Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 48 of 109
Found at i:8773575 original size:2 final size:2
Alignment explanation
Indices: 8773568--8773600 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8773558 TCCTTTCTCT
8773568 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 T
8773601 CTAGGTGGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8782405 original size:31 final size:30
Alignment explanation
Indices: 8782361--8782418 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
8782351 ATTAAAAAAA
*
8782361 ATTTACTCATTAATAAGGTGTTATCATCTG
1 ATTTACTCATTAATAAGGTGTCATCATCTG
* *
8782391 ATTTACCTTATTAATAAGTTGTCATCAT
1 ATTTA-CTCATTAATAAGGTGTCATCAT
8782419 TTGAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (30 bp):
ATTTACTCATTAATAAGGTGTCATCATCTG
Found at i:8787747 original size:31 final size:32
Alignment explanation
Indices: 8787712--8787777 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
8787702 TGTGATACTT
* *
8787712 AATTTTTATATAAAATATTATAT-AATATATA
1 AATTTTAATATAAAATATGATATAAATATATA
***
8787743 AATTTTAATATTTTATATGATATAAATATATA
1 AATTTTAATATAAAATATGATATAAATATATA
8787775 AAT
1 AAT
8787778 CGTCAGATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 18 0.62
32 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (32 bp):
AATTTTAATATAAAATATGATATAAATATATA
Found at i:8787759 original size:19 final size:20
Alignment explanation
Indices: 8787710--8787760 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
8787700 ATTGTGATAC
8787710 TTAAT-TTTTATATAAAATA
1 TTAATATTTTATATAAAATA
** *
8787729 TT-ATATAATATAT-AAATT
1 TTAATATTTTATATAAAATA
8787747 TTAATATTTTATAT
1 TTAATATTTTATAT
8787761 GATATAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAATATTTTATATAAAATA
Found at i:8789843 original size:2 final size:2
Alignment explanation
Indices: 8789838--8789867 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8789828 TATGTGTGTG
8789838 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8789868 TTTCTGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:8795684 original size:16 final size:18
Alignment explanation
Indices: 8795659--8795700 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
8795649 TTCAGAACTT
8795659 AAAA-AAAAAAA-AA-GA
1 AAAAGAAAAAAACAATGA
8795674 AAAAGAAAAAAACAATGA
1 AAAAGAAAAAAACAATGA
*
8795692 AAGAGAAAA
1 AAAAGAAAA
8795701 GTACACAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 7 0.30
17 2 0.09
18 10 0.43
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAAACAATGA
Found at i:8801149 original size:71 final size:71
Alignment explanation
Indices: 8801065--8801198 Score: 223
Period size: 71 Copynumber: 1.9 Consensus size: 71
8801055 ACTTAATTCG
* *
8801065 AATATTTCATTTGAAATAGATCATATCATAATTCAAACTCATTCATGAATATAACATAAAATTTT
1 AATATTTCATTTGAAATAGATCATATCATAATTCAAACTCATTCATGAAGACAACATAAAATTTT
8801130 ACTTCA
66 ACTTCA
* * *
8801136 AATATTTCATTTGAAATATATCATATCATAATTCAAATTCATTCATGAAGACAACATATAATT
1 AATATTTCATTTGAAATAGATCATATCATAATTCAAACTCATTCATGAAGACAACATAAAATT
8801199 AAACATTATT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (71 bp):
AATATTTCATTTGAAATAGATCATATCATAATTCAAACTCATTCATGAAGACAACATAAAATTTT
ACTTCA
Found at i:8801171 original size:35 final size:35
Alignment explanation
Indices: 8801058--8801173 Score: 105
Period size: 35 Copynumber: 3.3 Consensus size: 35
8801048 TTGAATGACT
* *
8801058 TAATTCGAATATTTCATTTGAAATAGATCATATCA
1 TAATTCAAATATTTCATTTGAAATATATCATATCA
* **
8801093 TAATTCAAACTCA-TTCA--TG-AATATAACATAAAATTT
1 TAATTCAAA-T-ATTTCATTTGAAATATATCAT---ATCA
*
8801129 TACTTCAAATATTTCATTTGAAATATATCATATCA
1 TAATTCAAATATTTCATTTGAAATATATCATATCA
8801164 TAATTCAAAT
1 TAATTCAAAT
8801174 TCATTCATGA
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
33 8 0.13
34 3 0.05
35 24 0.39
36 15 0.24
37 3 0.05
38 9 0.15
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (35 bp):
TAATTCAAATATTTCATTTGAAATATATCATATCA
Found at i:8802194 original size:22 final size:22
Alignment explanation
Indices: 8802168--8802261 Score: 93
Period size: 22 Copynumber: 4.3 Consensus size: 22
8802158 AGTAATTATC
*
8802168 GATAATTTAGTAGTAAATAAGT
1 GATAATTTATTAGTAAATAAGT
* *
8802190 GATAACTTAATAGTAAATGAA-T
1 GATAATTTATTAGTAAAT-AAGT
* *
8802212 GATAATTTATTAATAAATAATT
1 GATAATTTATTAGTAAATAAGT
*
8802234 GATAACTTT-TTAGTAAATTAGT
1 GATAA-TTTATTAGTAAATAAGT
*
8802256 AATAAT
1 GATAAT
8802262 ATAATAATAT
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.05
22 52 0.87
23 5 0.08
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (22 bp):
GATAATTTATTAGTAAATAAGT
Found at i:8802216 original size:44 final size:44
Alignment explanation
Indices: 8802168--8802448 Score: 147
Period size: 44 Copynumber: 6.4 Consensus size: 44
8802158 AGTAATTATC
*
8802168 GATAATTTAGTAGTAAATAAGTGATAACTTAATAGTAAATGAAT
1 GATAATTTAGTAATAAATAAGTGATAACTTAATAGTAAATGAAT
* * ** * *
8802212 GATAATTTATTAATAAATAATTGATAACTTTTTAGTAAATTAGT
1 GATAATTTAGTAATAAATAAGTGATAACTTAATAGTAAATGAAT
* * * * * * * * *
8802256 AATAATATAATAATATATGA-TAATACCTTAATGGTAAATTAAT
1 GATAATTTAGTAATAAATAAGTGATAACTTAATAGTAAATGAAT
* ** * * * * * *
8802299 TATAATAGAGTTATAAATGTA-TAATAA-TATAATACTAAATAAAA
1 GATAATTTAGTAATAAAT-AAGTGATAACT-TAATAGTAAATGAAT
* * * ** * * * * * *
8802343 AACAACTTAACAAAAAATAAATGATAATTTAATAGTTAATTATT
1 GATAATTTAGTAATAAATAAGTGATAACTTAATAGTAAATGAAT
*
8802387 GATAATTTAGTAATAAATTAA-TGATAACTTAATAGTAAATTAAT
1 GATAATTTAGTAATAAA-TAAGTGATAACTTAATAGTAAATGAAT
* * *
8802431 AATAATTTAATAGTAAAT
1 GATAATTTAGTAATAAAT
8802449 CAATTTCAGT
Statistics
Matches: 175, Mismatches: 57, Indels: 11
0.72 0.23 0.05
Matches are distributed among these distances:
43 33 0.19
44 138 0.79
45 4 0.02
ACGTcount: A:0.51, C:0.03, G:0.09, T:0.37
Consensus pattern (44 bp):
GATAATTTAGTAATAAATAAGTGATAACTTAATAGTAAATGAAT
Found at i:8802389 original size:22 final size:22
Alignment explanation
Indices: 8802357--8802448 Score: 121
Period size: 22 Copynumber: 4.2 Consensus size: 22
8802347 ACTTAACAAA
*
8802357 AAATAAATGATAATTTAATAGT
1 AAATTAATGATAATTTAATAGT
* * * *
8802379 TAATTATTGATAATTTAGTAAT
1 AAATTAATGATAATTTAATAGT
*
8802401 AAATTAATGATAACTTAATAGT
1 AAATTAATGATAATTTAATAGT
*
8802423 AAATTAATAATAATTTAATAGT
1 AAATTAATGATAATTTAATAGT
8802445 AAAT
1 AAAT
8802449 CAATTTCAGT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.40
Consensus pattern (22 bp):
AAATTAATGATAATTTAATAGT
Found at i:8802442 original size:11 final size:11
Alignment explanation
Indices: 8802366--8802442 Score: 57
Period size: 11 Copynumber: 7.0 Consensus size: 11
8802356 AAAATAAATG
8802366 ATAATTTAATA
1 ATAATTTAATA
* * *
8802377 GTTAA-TTATTG
1 -ATAATTTAATA
*
8802388 ATAATTTAGTA
1 ATAATTTAATA
* *
8802399 ATAAATTAATG
1 ATAATTTAATA
*
8802410 ATAACTTAATA
1 ATAATTTAATA
* *
8802421 GTAAATTAATA
1 ATAATTTAATA
8802432 ATAATTTAATA
1 ATAATTTAATA
8802443 GTAAATCAAT
Statistics
Matches: 49, Mismatches: 15, Indels: 3
0.73 0.22 0.04
Matches are distributed among these distances:
10 3 0.06
11 43 0.88
12 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.43
Consensus pattern (11 bp):
ATAATTTAATA
Found at i:8802538 original size:22 final size:23
Alignment explanation
Indices: 8802502--8802547 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
8802492 AATTACTTAG
8802502 TAGTAAATCAATGAT-AAATTAA
1 TAGTAAATCAATGATGAAATTAA
*
8802524 TAGTAAA-CAATTGATGTAATTAA
1 TAGTAAATCAA-TGATGAAATTAA
8802547 T
1 T
8802548 TATTGAAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 11 0.52
23 7 0.33
ACGTcount: A:0.50, C:0.04, G:0.11, T:0.35
Consensus pattern (23 bp):
TAGTAAATCAATGATGAAATTAA
Found at i:8802587 original size:21 final size:21
Alignment explanation
Indices: 8802557--8802677 Score: 77
Period size: 21 Copynumber: 5.6 Consensus size: 21
8802547 TTATTGAAAG
*
8802557 CTTAAAAGTAAATCAGTATAA
1 CTTAATAGTAAATCAGTATAA
*
8802578 CTTAATAGTAAATCATTTATAA
1 CTTAATAGTAAATCA-GTATAA
* * *
8802600 -ATAATAGTTAATCAATAATAA
1 CTTAATAGTAAATCAGT-ATAA
*
8802621 CTTAATAAG-AAATTATGTATAA
1 CTTAAT-AGTAAATCA-GTATAA
* *
8802643 TTTTAATA-TAAATTAGTAATAA
1 -CTTAATAGTAAATCAGT-ATAA
* *
8802665 CTTGATCGTAAAT
1 CTTAATAGTAAAT
8802678 TATAAACAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
20 1 0.01
21 36 0.46
22 33 0.42
23 8 0.10
