAAAAAT-ATTAAAATA
*
642177 A-ATATAATATAAAAATAATATTAAA-A
1 ATATATAATATAAAAAT-AT-TAAAATA
*
642203 A-A-A-AATATAAATATATTAAAATTA
1 ATATATAATATAAAAATATTAAAA-TA
642227 ATATA
1 ATATA
642232 AAACATATAA
Statistics
Matches: 70, Mismatches: 3, Indels: 18
0.77 0.03 0.20
Matches are distributed among these distances:
22 4 0.06
23 2 0.03
24 13 0.19
25 15 0.21
26 24 0.34
27 10 0.14
28 2 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
ATATATAATATAAAAATATTAAAATA
Found at i:642170 original size:19 final size:18
Alignment explanation
Indices: 642129--642190 Score: 53
Period size: 17 Copynumber: 3.7 Consensus size: 18
642119 AATTTTATAT
*
642129 ATAATTATAAAATTTAAA
1 ATAATTATAAAATTAAAA
*
642147 A-AATTATATAATATAAAA
1 ATAATTATAAAAT-TAAAA
*
642165 ATAA-T-TAAAA-TAAAT
1 ATAATTATAAAATTAAAA
642180 ATAA-TATAAAA
1 ATAATTATAAAA
642191 ATAATATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 9 0.24
16 5 0.14
17 14 0.38
18 7 0.19
19 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTATAAAATTAAAA
Found at i:642181 original size:26 final size:26
Alignment explanation
Indices: 642152--642232 Score: 98
Period size: 26 Copynumber: 3.2 Consensus size: 26
642142 TTAAAAAATT
642152 ATATAATATAAAAATAATTAAAATAA
1 ATATAATATAAAAATAATTAAAATAA
*
642178 ATATAATATAAAAATAATATTAAA-AA
1 ATATAATATAAAAATAAT-TAAAATAA
* *
642204 A-A-AATATAAATAT-ATTAAAATTA
1 ATATAATATAAAAATAATTAAAATAA
642227 ATATAA
1 ATATAA
642233 AACATATAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
22 4 0.09
23 4 0.09
24 11 0.23
25 3 0.06
26 21 0.45
27 4 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (26 bp):
ATATAATATAAAAATAATTAAAATAA
Found at i:642188 original size:11 final size:11
Alignment explanation
Indices: 642174--642233 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
642164 AATAATTAAA
642174 ATAAATATAAT
1 ATAAATATAAT
*
642185 ATAAAAATAAT
1 ATAAATATAAT
* *
642196 ATTAAAAAAAAAT
1 A-T-AAATATAAT
*
642209 ATAAATATATT
1 ATAAATATAAT
642220 A-AAAT-TAAT
1 ATAAATATAAT
642229 ATAAA
1 ATAAA
642234 ACATATAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
9 4 0.10
10 7 0.17
11 18 0.45
12 2 0.05
13 9 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATAAATATAAT
Found at i:643336 original size:18 final size:18
Alignment explanation
Indices: 643315--643378 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 18
643305 ATAATTACAC
643315 AAATAAATATAATATAAA
1 AAATAAATATAATATAAA
*
643333 AAATAATTATATTATAATATAA
1 AAATAA--ATATAAT-ATA-AA
* *
643355 AAATAATTATAAT-TATA
1 AAATAAATATAATATAAA
643372 AAATAAA
1 AAATAAA
643379 AATTTAAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
17 7 0.19
18 8 0.22
20 11 0.30
21 3 0.08
22 8 0.22
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATAAATATAATATAAA
Found at i:643381 original size:23 final size:23
Alignment explanation
Indices: 643317--643381 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
643307 AATTACACAA
*
643317 ATAAATATAATATAAAAAATAATT
1 ATAATTATAATAT-AAAAATAATT
643341 AT-ATTATAATATAAAAATAATT
1 ATAATTATAATATAAAAATAATT
*
643363 ATAATTATAAAATAAAAAT
1 ATAATTATAATATAAAAAT
643382 TTAAATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 12 0.32
23 24 0.63
24 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
ATAATTATAATATAAAAATAATT
Found at i:643402 original size:31 final size:32
Alignment explanation
Indices: 643355--643500 Score: 87
Period size: 30 Copynumber: 4.7 Consensus size: 32
643345 TATAATATAA
*
643355 AAATA-ATTATAA-TTATAAAATAAAAATT-T
1 AAATATATTAAAATTTATAAAATAAAAATTAT
* *
643384 AAATATTTTAAAATTTAT--AATATAAATTAT
1 AAATATATTAAAATTTATAAAATAAAAATTAT
* * *
643414 TACTATATTAAAATTTATATAAATATAAAATATTTT
1 AAATATATTAAAA-TT-TATAAA-ATAAAA-ATTAT
*
643450 AAATATAATTATAA--TAT-AAAT-AAAATATAT
1 AAATAT-ATTAAAATTTATAAAATAAAAAT-TAT
* *
643480 AAATATAATAAAA-ATATAAAA
1 AAATATATTAAAATTTATAAAA
643501 ATTAATACGT
Statistics
Matches: 90, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
29 21 0.23
30 30 0.33
31 11 0.12
32 5 0.06
33 3 0.03
34 1 0.01
35 5 0.06
36 8 0.09
37 6 0.07
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.40
Consensus pattern (32 bp):
AAATATATTAAAATTTATAAAATAAAAATTAT
Found at i:643451 original size:27 final size:30
Alignment explanation
Indices: 643373--643477 Score: 89
Period size: 27 Copynumber: 3.6 Consensus size: 30
643363 ATAATTATAA
*
643373 AATAAAAATT-TAAATATTTTAAAATTTAT
1 AATATAAATTATAAATATTTTAAAATTTAT
* * *
643402 AATATAAATTATTACTATATTAAAA-TT-T
1 AATATAAATTATAAATATTTTAAAATTTAT
643430 -ATATAAA-TATAAAATATTTTAAATATAATTAT
1 AATATAAATTAT-AAATATTTTAAA-AT--TTAT
643462 AATATAAA-TA-AAATAT
1 AATATAAATTATAAATAT
643478 ATAAATATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
26 3 0.05
27 16 0.26
28 2 0.03
29 11 0.18
30 11 0.18
31 8 0.13
32 1 0.02
33 9 0.15
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (30 bp):
AATATAAATTATAAATATTTTAAAATTTAT
Found at i:643467 original size:11 final size:11
Alignment explanation
Indices: 643450--643498 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
643440 AAAATATTTT
643450 AAATATAATTA
1 AAATATAATTA
* *
643461 TAATATAAATA
1 AAATATAATTA
643472 AAATAT-A-T-
1 AAATATAATTA
*
643480 AAATATAATAA
1 AAATATAATTA
643491 AAATATAA
1 AAATATAA
643499 AAATTAATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
8 6 0.19
9 2 0.06
10 1 0.03
11 22 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATATAATTA
Found at i:643471 original size:17 final size:17
Alignment explanation
Indices: 643303--643499 Score: 80
Period size: 17 Copynumber: 12.1 Consensus size: 17
643293 TAAACGTGTG
* *
643303 ATATAATTACACAAATAA
1 ATATAATTATA-ATATAA
* *
643321 ATATAATATAAAAAATAA
1 ATATAAT-TATAATATAA
*
643339 TTAT-ATTATAATATAA
1 ATATAATTATAATATAA
*
643355 AAATAATTATAATTATAA
1 ATATAATTATAA-TATAA
*
643373 A-ATAA--A-AATTTAA
1 ATATAATTATAATATAA
* * *
643386 ATAT-TTTAAAATTTATA
1 ATATAATTATAATATA-A
*
643403 ATATAAATTATTACTAT-A
1 ATAT-AATTA-TAATATAA
* *
643421 TTAAAATT-T-ATATAA
1 ATATAATTATAATATAA
* * *
643436 ATATAA-AATATTTTAA
1 ATATAATTATAATATAA
643452 ATATAATTATAATATAA
1 ATATAATTATAATATAA
643469 ATA-AA--AT-ATATAA
1 ATATAATTATAATATAA
* *
643482 ATATAATAAAAATATAA
1 ATATAATTATAATATAA
643499 A
1 A
643500 AATTAATACG
Statistics
Matches: 136, Mismatches: 24, Indels: 39
0.68 0.12 0.20
Matches are distributed among these distances:
13 14 0.10
14 11 0.08
15 9 0.07
16 29 0.21
17 39 0.29
18 25 0.18
19 6 0.04
20 3 0.02
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
ATATAATTATAATATAA
Found at i:643475 original size:5 final size:6
Alignment explanation
Indices: 643430--643499 Score: 58
Period size: 6 Copynumber: 12.2 Consensus size: 6
643420 ATTAAAATTT
* * * *
643430 ATATAA ATATAA A-AT-A TTTTAA ATATAA TTAT-A ATATAA ATAAAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
*
643475 TATATAA ATAT-A ATAAAA ATATAA A
1 -ATATAA ATATAA ATATAA ATATAA A
643500 AATTAATACG
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
4 1 0.02
5 11 0.22
6 32 0.65
7 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAA
Found at i:643483 original size:30 final size:31
Alignment explanation
Indices: 643438--643499 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
643428 TTATATAAAT
* * *
643438 ATAAAATATTTTAAATATAATTATAATATAA
1 ATAAAATATTATAAATATAATAAAAATATAA
643469 ATAAAATA-TATAAATATAATAAAAATATAA
1 ATAAAATATTATAAATATAATAAAAATATAA
643499 A
1 A
643500 AATTAATACG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 20 0.71
31 8 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (31 bp):
ATAAAATATTATAAATATAATAAAAATATAA
Found at i:643502 original size:19 final size:20
Alignment explanation
Indices: 643462--643507 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
643452 ATATAATTAT
*
643462 AATATAA-ATAAAATATATA
1 AATATAATATAAAATATAAA
643481 AATATAATA-AAAATATAAA
1 AATATAATATAAAATATAAA
643500 AAT-TAATA
1 AATATAATA
643508 CGTCTTCGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 5 0.20
19 19 0.76
20 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AATATAATATAAAATATAAA
Found at i:643599 original size:15 final size:15
Alignment explanation
Indices: 643581--643615 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
643571 AAAAACAGTA
643581 AAATATATTTA-TAAT
1 AAATAT-TTTATTAAT
643596 AAATATTTTATTAAT
1 AAATATTTTATTAAT
643611 AAATA
1 AAATA
643616 CTTAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AAATATTTTATTAAT
Found at i:644311 original size:12 final size:11
Alignment explanation
Indices: 644292--644343 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
644282 ATTTAAATGA
644292 AATATAAAAAT
1 AATATAAAAAT
644303 AATTATAAATAAT
1 AA-TATAAA-AAT
644316 AATATTAAAAAT
1 AATA-TAAAAAT
*
644328 AAAATAAGAAA-
1 AATATAA-AAAT
644339 AATAT
1 AATAT
644344 GCAATATGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
11 9 0.26
12 17 0.49
13 9 0.26
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
AATATAAAAAT
Found at i:644846 original size:34 final size:34
Alignment explanation
Indices: 644817--644900 Score: 114
Period size: 35 Copynumber: 2.4 Consensus size: 34
644807 TATTAAAACT
644817 ATGATAAATTATTTATATTTTTAAAATTAATAAAA
1 ATGATAAATTATTTATA-TTTTAAAATTAATAAAA
* *
644852 ATGTTAAGTTATTTATATTTTAAAATTAATAAAAA
1 ATGATAAATTATTTATATTTTAAAATTAAT-AAAA
*
644887 ATTATTAAATTATT
1 ATGA-TAAATTATT
644901 AAATATTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
34 13 0.31
35 21 0.50
36 8 0.19
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.48
Consensus pattern (34 bp):
ATGATAAATTATTTATATTTTAAAATTAATAAAA
Found at i:644912 original size:34 final size:36
Alignment explanation
Indices: 644821--644926 Score: 101
Period size: 35 Copynumber: 3.0 Consensus size: 36
644811 AAAACTATGA
* * *
644821 TAAATTATTTATATTTTTAAAATTAAT-AAAAA-TGT
1 TAAATTATTTA-AATATTAAAATTAATAAAAAATTAT
* * *
644856 TAAGTTATTTATATTTTAAAATTAATAAAAAATTAT
1 TAAATTATTTAAATATTAAAATTAATAAAAAATTAT
* *
644892 TAAATTA-TTAAATATTAAATTTAAAAAATAAATTA
1 TAAATTATTTAAATATTAAAATTAATAAA-AAATTA
644927 AAAAAATAGA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
34 13 0.22
35 32 0.54
36 14 0.24
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (36 bp):
TAAATTATTTAAATATTAAAATTAATAAAAAATTAT
Found at i:644920 original size:16 final size:15
Alignment explanation
Indices: 644881--644931 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
644871 TTAAAATTAA
644881 TAAAAAATTATTAAAT
1 TAAAAAA-TATTAAAT
**
644897 TATTAAATATTAAAT
