Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 282 of 345
Found at i:96343934 original size:21 final size:21
Alignment explanation
Indices: 96343910--96343953 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
96343900 TCTTGTGGTG
*
96343910 GAGACGTAGGTCCACGGATGA
1 GAGACGTAGGTCCACGAATGA
96343931 GAGACGTAGGTCCACGAATGA
1 GAGACGTAGGTCCACGAATGA
96343952 GA
1 GA
96343954 ACGACCATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.36, T:0.14
Consensus pattern (21 bp):
GAGACGTAGGTCCACGAATGA
Found at i:96348100 original size:19 final size:19
Alignment explanation
Indices: 96348076--96348138 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
96348066 AATCTTAGAG
*
96348076 ATCTTAGATATGATACGTA
1 ATCTTAGATAAGATACGTA
*
96348095 ATCTT--ATAAGATTACAT-
1 ATCTTAGATAAGA-TACGTA
* *
96348112 ATCTTAAATAAGATATGTA
1 ATCTTAGATAAGATACGTA
96348131 ATCTTAGA
1 ATCTTAGA
96348139 AAATATGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 10 0.29
18 7 0.20
19 18 0.51
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (19 bp):
ATCTTAGATAAGATACGTA
Found at i:96349531 original size:16 final size:17
Alignment explanation
Indices: 96349499--96349535 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
96349489 AAGTGATTTC
96349499 ATTTAGTTTTATGTTTT
1 ATTTAGTTTTATGTTTT
96349516 ATTTA-TTTT-TGTTTTT
1 ATTTAGTTTTATG-TTTT
96349532 ATTT
1 ATTT
96349536 TTATTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 2 0.11
16 12 0.63
17 5 0.26
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (17 bp):
ATTTAGTTTTATGTTTT
Found at i:96349536 original size:6 final size:6
Alignment explanation
Indices: 96349500--96349560 Score: 56
Period size: 6 Copynumber: 10.3 Consensus size: 6
96349490 AGTGATTTCA
* * *
96349500 TTTAGT TTTATGT TTTA-- TTTATT TTTGTT TTTATT TTTATT GTTATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
96349547 TGTT-TT TTTATT TT
1 T-TTATT TTTATT TT
96349561 ATTATGCACT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.09
5 2 0.04
6 32 0.71
7 7 0.16
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:96349537 original size:29 final size:29
Alignment explanation
Indices: 96349500--96349563 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
96349490 AGTGATTTCA
* *
96349500 TTTAGTTTTATGTTTTATTTATTTTTGT-T
1 TTTATTTTTAT-TGTTATTTATTTTTGTAT
* *
96349529 TTTATTTTTATTGTTATTTGTTTTTTTAT
1 TTTATTTTTATTGTTATTTATTTTTGTAT
96349558 TTTATT
1 TTTATT
96349564 ATGCACTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 13 0.43
29 17 0.57
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (29 bp):
TTTATTTTTATTGTTATTTATTTTTGTAT
Found at i:96359482 original size:18 final size:18
Alignment explanation
Indices: 96359421--96359488 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 18
96359411 CAACTAAATA
96359421 ATTT-ATTTTAACAT-TAT
1 ATTTAATTTTAA-ATATAT
*
96359438 -TTATAATTTTAAATATCT
1 ATT-TAATTTTAAATATAT
96359456 ATTTAAATTTT-AATAATAT
1 ATTT-AATTTTAAAT-ATAT
96359475 ATTTAATTTGTAAA
1 ATTTAATTT-TAAA
96359489 AATAGCAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
16 2 0.05
17 3 0.07
18 18 0.44
19 16 0.39
20 2 0.05
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (18 bp):
ATTTAATTTTAAATATAT
Found at i:96359492 original size:19 final size:18
Alignment explanation
Indices: 96359416--96359492 Score: 61
Period size: 19 Copynumber: 4.3 Consensus size: 18
96359406 TATGACAACT
96359416 AAATA-ATTT-ATTTTAA
1 AAATATATTTAATTTTAA
* *
96359432 CATTAT-TTATAATTTTAA
1 AAATATATT-TAATTTTAA
* *
96359450 ATATCTATTTAAATTTTAA
1 AAATATATTT-AATTTTAA
*
96359469 TAATATATTTAATTTGTAA
1 AAATATATTTAATTT-TAA
96359488 AAATA
1 AAATA
96359493 GCAATAAACT
Statistics
Matches: 45, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
16 5 0.11
17 1 0.02
18 15 0.33
19 24 0.53
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (18 bp):
AAATATATTTAATTTTAA
Found at i:96360812 original size:21 final size:21
Alignment explanation
Indices: 96360786--96360828 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
96360776 GGTTCGCTGT
*
96360786 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
96360807 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
96360828 A
1 A
96360829 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:96360828 original size:16 final size:16
Alignment explanation
Indices: 96360809--96360841 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
96360799 TGTATTGGAT
*
96360809 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
96360825 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
96360841 T
1 T
96360842 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:96360886 original size:45 final size:44
Alignment explanation
Indices: 96360820--96360914 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
96360810 GGATTAGAGG
* *
96360820 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
96360865 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
96360909 TGTAAT
1 TGTAAT
96360915 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:96361097 original size:18 final size:17
Alignment explanation
Indices: 96361076--96361110 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96361066 TTATTATTTA
*
96361076 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
96361094 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
96361111 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:96361104 original size:28 final size:27
Alignment explanation
Indices: 96361034--96361106 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
96361024 TTTATTATCA
*
96361034 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
96361062 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
96361089 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
96361107 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:96361223 original size:144 final size:147
Alignment explanation
Indices: 96360995--96361266 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
96360985 ATGATTATTG
96360995 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
96361060 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
96361125 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
96361144 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
96361206 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
96361267 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:96361241 original size:18 final size:17
Alignment explanation
Indices: 96361220--96361254 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96361210 TTATTATTAA
*
96361220 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
96361238 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
96361255 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:96361298 original size:54 final size:54
Alignment explanation
Indices: 96361240--96361418 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
96361230 ATTAAAATAT
*
96361240 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
96361294 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
96361357 TAT
53 -AC
*
96361360 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
96361414 ATAAT
1 ATAAT
96361419 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:96361300 original size:61 final size:61
Alignment explanation
Indices: 96361235--96361422 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
96361225 TTTTAATTAA
*
96361235 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
96361296 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
96361355 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
96361416 AATATAT
1 AATATAT
96361423 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:96361333 original size:120 final size:120
Alignment explanation
Indices: 96361203--96361425 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
96361193 ATCATATTTA
* *
96361203 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
96361268 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
96361323 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
96361388 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
96361426 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:96361361 original size:18 final size:17
Alignment explanation
Indices: 96361340--96361374 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96361330 TTATTATTAA
96361340 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
96361358 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
96361375 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:96361437 original size:17 final size:16
Alignment explanation
Indices: 96361415--96361461 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
96361405 ACTCAAATCA
96361415 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
96361432 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
96361446 TAAATATATGATTTAA
1 T-AATATATGATTTAA
96361462 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:96361462 original size:17 final size:17
Alignment explanation
Indices: 96361434--96361467 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
96361424 ATTATAACTA
*
96361434 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
96361451 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
96361468 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:96361610 original size:93 final size:92
Alignment explanation
Indices: 96361500--96361694 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
96361490 GATTATAGTT
* * *
96361500 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
96361563 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
96361593 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