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (21 bp):
CTTAATAGTAAATCAGTATAA
Found at i:8802642 original size:22 final size:21
Alignment explanation
Indices: 8802615--8802667 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
8802605 AGTTAATCAA
8802615 TAATAACTTAATAAGAAATTATG
1 TAATAACTTAAT-AGAAATTA-G
* *
8802638 T-ATAATTTTAATATAAATTAG
1 TAATAA-CTTAATAGAAATTAG
8802659 TAATAACTT
1 TAATAACTT
8802668 GATCGTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
21 4 0.16
22 15 0.60
23 6 0.24
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (21 bp):
TAATAACTTAATAGAAATTAG
Found at i:8802760 original size:22 final size:22
Alignment explanation
Indices: 8802735--8802881 Score: 99
Period size: 22 Copynumber: 6.8 Consensus size: 22
8802725 AAAAAAAAGG
*
8802735 TAGTAAATCAATAATAACCTAA
1 TAGTAAATCAATAATAACTTAA
*
8802757 TAGTAAAT-ATATATATAAAC-CAA
1 TAGTAAATCA-ATA-AT-AACTTAA
* *
8802780 TAGTAAATCATTAATAATTTAA
1 TAGTAAATCAATAATAACTTAA
* * *
8802802 TAGCAAAT---TAATAATTTAG
1 TAGTAAATCAATAATAACTTAA
* *
8802821 CAGTAAATCACTAATAA-TGTAA
1 TAGTAAATCAATAATAACT-TAA
* *
8802843 TAGTAAATTACTAATAACTTAA
1 TAGTAAATCAATAATAACTTAA
* *
8802865 TTGCAAATCAATAATAA
1 TAGTAAATCAATAATAA
8802882 TTTAGTAATA
Statistics
Matches: 100, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
19 16 0.16
21 4 0.04
22 61 0.61
23 15 0.15
24 4 0.04
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (22 bp):
TAGTAAATCAATAATAACTTAA
Found at i:8802894 original size:22 final size:22
Alignment explanation
Indices: 8802778--8802894 Score: 105
Period size: 22 Copynumber: 5.5 Consensus size: 22
8802768 TATATAAACC
*
8802778 AATAGTAAATCATTAATAATTT
1 AATAGTAAATCACTAATAATTT
*
8802800 AATAGCAAAT---TAATAATTT
1 AATAGTAAATCACTAATAATTT
** *
8802819 AGCAGTAAATCACTAATAATGT
1 AATAGTAAATCACTAATAATTT
* *
8802841 AATAGTAAATTACTAATAACTT
1 AATAGTAAATCACTAATAATTT
* * *
8802863 AATTGCAAATCAATAATAATTT
1 AATAGTAAATCACTAATAATTT
* *
8802885 AGTAATAAAT
1 AATAGTAAAT
8802895 TAGTTAATCA
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
19 16 0.22
22 57 0.78
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (22 bp):
AATAGTAAATCACTAATAATTT
Found at i:8803042 original size:22 final size:22
Alignment explanation
Indices: 8803017--8803064 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
8803007 AAATCATTTT
*
8803017 ATAACTTAATGATAAATAATTC
1 ATAACTTAATGACAAATAATTC
* *
8803039 ATAATTTAATGACAAATCATTC
1 ATAACTTAATGACAAATAATTC
8803061 ATAA
1 ATAA
8803065 ATTAGAAGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.35
Consensus pattern (22 bp):
ATAACTTAATGACAAATAATTC
Found at i:8803149 original size:22 final size:22
Alignment explanation
Indices: 8803087--8803150 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
8803077 TTATTGATAG
* *
8803087 TAATAAATCTTTGATAACTTAG
1 TAATAAATCATTGATAACTTAA
* * *
8803109 TAATAAATAACTGAAAACTTAA
1 TAATAAATCATTGATAACTTAA
* *
8803131 TTATCAATCATTGATAACTT
1 TAATAAATCATTGATAACTT
8803151 TTTTTATATT
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (22 bp):
TAATAAATCATTGATAACTTAA
Found at i:8803486 original size:22 final size:22
Alignment explanation
Indices: 8803461--8803525 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
8803451 TTAGTAATTG
*
8803461 ATAACTTAATAATAAATCAATA
1 ATAACTTAATAGTAAATCAATA
* * * * *
8803483 ATAACTAAATGGTAAATTAGTG
1 ATAACTTAATAGTAAATCAATA
8803505 ATAACTTAATAGTAAATCAAT
1 ATAACTTAATAGTAAATCAAT
8803526 TTCAGTTTAG
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCAATA
Found at i:8803575 original size:23 final size:23
Alignment explanation
Indices: 8803532--8803576 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8803522 CAATTTCAGT
**
8803532 TTAGTAGTAATTAATCGATAATC
1 TTAGTAGTAATTAATAAATAATC
8803555 TTAGTAGTAAATT-ATAAATAAT
1 TTAGTAGT-AATTAATAAATAAT
8803577 TTACAGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.44, C:0.04, G:0.11, T:0.40
Consensus pattern (23 bp):
TTAGTAGTAATTAATAAATAATC
Found at i:8803611 original size:43 final size:43
Alignment explanation
Indices: 8803548--8803667 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 43
8803538 GTAATTAATC
*
8803548 GATAATCTTAGTAGTAAATTATAAATAATTTACAGTAAATCAAT
1 GATAAT-TTAGTAGTTAATTATAAATAATTTACAGTAAATCAAT
* * *
8803592 GATAATTTAGTAGTTAATTATTGAAA-CA-TAAGAGTAAATCAAT
1 GATAATTTAGTAGTTAATTA-T-AAATAATTTACAGTAAATCAAT
*
8803635 -ATAATTTAGTACCAGTTAATTATTAATAATTTA
1 GATAATTTAGT---AGTTAATTATAAATAATTTA
8803668 ATAGTTAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
42 10 0.16
43 28 0.45
44 10 0.16
45 14 0.23
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (43 bp):
GATAATTTAGTAGTTAATTATAAATAATTTACAGTAAATCAAT
Found at i:8803691 original size:15 final size:16
Alignment explanation
Indices: 8803659--8803692 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8803649 GTTAATTATT
*
8803659 AATAATTTAATAGTTA
1 AATAACTTAATAGTTA
8803675 AATAACTTAATAG-TA
1 AATAACTTAATAGTTA
8803690 AAT
1 AAT
8803693 TATAGATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (16 bp):
AATAACTTAATAGTTA
Found at i:8803721 original size:21 final size:22
Alignment explanation
Indices: 8803676--8803725 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
8803666 TAATAGTTAA
8803676 ATAACTTAATAGTAAATTATAG
1 ATAACTTAATAGTAAATTATAG
*
8803698 ATAATTTAATA-TAAATTAGT-G
1 ATAACTTAATAGTAAATTA-TAG
8803719 ATAACTT
1 ATAACTT
8803726 GATAATGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (22 bp):
ATAACTTAATAGTAAATTATAG
Found at i:8803914 original size:22 final size:22
Alignment explanation
Indices: 8803889--8804015 Score: 105
Period size: 22 Copynumber: 5.8 Consensus size: 22
8803879 TAAATTATCG
*
8803889 ATAAATTAATAATAAATTAGTT-
1 ATAAATTAATAATAAATCA-TTA
* * *
8803911 ATAACTTTATAACAAATCATTA
1 ATAAATTAATAATAAATCATTA
* *
8803933 ATAAATGAATAGTAAATCATTA
1 ATAAATTAATAATAAATCATTA
* *
8803955 ATAATTTAATAGTAAATCACTT-
1 ATAAATTAATAATAAATCA-TTA
* * *
8803977 ATAACTTAGTAATAAATCATTC
1 ATAAATTAATAATAAATCATTA
* *
8803999 ATAAACTAATAGTAAAT
1 ATAAATTAATAATAAAT
8804016 TAATGCTAAT
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
21 4 0.05
22 78 0.93
23 2 0.02
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (22 bp):
ATAAATTAATAATAAATCATTA
Found at i:8803945 original size:66 final size:66
Alignment explanation
Indices: 8803875--8804017 Score: 173
Period size: 66 Copynumber: 2.2 Consensus size: 66
8803865 TGATAGCTTT
* * *
8803875 ATAGTAAATTATCGATAAATTAATAATAAATTAGTTATAACTTTA-TAACAAATCATTAATAAA-
1 ATAGTAAATTATCAATAAATTAATAATAAATCACTTATAAC-TTAGTAACAAATCATTAATAAAC
8803938 TGA
65 T-A
* * * * * *
8803941 ATAGTAAATCATTAATAATTTAATAGTAAATCACTTATAACTTAGTAATAAATCATTCATAAACT
1 ATAGTAAATTATCAATAAATTAATAATAAATCACTTATAACTTAGTAACAAATCATTAATAAACT
8804006 A
66 A
8804007 ATAGTAAATTA
1 ATAGTAAATTA
8804018 ATGCTAATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
65 3 0.05
66 61 0.94
67 1 0.02
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (66 bp):
ATAGTAAATTATCAATAAATTAATAATAAATCACTTATAACTTAGTAACAAATCATTAATAAACT
A
Found at i:8804034 original size:66 final size:64
Alignment explanation
Indices: 8803895--8804063 Score: 160
Period size: 66 Copynumber: 2.5 Consensus size: 64
8803885 ATCGATAAAT
* * * *
8803895 TAATAATAAATTAGTTATAACTTTATAACAAATCATTAATAAATGAATAGTAAATCATTAATAAT
1 TAATAGTAAATCA-TTATAAC-TTATAATAAATCATTAATAAATGAATAGTAAATCAATAATAAT
*
8803960 T
64 A
* * **
8803961 TAATAGTAAATCACTTATAACTTAGTAATAAATCATTCATAAACT-AATAGTAAATTAATGCTAA
1 TAATAGTAAATCA-TTATAACTTA-TAATAAATCATTAATAAA-TGAATAGTAAATCAATAATAA
8804025 TA
63 TA
* * *
8804027 TAGTAGTAAATCATTGATAATTTAATAATATATCATT
1 TAATAGTAAATCATT-ATAACTT-ATAATAAATCATT
8804064 GCTAGCTTAG
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
65 5 0.06
66 79 0.92
67 2 0.02
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.38
Consensus pattern (64 bp):
TAATAGTAAATCATTATAACTTATAATAAATCATTAATAAATGAATAGTAAATCAATAATAATA
Found at i:8804047 original size:22 final size:22
Alignment explanation
Indices: 8803924--8804134 Score: 121
Period size: 22 Copynumber: 9.6 Consensus size: 22
8803914 ACTTTATAAC
*
8803924 AAATCATTAATAA-ATGAATAGT
1 AAATCATTGATAATAT-AATAGT
* *
8803946 AAATCATTAATAATTTAATAGT
1 AAATCATTGATAATATAATAGT
* *