1 TAAAAAATATTAAAT
*
644912 TTAAAAA-A-TAAAT
1 TAAAAAATATTAAAT
644925 TAAAAAA
1 TAAAAAA
644932 ATAGATGAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 11 0.38
14 1 0.03
15 12 0.41
16 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAAAATATTAAAT
Found at i:645549 original size:21 final size:21
Alignment explanation
Indices: 645503--645549 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
645493 ATTTTATTTT
* *
645503 TAATAATATTATTATTTATTA
1 TAATTATATTATTATTTATCA
*
645524 TAATTATATTTTTATTTCATCA
1 TAATTATATTATTATTT-ATCA
645546 -AATT
1 TAATT
645550 TTAATATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATTATATTATTATTTATCA
Found at i:646022 original size:19 final size:19
Alignment explanation
Indices: 645998--646058 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
645988 CTAGATATTA
645998 AAATATTATTAAAAAATAT
1 AAATATTATTAAAAAATAT
*
646017 AAATATGA-TAAAAATATAT
1 AAATATTATTAAAAA-ATAT
*
646036 AAAT-TTATTAAAATAT-T
1 AAATATTATTAAAAAATAT
646053 AAATAT
1 AAATAT
646059 GATAAAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 5 0.14
18 11 0.31
19 20 0.56
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AAATATTATTAAAAAATAT
Found at i:646060 original size:36 final size:38
Alignment explanation
Indices: 645998--646068 Score: 119
Period size: 36 Copynumber: 1.9 Consensus size: 38
645988 CTAGATATTA
645998 AAATATTATTAAAAAATATAAATATGATAAAAATATAT
1 AAATATTATTAAAAAATATAAATATGATAAAAATATAT
*
646036 AAAT-TTATTAAAATAT-TAAATATGATAAAAATA
1 AAATATTATTAAAAAATATAAATATGATAAAAATA
646069 ATTCCTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 17 0.53
37 11 0.34
38 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (38 bp):
AAATATTATTAAAAAATATAAATATGATAAAAATATAT
Found at i:646067 original size:18 final size:18
Alignment explanation
Indices: 646009--646068 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
645999 AATATTATTA
646009 AAAAATA-TAAATATGAT
1 AAAAATATTAAATATGAT
*
646026 AAAAATATATAAAT-TTAT
1 AAAAATAT-TAAATATGAT
*
646044 TAAAATATTAAATATGAT
1 AAAAATATTAAATATGAT
646062 AAAAATA
1 AAAAATA
646069 ATTCCTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 12 0.33
18 19 0.53
19 5 0.14
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
AAAAATATTAAATATGAT
Found at i:646791 original size:11 final size:11
Alignment explanation
Indices: 646775--646801 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
646765 ATAAAAATAA
646775 AATTATAAAAT
1 AATTATAAAAT
646786 AATTATAAAAT
1 AATTATAAAAT
646797 AATTA
1 AATTA
646802 CCGTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AATTATAAAAT
Found at i:647555 original size:25 final size:25
Alignment explanation
Indices: 647521--647573 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
647511 ACGATCAATA
647521 AGAAATTGTTTTAAGTACCTATAGG
1 AGAAATTGTTTTAAGTACCTATAGG
647546 AGAAATTGTTTTAAGTACCTATAGG
1 AGAAATTGTTTTAAGTACCTATAGG
647571 AGA
1 AGA
647574 TAAAACAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.34
Consensus pattern (25 bp):
AGAAATTGTTTTAAGTACCTATAGG
Found at i:651625 original size:20 final size:20
Alignment explanation
Indices: 651599--651653 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
651589 TAGATGTATC
*
651599 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
651619 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
651639 AATGTATCGATACAT
1 AATGTATCGATACAT
651654 CTGGGTAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:652296 original size:28 final size:28
Alignment explanation
Indices: 652216--653422 Score: 1141
Period size: 28 Copynumber: 41.9 Consensus size: 28
652206 TAAAAAAATA
*
652216 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAG
1 GTGCCACTGAC-T-TGTGGGCTTTG-AAAG-G
* *
652248 TTGCCACTAACTCATGTGGGCTTTGAAAGG
1 GTGCCACTGACT--TGTGGGCTTTGAAAGG
*
652278 GTGCCACTGACTTGTGGGCTTTGAAATG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
652306 GTGCCACTGACTTGTGGGCTTCGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
*
652335 GTGCCACTGACTTGTGGGCTTTCAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
652363 GTGCCACTAATTTGTGGGTTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
652391 GTGCCACTGACTTGTAGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
652419 ATGCCACTGACTTGTGGGCTTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
652448 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
652476 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
* * *
652505 GTGCCACAGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
* * *
652534 GTGCCACAGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
*
652563 GTGCCACTGACTTATGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
652591 GTGCCACTGATTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
652619 AGTGCTACTGATTTGTGGGCTTTGAAAAGA
1 -GTGCCACTGACTTGTGGGCTTTG-AAAGG
* *
652649 GTGCCACTGATTTGTGAGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
652677 GTGCCACTAAATTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
* *
652706 ATGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
*
652735 GTGCCACTGATTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
652763 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
*
652792 GTGCCACTGACTTCTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
652820 AGTGCCACTGACTTGT-GGCTTTGAAAAGA
1 -GTGCCACTGACTTGTGGGCTTTG-AAAGG
*
652849 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
*
652878 GTGCCACTAACTTGTGGGCTTTGAAATGG
1 GTGCCACTGACTTGTGGGCTTTGAAA-GG
* * *
652907 GTTACCACCGACTTGTGTGGGCTTTGAAAAG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAAGG
*
652938 GTGCCACTGATTTGTGGGCTTTGAAATGG
1 GTGCCACTGACTTGTGGGCTTTGAAA-GG
* * * *
652967 GTTGCCACCGACTTGTAGGCTTTAAAAAG
1 G-TGCCACTGACTTGTGGGCTTTGAAAGG
652996 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
653024 GTGCCACTGATTTGTGGGATTTGAAATGG
1 GTGCCACTGACTTGTGGGCTTTGAAA-GG
* *
653053 GTTGCCACCGACTTATGTGGGCTTTCAAATGG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAA-GG
653085 GTTGCCA-TCGACTTGTGTGGGCTTTGAAATAGG
1 G-TGCCACT-GAC-T-TGTGGGCTTTG-AA-AGG
* * *
653118 TTGCCACCGACTTTTGTGGGCTTTAAAAGG
1 GTGCCACTGAC--TTGTGGGCTTTGAAAGG
**
653148 GTGCCACTGACTTGTGGGCTTAAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * ** *
653176 ATGCCAC-GAAGTTGTGAAC-TTAAAAGG
1 GTGCCACTG-ACTTGTGGGCTTTGAAAGG
* * * *
653203 GTGCCACGGAGTTGTGGACTTTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
653231 GTGCCACGGAGTTATGGACTTT-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * *
653258 GTACCAC-GTAGTTGTGGAC-TTAAAACG
1 GTGCCACTG-ACTTGTGGGCTTTGAAAGG
* * * * * *
653285 ATGCCACGGAGTTATGGACTTTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
653313 GTGCCACGGAGTTGTGGACTTTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
653341 GTGCCACGGAGTTGTGGACTTTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * *
653369 GTGCCACGGAGTTGTGGACTTTAAAAGAA
1 GTGCCACTGACTTGTGGGCTTTGAAAG-G
* * * *
653398 ATGCCACTGAATCGTGGACTTTGAA
1 GTGCCACTGACTTGTGGGCTTTGAA
653423 GAGGTCATAG
Statistics
Matches: 1032, Mismatches: 109, Indels: 71
0.85 0.09 0.06
Matches are distributed among these distances:
26 3 0.00
27 61 0.06
28 456 0.44
29 334 0.32
30 70 0.07
31 11 0.01
32 90 0.09
33 6 0.01
34 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:652348 original size:57 final size:57
Alignment explanation
Indices: 652216--653422 Score: 1173
Period size: 57 Copynumber: 20.9 Consensus size: 57
652206 TAAAAAAATA
* *
652216 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACTAACTCATGTGGGCTTTG-AAAGG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAG-G-TGCCACTGACT--TGTGGGCTTTGAAAAGG
* * *
652278 GTGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGGCTTCGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * * *
652335 GTGCCACTGACTTGTGGGCTTTCAAAGGGTGCCACTAATTTGTGGGTTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGG
*
652391 GTGCCACTGACTTGTAGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAAGG
* *
652448 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * * *
652505 GTGCCACAGATTTGTGGGCTTTGAAAAGAGTGCCACAGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
652563 GTGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * *
652619 AGTGCTACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGAGCTTTG-AAAGG
1 -GTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * *
652677 GTGCCACTAAATTGTGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
652735 GTGCCACTGATTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
652792 GTGCCACTGACTTCTGGGCTTTGAAAGGAGTGCCACTGACTTGT-GGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGG
* *
652849 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAATGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * *
652907 GTTACCACCGACTTGTGTGGGCTTTGAAAAGGTGCCACTGATTTGTGGGCTTTGAAATGG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
652967 GTTGCCACCGACTTGTAGGCTTTAAAAAGGTGCCACTGACTTGTGGGCTTTG-AAAGG
1 G-TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * * * *
653024 GTGCCACTGATTTGTGGGATTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTCAAATGG
1 GTGCCACTGACTTGTGGGCTTTGAAA-AGG-TGCCACTGAC-T-TGTGGGCTTTGAAAAGG
*
653085 GTTGCCA-TCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCGACTTTTGTGGGCTTT-AAAAGG
1 G-TGCCACT-GAC-T-TGTGGGCTTTGAAA-AGG-TGCCACTGAC--TTGTGGGCTTTGAAAAGG
* * **
653148 GTGCCACTGACTTGTGGGC-TTAAAAAGGATGCCAC-GAAGTTGTGAAC-TT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTG-ACTTGTGGGCTTTGAAAAGG
* * * * * * *
653203 GTGCCACGGAGTTGTGGACTTT-AAAAGGGTGCCACGGAGTTATGGACTTT--AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * * * * * *
653258 GTACCAC-GTAGTTGTGGAC-TT-AAAACGATGCCACGGAGTTATGGACTTT-AAAAGG
1 GTGCCACTG-ACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * * * *
653313 GTGCCACGGAGTTGTGGACTTT-AAAAGGGTGCCACGGAGTTGTGGACTTT-AAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAA-GGTGCCACTGACTTGTGGGCTTTGAAAAGG
* * * * * * *
653369 GTGCCACGGAGTTGTGGACTTT-AAAAGAAATGCCACTGAATCGTGGACTTTGAA
1 GTGCCACTGACTTGTGGGCTTTGAAAAG--GTGCCACTGACTTGTGGGCTTTGAA
653423 GAGGTCATAG
Statistics
Matches: 1011, Mismatches: 98, Indels: 76
0.85 0.08 0.06
Matches are distributed among these distances:
54 29 0.03
55 89 0.09
56 151 0.15
57 354 0.35
58 205 0.20
59 16 0.02
60 71 0.07
61 24 0.02
62 25 0.02
63 8 0.01
64 37 0.04
65 2 0.00
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (57 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAAGG
Found at i:652550 original size:86 final size:86
Alignment explanation
Indices: 652216--653422 Score: 1159
Period size: 86 Copynumber: 14.0 Consensus size: 86
652206 TAAAAAAATA
* * *
652216 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACTAACTCATGTGGGCTTTG-AAAGGGT
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGA-T-TTGTGGGCTTTGAAAAGGGT
*
652280 GCCACTGACTTGTGGGCTTTGAAATG
61 GCCACTGACTTGTGGGCTTTGAAAGG
* * *
652306 GTGCCACTGACTTGTGGGCTTCGAAAAGAGTGCCACTGACTTGTGGGCTTT-CAAAGGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGGGTGCCAC
* * *
652370 TAATTTGTGGGTTTTGAAAGG
66 TGACTTGTGGGCTTTGAAAGG
* * *
652391 GTGCCACTGACTTGTAGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGGGTGCCAC
652455 TGACTTGTGGGCTTTGAAAGG
66 TGACTTGTGGGCTTTGAAAGG
* *
652476 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACAGATTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGGGTGCCAC
* * *
652541 AGATTTGTGGGCTTTGAAAAGA
66 TGACTTGTGGGCTTTG-AAAGG
* * *
652563 GTGCCACTGACTTATGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGCTTTG-AAAGGAGTGCTA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGG-GTGCCA
* *
652626 CTGATTTGTGGGCTTTGAAAAGA
65 CTGACTTGTGGGCTTTG-AAAGG
* * * * * **
652649 GTGCCACTGATTTGTGAGCTTTG-AAAGGGTGCCACTAAATTGTGGGCTTTGAAAAGAATGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGGGTGCCAC
*
652713 TGACTTGTGGGCTTTGAAAAGA
66 TGACTTGTGGGCTTTG-AAAGG
* * * *
652735 GTGCCACTGATTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGGGTGCCAC
*
652799 TGACTTCTGGGCTTTGAAAGG
66 TGACTTGTGGGCTTTGAAAGG
* *
652820 AGTGCCACTGACTTGT-GGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCA
1 -GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGGGTGCCA
*
652884 CTAACTTGTGGGCTTTGAAATGG
65 CTGACTTGTGGGCTTTGAAA-GG
* * *
652907 GTTACCACCGACTTGTGTGGGCTTTGAAAAG-GTGCCACTGATTTGTGGGCTTTGAAATGGGTTG
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGGG-TG
* * * *
652971 CCACCGACTTGTAGGCTTTAAAAAG
62 CCACTGACTTGTGGGCTTTGAAAGG
* * *
652996 GTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGATTTGAAATGGGTTGCCA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGGG-TGCCA
* *
653060 CCGACTTATGTGGGCTTTCAAATGG
65 CTGAC-T-TGTGGGCTTTGAAA-GG
*
653085 GTTGCCA-TCGACTTGTGTGGGCTTTGAAATAG-GTTGCCACCGACTTTTGTGGGCTTT-AAAAG
1 G-TGCCACT-GAC-T-TGTGGGCTTTGAAA-AGAG-TGCCACTGA--TTTGTGGGCTTTGAAAAG
**
653147 GGTGCCACTGACTTGTGGGCTTAAAAAGG
58 GGTGCCACTGACTTGTGGGCTTTGAAAGG
* * ** * * * *
653176 ATGCCAC-GAAGTTGTGAAC-TT-AAAAGGGTGCCACGGAGTTGTGGACTTT-AAAAGGGTGCCA
1 GTGCCACTG-ACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGGGTGCCA
* * * *
653237 CGGAGTTATGGACTTT-AAAGG
65 CTGACTTGTGGGCTTTGAAAGG
* * * * * * *
653258 GTACCAC-GTAGTTGTGGAC-TT-AAAACGA-TGCCACGGAGTTATGGACTTT-AAAAGGGTGCC
1 GTGCCACTG-ACTTGTGGGCTTTGAAAA-GAGTGCCACTGATTTGTGGGCTTTGAAAAGGGTGCC
* * * *
653318 ACGGAGTTGTGGACTTTAAAAGG
64 ACTGACTTGTGGGCTTTGAAAGG
* * * * * * * **
653341 GTGCCACGGAGTTGTGGACTTT-AAAAGGGTGCCACGGAGTTGTGGACTTT-AAAAGAAATGCCA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAG-GGTGCCA
* * *
653404 CTGAATCGTGGACTTTGAA
65 CTGACTTGTGGGCTTTGAA
653423 GAGGTCATAG
Statistics
Matches: 982, Mismatches: 99, Indels: 77
0.85 0.09 0.07
Matches are distributed among these distances:
82 73 0.07
83 56 0.06
84 53 0.05
85 171 0.17
86 373 0.38
87 52 0.05
88 43 0.04
89 38 0.04
90 57 0.06
91 3 0.00
92 23 0.02
93 4 0.00
94 19 0.02
95 6 0.01
96 11 0.01
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (86 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGGGTGCCAC
TGACTTGTGGGCTTTGAAAGG
Found at i:653309 original size:110 final size:110
Alignment explanation
Indices: 653138--653394 Score: 381
Period size: 110 Copynumber: 2.3 Consensus size: 110
653128 CTTTTGTGGG
* * * * * *
653138 CTTTAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGCCACGAAGTTGTGAACTTAAAAGG
1 CTTTAAAAGGGTACCACGGAGTTGTGGACTT-AAAACGATGCCACGAAGTTATGAACTTAAAAGG
653203 GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTATGGA
65 GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTATGGA
* * *
653249 CTTT-AAAGGGTACCACGTAGTTGTGGACTTAAAACGATGCCACGGAGTTATGGACTTTAAAAGG
1 CTTTAAAAGGGTACCACGGAGTTGTGGACTTAAAACGATGCCACGAAGTTATGAAC-TTAAAAGG
*
653313 GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGA
65 GTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTATGGA
*
653359 CTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
1 CTTTAAAAGGGTACCACGGAGTTGTGGAC-TTAAAA
653395 GAAATGCCAC
Statistics
Matches: 131, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
109 21 0.16
110 78 0.60
111 26 0.20
112 6 0.05
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.25
Consensus pattern (110 bp):
CTTTAAAAGGGTACCACGGAGTTGTGGACTTAAAACGATGCCACGAAGTTATGAACTTAAAAGGG
TGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTATGGA
Found at i:656848 original size:52 final size:52
Alignment explanation
Indices: 656763--656911 Score: 203
Period size: 52 Copynumber: 2.9 Consensus size: 52
656753 CGAAATATGA
* *
656763 AAATTTGCCTGCATATATCGATGCAT-TTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATATT-ATAGTGTATCGATACATCTGGGC
* *
656815 ATATTTGCCTGTATGTATCGATACATATTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATATTATAGTGTATCGATACATCTGGGC
* **
656867 AAATTTGCCTACATGTATCGATACA-AAGATGAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATATTAT-AGTGTATCGATACA
656912 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 3 0.03
52 81 0.94
53 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATATTATAGTGTATCGATACATCTGGGC
Found at i:656918 original size:13 final size:13
Alignment explanation
Indices: 656900--656924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
656890 CAAAGATGAG
656900 TGTATCGATACAA
1 TGTATCGATACAA
656913 TGTATCGATACA
1 TGTATCGATACA
656925 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:656993 original size:19 final size:18
Alignment explanation
Indices: 656969--657064 Score: 86
Period size: 13 Copynumber: 5.7 Consensus size: 18
656959 GCTTACATTA
656969 TATCGATACAAAACTTATG
1 TATCGATAC-AAACTTATG
656988 TATCGATAC--A--T-TG
1 TATCGATACAAACTTATG
657001 TATCGATACAACACTTATG
1 TATCGATACAA-ACTTATG
657020 TATCGATAC--A--T-TG
1 TATCGATACAAACTTATG
657033 TATCGATACAACACTTTATG
1 TATCGATACAA-AC-TTATG
657053 TATCGATACAAA
1 TATCGATACAAA
657065 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 0, Indels: 26
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 1 0.02
19 22 0.34
20 13 0.20
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (18 bp):
TATCGATACAAACTTATG
Found at i:657005 original size:32 final size:32
Alignment explanation
Indices: 656962--657062 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
656952 GGCAGTAGCT
* *
656962 TACATTATATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
656994 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
657026 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
657059 TACA
1 TACA
657063 AATCGTTGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 51 0.77
33 15 0.23
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:665528 original size:20 final size:20
Alignment explanation
Indices: 665499--665573 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
665489 AAAAAGACAT
*
665499 AATGTATCGATACATTGCAG
1 AATGTATCGATACATTGCAA
*
665519 AATATATCGATACATT-CATA
1 AATGTATCGATACATTGCA-A
* * *
665539 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTGCAA
665559 AATGTATCGATACAT
1 AATGTATCGATACAT
665574 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:665567 original size:40 final size:39
Alignment explanation
Indices: 665496--665573 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
665486 GGTAAAAAGA
* *
665496 CATAATGTATCGATACATTGCAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
665535 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
665574 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:667558 original size:13 final size:13
Alignment explanation
Indices: 667540--667566 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
667530 ACATTATGCT
667540 TTGTATCGATACA
1 TTGTATCGATACA
667553 TTGTATCGATACA
1 TTGTATCGATACA
667566 T
1 T
667567 GAGATTGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:667642 original size:20 final size:20
Alignment explanation
Indices: 667596--667649 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
667586 CTACCACTGT
*
667596 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGATACA
* *
667616 ATATATCGATACATGATGA-A
1 TTGTATCGATACATGAT-ACA
667636 TTGTATCGATACAT
1 TTGTATCGATACAT
667650 TGCTTGTAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGATACA
Found at i:673674 original size:18 final size:20
Alignment explanation
Indices: 673651--673692 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
673641 TTTGACGTTT
673651 ATTATG-TTGTGTGA-ATGA
1 ATTATGCTTGTGTGATATGA
*
673669 ATTATGCTTGTTTGATATGA
1 ATTATGCTTGTGTGATATGA
673689 ATTA
1 ATTA
673693 GGTTCTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (20 bp):
ATTATGCTTGTGTGATATGA
Found at i:674344 original size:19 final size:19
Alignment explanation
Indices: 674320--674392 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 19
674310 TGCCTTGATT
*
674320 AAGGGGGATAAATTTTTTA
1 AAGGGGGAGAAATTTTTTA
674339 AAGGGGGAGAAATTTTTATTA
1 AAGGGGGAGAAA-TTTT-TTA
*
674360 AA-GGGGAGAAATTCTTTAATT
1 AAGGGGGAGAAATT-TTT--TA
674381 AAGGGGGAGAAA
1 AAGGGGGAGAAA
674393 AATGAAAACT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
19 14 0.30
20 15 0.33
21 8 0.17
22 9 0.20
ACGTcount: A:0.40, C:0.01, G:0.30, T:0.29
Consensus pattern (19 bp):
AAGGGGGAGAAATTTTTTA
Found at i:674355 original size:20 final size:21
Alignment explanation
Indices: 674284--674392 Score: 102
Period size: 22 Copynumber: 5.1 Consensus size: 21
674274 GAAAATAAAT
674284 AAATTTTTGATTAAAAGGGGGAG
1 AAATTTTT-ATT-AAAGGGGGAG
* * *
674307 AAATGCCTTGATT-AAGGGGGAT
1 AAAT--TTTTATTAAAGGGGGAG
674329 AAA-TTTT-TTAAAGGGGGAG
1 AAATTTTTATTAAAGGGGGAG
674348 AAATTTTTATTAAA-GGGGAG
1 AAATTTTTATTAAAGGGGGAG
674368 AAATTCTTTAATT-AAGGGGGAG
1 AAATT-TTT-ATTAAAGGGGGAG
674390 AAA
1 AAA
674393 AATGAAAACT
Statistics
Matches: 72, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
18 2 0.03
19 13 0.18
20 15 0.21
21 10 0.14
22 23 0.32
23 4 0.06
24 3 0.04
25 2 0.03
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.30
Consensus pattern (21 bp):
