Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 267 of 295
Found at i:85203501 original size:12 final size:11
Alignment explanation
Indices: 85203464--85203502 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
85203454 ACCCTAATTC
85203464 TCTTTTTTCTTT
1 TCTTTTTTC-TT
85203476 TCTTTTCTTCTT
1 TCTTTT-TTCTT
85203488 TCTTTCTTTCTT
1 TCTTT-TTTCTT
85203500 TCT
1 TCT
85203503 ATTTCGTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TCTTTTTTCTT
Found at i:85203516 original size:14 final size:14
Alignment explanation
Indices: 85203469--85203550 Score: 50
Period size: 15 Copynumber: 5.9 Consensus size: 14
85203459 AATTCTCTTT
85203469 TTTCTTTTCT-TTTC
1 TTTC-TTTCTATTTC
85203483 -TTCTTTC--TTTC
1 TTTCTTTCTATTTC
85203494 TTTCTTTCTATTTC
1 TTTCTTTCTATTTC
85203508 GTTTC-TTCTCAGTTTC
1 -TTTCTTTCT-A-TTTC
* * *
85203524 TTTTTCTTGTTTTTC
1 TTTCT-TTCTATTTC
85203539 TTTCTTT-TATTT
1 TTTCTTTCTATTT
85203551 ATTCTTTATT
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
11 4 0.07
12 11 0.20
13 7 0.13
14 10 0.18
15 16 0.29
16 4 0.07
17 3 0.05
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.73
Consensus pattern (14 bp):
TTTCTTTCTATTTC
Found at i:85203524 original size:30 final size:28
Alignment explanation
Indices: 85203464--85203528 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 28
85203454 ACCCTAATTC
* **
85203464 TCTTTTTTCTTTTCTTTTCTTCTTTCTT
1 TCTTTTTTCTTTTCGTTTCTTCTCACTT
*
85203492 TCTTTCTTTCTATTTCGTTTCTTCTCAGTT
1 TCTTT-TTTCT-TTTCGTTTCTTCTCACTT
85203522 TCTTTTT
1 TCTTTTT
85203529 CTTGTTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 5 0.16
29 7 0.23
30 19 0.61
ACGTcount: A:0.03, C:0.22, G:0.03, T:0.72
Consensus pattern (28 bp):
TCTTTTTTCTTTTCGTTTCTTCTCACTT
Found at i:85203722 original size:3 final size:3
Alignment explanation
Indices: 85203714--85203738 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
85203704 TTGATAAAAT
85203714 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
85203739 GTAAATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:85206308 original size:27 final size:27
Alignment explanation
Indices: 85206255--85206308 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
85206245 ATATATAATT
* *
85206255 ATTATAAAATAATCATTTTGTACTTAA
1 ATTATAAAATAATCAATTTGTAATTAA
*
85206282 ATTATTAAAATAATGAATTT-TAATTAA
1 ATTA-TAAAATAATCAATTTGTAATTAA
85206309 TTTTATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (27 bp):
ATTATAAAATAATCAATTTGTAATTAA
Found at i:85206316 original size:22 final size:22
Alignment explanation
Indices: 85206291--85206336 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
85206281 AATTATTAAA
85206291 ATAATGAATTTTAATTAATTTT
1 ATAATGAATTTTAATTAATTTT
* **
85206313 ATAATTAATTTTGTTTAATTTT
1 ATAATGAATTTTAATTAATTTT
85206335 AT
1 AT
85206337 CATTTTCAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (22 bp):
ATAATGAATTTTAATTAATTTT
Found at i:85217236 original size:20 final size:20
Alignment explanation
Indices: 85217170--85217236 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
85217160 ATTTTGATAA
*
85217170 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
85217190 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
85217210 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
85217230 ACGTGAT
1 ACATGAT
85217237 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:85217384 original size:24 final size:23
Alignment explanation
Indices: 85217287--85217382 Score: 156
Period size: 23 Copynumber: 4.1 Consensus size: 23
85217277 AGGAAGTGAA
85217287 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
85217310 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
85217333 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* * *
85217356 AAAAGGTCTTTTACCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
85217380 AAA
1 AAA
85217383 AGAGGCTAGG
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
23 49 0.71
24 20 0.29
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:85217635 original size:31 final size:31
Alignment explanation
Indices: 85217597--85217660 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
85217587 CGTTTACAGT
*
85217597 AAAGGCTTCAGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* **
85217628 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
85217659 AA
1 AA
85217661 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:85223659 original size:39 final size:40
Alignment explanation
Indices: 85223539--85223763 Score: 273
Period size: 40 Copynumber: 5.7 Consensus size: 40
85223529 GCTACTCGTT
* *
85223539 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
85223579 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
85223619 CCAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
85223658 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
85223697 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
85223738 CAAA-GCCTTCGGGACTTAGCCCGGAA
1 CAAATGCCTTCGGGACTTAGCCCGGAA
85223764 ATCATTCGAA
Statistics
Matches: 165, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 72 0.44
40 77 0.47
41 14 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:85223709 original size:78 final size:80
Alignment explanation
Indices: 85223539--85223763 Score: 262
Period size: 79 Copynumber: 2.8 Consensus size: 80
85223529 GCTACTCGTT
**
85223539 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
*
85223604 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * * *
85223619 CCAATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACATAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
85223681 GAATTAGTAACTCGCA