8803968 AAATCACTT-ATAACT-TAGTAAT
1 AAATCA-TTGATAA-TATAATAGT
*
8803990 AAATCATTCATAA-ACTAATAGT
1 AAATCATTGATAATA-TAATAGT
* * * *
8804012 AAATTAATGCTAATATAGTAGT
1 AAATCATTGATAATATAATAGT
* *
8804034 AAATCATTGATAATTTAATAAT
1 AAATCATTGATAATATAATAGT
* * * *
8804056 ATATCATTGCTAGCT-TAGA-AAT
1 AAATCATTGATA-ATATA-ATAGT
* *
8804078 AAATCACTGATAATATAATAAT
1 AAATCATTGATAATATAATAGT
* *
8804100 AAATCAATGATAACT-TAATTGT
1 AAATCATTGATAA-TATAATAGT
*
8804122 CAATCATTGATAA
1 AAATCATTGATAA
8804135 ATTTTTTTAG
Statistics
Matches: 149, Mismatches: 28, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
21 4 0.03
22 137 0.92
23 8 0.05
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.36
Consensus pattern (22 bp):
AAATCATTGATAATATAATAGT
Found at i:8804067 original size:44 final size:43
Alignment explanation
Indices: 8803945--8804105 Score: 144
Period size: 44 Copynumber: 3.7 Consensus size: 43
8803935 AAATGAATAG
* * *
8803945 TAAATCATTAATAATTTAATAGTAAATCACTT-ATAACTTAGTAA
1 TAAATCATTGATAATTTAATAATAAATCA-TTGCTAA-TTAGTAA
* ** * * * *
8803989 TAAATCATTCATAAACTAATAGTAAATTAATGCTAATATAGTAG
1 TAAATCATTGATAATTTAATAATAAATCATTGCTAAT-TAGTAA
* * *
8804033 TAAATCATTGATAATTTAATAATATATCATTGCTAGCTTAGAAA
1 TAAATCATTGATAATTTAATAATAAATCATTGCTA-ATTAGTAA
* *
8804077 TAAATCACTGATAATATAATAATAAATCA
1 TAAATCATTGATAATTTAATAATAAATCA
8804106 ATGATAACTT
Statistics
Matches: 94, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
43 2 0.02
44 91 0.97
45 1 0.01
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (43 bp):
TAAATCATTGATAATTTAATAATAAATCATTGCTAATTAGTAA
Found at i:8804479 original size:16 final size:16
Alignment explanation
Indices: 8804458--8804502 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
8804448 ATCAAAATTG
8804458 AATCAAAAGTTAT-TAA
1 AATCAAAA-TTATATAA
8804474 AATCAAAATTATATAAAA
1 AATCAAAATTATAT--AA
8804492 AATCAAAATTA
1 AATCAAAATTA
8804503 ACTTGCTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.15
16 9 0.35
18 13 0.50
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (16 bp):
AATCAAAATTATATAA
Found at i:8804560 original size:11 final size:12
Alignment explanation
Indices: 8804540--8804571 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
8804530 AATTAAATTA
8804540 TTATTATTATTT
1 TTATTATTATTT
8804552 TTATT-TTA-TT
1 TTATTATTATTT
8804562 TTATTATTAT
1 TTATTATTAT
8804572 CATAATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.39
11 6 0.33
12 5 0.28
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TTATTATTATTT
Found at i:8808413 original size:44 final size:44
Alignment explanation
Indices: 8808363--8808451 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
8808353 GAAAAGGGCG
*
8808363 AGAAAATCTTAGTGAGCTTACCTTTGTCGGTTGAAAAAAGGAAA
1 AGAAAATCTCAGTGAGCTTACCTTTGTCGGTTGAAAAAAGGAAA
8808407 AGAAAATCTCAGTGAGCTTACCTTTGTCGGTTGAAAAAAGGAAA
1 AGAAAATCTCAGTGAGCTTACCTTTGTCGGTTGAAAAAAGGAAA
8808451 A
1 A
8808452 TTAACAACAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.26
Consensus pattern (44 bp):
AGAAAATCTCAGTGAGCTTACCTTTGTCGGTTGAAAAAAGGAAA
Found at i:8813642 original size:30 final size:29
Alignment explanation
Indices: 8813608--8813708 Score: 105
Period size: 30 Copynumber: 3.4 Consensus size: 29
8813598 AATATACAAC
8813608 AATTAAATTTTTTTTAAAAAATATTATAAG
1 AATTAAA-TTTTTTTAAAAAATATTATAAG
**** *
8813638 AATTAAATTTAAAAAAAATAATATTATAAA
1 AATTAAATTTTTTTAAAA-AATATTATAAG
* *
8813668 AATTAAATTCTTTTAAATAATATTA-AAG
1 AATTAAATTTTTTTAAAAAATATTATAAG
8813696 AGATTAAATTTTT
1 A-ATTAAATTTTT
8813709 AAAAATAAAA
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
28 3 0.05
29 24 0.43
30 29 0.52
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (29 bp):
AATTAAATTTTTTTAAAAAATATTATAAG
Found at i:8813714 original size:29 final size:29
Alignment explanation
Indices: 8813608--8813716 Score: 107
Period size: 29 Copynumber: 3.7 Consensus size: 29
8813598 AATATACAAC
*
8813608 AATTAAATTTTTTTTAAAA-AATATTATAAG
1 AATTAAA--TTTTTAAAAATAATATTATAAG
** *
8813638 AATTAAATTTAAAAAAAATAATATTATAAA
1 AATTAAATTT-TTAAAAATAATATTATAAG
*
8813668 AATTAAATTCTTT-TAAATAATATTA-AAG
1 AATTAAATT-TTTAAAAATAATATTATAAG
8813696 AGATTAAATTTTTAAAAATAA
1 A-ATTAAATTTTTAAAAATAA
8813717 AAAAATATAA
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
28 9 0.14
29 29 0.45
30 26 0.40
31 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (29 bp):
AATTAAATTTTTAAAAATAATATTATAAG
Found at i:8831711 original size:15 final size:15
Alignment explanation
Indices: 8831691--8831720 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8831681 GGAAAAAGTC
8831691 TTAATAAAAATAAAA
1 TTAATAAAAATAAAA
8831706 TTAATAAAAATAAAA
1 TTAATAAAAATAAAA
8831721 ATTTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
TTAATAAAAATAAAA
Found at i:8845349 original size:13 final size:13
Alignment explanation
Indices: 8845327--8845356 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8845317 AAGTTGTGTC
*
8845327 ATTTTTATATTAT
1 ATTTTCATATTAT
8845340 ATTTTCATATTAT
1 ATTTTCATATTAT
8845353 ATTT
1 ATTT
8845357 GTATCATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTTCATATTAT
Found at i:8862117 original size:11 final size:14
Alignment explanation
Indices: 8862083--8862118 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
8862073 AGAAAGATAT
8862083 GGAAAGAAGAAAAG
1 GGAAAGAAGAAAAG
8862097 GGAAAGAAGAAAAG
1 GGAAAGAAGAAAAG
*
8862111 GAAAAGAA
1 GGAAAGAA
8862119 CTTACCCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
GGAAAGAAGAAAAG
Found at i:8866892 original size:17 final size:18
Alignment explanation
Indices: 8866870--8866905 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
8866860 GCGCGACTGA
*
8866870 AGAAGAAGGAGAAA-ACG
1 AGAAGAAGAAGAAAGACG
8866887 AGAAGAAGAAGAAAGACG
1 AGAAGAAGAAGAAAGACG
8866905 A
1 A
8866906 AGATGAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.61, C:0.06, G:0.33, T:0.00
Consensus pattern (18 bp):
AGAAGAAGAAGAAAGACG
Found at i:8867232 original size:18 final size:18
Alignment explanation
Indices: 8867197--8867267 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
8867187 GTTAAGTAGT
**
8867197 TTTTATAATTTTTTAAAA
1 TTTTATAATTTTCAAAAA
8867215 TTTTATAATTTTCAAAAA
1 TTTTATAATTTTCAAAAA
* *
8867233 ---TAAAATTTTGAAAAA
1 TTTTATAATTTTCAAAAA
*
8867248 TCTTATAATTTTTCAAAAA
1 TTTTATAA-TTTTCAAAAA
8867267 T
1 T
8867268 ATATTAATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
15 13 0.30
18 20 0.47
19 10 0.23
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (18 bp):
TTTTATAATTTTCAAAAA
Found at i:8867963 original size:12 final size:12
Alignment explanation
Indices: 8867948--8867984 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
8867938 TTACATATAT
*
8867948 AAAGAGAGAGAG
1 AAAGAGAGAAAG
8867960 AAAGAGAGAAAG
1 AAAGAGAGAAAG
*
8867972 AAAGAAAGAAAG
1 AAAGAGAGAAAG
8867984 A
1 A
8867985 GACATGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
AAAGAGAGAAAG
Found at i:8872252 original size:13 final size:13
Alignment explanation
Indices: 8872234--8872284 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
8872224 TTTTATTTGA
8872234 ATTAAATTTAAAT
1 ATTAAATTTAAAT
** *
8872247 ATTAAAAATATAT
1 ATTAAATTTAAAT
8872260 ATTAAATTT-AA-
1 ATTAAATTTAAAT
8872271 ATTAAATTTTAAAT
1 ATTAAA-TTTAAAT
8872285 CGAAAAATAA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
11 6 0.21
12 4 0.14
13 19 0.66
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTAAATTTAAAT
Found at i:8872416 original size:13 final size:13
Alignment explanation
Indices: 8872397--8872437 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
8872387 AATCTATTTA
8872397 AATATATTAAAAT
1 AATATATTAAAAT
*
8872410 TATATATTAAAAT
1 AATATATTAAAAT
*
8872423 AATATATAAAAAT
1 AATATATTAAAAT
8872436 AA
1 AA
8872438 AAAAAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATATATTAAAAT
Found at i:8876981 original size:4 final size:4
Alignment explanation
Indices: 8876974--8877000 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
8876964 ATTTTTTATT
8876974 TAAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA
8877001 TGGAGTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:8877666 original size:17 final size:17
Alignment explanation
Indices: 8877640--8877673 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8877630 TTAATATTTG