96361658 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
96361685 TATGAATTTA
1 TATGAATTTA
96361695 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:96365461 original size:9 final size:9
Alignment explanation
Indices: 96365447--96365620 Score: 67
Period size: 9 Copynumber: 19.6 Consensus size: 9
96365437 CTGCTTTTAT
96365447 TAAAAATTA
1 TAAAAATTA
*
96365456 TAAAAAAT-
1 TAAAAATTA
**
96365464 TAAAAGCTA
1 TAAAAATTA
**
96365473 TAAAAGCTA
1 TAAAAATTA
* *
96365482 TAAATATTGT
1 TAAAAATT-A
**
96365492 TAAATTTTAA
1 TAAAAATT-A
96365502 TAAAAATT-
1 TAAAAATTA
*
96365510 TAAATA-T-
1 TAAAAATTA
96365517 TAAAAATTA
1 TAAAAATTA
*
96365526 -AAAAA-TG
1 TAAAAATTA
**
96365533 TAAAAATCG
1 TAAAAATTA
*
96365542 TAAAAAATA
1 TAAAAATTA
**
96365551 TAAAAATGG
1 TAAAAATTA
*
96365560 TAAAATTTTA
1 TAAAA-ATTA
*
96365570 TAAAAATTG
1 TAAAAATTA
96365579 TAAAAAATTA
1 T-AAAAATTA
96365589 TAAAATATT-
1 TAAAA-ATTA
*
96365598 TAGAAA-TA
1 TAAAAATTA
96365606 TAAAAAATTA
1 T-AAAAATTA
96365616 TAAAA
1 TAAAA
96365621 TTTTATAAAG
Statistics
Matches: 123, Mismatches: 30, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
7 8 0.07
8 24 0.20
9 58 0.47
10 33 0.27
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:96365547 original size:18 final size:18
Alignment explanation
Indices: 96365511--96365593 Score: 80
Period size: 19 Copynumber: 4.6 Consensus size: 18
96365501 ATAAAAATTT
96365511 AAATATTAAAAAT--TAAA
1 AAATA-TAAAAATCGTAAA
*
96365528 AAATGTAAAAATCGTAAA
1 AAATATAAAAATCGTAAA
*
96365546 AAATATAAAAATGGTAAA
1 AAATATAAAAATCGTAAA
** *
96365564 ATTTTATAAAAATTGTAAA
1 A-AATATAAAAATCGTAAA
96365583 AAATTATAAAA
1 AAA-TATAAAA
96365594 TATTTAGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
16 7 0.13
17 4 0.07
18 21 0.39
19 22 0.41
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (18 bp):
AAATATAAAAATCGTAAA
Found at i:96365556 original size:19 final size:17
Alignment explanation
Indices: 96365511--96365611 Score: 80
Period size: 18 Copynumber: 5.6 Consensus size: 17
96365501 ATAAAAATTT
96365511 AAATATTAAAAAT-TAAA
1 AAATA-TAAAAATGTAAA
*
96365528 AAATGTAAAAATCGTAAA
1 AAATATAAAAAT-GTAAA
96365546 AAATATAAAAATGGTAAA
1 AAATATAAAAAT-GTAAA
**
96365564 ATTTTATAAAAATTGTAAA
1 A-AATATAAAAA-TGTAAA
* *
96365583 AAATTATAAAATAT-TTAG
1 AAA-TATAAAA-ATGTAAA
96365601 AAATATAAAAA
1 AAATATAAAAA
96365612 ATTATAAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
16 8 0.12
17 11 0.16
18 26 0.38
19 22 0.32
20 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.06, T:0.30
Consensus pattern (17 bp):
AAATATAAAAATGTAAA
Found at i:96365574 original size:27 final size:28
Alignment explanation
Indices: 96365517--96365646 Score: 110
Period size: 27 Copynumber: 4.7 Consensus size: 28
96365507 ATTTAAATAT
**
96365517 TAAAAAT-TAAAAAATGTA-AAAATCGTA
1 TAAAAATATAAAAAAT-TATAAAATTTTA
**
96365544 -AAAAATAT-AAAAATGGTAAAATTTTA
1 TAAAAATATAAAAAATTATAAAATTTTA
* *
96365570 TAAAAATTGTAAAAAATTATAAAATATT-
1 TAAAAA-TATAAAAAATTATAAAATTTTA
*
96365598 TAGAAATATAAAAAATTATAAAATTTTA
1 TAAAAATATAAAAAATTATAAAATTTTA
*
96365626 T-AAAGTCATAAGAAAATTATA
1 TAAAAAT-ATAA-AAAATTATA
96365647 CAAAATGTAA
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
26 19 0.23
27 28 0.34
28 12 0.15
29 23 0.28
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.32
Consensus pattern (28 bp):
TAAAAATATAAAAAATTATAAAATTTTA
Found at i:96365593 original size:56 final size:54
Alignment explanation
Indices: 96365517--96365667 Score: 139
Period size: 56 Copynumber: 2.7 Consensus size: 54
96365507 ATTTAAATAT
* *
96365517 TAAAAA-TTAAAAAA-TGTAAAAATCGTAAAAAATATAAAAATGGTAAAATTTTA
1 TAAAAATTTAAAAAATTATAAAAAT-GTAAAAAATATAAAAATGATAAAATTTTA
* * *
96365570 TAAAAATTGTAAAAAATTATAAAATAT-TTAGAAATATAAAAAATTATAAAATTTTA
1 TAAAAATT-TAAAAAATTATAAAA-ATGTAAAAAATAT-AAAAATGATAAAATTTTA
* *
96365626 T-AAAGTCATAAGAAAATTATACAAAATGTAAAGAAATATAAA
1 TAAAAAT-TTAA-AAAATTATA-AAAATGTAAA-AAATATAAA
96365668 TTTCGTAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
53 6 0.08
54 1 0.01
55 22 0.28
56 34 0.43
57 10 0.13
58 6 0.08
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.30
Consensus pattern (54 bp):
TAAAAATTTAAAAAATTATAAAAATGTAAAAAATATAAAAATGATAAAATTTTA
Found at i:96365733 original size:11 final size:11
Alignment explanation
Indices: 96365713--96365745 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
96365703 AGAAGCATTT
96365713 TATAATTTTTA
1 TATAATTTTTA
*
96365724 TATAACTTTTA
1 TATAATTTTTA
96365735 T-TAATTTTTA
1 TATAATTTTTA
96365745 T
1 T
96365746 TTGTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (11 bp):
TATAATTTTTA
Found at i:96366131 original size:83 final size:84
Alignment explanation
Indices: 96365968--96366132 Score: 199
Period size: 84 Copynumber: 2.0 Consensus size: 84
96365958 ATAAGACGAG
* * *
96365968 GGGCTTAATTGTTTTTCTAAAAAATTTTGAGAATTTTTTTGATGTATTTTGAAAGTTCAAGTACC
1 GGGCTTAATTATTTTTCTAAAAAAGTTTGAGAATTTTTTTGATATATTTTGAAAGTTCAAGTACC
*
96366033 AAATGAGTGAAAAAAACAA
66 AAATAAGTGAAAAAAACAA
* * * * *
96366052 GGGCTTAATTATTTTT-TTAATAAGTTTGAGGACTTTTTTT-ATATATTTTGAAAGTTTAAGTGC
1 GGGCTTAATTATTTTTCTAAAAAAGTTTGA-GAATTTTTTTGATATATTTTGAAAGTTCAAGTAC
* *
96366115 TCAATTAAGTGTAAAAAA
65 -CAAATAAGTGAAAAAAA
96366133 GAAATAAACG
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
83 30 0.44
84 38 0.56
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (84 bp):
GGGCTTAATTATTTTTCTAAAAAAGTTTGAGAATTTTTTTGATATATTTTGAAAGTTCAAGTACC
AAATAAGTGAAAAAAACAA
Found at i:96367690 original size:18 final size:18
Alignment explanation
Indices: 96367654--96367688 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
96367644 TTTACGATAA
96367654 CATTGATTTCTCATTTTT
1 CATTGATTTCTCATTTTT
*
96367672 CATTGA-TTCTTATTTTT
1 CATTGATTTCTCATTTTT
96367689 TCCATATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.17, C:0.14, G:0.06, T:0.63
Consensus pattern (18 bp):
CATTGATTTCTCATTTTT
Found at i:96371517 original size:30 final size:30
Alignment explanation
Indices: 96371483--96371543 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
96371473 TCATTCGATA
96371483 ACTTGTTATTACCCTTTGAACCTTGAAACT
1 ACTTGTTATTACCCTTTGAACCTTGAAACT
96371513 ACTTGTTATTACCCTTTGAACCTTGAAACT
1 ACTTGTTATTACCCTTTGAACCTTGAAACT
96371543 A
1 A
96371544 ACTTTTGGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (30 bp):
ACTTGTTATTACCCTTTGAACCTTGAAACT
Found at i:96375605 original size:40 final size:39
Alignment explanation
Indices: 96375542--96375627 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
96375532 TAACGACTTA
**
96375542 TCGGCTAAAATGACACTTAGTGTGCGGTTCGAAATAGCT
1 TCGGCTAAAATGACACTTAGTGTGCAATTCGAAATAGCT
* * * *
96375581 TCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGACACTTAGTGTGCAATTCGAAATAGCT
96375621 TCGGCTA
1 TCGGCTA
96375628 TATATATATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 10 0.25
40 30 0.75
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (39 bp):
TCGGCTAAAATGACACTTAGTGTGCAATTCGAAATAGCT
Found at i:96375839 original size:20 final size:20
Alignment explanation
Indices: 96375814--96375855 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
96375804 ACAGAAACTT
96375814 AACTTAATATGAAATCCATG
1 AACTTAATATGAAATCCATG
96375834 AACTTAATATGAAATCCATG
1 AACTTAATATGAAATCCATG
96375854 AA
1 AA
96375856 TGGTAAGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (20 bp):
AACTTAATATGAAATCCATG
Found at i:96378217 original size:15 final size:15
Alignment explanation
Indices: 96378197--96378227 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
96378187 AAGAACACGA
*
96378197 TAAGCCTTAGAGTGT
1 TAAGCCTTAGAATGT
96378212 TAAGCCTTAGAATGT
1 TAAGCCTTAGAATGT
96378227 T
1 T
96378228 GGGCGAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (15 bp):
TAAGCCTTAGAATGT
Found at i:96390326 original size:48 final size:47
Alignment explanation
Indices: 96390224--96390490 Score: 182
Period size: 48 Copynumber: 5.6 Consensus size: 47
96390214 TTATATGTGT
*
96390224 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT--ATGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTAGATGAGA
*
96390270 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT-AGATGAGA
* *
96390318 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCACGTATAGA-G-GT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TAGATGAGA
* * *
96390364 G-TCAATGTAAGACCATGTTTGGGACATGGCATCGGCACGTATAGA-G-GT
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TAGATGAGA
* * * * *
96390412 G-TCAGTATAATACCATGTTTGGGACATGGCATCGGCA-CAGATATGTGAAA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAG--A--TGAGA
*
96390462 GCTAGTATAAGACCATGTCTGGGACATGG
1 GCTAGTGTAAGACCATGTCTGGGACATGG
96390491 TGTCGGCCTC
Statistics
Matches: 189, Mismatches: 14, Indels: 32
0.80 0.06 0.14
Matches are distributed among these distances:
44 2 0.01
45 5 0.03
46 31 0.16
47 42 0.22
48 81 0.43
49 2 0.01
50 25 0.13
51 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAGATGAGA
Found at i:96390387 original size:94 final size:94
Alignment explanation
Indices: 96390224--96390400 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 94
96390214 TTATATGTGT
*
96390224 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAAGCCAATGTAAGACCATGTC
96390289 TGGGACATGGCATCGGCATTGAGATGAGA
66 TGGGACATGGCATCGGCATTGAGATGAGA
* * ** *
96390318 GCTAGTGTAAGACATGTTTGGGACATGCATCGG-CAC-GTATAGAGGTGTCAATGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTAT-GA-AAGCCAATGTAAGACCATG
*
96390381 TTTGGGACATGGCATCGGCA
64 TCTGGGACATGGCATCGGCA
96390401 CGTATAGAGG
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
92 3 0.04
93 5 0.07
94 66 0.89
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAAAGCCAATGTAAGACCATGTC
TGGGACATGGCATCGGCATTGAGATGAGA