AAATTTTTATTAAAGGGGGAG
Found at i:675076 original size:13 final size:13
Alignment explanation
Indices: 675046--675100 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
675036 ATCGATACAT
*
675046 GATAAATTGTATC
1 GATACATTGTATC
675059 GATACATTGTATC
1 GATACATTGTATC
675072 GATACA-TG-AT-
1 GATACATTGTATC
675082 -A-A-ATTGTATC
1 GATACATTGTATC
675092 GATACATTG
1 GATACATTG
675101 CTTGTAACGG
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 3 0.09
11 3 0.09
12 3 0.09
13 22 0.63
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:675082 original size:20 final size:20
Alignment explanation
Indices: 675012--675098 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
675002 CTACTACTGT
675012 TTGTATCGATACATTG-TACAA
1 TTGTATCGATACA-TGATA-AA
675033 -TGTATCGATACATGATAAA
1 TTGTATCGATACATGATAAA
675052 TTGTATCGATAC-------A
1 TTGTATCGATACATGATAAA
675065 TTGTATCGATACATGATAAA
1 TTGTATCGATACATGATAAA
675085 TTGTATCGATACAT
1 TTGTATCGATACAT
675099 TGCTTGTAAC
Statistics
Matches: 57, Mismatches: 0, Indels: 19
0.75 0.00 0.25
Matches are distributed among these distances:
13 13 0.23
19 4 0.07
20 40 0.70
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATAAA
Found at i:675117 original size:33 final size:33
Alignment explanation
Indices: 675028--675100 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
675018 CGATACATTG
*
675028 TACAATGTATCGATACATGATAAATTGTATCGA
1 TACATTGTATCGATACATGATAAATTGTATCGA
675061 TACATTGTATCGATACATGATAAATTGTATCGA
1 TACATTGTATCGATACATGATAAATTGTATCGA
675094 TACATTG
1 TACATTG
675101 CTTGTAACGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (33 bp):
TACATTGTATCGATACATGATAAATTGTATCGA
Found at i:675817 original size:3 final size:3
Alignment explanation
Indices: 675809--675836 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
675799 CTTGAGCTTT
675809 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
675837 GGAATTTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:677254 original size:22 final size:23
Alignment explanation
Indices: 677215--677265 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
677205 TTAAAATATT
* *
677215 ATTTTTATTTTAATATTT-ATAA
1 ATTTTTATATTAATATTTAAAAA
677237 ATTTTTATAATTAA-ATTTAAAAA
1 ATTTTTAT-ATTAATATTTAAAAA
677260 ATTTTT
1 ATTTTT
677266 TGTTTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTTTTATATTAATATTTAAAAA
Found at i:678014 original size:15 final size:15
Alignment explanation
Indices: 677994--678022 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
677984 AAATATGAAT
677994 ATATATTTAATATAA
1 ATATATTTAATATAA
678009 ATATATTTAATATA
1 ATATATTTAATATA
678023 TTTTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATTTAATATAA
Found at i:678023 original size:24 final size:26
Alignment explanation
Indices: 677991--678044 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
677981 TTCAAATATG
677991 AATATATATTT-AATATAAATATATTT
1 AATATAT-TTTAAATATAAATATATTT
* *
678017 AATATATTTTAAATTTATATATATTT
1 AATATATTTTAAATATAAATATATTT
678043 AA
1 AA
678045 ATAATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
AATATATTTTAAATATAAATATATTT
Found at i:678038 original size:17 final size:15
Alignment explanation
Indices: 677998--678046 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
677988 ATGAATATAT
** *
677998 ATTTAATATAAATAT
1 ATTTAATATATTTAA
678013 ATTTAATATATTTTAA
1 ATTTAATATA-TTTAA
678029 ATTTATATATATTTAA
1 ATTTA-ATATATTTAA
678045 AT
1 AT
678047 AATTATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 10 0.34
16 14 0.48
17 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTAATATATTTAA
Found at i:679785 original size:27 final size:29
Alignment explanation
Indices: 679738--679810 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 29
679728 ATTATATTTT
679738 TATATTT-TATAATTATATTTAA-AATATTA
1 TATATTTATATAA-TATATTTAATAA-ATTA
679767 TATATTTATATAA-AT-TTTAATAAATTA
1 TATATTTATATAATATATTTAATAAATTA
*
679794 -ATAATTTATATTATATA
1 TAT-ATTTATATAATATA
679811 AAATTTAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
26 2 0.05
27 18 0.47
28 6 0.16
29 7 0.18
30 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TATATTTATATAATATATTTAATAAATTA
Found at i:679815 original size:16 final size:15
Alignment explanation
Indices: 679736--679823 Score: 51
Period size: 16 Copynumber: 5.7 Consensus size: 15
679726 ATATTATATT
*
679736 TTTATATTT-TATAA
1 TTTATATTTATAAAA
679750 -TTATATTTA-AAATA
1 TTTATATTTATAAA-A
679764 TTATATATTTATATAAA
1 TT-TATATTTATA-AAA
* *
679781 TTTTAATAAATTA-ATAA
1 -TTT-AT-ATTTATAAAA
679798 TTTATATTATATAAAA
1 TTTATATT-TATAAAA
679814 TTTA-ATTTAT
1 TTTATATTTAT
679824 TTATATGTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 22
0.68 0.06 0.26
Matches are distributed among these distances:
13 10 0.17
14 6 0.10
15 8 0.14
16 18 0.31
17 5 0.09
18 7 0.12
19 4 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTATATTTATAAAA
Found at i:679878 original size:12 final size:12
Alignment explanation
Indices: 679861--679910 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
679851 ATTTTTAATA
679861 TTATATTATATT
1 TTATATTATATT
*
679873 TTATATTAAATT
1 TTATATTATATT
*
679885 TTAATATTTTATT
1 TT-ATATTATATT
**
679898 ACATATTATATT
1 TTATATTATATT
679910 T
1 T
679911 AAAATTATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
12 22 0.73
13 8 0.27
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATATTATATT
Found at i:679881 original size:30 final size:30
Alignment explanation
Indices: 679845--679909 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
679835 TATCATAAAG
* * *
679845 ATATTAATTTTTAATATTATATTATATTTT
1 ATATTAAATTTTAATATTATATTACATATT
*
679875 ATATTAAATTTTAATATTTTATTACATATT
1 ATATTAAATTTTAATATTATATTACATATT
679905 ATATT
1 ATATT
679910 TAAAATTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (30 bp):
ATATTAAATTTTAATATTATATTACATATT
Found at i:679889 original size:37 final size:41
Alignment explanation
Indices: 679814--679910 Score: 100
Period size: 37 Copynumber: 2.5 Consensus size: 41
679804 TTATATAAAA
679814 TTTAAT-TTAT-TTATATGTTTATATCATAAAGATATTAAT-T
1 TTTAATATTATATTATAT-TTTATAT-ATAAAGATATTAATAT
*
679854 TTTAATATTATATTATATTTTATAT-T-AA-ATTTTAATAT
1 TTTAATATTATATTATATTTTATATATAAAGATATTAATAT
* *
679892 TTTATTA-CATATTATATTT
1 TTTAATATTATATTATATTT
679911 AAAATTATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
37 18 0.35
38 9 0.18
39 1 0.02
40 6 0.12
41 11 0.22
42 6 0.12
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (41 bp):
TTTAATATTATATTATATTTTATATATAAAGATATTAATAT
Found at i:680689 original size:22 final size:23
Alignment explanation
Indices: 680664--680719 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
680654 TTATTTTATT
680664 AAAATTTTAATT-TATAAATTAA
1 AAAATTTTAATTATATAAATTAA
* *
680686 AAAATTATAATTATTTAAATTAA
1 AAAATTTTAATTATATAAATTAA
680709 ATTAAATTTTA
1 A--AAATTTTA
680720 TCTTTTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.39
23 10 0.36
25 7 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AAAATTTTAATTATATAAATTAA
Found at i:680746 original size:18 final size:18
Alignment explanation
Indices: 680708--680741 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
680698 ATTTAAATTA
680708 AATTAAATTTTATCTTTT
1 AATTAAATTTTATCTTTT
680726 AATT-AATTTTAT-TTTT
1 AATTAAATTTTATCTTTT
680742 GTAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
AATTAAATTTTATCTTTT
Found at i:680830 original size:19 final size:20
Alignment explanation
Indices: 680780--680830 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
680770 ATTAATGAAA
680780 AAATTAAAGTATTATAAAAAAT
1 AAATTAAA-T-TTATAAAAAAT
** *
680802 ATTTTTAATTTA-AAAAAAT
1 AAATTAAATTTATAAAAAAT
680821 AAATTAAATT
1 AAATTAAATT
680831 AATTCAAACC
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
19 14 0.61
20 3 0.13
21 1 0.04
22 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AAATTAAATTTATAAAAAAT
Found at i:681510 original size:25 final size:26
Alignment explanation
Indices: 681482--681541 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 26
681472 TTTTTTAGTA
*
681482 AATATTTATTTTAAT-TAATTATGAT
1 AATATTTATTATAATCTAATTATGAT
*
681507 AATATATTATTATATTCGTAATTATGAT
1 AATAT-TTATTATAATC-TAATTATGAT
681535 AA-ATTTA
1 AATATTTA
681542 ACATGATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 5 0.17
26 11 0.37
27 2 0.07
28 12 0.40
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (26 bp):
AATATTTATTATAATCTAATTATGAT
Found at i:681817 original size:27 final size:27
Alignment explanation
Indices: 681761--681810 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
681751 TGGTCTGTTT
*
681761 ATTATTATTTAATACAATATATATTTA
1 ATTACTATTTAATACAATATATATTTA
681788 ATTACTATTT-ATA-AATATA-ATTT
1 ATTACTATTTAATACAATATATATTT
681811 TATAATTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
25 6 0.27
26 3 0.14
27 9 0.41
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (27 bp):
ATTACTATTTAATACAATATATATTTA
Found at i:682178 original size:20 final size:20
Alignment explanation
Indices: 682153--682222 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
682143 TATAAAAATA
682153 ATTAAAATATAATATTATAT
1 ATTAAAATATAATATTATAT
* * *
682173 ATT-AAATAATAAAAATATTT
1 ATTAAAAT-ATAATATTATAT
682193 A-TAAAATATAAATTATTAATAT
1 ATTAAAATAT-AA-TATT-ATAT
682215 ATTAAAAT
1 ATTAAAAT
682223 TTTTATATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
19 7 0.18
20 19 0.50
21 2 0.05
22 4 0.11
23 6 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTAAAATATAATATTATAT
Found at i:682956 original size:21 final size:21
Alignment explanation
Indices: 682931--683006 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 21
682921 TTTGGAGTAT
*
682931 TTTTTTAAATTTAATAAATAA
1 TTTTTTAAATTAAATAAATAA
*
682952 TTTTTTTGAATAATAAAATAAATAA
1 -TTTTTT--A-AATTAAATAAATAA
682977 TTTTTT--ATTAAATATGAATAA
1 TTTTTTAAATTAAATA--AATAA
682998 TTTTTTAAA
1 TTTTTTAAA
683007 AAATAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
19 7 0.16
21 11 0.25
22 6 0.14
23 1 0.02
24 7 0.16
25 12 0.27
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
TTTTTTAAATTAAATAAATAA
Found at i:682996 original size:25 final size:23
Alignment explanation
Indices: 682929--682997 Score: 68
Period size: 25 Copynumber: 2.9 Consensus size: 23
682919 ACTTTGGAGT
*
682929 ATTTTTTTAAAT-TTAATAAATA
1 ATTTTTTTAAATATAAATAAATA
*
682951 ATTTTTTTGAATAATAAAATAAATA
1 ATTTTTTTAAAT-AT-AAATAAATA
*
682976 ATTTTTTATTAAATATGAATAA
1 A-TTTTT-TTAAATATAAATAA
