Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold168
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: 2098754
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
File 8 of 16
Found at i:782382 original size:18 final size:18
Alignment explanation
Indices: 782356--782429 Score: 61
Period size: 18 Copynumber: 4.3 Consensus size: 18
782346 GTGTATATAA
782356 TTTATATATTTATATAAAT
1 TTTA-ATATTTATATAAAT
782375 TTTAATATATTA-AT-AA-
1 TTTAATAT-TTATATAAAT
782391 TTT-AT-TTTAT-TAAAT
1 TTTAATATTTATATAAAT
* * *
782406 TTTAATATTTTTTTATAT
1 TTTAATATTTATATAAAT
782424 TTTAAT
1 TTTAAT
782430 CAGTGCTCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
13 4 0.09
14 3 0.07
15 5 0.11
16 5 0.11
17 6 0.13
18 16 0.35
19 7 0.15
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTAATATTTATATAAAT
Found at i:785467 original size:39 final size:40
Alignment explanation
Indices: 785402--785479 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 40
785392 AAACCAAAAC
785402 AAATTTAAATAAATATAAAATAATTTT-AATATTATATTT
1 AAATTTAAATAAATATAAAATAATTTTAAATATTATATTT
* * * *
785441 AAATTTAATTTAATTTATAAAT-ATTTTAAATTTTATATT
1 AAATTTAAATAAATATA-AAATAATTTTAAATATTATATT
785480 ATTTATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 19 0.58
40 14 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (40 bp):
AAATTTAAATAAATATAAAATAATTTTAAATATTATATTT
Found at i:786244 original size:36 final size:36
Alignment explanation
Indices: 786203--786281 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
786193 AGTTTTTATT
*
786203 TATATAT-TATATAAT-TTATATTATATGAAAATTAAA
1 TATATATATATATAATATTATAGTATA--AAAATTAAA
*
786239 TATATATATATATAATATTATAGTATAAATATTAAA
1 TATATATATATATAATATTATAGTATAAAAATTAAA
*
786275 AATATAT
1 TATATAT
786282 CAAGTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 21 0.55
37 8 0.21
38 9 0.24
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.46
Consensus pattern (36 bp):
TATATATATATATAATATTATAGTATAAAAATTAAA
Found at i:786247 original size:38 final size:36
Alignment explanation
Indices: 786203--786281 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 36
786193 AGTTTTTATT
* *
786203 TATATATTATATAAT-TTATATTATATGAAAATTAAATA
1 TATATA-TATATAATATTATAGTATA--AAAATTAAAAA
*
786241 TATATATATATAATATTATAGTATAAATATTAAAAA
1 TATATATATATAATATTATAGTATAAAAATTAAAAA
786277 TATAT
1 TATAT
786282 CAAGTTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 14 0.38
37 8 0.22
38 15 0.41
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.46
Consensus pattern (36 bp):
TATATATATATAATATTATAGTATAAAAATTAAAAA
Found at i:787241 original size:9 final size:8
Alignment explanation
Indices: 787211--787250 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
787201 TATTTTTAAT
*
787211 ATTAAATA
1 ATTAAAAA
787219 ATTAAAAA
1 ATTAAAAA
*
787227 AATAAAAA
1 ATTAAAAA
787235 ATTTAAAAA
1 A-TTAAAAA
787244 ATTAAAA
1 ATTAAAA
787251 TATATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
ATTAAAAA
Found at i:787618 original size:18 final size:18
Alignment explanation
Indices: 787592--787630 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
787582 TACATTTGAA
* *
787592 TAAATAATTTTAAAATTT
1 TAAAAAATTTTAAAATAT
787610 TAAAAAATTTTAAAATAT
1 TAAAAAATTTTAAAATAT
787628 TAA
1 TAA
787631 CATTTTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAAAATTTTAAAATAT
Found at i:792683 original size:8 final size:8
Alignment explanation
Indices: 792672--792700 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
792662 CATGATCGAT
792672 GCTTGAAC
1 GCTTGAAC
792680 GCTTGAAC
1 GCTTGAAC
792688 GCTTGAAC
1 GCTTGAAC
792696 GCTTG
1 GCTTG
792701 CTCCTTCCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.28
Consensus pattern (8 bp):
GCTTGAAC
Found at i:797697 original size:37 final size:38
Alignment explanation
Indices: 797638--797711 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 38
797628 ACATAATATG
* * *
797638 AAATTTTAATACAAAATTATAAATATTATATATTTAAT
1 AAATTTAAATACAAAATAATAAATACTATATATTTAAT
*
797676 AAATTTAAATATAAAA-AATAAATACTATATATTTAA
1 AAATTTAAATACAAAATAATAAATACTATATATTTAA
797712 ATATAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 18 0.56
38 14 0.44
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (38 bp):
AAATTTAAATACAAAATAATAAATACTATATATTTAAT
Found at i:797713 original size:19 final size:19
Alignment explanation
Indices: 797656--797714 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
797646 ATACAAAATT
797656 ATAAATATTATATATTT-A
1 ATAAATATTATATATTTAA
* **
797674 ATAAAT-TTAAATATAAAAA
1 ATAAATATTATATAT-TTAA
*
797693 ATAAATACTATATATTTAA
1 ATAAATATTATATATTTAA
797712 ATA
1 ATA
797715 TAATTAACAC
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
17 7 0.23
18 6 0.19
19 12 0.39
20 6 0.19
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAATATTATATATTTAA
Found at i:800219 original size:19 final size:20
Alignment explanation
Indices: 800195--800233 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
800185 TTTGTATCTT
*
800195 GAAACTTG-GTGAAAAGATG
1 GAAACTTGAGAGAAAAGATG
800214 GAAACTTGAGAGAAAAGATG
1 GAAACTTGAGAGAAAAGATG
800234 ATATCTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.46, C:0.05, G:0.31, T:0.18
Consensus pattern (20 bp):
GAAACTTGAGAGAAAAGATG
Found at i:802136 original size:38 final size:38
Alignment explanation
Indices: 802085--802164 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
802075 TTCTATTATA
802085 TATATATATATATATATATGAAGATACTATAAGCAGAT
1 TATATATATATATATATATGAAGATACTATAAGCAGAT
802123 TATATATATATATATATATGAAGATACTATAAGCAGAT
1 TATATATATATATATATATGAAGATACTATAAGCAGAT
802161 TATA
1 TATA
802165 CGAGTCGAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (38 bp):
TATATATATATATATATATGAAGATACTATAAGCAGAT
Found at i:808415 original size:15 final size:16
Alignment explanation
Indices: 808385--808431 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
808375 TTGATTTATT
*
808385 TTAAATTTAATA-ATA
1 TTAAATATAATATATA
*
808400 TTAAATATGAT-TATA
1 TTAAATATAATATATA
808415 -TAAATATAATATATA
1 TTAAATATAATATATA
808430 TT
1 TT
808432 TATTAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 9 0.35
15 16 0.62
16 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TTAAATATAATATATA
Found at i:808475 original size:23 final size:22
Alignment explanation
Indices: 808410--808475 Score: 55
Period size: 24 Copynumber: 2.9 Consensus size: 22
808400 TTAAATATGA
*
808410 TTATATAA-ATATAATATATAT
1 TTATAAAATATATAATATATAT
808431 TTATTAAAATATGATAAGTATATAT
1 TTA-TAAAATAT-ATAA-TATATAT
*
808456 CTTA-AAATTTATATAATATA
1 -TTATAAA-ATATATAATATA
808476 AATAATTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
21 3 0.08
22 4 0.11
23 6 0.16
24 11 0.30
25 10 0.27
26 3 0.08
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (22 bp):
TTATAAAATATATAATATATAT
Found at i:808516 original size:27 final size:27
Alignment explanation
Indices: 808450--808539 Score: 67
Period size: 27 Copynumber: 3.1 Consensus size: 27
808440 TATGATAAGT
808450 ATATATCTTAAAATTTATATAATATAAATAATTA
1 ATATATC--AAAATTTATATAA-AT--ATAA--A
*
808484 ACATATCAAAATTTATATAAATATAAA
1 ATATATCAAAATTTATATAAATATAAA
* *
808511 ATATATTAAAATATGAT-TAAA-ATAAA
1 ATATATCAAAAT-TTATATAAATATAAA
808537 ATA
1 ATA
808540 AAAATATGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
26 8 0.16
27 15 0.29
28 3 0.06
29 4 0.08
31 2 0.04
32 13 0.25
34 6 0.12
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (27 bp):
ATATATCAAAATTTATATAAATATAAA
Found at i:808522 original size:17 final size:17