Found at i:96395979 original size:47 final size:47
Alignment explanation
Indices: 96395925--96396119 Score: 237
Period size: 47 Copynumber: 4.1 Consensus size: 47
96395915 TTAGGATTTT
** * * **
96395925 ATGTGATGAATGTGAATGTGTGTATATGAGATAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
96395972 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--TATATAT--GTGATAAGGCCGAATGGCCA
** * *
96396023 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
96396070 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
96396117 ATG
1 ATG
96396120 CGAAATGTGT
Statistics
Matches: 127, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
47 81 0.64
49 10 0.08
51 36 0.28
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:96396033 original size:98 final size:94
Alignment explanation
Indices: 96395925--96396119 Score: 255
Period size: 98 Copynumber: 2.0 Consensus size: 94
96395915 TTAGGATTTT
** * *
96395925 ATGTGATGAATGTGAATGTGTGTATATGAGATAAGGCCGAATGGAAAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATATGAGATAAGGCCGAATGGAAAATGTGATGAATGTGAACA
96395990 TGTATATATATGCGTGATAAGGCCGAATGGCCA
66 TG--TATATAT--GTGATAAGGCCGAATGGCCA
* * * **
96396023 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATATGAGATAAGGCCGAATGGAAAATGTGATGAATGTGAACA
* *
96396088 TGTATATATGTGGTAAGGCCGAATGGCTA
66 TGTATATATGTGATAAGGCCGAATGGCCA
96396117 ATG
1 ATG
96396120 CGAAATGTGT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
94 21 0.24
96 7 0.08
98 58 0.67
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCGTATATGAGATAAGGCCGAATGGAAAATGTGATGAATGTGAACA
TGTATATATGTGATAAGGCCGAATGGCCA
Found at i:96396159 original size:46 final size:46
Alignment explanation
Indices: 96396093--96396183 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
96396083 GAACATGTAT
* * *
96396093 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* *
96396139 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
96396184 TGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.33, C:0.08, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:96396397 original size:38 final size:37
Alignment explanation
Indices: 96396370--96396477 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
96396360 TGACTATGTT
96396370 TGGGTTAAGACCCGATAACTTCGTGTGGAGATTTTGTC
1 TGGG-TAAGACCCGATAACTTCGTGTGGAGATTTTGTC
* * *
96396408 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 TGGGTAAGACCCGATAACTTCGTGTGGAGATTTTGTC
96396445 TGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TGGGTAAGACCCGATAACTTCGTGTGGAGATTT
96396478 CATCTGAGCT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
37 61 0.95
38 3 0.05
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.31
Consensus pattern (37 bp):
TGGGTAAGACCCGATAACTTCGTGTGGAGATTTTGTC
Found at i:96397798 original size:40 final size:40
Alignment explanation
Indices: 96397752--96397985 Score: 360
Period size: 40 Copynumber: 5.8 Consensus size: 40
96397742 TTATATAGCT
96397752 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCC
* *
96397792 GGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATAGCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG-T-TATATCC
* *
96397834 GAGCTAAGTCCCGAAGAGCATTGGTGCTGGTGTTATATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCC
* * *
96397874 GGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCC
96397914 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCC
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCC
* * *
96397954 GGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
96397986 ATGTGTATTC
Statistics
Matches: 175, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 138 0.79
41 2 0.01
42 35 0.20
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCC
Found at i:96397880 original size:82 final size:82
Alignment explanation
Indices: 96397743--96397987 Score: 413
Period size: 82 Copynumber: 3.0 Consensus size: 82
96397733 AATTGAGAGT
*
96397743 TATATAGCTGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
1 TATATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
*
96397808 AGCATTCGTGCTAGTGA
66 AGCATTCATGCTAGTGA
* *
96397825 TATATAGCCGAGCTAAGTCCCGAAGAGCATTGGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
1 TATATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
96397890 AGCATTCATGCTAGTGA
66 AGCATTCATGCTAGTGA
*
96397907 TATAT--CCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAG
1 TATATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
* *
96397970 AGCAATCATGCTGGTGA
66 AGCATTCATGCTAGTGA
96397987 T
1 T
96397988 GTGTATTCGT
Statistics
Matches: 154, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
80 71 0.46
82 83 0.54
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (82 bp):
TATATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAG
AGCATTCATGCTAGTGA
Found at i:96398199 original size:25 final size:25
Alignment explanation
Indices: 96398149--96398199 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
96398139 CGTGTAACAA
* *
96398149 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
96398174 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
96398199 C
1 C
96398200 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:96401859 original size:47 final size:47
Alignment explanation
Indices: 96401805--96401999 Score: 246
Period size: 47 Copynumber: 4.1 Consensus size: 47
96401795 TTAGGATTTT
** * * **
96401805 ATGTGATGAATGTGAATGTGTGTATATGAGATAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
*
96401852 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--TATATAT--GTGATAAGGCCGAATGGCCA
** *
96401903 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
* *
96401950 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
96401997 ATG
1 ATG
96402000 CGAAATGTGT
Statistics
Matches: 129, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
47 83 0.64
49 10 0.08
51 36 0.28
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCA
Found at i:96401913 original size:98 final size:94
Alignment explanation
Indices: 96401805--96401999 Score: 264
Period size: 98 Copynumber: 2.0 Consensus size: 94
96401795 TTAGGATTTT
** * *
96401805 ATGTGATGAATGTGAATGTGTGTATATGAGATAAGGCCGAATGGAAAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATATGAGATAAGGCCGAATGGAAAATGTGATGAATGTGAACA
96401870 TGTATATATATGCGTGATAAGGCCGAATGGCCA
66 TG--TATATAT--GTGATAAGGCCGAATGGCCA
* * **
96401903 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATATGAGATAAGGCCGAATGGAAAATGTGATGAATGTGAACA
* *
96401968 TGTATATATGTGGTAAGGCCGAATGGCTA
66 TGTATATATGTGATAAGGCCGAATGGCCA
96401997 ATG
1 ATG
96402000 CGAAATGTGT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
94 21 0.24
96 7 0.08
98 59 0.68
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (94 bp):
ATGTGATGAATGTGAACATGCGTATATGAGATAAGGCCGAATGGAAAATGTGATGAATGTGAACA
TGTATATATGTGATAAGGCCGAATGGCCA
Found at i:96402109 original size:46 final size:46
Alignment explanation
Indices: 96401973--96402109 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
96401963 GAACATGTAT
* *
96401973 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
*
96402019 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
96402065 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
96402110 TGTATATATA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:96402323 original size:38 final size:37
Alignment explanation
Indices: 96402296--96402403 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
96402286 TGACTATGTT
96402296 TGGGTTAAGACCCGATAACTTCGTGTGGAGATTTTGTC
1 TGGG-TAAGACCCGATAACTTCGTGTGGAGATTTTGTC
* * *
96402334 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 TGGGTAAGACCCGATAACTTCGTGTGGAGATTTTGTC
96402371 TGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TGGGTAAGACCCGATAACTTCGTGTGGAGATTT
96402404 CATCTGAGCT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
37 61 0.95
38 3 0.05
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.31
Consensus pattern (37 bp):
TGGGTAAGACCCGATAACTTCGTGTGGAGATTTTGTC
Found at i:96404511 original size:11 final size:11
Alignment explanation
Indices: 96404495--96404519 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
96404485 ATGATTAGAC
96404495 TAAAGATATTG
1 TAAAGATATTG
96404506 TAAAGATATTG
1 TAAAGATATTG
96404517 TAA
1 TAA
96404520 CAGCCCGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (11 bp):
TAAAGATATTG
Found at i:96405582 original size:6 final size:6
Alignment explanation
Indices: 96405571--96405724 Score: 308
Period size: 6 Copynumber: 25.7 Consensus size: 6
96405561 ATTGCATGAA
96405571 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
96405619 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
96405667 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
96405715 ATGTAT ATGT
1 ATGTAT ATGT
96405725 CTTTATGAAA
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 148 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:96405896 original size:48 final size:48
Alignment explanation
Indices: 96405840--96406105 Score: 241
Period size: 48 Copynumber: 5.6 Consensus size: 48
96405830 ATGTGAGTAT
* *
96405840 TGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGTATCGAAA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAAA
* * ** *
96405888 TGAGATCCCGTTTAAGACCATATCAGGGATATAACATCGGCATTGAAA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAAA
* *
96405936 TGAGATCCCGTGCAAGACCATATCTGGGATATGGCATCGGCATC-AGTA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGA-AA
* * ** *** *
96405984 TGAGATCTCATGTAAGACCATATCTGGGATATGAAATTAACATCGATA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAAA
* * * * * * * * *
96406032 TGAGGTCCCGTATAA-ACCATGTTTAGGACACGGCATCGGCACCGTAA