*
8877640 AAACTCAATTTGAAATT
1 AAACTCAATTCGAAATT
*
8877657 AAACTTAATTCGAAATT
1 AAACTCAATTCGAAATT
8877674 TTATGTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (17 bp):
AAACTCAATTCGAAATT
Found at i:8881275 original size:14 final size:16
Alignment explanation
Indices: 8881243--8881281 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
8881233 TTTTTGAATT
*
8881243 TTTATTTATATATATA
1 TTTATTTATATATAAA
8881259 TTT-TTTA-ATATAAA
1 TTTATTTATATATAAA
8881273 TTTATTTAT
1 TTTATTTAT
8881282 TTTATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 9 0.45
15 8 0.40
16 3 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTATTTATATATAAA
Found at i:8885200 original size:84 final size:84
Alignment explanation
Indices: 8885058--8885224 Score: 253
Period size: 84 Copynumber: 2.0 Consensus size: 84
8885048 TTATCGCACT
* * **
8885058 GTTTTAGAATCTAATCTAAAAAAGATATGATGCAGACATACAGTACAAATTTCATTTTATCTGCC
1 GTTTTAGAATCTAATCTAAAAAAGATATGATGCAGACATACAGTAAAAATTACATTTTATCCACC
8885123 AACCAAATGAAGCATAAAA
66 AACCAAATGAAGCATAAAA
* * * * *
8885142 GTTTTAGAATCTAATCTAAAAAAGATATGATGCTGACATTCTGTAAAAATTACTTTTTATCCACT
1 GTTTTAGAATCTAATCTAAAAAAGATATGATGCAGACATACAGTAAAAATTACATTTTATCCACC
8885207 AACCAAATGAAGCATAAA
66 AACCAAATGAAGCATAAA
8885225 TTAGAGCTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (84 bp):
GTTTTAGAATCTAATCTAAAAAAGATATGATGCAGACATACAGTAAAAATTACATTTTATCCACC
AACCAAATGAAGCATAAAA
Found at i:8885554 original size:21 final size:20
Alignment explanation
Indices: 8885501--8885554 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
8885491 ATATTATTAA
8885501 TATTAAT-ATTTAATTTTAT
1 TATTAATCATTTAATTTTAT
8885520 TAATTAATCAATTTAAATTTT-T
1 T-ATTAATC-ATTT-AATTTTAT
8885542 TATTAAATCATTT
1 TATT-AATCATTT
8885555 TTTTTAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 1 0.03
20 6 0.20
21 7 0.23
22 10 0.33
23 6 0.20
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTAATCATTTAATTTTAT
Found at i:8886549 original size:17 final size:19
Alignment explanation
Indices: 8886524--8886566 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
8886514 TCAAATTGAA
8886524 TTATATATATTTTTAATTT
1 TTATATATATTTTTAATTT
8886543 TTATATATATTTTTAATTT
1 TTATATATATTTTTAATTT
8886562 TTATA
1 TTATA
8886567 AAATAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATATATATTTTTAATTT
Found at i:8886621 original size:13 final size:13
Alignment explanation
Indices: 8886603--8886630 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8886593 AATTTACTTA
8886603 AATATATTAAAAT
1 AATATATTAAAAT
8886616 AATATATTAAAAT
1 AATATATTAAAAT
8886629 AA
1 AA
8886631 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATATATTAAAAT
Found at i:8889865 original size:21 final size:21
Alignment explanation
Indices: 8889841--8889891 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
8889831 CCCGAAATTA
8889841 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
8889862 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
8889883 AT-AAATATT
1 ATAAAATATT
8889892 TAAAATATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:8889924 original size:29 final size:29
Alignment explanation
Indices: 8889862--8889924 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
8889852 TTTTTTAAAT
* * * *
8889862 ATAAAATATTATTTTTTAAATATAAATAT
1 ATAAAATATCATTATATAAATATAAATAA
* *
8889891 TTAAAATATCATTATATAAATATATATAA
1 ATAAAATATCATTATATAAATATAAATAA
8889920 ATAAA
1 ATAAA
8889925 TAATTAATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
ATAAAATATCATTATATAAATATAAATAA
Found at i:8896292 original size:3 final size:3
Alignment explanation
Indices: 8896284--8896310 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8896274 TCAGCCCCCG
8896284 CCA CCA CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA
8896311 GCAGCTACCA
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:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:8902733 original size:22 final size:22
Alignment explanation
Indices: 8902695--8902736 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8902685 GCTAGCAAAT
*
8902695 TTTGTAAAATATTAAAATTTAA
1 TTTGTAAAATATAAAAATTTAA
8902717 TTTGTAATAAT-TAAAAATTT
1 TTTGTAA-AATATAAAAATTT
8902737 CAATAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
TTTGTAAAATATAAAAATTTAA
Found at i:8902832 original size:31 final size:30
Alignment explanation
Indices: 8902797--8902860 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
8902787 CATTTTTTTT
*
8902797 ATATCCCAAAAAT-TATGTTTTATTTTTTAAA
1 ATAT-CCAAAAATATAT-TTTTATATTTTAAA
*
8902828 ATATCTAAAAATAATATTTTTATATTTTAAA
1 ATATCCAAAAAT-ATATTTTTATATTTTAAA
8902859 AT
1 AT
8902861 TATTTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 7 0.24
31 19 0.66
32 3 0.10
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (30 bp):
ATATCCAAAAATATATTTTTATATTTTAAA
Found at i:8907614 original size:2 final size:2
Alignment explanation
Indices: 8907607--8907647 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
8907597 ATTATCACAA
*
8907607 AT AT AT AT AT AT AT AA 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
8907648 AAATTTTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:8917650 original size:21 final size:21
Alignment explanation
Indices: 8917624--8917688 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
8917614 CGATCAAAAT
*
8917624 CCTCTACAACTAGTGACTCCC
1 CCTCTACAGCTAGTGACTCCC
*
8917645 CCTCTACAGCTAGTGAC-GCC
1 CCTCTACAGCTAGTGACTCCC
8917665 CCTCTACAGCTAGTGACTCCC
1 CCTCTACAGCTAGTGACTCCC
8917686 CCT
1 CCT
8917689 AGGTGATGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 19 0.47
21 21 0.52
ACGTcount: A:0.20, C:0.43, G:0.14, T:0.23
Consensus pattern (21 bp):
CCTCTACAGCTAGTGACTCCC
Found at i:8924155 original size:28 final size:28
Alignment explanation
Indices: 8924096--8924163 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
8924086 GATATATAAA
* **
8924096 AAAATAATAATAATATAAATTAAAATTTT
1 AAAA-AATTATAATATAAATTAAAAAATT
8924125 AAAAAATTATAA-ATAAATTAATAAAATT
1 AAAAAATTATAATATAAATTAA-AAAATT
8924153 AAAAAATTATA
1 AAAAAATTATA
8924164 TTTTATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.26
28 22 0.63
29 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (28 bp):
AAAAAATTATAATATAAATTAAAAAATT
Found at i:8925389 original size:25 final size:26
Alignment explanation
Indices: 8925361--8925411 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
8925351 TAAATCAGAT
8925361 CATATAAAAT-TTTTTATA-TTATTTA
1 CATA-AAAATATTTTTATATTTATTTA
**
8925386 CATAATTATATTTTTATATTTATTTA
1 CATAAAAATATTTTTATATTTATTTA
8925412 AATTTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 3 0.14
25 12 0.55
26 7 0.32
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (26 bp):
CATAAAAATATTTTTATATTTATTTA
Found at i:8925519 original size:25 final size:27
Alignment explanation
Indices: 8925502--8925551 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
8925492 AAAATTACTA
*
8925502 ATTTAATAT-T-AAATTAAATTTAAAT
1 ATTTAATATATAAAATTAAAATTAAAT
8925527 ATTTAATATATAAAATT-AAATTAAA
1 ATTTAATATATAAAATTAAAATTAAA
8925552 ATCGAATCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 8 0.36
27 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
ATTTAATATATAAAATTAAAATTAAAT
Found at i:8925544 original size:27 final size:25
Alignment explanation
Indices: 8925502--8925553 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 25
8925492 AAAATTACTA
*
8925502 ATTTAATATTAAATTAAATTTAAAT
1 ATTTAATATTAAATTAAATTAAAAT
8925527 ATTTAATATATAAAATTAAATTAAAAT
1 ATTTAATAT-T-AAATTAAATTAAAAT
8925554 CGAATCGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.38
26 1 0.04
27 14 0.58
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
ATTTAATATTAAATTAAATTAAAAT
Found at i:8926119 original size:13 final size:15
Alignment explanation
Indices: 8926071--8926121 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
8926061 AATTCGGTTG
*
8926071 AATCGATTTGATT-T
1 AATCGATTTTATTAT
*
8926085 ATTCGATTTTAATTAT
1 AATCGATTTT-ATTAT
8926101 AATCGATTTT-TTA-
1 AATCGATTTTATTAT
8926114 AATCGATT
1 AATCGATT
8926122 AAATTGATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 11 0.34
15 3 0.09
16 10 0.31
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (15 bp):