Alignment explanation
Indices: 808470--808524 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
808460 AAATTTATAT
808470 AATAT-AAATA-ATTAA
1 AATATAAAATATATTAA
* *
808485 CATATCAAAATTTA-TATA
1 AATAT-AAAATATATTA-A
808503 AATATAAAATATATTAA
1 AATATAAAATATATTAA
808520 AATAT
1 AATAT
808525 GATTAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 4 0.13
17 19 0.61
18 8 0.26
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
AATATAAAATATATTAA
Found at i:808531 original size:11 final size:11
Alignment explanation
Indices: 808507--808548 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
808497 TATATAAATA
808507 TAAAATAT-AT
1 TAAAATATGAT
808517 TAAAATATGAT
1 TAAAATATGAT
**
808528 TAAAATAAAAT
1 TAAAATATGAT
*
808539 AAAAATATGA
1 TAAAATATGA
808549 ACATAATACG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (11 bp):
TAAAATATGAT
Found at i:809086 original size:22 final size:22
Alignment explanation
Indices: 809061--809105 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
809051 TCAATATTTA
*
809061 TAAATATTTTAAAAATTAAATT
1 TAAATATATTAAAAATTAAATT
* * *
809083 TAAATCTATTAAATATTATATT
1 TAAATATATTAAAAATTAAATT
809105 T
1 T
809106 TTTAAATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAATATATTAAAAATTAAATT
Found at i:809626 original size:26 final size:27
Alignment explanation
Indices: 809581--809666 Score: 97
Period size: 26 Copynumber: 3.2 Consensus size: 27
809571 TCTAGATATC
809581 TAATGTAAATATAATA--ATATTAAATA
1 TAAT-TAAATATAATATGATATTAAATA
* *
809607 TAATTAAATA-AATATGATATAAAAAA
1 TAATTAAATATAATATGATATTAAATA
* *
809633 TAATTAAAATATGATATGAAATTAAATA
1 TAATT-AAATATAATATGATATTAAATA
809661 TAATTA
1 TAATTA
809667 TAACATGATA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
24 4 0.08
25 6 0.12
26 17 0.34
27 6 0.12
28 17 0.34
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (27 bp):
TAATTAAATATAATATGATATTAAATA
Found at i:809634 original size:28 final size:27
Alignment explanation
Indices: 809601--809666 Score: 68
Period size: 23 Copynumber: 2.4 Consensus size: 27
809591 ATAATAATAT
809601 TAAATATAATTAAATAAATATGATAT-AA
1 TAAATATAATT-AA-AAATATGATATGAA
809629 -AAA-ATAATT-AAAATATGATATGAAA
1 TAAATATAATTAAAAATATGATATG-AA
809654 TTAAATATAATTA
1 -TAAATATAATTA
809667 TAACATGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
23 11 0.34
24 1 0.03
25 2 0.06
26 6 0.19
27 6 0.19
28 6 0.19
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.35
Consensus pattern (27 bp):
TAAATATAATTAAAAATATGATATGAA
Found at i:809674 original size:28 final size:27
Alignment explanation
Indices: 809599--809676 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 27
809589 ATATAATAAT
* *
809599 ATTAAATATAATTAAATA-AATATGAT
1 ATTAAATATAATTAAATATGATATGAA
* *
809625 ATAAAAAATAATTAAAATATGATATGAA
1 ATTAAATATAATT-AAATATGATATGAA
*
809653 ATTAAATATAATTATAACATGATA
1 ATTAAATATAATTA-AATATGATA
809677 AAATATATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
26 11 0.26
27 6 0.14
28 25 0.60
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (27 bp):
ATTAAATATAATTAAATATGATATGAA
Found at i:809680 original size:26 final size:26
Alignment explanation
Indices: 809588--809680 Score: 75
Period size: 28 Copynumber: 3.5 Consensus size: 26
809578 ATCTAATGTA
* *
809588 AATATAATAATATTAAATATAATTAAAT
1 AATATGATAAAATTAAATATAATT--AT
* *
809616 AAATATGATATAA--AAA-ATAATTAA
1 -AATATGATAAAATTAAATATAATTAT
809640 AATATGATATGAAATTAAATATAATTAT
1 AATATGATA--AAATTAAATATAATTAT
*
809668 AACATGATAAAAT
1 AATATGATAAAAT
809681 ATATAAAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
23 9 0.17
24 1 0.02
25 2 0.04
26 10 0.19
27 6 0.12
28 15 0.29
29 9 0.17
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (26 bp):
AATATGATAAAATTAAATATAATTAT
Found at i:810229 original size:22 final size:23
Alignment explanation
Indices: 810179--810229 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 23
810169 ACATGCACTG
*
810179 TATTATTTTTATATAAAATAAAT
1 TATTATTATTATATAAAATAAAT
810202 TAATTATTATTA-A-AAAATAAACT
1 T-ATTATTATTATATAAAATAAA-T
810225 TATTA
1 TATTA
810230 AATTAGGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 12 0.48
23 4 0.16
24 9 0.36
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TATTATTATTATATAAAATAAAT
Found at i:810271 original size:21 final size:22
Alignment explanation
Indices: 810228--810275 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
810218 ATAAACTTAT
* * *
810228 TAAATTAGGTATTTGTTATTAA
1 TAAATTAGATATTTATTAATAA
810250 TAAATTA-ATATTTATTAATAA
1 TAAATTAGATATTTATTAATAA
810271 TAAAT
1 TAAAT
810276 GTCTTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (22 bp):
TAAATTAGATATTTATTAATAA
Found at i:813225 original size:64 final size:63
Alignment explanation
Indices: 813043--813266 Score: 183
Period size: 63 Copynumber: 3.6 Consensus size: 63
813033 TGGCCATTTT
* * * ** * *
813043 CAACTGTAAAACAATTCCCAACAAGTGAAATCAACCTACCA-AATCAACTAAACCTT-AAATTA
1 CAACTGAAAAACAATTCCAAACAAGTAAAATCAACCT-TTATAATTAGCTAAACCTTAAAATTA
* * ** * * * *
813105 CAACTGCAAAACAATTCTC--CCAAACAAAAT-TACC-TAAAAGATCAGCTAAACCTT-AAATTA
1 CAACTGAAAAACAATTC-CAAACAAGTAAAATCAACCTTTATA-ATTAGCTAAACCTTAAAATTA
*
813165 CCACTGCAAAAAACAATTCCAAACAAGTAAAATCAACCTTTATAATTAGCTAAACCTTAAAATTA
1 CAACTG--AAAAACAATTCCAAACAAGTAAAATCAACCTTTATAATTAGCTAAACCTTAAAATTA
* * *
813230 CAACTGTAAAACGATTCCCAACAAGTAAAATCAACCT
1 CAACTGAAAAACAATTCCAAACAAGTAAAATCAACCT
813267 AAAAAATCAT
Statistics
Matches: 130, Mismatches: 22, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
58 1 0.01
59 1 0.01
60 27 0.21
61 8 0.06
62 26 0.20
63 37 0.28
64 16 0.12
65 14 0.11
ACGTcount: A:0.48, C:0.25, G:0.05, T:0.22
Consensus pattern (63 bp):
CAACTGAAAAACAATTCCAAACAAGTAAAATCAACCTTTATAATTAGCTAAACCTTAAAATTA
Found at i:813293 original size:54 final size:54
Alignment explanation
Indices: 813225--813398 Score: 204
Period size: 54 Copynumber: 3.0 Consensus size: 54
813215 TAAACCTTAA
* *
813225 AATTACAACTGTAAAACGATTCCCAACAAGTAAAATCAACCTAAAAAATCATCT
1 AATTACAACTGTAAAACAATTCCCAACAAGTAAAATCAAACTAAAAAATCATCT
*
813279 AATTACAACTGTAAAACAATTCCCAACAAGTAAAATCAAACTAAAAAATGAGCTAAACCTT
1 AATTACAACTGTAAAACAATTCCCAACAAGTAAAATCAAACTAAAAAAT---C---ATC-T
* * *
813340 AAATTACAACTGTATAAAACAATTACCAACAAGTAAAATCAAACTAAAAGATCAGCT
1 -AATTACAACTG--TAAAACAATTCCCAACAAGTAAAATCAAACTAAAAAATCATCT
813397 AA
1 AA
813399 ACCTTAAAAC
Statistics
Matches: 104, Mismatches: 6, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
54 47 0.45
56 2 0.02
57 2 0.02
58 2 0.02
60 2 0.02
61 2 0.02
62 11 0.11
64 36 0.35
ACGTcount: A:0.53, C:0.20, G:0.06, T:0.21
Consensus pattern (54 bp):
AATTACAACTGTAAAACAATTCCCAACAAGTAAAATCAAACTAAAAAATCATCT
Found at i:813316 original size:117 final size:117
Alignment explanation
Indices: 813174--813398 Score: 326
Period size: 117 Copynumber: 1.9 Consensus size: 117
813164 ACCACTGCAA
* ** * *
813174 AAAACAATTCCAAACAAGTAAAATCAACCTTTATAATTAGCTAAACCTTAAAATTACAACTG-TA
1 AAAACAATTCCAAACAAGTAAAATCAAACTAAAAAATGAGCTAAACCTT-AAATTACAACTGATA
* * * *
813238 AAACGATTCCCAACAAGTAAAATCAACCTAAAAAATCATCTAATTACAACTGT
65 AAACAATTACCAACAAGTAAAATCAAACTAAAAAATCAGCTAATTACAACTGT
*
813291 AAAACAATTCCCAACAAGTAAAATCAAACTAAAAAATGAGCTAAACCTTAAATTACAACTGTATA
1 AAAACAATTCCAAACAAGTAAAATCAAACTAAAAAATGAGCTAAACCTTAAATTACAACTG-ATA
*
813356 AAACAATTACCAACAAGTAAAATCAAACTAAAAGATCAGCTAA
65 AAACAATTACCAACAAGTAAAATCAAACTAAAAAATCAGCTAA
813399 ACCTTAAAAC
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
116 12 0.13
117 43 0.45