1 TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAAA
* *
96406079 TGAGA-CTTCGTGTAAGACCATAGCTGG
1 TGAGATC-CCGTGTAAGACCATATCTGG
96406106 CTATTGGCAT
Statistics
Matches: 169, Mismatches: 45, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
46 1 0.01
47 30 0.18
48 137 0.81
49 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (48 bp):
TGAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATCGAAA
Found at i:96421554 original size:72 final size:72
Alignment explanation
Indices: 96421470--96421766 Score: 210
Period size: 72 Copynumber: 4.1 Consensus size: 72
96421460 ATTATCAAGT
* * *
96421470 AAAATCGTTTATTTAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATT-AAGTTTTGA
1 AAAACCGTTTATTCAATTATGTGTTTTTAAAAAGATTAATTTAGTTCAATTTATTGAAGTTTTGA
96421534 TATTAAG
66 TATTAAG
* * * *** * * * ** *
96421541 CGAAACCGTTTATTTAGTTAT-ACATTTTCAGAAGCTTAATTTAGTTTGATTTATTGAAG-CTTG
1 -AAAACCGTTTATTCAATTATGTGTTTTTAAAAAGATTAATTTAGTTCAATTTATTGAAGTTTTG
**
96421604 ATACAAAG
65 ATATTAAG
* * ** * *
96421612 TAAAACCGCTTGTTCAATTATGCATTTTTAAAAAAAATAATTTAGTTCAATTTATTGAA-TTTTG
1 -AAAACCGTTTATTCAATTATGTGTTTTTAAAAAGATTAATTTAGTTCAATTTATTGAAGTTTTG
96421676 ATATTAAG
65 ATATTAAG
* * * * * * ** *
96421684 TAGAACCGTTTATTCAAGTTATATG-TTTTGAGAAGATTAAATTAATTTGATTTTTTG-AGTTTT
1 -AAAACCGTTTATTCAA-TTATGTGTTTTTAAAAAGATTAATTTAGTTCAATTTATTGAAGTTTT
96421747 GATATTAAG
64 GATATTAAG
*
96421756 TAAAATCGTTT
1 -AAAACCGTTT
96421767 TTTTGGTAAT
Statistics
Matches: 170, Mismatches: 50, Indels: 10
0.74 0.22 0.04
Matches are distributed among these distances:
71 51 0.30
72 115 0.68
73 4 0.02
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (72 bp):
AAAACCGTTTATTCAATTATGTGTTTTTAAAAAGATTAATTTAGTTCAATTTATTGAAGTTTTGA
TATTAAG
Found at i:96421941 original size:13 final size:13
Alignment explanation
Indices: 96421923--96421947 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96421913 ATGGGAATGA
96421923 ATTCAAATCTTAT
1 ATTCAAATCTTAT
96421936 ATTCAAATCTTA
1 ATTCAAATCTTA
96421948 ATTGTGTTAT
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTCAAATCTTAT
Found at i:96422024 original size:35 final size:35
Alignment explanation
Indices: 96421956--96422024 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
96421946 TAATTGTGTT
*
96421956 ATTAATTTATTATTTTAAATTCTAAATTTAAATTC
1 ATTAATTTATTATTTTAAATTCTAAATTAAAATTC
* * *
96421991 ATTAATTT-TTATTTTTAGTTTTAAAGTTAAAATT
1 ATTAATTTATTATTTTAAATTCTAAA-TTAAAATT
96422025 TTCATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 14 0.48
35 15 0.52
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (35 bp):
ATTAATTTATTATTTTAAATTCTAAATTAAAATTC
Found at i:96424858 original size:35 final size:33
Alignment explanation
Indices: 96424788--96424875 Score: 94
Period size: 35 Copynumber: 2.7 Consensus size: 33
96424778 CGGCATAAGT
96424788 GTATATATATTATAA-A-TAT--TTAAAGTTAA
1 GTATATATATTATAATATTATAATTAAAGTTAA
**
96424817 AAATATATATTATAATATTATAACTTAAATGTTAA
1 GTATATATATTATAATATTATAA-TTAAA-GTTAA
* *
96424852 GTATATATATTATATTATAATAAT
1 GTATATATATTATAATATTATAAT
96424876 AAATCAAAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
29 13 0.28
30 1 0.02
31 3 0.06
34 6 0.13
35 24 0.51
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (33 bp):
GTATATATATTATAATATTATAATTAAAGTTAA
Found at i:96425418 original size:5 final size:5
Alignment explanation
Indices: 96425410--96425441 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
96425400 TAATATTGAA
96425410 TTGTG TTGTG TTGTG TTGTG TTGTG TTGTG TT
1 TTGTG TTGTG TTGTG TTGTG TTGTG TTGTG TT
96425442 AATGAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.38, T:0.62
Consensus pattern (5 bp):
TTGTG
Found at i:96425675 original size:24 final size:24
Alignment explanation
Indices: 96425648--96425694 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
96425638 ATTGAAATAG
96425648 ATTG-ATTTAATATGTGA-TGAATTT
1 ATTGAATTT-ATAT-TGATTGAATTT
96425672 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
96425695 GATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 14 0.67
25 4 0.19
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:96425980 original size:40 final size:39
Alignment explanation
Indices: 96425864--96425983 Score: 127
Period size: 40 Copynumber: 3.1 Consensus size: 39
96425854 CGAGTTGATG
* * *
96425864 AGACACTGGGTGTCAATCTATTACTTCAAATTAATTCGATG
1 AGACACTGGGTGTCAAT-TATTACTTCGAATT-ATCCGATA
* * ** *
96425905 AGATACTGGATGTCAA-T-TTACTTCGGGTTAGCCGATA
1 AGACACTGGGTGTCAATTATTACTTCGAATTATCCGATA
96425942 AGACACTGGGTGTCAAATTATTACTTCGAATTATCCGATA
1 AGACACTGGGTGTC-AATTATTACTTCGAATTATCCGATA
96425982 AG
1 AG
96425984 GCATTAGGTG
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
37 17 0.27
38 11 0.17
39 2 0.03
40 19 0.30
41 14 0.22
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (39 bp):
AGACACTGGGTGTCAATTATTACTTCGAATTATCCGATA
Found at i:96427804 original size:21 final size:21
Alignment explanation
Indices: 96427778--96427829 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
96427768 GTCAGCTAAA
96427778 AATGCATGATCACAATTATTC
1 AATGCATGATCACAATTATTC
96427799 AATGCATGATCACAATTATTC
1 AATGCATGATCACAATTATTC
96427820 AATGCATGAT
1 AATGCATGAT
96427830 TTAAAGTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (21 bp):
AATGCATGATCACAATTATTC
Found at i:96429952 original size:5 final size:5
Alignment explanation
Indices: 96429942--96429983 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
96429932 AAATGTTAAG
96429942 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
96429984 ATAAAACAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:96430075 original size:19 final size:19
Alignment explanation
Indices: 96430038--96430093 Score: 89
Period size: 19 Copynumber: 3.0 Consensus size: 19
96430028 CAAACGAAAC
96430038 AAAATAGAAAAA-GGA-AAG
1 AAAA-AGAAAAAGGGAGAAG
96430056 AAAAAGAAAAAGGGAGAAG
1 AAAAAGAAAAAGGGAGAAG
96430075 AAAAAGAAAAAGGGAGAAG
1 AAAAAGAAAAAGGGAGAAG
96430094 GGAGAAAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
17 7 0.19
18 7 0.19
19 22 0.61
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (19 bp):
AAAAAGAAAAAGGGAGAAG
Found at i:96431821 original size:54 final size:54
Alignment explanation
Indices: 96431753--96431886 Score: 223
Period size: 54 Copynumber: 2.5 Consensus size: 54
96431743 TCTTACGGCA
* *
96431753 GGATTACCAATCCAGGTTAAATCCCTCATAACATAAACTCAAGGAGTATTGTCG
1 GGATTACCATTCCAGGCTAAATCCCTCATAACATAAACTCAAGGAGTATTGTCG
* * *
96431807 GGATTACCATTCCAGGCTAAATCCCTCATGACATAAATTCAATGAGTATTGTCG
1 GGATTACCATTCCAGGCTAAATCCCTCATAACATAAACTCAAGGAGTATTGTCG
96431861 GGATTACCATTCCAGGCTAAATCCCT
1 GGATTACCATTCCAGGCTAAATCCCT
96431887 TACAACGACA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (54 bp):
GGATTACCATTCCAGGCTAAATCCCTCATAACATAAACTCAAGGAGTATTGTCG
Found at i:96435955 original size:43 final size:43
Alignment explanation
Indices: 96435892--96436142 Score: 251
Period size: 43 Copynumber: 5.9 Consensus size: 43
96435882 CATTTTTGGA
* * *
96435892 AAAAGCGCCGTTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGG
* * * *
96435935 AAAAGTGTCGCTAAAGGTCATGTTCTATAGCGGCATTTCTGGG
1 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGG
* * *
96435978 AAAAGCGCCGCTAAAGGTCATGTCCTGTAGCGGCGTTTGTGAG
1 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGG
* ** *
96436021 AAAAGCGCCGCTAAAGGTCATG-TCATGTAG-TACTGTCTGT-GG
1 AAAAGCGCCGCTAAAGGTCATGTTC-TATAGCGGC-GTTTGTGGG
* * * * * **
96436063 AAAAGC-CCCCTAAAAGTCATGTTTTATAGTGGCGTTTTTGTC
1 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGG
96436105 AGAAA-CGCCGCTAAAGGTCATGTTCTATAGCGGCGTTT
1 A-AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTT
96436143 ATATGGAAAA
Statistics
Matches: 168, Mismatches: 33, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
41 21 0.12
42 13 0.08
43 134 0.80
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGG
Found at i:96438168 original size:5 final size:5
Alignment explanation
Indices: 96438160--96438202 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
96438150 ATATGGGATG
*
96438160 TTTTG TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
96438203 CTTTAAGTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.16, C:0.00, G:0.02, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:96439478 original size:23 final size:24
Alignment explanation
Indices: 96439434--96439478 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
96439424 CAAGTCCTAC
*
96439434 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
96439458 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
96439479 GTGGGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.27, C:0.51, G:0.02, T:0.20
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:96449287 original size:23 final size:23
Alignment explanation
Indices: 96449261--96449308 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
96449251 GTCATTATAT
96449261 ATGAACTCAATTGTGGATATTTC
1 ATGAACTCAATTGTGGATATTTC
*
96449284 ATGAACTCAGTTGTGGATATTTC
1 ATGAACTCAATTGTGGATATTTC
96449307 AT
1 AT
96449309 TTTTTTAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (23 bp):
ATGAACTCAATTGTGGATATTTC
Found at i:96450567 original size:81 final size:82
Alignment explanation
Indices: 96450451--96450646 Score: 304
Period size: 81 Copynumber: 2.4 Consensus size: 82
96450441 GGTATACATC
* * *
96450451 TTTCAACAAATTATTTAAAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAATAG
1 TTTCAACAAATCATTT-CAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAACAG
*
96450516 TAAGATGTTAACCAACCA
65 TAAGATATTAACCAACCA
* * *
96450534 TTTGAACAAATCATTTCAAAACACAAA-AAAATATGTTATACTAACAAAATGATCCTATAGCAGT
1 TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAACAGT
*
96450598 AATATATTAACCAACCA
66 AAGATATTAACCAACCA
96450615 TTTCAACAAATCATTTCAAAAAACAAACAAAA
1 TTTCAACAAATCATTTCAAAAAACAAACAAAA
96450647 GGTGTTAACA
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
81 75 0.74
82 13 0.13
83 14 0.14
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (82 bp):
TTTCAACAAATCATTTCAAAAAACAAACAAAATATGTTATACTAACAAAATGATCCTATAACAGT
AAGATATTAACCAACCA
Found at i:96451018 original size:158 final size:158
Alignment explanation
Indices: 96450729--96451156 Score: 499
Period size: 158 Copynumber: 2.7 Consensus size: 158
96450719 TATGCCATCA
* * * *
96450729 TTTTTTGGCTTCTAGTTCTCATACTCATACCAGACT--GAGAACAAAAATCAGAACCCCAAATTA
1 TTTTTTGGCTTCTAGTTATGATACTCATACCAGACTAAGACAAAAAAAATCAGAACCCCAAATTA
* * * * *
96450792 GATTTAAAATAATTTGGAATTGACATTAAAAAAGTGTTTACGATATACCTGTGATCCAGTTTTGT
66 GA-TTAAAATATTTTGGAATTGACATT-AAAAAGTGTTTACGATATACCTGCGATCCAATTGTAT
* * * *
96450857 TAGGCTAAATGGATGGTGTTCTGTTGTTCT
129 TAGGCTAAATGCATGGTGCTATGTTGTTAT
* *
96450887 TTTTTTGGCTTCTAGTT-TGTGTACTCGTACCAGACTAAGACAAAAAAAAT-AGAACCCCAAATT
1 TTTTTTGGCTTCTAGTTATG-ATACTCATACCAGACTAAGACAAAAAAAATCAGAACCCCAAATT
* *
96450950 AGATTAAAATATTTTTGAATTGACATTAAAATAGTGTATACGATATACCTGCGATCCAATTGTAT
65 AGATTAAAATATTTTGGAATTGACATTAAAA-AGTGTTTACGATATACCTGCGATCCAATTGTAT
* *
96451015 TAGGTTGAATGCATGGTGCTATGTTGTTAT
129 TAGGCTAAATGCATGGTGCTATGTTGTTAT
** * * * * *
96451045 TTTTGGGGCTTTTAGTTATGATACTCCTACCAAACTAAGAC-CAAAAAATCA-AAACCCAAATTA
1 TTTTTTGGCTTCTAGTTATGATACTCATACCAGACTAAGACAAAAAAAATCAGAACCCCAAATTA
** * *
96451108 GATTTTAATATTTTGGAATTGAAAATGAAAAAGTGTTTACGATATACCT
66 GATTAAAATATTTTGGAATTG-ACATTAAAAAGTGTTTACGATATACCT
96451157 ATGTTCTTAT
Statistics
Matches: 231, Mismatches: 32, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
157 58 0.25
158 145 0.63
159 18 0.08
160 10 0.04
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (158 bp):
TTTTTTGGCTTCTAGTTATGATACTCATACCAGACTAAGACAAAAAAAATCAGAACCCCAAATTA
GATTAAAATATTTTGGAATTGACATTAAAAAGTGTTTACGATATACCTGCGATCCAATTGTATTA
GGCTAAATGCATGGTGCTATGTTGTTAT
Found at i:96456125 original size:20 final size:20
Alignment explanation
Indices: 96456100--96456139 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
96456090 AAATGACAAA
* *
96456100 AATATTTTTTTTTTATTTTT
1 AATATTATTTTCTTATTTTT
96456120 AATATTATTTTCTTATTTTT
1 AATATTATTTTCTTATTTTT
96456140 TTCTCTCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (20 bp):
AATATTATTTTCTTATTTTT
Found at i:96456259 original size:30 final size:30
Alignment explanation
Indices: 96456223--96456285 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
96456213 ACTTATTTTA
96456223 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* * *
96456253 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
96456283 TTG
1 TTG
96456286 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:96456431 original size:11 final size:12
Alignment explanation
Indices: 96456409--96456441 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
96456399 TATATATTTT
*
96456409 AAATTTATATAA
1 AAATTAATATAA
96456421 AAA-TAATATAA
1 AAATTAATATAA
96456432 AAATTAATAT
1 AAATTAATAT
96456442 GGGCGGGCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AAATTAATATAA
Found at i:96457058 original size:34 final size:34
Alignment explanation
Indices: 96457015--96457085 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
96457005 GGGTATCAGT
*
96457015 TTGATGAGAGGTGAAATAGCAATTGACTAATGAA
1 TTGATGAGAGGTAAAATAGCAATTGACTAATGAA
*
96457049 TTGATGAGAGGTAAAATAGCAATTGAGTAATGAA
1 TTGATGAGAGGTAAAATAGCAATTGACTAATGAA
96457083 TTG
1 TTG
96457086 GTACAAGTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.04, G:0.27, T:0.28
Consensus pattern (34 bp):
TTGATGAGAGGTAAAATAGCAATTGACTAATGAA
Found at i:96457137 original size:14 final size:14
Alignment explanation
Indices: 96457118--96457162 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
96457108 GTTAGATTGA
96457118 TTTTTAAAATTTAT
1 TTTTTAAAATTTAT
*
96457132 TTTTTAATATTT-T
1 TTTTTAAAATTTAT
96457145 TATTTTAATAATTTAT
1 T-TTTTAA-AATTTAT
96457161 TT
1 TT
96457163 GCTTTGAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 2 0.08
14 17 0.65
15 5 0.19
16 2 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTAAAATTTAT
Found at i:96457582 original size:16 final size:16
Alignment explanation
Indices: 96457561--96457591 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
96457551 ACATGGAAAA
*
96457561 ATAAAAAATTTTAAAT
1 ATAAAAAATATTAAAT
96457577 ATAAAAAATATTAAA
1 ATAAAAAATATTAAA
96457592 ATTTAATGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAAAAATATTAAAT
Found at i:96460715 original size:41 final size:41
Alignment explanation
Indices: 96460653--96460742 Score: 171
Period size: 41 Copynumber: 2.2 Consensus size: 41
96460643 GTGAATTAGT
96460653 AACAGAACTAGAAATGAAATGCCATATTCATTGTGACATTTA
1 AACA-AACTAGAAATGAAATGCCATATTCATTGTGACATTTA
96460695 AACAAACTAGAAATGAAATGCCATATTCATTGTGACATTTA
1 AACAAACTAGAAATGAAATGCCATATTCATTGTGACATTTA
96460736 AACAAAC
1 AACAAAC
96460743 ATTGTCCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 44 0.92
42 4 0.08
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.27
Consensus pattern (41 bp):
AACAAACTAGAAATGAAATGCCATATTCATTGTGACATTTA
Found at i:96465038 original size:5 final size:5
Alignment explanation
Indices: 96465023--96465109 Score: 52
Period size: 5 Copynumber: 16.0 Consensus size: 5
96465013 TTATTCCATG
* *
96465023 TATATA TATAA TATAAA TATATT TATAC T-TAA TACTTAA GTATATA TATAA
1 TATA-A TATAA TAT-AA TATA-A TATAA TATAA TA--TAA -TATA-A TATAA
*
96465074 TAATAA -ATTAA TATAA TATAA TATAA TATAA CATAA
1 T-ATAA TA-TAA TATAA TATAA TATAA TATAA TATAA
96465110 AAAATAAAAG
Statistics
Matches: 67, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
4 4 0.06
5 33 0.49
6 24 0.36
7 4 0.06
8 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:96471830 original size:20 final size:21
Alignment explanation
Indices: 96471805--96471843 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
96471795 AATTTGTTTA
96471805 TTAAATATTTATG-ATTATTT
1 TTAAATATTTATGAATTATTT
*
96471825 TTAAATTTTTATGAATTAT
1 TTAAATATTTATGAATTAT
96471844 ACATAGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
TTAAATATTTATGAATTATTT
Found at i:96473023 original size:16 final size:16
Alignment explanation
Indices: 96473002--96473032 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
96472992 TTGGTGACAA
96473002 AATTGAAAATTCTTGG
1 AATTGAAAATTCTTGG
96473018 AATTGAAAATTCTTG
1 AATTGAAAATTCTTG
96473033 AGGAGTAAGT
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:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (16 bp):
AATTGAAAATTCTTGG
Found at i:96483627 original size:26 final size:26
Alignment explanation
Indices: 96483598--96483669 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 26
96483588 ATTTATTCTT
*
96483598 TTTAAACCGTTTTGTATATTATTTAG
1 TTTAAACCGTTTTTTATATTATTTAG
*
96483624 TTTAAACC-TCTTTTTACATATTATTTAT
1 TTTAAACCGT-TTTTT--ATATTATTTAG
96483652 TTTAAA-CGTTTTTTATAT
1 TTTAAACCGTTTTTTATAT
96483670 ATTATTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
25 5 0.12
26 12 0.30
27 6 0.15
28 17 0.43
ACGTcount: A:0.28, C:0.10, G:0.06, T:0.57
Consensus pattern (26 bp):
TTTAAACCGTTTTTTATATTATTTAG
Found at i:96483678 original size:28 final size:28
Alignment explanation
Indices: 96483607--96483676 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
96483597 TTTTAAACCG
*
96483607 TTTTGTATATTATTTAGTTTAAACCTCT
1 TTTTATATATTATTTAGTTTAAACCTCT
* * *
96483635 TTTTACATATTATTTATTTTAAACGT-T
1 TTTTATATATTATTTAGTTTAAACCTCT
96483662 TTTTATATATTATTT
1 TTTTATATATTATTT
96483677 TAAGTTGTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 15 0.41
28 22 0.59
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.61
Consensus pattern (28 bp):
TTTTATATATTATTTAGTTTAAACCTCT
Found at i:96483746 original size:51 final size:49
Alignment explanation
Indices: 96483635--96483757 Score: 133
Period size: 51 Copynumber: 2.4 Consensus size: 49
96483625 TTAAACCTCT
* *
96483635 TTTTACATATTATTTATTTTAAACGTTTTTTATATATTATTTTAAGTTG
1 TTTTACATATTATTTATTTAAAACGTTTTGTATATATTATTTTAAGTTG
* ** *
96483684 TCTTATGTATTATTTGTTTAAAAC-TACTTTGTATATCATTATTTTTAA-TTG
1 TTTTACATATTATTTATTTAAAACGT--TTTGTATAT-ATTA-TTTTAAGTTG
96483735 TTTTACATATTATTTATCTTAAA
1 TTTTACATATTATTTAT-TTAAA
96483758 TTATTTTATA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
48 1 0.02
49 19 0.32
50 8 0.14
51 20 0.34
52 11 0.19
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.59
Consensus pattern (49 bp):
TTTTACATATTATTTATTTAAAACGTTTTGTATATATTATTTTAAGTTG
Found at i:96483759 original size:26 final size:25
Alignment explanation
Indices: 96483730--96483797 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 25
96483720 CATTATTTTT
96483730 AATTGTTTTACATATTATTTATCTT-A
1 AATTGTTTTA-ATATTATTTA-CTTCA
* *
96483756 AATTATTTT-ATACTATTTACTTCA
1 AATTGTTTTAATATTATTTACTTCA
*
96483780 AACTGTTTTATATATTAT
1 AATTGTTTTA-ATATTAT
96483798 GTTGTTTCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
23 3 0.09
24 17 0.50
26 14 0.41
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (25 bp):
AATTGTTTTAATATTATTTACTTCA
Found at i:96486684 original size:46 final size:46
Alignment explanation
Indices: 96486632--96486848 Score: 346
Period size: 46 Copynumber: 4.7 Consensus size: 46
96486622 GTGTGCTTAC
** *
96486632 TGACATGAAATGTGTAAGACCATGGTTGAAAGAGACCATGGCAACG
1 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
96486678 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
96486724 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * *
96486770 TGACATGAAATGAACAAGACCATAGTTGAAAGATACCATGGCAACA