682998 TTTTTTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 11 0.29
24 1 0.03
25 14 0.37
26 7 0.18
27 5 0.13
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
ATTTTTTTAAATATAAATAAATA
Found at i:683010 original size:21 final size:21
Alignment explanation
Indices: 682972--683011 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
682962 TAATAAAATA
**
682972 AATAATTTTTTATTAAATATG
1 AATAATTTTTTAAAAAATATG
682993 AATAATTTTTTAAAAAATA
1 AATAATTTTTTAAAAAATA
683012 ATTTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
AATAATTTTTTAAAAAATATG
Found at i:683940 original size:24 final size:25
Alignment explanation
Indices: 683906--683962 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
683896 AAATAGTACT
* *
683906 AATATTT-ATTATTAAAATACTA-A
1 AATATTTAATTATAAAAAAACTATA
683929 AATATTTAATTATAAAAAAACTATA
1 AATATTTAATTATAAAAAAACTATA
683954 ATATATTTA
1 A-ATATTTA
683963 TATCTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 7 0.24
24 13 0.45
25 2 0.07
26 7 0.24
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (25 bp):
AATATTTAATTATAAAAAAACTATA
Found at i:684314 original size:24 final size:25
Alignment explanation
Indices: 684274--684322 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
684264 TTAAAATATT
684274 AAAATTTTTTGATTTAAAATAATAA
1 AAAATTTTTTGATTTAAAATAATAA
*
684299 AAAATATTTTT-A-TTAATATAATAA
1 AAAAT-TTTTTGATTTAAAATAATAA
684323 TATTTTAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 11 0.50
25 6 0.27
26 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
AAAATTTTTTGATTTAAAATAATAA
Found at i:684688 original size:2 final size:2
Alignment explanation
Indices: 684681--684706 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
684671 CCCTATTAAT
684681 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
684707 ATTTCTCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:685144 original size:19 final size:19
Alignment explanation
Indices: 685120--685157 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
685110 CGCTTCCCCA
685120 TTCCACATGCCACAAGCGT
1 TTCCACATGCCACAAGCGT
685139 TTCCACATGCCACAAGCGT
1 TTCCACATGCCACAAGCGT
685158 GGTCTGCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.37, G:0.16, T:0.21
Consensus pattern (19 bp):
TTCCACATGCCACAAGCGT
Found at i:685341 original size:21 final size:21
Alignment explanation
Indices: 685316--685357 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
685306 ATAAAAAATA
685316 ATATTTAATAGATTTATATTT
1 ATATTTAATAGATTTATATTT
685337 ATATTTAATAGATTTATATTT
1 ATATTTAATAGATTTATATTT
685358 TAAATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
ATATTTAATAGATTTATATTT
Found at i:685561 original size:25 final size:22
Alignment explanation
Indices: 685517--685563 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
685507 ACATTTTTCT
*
685517 ATAAAAAAATTATAGTTTAAAA
1 ATAAAAAAATTATAATTTAAAA
685539 ATAAAAAATATTATATATATTAAAA
1 ATAAAAAA-ATTATA-AT-TTAAAA
685564 TTCAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 6 0.29
24 1 0.05
25 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (22 bp):
ATAAAAAAATTATAATTTAAAA
Found at i:696646 original size:16 final size:16
Alignment explanation
Indices: 696621--696663 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
696611 AAATGACTTT
*
696621 AACCCAAAATGATCCG
1 AACCCGAAATGATCCG
* * *
696637 AATCCGAAATAATTCG
1 AACCCGAAATGATCCG
696653 AACCCGAAATG
1 AACCCGAAATG
696664 GCCTGAATAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.26, G:0.14, T:0.16
Consensus pattern (16 bp):
AACCCGAAATGATCCG
Found at i:696691 original size:23 final size:23
Alignment explanation
Indices: 696653--696717 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
696643 AAATAATTCG
* *
696653 AACCCGAAATGGCCTGAATAATT
1 AACCCGAAATGACCTGAACAATT
* *
696676 AACTCTAAATGACCTGAACAATT
1 AACCCGAAATGACCTGAACAATT
*
696699 AACCCGAAATGACCCGAAC
1 AACCCGAAATGACCTGAAC
696718 TTAAATTAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.42, C:0.26, G:0.14, T:0.18
Consensus pattern (23 bp):
AACCCGAAATGACCTGAACAATT
Found at i:697553 original size:16 final size:16
Alignment explanation
Indices: 697532--697622 Score: 85
Period size: 16 Copynumber: 5.7 Consensus size: 16
697522 TACATTCGAT
* *
697532 TGACCCGAATCTGAAA
1 TGACCCAAACCTGAAA
*
697548 TGACCCAAACCCGAAA
1 TGACCCAAACCTGAAA
* *
697564 TGACCCGAACGTGAAA
1 TGACCCAAACCTGAAA
* *
697580 TAACCCAAA-CTCAAAA
1 TGACCCAAACCT-GAAA
*
697596 TGACCCAAACCCGAAA
1 TGACCCAAACCTGAAA
*
697612 TGACCTAAACC
1 TGACCCAAACC
697623 CAAAATGACT
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
15 1 0.02
16 57 0.97
17 1 0.02
ACGTcount: A:0.43, C:0.32, G:0.13, T:0.12
Consensus pattern (16 bp):
TGACCCAAACCTGAAA
Found at i:697623 original size:16 final size:16
Alignment explanation
Indices: 697544--697631 Score: 104
Period size: 16 Copynumber: 5.5 Consensus size: 16
697534 ACCCGAATCT
697544 GAAATGACCCAAACCC
1 GAAATGACCCAAACCC
* **
697560 GAAATGACCCGAACGT
1 GAAATGACCCAAACCC
* *
697576 GAAATAACCCAAACTC
1 GAAATGACCCAAACCC
*
697592 AAAATGACCCAAACCC
1 GAAATGACCCAAACCC
*
697608 GAAATGACCTAAACCC
1 GAAATGACCCAAACCC
*
697624 AAAATGAC
1 GAAATGAC
697632 TTGAACCCAA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 59 1.00
ACGTcount: A:0.47, C:0.31, G:0.12, T:0.10
Consensus pattern (16 bp):
GAAATGACCCAAACCC
Found at i:697638 original size:16 final size:16
Alignment explanation
Indices: 697545--697642 Score: 70
Period size: 16 Copynumber: 6.1 Consensus size: 16
697535 CCCGAATCTG
* *
697545 AAATGACCCAAACCCG
1 AAATGACCTAAACCCA
** ***
697561 AAATGACCCGAACGTG
1 AAATGACCTAAACCCA
* * *
697577 AAATAACCCAAACTCA
1 AAATGACCTAAACCCA
* *
697593 AAATGACCCAAACCCG
1 AAATGACCTAAACCCA
697609 AAATGACCTAAACCCA
1 AAATGACCTAAACCCA
* *
697625 AAATGACTTGAACCCA
1 AAATGACCTAAACCCA
697641 AA
1 AA
697643 GATAACCCGA
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 67 1.00
ACGTcount: A:0.47, C:0.31, G:0.11, T:0.11
Consensus pattern (16 bp):
AAATGACCTAAACCCA
Found at i:697639 original size:32 final size:32
Alignment explanation
Indices: 697532--697631 Score: 119
Period size: 32 Copynumber: 3.1 Consensus size: 32
697522 TACATTCGAT
* * *
697532 TGACCCGAATCTGAAATGACCCAAACCCGAAA
1 TGACCCGAACCCGAAATGACCCAAACCCAAAA
** * *
697564 TGACCCGAACGTGAAATAACCCAAACTCAAAA
1 TGACCCGAACCCGAAATGACCCAAACCCAAAA
* *
697596 TGACCCAAACCCGAAATGACCTAAACCCAAAA
1 TGACCCGAACCCGAAATGACCCAAACCCAAAA
697628 TGAC
1 TGAC
697632 TTGAACCCAA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 57 1.00
ACGTcount: A:0.44, C:0.31, G:0.13, T:0.12
Consensus pattern (32 bp):
TGACCCGAACCCGAAATGACCCAAACCCAAAA
Found at i:697894 original size:62 final size:62
Alignment explanation
Indices: 697834--698073 Score: 241
Period size: 62 Copynumber: 3.8 Consensus size: 62
697824 CTACAACTCT
* * *
697834 GTGACACTTTTTTTCTTTTTAAGTCCACAACTCTATGGCATCATTGTCAAGTCCATAACTCC
1 GTGACACTTTTTTTCTTTTTAAGTCCACAACTCTATGGCACCATTTTCAAGTCCATAACTTC
* * * *
697896 GTGGCTCTTTTTTTCTTTTTAAGTCCATAACTCTGTGGCACCATTTTCTTTTAAGCAGTCCATAA
1 GTGACACTTTTTTTCTTTTTAAGTCCACAACTCTATGGCACCATTTTC-----A--AGTCCATAA
697961 CTTC
59 CTTC
* * * * * *
697965 GTGACACCTTTTTT-GTTTTAAGTCCACAACT-TCGTGGCACCCTTTTCAAATCCATAGCTTC
1 GTGACACTTTTTTTCTTTTTAAGTCCACAACTCT-ATGGCACCATTTTCAAGTCCATAACTTC
* * **
698026 GTGGCCCTTTTTTTCTTTTTAAGTTTACAACTCTATGGCACCATTTTC
1 GTGACACTTTTTTTCTTTTTAAGTCCACAACTCTATGGCACCATTTTC
698074 TTTTCAAGTC
Statistics
Matches: 145, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
61 22 0.15
62 68 0.47
63 2 0.01
67 2 0.01
68 28 0.19
69 23 0.16
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.42
Consensus pattern (62 bp):
GTGACACTTTTTTTCTTTTTAAGTCCACAACTCTATGGCACCATTTTCAAGTCCATAACTTC
Found at i:697962 original size:35 final size:34
Alignment explanation
Indices: 697882--698162 Score: 115
Period size: 33 Copynumber: 8.6 Consensus size: 34
697872 CATCATTGTC
* ** *
697882 AAGTCCATAACTCCGTGGCTCTTTTTTTCTTTTT
1 AAGTCCATAACTCCGTGGCACTCATTTTCTTTTA
*
697916 AAGTCCATAACTCTGTGGCAC-CATTTTCTTTTA
1 AAGTCCATAACTCCGTGGCACTCATTTTCTTTTA
* * * *
697949 AGCAGTCCATAACTTCGTGACAC-C-TTTTTTGTTTT
1 A--AGTCCATAACTCCGTGGCACTCATTTTCT-TTTA
* * *
697984 AAGTCCACAACTTCGTGGCAC-CCTTTTC----A
1 AAGTCCATAACTCCGTGGCACTCATTTTCTTTTA
* * * ** *
698013 AA-TCCATAGCTTCGTGGCCCTTTTTTTCTTTTT
1 AAGTCCATAACTCCGTGGCACTCATTTTCTTTTA
** * ** *
698046 AAGTTTACAACTCTATGGCAC-CATTTTCTTTTC
1 AAGTCCATAACTCCGTGGCACTCATTTTCTTTTA
* *
698079 AAGTCCACAACTCTGTGGCAC-CA---T-TTTTA
1 AAGTCCATAACTCCGTGGCACTCATTTTCTTTTA
* * * * * *
698108 AAGTCTATAACTCTGTGGCCCCCTTTTTCTTTTT
1 AAGTCCATAACTCCGTGGCACTCATTTTCTTTTA
* * *
698142 AAGTCCACAACTTCGTAGCAC
1 AAGTCCATAACTCCGTGGCAC
698163 CCTTTTAAGT
Statistics
Matches: 186, Mismatches: 46, Indels: 30
0.71 0.18 0.11
Matches are distributed among these distances:
28 15 0.08
29 29 0.16
30 2 0.01
33 61 0.33
34 57 0.31
35 22 0.12
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.40
Consensus pattern (34 bp):
AAGTCCATAACTCCGTGGCACTCATTTTCTTTTA
Found at i:697989 original size:130 final size:131
Alignment explanation
Indices: 697834--698077 Score: 339
Period size: 130 Copynumber: 1.9 Consensus size: 131
697824 CTACAACTCT
* * * *
697834 GTGACACTTTTTTTCTTTTTAAGTCCACAAC-TCTATGGCATCATTGTCAAGTCCATAACTCCGT
1 GTGACACCTTTTTTCGTTTTAAGTCCACAACTTC-ATGGCACCATTGTCAAATCCATAACTCCGT
* * *
697898 GGCTCTTTTTTTCTTTTTAAGTCCATAACTCTGTGGCACCATTTTCTTTTAAGCAGTCCATAACT
65 GGCCCTTTTTTTCTTTTTAAGTCCACAACTCTATGGCACCATTTTCTTTTAAGCAGTCCATAACT
697963 TC
130 TC
* * * * *
697965 GTGACACCTTTTTT-GTTTTAAGTCCACAACTTCGTGGCACCCTTTTCAAATCCATAGCTTCGTG
1 GTGACACCTTTTTTCGTTTTAAGTCCACAACTTCATGGCACCATTGTCAAATCCATAACTCCGTG
**
698029 GCCCTTTTTTTCTTTTTAAGTTTACAACTCTATGGCACCATTTTCTTTT
66 GCCCTTTTTTTCTTTTTAAGTCCACAACTCTATGGCACCATTTTCTTTT
698078 CAAGTCCACA
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
130 83 0.85
131 15 0.15
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.43
Consensus pattern (131 bp):
GTGACACCTTTTTTCGTTTTAAGTCCACAACTTCATGGCACCATTGTCAAATCCATAACTCCGTG
GCCCTTTTTTTCTTTTTAAGTCCACAACTCTATGGCACCATTTTCTTTTAAGCAGTCCATAACTT
C
Found at i:698002 original size:68 final size:69
Alignment explanation
Indices: 697883--698077 Score: 176
Period size: 68 Copynumber: 2.9 Consensus size: 69
697873 ATCATTGTCA
* * * * *
697883 AGTCCATAACTCCGTGGCTCTTTTTTTCTTTTTAAGTCCATAACTCTGTGGCACCATTTTCTTTT
1 AGTCCATAACTCCGTGACACCTTTTTTCGTTTTAAGTCCACAACTCTGTGGCACCATTTTCTTTT
697948 AAGC
66 AAGC
* *