AATCGATTTTATTAT
Found at i:8926414 original size:23 final size:22
Alignment explanation
Indices: 8926387--8926446 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
8926377 ATTAATTTTA
8926387 ATAAAATTTATTTAAT-ATAAATT
1 ATAAAATTT-TTTAATCAT-AATT
* *
8926410 TTAAATTTTTTTAATCATAATT
1 ATAAAATTTTTTAATCATAATT
8926432 ATAATAATTTTTTAA
1 ATAA-AATTTTTTAA
8926447 CTACAATTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 13 0.42
23 18 0.58
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
ATAAAATTTTTTAATCATAATT
Found at i:8926422 original size:22 final size:22
Alignment explanation
Indices: 8926390--8926446 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
8926380 AATTTTAATA
* *
8926390 AAATTTATTTAAT-ATAAATTTT
1 AAATTTTTTTAATCAT-AATTAT
8926412 AAATTTTTTTAATCATAATTAT
1 AAATTTTTTTAATCATAATTAT
*
8926434 AATAATTTTTTAA
1 AA-ATTTTTTTAA
8926447 CTACAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
AAATTTTTTTAATCATAATTAT
Found at i:8926788 original size:166 final size:166
Alignment explanation
Indices: 8926594--8926904 Score: 507
Period size: 166 Copynumber: 1.9 Consensus size: 166
8926584 TATATGTGTG
* * * *
8926594 TGTGTCTTTTTTATATTAATATAAATCTTTAGCTAATAATAAATCTCAATAAAAAAGATTCTATA
1 TGTGTCTCTTGTATATTAATACAAATCTTTAGCTAATAACAAATCTCAATAAAAAAGATTCTATA
* *
8926659 TGATTGTTTCGTATAAATATATAT-TTTTTATTTAAATTATATCATGTAACTATATTTATATGTA
66 TGATTGTTTCGTATAAATATATATATTTTTATTTAAATCATATCATGTAAATATATTTATATGTA
*
8926723 TTTTCGATGAAGAAATGAATCCACACATATATATATA
131 GTTTCGATG-AGAAATGAATCCACACATATATATATA
8926760 TGTGTCTCTTGTATATTAATACAAATCTTTAGCTAATAACAAATCTCAATAAAAAAGATTCTATA
1 TGTGTCTCTTGTATATTAATACAAATCTTTAGCTAATAACAAATCTCAATAAAAAAGATTCTATA
* * * *
8926825 TGGTTGTTTCGTATTAATATATATATTTTTATTTAAATCGTATCGTGTAAATATATTTATATGTA
66 TGATTGTTTCGTATAAATATATATATTTTTATTTAAATCATATCATGTAAATATATTTATATGTA
8926890 GTTTCGATGAGAAAT
131 GTTTCGATGAGAAAT
8926905 AATTGTTTCG
Statistics
Matches: 133, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
166 89 0.67
167 44 0.33
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.44
Consensus pattern (166 bp):
TGTGTCTCTTGTATATTAATACAAATCTTTAGCTAATAACAAATCTCAATAAAAAAGATTCTATA
TGATTGTTTCGTATAAATATATATATTTTTATTTAAATCATATCATGTAAATATATTTATATGTA
GTTTCGATGAGAAATGAATCCACACATATATATATA
Found at i:8927326 original size:30 final size:30
Alignment explanation
Indices: 8927269--8927369 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 30
8927259 GTGTTTTTCG
*
8927269 AATTTAATTTTTAAAATATTA-TTTAAAAA
1 AATTTAATTTTTATAATATTATTTTAAAAA
*
8927298 AATTTAGTTTTTATAATATTATTTTAAAAA
1 AATTTAATTTTTATAATATTATTTTAAAAA
** * *
8927328 AATTTAATCCTTATAGTATTATTTTTTAAAA
1 AATTTAATTTTTATAATATTA-TTTTAAAAA
8927359 AATTTAATTTT
1 AATTTAATTTT
8927370 AATGCATTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 19 0.31
30 25 0.41
31 17 0.28
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
AATTTAATTTTTATAATATTATTTTAAAAA
Found at i:8927466 original size:29 final size:29
Alignment explanation
Indices: 8927394--8927466 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
8927384 TATTAAACTA
*
8927394 AAATCTTTAAAAAATAATATTACAATGATT
1 AAAT-TTTAAAAAATAATATTACAAAGATT
**
8927424 AAATTCTT-TTAAATAATATTA-AAGAGATT
1 AAATT-TTAAAAAATAATATTACAA-AGATT
8927453 AAATTTTAAAAAAT
1 AAATTTTAAAAAAT
8927467 TCGAAGAACA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
28 4 0.11
29 25 0.71
30 6 0.17
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (29 bp):
AAATTTTAAAAAATAATATTACAAAGATT
Found at i:8929467 original size:7 final size:7
Alignment explanation
Indices: 8929455--8929494 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
8929445 GGAAAAAAGC
8929455 AAAGCGG
1 AAAGCGG
8929462 AAAGCGG
1 AAAGCGG
8929469 AAAGCGG
1 AAAGCGG
8929476 AAAGCGG
1 AAAGCGG
*
8929483 TAAGCGG
1 AAAGCGG
8929490 AAAGC
1 AAAGC
8929495 CGTAAGCGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.40, T:0.03
Consensus pattern (7 bp):
AAAGCGG
Found at i:8929499 original size:14 final size:14
Alignment explanation
Indices: 8929456--8929503 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
8929446 GAAAAAAGCA
*
8929456 AAGCGGAAAGCGGA
1 AAGCGGAAAGCGGT
8929470 AAGCGGAAAGCGGT
1 AAGCGGAAAGCGGT
*
8929484 AAGCGGAAAGCCGT
1 AAGCGGAAAGCGGT
8929498 AAGCGG
1 AAGCGG
8929504 TATTGGAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.42, T:0.04
Consensus pattern (14 bp):
AAGCGGAAAGCGGT
Found at i:8929501 original size:7 final size:7
Alignment explanation
Indices: 8929456--8929505 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
8929446 GAAAAAAGCA
*
8929456 AAGCGGA
1 AAGCGGT
*
8929463 AAGCGGA
1 AAGCGGT
*
8929470 AAGCGGA
1 AAGCGGT
8929477 AAGCGGT
1 AAGCGGT
*
8929484 AAGCGGA
1 AAGCGGT
*
8929491 AAGCCGT
1 AAGCGGT
8929498 AAGCGGT
1 AAGCGGT
8929505 A
1 A
8929506 TTGGAATAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.38, C:0.16, G:0.40, T:0.06
Consensus pattern (7 bp):
AAGCGGT
Found at i:8929504 original size:21 final size:21
Alignment explanation
Indices: 8929455--8929505 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
8929445 GGAAAAAAGC
* *
8929455 AAAGCGGAAAGCGGAAAGCGG
1 AAAGCGGTAAGCGGAAAGCCG
8929476 AAAGCGGTAAGCGGAAAGCCG
1 AAAGCGGTAAGCGGAAAGCCG
*
8929497 TAAGCGGTA
1 AAAGCGGTA
8929506 TTGGAATAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.16, G:0.39, T:0.06
Consensus pattern (21 bp):
AAAGCGGTAAGCGGAAAGCCG
Found at i:8936106 original size:2 final size:2
Alignment explanation
Indices: 8936094--8936126 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8936084 GTCCATTTTG
*
8936094 TA TA CA 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 T
8936127 TTCTCTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8943293 original size:37 final size:37
Alignment explanation
Indices: 8943251--8943328 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
8943241 GAAACTAATG
8943251 AAAACAATCAATATTACTCGATACCAAATTTGATATA
1 AAAACAATCAATATTACTCGATACCAAATTTGATATA
*
8943288 AAAACAATCAATATTACTCGATATCAAATTTGATATA
1 AAAACAATCAATATTACTCGATACCAAATTTGATATA
8943325 AAAA
1 AAAA
8943329 ATTATCCTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.29
Consensus pattern (37 bp):
AAAACAATCAATATTACTCGATACCAAATTTGATATA
Found at i:8943491 original size:22 final size:22
Alignment explanation
Indices: 8943447--8943502 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
8943437 ATATATAATT
* * *
8943447 TTTAAAATTTACATATAATAAA
1 TTTAAATTTTAAATATAAGAAA
*
8943469 TTTAAATTTTAAATATCAGAAA
1 TTTAAATTTTAAATATAAGAAA
*
8943491 TTGAAATTTTAA
1 TTTAAATTTTAA
8943503 CTGCAATATT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (22 bp):
TTTAAATTTTAAATATAAGAAA
Found at i:8946071 original size:25 final size:25
Alignment explanation
Indices: 8946039--8946095 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
8946029 TATTTTAAAT
*
8946039 AAAAATATAAAATTAAATAATA-TA
1 AAAAATATAAAATTAAATAAAATTA
*
8946063 AAAATATATATAATTAAATAAAATTA
1 AAAA-ATATAAAATTAAATAAAATTA
8946089 AAAAATA
1 AAAAATA
8946096 ATTTTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 4 0.14
25 19 0.66
26 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (25 bp):
AAAAATATAAAATTAAATAAAATTA
Found at i:8956117 original size:19 final size:19
Alignment explanation
Indices: 8956095--8956131 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8956085 AATTAAAAAG
*
8956095 TTTTTTTT-TTAAATTAAA
1 TTTTTTTTATGAAATTAAA
8956113 TTTTTTTTATGAAATTAAA
1 TTTTTTTTATGAAATTAAA
8956132 AAGTTCAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTTTTTATGAAATTAAA
Found at i:8957855 original size:19 final size:19
Alignment explanation
Indices: 8957831--8957886 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
8957821 AGCCATGCTT
8957831 CACCTCAATATCAACCTTA
1 CACCTCAATATCAACCTTA
8957850 CA-C-C----TC-ACCTT-
1 CACCTCAATATCAACCTTA
8957861 CACCTCAATATCAACCTTA
1 CACCTCAATATCAACCTTA
8957880 CACCTCA
1 CACCTCA
8957887 CCTTCACCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 2 0.07
12 6 0.21
13 3 0.10
17 3 0.10
18 6 0.21
19 9 0.31
ACGTcount: A:0.32, C:0.43, G:0.00, T:0.25
Consensus pattern (19 bp):
CACCTCAATATCAACCTTA
Found at i:8957864 original size:30 final size:30
Alignment explanation