1 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
96486816 TGACA-GAAAGTGAGTAAGACCATAGTTGAAAGA
1 TGACATGAAA-TGAATAAGACCATGGTTGAAAGA
96486849 CACTATGGTA
Statistics
Matches: 162, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 158 0.98
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (46 bp):
TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:96487004 original size:26 final size:27
Alignment explanation
Indices: 96486944--96487000 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
96486934 GTATCAAATG
* *
96486944 AAGAATGGTTTTATGAATTGGTTATAC
1 AAGAATGGTTGTATGAAATGGTTATAC
96486971 AA-AATGGTTGTATGAAAT-GTT-TAC
1 AAGAATGGTTGTATGAAATGGTTATAC
96486995 AAGAAT
1 AAGAAT
96487001 TGGTCATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 5 0.19
25 6 0.22
26 14 0.52
27 2 0.07
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.37
Consensus pattern (27 bp):
AAGAATGGTTGTATGAAATGGTTATAC
Found at i:96487042 original size:26 final size:24
Alignment explanation
Indices: 96486968--96487042 Score: 69
Period size: 26 Copynumber: 2.9 Consensus size: 24
96486958 GAATTGGTTA
*
96486968 TACAAAATGGTTGTATGAAATGTT
1 TACAAAATGGTTGTATGAAATATT
**
96486992 TACAAGAATTGGTCATATGGAAATATAT
1 TACAA-AA-TGGTTGTAT-GAAATAT-T
*
96487020 GTACAAAATAGTTGTATGAAATA
1 -TACAAAATGGTTGTATGAAATA
96487043 ATTAAGAAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
24 5 0.12
25 2 0.05
26 13 0.32
27 12 0.30
28 3 0.08
29 5 0.12
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (24 bp):
TACAAAATGGTTGTATGAAATATT
Found at i:96501301 original size:39 final size:39
Alignment explanation
Indices: 96501247--96501364 Score: 218
Period size: 39 Copynumber: 3.0 Consensus size: 39
96501237 CAAGACACTA
96501247 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
96501286 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
96501325 GAAATGTGTCCGGGCTAAAGACCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
96501364 G
1 G
96501365 TGCTGGTAAT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.22
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:96503519 original size:47 final size:46
Alignment explanation
Indices: 96503450--96503541 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 46
96503440 AGATCAAATT
* *
96503450 GATTGAAGAAGATACAAATCCTATACCCCCTGAGTTGTAGTGGGATA
1 GATTGAAGAAGATAAAAATCCTATA-CCCCTGAGTTGCAGTGGGATA
* *
96503497 GATTGAAGATGATAAAAATCCTATACCCTTGAGTTGCAGTGGGAT
1 GATTGAAGAAGATAAAAATCCTATACCCCTGAGTTGCAGTGGGAT
96503542 GGATAAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 18 0.44
47 23 0.56
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (46 bp):
GATTGAAGAAGATAAAAATCCTATACCCCTGAGTTGCAGTGGGATA
Found at i:96504019 original size:44 final size:44
Alignment explanation
Indices: 96503949--96504240 Score: 275
Period size: 44 Copynumber: 6.5 Consensus size: 44
96503939 TCATGGCGAA
* *
96503949 TCTTATCTCCCTGAAGTTGTATTGGAGTAGATTAAAGCCACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAG
* *
96503993 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAG
* * * * **
96504037 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGAGTGAAGATAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA-CAAG
* * * **
96504082 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAGATAGC-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA-CAAG
* * *
96504126 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCTACCA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAG
* * * * *
96504170 TCTTTATCTCTCTGAAGTTGAAGTAGAGTAGGA-TAAAACTACACAAA
1 TC-TTATCTCCCTGAAGTTGCAGTGGAGTA-GATTAAAGC--CACAAG
* *
96504217 CCATATCTCCCTGAAGTTGCAGTG
1 TCTTATCTCCCTGAAGTTGCAGTG
96504241 AAGCAGGTTG
Statistics
Matches: 211, Mismatches: 29, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
43 2 0.01
44 107 0.51
45 80 0.38
46 21 0.10
47 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCACAAG
Found at i:96504100 original size:89 final size:89
Alignment explanation
Indices: 96503948--96504193 Score: 268
Period size: 89 Copynumber: 2.8 Consensus size: 89
96503938 ATCATGGCGA
* * * * * *
96503948 ATCTTATCTCCCTGAAGTTGTATTGGAGTAGATTAAAGCCACAAGTCTTATCTCCCTGAAGTTGC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGTAAAGACACAAGTCTTATCTCCCTGAAGTTGA
* *
96504013 AGTGGAGCAGATTGAAGCCA-CA-
66 AGTGGAGCAGACTGAAGACAGCAG
* * *
96504035 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGAGTGAAGATAGCAAGTCTTATCTCCCTGAAGTT
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGTAAAGACA-CAAGTCTTATCTCCCTGAAGTT
* *
96504100 GAAGTGGAGTAGACTGAAGATAGCAG
64 GAAGTGGAGCAGACTGAAGACAGCAG
* * *
96504126 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TCAAAG-CTACCA-TCTTTATCTCTCTGAAGT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGT-AAAGAC-ACAAGTC-TTATCTCCCTGAAGT
96504188 TGAAGT
63 TGAAGT
96504194 AGAGTAGGAT
Statistics
Matches: 133, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
87 1 0.01
88 34 0.26
89 62 0.47
90 35 0.26
91 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (89 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAGTAAAGACACAAGTCTTATCTCCCTGAAGTTGA
AGTGGAGCAGACTGAAGACAGCAG
Found at i:96504177 original size:134 final size:133
Alignment explanation
Indices: 96503949--96504189 Score: 342
Period size: 134 Copynumber: 1.8 Consensus size: 133
96503939 TCATGGCGAA
* * * *
96503949 TCTTATCTCCCTGAAGTTGTATTGGAGTAGATTAAAGCCACAAGTCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTAAAGACACAAGTCTTATCTCCCTGAAGTTGCA
**
96504014 GTGGAGCAGATTGAAGCCACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGAGTGAAGATAGC
66 GTGGAGCAGATCAAAGCCACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGAGTGAAGATAGC
96504079 AAG
131 AAG
* *
96504082 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAGATAGC-AGATCTTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTAAAGACA-CAAG-TCTTATCTCCCTGAAGTTG
* * *
96504146 CAGTGGAGTAGATCAAAGCTACCA-TCTTTATCTCTCTGAAGTTG
64 CAGTGGAGCAGATCAAAGCCACAAGTC-TTATCTCTCTGAAGTTG
96504190 AAGTAGAGTA
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
133 38 0.40
134 56 0.60
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (133 bp):
TCTTATCTCCCTGAAGTTGAAGTGGAGTAGACTAAAGACACAAGTCTTATCTCCCTGAAGTTGCA
GTGGAGCAGATCAAAGCCACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGAGTGAAGATAGC
AAG
Found at i:96504233 original size:46 final size:44
Alignment explanation
Indices: 96504085--96504235 Score: 126
Period size: 45 Copynumber: 3.4 Consensus size: 44
96504075 TAGCAAGTCT
* * * * * *
96504085 TATCTCCCTGAAGTTGAAGTGGAGTAGACTGAAGA-TAGCAGATCT
1 TATCTCCCTGAAGTTGAAGTAGAGTAGA-TCAAAACTACCA-ACCA
* * * * **
96504130 TATCTCCCTGAAGTTGCAGTGGAGTAGATCAAAGCTACCATCTT
1 TATCTCCCTGAAGTTGAAGTAGAGTAGATCAAAACTACCAACCA
*
96504174 TATCTCTCTGAAGTTGAAGTAGAGTAGGAT-AAAACTACACAAACCA
1 TATCTCCCTGAAGTTGAAGTAGAGTA-GATCAAAACTAC-C-AACCA
96504220 TATCTCCCTGAAGTTG
1 TATCTCCCTGAAGTTG
96504236 CAGTGAAGCA
Statistics
Matches: 86, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
44 34 0.40
45 35 0.41
46 17 0.20
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGAAGTAGAGTAGATCAAAACTACCAACCA
Found at i:96506096 original size:26 final size:25
Alignment explanation
Indices: 96506067--96506144 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 25
96506057 ATTTATTCTT
*
96506067 TTTAAACCGTTTTGTATATTATTTAG
1 TTTAAACC-TTTTATATATTATTTAG
* *
96506093 TTTAAACCTCTTTTTACATATTATTTAT
1 TTTAAA-C-C-TTTTATATATTATTTAG
*
96506121 TTTAAACTTTTTTATATATTATTT
1 TTTAAAC-CTTTTATATATTATTT
96506145 TAAGTTGTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.45
27 3 0.07
28 21 0.48
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.59
Consensus pattern (25 bp):
TTTAAACCTTTTATATATTATTTAG
Found at i:96506115 original size:28 final size:26
Alignment explanation
Indices: 96506082--96506144 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 26
96506072 ACCGTTTTGT
96506082 ATATTATTTAGTTTAAACCTCTTTTTAC
1 ATATTATTTAGTTTAAA-CT-TTTTTAC
* *
96506110 ATATTATTTATTTTAAACTTTTTTAT
1 ATATTATTTAGTTTAAACTTTTTTAC
96506136 ATATTATTT
1 ATATTATTT
96506145 TAAGTTGTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
26 15 0.45
27 2 0.06
28 16 0.48
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (26 bp):
ATATTATTTAGTTTAAACTTTTTTAC
Found at i:96506214 original size:51 final size:48
Alignment explanation
Indices: 96506104--96506225 Score: 140
Period size: 51 Copynumber: 2.5 Consensus size: 48
96506094 TTAAACCTCT
*
96506104 TTTTACATATTATTTATTTTAAACTTTTTTATATATTATTTTAAGTTG
1 TTTTACATATTATTTATTTTAAACTTTTGTATATATTATTTTAAGTTG
* **
96506152 TCTTATGTATTATTT-TTTTAAAACTGCTTTGTATATCATTATTTTTAA-TTG
1 TTTTACATATTATTTATTTT-AAACT--TTTGTATAT-ATTA-TTTTAAGTTG
*
96506203 TTTTACATATTATTTATCTTAAA
1 TTTTACATATTATTTATTTTAAA
96506226 TTATTTTATA
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
47 4 0.07
48 17 0.28
50 8 0.13
51 22 0.37
52 9 0.15
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.60
Consensus pattern (48 bp):
TTTTACATATTATTTATTTTAAACTTTTGTATATATTATTTTAAGTTG
Found at i:96512831 original size:27 final size:27
Alignment explanation
Indices: 96512789--96512844 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
96512779 ATTTAGATGG
96512789 GTGGAGGGTGTCAGATAAGCAGCACCA
1 GTGGAGGGTGTCAGATAAGCAGCACCA
* *
96512816 GTGGAGGGTGTTAGATAAGCGGCACCA
1 GTGGAGGGTGTCAGATAAGCAGCACCA
96512843 GT
1 GT
96512845 TGCGTCTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.16, G:0.39, T:0.18
Consensus pattern (27 bp):
GTGGAGGGTGTCAGATAAGCAGCACCA
Found at i:96512859 original size:27 final size:27
Alignment explanation
Indices: 96512829--96512894 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