118 40 0.42
ACGTcount: A:0.52, C:0.20, G:0.06, T:0.22
Consensus pattern (117 bp):
AAAACAATTCCAAACAAGTAAAATCAAACTAAAAAATGAGCTAAACCTTAAATTACAACTGATAA
AACAATTACCAACAAGTAAAATCAAACTAAAAAATCAGCTAATTACAACTGT
Found at i:813369 original size:64 final size:62
Alignment explanation
Indices: 813279--813406 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 62
813269 AAAATCATCT
* *
813279 AATTACAACTGTAAAACAATTCCCAACAAGTAAAATCAAACTAAAAAATGAGCTAAACCTTA
1 AATTACAACTGTAAAACAATTACCAACAAGTAAAATCAAACTAAAAAATCAGCTAAACCTTA
*
813341 AATTACAACTGTATAAAACAATTACCAACAAGTAAAATCAAACTAAAAGATCAGCTAAACCTTA
1 AATTACAACTG--TAAAACAATTACCAACAAGTAAAATCAAACTAAAAAATCAGCTAAACCTTA
813405 AA
1 AA
813407 ACCATGCAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
62 11 0.18
64 50 0.82
ACGTcount: A:0.54, C:0.19, G:0.06, T:0.21
Consensus pattern (62 bp):
AATTACAACTGTAAAACAATTACCAACAAGTAAAATCAAACTAAAAAATCAGCTAAACCTTA
Found at i:813375 original size:181 final size:185
Alignment explanation
Indices: 813043--813407 Score: 442
Period size: 181 Copynumber: 2.0 Consensus size: 185
813033 TGGCCATTTT
*
813043 CAACTGTAAAACAATTCCCAACAAGTGAAATCAACCTACCAAATCAACTAAACCTTAAATTACAA
1 CAACTGTAAAACAATTCCCAACAAGTAAAATCAACCTA-CAAA-CAACTAAACCTTAAATTACAA
* * * *
813108 CTGCAAAACAATTCTCCCAAACAAAATTACCTAAAAGATCAGCTAAACCTTAAATTACCACTGCA
64 CTGCAAAACAATTCTCCCAAACAAAATAAACTAAAAAATCAGCTAAACCTTAAATTACAACTGCA
* * * *
813173 AAAAACAATTCCAAACAAGTAAAATCAACCTTTATA-ATTAGCTAAACCTTAAAATTA
129 AAAAACAATTCCAAACAAGTAAAATCAAAC-TAAAAGATCAGCTAAACCTTAAAATTA
* * *
813230 CAACTGTAAAACGATTCCCAACAAGTAAAATCAACCTA-AAA-AA-T-CATC-T-AATTACAACT
1 CAACTGTAAAACAATTCCCAACAAGTAAAATCAACCTACAAACAACTAAACCTTAAATTACAACT
* ** * *
813289 GTAAAACAATTC-CCAACAAGTAAAATCAAACTAAAAAATGAGCTAAACCTTAAATTACAACTGT
66 GCAAAACAATTCTCC--CAAACAAAAT-AAACTAAAAAATCAGCTAAACCTTAAATTACAACTGC
*
813353 ATAAAACAATTACC-AACAAGTAAAATCAAACTAAAAGATCAGCTAAACCTTAAAA
128 AAAAAACAATT-CCAAACAAGTAAAATCAAACTAAAAGATCAGCTAAACCTTAAAA
813408 CCATGCAATT
Statistics
Matches: 155, Mismatches: 18, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
178 2 0.01
179 21 0.14
180 12 0.08
181 76 0.49
182 3 0.02
183 2 0.01
185 3 0.02
187 36 0.23
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.22
Consensus pattern (185 bp):
CAACTGTAAAACAATTCCCAACAAGTAAAATCAACCTACAAACAACTAAACCTTAAATTACAACT
GCAAAACAATTCTCCCAAACAAAATAAACTAAAAAATCAGCTAAACCTTAAATTACAACTGCAAA
AAACAATTCCAAACAAGTAAAATCAAACTAAAAGATCAGCTAAACCTTAAAATTA
Found at i:816393 original size:2 final size:2
Alignment explanation
Indices: 816386--816428 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
816376 AGTAAATCTC
816386 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
816428 A
1 A
816429 CCCTAAGTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:816651 original size:16 final size:17
Alignment explanation
Indices: 816632--816666 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
816622 TTTTATTATC
*
816632 TTTA-TATTTTTAAATT
1 TTTATTATTTTAAAATT
816648 TTTATTATTTTAAAATT
1 TTTATTATTTTAAAATT
816665 TT
1 TT
816667 AATTTCTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATTATTTTAAAATT
Found at i:817439 original size:19 final size:19
Alignment explanation
Indices: 817415--817453 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
817405 TCAACATCCA
817415 TAATCTCTTTTTCTATCAT
1 TAATCTCTTTTTCTATCAT
817434 TAATCTCTTTTTCTATCAT
1 TAATCTCTTTTTCTATCAT
817453 T
1 T
817454 GAGTTTCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (19 bp):
TAATCTCTTTTTCTATCAT
Found at i:818195 original size:28 final size:29
Alignment explanation
Indices: 818136--818193 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
818126 CCAAAACATG
**
818136 TAAATTTTAATTAAAAAATATTTTTTATT
1 TAAATTTTAATTAAAAAATATTAATTATT
*
818165 TAAA-TTTAATTATAAAATATATAATTATT
1 TAAATTTTAATTAAAAAATAT-TAATTATT
818194 AATATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TAAATTTTAATTAAAAAATATTAATTATT
Found at i:818216 original size:19 final size:21
Alignment explanation
Indices: 818169--818217 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
818159 TTTATTTAAA
818169 TTTAATTATAAAATATATAATT
1 TTTAA-TATAAAATATATAATT
* *
818191 ATTAATATAAAA-ATAT-TTT
1 TTTAATATAAAATATATAATT
818210 TTTAATAT
1 TTTAATAT
818218 TTTTAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 9 0.38
20 4 0.17
21 7 0.29
22 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAATATAAAATATATAATT
Found at i:820819 original size:20 final size:20
Alignment explanation
Indices: 820728--820821 Score: 53
Period size: 20 Copynumber: 5.1 Consensus size: 20
820718 ATACTTGATT
* *
820728 TATTAAAAATAATAAAAATA
1 TATTAAAATTAATATAAATA
* *
820748 TAATAAAATATAA-ATATATA
1 TATTAAAAT-TAATATAAATA
* *
820768 TTTTAAAATT--TATATAT-
1 TATTAAAATTAATATAAATA
*
820785 TA-T-ATATT-AT-T-AATA
1 TATTAAAATTAATATAAATA
820800 TATTAAAATTAATATAAATA
1 TATTAAAATTAATATAAATA
820820 TA
1 TA
820822 AAATATTTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 18
0.66 0.12 0.22
Matches are distributed among these distances:
14 2 0.04
15 7 0.13
16 3 0.05
17 5 0.09
18 8 0.15
19 2 0.04
20 25 0.45
21 3 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TATTAAAATTAATATAAATA
Found at i:823987 original size:20 final size:20
Alignment explanation
Indices: 823947--823988 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
823937 AAAAACTCTG
**
823947 AATGTATCGATACAATGAAT
1 AATGTATCGATACAAACAAT
*
823967 AATGTATTGATACAAACAAT
1 AATGTATCGATACAAACAAT
823987 AA
1 AA
823989 CAATTTGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAAACAAT
Found at i:824671 original size:16 final size:16
Alignment explanation
Indices: 824647--824689 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
824637 AAAACAGTTC
* *
824647 AAATCTAAAATAATCTA
1 AAAT-TAAAATAACCCA
824664 AAATTAAAATAACCCA
1 AAATTAAAATAACCCA
824680 AAATTAAAAT
1 AAATTAAAAT
824690 TCAAAGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATTAAAATAACCCA
Found at i:824720 original size:8 final size:8
Alignment explanation
Indices: 824707--824740 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
824697 AAAATGACCT
824707 AAATTTAA
1 AAATTTAA
824715 AAATTTAA
1 AAATTTAA
824723 AAACTTTAA
1 AAA-TTTAA
824732 ATAATTTAA
1 A-AATTTAA
824741 CTTAAACCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 11 0.46
9 11 0.46
10 2 0.08
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (8 bp):
AAATTTAA
Found at i:825130 original size:21 final size:20
Alignment explanation
Indices: 825088--825131 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
825078 TTACTAGATA
*
825088 AAAAATAAATAATATTACAT
1 AAAAATAAAAAATATTACAT
825108 AAAAATAAAAATATAATTA-AT
1 AAAAATAAAAA-AT-ATTACAT
825129 AAA
1 AAA
825132 TTTTTTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 7 0.33
22 4 0.19
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAATAAAAAATATTACAT
Found at i:827239 original size:19 final size:19
Alignment explanation
Indices: 827199--827284 Score: 77
Period size: 19 Copynumber: 4.3 Consensus size: 19
827189 TTTTGCTTTA
827199 ATAAAAATGAT-TATAATATT
1 ATAAAAAT-ATATA-AATATT
*
827219 AT-AAAATACATAAATATTT
1 ATAAAAATATATAAATA-TT
827238 ATCAAAAAATAATATAAATATT
1 AT--AAAAAT-ATATAAATATT
*
827260 ATAAAAATATATGAATATT
1 ATAAAAATATATAAATATT
*
827279 TTAAAA
1 ATAAAA
827285 TCTATATAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
18 5 0.09
19 26 0.46
20 8 0.14
22 9 0.16
23 8 0.14
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
ATAAAAATATATAAATATT