65 GAATTAGTAACTCGCA
* * * * * * *
85223697 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGAATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
85223760 GGAA
64 GGAA
85223764 ATCATTCGAA
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
77 2 0.02
78 36 0.29
79 53 0.42
80 34 0.27
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:85223722 original size:118 final size:120
Alignment explanation
Indices: 85223541--85223759 Score: 295
Period size: 118 Copynumber: 1.8 Consensus size: 120
85223531 TACTCGTTCA
*
85223541 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
85223606 TTAGTAAC-TCGCACCAATGCCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCACC
66 ATAGTAACTTAGCA-CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACC
* **
85223660 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
85223722 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCC
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCC
85223760 GGAAATCATT
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
117 4 0.05
118 59 0.68
119 24 0.28
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACC
Found at i:85230815 original size:21 final size:21
Alignment explanation
Indices: 85230762--85230817 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
85230752 GGGTCTACAT
*
85230762 GCCCATGTGAAAGA-GGCATAC
1 GCCCGTGTG-AAGATGGCATAC
* *
85230783 ACCTGTGTGAAGATGGCATAC
1 GCCCGTGTGAAGATGGCATAC
85230804 GCCCGTGTGAAGAT
1 GCCCGTGTGAAGAT
85230818 AACACACGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.20
Consensus pattern (21 bp):
GCCCGTGTGAAGATGGCATAC
Found at i:85230826 original size:21 final size:21
Alignment explanation
Indices: 85230787--85230833 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
85230777 GCATACACCT
** *
85230787 GTGTGAAGATGGCATACGCCC
1 GTGTGAAGATAACACACGCCC
*
85230808 GTGTGAAGATAACACACGCCT
1 GTGTGAAGATAACACACGCCC
85230829 GTGTG
1 GTGTG
85230834 TCCAAGGGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (21 bp):
GTGTGAAGATAACACACGCCC
Found at i:85235569 original size:172 final size:176
Alignment explanation
Indices: 85235154--85235605 Score: 605
Period size: 172 Copynumber: 2.6 Consensus size: 176
85235144 ATCTTCGCAG
85235154 ATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTCATCT-T-TGA
1 ATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTCATCTCTCTGA
* * *
85235217 GGTAGCAAGAGAGCAGACTGAAGAGTGAGTCTTATCTTCCTGATGTAGCAAGGAAGCAGACTGAG
66 GGTAGCAAGAGAGCAGGCTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAG
* *** *
85235282 AATTGAAGATTTTATCTCCCTGAGATTACAGCGGAGTAGATCTTCGCAG
131 AATTGAAGA-TTTATCTCCCTGAGATTACAGCGGAGCAGA--TTAAAAA
* *
85235331 ATGGTGAGTCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAACCTCATCTCTCTGA
1 ATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTCATCTCTCTGA
* * * * *
85235396 GGTAACATGAGAGTAGGTTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAG
66 GGTAGCAAGAGAGCAGGCTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAG
** *
85235461 AATTG-A-A-TTATCTCCCTGA-AGTTGTAGTGGAGCAGA-TAAAAA
131 AATTGAAGATTTATCTCCCTGAGA-TTACAGCGGAGCAGATTAAAAA
* *
85235503 ATGGTTAATCTTATCTCCATGTATCGGCAATGGA-CTAGATTTTACCACCAGCCTTATCTCTCTG
1 ATGGTGAATCTTATCTCCATGTATCGGCAATGGAGC-AGATTTTACCACCAGCCTCATCTCTCTG
* *
85235567 AGGTAGCAAGAGAGCGGGCTGAAGATTGAGTCTTATCTT
65 AGGTAGCAAGAGAGCAGGCTGAAGAATGAGTCTTATCTT
85235606 TTTGAAGTAG
Statistics
Matches: 243, Mismatches: 28, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
171 1 0.00
172 93 0.38
174 1 0.00
175 23 0.09
177 58 0.24
178 2 0.01
179 65 0.27
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (176 bp):
ATGGTGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTACCACCAGCCTCATCTCTCTGA
GGTAGCAAGAGAGCAGGCTGAAGAATGAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAG
AATTGAAGATTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAA
Found at i:85285064 original size:12 final size:12
Alignment explanation
Indices: 85285047--85285071 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
85285037 TGGACAAAAA
85285047 TTGGCTTTTAAT
1 TTGGCTTTTAAT
85285059 TTGGCTTTTAAT
1 TTGGCTTTTAAT
85285071 T
1 T
85285072 CATTTAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TTGGCTTTTAAT
Found at i:85287542 original size:86 final size:86
Alignment explanation
Indices: 85287395--85287552 Score: 212
Period size: 86 Copynumber: 1.8 Consensus size: 86
85287385 TTCTGAGATG
* * * * *
85287395 TGAGATATCGTGTAAGACCCTGTCTGGGATAGTGGTATCGATATATGATTTCGTGTAAGACCAC-
1 TGAGATATCGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATAATTTCATGTAAGACC-CT
85287459 ATCTGGGATGTTGTCATCAATT
65 ATCTGGGATGTTGTCATCAATT
* * *
85287481 TGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTAATTTCATGTAAGACCCT
1 TGAGATAT-CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATAATTTCATGTAAGACCCT
85287545 ATCTGGGA
65 ATCTGGGA
85287553 CAGTGGCATA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 1 0.02
86 33 0.53
87 28 0.45
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (86 bp):
TGAGATATCGTGTAAGACCATGTCTGGGACAGTGGCATCGATATATAATTTCATGTAAGACCCTA
TCTGGGATGTTGTCATCAATT
Found at i:85287550 original size:42 final size:42
Alignment explanation
Indices: 85287402--85287561 Score: 137
Period size: 43 Copynumber: 3.7 Consensus size: 42
85287392 ATGTGAGATA
* * * * *
85287402 TCGTGTAAGACCCTGTCTGGGATAGTGGTATCGATATATGATT
1 TCGTGTAAGACCCTATCTGGGACAGTGGCATCG-TATTTAATT
* * *
85287445 TCGTGTAAGACCAC-ATCTGGGA-TGTTGTCATC-AATTTGAGATT
1 TCGTGTAAGACC-CTATCTGGGACAG-TGGCATCGTATTT-A-ATT
* * *
85287488 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTTAATT
1 T-CGTGTAAGACCCTATCTGGGACAGTGGCATCGTATTTAATT
*
85287531 TCATGTAAGACCCTATCTGGGACAGTGGCAT
1 TCGTGTAAGACCCTATCTGGGACAGTGGCAT
85287562 ATGTAAGACC
Statistics
Matches: 92, Mismatches: 17, Indels: 17
0.73 0.13 0.13
Matches are distributed among these distances:
41 3 0.03
42 27 0.29
43 32 0.35
44 26 0.28
45 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TCGTGTAAGACCCTATCTGGGACAGTGGCATCGTATTTAATT
Found at i:85288799 original size:46 final size:46
Alignment explanation
Indices: 85288745--85288871 Score: 184
Period size: 46 Copynumber: 2.8 Consensus size: 46
85288735 GTTGAGCATC
* * * *
85288745 CGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCT
85288791 CGAACTCGTTGAGTTGAG-CCTGAGTTCACTTATGGATGCAAACGCT
1 CGAACTCGTTGAGTTGAGTCC-GAGTTCACTTATGGATGCAAACGCT
* *
85288837 CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85288872 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
45 2 0.03
46 69 0.95
47 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCT
Found at i:85292478 original size:3 final size:3
Alignment explanation
Indices: 85292470--85292495 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
85292460 TATGTAAGTA
85292470 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
85292496 TTAAAGAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:85298851 original size:22 final size:23
Alignment explanation
Indices: 85298800--85298864 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
85298790 GAGCTGATGG
85298800 ACAGTAAGCTCTATTGAGCTGAA
1 ACAGTAAGCTCTATTGAGCTGAA
* *
85298823 ACGGTAAGCTCTATCT-TGCT-AA
1 ACAGTAAGCTCTAT-TGAGCTGAA
85298845 ACAGTAAGCTC-ATATGAGCT
1 ACAGTAAGCTCTAT-TGAGCT
85298865 AATATATCGA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 3 0.09
22 15 0.43
23 16 0.46
24 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (23 bp):
ACAGTAAGCTCTATTGAGCTGAA
Found at i:85298865 original size:22 final size:21
Alignment explanation
Indices: 85298800--85298866 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 21
85298790 GAGCTGATGG
85298800 ACAGTAAGCTCTATTGAGCTGAA
1 ACAGTAAGCTCTA-TGAGCT-AA
* **
85298823 ACGGTAAGCTCTATCTTGCTAA
1 ACAGTAAGCTCTAT-GAGCTAA
85298845 ACAGTAAGCTCATATGAGCTAA
1 ACAGTAAGCTC-TATGAGCTAA
85298867 TATATCGATA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
22 18 0.50
23 18 0.50
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.27
Consensus pattern (21 bp):
ACAGTAAGCTCTATGAGCTAA
Found at i:85302195 original size:48 final size:48
Alignment explanation
Indices: 85302124--85302219 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
85302114 ATCTAAAAAG
*
85302124 ACGGTTGATGCTACCGAAGAATGGTGGGCTGAAAAAATACAGGTTAGT
1 ACGGTTGATGCTACCAAAGAATGGTGGGCTGAAAAAATACAGGTTAGT
85302172 ACGGTTGATGCTACCAAAGAATGGTGGGCTGAAAAAATACAGGTTAGT
1 ACGGTTGATGCTACCAAAGAATGGTGGGCTGAAAAAATACAGGTTAGT
85302220 GTTAACTTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.23
Consensus pattern (48 bp):
ACGGTTGATGCTACCAAAGAATGGTGGGCTGAAAAAATACAGGTTAGT
Found at i:85303195 original size:20 final size:19
Alignment explanation
Indices: 85303159--85303208 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
85303149 AAGGGCTATT
85303159 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTAAAATAA
*
85303178 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTAAAATAA
*
85303198 TTGAAAATGTG
1 TTGTAAATGTG
85303209 AGTTGCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 16 0.59
21 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.22, T:0.36
Consensus pattern (19 bp):
TTGTAAATGTGTAAAATAA
Found at i:85304114 original size:49 final size:49
Alignment explanation
Indices: 85304046--85304217 Score: 170
Period size: 49 Copynumber: 3.5 Consensus size: 49
85304036 GATGTGTGTT
* * *
85304046 AGTGTAAGACCTGTTTGGGACATGGCATCGACATCGATAGATGAGAGCC
1 AGTGTAAGACTTGTCTGGGACATGGCATCGACATCGATAGATGAAAGCC
** * * * *
85304095 AGTGTAAGACTTGTCTGGGACACAGCATC-AGCCTCAATATATGAAAGTC
1 AGTGTAAGACTTGTCTGGGACATGGCATCGA-CATCGATAGATGAAAGCC
* * ** *
85304144 AGTGTAAGACTTGTCTGGGACATGGCATCGACTTTGAT-G-TGCTAGCT
1 AGTGTAAGACTTGTCTGGGACATGGCATCGACATCGATAGATGAAAGCC
*
85304191 AGTGTAAGACCATGTCTGGGACATGGC
1 AGTGTAAGA-CTTGTCTGGGACATGGC
85304218 GTCAGCATCT
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
47 13 0.13
48 17 0.17
49 69 0.69
50 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACTTGTCTGGGACATGGCATCGACATCGATAGATGAAAGCC
Found at i:85322308 original size:25 final size:26
Alignment explanation
Indices: 85322275--85322349 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
85322265 CAAAAAAATG
* * *
85322275 AAAATTAAATAATAATAAAAC-GATTT
1 AAAA-TAAATAATAACAAAACAAACTT
*
85322301 AAAATAAATAATATAAGAAAACAAACTT
1 AAAATAAAT-A-ATAACAAAACAAACTT
85322329 AAAATAAATAATAACAAAACA
1 AAAATAAATAATAACAAAACA
85322350 GTTCCTAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
25 5 0.12
26 15 0.36
27 10 0.24
28 12 0.29
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.23
Consensus pattern (26 bp):
AAAATAAATAATAACAAAACAAACTT
Found at i:85323349 original size:21 final size:24
Alignment explanation
Indices: 85323325--85323375 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
85323315 ATACAAGCTG
85323325 TTCTTTATTG-C-TCTT-TGTTGT
1 TTCTTTATTGTCTTCTTCTGTTGT
* *
85323346 TTCTATATTGTCTTCTTCTGTTTT
1 TTCTTTATTGTCTTCTTCTGTTGT
85323370 TTCTTT
1 TTCTTT
85323376 TCTATTGCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 9 0.38
22 1 0.04
23 4 0.17
24 10 0.42
ACGTcount: A:0.06, C:0.16, G:0.10, T:0.69
Consensus pattern (24 bp):
TTCTTTATTGTCTTCTTCTGTTGT
Found at i:85324647 original size:53 final size:53
Alignment explanation