96512819 GAGGGTGTTA
*
96512829 GATAAGCGGCACCAGTTGCGTCTATCT
1 GATAAGCGGCACCAGTTGCGCCTATCT
* *
96512856 GATAGGCGGCACCAGTTGTGCCTATCT
1 GATAAGCGGCACCAGTTGCGCCTATCT
*
96512883 GATAAGCAGCAC
1 GATAAGCGGCAC
96512895 ACCCAATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.23
Consensus pattern (27 bp):
GATAAGCGGCACCAGTTGCGCCTATCT
Found at i:96513639 original size:21 final size:20
Alignment explanation
Indices: 96513601--96513644 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
96513591 CATCTTTTAC
96513601 ATATATAAAAAATAAAAAATA
1 ATATATAAAAAATAAAAAA-A
*
96513622 ATAT-TAAAATAATCAAAAAA
1 ATATATAAAA-AATAAAAAAA
96513642 ATA
1 ATA
96513645 ACATGTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (20 bp):
ATATATAAAAAATAAAAAAA
Found at i:96515170 original size:21 final size:22
Alignment explanation
Indices: 96515146--96515202 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 22
96515136 ATTAAAAATT
96515146 AAATTAATTATTTTATTA-AAA
1 AAATTAATTATTTTATTATAAA
* *
96515167 AAA-TATTTATTTTTATTATTAA
1 AAATTAATTA-TTTTATTATAAA
96515189 AAATT-ATT-TTTTAT
1 AAATTAATTATTTTAT
96515203 ATGTTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
20 11 0.37
21 11 0.37
22 7 0.23
23 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
AAATTAATTATTTTATTATAAA
Found at i:96515196 original size:23 final size:20
Alignment explanation
Indices: 96515146--96515197 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 20
96515136 ATTAAAAATT
*
96515146 AAATTAATTATTTTATTAAA
1 AAATTATTTATTTTATTAAA
*
96515166 AAAATATTTATTTTTATTATTAA
1 AAATTATTTA-TTTTATTA--AA
96515189 AAATTATTT
1 AAATTATTT
96515198 TTTATATGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 8 0.31
21 8 0.31
23 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATTATTTATTTTATTAAA
Found at i:96516731 original size:21 final size:21
Alignment explanation
Indices: 96516706--96516754 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
96516696 TTCAGAATCC
* **
96516706 CACACAAACGTGTGTTTTGGA
1 CACACAAACGTGTCTGGTGGA
* *
96516727 CACACGACCGTGTCTGGTGGA
1 CACACAAACGTGTCTGGTGGA
96516748 CACACAA
1 CACACAA
96516755 GTGTGTGAGA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (21 bp):
CACACAAACGTGTCTGGTGGA
Found at i:96520195 original size:13 final size:13
Alignment explanation
Indices: 96520177--96520213 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
96520167 TTTTGTGAAG
96520177 TATTGATATTTAA
1 TATTGATATTTAA
*
96520190 TATTGAT-TTTTA
1 TATTGATATTTAA
96520202 TA-TGATATTTAA
1 TATTGATATTTAA
96520214 AAAAATATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
11 4 0.19
12 10 0.48
13 7 0.33
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (13 bp):
TATTGATATTTAA
Found at i:96523525 original size:51 final size:49
Alignment explanation
Indices: 96523397--96523542 Score: 175
Period size: 51 Copynumber: 2.9 Consensus size: 49
96523387 GTAGCCAAAC
* * *
96523397 TATCTGGTACGCATAGTAGCCTGCACTTAGTGCTACACATGCGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
96523446 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAAT
* * * *
96523497 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACATATGCGACC
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
96523543 TAGCTACATA
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 39 0.48
50 2 0.02
51 40 0.49
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:96524384 original size:30 final size:30
Alignment explanation
Indices: 96524350--96524410 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
96524340 TCCTTAACTC
96524350 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
96524380 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
96524410 A
1 A
96524411 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:96526367 original size:54 final size:56
Alignment explanation
Indices: 96526258--96526414 Score: 192
Period size: 56 Copynumber: 2.8 Consensus size: 56
96526248 CATAACATAG
* * *
96526258 CACGCCTCTCAACAGGGCTACCTAAAAGCACCCGGACCTAGCATGTATCACATAA-T-
1 CACGCCTCTCAACGGGGCTA-C-AAAAGCTCCCGGACCTAGCATGTACCACATAATTA
* * * *
96526314 CACGCCTTTCAACGGGGCTACATAAGCTCCCGGATCTAGCGTGTACCACATAATTA
1 CACGCCTCTCAACGGGGCTACAAAAGCTCCCGGACCTAGCATGTACCACATAATTA
* * *
96526370 CATGCCTCTCAACGAGGCTACACAAGCTCCCGGACCTAGCATGTA
1 CACGCCTCTCAACGGGGCTACAAAAGCTCCCGGACCTAGCATGTA
96526415 TCATGCCATC
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 27 0.31
55 2 0.02
56 57 0.66
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (56 bp):
CACGCCTCTCAACGGGGCTACAAAAGCTCCCGGACCTAGCATGTACCACATAATTA
Found at i:96528351 original size:16 final size:16
Alignment explanation
Indices: 96528291--96528352 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
96528281 TCAATAGAAG
*
96528291 AATTTGCCAAACCACA
1 AATTTGCCAAAACACA
* * *
96528307 AATCTCGCGAAAAGCATA
1 AAT-TTGCCAAAA-CACA
*
96528325 GAATTTACCAAAACACA
1 -AATTTGCCAAAACACA
96528342 AATTTGCCAAA
1 AATTTGCCAAA
96528353 TCATGGAATT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
16 13 0.38
17 9 0.26
18 9 0.26
19 3 0.09
ACGTcount: A:0.47, C:0.24, G:0.10, T:0.19
Consensus pattern (16 bp):
AATTTGCCAAAACACA
Found at i:96530291 original size:24 final size:25
Alignment explanation
Indices: 96530252--96530302 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
96530242 ATTTTTGGAA
*
96530252 AAATTAATTCAGATCAAGTAAAATT
1 AAATTAATTCAAATCAAGTAAAATT
* *
96530277 AAATT-ATTCAAATCAATTATAATT
1 AAATTAATTCAAATCAAGTAAAATT
96530301 AA
1 AA
96530303 TATGATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (25 bp):
AAATTAATTCAAATCAAGTAAAATT
Found at i:96530749 original size:37 final size:36
Alignment explanation
Indices: 96530698--96530773 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
96530688 ATTCTAAAAA
*
96530698 TAATATTATTTTAATAGT-TTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATATTAAA-TTAATAT
*
96530734 TAATACTTATCTTAATAGTATTTTATTAAATTAATAT
1 TAATA-TTATCTTAATAGTATTATATTAAATTAATAT
96530771 TAA
1 TAA
96530774 AGTGATTAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 10 0.29
37 23 0.66
38 2 0.06
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATATTAAATTAATAT
Found at i:96541753 original size:46 final size:46
Alignment explanation
Indices: 96541686--96541774 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
96541676 GTCTACTATC
96541686 TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCTGTT
1 TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCTGTT
* * *
96541732 TTTAAACTCAATATAACAAGTGATTTAAGTCCTATCAGATCCT
1 TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCT
96541775 AATATAGCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (46 bp):
TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCTGTT
Found at i:96541758 original size:23 final size:23
Alignment explanation
Indices: 96541686--96541759 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
96541676 GTCTACTATC
*
96541686 TTTAAACTCAATACAACAAGTGA
1 TTTAAACTCAATATAACAAGTGA
* * ** *
96541709 TTT-AAGTC-ATATCACATCCTGTT
1 TTTAAACTCAATATAACA-AGTG-A
96541732 TTTAAACTCAATATAACAAGTGA
1 TTTAAACTCAATATAACAAGTGA
96541755 TTTAA
1 TTTAA
96541760 GTCCTATCAG
Statistics
Matches: 36, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
21 6 0.17
22 6 0.17
23 11 0.31
24 6 0.17
25 7 0.19
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (23 bp):
TTTAAACTCAATATAACAAGTGA
Found at i:96551185 original size:40 final size:39
Alignment explanation
Indices: 96551127--96551216 Score: 94
Period size: 40 Copynumber: 2.3 Consensus size: 39
96551117 CATTTTTATT
*
96551127 CGTATAAACTATAATTCATTCA-T-ATAACCAGTAGTTCACC
1 CGTATAAAC-ATAATTCA-TCACTAATAA-CAGTAATTCACC
* *
96551167 CGTATAAACAGTAGTTCATCACTAATAACAGTAATTCATC
1 CGTATAAACA-TAATTCATCACTAATAACAGTAATTCACC
*
96551207 CATATAAACA
1 CGTATAAACA
96551217 CATATCTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
39 4 0.09
40 35 0.81
41 4 0.09
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (39 bp):
CGTATAAACATAATTCATCACTAATAACAGTAATTCACC
Found at i:96551216 original size:20 final size:20
Alignment explanation
Indices: 96551129--96551216 Score: 74
Period size: 20 Copynumber: 4.4 Consensus size: 20
96551119 TTTTTATTCG
*
96551129 TATAAACTA-TAATTCATTCA
1 TATAAAC-AGTAATTCATCCA
* * * *
96551149 TATAACCAGTAGTTCACCCG
1 TATAAACAGTAATTCATCCA
*
96551169 TATAAACAGTAGTTCAT-CA
1 TATAAACAGTAATTCATCCA
96551188 CTA-ATAACAGTAATTCATCCA
1 -TATA-AACAGTAATTCATCCA
96551209 TATAAACA
1 TATAAACA
96551217 CATATCTTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.06
20 48 0.89
21 3 0.06
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (20 bp):
TATAAACAGTAATTCATCCA
Found at i:96551508 original size:23 final size:25
Alignment explanation
Indices: 96551478--96551567 Score: 89
Period size: 26 Copynumber: 3.7 Consensus size: 25
96551468 GAGCTAAAAA
96551478 CAGTAAGCTCTTTTGAGCTGA-G-T
1 CAGTAAGCTCTTTTGAGCTGATGAT
*
96551501 CGGTAAGCT-TTTTCGAGC-GATGAT
1 CAGTAAGCTCTTTT-GAGCTGATGAT
* * *
96551525 CAGTAAGCTCCTCTTGAGCTGATAAA
1 CAGTAAGCT-CTTTTGAGCTGATGAT
*
96551551 CAGTAAGCTCTATTGAG
1 CAGTAAGCTCTTTTGAG
96551568 TTGAAACGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
22 6 0.11
23 13 0.24
24 9 0.16
25 11 0.20
26 16 0.29
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (25 bp):
CAGTAAGCTCTTTTGAGCTGATGAT
Found at i:96551574 original size:23 final size:24
Alignment explanation
Indices: 96551360--96551747 Score: 171
Period size: 23 Copynumber: 16.5 Consensus size: 24
96551350 GAGCCATGAT
*
96551360 CAGTAAGCTCCTCTTGAGCTGATAAA
1 CAGTAAGCT-CTATTGAGCTGA-AAA
* *
96551386 TAGTAAGCTCTATTGAGTTG-AAA
1 CAGTAAGCTCTATTGAGCTGAAAA
* * *
96551409 CGGTAAGCTCTATCGAACTG--AA
1 CAGTAAGCTCTATTGAGCTGAAAA