Found at i:827295 original size:19 final size:19
Alignment explanation
Indices: 827210--827296 Score: 79
Period size: 19 Copynumber: 4.4 Consensus size: 19
827200 TAAAAATGAT
*
827210 TATAATATTATAAAATACA
1 TATAATATTATAAAATATA
*
827229 TA-AATATTTATCAAAAAATAA
1 TATAATA-TTAT-AAAATAT-A
827250 TATAAATATTATAAAA-ATA
1 TAT-AATATTATAAAATATA
* *
827269 TATGAATATTTTAAAATCTA
1 TAT-AATATTATAAAATATA
827289 TATAATAT
1 TATAATAT
827297 AAATTATTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
18 4 0.07
19 26 0.46
20 12 0.21
21 7 0.12
22 4 0.07
23 4 0.07
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (19 bp):
TATAATATTATAAAATATA
Found at i:827296 original size:38 final size:40
Alignment explanation
Indices: 827201--827279 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 40
827191 TTGCTTTAAT
*
827201 AAAAATGATTATAATATTATAAAATACATAAATATTTATCA
1 AAAAAT-AATATAATATTATAAAATACATAAATATTTATCA
* *
827242 AAAAATAATATAAATATTATAAAAATATATGAATATTT
1 AAAAATAATAT-AATATTAT-AAAATACATAAATATTT
827280 TAAAATCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 4 0.12
41 14 0.42
42 15 0.45
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (40 bp):
AAAAATAATATAATATTATAAAATACATAAATATTTATCA
Found at i:827810 original size:2 final size:2
Alignment explanation
Indices: 827803--827841 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
827793 TTGCATCTTT
827803 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
827842 TAATTTGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:828442 original size:21 final size:21
Alignment explanation
Indices: 828408--828447 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
828398 TATTTTTATT
828408 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
828429 TAAATATTAA-TATAAAATA
1 TAAAT-TTAATTATAAAATA
828448 ATTTTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:828772 original size:26 final size:27
Alignment explanation
Indices: 828739--828802 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
828729 TATACTATAA
828739 ATATATTTCAAATATATT-ATA-TTTAT
1 ATATATTT-AAATATATTAATAGTTTAT
*
828765 ATATATTTTAATATATTAATAGTTTAT
1 ATATATTTAAATATATTAATAGTTTAT
*
828792 AT-TATTAAAAT
1 ATATATTTAAAT
828803 TTTAAAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 18 0.55
27 7 0.21
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
ATATATTTAAATATATTAATAGTTTAT
Found at i:828792 original size:23 final size:22
Alignment explanation
Indices: 828717--828825 Score: 67
Period size: 23 Copynumber: 4.7 Consensus size: 22
828707 TTTCCATATT
* *
828717 TATATATTTTATTATACTATAAA
1 TATATATTTTAATATATTA-AAA
** *
828740 TATAT-TTCAAATATATTATATTTA
1 TATATATTTTAATATATTA-A--AA
*
828764 TATATATTTTAATATATTAATAG
1 TATATATTTTAATATATTAA-AA
* * *
828787 TTTATATTATTAAAATTTTAAAA
1 TATATATT-TTAATATATTAAAA
828810 TATATATTTATAATAT
1 TATATATTT-TAATAT
828826 CATATATTAA
Statistics
Matches: 66, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
22 12 0.18
23 26 0.39
24 17 0.26
25 11 0.17
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (22 bp):
TATATATTTTAATATATTAAAA
Found at i:828792 original size:25 final size:26
Alignment explanation
Indices: 828739--828793 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
828729 TATACTATAA
*
828739 ATATATTTCAAATATATTATATTTAT
1 ATATATTTCAAATATATTATAGTTAT
*
828765 ATATATTT-TAATATATTAATAGTT-T
1 ATATATTTCAAATATATT-ATAGTTAT
828790 ATAT
1 ATAT
828794 TATTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (26 bp):
ATATATTTCAAATATATTATAGTTAT
Found at i:828993 original size:22 final size:22
Alignment explanation
Indices: 828965--829006 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
828955 ATTAAAAAAT
828965 TATTTTTATAA-TAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
828987 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
829007 AATAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:829043 original size:29 final size:28
Alignment explanation
Indices: 828974--829043 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
828964 TTATTTTTAT
* *
828974 AATAAT-ATTTATATATTTTTATAATTA
1 AATAATAATTTAAATATTTTTATAAATA
* * *
829001 AAT-TTAAATAAAATATTTTTTATAAATA
1 AATAATAATTTAAATA-TTTTTATAAATA
829029 AATAATAATTTAAAT
1 AATAATAATTTAAAT
829044 CAAAATGAAC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
26 1 0.03
27 9 0.28
28 14 0.44
29 8 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
AATAATAATTTAAATATTTTTATAAATA
Found at i:829327 original size:2 final size:2
Alignment explanation
Indices: 829320--829345 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
829310 TTGATGTTAA
829320 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
829346 GTATGTATGT
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):
AT
Found at i:837199 original size:13 final size:14
Alignment explanation
Indices: 837176--837205 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
837166 TAAAATTTAT
837176 ATATATATATATAC
1 ATATATATATATAC
837190 ATAT-TATATATAC
1 ATATATATATATAC
837203 ATA
1 ATA
837206 CTGATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:837451 original size:9 final size:9
Alignment explanation
Indices: 837422--837455 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
837412 TAATGTAATG
837422 ATTTTTTAT
1 ATTTTTTAT
837431 ATTATATTTAT
1 ATT-T-TTTAT
837442 ATTTTTTAT
1 ATTTTTTAT
837451 ATTTT
1 ATTTT
837456 AATTATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 13 0.57
10 2 0.09
11 8 0.35
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:837471 original size:26 final size:28
Alignment explanation
Indices: 837425--837538 Score: 66
Period size: 26 Copynumber: 4.2 Consensus size: 28
837415 TGTAATGATT
* *
837425 TTTTATATTATATTTATATTTTTTA-TA
1 TTTTATATTATATTTAAATTTTATATTA
837452 TTTTA-ATTAT-TTTAAAATTTTATATTA
1 TTTTATATTATATTT-AAATTTTATATTA
* * *
837479 -TTTA-AATAAATTTTAATTATT-TATTA
1 TTTTATATTATATTTAAATT-TTATATTA
* *
837505 ATTTAT-TT-TATATAAATTTTGATA-TA
1 TTTTATATTATATTTAAATTTT-ATATTA
837531 TTTATATA
1 TTT-TATA
837539 AATTTTTATA
Statistics
Matches: 67, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
25 5 0.07
26 40 0.60
27 22 0.33
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (28 bp):
TTTTATATTATATTTAAATTTTATATTA
Found at i:837491 original size:20 final size:19
Alignment explanation
Indices: 837466--837599 Score: 97
Period size: 20 Copynumber: 7.1 Consensus size: 19
837456 AATTATTTTA
*
837466 AAATTTTATATTATTTAAAT
1 AAATTTTATA-TATTTATAT
837486 AAATTTTA-ATTATTTAT-T
1 AAATTTTATA-TATTTATAT
837504 -AA--TT-TAT-TTTATAT
1 AAATTTTATATATTTATAT
837518 AAATTTTGATATATTTATAT
1 AAATTTT-ATATATTTATAT
837538 AAATTTT-TATATTTATAT
1 AAATTTTATATATTTATAT
* *
837556 ATATTTATAATATAATTTTAAAAT
1 AAATTT-T-ATAT-A-TTT-ATAT
*
837580 AATTTTTATATATTT-TAT
1 AAATTTTATATATTTATAT
837598 AA
1 AA
837600 TTAATTAATA
Statistics
Matches: 94, Mismatches: 6, Indels: 30
0.72 0.05 0.23
Matches are distributed among these distances:
13 5 0.05
14 2 0.02
15 5 0.05
17 4 0.04
18 21 0.22
19 12 0.13
20 25 0.27
21 4 0.04
22 5 0.05
23 4 0.04
24 7 0.07
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (19 bp):
AAATTTTATATATTTATAT
Found at i:837499 original size:19 final size:18
Alignment explanation
Indices: 837451--837501 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
837441 TATTTTTTAT
*
837451 ATTTTAATTATTT-TAAA
1 ATTTTAATTATTTAAAAA
837468 ATTTTATATTATTTAAATAA
1 ATTTTA-ATTATTTAAA-AA
837488 ATTTTAATTATTTA
1 ATTTTAATTATTTA
837502 TTAATTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 6 0.20