Indices: 8957828--8957897 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
8957818 CCAAGCCATG
8957828 CTTCACCTCAATATCAACCTTACACCTCAC
1 CTTCACCTCAATATCAACCTTACACCTCAC
8957858 CTTCACCTCAATATCAACCTTACACCTCAC
1 CTTCACCTCAATATCAACCTTACACCTCAC
8957888 CTTCACCTCA
1 CTTCACCTCA
8957898 TAAACATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.29, C:0.44, G:0.00, T:0.27
Consensus pattern (30 bp):
CTTCACCTCAATATCAACCTTACACCTCAC
Found at i:8963454 original size:20 final size:20
Alignment explanation
Indices: 8963425--8963466 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
8963415 CTATCAGAGC
* *
8963425 CTAAGGGTTACACTCGTCTA
1 CTAAGAGTTACACTCATCTA
*
8963445 CTAAGAGTTACGCTCATCTA
1 CTAAGAGTTACACTCATCTA
8963465 CT
1 CT
8963467 TGGTATCAGA
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:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (20 bp):
CTAAGAGTTACACTCATCTA
Found at i:8971258 original size:2 final size:2
Alignment explanation
Indices: 8971251--8971277 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8971241 TGGTAAATAC
8971251 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8971278 GAGGAAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8971730 original size:16 final size:16
Alignment explanation
Indices: 8971709--8971744 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8971699 ATATAATTTT
8971709 AAAATATAAAAAATTA
1 AAAATATAAAAAATTA
* *
8971725 AAAATATTAAATATTA
1 AAAATATAAAAAATTA
8971741 AAAA
1 AAAA
8971745 AATGATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATATAAAAAATTA
Found at i:8972736 original size:27 final size:27
Alignment explanation
Indices: 8972706--8972760 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
8972696 TGGCAGCAAC
8972706 ACGAATTTGGTTCTCTTGAAGACATTG
1 ACGAATTTGGTTCTCTTGAAGACATTG
8972733 ACGAATTTGGTTCTCTTGAAGACATTG
1 ACGAATTTGGTTCTCTTGAAGACATTG
8972760 A
1 A
8972761 TTCATACCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (27 bp):
ACGAATTTGGTTCTCTTGAAGACATTG
Found at i:8978978 original size:26 final size:25
Alignment explanation
Indices: 8978947--8979018 Score: 117
Period size: 26 Copynumber: 2.8 Consensus size: 25
8978937 TTTTAATTTT
8978947 TTTATATTAAATGAATATAAAAAATA
1 TTTATATTAAAT-AATATAAAAAATA
8978973 TTTATATTAAATTAATATAAAAAATA
1 TTTATATTAAA-TAATATAAAAAATA
8978999 TTTATATTAAATAATTATAA
1 TTTATATTAAATAA-TATAA
8979019 TATTTAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
25 3 0.07
26 40 0.91
27 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (25 bp):
TTTATATTAAATAATATAAAAAATA
Found at i:8980829 original size:2 final size:2
Alignment explanation
Indices: 8980822--8980847 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8980812 TACATTTTAG
8980822 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
8980848 TAGTGCATTG
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:8984899 original size:13 final size:12
Alignment explanation
Indices: 8984857--8984923 Score: 54
Period size: 13 Copynumber: 5.8 Consensus size: 12
8984847 AAATAATACG
8984857 AATAAAAAA--T
1 AATAAAAAATTT
*
8984867 AA-AAATAATTT
1 AATAAAAAATTT
* *
8984878 AATTTAAAATTTT
1 AA-TAAAAAATTT
8984891 AATAAAAAA-TT
1 AATAAAAAATTT
8984902 -ATAAATAAATTT
1 AATAAA-AAATTT
8984914 AATAAAAAAT
1 AATAAAAAAT
8984924 ATATTTTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
9 5 0.11
10 7 0.16
11 8 0.18
12 11 0.25
13 13 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATAAAAAATTT
Found at i:8984923 original size:36 final size:34
Alignment explanation
Indices: 8984857--8984923 Score: 89
Period size: 36 Copynumber: 1.9 Consensus size: 34
8984847 AAATAATACG
**
8984857 AATAAAAAATAAAAATAATTTAATTTAAAATTTT
1 AATAAAAAATAAAAATAATTTAATAAAAAATTTT
*
8984891 AATAAAAAATTATAAATAAATTTAATAAAAAAT
1 AATAAAAAA-TAAAAAT-AATTTAATAAAAAAT
8984924 ATATTTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 9 0.32
35 6 0.21
36 13 0.46
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (34 bp):
AATAAAAAATAAAAATAATTTAATAAAAAATTTT
Found at i:8984999 original size:32 final size:32
Alignment explanation
Indices: 8984933--8985006 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
8984923 TATATTTTAT
* * *
8984933 ATTTTTATATAGATATAAATTATAATATATAA
1 ATTTTTATATAAAAATAAATAATAATATATAA
8984965 ATTTTTATATAAAAATAATATAAATAA-ATA-AA
1 ATTTTTATATAAAAATAA-AT-AATAATATATAA
*
8984997 ATTTTAATAT
1 ATTTTTATAT
8985007 TTTATAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 27 0.75
33 5 0.14
34 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (32 bp):
ATTTTTATATAAAAATAAATAATAATATATAA
Found at i:8986221 original size:19 final size:19
Alignment explanation
Indices: 8986199--8986249 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
8986189 AAATTTTTAT
8986199 TTTTAATATATATTTATTA
1 TTTTAATATATATTTATTA
* *
8986218 TTTTAAT-TAAAAATTATTA
1 TTTTAATAT-ATATTTATTA
*
8986237 TTTTATTATATAT
1 TTTTAATATATAT
8986250 ATATATATCG
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
18 1 0.04
19 23 0.92
20 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTAATATATATTTATTA
Found at i:8986311 original size:12 final size:12
Alignment explanation
Indices: 8986294--8986321 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
8986284 AATAATCAAT
8986294 TTTAAAATTAAA
1 TTTAAAATTAAA
8986306 TTTAAAATTAAA
1 TTTAAAATTAAA
8986318 TTTA
1 TTTA
8986322 TTTTTTAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTAAAATTAAA
Found at i:8987714 original size:21 final size:21
Alignment explanation
Indices: 8987677--8987720 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8987667 ATCAACAAAT
* *
8987677 AAAAATTTTAATTTATT-ATA
1 AAAAATTTAAATATATTAATA
8987697 AAAAATTATAAATATATTAATA
1 AAAAATT-TAAATATATTAATA
8987719 AA
1 AA
8987721 TTAATCTCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 8 0.40
22 5 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAATTTAAATATATTAATA
Found at i:8998080 original size:19 final size:19
Alignment explanation
Indices: 8998056--8998098 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
8998046 ATAATACTAA
*
8998056 AAATTAAATAAATTAAATT
1 AAATTAAATAAATAAAATT
*
8998075 AAATTAAATCAATAAAATT
1 AAATTAAATAAATAAAATT
*
8998094 TAATT
1 AAATT
8998099 TAGATTAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATTAAATAAATAAAATT
Found at i:8999867 original size:22 final size:23
Alignment explanation
Indices: 8999823--8999896 Score: 60
Period size: 23 Copynumber: 3.1 Consensus size: 23
8999813 AAATTTTTTT
*
8999823 AAAATTATTTTCATTAATCGATC
1 AAAATTAATTTCATTAATCGATC
* *
8999846 AAAATTAATTTGA-TAATTGATC
1 AAAATTAATTTCATTAATCGATC
**
8999868 AATTAATTGAATTAAATTAATTCGATC
1 AA--AATT-AATTTCATTAA-TCGATC
8999895 AA
1 AA
8999897 TTAATTCGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
22 10 0.25
23 11 0.28
24 4 0.10
25 5 0.12
26 3 0.08
27 7 0.17
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.41
Consensus pattern (23 bp):
AAAATTAATTTCATTAATCGATC
Found at i:9001503 original size:11 final size:11
Alignment explanation
Indices: 9001471--9001505 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
9001461 AAACTTAATT
9001471 TATATAATAAAA
1 TATATAA-AAAA
9001483 -ATATAAAAAA
1 TATATAAAAAA
9001493 TATATAAAAAA
1 TATATAAAAAA
9001504 TA
1 TA
9001506 AAAATTCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TATATAAAAAA
Found at i:9001517 original size:19 final size:19
Alignment explanation
Indices: 9001472--9001509 Score: 60
Period size: 18 Copynumber: 2.0 Consensus size: 19
9001462 AACTTAATTT
9001472 ATATAATAAAAATATAAAAA
1 ATAT-ATAAAAATATAAAAA
9001492 ATATATAAAAA-ATAAAAA
1 ATATATAAAAATATAAAAA
9001510 TTCATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 7 0.39
20 4 0.22
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
ATATATAAAAATATAAAAA
Found at i:9004145 original size:21 final size:21
Alignment explanation
Indices: 9004120--9004160 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9004110 TAATGAAATA
*
9004120 TAAATATTAA-AACCAAATTAT
1 TAAATA-TAATAAACAAATTAT
9004141 TAAATATAATAAACAAATTA
1 TAAATATAATAAACAAATTA
9004161 ATATTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAATATAATAAACAAATTAT
Found at i:9005820 original size:13 final size:13
Alignment explanation