Indices: 85324583--85324686 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
85324573 GGGAGCATAG
85324583 CTCGAAATGAATAAATTAATCAAAGATAGA-AAATGCAATAAGAAGGAAATTAA
1 CTCGAAATGAATAAATTAATCAAAGATA-ACAAATGCAATAAGAAGGAAATTAA
* * *
85324636 CTCGAAGTGAATAAGTTAATCAAAGATAACAAATGTAATAAGAAGGAAATT
1 CTCGAAATGAATAAATTAATCAAAGATAACAAATGCAATAAGAAGGAAATT
85324687 GATTGGGACC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.02
53 46 0.98
ACGTcount: A:0.54, C:0.08, G:0.16, T:0.22
Consensus pattern (53 bp):
CTCGAAATGAATAAATTAATCAAAGATAACAAATGCAATAAGAAGGAAATTAA
Found at i:85325095 original size:5 final size:5
Alignment explanation
Indices: 85325013--85325085 Score: 137
Period size: 5 Copynumber: 14.4 Consensus size: 5
85325003 GGCCTCTCCG
85325013 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
85325063 TTTTC TTTTC TTTTC TTCTTC TT
1 TTTTC TTTTC TTTTC TT-TTC TT
85325086 CTTTTTTTTT
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 62 0.93
6 5 0.07
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:85333238 original size:15 final size:16
Alignment explanation
Indices: 85333213--85333245 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
85333203 ATTAATGTCT
85333213 AAATGTTGAAAATTGA
1 AAATGTTGAAAATTGA
*
85333229 AAAT-TTGAAATTTGA
1 AAATGTTGAAAATTGA
85333244 AA
1 AA
85333246 TGATTTCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (16 bp):
AAATGTTGAAAATTGA
Found at i:85333938 original size:24 final size:24
Alignment explanation
Indices: 85333911--85333969 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
85333901 GTGGAGAAAC
85333911 AAATTTAAAATAGATACTATAAAA
1 AAATTTAAAATAGATACTATAAAA
* * **
85333935 AAATTTTAAGTAGATTGTATAAAA
1 AAATTTAAAATAGATACTATAAAA
*
85333959 CAATTTAAAAT
1 AAATTTAAAAT
85333970 CATTGATATA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (24 bp):
AAATTTAAAATAGATACTATAAAA
Found at i:85334121 original size:17 final size:16
Alignment explanation
Indices: 85334094--85334126 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
85334084 AGTTTAAAAT
85334094 AAATAATATATATAAA
1 AAATAATATATATAAA
85334110 AAATACATATATATAAA
1 AAATA-ATATATATAAA
85334127 CAGTTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATAATATATATAAA
Found at i:85338203 original size:51 final size:51
Alignment explanation
Indices: 85338141--85338242 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
85338131 TTATGTATTG
85338141 GCATTACGTCATTGTTCTTAATTAATGAAATTATCATCATTTTTCATTCAA
1 GCATTACGTCATTGTTCTTAATTAATGAAATTATCATCATTTTTCATTCAA
*
85338192 GCATTATGTCATTGTTCTTAATTAATGAAATTATCATCATTTTTCATTCAA
1 GCATTACGTCATTGTTCTTAATTAATGAAATTATCATCATTTTTCATTCAA
85338243 CATACTCTCC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (51 bp):
GCATTACGTCATTGTTCTTAATTAATGAAATTATCATCATTTTTCATTCAA
Found at i:85344244 original size:7 final size:7
Alignment explanation
Indices: 85344234--85344264 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
85344224 GATTTTAAAT
85344234 TTTGGAA
1 TTTGGAA
85344241 TTTGGAA
1 TTTGGAA
85344248 TTTGGAA
1 TTTGGAA
85344255 TTTGGAA
1 TTTGGAA
85344262 TTT
1 TTT
85344265 TTAAAATCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (7 bp):
TTTGGAA
Found at i:85347470 original size:10 final size:10
Alignment explanation
Indices: 85347443--85347502 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
85347433 TTTTTAAATC
*
85347443 TTAAAAATAA
1 TTAAAAATTA
* *
85347453 ATATAAATTA
1 TTAAAAATTA
85347463 TTAAAAA-TA
1 TTAAAAATTA
85347472 TTAAAAATTA
1 TTAAAAATTA
*
85347482 TGTTAAAATATTT
1 --TTAAAA-ATTA
85347495 TTAAAAAT
1 TTAAAAAT
85347503 AAACATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 9 0.22
10 16 0.40
11 6 0.15
12 6 0.15
13 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:85347541 original size:29 final size:30
Alignment explanation
Indices: 85347485--85347541 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
85347475 AAAATTATGT
* *
85347485 TAAAATATTTTTAAAAATAAACATTATAAA
1 TAAAATATTTCTAAAAATAAACAATATAAA
85347515 TAAAA-ATTTCTAAAAATTAAA-AATATA
1 TAAAATATTTCTAAAAA-TAAACAATATA
85347542 TATGTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (30 bp):
TAAAATATTTCTAAAAATAAACAATATAAA
Found at i:85347550 original size:31 final size:29
Alignment explanation
Indices: 85347466--85347561 Score: 86
Period size: 31 Copynumber: 3.2 Consensus size: 29
85347456 TAAATTATTA
* *
85347466 AAAATATTAAAAATTATGTTAAAATATTTTT
1 AAAA-ATTAAAAATTATATTAAAA-ATTTCT
* *
85347497 AAAAA-TAAACATTATAAATAAAAATTTCT
1 AAAAATTAAAAATTAT-ATTAAAAATTTCT
**
85347526 AAAAATTAAAAATATATATGTAAAAAAATCT
1 AAAAATTAAAAAT-TATAT-TAAAAATTTCT
85347557 AAAAA
1 AAAAA
85347562 GGTTACAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
29 19 0.36
30 13 0.25
31 21 0.40
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAAATTAAAAATTATATTAAAAATTTCT
Found at i:85354781 original size:40 final size:40
Alignment explanation
Indices: 85354726--85354804 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
85354716 TTGATGTGTA
85354726 TCCGGGCTTAAAGACCCGCAGGCTATATGCTAGAATTATG
1 TCCGGGCTTAAAGACCCGCAGGCTATATGCTAGAATTATG
*
85354766 TCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTAT
1 TCCGGGCTTAAAGACCCGCAGGCTATATGCTAGAATTAT
85354805 ACCCGGACTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
TCCGGGCTTAAAGACCCGCAGGCTATATGCTAGAATTATG
Found at i:85354836 original size:39 final size:39
Alignment explanation
Indices: 85354741--85354878 Score: 150
Period size: 39 Copynumber: 3.5 Consensus size: 39
85354731 GCTTAAAGAC
* * ** * **
85354741 CCGCAGGCTATATGCTAGAATTATGTCCGGGCTTAAAGAC
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTT-AAGGT