18 7 0.23
19 9 0.30
20 8 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTAATTATTTAAAAA
Found at i:837543 original size:10 final size:10
Alignment explanation
Indices: 837426--837568 Score: 64
Period size: 10 Copynumber: 15.1 Consensus size: 10
837416 GTAATGATTT
837426 TTTATATTATA
1 TTTATA-TATA
837437 TTTATAT-T-
1 TTTATATATA
837445 TTT-TATAT-
1 TTTATATATA
837453 TTTA-AT-TA
1 TTTATATATA
*
837461 TTT-TA-AAA
1 TTTATATATA
837469 TTT-TATATTA
1 TTTATATA-TA
* *
837479 TTTAAATAAA
1 TTTATATATA
837489 TTT-TA-ATTA
1 TTTATATA-TA
*
837498 TTTATTAATTTA
1 TTTA-T-ATATA
*
837510 TTTTATATAAA
1 -TTTATATATA
837521 TTT-TGATATA
1 TTTAT-ATATA
*
837531 TTTATATAAA
1 TTTATATATA
837541 TTT-T-TATA
1 TTTATATATA
837549 TTTATATATA
1 TTTATATATA
837559 TTTATA-ATA
1 TTTATATATA
837568 T
1 T
837569 AATTTTAAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 38
0.67 0.08 0.25
Matches are distributed among these distances:
7 4 0.04
8 26 0.25
9 14 0.14
10 36 0.35
11 14 0.14
12 4 0.04
13 4 0.04
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.62
Consensus pattern (10 bp):
TTTATATATA
Found at i:837548 original size:18 final size:18
Alignment explanation
Indices: 837437--837561 Score: 86
Period size: 18 Copynumber: 7.1 Consensus size: 18
837427 TTATATTATA
* *
837437 TTTATATTT-TTTATATT
1 TTTATATTTATATAAATT
*
837454 TTAATTATTT-TA-AAATT
1 TTTA-TATTTATATAAATT
*
837471 TTATATTATTTAAATAAATT
1 TT-TA-TATTTATATAAATT
*
837491 TTAATTATTTAT-T-AA--
1 TTTA-TATTTATATAAATT
837506 TTTAT-TTTATATAAATT
1 TTTATATTTATATAAATT
837523 TTGATATATTTATATAAATT
1 TT--TATATTTATATAAATT
*
837543 TTTATATTTATATATATT
1 TTTATATTTATATAAATT
837561 T
1 T
837562 ATAATATAAT
Statistics
Matches: 88, Mismatches: 9, Indels: 21
0.75 0.08 0.18
Matches are distributed among these distances:
13 5 0.06
14 2 0.02
15 5 0.06
17 13 0.15
18 30 0.34
19 12 0.14
20 21 0.24
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (18 bp):
TTTATATTTATATAAATT
Found at i:837633 original size:18 final size:18
Alignment explanation
Indices: 837599--837633 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
837589 ATATTTTATA
**
837599 ATTAATTAATATTTAAAT
1 ATTAATTAATAAATAAAT
837617 ATTAATTAATAAATAAA
1 ATTAATTAATAAATAAA
837634 GGTTAATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTAATTAATAAATAAAT
Found at i:837796 original size:19 final size:19
Alignment explanation
Indices: 837722--837796 Score: 71
Period size: 19 Copynumber: 3.9 Consensus size: 19
837712 TATATTGATA
* *
837722 TATTTTAAATAAAAAATTAT
1 TATTTAAAATAAAAAA-AAT
* *
837742 TA-TTAATATAAAAATAAT
1 TATTTAAAATAAAAAAAAT
* * *
837760 AATTTAAATTAAATAAAAT
1 TATTTAAAATAAAAAAAAT
837779 TATTTAAAATAAAAAAAA
1 TATTTAAAATAAAAAAAA
837797 AATCATGAAC
Statistics
Matches: 42, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
18 3 0.07
19 37 0.88
20 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TATTTAAAATAAAAAAAAT
Found at i:837967 original size:10 final size:10
Alignment explanation
Indices: 837942--837985 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
837932 TGACGAATCA
837942 AATTTTAATAT
1 AATTTTAAT-T
*
837953 AATTTTTATT
1 AATTTTAATT
*
837963 AATTTAAATT
1 AATTTTAATT
837973 AA-TTTAATT
1 AATTTTAATT
837982 AATT
1 AATT
837986 AATAATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 8 0.29
10 12 0.43
11 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
AATTTTAATT
Found at i:838556 original size:16 final size:15
Alignment explanation
Indices: 838530--838559 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
838520 AAGATATTTT
838530 AATTTTGAATTTGAG
1 AATTTTGAATTTGAG
838545 AATTTGTGAATTTGA
1 AATTT-TGAATTTGA
838560 ATTTAGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (15 bp):
AATTTTGAATTTGAG
Found at i:838921 original size:2 final size:2
Alignment explanation
Indices: 838916--838956 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
838906 AAAGAAGGAA
838916 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
838957 ATTAGCTTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:839173 original size:21 final size:22
Alignment explanation
Indices: 839149--839189 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
839139 TGATACATAC
*
839149 TTATAACAT-TATTTAAAATGA
1 TTATAAAATATATTTAAAATGA
*
839170 TTATAAAATATTTTTAAAAT
1 TTATAAAATATATTTAAAAT
839190 ATTTTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TTATAAAATATATTTAAAATGA
Found at i:839277 original size:20 final size:19
Alignment explanation
Indices: 839252--839291 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
839242 ACTTAAATTA
*
839252 TAATTTAAGTTATAATAAAC
1 TAATTTAAATTATAA-AAAC
839272 TAATTTAAATTATAAAAAC
1 TAATTTAAATTATAAAAAC
839291 T
1 T
839292 CTTATTCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (19 bp):
TAATTTAAATTATAAAAAC
Found at i:839466 original size:24 final size:23
Alignment explanation
Indices: 839430--839474 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
839420 ATATTTAATT
*
839430 TTATCATTATATTAATTAATTTTA
1 TTATCATCATATT-ATTAATTTTA
* *
839454 TTATCATCGTATTTTTAATTT
1 TTATCATCATATTATTAATTT
839475 CATCAAACCC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATCATCATATTATTAATTTTA
Found at i:840026 original size:22 final size:23
Alignment explanation
Indices: 839983--840026 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
839973 GATAATTGAT
* * *
839983 ATATTTTTTTAATTTAATAAAAG
1 ATATTTATTAAATGTAATAAAAG
840006 ATATTTATTAAATGTAA-AAAA
1 ATATTTATTAAATGTAATAAAA
840027 TAATAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (23 bp):
ATATTTATTAAATGTAATAAAAG
Found at i:840931 original size:3 final size:3
Alignment explanation
Indices: 840923--840953 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
840913 TTGAATTAAA
*
840923 TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
840954 CATTTGTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:847412 original size:2 final size:2
Alignment explanation
Indices: 847407--847435 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
847397 AAAAAACTGA
847407 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
847436 GCTTCAAGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:856913 original size:36 final size:36
Alignment explanation
Indices: 856866--856936 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
856856 AAAGGGCAAG
**
856866 TCAATAGTAAAATCATGAATACTTACTTCTTGTGGA
1 TCAATAGTAAAATCATGAATAAATACTTCTTGTGGA
856902 TCAATAGTAAAATCATGAATAAATACTTCTTGTGG
1 TCAATAGTAAAATCATGAATAAATACTTCTTGTGG
856937 GTGAAACTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (36 bp):
TCAATAGTAAAATCATGAATAAATACTTCTTGTGGA
Found at i:862602 original size:24 final size:24
Alignment explanation
Indices: 862575--862623 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
862565 TAATAAAAAG
862575 TATTAATTATATTAAAATATATTA
1 TATTAATTATATTAAAATATATTA
* *
862599 TATTAATTTTATTTAAATATATTA
1 TATTAATTATATTAAAATATATTA
862623 T
1 T
862624 TTCATAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TATTAATTATATTAAAATATATTA
Found at i:862641 original size:24 final size:23
Alignment explanation
Indices: 862584--862647 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 23
862574 GTATTAATTA
* *
862584 TATTAAAATATATTATATTAATTT
1 TATTATAATATATTAT-TTAATAT
*
862608 TATT-TAAATATATTATTTCATAAT
1 TATTAT-AATATATTATTTAAT-AT
862632 TATTATAATA-ATTATT
1 TATTATAATATATTATT
862648 AAATCATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 10 0.29
24 23 0.68