* *
96551431 CAATAAGCTCT-TATGAGCT-AAAT
1 CAGTAAGCTCTAT-TGAGCTGAAAA
* ** * * *
96551454 CGGTAATTTCCAATGAGCTAAAAA
1 CAGTAAGCTCTATTGAGCTGAAAA
* **
96551478 CAGTAAGCTCTTTTGAGCTG-AGT
1 CAGTAAGCTCTATTGAGCTGAAAA
* * * *
96551501 CGGTAAGCT-TTTTCGAGC-GATGAT
1 CAGTAAGCTCTATT-GAGCTGA-AAA
*
96551525 CAGTAAGCTCCTCTTGAGCTGATAAA
1 CAGTAAGCT-CTATTGAGCTGA-AAA
*
96551551 CAGTAAGCTCTATTGAGTTG-AAA
1 CAGTAAGCTCTATTGAGCTGAAAA
* * *
96551574 CGGTAAGCTCTATCGAACTG--AA
1 CAGTAAGCTCTATTGAGCTGAAAA
* *
96551596 CAATAAGCTCT-TATGAGCT-AAAT
1 CAGTAAGCTCTAT-TGAGCTGAAAA
* * * *
96551619 CGGTAAGCTCCAATGAGCTAAAAA
1 CAGTAAGCTCTATTGAGCTGAAAA
* * **
96551643 TAGTAAGCTCT-TTCGAGCCG-AGT
1 CAGTAAGCTCTATT-GAGCTGAAAA
* * * *
96551666 CGGTAAGCTCCAATAAGCTGAAAA
1 CAGTAAGCTCTATTGAGCTGAAAA
*
96551690 CAGTAAGCTCT-TTCGAGCTG-AAT
1 CAGTAAGCTCTATT-GAGCTGAAAA
* *
96551713 CAGTAAGCTCCAATGAGCTGAAAA
1 CAGTAAGCTCTATTGAGCTGAAAA
*
96551737 TAGTAAGCTCT
1 CAGTAAGCTCT
96551748 TACGAGCTGA
Statistics
Matches: 262, Mismatches: 78, Indels: 46
0.68 0.20 0.12
Matches are distributed among these distances:
21 2 0.01
22 35 0.13
23 111 0.42
24 68 0.26
25 22 0.08
26 24 0.09
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (24 bp):
CAGTAAGCTCTATTGAGCTGAAAA
Found at i:96551618 original size:165 final size:165
Alignment explanation
Indices: 96551346--96551674 Score: 595
Period size: 165 Copynumber: 2.0 Consensus size: 165
96551336 ATTTATGCTC
*
96551346 TTTCGAGCCATGATCAGTAAGCTCCTCTTGAGCTGATAAATAGTAAGCTCTATTGAGTTGAAACG
1 TTTCGAGCCATGATCAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACG
**
96551411 GTAAGCTCTATCGAACTGAACAATAAGCTCTTATGAGCTAAATCGGTAATTTCCAATGAGCTAAA
66 GTAAGCTCTATCGAACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAA
* *
96551476 AACAGTAAGCTCTTTTGAGCTGAGTCGGTAAGCTT
131 AACAGTAAGCTCTTTCGAGCCGAGTCGGTAAGCTT
*
96551511 TTTCGAGCGATGATCAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACG
1 TTTCGAGCCATGATCAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACG
96551576 GTAAGCTCTATCGAACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAA
66 GTAAGCTCTATCGAACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAA
*
96551641 AATAGTAAGCTCTTTCGAGCCGAGTCGGTAAGCT
131 AACAGTAAGCTCTTTCGAGCCGAGTCGGTAAGCT
96551675 CCAATAAGCT
Statistics
Matches: 157, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
165 157 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (165 bp):
TTTCGAGCCATGATCAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACG
GTAAGCTCTATCGAACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAA
AACAGTAAGCTCTTTCGAGCCGAGTCGGTAAGCTT
Found at i:96551669 original size:47 final size:47
Alignment explanation
Indices: 96551503--96551754 Score: 219
Period size: 47 Copynumber: 5.3 Consensus size: 47
96551493 AGCTGAGTCG
* * ** *
96551503 GTAAGCTTTTTCGAG-CGATGATCAGTAAGCTCCTCTTGAGCTGATAAACA
1 GTAAGCTCTTTCGAGCCGA--ATCGGTAAGCTCC-AATGAGCTGA-AAATA
** * * * *
96551553 GTAAGCTCTATT-GAGTTGAAACGGTAAGCT-CTATCGAACTGAACA-A
1 GTAAGCTCT-TTCGAGCCGAATCGGTAAGCTCCAAT-GAGCTGAAAATA
** *
96551599 -TAAGCTCTTAT-GAGCTAAATCGGTAAGCTCCAATGAGCTAAAAATA
1 GTAAGCTCTT-TCGAGCCGAATCGGTAAGCTCCAATGAGCTGAAAATA
* * *
96551645 GTAAGCTCTTTCGAGCCGAGTCGGTAAGCTCCAATAAGCTGAAAACA
1 GTAAGCTCTTTCGAGCCGAATCGGTAAGCTCCAATGAGCTGAAAATA
* *
96551692 GTAAGCTCTTTCGAGCTGAATCAGTAAGCTCCAATGAGCTGAAAATA
1 GTAAGCTCTTTCGAGCCGAATCGGTAAGCTCCAATGAGCTGAAAATA
*
96551739 GTAAGCTCTTACGAGC
1 GTAAGCTCTTTCGAGC
96551755 TGATATATTG
Statistics
Matches: 167, Mismatches: 27, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
44 1 0.01
45 31 0.19
46 6 0.04
47 98 0.59
48 7 0.04
49 9 0.05
50 11 0.07
51 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (47 bp):
GTAAGCTCTTTCGAGCCGAATCGGTAAGCTCCAATGAGCTGAAAATA
Found at i:96551696 original size:165 final size:165
Alignment explanation
Indices: 96551360--96551722 Score: 540
Period size: 165 Copynumber: 2.2 Consensus size: 165
96551350 GAGCCATGAT
*
96551360 CAGTAAGCTCCTCTTGAGCTGATAAATAGTAAGCTCTATTGAGTTGAAACGGTAAGCTCTATCGA
1 CAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACGGTAAGCTCTATCGA
**
96551425 ACTGAACAATAAGCTCTTATGAGCTAAATCGGTAATTTCCAATGAGCTAAAAACAGTAAGCTCTT
66 ACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAAAACAGTAAGCTCTT
* * *** * * *
96551490 TTGAGCTGAGTCGGTAAGCTTTTTCGAGCGATGAT
131 TCGAGCCGAGTCGGTAAGCTCAATCAAGCGATAAA
96551525 CAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACGGTAAGCTCTATCGA
1 CAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACGGTAAGCTCTATCGA
*
96551590 ACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAAAATAGTAAGCTCTT
66 ACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAAAACAGTAAGCTCTT
96551655 TCGAGCCGAGTCGGTAAGCTCCAAT-AAGCTGA-AAA
131 TCGAGCCGAGTCGGTAAGCT-CAATCAAGC-GATAAA
*
96551690 CAGTAAGCT-CT-TTCGAGCTG--AATCAGTAAGCTC
1 CAGTAAGCTCCTCTT-GAGCTGATAAACAGTAAGCTC
96551723 CAATGAGCTG
Statistics
Matches: 182, Mismatches: 13, Indels: 9
0.89 0.06 0.04
Matches are distributed among these distances:
162 12 0.07
163 2 0.01
164 8 0.04
165 157 0.86
166 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (165 bp):
CAGTAAGCTCCTCTTGAGCTGATAAACAGTAAGCTCTATTGAGTTGAAACGGTAAGCTCTATCGA
ACTGAACAATAAGCTCTTATGAGCTAAATCGGTAAGCTCCAATGAGCTAAAAACAGTAAGCTCTT
TCGAGCCGAGTCGGTAAGCTCAATCAAGCGATAAA
Found at i:96551754 original size:24 final size:24
Alignment explanation
Indices: 96551681--96551782 Score: 91
Period size: 24 Copynumber: 4.2 Consensus size: 24
96551671 AGCTCCAATA
* *
96551681 AGCTGAAAACAGTAAGCTCTTTCG
1 AGCTGAAAATAGTAAGCTCTTACG
** *
96551705 AGCTG--AATCAGTAAGCTCCAATG
1 AGCTGAAAAT-AGTAAGCTCTTACG
96551728 AGCTGAAAATAGTAAGCTCTTACG
1 AGCTGAAAATAGTAAGCTCTTACG
* * *
96551752 AGCTGATATATTGGTAAGCTCATACG
1 AGCTGA-A-AATAGTAAGCTCTTACG
96551778 AGCTG
1 AGCTG
96551783 TGGTGAGTCC
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
22 2 0.03
23 15 0.24
24 22 0.35
25 4 0.06
26 19 0.31
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (24 bp):
AGCTGAAAATAGTAAGCTCTTACG
Found at i:96551755 original size:47 final size:47
Alignment explanation
Indices: 96551539--96551757 Score: 230
Period size: 47 Copynumber: 4.7 Consensus size: 47
96551529 AAGCTCCTCT
* * * * *
96551539 TGAGCTGATAAACAGTAAGCTC-TATTGAGTTGAAACGGTAAGCT-CTA
1 TGAGCTGA-AAATAGTAAGCTCTTA-CGAGCTGAATCGGTAAGCTCCAA
* * * *
96551586 TCGAACTGAACA-A-TAAGCTCTTATGAGCTAAATCGGTAAGCTCCAA
1 T-GAGCTGAAAATAGTAAGCTCTTACGAGCTGAATCGGTAAGCTCCAA
* * * *
96551632 TGAGCTAAAAATAGTAAGCTCTTTCGAGCCGAGTCGGTAAGCTCCAA
1 TGAGCTGAAAATAGTAAGCTCTTACGAGCTGAATCGGTAAGCTCCAA
* * * *
96551679 TAAGCTGAAAACAGTAAGCTCTTTCGAGCTGAATCAGTAAGCTCCAA
1 TGAGCTGAAAATAGTAAGCTCTTACGAGCTGAATCGGTAAGCTCCAA
96551726 TGAGCTGAAAATAGTAAGCTCTTACGAGCTGA
1 TGAGCTGAAAATAGTAAGCTCTTACGAGCTGA
96551758 TATATTGGTA
Statistics
Matches: 144, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
45 30 0.21
46 7 0.05
47 101 0.70
48 6 0.04
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (47 bp):
TGAGCTGAAAATAGTAAGCTCTTACGAGCTGAATCGGTAAGCTCCAA
Found at i:96553053 original size:20 final size:20
Alignment explanation
Indices: 96553030--96553067 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
96553020 TAGGGTTTTA
96553030 GAGTTAT-ATGATGTTACTTG
1 GAGTTATAATG-TGTTACTTG
*
96553050 GAGTTTTAATGTGTTACT
1 GAGTTATAATGTGTTACT
96553068 CTATGGTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.47
Consensus pattern (20 bp):
GAGTTATAATGTGTTACTTG
Found at i:96556211 original size:20 final size:20
Alignment explanation
Indices: 96556186--96556223 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
96556176 AAAGCATAAA
*
96556186 ATACCAAGTATCAACAAAAC
1 ATACCAAATATCAACAAAAC
96556206 ATACCAAATATCAACAAA
1 ATACCAAATATCAACAAA
96556224 GTGCATAATA
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:0.58, C:0.24, G:0.03, T:0.16
Consensus pattern (20 bp):
ATACCAAATATCAACAAAAC
Found at i:96561454 original size:20 final size:20
Alignment explanation
Indices: 96561431--96561576 Score: 68
Period size: 20 Copynumber: 7.5 Consensus size: 20
96561421 TTGTACTTCG
* *
96561431 GTGCCCTTGATCGCACTTAT
1 GTGCCCCTGATCGCACTTAC
* *
96561451 GTGCCCCT-ATTGTACTT-C
1 GTGCCCCTGATCGCACTTAC
*
96561469 GGTACCCCTGATCGCACTTAC
1 -GTGCCCCTGATCGCACTTAC
* * *
96561490 GTGCCCTTG-TTGTACTT-C
1 GTGCCCCTGATCGCACTTAC
** * *
96561508 GGTATCGCTGATCGCACTTAT
1 -GTGCCCCTGATCGCACTTAC
* **
96561529 GTGCCCCTG-TCGTACTTTG
1 GTGCCCCTGATCGCACTTAC
* * *
96561548 GTACCCCTGATCGTACTTAT
1 GTGCCCCTGATCGCACTTAC
*
96561568 GTGACCCTG
1 GTGCCCCTG
96561577 TTGTATTTCG
Statistics
Matches: 90, Mismatches: 29, Indels: 14
0.68 0.22 0.11
Matches are distributed among these distances:
18 1 0.01
19 40 0.44
20 48 0.53
21 1 0.01
ACGTcount: A:0.14, C:0.31, G:0.21, T:0.34
Consensus pattern (20 bp):
GTGCCCCTGATCGCACTTAC
Found at i:96561481 original size:39 final size:39
Alignment explanation
Indices: 96561419--96561588 Score: 232
Period size: 39 Copynumber: 4.4 Consensus size: 39
96561409 AGTAGAAAAT
* *
96561419 TGTTGTACTTCGGTGCCCTTGATCGCACTTATGTGCCCC
1 TGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCC
* * *
96561458 TATTGTACTTCGGTACCCCTGATCGCACTTACGTGCCCT
1 TGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCC
* *
96561497 TGTTGTACTTCGGTATCGCTGATCGCACTTATGTGCCCC
1 TGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCC
* * * *
96561536 TGTCGTACTTTGGTACCCCTGATCGTACTTATGTGACCC
1 TGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCC
*
96561575 TGTTGTATTTCGGT
1 TGTTGTACTTCGGT
96561589 TGTCCTGATA
Statistics
Matches: 112, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.13, C:0.28, G:0.22, T:0.37
Consensus pattern (39 bp):
TGTTGTACTTCGGTACCCCTGATCGCACTTATGTGCCCC
Done.