* * *
85354781 CCGCAGGCTATATGCTGGAATTATACCCGGACTTCAGGT
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
85354820 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
* * *
85354859 TCGCAGGCTACGCGCTGGAA
1 CCGCAGGCTATGTGCTGGAA
85354879 ATATGTCCAG
Statistics
Matches: 85, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 55 0.65
40 30 0.35
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
Found at i:85362869 original size:22 final size:22
Alignment explanation
Indices: 85362842--85362889 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
85362832 TTTAGTTTGA
85362842 TTTTGTTTTCATGGAAATCGGT
1 TTTTGTTTTCATGGAAATCGGT
85362864 TTTTGTTTTCATGGAAATCGGT
1 TTTTGTTTTCATGGAAATCGGT
85362886 TTTT
1 TTTT
85362890 ATGCCTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.17, C:0.08, G:0.21, T:0.54
Consensus pattern (22 bp):
TTTTGTTTTCATGGAAATCGGT
Found at i:85365944 original size:26 final size:26
Alignment explanation
Indices: 85365897--85365978 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 26
85365887 ATAATATATG
* * *
85365897 TTATAAATTTGTATAA-TATATATTT
1 TTATAAATTTATAGAATTTTATATTT
** *
85365922 TTATAAATTTATAGGCTTTTATATAT
1 TTATAAATTTATAGAATTTTATATTT
* * *
85365948 TTATATATTTATATAATTTTACATTT
1 TTATAAATTTATAGAATTTTATATTT
85365974 TTATA
1 TTATA
85365979 TGCTTTTCAA
Statistics
Matches: 44, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
25 12 0.27
26 32 0.73
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (26 bp):
TTATAAATTTATAGAATTTTATATTT
Found at i:85365962 original size:18 final size:18
Alignment explanation
Indices: 85365913--85365979 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
85365903 ATTTGTATAA
*
85365913 TATATATTTTTATAAATT
1 TATATATTTTTATATATT
***
85365931 TATAGGCTTTTATATATT
1 TATATATTTTTATATATT
*
85365949 TATATATTTATATA-ATT
1 TATATATTTTTATATATT
*
85365966 T-TACATTTTTATAT
1 TATATATTTTTATAT
85365980 GCTTTTCAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
16 10 0.26
17 4 0.11
18 24 0.63
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (18 bp):
TATATATTTTTATATATT
Found at i:85365973 original size:16 final size:17
Alignment explanation
Indices: 85365897--85365978 Score: 53
Period size: 16 Copynumber: 4.9 Consensus size: 17
85365887 ATAATATATG
* *
85365897 TTATAAATTTGTATAAT
1 TTATACATTTATATAAT
* **
85365914 ATATATTTTTATA-AAT
1 TTATACATTTATATAAT
*
85365930 TTATAGGCTTTTATAT-AT
1 TTATA--CATTTATATAAT
*
85365948 TTATATATTTATATAAT
1 TTATACATTTATATAAT
*
85365965 TT-TACATTTTTATA
1 TTATACATTTATATA
85365979 TGCTTTTCAA
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
16 24 0.47
17 13 0.25
18 14 0.27
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (17 bp):
TTATACATTTATATAAT
Found at i:85367537 original size:15 final size:15
Alignment explanation
Indices: 85367519--85367548 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
85367509 ATTTTAATTT
85367519 TTTATAATTTATATA
1 TTTATAATTTATATA
85367534 TTTATAATTTATATA
1 TTTATAATTTATATA
85367549 AATTAAATCA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTATAATTTATATA
Found at i:85368285 original size:23 final size:23
Alignment explanation
Indices: 85368244--85368291 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
85368234 TATTCACTTA
* **
85368244 TATTTTATTTTTATTTTAAATAT
1 TATTTTATATTTAAATTAAATAT
*
85368267 TATTTTATATTTAAATTAATTAT
1 TATTTTATATTTAAATTAAATAT
85368290 TA
1 TA
85368292 ATATTCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TATTTTATATTTAAATTAAATAT
Found at i:85368745 original size:13 final size:13
Alignment explanation
Indices: 85368729--85368754 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85368719 AAAGTAAAAA
85368729 TTTATTAAATTTT
1 TTTATTAAATTTT
85368742 TTTATTAAATTTT
1 TTTATTAAATTTT
85368755 AATAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTAAATTTT
Found at i:85369086 original size:18 final size:18
Alignment explanation
Indices: 85369059--85369145 Score: 88
Period size: 19 Copynumber: 4.8 Consensus size: 18
85369049 TTATAGATTT
*
85369059 TTTTAT-ATTTCTATATA
1 TTTTATAATTTTTATATA
85369076 TTTTATAATTTTTATGAT-
1 TTTTATAATTTTTAT-ATA
* *
85369094 TTTTATAAAATTTTATATT
1 TTTTAT-AATTTTTATATA
**
85369113 TTTTACGATTTTTATATTA
1 TTTTATAATTTTTATA-TA
85369132 TTTTATAATTTTTA
1 TTTTATAATTTTTA
85369146 ATAAAAGCAT
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
17 6 0.11
18 23 0.40
19 28 0.49
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTATAATTTTTATATA
Found at i:85369106 original size:28 final size:28
Alignment explanation
Indices: 85369038--85369145 Score: 121
Period size: 28 Copynumber: 3.8 Consensus size: 28
85369028 TTCTTAGGAC
85369038 TTTATAAAATTTTATAGATTTTTTTAT-ATT
1 TTTATAAAATTTTATA-A--TTTTTATGATT
* *
85369068 TCTAT-ATATTTTATAATTTTTATGATT
1 TTTATAAAATTTTATAATTTTTATGATT
* *
85369095 TTTATAAAATTTTATATTTTTTACGATT
1 TTTATAAAATTTTATAATTTTTATGATT
**
85369123 TTTATATTATTTTATAATTTTTA
1 TTTATAAAATTTTATAATTTTTA
85369146 ATAAAAGCAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
26 7 0.10
27 7 0.10
28 40 0.60
29 9 0.13
30 4 0.06
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTATAAAATTTTATAATTTTTATGATT
Found at i:85369135 original size:10 final size:9
Alignment explanation
Indices: 85369046--85369143 Score: 60
Period size: 10 Copynumber: 10.6 Consensus size: 9
85369036 ACTTTATAAA
*
85369046 ATTTTATAG
1 ATTTTATAT
*
85369055 ATTTTTTTAT
1 A-TTTTATAT
85369065 ATTTCTATAT
1 ATTT-TATAT
85369075 ATTTTATA-
1 ATTTTATAT
85369083 ATTTT-TAT
1 ATTTTATAT
*
85369091 GATTTTTATAAA
1 -A-TTTTAT-AT
85369103 ATTTTATAT
1 ATTTTATAT
* *
85369112 TTTTTACGAT
1 ATTTTA-TAT