25 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTATAATATATTATTTAATAT
Found at i:862760 original size:8 final size:8
Alignment explanation
Indices: 862749--862809 Score: 53
Period size: 8 Copynumber: 8.1 Consensus size: 8
862739 AAATTTAAAA
862749 ATTTATAT
1 ATTTATAT
862757 ATTTATAT
1 ATTTATAT
862765 ATTT-TAT
1 ATTTATAT
862772 CATATTAT-T
1 -AT-TTATAT
862781 A-TTAT-T
1 ATTTATAT
*
862787 -TTTAAAT
1 ATTTATAT
862794 ATTT-TAT
1 ATTTATAT
862801 ATTTATAT
1 ATTTATAT
862809 A
1 A
862810 AAATTTAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
6 8 0.18
7 10 0.23
8 22 0.50
9 3 0.07
10 1 0.02
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTTATAT
Found at i:863728 original size:14 final size:14
Alignment explanation
Indices: 863702--863737 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
863692 ATTTAATTTA
863702 ATTTTTTA-A-ATT
1 ATTTTTTATATATT
863714 ATTTTTTATATATT
1 ATTTTTTATATATT
863728 A-TTTTTATAT
1 ATTTTTTATAT
863738 TAATATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.36
13 10 0.45
14 4 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTTTATATATT
Found at i:863766 original size:27 final size:25
Alignment explanation
Indices: 863704--863795 Score: 71
Period size: 25 Copynumber: 3.6 Consensus size: 25
863694 TTAATTTAAT
* *
863704 TTTTTAAATTATTTTTTATATATTA
1 TTTTTAAATTAATATTTATATATTA
*
863729 TTTTTATATTAATATTTATATATT-
1 TTTTTAAATTAATATTTATATATTA
** *
863753 TTATAATTAAATTAA-ATAAAAATATTA
1 TT-T--TTAAATTAATATTTATATATTA
863780 TTTTAATAAATTAATA
1 TTTT--TAAATTAATA
863796 ATAATTAAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
24 3 0.06
25 22 0.42
26 17 0.32
27 11 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TTTTTAAATTAATATTTATATATTA
Found at i:864385 original size:2 final size:2
Alignment explanation
Indices: 864378--864404 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
864368 AGCAAATAAT
864378 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
864405 TTGGTTGGGG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:865443 original size:25 final size:26
Alignment explanation
Indices: 865415--865463 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
865405 TTACATTTTG
*
865415 AATTACTGT-TATTTTTTAAAAATAT
1 AATTACTATATATTTTTTAAAAATAT
* *
865440 AATTATTATATATTTTTTTAAAAT
1 AATTACTATATATTTTTTAAAAAT
865464 TTTGTAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (26 bp):
AATTACTATATATTTTTTAAAAATAT
Found at i:865549 original size:3 final size:3
Alignment explanation
Indices: 865541--865567 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
865531 TTAGCCAGAC
865541 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
865568 AGAAGAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:865937 original size:11 final size:10
Alignment explanation
Indices: 865903--865946 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
865893 ATCAAATTTT
*
865903 ATATGAATAA
1 ATATGATTAA
865913 ATATG-TTAA
1 ATATGATTAA
865922 ATATGATTATA
1 ATATGATTA-A
*
865933 ATATGATAAA
1 ATATGATTAA
865943 ATAT
1 ATAT
865947 ATAATTATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.27
10 13 0.43
11 9 0.30
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (10 bp):
ATATGATTAA
Found at i:865944 original size:21 final size:19
Alignment explanation
Indices: 865903--865946 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
865893 ATCAAATTTT
*
865903 ATATGAATAAATATGTTAA
1 ATATGAATAAATATGTAAA
*
865922 ATATGATTATAATATGATAAA
1 ATATGAATA-AATATG-TAAA
865943 ATAT
1 ATAT
865947 ATAATTATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 6 0.29
21 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (19 bp):
ATATGAATAAATATGTAAA
Found at i:866729 original size:20 final size:20
Alignment explanation
Indices: 866706--866752 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
866696 TTTCTATAAT
866706 ATAATTAT-ATATTTATTGTA
1 ATAATTATAAT-TTTATTGTA
*
866726 ATAATTATAATTTTATTTTA
1 ATAATTATAATTTTATTGTA
*
866746 CTAATTA
1 ATAATTA
866753 ATTTATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
ATAATTATAATTTTATTGTA
Found at i:866858 original size:16 final size:15
Alignment explanation
Indices: 866807--866860 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
866797 TTTAAAAATA
866807 TTAATAAAAA-AAAC
1 TTAATAAAAATAAAC
**
866821 TTAATAAAAATATATT
1 TTAATAAAAATA-AAC
*
866837 TTAATATAAATAAAC
1 TTAATAAAAATAAAC
866852 TTAAATAAA
1 TT-AATAAA
866861 TTTAAACAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 10 0.32
15 4 0.13
16 17 0.55
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAATAAAAATAAAC
Found at i:867431 original size:3 final size:3
Alignment explanation
Indices: 867386--867419 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
867376 CACGGATAGG
867386 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
867420 GATCTGAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:867572 original size:3 final size:3
Alignment explanation
Indices: 867566--867606 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
867556 AAACAATGAT
* * *
867566 GAA GAA GAG GAA GAA AAA GAA GGA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
867607 GATAAAGGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:874714 original size:15 final size:15
Alignment explanation
Indices: 874696--874739 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
874686 TATATTATTT
* *
874696 AAAACTTAAAGATTA
1 AAAATTTAAAGATAA
*
874711 AAAATTTAAATATAA
1 AAAATTTAAAGATAA
874726 AAAATTTAAA-ATAA
1 AAAATTTAAAGATAA
874740 TTTTTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 4 0.15
15 22 0.85
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
AAAATTTAAAGATAA
Found at i:875207 original size:7 final size:7
Alignment explanation
Indices: 875190--875224 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
875180 ATTTTAAAAT
875190 AAAATTAA
1 AAAATT-A
875198 AAAATTA
1 AAAATTA
875205 AAAATTA
1 AAAATTA
875212 AAAATTA
1 AAAATTA
875219 AAAATT
1 AAAATT
875225 TATTTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAATTA
Found at i:875545 original size:25 final size:25
Alignment explanation
Indices: 875517--875564 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
875507 AAAATATATT
875517 AATTAAAAATAAAATAAAAATTTAA
1 AATTAAAAATAAAATAAAAATTTAA
** *
875542 AATTAATTATAAAATAATAATTT
1 AATTAAAAATAAAATAAAAATTT
875565 TTTAATAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AATTAAAAATAAAATAAAAATTTAA
Found at i:875663 original size:13 final size:13
Alignment explanation
Indices: 875641--875686 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
875631 ATATTATTTT
875641 AAAG-TAAAATTA
1 AAAGTTAAAATTA
875653 AAAGTTAAAATTA
1 AAAGTTAAAATTA
*
875666 AAA-TAAAAATTTTA
1 AAAGTTAAAA--TTA
875680 AAAGTTA
1 AAAGTTA
875687 TTTTAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 9 0.32
13 11 0.39
14 6 0.21
15 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (13 bp):
AAAGTTAAAATTA
Found at i:876531 original size:13 final size:13
Alignment explanation
Indices: 876513--876554 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
876503 ATATAATTTT
876513 TTTTCTTTCTTTC
1 TTTTCTTTCTTTC
876526 TTTTCTCTT-TTTC
1 TTTTCT-TTCTTTC
* *
876539 TTTCCTTCCTTTC
1 TTTTCTTTCTTTC
876552 TTT
1 TTT
876555 CATTTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.88
14 2 0.08
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTCTTTCTTTC
Found at i:876538 original size:21 final size:21
Alignment explanation