697952 AGTCCATAACTTCGTGACACCTTTTTT-GTTTTAAGTCCACAACT-TCGTGGCACCCTTTTC---
1 AGTCCATAACTCCGTGACACCTTTTTTCGTTTTAAGTCCACAACTCT-GTGGCACCATTTTCTTT
698012 -AA--
65 TAAGC
* * * * ** *
698014 A-TCCATAGCTTCGTGGC-CCTTTTTTTCTTTTTAAGTTTACAACTCTATGGCACCATTTTCTTT
1 AGTCCATAACTCCGTGACACC-TTTTTTCGTTTTAAGTCCACAACTCTGTGGCACCATTTTCTTT
698077 T
65 T
698078 CAAGTCCACA
Statistics
Matches: 104, Mismatches: 14, Indels: 19
0.76 0.10 0.14
Matches are distributed among these distances:
60 2 0.02
61 20 0.19
62 27 0.26
63 1 0.01
64 2 0.02
67 1 0.01
68 28 0.27
69 23 0.22
ACGTcount: A:0.19, C:0.25, G:0.12, T:0.43
Consensus pattern (69 bp):
AGTCCATAACTCCGTGACACCTTTTTTCGTTTTAAGTCCACAACTCTGTGGCACCATTTTCTTTT
AAGC
Found at i:698147 original size:63 final size:61
Alignment explanation
Indices: 698042--698195 Score: 177
Period size: 63 Copynumber: 2.5 Consensus size: 61
698032 CTTTTTTTCT
* * * * *
698042 TTTTAAGTTTACAACTCTATGGCA-CCATTTTCTTTTCAAGTCCACAAC-TCTGTGGCACCAT
1 TTTTAAGTCTACAACTCTGTGGCACCCTTTTTCTTTTCAAGTCCACAACTTC-GTAGCACC-C
* * *
698103 TTTTAAAGTCTATAACTCTGTGGCCCCCTTTTTCTTTTTAAGTCCACAACTTCGTAGCACCC
1 TTTT-AAGTCTACAACTCTGTGGCACCCTTTTTCTTTTCAAGTCCACAACTTCGTAGCACCC
* *
698165 TTTTAAGTCTACAATTCTGTGGTACCCTTTT
1 TTTTAAGTCTACAACTCTGTGGCACCCTTTT
698196 AAGTCCCCAA
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
61 27 0.35
62 20 0.26
63 29 0.37
64 2 0.03
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (61 bp):
TTTTAAGTCTACAACTCTGTGGCACCCTTTTTCTTTTCAAGTCCACAACTTCGTAGCACCC
Found at i:698163 original size:96 final size:96
Alignment explanation
Indices: 697911--698168 Score: 246
Period size: 96 Copynumber: 2.7 Consensus size: 96
697901 TCTTTTTTTC
* * * *
697911 TTTTT-AAGTCCATAACTCTGTGG-CACCATTTTCTTTTAAGCAGTCCATAACTTCGT-GACACC
1 TTTTTAAAGTCCATAACTCTGTGGCCCCCTTTTTCTTTTTA--AGTCCACAACTTCGTAG-CACC
* * *
697973 TTTTTTGTTTTAAGTCCACAACTTCGTGGCACCC
63 TTTTCTGTTTCAAGTCCACAACTTCGTGGCACCA
* * ** **
698007 TTTTCAAA-TCCATAGCT-TCGTGGCCCTTTTTTTCTTTTTAAGTTTACAAC-TC-TATGGCACC
1 TTTTTAAAGTCCATAACTCT-GTGGCCCCCTTTTTCTTTTTAAGTCCACAACTTCGTA--GCACC
698068 ATTTTCT-TTTCAAGTCCACAAC-TCTGTGGCACCA
63 -TTTTCTGTTTCAAGTCCACAACTTC-GTGGCACCA
*
698102 TTTTTAAAGTCTATAACTCTGTGGCCCCCTTTTTCTTTTTAAGTCCACAACTTCGTAGCACCCTT
1 TTTTTAAAGTCCATAACTCTGTGGCCCCCTTTTTCTTTTTAAGTCCACAACTTCGTAGCA-CCTT
698167 TT
65 TT
698169 AAGTCTACAA
Statistics
Matches: 129, Mismatches: 20, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
93 1 0.01
94 4 0.03
95 41 0.32
96 63 0.49
97 18 0.14
98 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.12, T:0.41
Consensus pattern (96 bp):
TTTTTAAAGTCCATAACTCTGTGGCCCCCTTTTTCTTTTTAAGTCCACAACTTCGTAGCACCTTT
TCTGTTTCAAGTCCACAACTTCGTGGCACCA
Found at i:698178 original size:27 final size:27
Alignment explanation
Indices: 698138--698207 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
698128 CCCTTTTTCT
698138 TTTTAAGTCCACAACTTC-GTAGCACCC
1 TTTTAAGTCCACAA-TTCTGTAGCACCC
* * *
698165 TTTTAAGTCTACAATTCTGTGGTACCC
1 TTTTAAGTCCACAATTCTGTAGCACCC
*
698192 TTTTAAGTCCCCAATT
1 TTTTAAGTCCACAATT
698208 TCGTGACACC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.08
27 34 0.92
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.37
Consensus pattern (27 bp):
TTTTAAGTCCACAATTCTGTAGCACCC
Found at i:698222 original size:27 final size:26
Alignment explanation
Indices: 698138--698222 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
698128 CCCTTTTTCT
698138 TTTTAAGTCCACAACTTCGT-AGCACCC
1 TTTTAAGTCCACAA-TTCGTGA-CACCC
* **
698165 TTTTAAGTCTACAATTCTGTGGTACCC
1 TTTTAAGTCCACAATTC-GTGACACCC
* *
698192 TTTTAAGTCCCCAATTTCGTGACACCT
1 TTTTAAGTCCACAA-TTCGTGACACCC
698219 TTTT
1 TTTT
698223 CTTTTAAAGC
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 3 0.06
27 41 0.87
28 3 0.06
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (26 bp):
TTTTAAGTCCACAATTCGTGACACCC
Found at i:698474 original size:190 final size:191
Alignment explanation
Indices: 698217--698796 Score: 560
Period size: 190 Copynumber: 3.1 Consensus size: 191
698207 TTCGTGACAC
* * * * *
698217 CTTTTTC-TTTT-AAAGCCTACACAAGTTAGTGGC-ACTTTTTAGTCATTAAAGACTAAGATGCT
1 CTTTTTCTTTTTAAAAGCCCACACAAGTTGGTGGCAAC-TTTTAGTCCTCAAAGAGTAAGATGCT
* * * * * * *
698279 TTTTTCTTTTTAAAGCCTACACAATTTGGTGGCACATTTTAGTCTTCAAAGAGTAGGACGCCTTG
65 TTTTTCTTTTTAAACCCCACACAAGTTGATGGCACATTTTAGTCCTCAAAGAGCAGGACACCTTG
* * * *
698344 -CATTTTTCTTTTAAAGCTCACACAAGTCAG-TGGCACCTTTAATTC-TCAAAGAGCATGACGCT
130 TC-TTTTTCCTTTAAAGCCCACACAAGT-AGATGGCACCTTTAAGTCTTCAAAGAGCATGA-GAT
* *
698406 -TTTTTCTTTTTAAAAGCCCACACAAGTTGGTGGCAACTTTTAGTCCTCAAAGAGTATGATGTTT
1 CTTTTTCTTTTTAAAAGCCCACACAAGTTGGTGGCAACTTTTAGTCCTCAAAGAGTAAGATGCTT
**
698470 TTTTCTTTTTAAACCCCACACAAGTTGATGGCACATTTTAGTCCTCAAAGAGCAGGACATTTTGT
66 TTTTCTTTTTAAACCCCACACAAGTTGATGGCACATTTTAGTCCTCAAAGAGCAGGACACCTTGT
* * * *
698535 CTTTTTCCTTTAAAGCCCACACAAGTTGATGGCACCTTTTAGTCTTTAAAGAGCATGATAT
131 CTTTTTCCTTTAAAGCCCACACAAGTAGATGGCACCTTTAAGTCTTCAAAGAGCATGAGAT
* * *
698596 CTTTTTCTTTTTAAAAG-CCACATAAGTTGGTGGCACCGTTTAGTCCTCAAAGAGTAAGATACCT
1 CTTTTTCTTTTTAAAAGCCCACACAAGTTGGTGGCAACTTTTAGTCCTCAAAGAGTAAG--A---
* * * ** * * * ** *
698660 TGCTTTTTTC-CTTTAAAACTCACACAAGTTGGCGGCACTTTTTAGTTCTCAAAGAGAAAAACGC
61 TGCTTTTTTCTTTTTAAACCCCACACAAGTTGATGGCACATTTTAGTCCTCAAAGAGCAGGACAC
* * * * * *
698724 CTT-T-TTCTT--TTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTT-GAAGAGCATGAC
126 CTTGTCTTTTTCCTTTAAAGCCCACACAAGTAGATGGCACCTTTAAGT-CTTCAAAGAGCATGAG
698784 A-
190 AT
*
698785 CTTTTCCTTTTT
1 CTTTTTCTTTTT
698797 TATTTTTTTA
Statistics
Matches: 331, Mismatches: 47, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
188 6 0.02
189 16 0.05
190 216 0.65
191 34 0.10
192 5 0.02
193 1 0.00
194 44 0.13
195 9 0.03
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (191 bp):
CTTTTTCTTTTTAAAAGCCCACACAAGTTGGTGGCAACTTTTAGTCCTCAAAGAGTAAGATGCTT
TTTTCTTTTTAAACCCCACACAAGTTGATGGCACATTTTAGTCCTCAAAGAGCAGGACACCTTGT
CTTTTTCCTTTAAAGCCCACACAAGTAGATGGCACCTTTAAGTCTTCAAAGAGCATGAGAT
Found at i:698593 original size:128 final size:128
Alignment explanation
Indices: 698217--698797 Score: 465
Period size: 128 Copynumber: 4.6 Consensus size: 128
698207 TTCGTGACAC
* * * * * *
698217 CTTTTTC-TTTTAAAGCCTACACAAGTTAGTGGCACTTTTTAGTCATTAAAGA-CTAAG--A---
1 CTTTTTCTTTTTAAAACCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGC-AAGACATTT
* * * * * * *
698275 TGCTTTTTTCTTTTTAAAGCCTACACAATTTGGTGGCACATTTTAGTCTTCAAAGAGTAGGACGC
65 TGCTTTTTTC-CTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGAATGATG-
698340 CTT
128 --T
* * ** * * *
698343 GCATTTTTC-TTTTAAAGCTCACACAAGTCAGTGGCACC-TTTAATTCTCAAAGAGCATGAC---
1 -C-TTTTTCTTTTTAAAACCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACATT
* * * *
698403 --GCTTTTTTCTTTTTAAAAGCCCACACAAGTTGGTGGCAACTTTTAGTCCTCAAAGAGTATGAT
64 TTGCTTTTTTC-CTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGAATGAT
698466 GT
127 GT
* * * * *
698468 TTTTTTCTTTTTAAACCCCACACAAGTTGATGGCACATTTTAGTCCTCAAAGAGCAGGACATTTT
1 CTTTTTCTTTTTAAAACCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACATTTT
* * * *
698533 G-TCTTTTTCCTTTAAAGCCCACACAAGTTGATGGCACCTTTTAGTCTTTAAAGAGCATGATAT
66 GCT-TTTTTCCTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGAATGATGT
* * * * * **
698596 CTTTTTCTTTTTAAAAGCCACATAAGTTGGTGGCACCGTTTAGTCCTCAAAGAGTAAGATACCTT
1 CTTTTTCTTTTTAAAACCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACATTTT
* * * * ** * *
698661 GCTTTTTTCCTTTAAAACTCACACAAGTTGGCGGCACTTTTTAGT-TCTCAAAGAGAAAAACGC
66 GCTTTTTTCCTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCT-TCAAAGAGAATGATGT
* ** *
698724 CTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTGAAGAGCATGACACTTT
1 CTTTTTCTTTTTAAAACCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACA-TTT
*
698789 TCCTTTTTT
65 TGCTTTTTT
698798 ATTTTTTTAA
Statistics
Matches: 369, Mismatches: 69, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
123 6 0.02
124 23 0.06
125 20 0.05
127 29 0.08
128 270 0.73
129 14 0.04
130 7 0.02
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (128 bp):
CTTTTTCTTTTTAAAACCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACATTTT
GCTTTTTTCCTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCTTCAAAGAGAATGATGT
Found at i:698797 original size:62 final size:62
Alignment explanation
Indices: 698218--698798 Score: 441
Period size: 62 Copynumber: 9.2 Consensus size: 62
698208 TCGTGACACC
* * * * * * * **
698218 TTTTTCTTTTAAAGCCTACACAAGTTAGTGGCACTTTTTAGTCATTAAAGA-CTAAGATGCTT
1 TTTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGC-ATGACACTT
* * * * * * * *
698280 TTTTCTTTTTAAAGCCTACACAATTTGGTGGCACATTTTAGTCTTCAAAGAGTAGGACGCCTT
1 TTTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCATGAC-ACTT
* * ** * * *
698343 GCATTTTTCTTTTAAAGCTCACACAAGTCAGTGGCACC-TTTAATTCTCAAAGAGCATGACGCTT
1 ---TTTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCATGACACTT
* * * **
698407 TTTTCTTTTTAAAAGCCCACACAAGTTGGTGGCAACTTTTAGTCCTCAAAGAGTATGA-TGTT
1 TTTT-TTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCATGACACTT
* * * * *
698469 TTTTTCTTTTTAAACCCCACACAAGTTGATGGCACATTTTAGTCCTCAAAGAGCAGGACATTT
1 TTTTT-TTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCATGACACTT
* * * *
698532 TGTCTTTTTCCTTTAAAGCCCACACAAGTTGATGGCACCTTTTAGTCTTTAAAGAGCATGATATC
1 T-T-TTTTT--TTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCATGACA-C
698597 TT
61 TT
* * * * * * *
698599 TTTCTTTTTAAAAG-CCACATAAGTTGGTGGCACCGTTTAGTCCTCAAAGAGTAAGATACCTT
1 TTTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCATGACA-CTT
* * * * * * * ** * *
698661 GCTTTTTTCCTTTAAAACTCACACAAGTTGGCGGCACTTTTTAGTTCTCAAAGAGAAAAACGCCT
1 --TTTTTT-TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCATGACACTT
* **
698726 TTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTTGAAGAGCATGACACTT
1 TTTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCATGACACTT
**
698788 TTCCTTTTTTA
1 TTTTTTTTTTA
698799 TTTTTTTAAG
Statistics
Matches: 407, Mismatches: 94, Indels: 36
0.76 0.18 0.07
Matches are distributed among these distances:
61 5 0.01
62 214 0.53
63 35 0.09
64 11 0.03
65 31 0.08
66 108 0.27
67 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (62 bp):
TTTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCATGACACTT
Found at i:698913 original size:62 final size:62
Alignment explanation
Indices: 698826--699306 Score: 428
Period size: 62 Copynumber: 7.7 Consensus size: 62
698816 GAGTTAGCGA