Indices: 9005802--9005842 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
9005792 TCAGTAATAT
9005802 ATTCAGAAACACC
1 ATTCAGAAACACC
*
9005815 ATTCAGCAA-ACC
1 ATTCAGAAACACC
*
9005827 ATTCAAAAACACC
1 ATTCAGAAACACC
9005840 ATT
1 ATT
9005843 TAAAAATACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.46, C:0.29, G:0.05, T:0.20
Consensus pattern (13 bp):
ATTCAGAAACACC
Found at i:9005847 original size:13 final size:13
Alignment explanation
Indices: 9005802--9005853 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
9005792 TCAGTAATAT
*
9005802 ATTCAGAAACACC
1 ATTCAAAAACACC
**
9005815 ATTCAGCAA-ACC
1 ATTCAAAAACACC
9005827 ATTCAAAAACACC
1 ATTCAAAAACACC
* *
9005840 ATTTAAAAATACC
1 ATTCAAAAACACC
9005853 A
1 A
9005854 CTCAGTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
12 10 0.30
13 23 0.70
ACGTcount: A:0.50, C:0.27, G:0.04, T:0.19
Consensus pattern (13 bp):
ATTCAAAAACACC
Found at i:9005872 original size:12 final size:12
Alignment explanation
Indices: 9005777--9005889 Score: 57
Period size: 12 Copynumber: 9.2 Consensus size: 12
9005767 ACAAAAACAT
*
9005777 CATTCAGTAAAT
1 CATTCAGTAAAC
*
9005789 CAATCAGTAATA-
1 CATTCAGTAA-AC
* *
9005801 TATTCAGAAACAC
1 CATTCAGTAA-AC
*
9005814 CATTCAGCAAAC
1 CATTCAGTAAAC
**
9005826 CATTCAAAAACAC
1 CATTCAGTAA-AC
* **
9005839 CATTTAAAAATAC
1 CATTCAGTAA-AC
* *
9005852 CACTCAGTAAAT
1 CATTCAGTAAAC
*
9005864 CATTCAGTATAC
1 CATTCAGTAAAC
*
9005876 CATTCAGTACAC
1 CATTCAGTAAAC
9005888 CA
1 CA
9005890 ATATCATACA
Statistics
Matches: 78, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
12 50 0.64
13 28 0.36
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.25
Consensus pattern (12 bp):
CATTCAGTAAAC
Found at i:9007044 original size:235 final size:234
Alignment explanation
Indices: 9006733--9007499 Score: 906
Period size: 235 Copynumber: 3.3 Consensus size: 234
9006723 ATTAAAAGCG
* * * *
9006733 TTTTATACTAAAAGACGCCTTAAATAATCCTAAACAATTTTTTAAAAAAAATTATTAAAGGCATT
1 TTTTCTACTAAAAGACGCATTTAATAATCCTAAATAA-TTTTTAAAAAAAATTATTAAAGGCATT
* * * *
9006798 TATTTTAAAAAAATGTCTTCAAT-ATTTCTGTACAAAAATTATTGAAGGTATATAATACAAAAAA
65 TATTCTAAAAAAATGCCTTCAATAATTT-TGTACAAAAA-TATTGAAGGCATATAATGCAAAAAA
* *
9006862 TACCTTCAATAATTTTTTTAAAAATTAGAACAAATTAATGAAGGTATTTTTATGAATAAACATCT
128 TACCTTCAATAATTTTTTTAAAAATTAGAACAAATTAGTGAAGGTATTTTTATGAATAAACGTCT
*
9006927 TCAATAACCTTCTTAAAATTTTAGTAGTGAAATATTGAATGCGT-
193 TCAATAACC-ACTTAAAATTTTAGTAGTGAAATATTGAA-G-GTA
* *
9006971 TTTT-TACTAAAAGATGCATTTAATAAT-CTCAAATAA-TTTTAAAAAAAATTATTAAAGGCGTT
1 TTTTCTACTAAAAGACGCATTTAATAATCCT-AAATAATTTTTAAAAAAAATTATTAAAGGCATT
* * **
9007033 TATTCT-AAAAAATGCCTTCAATAATTTTGTGCAAAAATATTGAAGGCGTATAATGCAAAAAACG
65 TATTCTAAAAAAATGCCTTCAATAATTTTGTACAAAAATATTGAAGGCATATAATGCAAAAAATA
** * * * *
9007097 CCTTCACCAAATTTCTTCAAAATGTAGAACAAATTAGTGAAGGTGTTTTTATGGAATAAACGTCT
130 CCTTCAATAATTTTTTTAAAAAT-TAGAACAAATTAGTGAAGGTATTTTTAT-GAATAAACGTCT
* *
9007162 TCAATAACCCCCTTAAAATTTTGGTAGTGAAATATTGAAGGTA
193 TCAATAA-CCACTTAAAATTTTAGTAGTGAAATATTGAAGGTA
* * ** *
9007205 TTTTCTACTAAAAGACACATTTAATAATCCCAAATAATTTTTTTAAAAAATTATTAAA---TTTT
1 TTTTCTACTAAAAGACGCATTTAATAATCCTAAATAATTTTTAAAAAAAATTATTAAAGGCATTT
* *
9007267 TTTC-AAAAAAATACCTTCAATAATTTTGTACAAAAACTATTGAAGGCATATAATGCAAAAAAAT
66 ATTCTAAAAAAATGCCTTCAATAATTTTGTACAAAAA-TATTGAAGGCATATAATGC-AAAAAAT
* * * * ** * * *
9007331 ACCTTCAATAAATTCTTTCAAAAATTAGAACGAATTAGTAAAGACATTTTTCTTGAATAAATGCC
129 ACCTTCAAT-AATTTTTTTAAAAATTAGAACAAATTAGTGAAGGTATTTTT-ATGAATAAACGTC
*
9007396 TTCAATAACCACTTAAAATTTTAGTAGTGGAATATTGAAGGTA
192 TTCAATAACCACTTAAAATTTTAGTAGTGAAATATTGAAGGTA
* * * * *
9007439 TTTTCTGCTATAAGATGCCTTTAATAATCCTAAATAATTTTTAATAAAAAATTATTGAAGG
1 TTTTCTACTAAAAGACGCATTTAATAATCCTAAATAATTTTTAA-AAAAAATTATTAAAGG
9007500 AAATTATTGA
Statistics
Matches: 450, Mismatches: 62, Indels: 35
0.82 0.11 0.06
Matches are distributed among these distances:
233 77 0.17
234 141 0.31
235 169 0.38
236 34 0.08
237 25 0.06
238 4 0.01
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (234 bp):
TTTTCTACTAAAAGACGCATTTAATAATCCTAAATAATTTTTAAAAAAAATTATTAAAGGCATTT
ATTCTAAAAAAATGCCTTCAATAATTTTGTACAAAAATATTGAAGGCATATAATGCAAAAAATAC
CTTCAATAATTTTTTTAAAAATTAGAACAAATTAGTGAAGGTATTTTTATGAATAAACGTCTTCA
ATAACCACTTAAAATTTTAGTAGTGAAATATTGAAGGTA
Found at i:9007505 original size:13 final size:13
Alignment explanation
Indices: 9007487--9007512 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9007477 TTTTAATAAA
9007487 AAATTATTGAAGG
1 AAATTATTGAAGG
9007500 AAATTATTGAAGG
1 AAATTATTGAAGG
9007513 TGTATAATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
AAATTATTGAAGG
Found at i:9007661 original size:199 final size:200
Alignment explanation
Indices: 9007304--9007693 Score: 613
Period size: 199 Copynumber: 2.0 Consensus size: 200
9007294 GTACAAAAAC
*
9007304 TATTGAAGGCATATAATGCAAAAAAATACCTTCAATAAATTCTTTCAAAAATTAGAACGAATTAG
1 TATTGAAGGCATATAATGCAAAAAAATACCTTCAATAAATTCCTTCAAAAATTAGAACGAATTAG
* * *
9007369 TAAAGACATTTTTCTTGAATAAATGCCTTCAATAACCACTTAAAATTTTAGTAGTGGAATATTGA
66 TAAAGACATTTTTCTCGAATAAACGCCTTCAATAACCACTTAAAATTTTAGTAGTGAAATATTGA
* * * *
9007434 AGGTATTTTCTGCTATAAGATGCCTTTAATAATC-CTAAATAATTTTTAATAAAAAATTATTGAA
131 AGATATTTTCTGCTACAAAATACCTTTAATAATCTC-AAATAATTTTTAATAAAAAATTATTGAA
9007498 GGAAAT
195 GGAAAT
** *
9007504 TATTGAAGGTGTATAATGC-AAAAAATACCTTCAATAAATTCCTTCAATAATTAGAACGAATTAG
1 TATTGAAGGCATATAATGCAAAAAAATACCTTCAATAAATTCCTTCAAAAATTAGAACGAATTAG
* * * *
9007568 TGAAGGCATTTTTCTCGAATAAACGCCTTTAATAACCCCTTAAAATTTTAGTAGTGAAATATTGA
66 TAAAGACATTTTTCTCGAATAAACGCCTTCAATAACCACTTAAAATTTTAGTAGTGAAATATTGA
*
9007633 AGATATTTTTTGCTACAAAATACCTTTAATAATCTCAAATAATTTTTAATAAAAAATTATT
131 AGATATTTTCTGCTACAAAATACCTTTAATAATCTCAAATAATTTTTAATAAAAAATTATT
9007694 AAATATATTT
Statistics
Matches: 173, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
199 155 0.90
200 18 0.10
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.36
Consensus pattern (200 bp):
TATTGAAGGCATATAATGCAAAAAAATACCTTCAATAAATTCCTTCAAAAATTAGAACGAATTAG
TAAAGACATTTTTCTCGAATAAACGCCTTCAATAACCACTTAAAATTTTAGTAGTGAAATATTGA
AGATATTTTCTGCTACAAAATACCTTTAATAATCTCAAATAATTTTTAATAAAAAATTATTGAAG
GAAAT
Found at i:9007704 original size:63 final size:63
Alignment explanation
Indices: 9007627--9007791 Score: 224
Period size: 63 Copynumber: 2.6 Consensus size: 63
9007617 AGTAGTGAAA
*
9007627 TATTGAAGATATTTTTTGCTACAAAATACCTTTAATAATCTCAAATAATTTTTAATAAAAAAT
1 TATTAAAGATATTTTTTGCTACAAAATACCTTTAATAATCTCAAATAATTTTTAATAAAAAAT
* * * * *
9007690 TATTAAATATATTTTCTGCTACAAGACATCTTTAATAATCTCAAATAATTTTTAATAAAAAAT
1 TATTAAAGATATTTTTTGCTACAAAATACCTTTAATAATCTCAAATAATTTTTAATAAAAAAT
* * * *
9007753 TATTAAAGGTATTTTTT-CTCAAAAAATGCCTTCAATAAT
1 TATTAAAGATATTTTTTGCT-ACAAAATACCTTTAATAAT
9007792 TTTATACAAA
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
62 2 0.02
63 84 0.98
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (63 bp):
TATTAAAGATATTTTTTGCTACAAAATACCTTTAATAATCTCAAATAATTTTTAATAAAAAAT
Found at i:9009069 original size:12 final size:12
Alignment explanation
Indices: 9009050--9009080 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
9009040 CTTGATGTTT
9009050 AAAG-TGATGAA
1 AAAGATGATGAA
9009061 AAAGATGATGAA
1 AAAGATGATGAA
9009073 AAAGATGA
1 AAAGATGA
9009081 CTCCAATGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (12 bp):
AAAGATGATGAA
Found at i:9014792 original size:33 final size:34
Alignment explanation
Indices: 9014747--9014811 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
9014737 AATAGTAGCA
*
9014747 TTTTTCGAATACAAATATTGCTAATATAACGACT
1 TTTTTCGAATACAAACATTGCTAATATAACGACT
* *
9014781 TTTTTCG-ATACAAACGTTGTTAATATAACGA
1 TTTTTCGAATACAAACATTGCTAATATAACGA
9014812 TATTTTCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 21 0.75
34 7 0.25
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (34 bp):
TTTTTCGAATACAAACATTGCTAATATAACGACT
Found at i:9017951 original size:22 final size:22
Alignment explanation
Indices: 9017894--9017952 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
9017884 AAATATAAAA
*
9017894 TATATTTTTTATTTTATTAAATT
1 TATATTTTTT-TATTATTAAATT
* **
9017917 TATATATAATTATTATTAAATT
1 TATATTTTTTTATTATTAAATT
*
9017939 TTTATTTTTTTATT
1 TATATTTTTTTATT