Indices: 876512--876552 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
876502 TATATAATTT
* *
876512 TTTTTCTTTCTTTCTTTTCTC
1 TTTTTCTTTCCTTCCTTTCTC
876533 TTTTTCTTTCCTTCCTTTCT
1 TTTTTCTTTCCTTCCTTTCT
876553 TTCATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTTCTTTCCTTCCTTTCTC
Found at i:876561 original size:25 final size:25
Alignment explanation
Indices: 876509--876567 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
876499 AAATATATAA
*
876509 TTTTTTTT-CTTTCTTTCTTTTCTC
1 TTTTTTTTCCTTCCTTTCTTTTCTC
*
876533 TTTTTCTTTCCTTCCTTTC-TTTCATT
1 TTTTT-TTTCCTTCCTTTCTTTTC-TC
876559 TTTTTTTTC
1 TTTTTTTTC
876568 AGCTGAATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 5 0.17
25 11 0.37
26 14 0.47
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (25 bp):
TTTTTTTTCCTTCCTTTCTTTTCTC
Found at i:877130 original size:21 final size:20
Alignment explanation
Indices: 877067--877135 Score: 52
Period size: 21 Copynumber: 3.5 Consensus size: 20
877057 ATTTAGATCG
*
877067 ATTTATTTATTTTAAATTATT
1 ATTTAATTA-TTTAAATTATT
* ** *
877088 ATTTAATTA-ATAAAAAAAT
1 ATTTAATTATTTAAATTATT
*
877107 ATTTACTTACTTTAAATTATT
1 ATTTAATTA-TTTAAATTATT
877128 A-TTAATTA
1 ATTTAATTA
877136 ATAAAAAAAT
Statistics
Matches: 35, Mismatches: 11, Indels: 5
0.69 0.22 0.10
Matches are distributed among these distances:
19 14 0.40
20 6 0.17
21 15 0.43
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTAATTATTTAAATTATT
Found at i:877144 original size:39 final size:40
Alignment explanation
Indices: 877067--877146 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
877057 ATTTAGATCG
* *
877067 ATTTATTTATTTTAAATTATTATTTAATTAATAAAAAAAT
1 ATTTACTTACTTTAAATTATTATTTAATTAATAAAAAAAT
877107 ATTTACTTACTTTAAATTATTA-TTAATTAATAAAAAAAT
1 ATTTACTTACTTTAAATTATTATTTAATTAATAAAAAAAT
877146 A
1 A
877147 ATTTTTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 18 0.47
40 20 0.53
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (40 bp):
ATTTACTTACTTTAAATTATTATTTAATTAATAAAAAAAT
Found at i:877678 original size:7 final size:7
Alignment explanation
Indices: 877660--877700 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
877650 CAATGATTTT
877660 AATTTCAA
1 AATTT-AA
877668 AATTTAA
1 AATTTAA
877675 AATTTAA
1 AATTTAA
877682 AATTTAA
1 AATTTAA
*
877689 TATTTAA
1 AATTTAA
877696 AATTT
1 AATTT
877701 TTTTATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 26 0.84
8 5 0.16
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (7 bp):
AATTTAA
Found at i:883903 original size:21 final size:22
Alignment explanation
Indices: 883879--883919 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
883869 TCTCTTCCAG
883879 ACCTCCAAAAGACAT-AATAAC
1 ACCTCCAAAAGACATCAATAAC
883900 ACCTCCAAAAGACATCAATA
1 ACCTCCAAAAGACATCAATA
883920 GAAACAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.51, C:0.29, G:0.05, T:0.15
Consensus pattern (22 bp):
ACCTCCAAAAGACATCAATAAC
Found at i:885389 original size:16 final size:16
Alignment explanation
Indices: 885322--885380 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
885312 TAATTACATG
*
885322 ATAATAGTAAGATATAAA
1 ATAATA-TAAAATA-AAA
*
885340 ATAA-AT-AATTAAAA
1 ATAATATAAAATAAAA
885354 TATAATATAAAATAAAA
1 -ATAATATAAAATAAAA
885371 ATAATATAAA
1 ATAATATAAA
885381 TTATTAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
14 3 0.09
15 7 0.20
16 13 0.37
17 8 0.23
18 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
ATAATATAAAATAAAA
Found at i:885405 original size:16 final size:16
Alignment explanation
Indices: 885336--885412 Score: 59
Period size: 16 Copynumber: 4.8 Consensus size: 16
885326 TAGTAAGATA
885336 TAAA-ATAA-ATAATT
1 TAAATATAATATAATT
* **
885350 AAAATATAATATAAAA
1 TAAATATAATATAATT
*
885366 TAAAAATAATATAAATT
1 TAAATATAATAT-AATT
* *
885383 ATTAATATATTATAATT
1 -TAAATATAATATAATT
*
885400 TAAATAAAATATA
1 TAAATATAATATA
885413 TAATAGTACA
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
14 3 0.07
15 4 0.09
16 24 0.52
17 6 0.13
18 9 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAATATAATATAATT
Found at i:885754 original size:17 final size:17
Alignment explanation
Indices: 885732--885790 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
885722 TATATTATAA
885732 TTATATTTAAAATATTT
1 TTATATTTAAAATATTT
* *
885749 TTATATTTATATTAATTT
1 TTATATTTAAAAT-ATTT
*
885767 TAATATATTAATAAT-TTT
1 TTATAT-TTAA-AATATTT
885785 TTATAT
1 TTATAT
885791 AAATTTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
17 11 0.33
18 17 0.52
19 3 0.09
20 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATATTTAAAATATTT
Found at i:885768 original size:28 final size:29
Alignment explanation
Indices: 885711--885804 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 29
885701 CATTATATTT
885711 ATATATTTTATTATATTATAATT-ATATTTAAA
1 ATAT-TTTTATTAT-TTAT-ATTAAT-TTTAAA
*
885743 ATATTTTTA-TATTTATATTAATTTTAAT
1 ATATTTTTATTATTTATATTAATTTTAAA
* * * *
885771 ATATTAATAATTTTTTATATAAATTTTAAA
1 ATATT-TTTATTATTTATATTAATTTTAAA
885801 ATAT
1 ATAT
885805 ATTCATATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
28 13 0.25
29 8 0.15
30 23 0.43
31 5 0.09
32 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
ATATTTTTATTATTTATATTAATTTTAAA
Found at i:886843 original size:18 final size:20
Alignment explanation
Indices: 886822--886868 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
886812 ACATATTAAA
886822 ATATTAATA-AT-TATTTTT
1 ATATTAATATATATATTTTT
886840 ATATTAATATTATATATTTTT
1 ATATTAATA-TATATATTTTT
886861 ATAATTAA
1 AT-ATTAA
886869 ATTTAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.36
20 2 0.08
21 9 0.36
22 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTAATATATATATTTTT
Found at i:886878 original size:22 final size:21
Alignment explanation
Indices: 886833--886878 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
886823 TATTAATAAT
*
886833 TATTTTTATATTAATATTATA
1 TATTTTTATATTAATATTAAA
886854 TATTTTTATAATTAA-ATTTAAA
1 TATTTTTAT-ATTAATA-TTAAA
886876 TAT
1 TAT
886879 CAAAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTTTATATTAATATTAAA
Found at i:887143 original size:20 final size:20
Alignment explanation
Indices: 887115--887157 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
887105 ATTTAAAAAT
*
887115 TATTTTTAT-ATTAATATTTA
1 TATTATTATAATTAA-ATTTA
887135 TATTATTATAATTAAATTTA
1 TATTATTATAATTAAATTTA
887155 TAT
1 TAT
887158 AAAAATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTATTATAATTAAATTTA
Found at i:887187 original size:28 final size:28
Alignment explanation
Indices: 887134--887188 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
887124 ATTAATATTT
**
887134 ATATTATTATAATTAAATTTATATAAAA
1 ATATTATTATAATTAAAAATATATAAAA
*
887162 ATATTATTTTAATTAATAAATA-ATAAA
1 ATATTATTATAATTAA-AAATATATAAA
887189 TTAAATTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
ATATTATTATAATTAAAAATATATAAAA
Found at i:887694 original size:3 final size:3
Alignment explanation
Indices: 887686--887717 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
887676 ATCCACGAGT
887686 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
887718 CGCTATTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:892261 original size:17 final size:17
Alignment explanation
Indices: 892239--892280 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
892229 ATAAATTTTT
892239 TTATTATTAACG-TAATA
1 TTATTATTAA-GTTAATA
*
892256 TTATTAATAAGTTAATA
1 TTATTATTAAGTTAATA
*
892273 ATATTATT
1 TTATTATT
892281 TATCATAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (17 bp):