* * * * * * * *
698826 CACCTAAGTCAAAGCTCATATAAATTGGTGGCACCTTAGTCAAATCCCGTACGAGTTGATGG
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGGCACCTTAGTCAAAGCCCGCACGAGTTGACGG
* * ** * * **
698888 CACCTGAGTCAAAGCCCACACAAATTGGTGGCA-CTCTAATCAAAGTTCACAAGAGTTGGTGG
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGGCACCT-TAGTCAAAGCCCGCACGAGTTGACGG
* * * * * *
698950 AATCCT-AGTCAAAGCCCGCACAAGTTAGTAGCACCTTAGTCAAAGCCCACACGAGTTGACGA
1 CA-CCTGAGTCAAAGCCCACACAAGTTGGTGGCACCTTAGTCAAAGCCCGCACGAGTTGACGG
* * * * * ** * * *
699012 CACTTGAGTCAAAGCCCACACAAGTTAGTGGAACCCTAATCAAAGCCTACATGAGTTAACGA
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGGCACCTTAGTCAAAGCCCGCACGAGTTGACGG
* * * * **
699074 CACGTGAGTCTAAGCCCACACAAGTTGGTGGCACCCTAGTCAAAGCCCGCATGAGTTGGTGG
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGGCACCTTAGTCAAAGCCCGCACGAGTTGACGG
* * * * *
699136 CACCTGAGTCAAAGCCCACATAAGTTGGTGGCA-CTATAGTCAAAAGCACACACAAGTTGGCGG
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGGCACCT-TAGTC-AAAGCCCGCACGAGTTGACGG
* * *
699199 CACCTGAGTCAAAGCCCACACAAGTTGGTGACACCTTAGTCAAAGCCCGTATGAGTTGACGG
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGGCACCTTAGTCAAAGCCCGCACGAGTTGACGG
* * * * * * *
699261 CACCTGAGTAAAAGACTACAGAAGTTGGTGGTACCCTAGTTAAAGC
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGGCACCTTAGTCAAAGC
699307 TCACCCACAC
Statistics
Matches: 342, Mismatches: 70, Indels: 14
0.80 0.16 0.03
Matches are distributed among these distances:
61 5 0.01
62 278 0.81
63 57 0.17
64 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (62 bp):
CACCTGAGTCAAAGCCCACACAAGTTGGTGGCACCTTAGTCAAAGCCCGCACGAGTTGACGG
Found at i:698947 original size:93 final size:93
Alignment explanation
Indices: 698832--699386 Score: 440
Period size: 93 Copynumber: 5.9 Consensus size: 93
698822 GCGACACCTA
* * * * * *
698832 AGTCAAAGCTCATATAAATTGGTGGCACCTTAGTCAAATCCCGTACGAGTTGATGGCACCTGAGT
1 AGTCAAAGCCCACACAAGTTGGTGGCACCTTAGTCAAAGCCCGCACGAGTTGATGGCACCTGAGT
* *
698897 CAAAGCCCACACAAATTGGTGGCACTCT
66 CAAAGCCCACACAAGTTGGTGGCACCCT
* ** * * * *
698925 AATCAAAGTTCACA-AGAGTTGGTGGAATCC-TAGTCAAAGCCCGCACAAGTT-AGTAGCACCTT
1 AGTCAAAGCCCACACA-AGTTGGTGGCA-CCTTAGTCAAAGCCCGCACGAGTTGA-TGGCACCTG
* ** * *
698987 AGTCAAAGCCCACACGAGTTGACGACA-CTT
63 AGTCAAAGCCCACACAAGTTGGTGGCACCCT
* * * * ** * * * * *
699017 GAGTCAAAGCCCACACAAGTTAGTGGAACCCTAATCAAAGCCTACATGAGTTAACGACACGTGAG
1 -AGTCAAAGCCCACACAAGTTGGTGGCACCTTAGTCAAAGCCCGCACGAGTTGATGGCACCTGAG
*
699082 TCTAAGCCCACACAAGTTGGTGGCACCCT
65 TCAAAGCCCACACAAGTTGGTGGCACCCT
* ** * * ** * *
699111 AGTCAAAGCCCGCATGAGTTGGTGGCACCTGAGTCAAAGCCCACATAAGTTGGTGGCA-CTATAG
1 AGTCAAAGCCCACACAAGTTGGTGGCACCTTAGTCAAAGCCCGCACGAGTTGATGGCACCT-GAG
* *
699175 TCAAAAGCACACACAAGTTGGCGGCA-CCT
65 TC-AAAGCCCACACAAGTTGGTGGCACCCT
* * * *
699204 GAGTCAAAGCCCACACAAGTTGGTGACACCTTAGTCAAAGCCCGTATGAGTTGACGGCACCTGAG
1 -AGTCAAAGCCCACACAAGTTGGTGGCACCTTAGTCAAAGCCCGCACGAGTTGATGGCACCTGAG
* * * * *
699269 TAAAAGACTACAGAAGTTGGTGGTACCCT
65 TCAAAGCCCACACAAGTTGGTGGCACCCT
* * * * *
699298 AGTTAAAGCTCACCCACACAAGTTGGTGGTACCCTAGTCAAAACCCGCACGAGTT-AGGGCACCT
1 AGTCAAAG----CCCACACAAGTTGGTGGCACCTTAGTCAAAGCCCGCACGAGTTGATGGCACCT
*
699362 AAGTCAAAGCCCACACAAGTTGGTG
62 GAGTCAAAGCCCACACAAGTTGGTG
699387 ATACCTAAGT
Statistics
Matches: 358, Mismatches: 87, Indels: 31
0.75 0.18 0.07
Matches are distributed among these distances:
92 6 0.02
93 205 0.57
94 80 0.22
95 2 0.01
96 28 0.08
97 37 0.10
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.20
Consensus pattern (93 bp):
AGTCAAAGCCCACACAAGTTGGTGGCACCTTAGTCAAAGCCCGCACGAGTTGATGGCACCTGAGT
CAAAGCCCACACAAGTTGGTGGCACCCT
Found at i:699336 original size:97 final size:96
Alignment explanation
Indices: 699213--699391 Score: 232
Period size: 97 Copynumber: 1.9 Consensus size: 96
699203 TGAGTCAAAG
* * * * * *
699213 CCCACACAAGTTGGTGACACCTTAGTCAAAGCCCGTATGAGTTGACGGCACCTGAGTAAAAGACT
1 CCCACACAAGTTGGTGACACCCTAGTCAAAACCCGCACGAGTT-ACGGCACCTAAGTAAAAGACC
* *
699278 ACAGAAGTTGGTGGTACCCTAGTTAAAGCTCA
65 ACACAAGTTGGTGATACCCTAGTTAAAGCTCA
** * * *
699310 CCCACACAAGTTGGTGGTACCCTAGTCAAAACCCGCACGAGTTAGGGCACCTAAGTCAAAGCCCA
1 CCCACACAAGTTGGTGACACCCTAGTCAAAACCCGCACGAGTTACGGCACCTAAGTAAAAGACCA
699375 CACAAGTTGGTGATACC
66 CACAAGTTGGTGATACC
699392 TAAGTCCGAG
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
96 32 0.46
97 37 0.54
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.20
Consensus pattern (96 bp):
CCCACACAAGTTGGTGACACCCTAGTCAAAACCCGCACGAGTTACGGCACCTAAGTAAAAGACCA
CACAAGTTGGTGATACCCTAGTTAAAGCTCA
Found at i:699397 original size:31 final size:31
Alignment explanation
Indices: 698826--699386 Score: 366
Period size: 31 Copynumber: 18.0 Consensus size: 31
698816 GAGTTAGCGA
* * * * *
698826 CACCTAAGTCAAAGCTCATATAAATTGGTGG
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGG
* * ** * *
698857 CACCTTAGTCAAATCCCGTACGAGTTGATGG
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGG
*
698888 CACCTGAGTCAAAGCCCACACAAATTGGTGG
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGG
* **
698919 CACTCT-AATCAAAGTTCACA-AGAGTTGGTGG
1 CAC-CTGAGTCAAAGCCCACACA-AGTTGGTGG
* * * *
698950 AATCCT-AGTCAAAGCCCGCACAAGTTAGTAG
1 CA-CCTGAGTCAAAGCCCACACAAGTTGGTGG
* * ** *
698981 CACCTTAGTCAAAGCCCACACGAGTTGACGA
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGG
* *
699012 CACTTGAGTCAAAGCCCACACAAGTTAGTGG
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGG
* * * ** *** *
699043 AACCCT-AATCAAAGCCTACATGAGTTAACGA
1 CA-CCTGAGTCAAAGCCCACACAAGTTGGTGG
* *
699074 CACGTGAGTCTAAGCCCACACAAGTTGGTGG
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGG
* **
699105 CACCCT-AGTCAAAGCCCGCATGAGTTGGTGG
1 CA-CCTGAGTCAAAGCCCACACAAGTTGGTGG
*
699136 CACCTGAGTCAAAGCCCACATAAGTTGGTGG
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGG
* * *
699167 CA-CTATAGTCAAAAGCACACACAAGTTGGCGG
1 CACCT-GAGTC-AAAGCCCACACAAGTTGGTGG
*
699199 CACCTGAGTCAAAGCCCACACAAGTTGGTGA
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGG
* ** ** **
699230 CACCTTAGTCAAAGCCCGTATGAGTTGACGG
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGG
* * * *
699261 CACCTGAGTAAAAGACTACAGAAGTTGGTGG
1 CACCTGAGTCAAAGCCCACACAAGTTGGTGG
* *
699292 TACCCT-AGTTAAAGCTCACCCACACAAGTTGGTGG
1 CA-CCTGAGTCAAAG----CCCACACAAGTTGGTGG
* * * * *
699327 TACCCT-AGTCAAAACCCGCACGAGTTAG-GG
1 CA-CCTGAGTCAAAGCCCACACAAGTTGGTGG
*
699357 CACCTAAGTCAAAGCCCACACAAGTTGGTG
1 CACCTGAGTCAAAGCCCACACAAGTTGGTG
699387 ATACCTAAGT
Statistics
Matches: 402, Mismatches: 109, Indels: 38
0.73 0.20 0.07
Matches are distributed among these distances:
29 3 0.01
30 32 0.08
31 304 0.76
32 35 0.09
33 2 0.00
35 26 0.06
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.20
Consensus pattern (31 bp):
CACCTGAGTCAAAGCCCACACAAGTTGGTGG
Found at i:699990 original size:20 final size:20
Alignment explanation
Indices: 699965--700002 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
699955 GATATAATTG
*
699965 GTGAATGTATCGATACATAA
1 GTGAATGCATCGATACATAA
699985 GTGAATGCATCGATACAT
1 GTGAATGCATCGATACAT
700003 GTCTCAAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (20 bp):
GTGAATGCATCGATACATAA
Found at i:700083 original size:20 final size:20
Alignment explanation
Indices: 700051--700102 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
700041 GTCGAAAAAT
* *
700051 TGTATCGATACATAAGTAAA
1 TGTATCAATACATAACTAAA
* **
700071 TGTCTCAATACATTTCTAAA
1 TGTATCAATACATAACTAAA
700091 TGTATCAATACA
1 TGTATCAATACA
700103 ATTTGCTTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (20 bp):
TGTATCAATACATAACTAAA
Found at i:701867 original size:2 final size:2
Alignment explanation
Indices: 701862--701888 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
701852 GTTTTTTAGA
701862 AT 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 AT A
701889 ATGCCTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:706674 original size:20 final size:21
Alignment explanation
Indices: 706635--706675 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
706625 TTTGGTTTAT
*
706635 TTTTAAATAAATATTAATATA
1 TTTTAAATAAATAATAATATA
706656 TTTTAAATAAA-AATAATATA
1 TTTTAAATAAATAATAATATA
706676 GTACATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTTAAATAAATAATAATATA
Found at i:707242 original size:19 final size:19
Alignment explanation
Indices: 707220--707256 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
707210 TATTATCTAA
*
707220 TATAAATTTAATTATTATT
1 TATAAATATAATTATTATT
*
707239 TATAAATATAATTTTTAT
1 TATAAATATAATTATTAT
707257 AATTACTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATAAATATAATTATTATT
Found at i:707327 original size:14 final size:14
Alignment explanation
Indices: 707304--707336 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
707294 ATTAATATAT
*
707304 TAAAATATAATAAA
1 TAAAAAATAATAAA
707318 TAAAAAATAATAAA
1 TAAAAAATAATAAA
707332 TAAAA
1 TAAAA
707337 TTTCAACCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAAAAATAATAAA
Found at i:711415 original size:22 final size:22
Alignment explanation
Indices: 711390--711434 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
711380 GTAAAGATAC
711390 TATA-AAATTCTGCTGCAA-CA
1 TATATAAATTCTGCTGCAAGCA
* *
711410 TATATATATTTTGCTGCAAGCA
1 TATATAAATTCTGCTGCAAGCA
711432 TAT
1 TAT
711435 TATTCAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 12 0.57
22 5 0.24
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (22 bp):
TATATAAATTCTGCTGCAAGCA
Found at i:712215 original size:5 final size:5
Alignment explanation
Indices: 712197--712270 Score: 66
Period size: 5 Copynumber: 15.2 Consensus size: 5
712187 TTTAAAATAT
* *
712197 TTATA -TAT- TTATA TTATA TTAATA TTATTT TTATA TTATA TTATA TTTTA
1 TTATA TTATA TTATA TTATA TT-ATA TTA-TA TTATA TTATA TTATA TTATA
* *
712247 TTAT- TT-TT TTATA TTATT TTATA T
1 TTATA TTATA TTATA TTATA TTATA T
712271 AATAAAATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
3 1 0.02
4 10 0.18
5 36 0.64
6 9 0.16
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (5 bp):
TTATA
Found at i:712216 original size:11 final size:11
Alignment explanation
Indices: 712200--712270 Score: 73
Period size: 11 Copynumber: 7.0 Consensus size: 11
712190 AAAATATTTA
712200 TATATTTATAT
1 TATATTTATAT
*
712211 TATATTAATAT
1 TATATTTATAT
*
712222 TATTTTTATAT
1 TATATTTATAT
712233 TATA-TTATAT
1 TATATTTATAT
*
712243 TTTA-TTAT-T
1 TATATTTATAT
712252 T-T-TTTATAT
1 TATATTTATAT
712261 TAT-TTTATAT
1 TATATTTATAT