85369122 -TTTTATATT
1 ATTTTATA-T
85369131 ATTTTATA-
1 ATTTTATAT
85369139 ATTTT
1 ATTTT
85369144 TAATAAAAGC
Statistics
Matches: 71, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
7 2 0.03
8 11 0.15
9 21 0.30
10 34 0.48
11 2 0.03
12 1 0.01
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (9 bp):
ATTTTATAT
Found at i:85369149 original size:10 final size:9
Alignment explanation
Indices: 85369047--85369145 Score: 74
Period size: 9 Copynumber: 10.6 Consensus size: 9
85369037 CTTTATAAAA
85369047 TTTTATAGAT
1 TTTTATA-AT
*
85369057 TTTTTTATAT
1 TTTTATA-AT
*
85369067 TTCTAT-AT
1 TTTTATAAT
85369075 ATTTTATAAT
1 -TTTTATAAT
*
85369085 TTTTATGAT
1 TTTTATAAT
*
85369094 TTTTATAAAA
1 TTTTAT-AAT
*
85369104 TTTTATATT
1 TTTTATAAT
**
85369113 TTTTACGAT
1 TTTTATAAT
*
85369122 TTTTATATT
1 TTTTATAAT
85369131 ATTTTATAAT
1 -TTTTATAAT
85369141 TTTTA
1 TTTTA
85369146 ATAAAAGCAT
Statistics
Matches: 68, Mismatches: 17, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
8 2 0.03
9 37 0.54
10 29 0.43
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:85389821 original size:22 final size:22
Alignment explanation
Indices: 85389796--85389849 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
85389786 AAATTTTTCC
*
85389796 AAAAAATAAAGATAATAAAAAT-
1 AAAAAATAAA-ACAATAAAAATA
* *
85389818 AAAAAATAAACCAATCAAAATA
1 AAAAAATAAAACAATAAAAATA
85389840 AAAAAATAAA
1 AAAAAATAAA
85389850 TTTAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 8 0.29
22 20 0.71
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.15
Consensus pattern (22 bp):
AAAAAATAAAACAATAAAAATA
Found at i:85412936 original size:42 final size:46
Alignment explanation
Indices: 85412831--85413005 Score: 153
Period size: 48 Copynumber: 3.8 Consensus size: 46
85412821 TAGTAAGATG
*
85412831 CCAACGCCATATCCCAGATATGGTCTTACATGGGATCACAACTCAAT
1 CCAAAGCCATATCCCAGATATGGTCTTACATGGGATCACAACT-AAT
* * * *
85412878 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTC-A-T-AT
1 -CCAAAGCCATATCCCAGATATGGTCTTACATGGGATCACAACTAAT
* * *
85412922 -CAAAGCCATATCCCAGATATGGTCGTACAATGTGA-CACATACTGAT
1 CCAAAGCCATATCCCAGATATGGTCTTAC-ATGGGATCACA-ACTAAT
* * * * *
85412968 ACCGATGCCATATCCCATATATGGTCTTATACGGGATC
1 -CCAAAGCCATATCCCAGATATGGTCTTACATGGGATC
85413006 TCATCACCCC
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
42 26 0.25
43 5 0.05
44 3 0.03
45 1 0.01
46 3 0.03
47 5 0.05
48 59 0.58
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (46 bp):
CCAAAGCCATATCCCAGATATGGTCTTACATGGGATCACAACTAAT
Found at i:85412992 original size:90 final size:90
Alignment explanation
Indices: 85412836--85413009 Score: 226
Period size: 90 Copynumber: 1.9 Consensus size: 90
85412826 AGATGCCAAC
* * *
85412836 GCCATATCCCAGATATGGTCTTACATGGGATCACAACTCAATGCCAATGCCATGTCCCAGACATG
1 GCCATATCCCAGATATGGTCGTACATGGGATCACAACTCAATACCAATGCCATATCCCAGACATG
*
85412901 GTCTTACATGGGATCTCATATCAAA
66 GTCTTACACGGGATCTCATATCAAA
* * * * *
85412926 GCCATATCCCAGATATGGTCGTACAATGTGA-CACATACT-GATACCGATGCCATATCCCATATA
1 GCCATATCCCAGATATGGTCGTAC-ATGGGATCACA-ACTCAATACCAATGCCATATCCCAGACA
*
85412989 TGGTCTTATACGGGATCTCAT
64 TGGTCTTACACGGGATCTCAT
85413010 CACCCCAAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
90 64 0.89
91 8 0.11
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (90 bp):
GCCATATCCCAGATATGGTCGTACATGGGATCACAACTCAATACCAATGCCATATCCCAGACATG
GTCTTACACGGGATCTCATATCAAA
Found at i:85434437 original size:34 final size:34
Alignment explanation
Indices: 85434394--85434458 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
85434384 TCTTTAACTT
85434394 AGAATTATTAAACTCATGTTTATATTGTTACGAA
1 AGAATTATTAAACTCATGTTTATATTGTTACGAA
*
85434428 AGAATTATTAAACTCATGTTTATGTTGTTAC
1 AGAATTATTAAACTCATGTTTATATTGTTAC
85434459 AAATAAATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.43
Consensus pattern (34 bp):
AGAATTATTAAACTCATGTTTATATTGTTACGAA
Found at i:85445647 original size:21 final size:21
Alignment explanation
Indices: 85445610--85445649 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
85445600 TATCATTCTC
*
85445610 TAATTTTTGTAAAATTTATTA
1 TAATTTTTGAAAAATTTATTA
85445631 TAATTTTT-AAAATATTTAT
1 TAATTTTTGAAAA-ATTTAT
85445650 ATATTTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TAATTTTTGAAAAATTTATTA
Found at i:85445655 original size:19 final size:20
Alignment explanation
Indices: 85445614--85445655 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
85445604 ATTCTCTAAT
*
85445614 TTTTGTAAAATTTATTATAA
1 TTTTGTAAAATATATTATAA
85445634 TTTT-TAAAATAT-TTATATA
1 TTTTGTAAAATATATTATA-A
85445653 TTT
1 TTT
85445656 GATGTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 5 0.25
19 11 0.55
20 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTGTAAAATATATTATAA
Found at i:85451159 original size:44 final size:44
Alignment explanation
Indices: 85451106--85451199 Score: 163
Period size: 44 Copynumber: 2.2 Consensus size: 44
85451096 TTAATAGGTC
*
85451106 AAAC-AATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGG
1 AAACTAATATTAAAATAACCTAAACTAATCAGAGTTTAAGTGGG
*
85451149 AAACTAATATTAAAATAACCTAAACTAATTAGAGTTTAAGTGGG
1 AAACTAATATTAAAATAACCTAAACTAATCAGAGTTTAAGTGGG
85451193 AAACTAA
1 AAACTAA
85451200 AAACATTGTT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
43 4 0.08
44 44 0.92
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.27
Consensus pattern (44 bp):
AAACTAATATTAAAATAACCTAAACTAATCAGAGTTTAAGTGGG
Found at i:85453609 original size:40 final size:42
Alignment explanation
Indices: 85453550--85453627 Score: 108
Period size: 40 Copynumber: 1.9 Consensus size: 42
85453540 CATGATTAAT
* *
85453550 TGAATGATGTCCGGGCTAAG-TCCCGAAGG-CTTTGTGCTAAG