TTATTATTAAGTTAATA
Found at i:892894 original size:2 final size:2
Alignment explanation
Indices: 892887--892949 Score: 108
Period size: 2 Copynumber: 31.5 Consensus size: 2
892877 TACCTTATCT
*
892887 TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
892929 TA CA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
892950 TCTAGTTCCT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:895622 original size:3 final size:3
Alignment explanation
Indices: 895614--895647 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
895604 AAATTGCAAA
*
895614 AAT AAT AAT AAT AAT CAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
895648 GCCCTGGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:901037 original size:34 final size:34
Alignment explanation
Indices: 900959--901054 Score: 88
Period size: 34 Copynumber: 2.9 Consensus size: 34
900949 TAGGTGACGT
* *
900959 TAATAAAATAATTAAAATATAATATAAATATATA
1 TAATAAAATATTTAAAATATAAAATAAATATATA
** * * *
900993 TTTTATAATATTTTAAATATAAAAT-ATTATATTA
1 TAATAAAATATTTAAAATATAAAATAAATATA-TA
* *
901027 TAATAAAATATATAAAA-ATAATATAAAT
1 TAATAAAATATTTAAAATATAAAATAAAT
901055 TATTAAATTT
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
33 11 0.24
34 35 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (34 bp):
TAATAAAATATTTAAAATATAAAATAAATATATA
Found at i:901470 original size:19 final size:19
Alignment explanation
Indices: 901446--901485 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
901436 TATATAAAAA
901446 TTAAAAAATA-ATTTATTAT
1 TTAAAAAATATATTTA-TAT
*
901465 TTAAAATATATATTTATAT
1 TTAAAAAATATATTTATAT
901484 TT
1 TT
901486 GATAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAAAAATATATTTATAT
Found at i:903651 original size:18 final size:21
Alignment explanation
Indices: 903618--903657 Score: 59
Period size: 18 Copynumber: 2.0 Consensus size: 21
903608 ATTTATTTAT
903618 ATAATATTTATATTTAA-AAA
1 ATAATATTTATATTTAATAAA
903638 ATAATA-TT-TATTTAATAAA
1 ATAATATTTATATTTAATAAA
903657 A
1 A
903658 AAAACAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 6 0.32
20 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAATATTTATATTTAATAAA
Found at i:903657 original size:20 final size:20
Alignment explanation
Indices: 903618--903658 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
903608 ATTTATTTAT
*
903618 ATAATATTTATATTTAAAAA
1 ATAATATTTATATTAAAAAA
903638 ATAATATTTAT-TTAATAAAA
1 ATAATATTTATATTAA-AAAA
903658 A
1 A
903659 AAACAATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAATATTTATATTAAAAAA
Found at i:904686 original size:21 final size:22
Alignment explanation
Indices: 904660--904701 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
904650 AATAATATAT
904660 TTAAAAAATAATA-TTTATCAA
1 TTAAAAAATAATATTTTATCAA
*
904681 TTAAAAATTAATATTTTATCA
1 TTAAAAAATAATATTTTATCA
904702 TTGTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAAAAAATAATATTTTATCAA
Found at i:908190 original size:34 final size:32
Alignment explanation
Indices: 908127--908191 Score: 85
Period size: 34 Copynumber: 2.0 Consensus size: 32
908117 ATGATTTGTA
908127 TTATATAAATTTTAATATATTATATATTTATG
1 TTATATAAATTTTAATATATTATATATTTATG
* * *
908159 TTATATCATATTTTAATTATTTTTTATATTTAT
1 TTATAT-AAATTTTAA-TATATTATATATTTAT
908192 ATAATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 6 0.21
33 8 0.29
34 14 0.50
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (32 bp):
TTATATAAATTTTAATATATTATATATTTATG
Found at i:908478 original size:20 final size:18
Alignment explanation
Indices: 908453--908502 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
908443 AAAAATAATT
908453 AAAATTGAAACATAAGATAA
1 AAAATT-AAA-ATAAGATAA
* *
908473 AAAATTTAAATATGATAA
1 AAAATTAAAATAAGATAA
*
908491 AAAATAAAAATA
1 AAAATTAAAATA
908503 TATCAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 18 0.69
19 2 0.08
20 6 0.23
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (18 bp):
AAAATTAAAATAAGATAA
Found at i:910538 original size:17 final size:17
Alignment explanation
Indices: 910513--910553 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
910503 TTAAAAATAA
910513 ATTAAATATAT--TTAT
1 ATTAAATATATACTTAT
910528 ATTAAATATATACTTAT
1 ATTAAATATATACTTAT
*
910545 ATTTAATAT
1 ATTAAATAT
910554 TCATATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.48
17 12 0.52
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTAAATATATACTTAT
Found at i:911079 original size:14 final size:15
Alignment explanation
Indices: 911060--911092 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
911050 CTGACTCTCC
911060 ATTTTTCTTTAA-AT
1 ATTTTTCTTTAATAT
*
911074 ATTTTTGTTTAATAT
1 ATTTTTCTTTAATAT
911089 ATTT
1 ATTT
911093 CAGATATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (15 bp):
ATTTTTCTTTAATAT
Found at i:916379 original size:27 final size:27
Alignment explanation
Indices: 916348--916419 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
916338 AAAACCACTT
* *
916348 TTTGTGTTTGTAAAAAATGGT-AGTTAC
1 TTTGTGTTTGTCAAAAATAGTGA-TTAC
* *
916375 TTTGTATTTGTCAAAAATAGTGATTCC
1 TTTGTGTTTGTCAAAAATAGTGATTAC
*
916402 TTTTTGTTTGTCAAAAAT
1 TTTGTGTTTGTCAAAAAT
916420 TGTGGCTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.47
Consensus pattern (27 bp):
TTTGTGTTTGTCAAAAATAGTGATTAC
Found at i:918106 original size:2 final size:2
Alignment explanation
Indices: 918099--918132 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
918089 TCATATTTAC
918099 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
918133 GCATGTATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:918742 original size:2 final size:2
Alignment explanation
Indices: 918735--918768 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
918725 AGCTGGGCAA
918735 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
918769 GAAACTAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:928495 original size:102 final size:102
Alignment explanation
Indices: 928319--928521 Score: 336
Period size: 102 Copynumber: 2.0 Consensus size: 102
928309 CCTGAACATC
* * *
928319 TTACATTTGTCTCCTATCATTGCAGAATCTAGATGGAAGAGCATTAAGAGTAAATGTTGCAGAGG
1 TTACATTTGTCTCCTATCATTGCAGAATCTAGATGGAAGAGCAATAAGAGTAAATCTTGCAGACG
928384 AAAGACCAAGGCGAAGCTTCTTTTGAATTTGAGACGG
66 AAAGACCAAGGCGAAGCTTCTTTTGAATTTGAGACGG
* *
928421 TTACATTTGTCTCCTATTATTGCAGAATCTGGATGGAAGAGCAATAAGAGTAAATCTTGCAGACG
1 TTACATTTGTCTCCTATCATTGCAGAATCTAGATGGAAGAGCAATAAGAGTAAATCTTGCAGACG
*
928486 AAATG-CCAAGGCGATGCTTCTTTTGAATTTGAGACG
66 AAA-GACCAAGGCGAAGCTTCTTTTGAATTTGAGACG
928522 ATTTAGTTAC
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 93 0.99
103 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.30
Consensus pattern (102 bp):
TTACATTTGTCTCCTATCATTGCAGAATCTAGATGGAAGAGCAATAAGAGTAAATCTTGCAGACG
AAAGACCAAGGCGAAGCTTCTTTTGAATTTGAGACGG
Found at i:929011 original size:14 final size:14
Alignment explanation
Indices: 928992--929021 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
928982 CGGAGTATGC
928992 TACTTGGATTTAGA
1 TACTTGGATTTAGA
929006 TACTTGGATTTAGA
1 TACTTGGATTTAGA
929020 TA
1 TA
929022 AATGTAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (14 bp):
TACTTGGATTTAGA
Found at i:929105 original size:2 final size:2
Alignment explanation
Indices: 929100--929128 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
929090 TTTGAAGCAT
929100 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
929129 CCATGTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.