9017953 GTATTAATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
22 21 0.75
23 7 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
TATATTTTTTTATTATTAAATT
Found at i:9023523 original size:18 final size:18
Alignment explanation
Indices: 9023500--9023539 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
9023490 TTAGCACTTC
9023500 GTTTCATGTGATCAAGGA
1 GTTTCATGTGATCAAGGA
9023518 GTTTCATGTGATCAAGGA
1 GTTTCATGTGATCAAGGA
9023536 GTTT
1 GTTT
9023540 AGTTTCTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.10, G:0.28, T:0.38
Consensus pattern (18 bp):
GTTTCATGTGATCAAGGA
Found at i:9037484 original size:28 final size:26
Alignment explanation
Indices: 9037447--9037500 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
9037437 AAATATTCAA
**
9037447 AAATAATTATTTATAATTATAATATTTT
1 AAATAATTATAAATAATT-TAA-ATTTT
*
9037475 AAATATTTATAAATAATTTAAATTTT
1 AAATAATTATAAATAATTTAAATTTT
9037501 GGAAGAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 5 0.22
27 3 0.13
28 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
AAATAATTATAAATAATTTAAATTTT
Found at i:9038738 original size:33 final size:32
Alignment explanation
Indices: 9038682--9038744 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
9038672 TATCGATTCT
*
9038682 TATATTTGTATTATATAAAATATTAATAATTTA
1 TATATTTATATTATATAAAATATTAA-AATTTA
***
9038715 TATATTTATATTATATTTTATATTAAAATT
1 TATATTTATATTATATAAAATATTAAAATT
9038745 ATGTGGTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 4 0.15
33 22 0.85
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (32 bp):
TATATTTATATTATATAAAATATTAAAATTTA
Found at i:9038864 original size:15 final size:16
Alignment explanation
Indices: 9038839--9038883 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
9038829 TAAATCATAT
9038839 TATTATCATATTTTTTA
1 TATTAT-ATATTTTTTA
9038856 T-TTATATATTTTTTA
1 TATTATATATTTTTTA
9038871 TATTAT-TATTTTT
1 TATTATATATTTTT
9038884 AAAATTATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 18 0.67
16 8 0.30
17 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTATATATTTTTTA
Found at i:9041988 original size:15 final size:16
Alignment explanation
Indices: 9041968--9041998 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9041958 TTTGCTTCCA
9041968 TTGCTTT-CTTTTATT
1 TTGCTTTACTTTTATT
9041983 TTGCTTTACTTTTATT
1 TTGCTTTACTTTTATT
9041999 CCATTCCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.10, C:0.13, G:0.06, T:0.71
Consensus pattern (16 bp):
TTGCTTTACTTTTATT
Found at i:9043338 original size:106 final size:102
Alignment explanation
Indices: 9043134--9043377 Score: 280
Period size: 106 Copynumber: 2.3 Consensus size: 102
9043124 TTAATTTTTT
* *
9043134 TTAATTTAGTGAAAATAATATATAAATATAAAGTTTTTAAAATATATTTTTAATTATTTTAAACA
1 TTAATTTAGTGAAAAAAATATATAAATATAAAATTTTTAAAATATATTTTTAATTATTTTAAACA
* * *
9043199 GAATTTATACAGACTAATTAACAACACTTTTTAAACA
66 GAATCTATAAACACTAATTAACAACACTTTTTAAACA
*
9043236 TTAATTTAGTGAAAAAAATATATTAAATATAAAAATTTTCTTAAATAT-TATTTTAATTATTTTT
1 TTAATTTAGTGAAAAAAATATA-TAAATAT-AAAATTTT-TAAAATATAT-TTTTAATTA-TTTT
* * *
9043300 AAATAGTATCTATAAACACTCATTAATCAA-A-TTCTTTAAACA
61 AAACAGAATCTATAAACACTAATTAA-CAACACTT-TTTAAACA
* *
9043342 TTAATTTAGT-AAAAATAATATGCTAAATATTAAATT
1 TTAATTTAGTGAAAAA-AATAT-ATAAATATAAAATT
9043378 AAAAATAATA
Statistics
Matches: 122, Mismatches: 11, Indels: 15
0.82 0.07 0.10
Matches are distributed among these distances:
102 21 0.17
103 7 0.06
104 8 0.07
105 28 0.23
106 55 0.45
107 3 0.02
ACGTcount: A:0.47, C:0.07, G:0.04, T:0.42
Consensus pattern (102 bp):
TTAATTTAGTGAAAAAAATATATAAATATAAAATTTTTAAAATATATTTTTAATTATTTTAAACA
GAATCTATAAACACTAATTAACAACACTTTTTAAACA
Found at i:9043368 original size:14 final size:14
Alignment explanation
Indices: 9043351--9043399 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
9043341 ATTAATTTAG
9043351 TAAAAATAATATGC
1 TAAAAATAATATGC
*
9043365 TAAATATTAA-AT--
1 TAAA-AATAATATGC
9043377 TAAAAATAATATGC
1 TAAAAATAATATGC
*
9043391 TAAATATAA
1 TAAAAATAA
9043400 AATCTTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
11 4 0.14
12 6 0.21
14 14 0.50
15 4 0.14
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (14 bp):
TAAAAATAATATGC
Found at i:9043380 original size:26 final size:26
Alignment explanation
Indices: 9043351--9043402 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
9043341 ATTAATTTAG
*
9043351 TAAAAATAATATGCTAAATATTAAAT
1 TAAAAATAATATGCTAAATATAAAAT
9043377 TAAAAATAATATGCTAAATATAAAAT
1 TAAAAATAATATGCTAAATATAAAAT
9043403 CTTTTTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (26 bp):
TAAAAATAATATGCTAAATATAAAAT
Found at i:9043965 original size:23 final size:22
Alignment explanation
Indices: 9043931--9043989 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
9043921 TTATTCTTAA
*
9043931 AAAAATAAATTTTG-AAGAAAAT
1 AAAAATACATTTTGAAAG-AAAT
* *
9043953 AAAAATCACATTTTTAAAGATAT
1 AAAAAT-ACATTTTGAAAGAAAT
9043976 AAAAATTACATTTT
1 AAAAA-TACATTTT
9043990 CAATCTAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 6 0.19
23 21 0.68
24 4 0.13
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (22 bp):
AAAAATACATTTTGAAAGAAAT
Found at i:9043967 original size:24 final size:23
Alignment explanation
Indices: 9043940--9043989 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
9043930 AAAAAATAAA
*
9043940 TTTTGAAGAAAATAAAAATCACAT
1 TTTTAAAG-AAATAAAAATCACAT
* *
9043964 TTTTAAAGATATAAAAATTACAT
1 TTTTAAAGAAATAAAAATCACAT
9043987 TTT
1 TTT
9043990 CAATCTAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (23 bp):
TTTTAAAGAAATAAAAATCACAT
Found at i:9055970 original size:21 final size:21
Alignment explanation
Indices: 9055944--9055985 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
9055934 ATAAAGTTAA
*
9055944 AGTACGGTGACTCATTACTAT
1 AGTACGGTGACTCATCACTAT
9055965 AGTACGGTGACTCATCACTAT
1 AGTACGGTGACTCATCACTAT
9055986 GACTCATCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (21 bp):
AGTACGGTGACTCATCACTAT
Found at i:9055990 original size:13 final size:13
Alignment explanation
Indices: 9055972--9055996 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9055962 TATAGTACGG
9055972 TGACTCATCACTA
1 TGACTCATCACTA
9055985 TGACTCATCACT
1 TGACTCATCACT
9055997 TAGTTGACAT
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:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (13 bp):
TGACTCATCACTA
Found at i:9058168 original size:21 final size:22
Alignment explanation
Indices: 9058126--9058172 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
9058116 CCCAAAATTA
9058126 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
9058148 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
9058169 ATAA
1 ATAA
9058173 GTATTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:9060989 original size:12 final size:12
Alignment explanation
Indices: 9060972--9061000 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9060962 GTGGTAAAGG
9060972 TTGGGTGGAATC
1 TTGGGTGGAATC
9060984 TTGGGTGGAATC
1 TTGGGTGGAATC
9060996 -TGGGT
1 TTGGGT
9061001 TTTGTGTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.14, C:0.07, G:0.45, T:0.34
Consensus pattern (12 bp):
TTGGGTGGAATC
Found at i:9065963 original size:14 final size:14
Alignment explanation
Indices: 9065916--9065963 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
9065906 ACATTAATGA
*
9065916 TTAAATATTAAT-T
1 TTAAAAATTAATAT
* *
9065929 TTTAAAATAAATAT
1 TTAAAAATTAATAT
*
9065943 ATAAAAATTAATAT
1 TTAAAAATTAATAT
9065957 TTAAAAA
1 TTAAAAA
9065964 AATTTATTTA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 9 0.33
14 18 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTAAAAATTAATAT
Found at i:9071624 original size:9 final size:9
Alignment explanation
Indices: 9071606--9071673 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
9071596 AAGTTCTTCC
9071606 TCCTCCTCT
1 TCCTCCTCT
*
9071615 TCCTCTTCT
1 TCCTCCTCT
9071624 TCCTCCTCT
1 TCCTCCTCT
*
9071633 TCCTCGC-CA
1 TCCTC-CTCT
* * *
9071642 TCATCGTCA
1 TCCTCCTCT
*
9071651 TCATCCTCT
1 TCCTCCTCT
*
9071660 TCCTCCTCA
1 TCCTCCTCT
9071669 TCCTC
1 TCCTC
9071674 GTCGTCATCC
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
9 47 0.98
10 1 0.02
ACGTcount: A:0.07, C:0.50, G:0.03, T:0.40
Consensus pattern (9 bp):
TCCTCCTCT
Done.