1 TGAATGATATCCGGACTAAGAT-CCGAAGGCCTTTGTGCTAAG
85453591 TGAAT-ATATCCGGACTAAGATCCGAAGGCCTTTGTGC
1 TGAATGATATCCGGACTAAGATCCGAAGGCCTTTGTGC
85453628 GAGATACTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 19 0.58
41 14 0.42
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (42 bp):
TGAATGATATCCGGACTAAGATCCGAAGGCCTTTGTGCTAAG
Found at i:85453763 original size:39 final size:40
Alignment explanation
Indices: 85453559--85453781 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
85453549 TTGAATGATG
* * * * * *
85453559 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
85453599 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
85453639 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
85453679 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
85453719 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
85453758 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
85453782 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:85453801 original size:79 final size:80
Alignment explanation
Indices: 85453634--85453816 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
85453624 GTGCGAGATA
* * *
85453634 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
85453699 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
85453714 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
85453778 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
85453793 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
85453817 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:85461608 original size:39 final size:40
Alignment explanation
Indices: 85461404--85461626 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
85461394 TTGAATGCTG
* * * * * *
85461404 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
85461444 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
85461484 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
85461524 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
85461564 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
85461603 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
85461627 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:85461646 original size:79 final size:80
Alignment explanation
Indices: 85461479--85461661 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
85461469 GTGCGAGATA
* * *
85461479 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
85461544 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
85461559 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
85461623 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
85461638 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
85461662 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:85464633 original size:13 final size:12
Alignment explanation
Indices: 85464613--85464648 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
85464603 TTTGCTAGTT
85464613 AATTAATTATTC
1 AATTAATTATTC
*
85464625 AATTTAATTATTG
1 AA-TTAATTATTC
85464638 AATTAATTATT
1 AATTAATTATT
85464649 TGGTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (12 bp):
AATTAATTATTC
Found at i:85465380 original size:23 final size:22
Alignment explanation
Indices: 85465354--85465402 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
85465344 AAGTAATGAT
85465354 TAAA-ATATCATTATGTTACAAAG
1 TAAATATAT-ATTATGTTA-AAAG
*
85465377 TAAATTATATATTATTTTAAAAG
1 TAAA-TATATATTATGTTAAAAG
85465400 TAA
1 TAA
85465403 TTTTTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 11 0.48
24 8 0.35
25 4 0.17
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (22 bp):
TAAATATATATTATGTTAAAAG
Found at i:85468208 original size:27 final size:26
Alignment explanation
Indices: 85468153--85468231 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
85468143 ATTATTTTAA
*
85468153 TATTAAATTAATATAATATTTATCTT
1 TATTAAATTAATATAATATTAATCTT
* *
85468179 TATTAGATTAAATTTAATATTAAATC-T
1 TATTAAATT-AATATAATATT-AATCTT
* * *
85468206 TATTAAAATAATATAATGTTTATCTT
1 TATTAAATTAATATAATATTAATCTT
85468232 GTAGATAAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
25 3 0.07
26 18 0.43
27 18 0.43
28 3 0.07
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.51
Consensus pattern (26 bp):
TATTAAATTAATATAATATTAATCTT
Found at i:85469104 original size:30 final size:30
Alignment explanation
Indices: 85469070--85469167 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
85469060 TATTAAAATC
85469070 ACAAATACAATTTTTCTCATTAGCAAATTT
1 ACAAATACAATTTTTCTCATTAGCAAATTT
* ** ** * *
85469100 ACAAATAAAATCAATAATC-CA-TATTAAAATC
1 ACAAATACAAT---TTTTCTCATTAGCAAATTT
85469131 ACAAATACAATTTTTCTCATTAGCAAATTT
1 ACAAATACAATTTTTCTCATTAGCAAATTT
85469161 ACAAATA
1 ACAAATA
85469168 AAATCAGCAA
Statistics
Matches: 49, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
28 3 0.06
29 2 0.04
30 23 0.47
31 16 0.33
32 2 0.04
33 3 0.06
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (30 bp):
ACAAATACAATTTTTCTCATTAGCAAATTT
Found at i:85469121 original size:61 final size:61
Alignment explanation
Indices: 85469052--85469173 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
85469042 TTTTCACCAT
85469052 ATAATCCATATTAAAATCACAAATACAATTTTTCTCATTAGCAAATTTACAAATAAAATCA
1 ATAATCCATATTAAAATCACAAATACAATTTTTCTCATTAGCAAATTTACAAATAAAATCA
85469113 ATAATCCATATTAAAATCACAAATACAATTTTTCTCATTAGCAAATTTACAAATAAAATCA
1 ATAATCCATATTAAAATCACAAATACAATTTTTCTCATTAGCAAATTTACAAATAAAATCA
85469174 GCAATCCTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (61 bp):
ATAATCCATATTAAAATCACAAATACAATTTTTCTCATTAGCAAATTTACAAATAAAATCA
Found at i:85473294 original size:43 final size:43