712271 AATAAAATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
8 5 0.10
9 4 0.08
10 21 0.40
11 22 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TATATTTATAT
Found at i:712231 original size:28 final size:28
Alignment explanation
Indices: 712194--712274 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
712184 AATTTTAAAA
*
712194 TATTTATATATTTATATTATATTAATAT
1 TATTTTTATATTTATATTATATTAATAT
*
712222 TATTTTTATA-TTATATTATATT-TTAT
1 TATTTTTATATTTATATTATATTAATAT
* *
712248 TATTTTTTTATATTATTTTATA-TAATA
1 TATTTTTATAT-TTATATTATATTAATA
712275 AAATATATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 12 0.27
27 13 0.29
28 20 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (28 bp):
TATTTTTATATTTATATTATATTAATAT
Found at i:712324 original size:15 final size:15
Alignment explanation
Indices: 712304--712335 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
712294 ATTAAATTAT
712304 TTATATTAAATAAAA
1 TTATATTAAATAAAA
*
712319 TTATATTAAATATAA
1 TTATATTAAATAAAA
712334 TT
1 TT
712336 TAAATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATATTAAATAAAA
Found at i:712732 original size:3 final size:3
Alignment explanation
Indices: 712724--712772 Score: 66
Period size: 3 Copynumber: 16.3 Consensus size: 3
712714 GAGGAGCAAC
712724 AAG AAG AAG AAG CAA- AAG AAG AAG AAG AAG AA- AAGG AAG AAG AAG
1 AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG AA-G AAG AAG AAG
712769 AAG A
1 AAG A
712773 TCAAGCTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.10
3 34 0.81
4 4 0.10
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:712742 original size:15 final size:16
Alignment explanation
Indices: 712705--712750 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
712695 ATCTCAACAA
* *
712705 CAACAAAAAG-AGGAG
1 CAACAAGAAGAAGAAG
712720 CAACAAGAAGAAGAAG
1 CAACAAGAAGAAGAAG
712736 CAA-AAGAAGAAGAAG
1 CAACAAGAAGAAGAAG
712751 AAGAAAAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 21 0.75
16 7 0.25
ACGTcount: A:0.63, C:0.11, G:0.26, T:0.00
Consensus pattern (16 bp):
CAACAAGAAGAAGAAG
Found at i:712751 original size:18 final size:18
Alignment explanation
Indices: 712724--712772 Score: 82
Period size: 18 Copynumber: 2.7 Consensus size: 18
712714 GAGGAGCAAC
712724 AAGAAGAAGAAGCAAAA-G
1 AAGAAGAAGAAG-AAAAGG
712742 AAGAAGAAGAAGAAAAGG
1 AAGAAGAAGAAGAAAAGG
712760 AAGAAGAAGAAGA
1 AAGAAGAAGAAGA
712773 TCAAGCTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.13
18 26 0.87
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (18 bp):
AAGAAGAAGAAGAAAAGG
Found at i:714261 original size:19 final size:20
Alignment explanation
Indices: 714230--714285 Score: 73
Period size: 19 Copynumber: 2.9 Consensus size: 20
714220 AAAACTAATT
714230 TTAAT-TATATTAAATAATAA
1 TTAATATAT-TTAAATAATAA
*
714250 TT-ATATATTTAAAT-ATTA
1 TTAATATATTTAAATAATAA
714268 TTAATATATTTAAATAAT
1 TTAATATATTTAAATAAT
714286 CATATTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.16
19 20 0.62
20 7 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAATATATTTAAATAATAA
Found at i:716154 original size:28 final size:28
Alignment explanation
Indices: 716087--716237 Score: 121
Period size: 28 Copynumber: 5.4 Consensus size: 28
716077 TTGAAAATTC
* *
716087 TATGTAAAAAGTTTTAATTGAAAATTCTATA
1 TATGTTAAAAG-TTTAATTAAAAATT-T-TA
716118 TATG-TAAAAGTTTAATTAAAAATTTTA
1 TATGTTAAAAGTTTAATTAAAAATTTTA
*
716145 TATGTTAAAAGTTTAATTCAAAATTTTA
1 TATGTTAAAAGTTTAATTAAAAATTTTA
* * *
716173 CT-TG-TAAAGAATTTAATTAAAAAATCTA
1 -TATGTTAAA-AGTTTAATTAAAAATTTTA
* ** * * *
716201 TAAGAAAAAAGTCTAATTAAAAAATCTA
1 TATGTTAAAAGTTTAATTAAAAATTTTA
716229 TAT-TTAAAA
1 TATGTTAAAA
716238 AGCTTAAATA
Statistics
Matches: 101, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
27 15 0.15
28 60 0.59
29 17 0.17
30 5 0.05
31 4 0.04
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (28 bp):
TATGTTAAAAGTTTAATTAAAAATTTTA
Found at i:716168 original size:84 final size:82
Alignment explanation
Indices: 716025--716237 Score: 193
Period size: 84 Copynumber: 2.5 Consensus size: 82
716015 GTGAAAGCTT
* * * ** *
716025 AATTCTATATGTGTAAGAGTTTAATAAAAAATTCTATATACAAAAAGTCCTTTTGAAAATTCTA-
1 AATTCTATATATGTAAAAGTTTAATTAAAAATTCTATAT-TTAAAAGT-CTTTTCAAAATTCTAC
*
716089 TGTAAA-AAGTTTTAATTGAA
64 TGTAAAGAA--TTTAATTAAA
* *
716109 AATTCTATATATGTAAAAGTTTAATTAAAAATTTTATATGTTAAAAGT-TTAATTCAAAATTTTA
1 AATTCTATATATGTAAAAGTTTAATTAAAAATTCTATAT-TTAAAAGTCTT--TTCAAAATTCTA
716173 CTTGTAAAGAATTTAATTAAA
63 C-TGTAAAGAATTTAATTAAA
* * * *
716194 AAATCTATA-A-GAAAAAAGTCTAATTAAAAAATCTATATTTAAAA
1 AATTCTATATATG-TAAAAGTTTAATTAAAAATTCTATATTTAAAA
716238 AGCTTAAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
82 2 0.02
83 7 0.06
84 74 0.69
85 17 0.16
86 6 0.06
87 2 0.02
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (82 bp):
AATTCTATATATGTAAAAGTTTAATTAAAAATTCTATATTTAAAAGTCTTTTCAAAATTCTACTG
TAAAGAATTTAATTAAA
Found at i:716235 original size:15 final size:14
Alignment explanation
Indices: 716188--716238 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
716178 AAAGAATTTA
716188 ATTAAAAAATCTAT
1 ATTAAAAAATCTAT
**
716202 AAGAAAAAAGTCTA-
1 ATTAAAAAA-TCTAT
716216 ATTAAAAAATCTAT
1 ATTAAAAAATCTAT
716230 ATTTAAAAA
1 A-TTAAAAA
716239 GCTTAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 4 0.13
14 15 0.50
15 11 0.37
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (14 bp):
ATTAAAAAATCTAT
Found at i:717805 original size:16 final size:16
Alignment explanation
Indices: 717784--717814 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
717774 CTCTTCCTTT
717784 TTAAATAGATATTATC
1 TTAAATAGATATTATC
717800 TTAAATAGATATTAT
1 TTAAATAGATATTAT
717815 GAGATCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
TTAAATAGATATTATC
Found at i:720725 original size:15 final size:15
Alignment explanation
Indices: 720705--720735 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
720695 ATACTTATTG
720705 TTATAGAAACAACTA
1 TTATAGAAACAACTA
720720 TTATAGAAACAACTA
1 TTATAGAAACAACTA
720735 T
1 T
720736 ATGCGTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (15 bp):
TTATAGAAACAACTA
Found at i:722821 original size:21 final size:21
Alignment explanation
Indices: 722795--722836 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
722785 AGCTACTGCC
722795 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
722816 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
722837 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:722841 original size:13 final size:13
Alignment explanation
Indices: 722823--722848 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
722813 ATTAAGGAAA
722823 TGTATCGATACAT
1 TGTATCGATACAT
722836 TGTATCGATACAT
1 TGTATCGATACAT
722849 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:725271 original size:52 final size:52
Alignment explanation
Indices: 725212--725337 Score: 173
Period size: 52 Copynumber: 2.4 Consensus size: 52
725202 CCTAATTGTT
* *
725212 CATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTC
1 CATAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTC
* * * *
725263 CTTTAATCGAGGATACTCCGACTCCGATTTTATTTCCAAAAACACCAATTTTT
1 C-ATAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTC
*
725316 CACAATCGAGGATACTCCAACC
1 CATAATCGAGGATACTCCAACC
725338 TCGTTATTTC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
51 1 0.02
52 47 0.75
53 15 0.24
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.30
Consensus pattern (52 bp):
CATAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTC
Found at i:725348 original size:31 final size:28
Alignment explanation
Indices: 725320--725396 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
725310 ATTTTTCACA
*
725320 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
725348 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
725376 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
725397 ACTTTATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:725483 original size:79 final size:79
Alignment explanation
Indices: 725352--725584 Score: 274
Period size: 79 Copynumber: 2.9 Consensus size: 79
725342 TATTTCATCG
** *
725352 GGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTG
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAATATTG
**
725417 ATTTCTCATAATTA
66 ATTTCTCATAACCA
* * * *
725431 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTATTTCC-TAATCATC
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAAT-ATT
* * *
725495 GATTTTTCACAACCG
65 GATTTCTCATAACCA
* *
725510 GGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCG-TTATTA-TCTCCAAAATAT
1 GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATT-TTATTC-CCAAAATAT
*
725573 TAAATTTCTCAT
64 T-GATTTCTCAT
725585 CGGGACATAT
Statistics
Matches: 128, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
78 6 0.05
79 112 0.88
80 10 0.08
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (79 bp):
GGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTCCCAAAATATTG
ATTTCTCATAACCA
Found at i:730942 original size:15 final size:17
Alignment explanation
Indices: 730924--730964 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
730914 AAATGCCATG
730924 AAAAAAAATC-AAAT-A
1 AAAAAAAATCAAAATGA
730939 AAAAAAAA-CAAAATGA
1 AAAAAAAATCAAAATGA
730955 AAAGAAAAAT
1 AAA-AAAAAT
730965 GATGGATGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.05
15 12 0.55
16 4 0.18
17 5 0.23
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.10
Consensus pattern (17 bp):
AAAAAAAATCAAAATGA
Found at i:731088 original size:13 final size:13
Alignment explanation
Indices: 731070--731109 Score: 64
Period size: 12 Copynumber: 3.1 Consensus size: 13
731060 GGAGAAAATG
731070 AGAGAAAAAAGAA
1 AGAGAAAAAAGAA
731083 AGAGAAAAAA-AA
1 AGAGAAAAAAGAA
731095 AGAGAAAAAGAGAA
1 AGAGAAAAA-AGAA
731109 A
1 A
731110 AAAATAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 11 0.44
13 11 0.44
14 3 0.12
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AGAGAAAAAAGAA
Found at i:731090 original size:12 final size:12
Alignment explanation
Indices: 731061--731105 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
731051 GGCAAAGAGG
* *
731061 GAGAAAATGAGA
1 GAGAAAAAGAAA
731073 GA-AAAAAGAAA
1 GAGAAAAAGAAA
*
731084 GAGAAAAAAAAA
1 GAGAAAAAGAAA
731096 GAGAAAAAGA
1 GAGAAAAAGA
731106 GAAAAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 9 0.32
12 19 0.68
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (12 bp):
GAGAAAAAGAAA
Done.