Alignment explanation
Indices: 85473243--85473328 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
85473233 TCATATTTCA
*
85473243 TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATAT
* *
85473286 TTTCTCATCTTATATTCATTTATCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATAT
85473329 CAATCACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATAT
Found at i:85473753 original size:25 final size:25
Alignment explanation
Indices: 85473725--85473772 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
85473715 AATACACATC
*
85473725 TATACATAATCAATACATTTCATAA
1 TATACAAAATCAATACATTTCATAA
*
85473750 TATACAAAATCAATCCATTTCAT
1 TATACAAAATCAATACATTTCAT
85473773 TTCAATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (25 bp):
TATACAAAATCAATACATTTCATAA
Found at i:85476559 original size:45 final size:47
Alignment explanation
Indices: 85476453--85476620 Score: 159
Period size: 46 Copynumber: 3.6 Consensus size: 47
85476443 GAGGCTGGCA
* * *
85476453 CCATGT-CCAAACATGGTCTTACACTAGCTCTCACATATCCGTA-CCGATG
1 CCATGTCCCAGACATGGTCTTACACT-G--CACACATCT-CGTAGCCGATG
*
85476502 CCATGTCCCAGACATGGTCTTACACTG-ACACATTTCGTAGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGCACACATCTCGTAGCCGATG
* * * * *
85476548 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTC-AATGCAGATG
1 CCATGTCCCAGACATGGTCTTACACT-GCACACATCTCGTA-GCCGATG
85476594 CCATGTCCCAGACATGGTCTTACACTG
1 CCATGTCCCAGACATGGTCTTACACTG
85476621 GCTCTCCAAT
Statistics
Matches: 103, Mismatches: 9, Indels: 16
0.80 0.07 0.12
Matches are distributed among these distances:
44 10 0.10
45 20 0.19
46 23 0.22
47 15 0.15
48 10 0.10
49 7 0.07
50 18 0.17
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTGCACACATCTCGTAGCCGATG
Found at i:85476625 original size:48 final size:46
Alignment explanation
Indices: 85476498--85476626 Score: 149
Period size: 45 Copynumber: 2.8 Consensus size: 46
85476488 TATCCGTACC
* * * *
85476498 GATGCCATGTCCCAGACATGGTCTTACACTGACACAT-TTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCTTCATAGCA
*
85476544 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCA-ATGCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-T-TCATA-GCA
85476590 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
85476627 CAATAACCCG
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
43 1 0.01
44 12 0.17
45 16 0.23
46 12 0.17
47 14 0.20
48 16 0.23
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTTCATAGCA
Found at i:85484566 original size:18 final size:20
Alignment explanation
Indices: 85484531--85484567 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
85484521 AGTATAATCC
*
85484531 AAGCTAACTCGATGTTCCAT
1 AAGCTAACTCCATGTTCCAT
85484551 AAGCTAA-TCCAT-TTCCA
1 AAGCTAACTCCATGTTCCA
85484568 AAATTAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 4 0.25
20 7 0.44
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (20 bp):
AAGCTAACTCCATGTTCCAT
Found at i:85486314 original size:25 final size:24
Alignment explanation
Indices: 85486280--85486334 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
85486270 TTTTTTAGAT
85486280 TAAAACAAAAATAGGTTTTGTTTG
1 TAAAACAAAAATAGGTTTTGTTTG
85486304 TAAAACAAAAATAGGTTTTGTTTG
1 TAAAACAAAAATAGGTTTTGTTTG
*
85486328 GAAAACA
1 TAAAACA
85486335 GTTTTCACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.33
Consensus pattern (24 bp):
TAAAACAAAAATAGGTTTTGTTTG
Found at i:85488506 original size:27 final size:27
Alignment explanation
Indices: 85488468--85488522 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
85488458 ATCCCACTCG
85488468 TCCACAAAGACGGCAATGAAACTGGCA
1 TCCACAAAGACGGCAATGAAACTGGCA
85488495 TCCACAAAGACGGCAATGAAACTGGCA
1 TCCACAAAGACGGCAATGAAACTGGCA
85488522 T
1 T
85488523 GAAAACTATA
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:0.40, C:0.25, G:0.22, T:0.13
Consensus pattern (27 bp):
TCCACAAAGACGGCAATGAAACTGGCA
Found at i:85489199 original size:25 final size:24
Alignment explanation
Indices: 85489170--85489221 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
85489160 AAACAAATTC
*
85489170 AAAGAAGAGAA-AGA-AAAAAACA
1 AAAGAAGAGAATACAGAAAAAACA
85489192 AAAGAAGAGAATACAGAAAAAACA
1 AAAGAAGAGAATACAGAAAAAACA
85489216 AAAGAA
1 AAAGAA
85489222 AAAAAAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 11 0.41
23 2 0.07
24 14 0.52
ACGTcount: A:0.75, C:0.06, G:0.17, T:0.02
Consensus pattern (24 bp):
AAAGAAGAGAATACAGAAAAAACA
Found at i:85489229 original size:11 final size:12
Alignment explanation
Indices: 85489179--85489233 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
85489169 CAAAGAAGAG
85489179 AAAGAAAAAAACA
1 AAAG-AAAAAACA
* *
85489192 AAAGAAGAGAA-T
1 AAAGAA-AAAACA
*
85489204 ACAGAAAAAACA
1 AAAGAAAAAACA
85489216 AAAGAAAAAA-A
1 AAAGAAAAAACA
85489227 AAAGAAA
1 AAAGAAA
85489234 CGTGAAGGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
11 11 0.32
12 16 0.47
13 7 0.21
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (12 bp):
AAAGAAAAAACA
Found at i:85494030 original size:20 final size:20
Alignment explanation
Indices: 85494005--85494050 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
85493995 TTTTACAAAT
85494005 TTTCATTTTGACCCCTAAAC
1 TTTCATTTTGACCCCTAAAC
*
85494025 TTTCATTTTGACCCCTAAAT
1 TTTCATTTTGACCCCTAAAC
85494045 TTTCAT
1 TTTCAT
85494051 CTCGTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.26, G:0.04, T:0.46
Consensus pattern (20 bp):
TTTCATTTTGACCCCTAAAC
Found at i:85498150 original size:30 final size:30
Alignment explanation
Indices: 85498111--85498167 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
85498101 TTTGATAAGT
85498111 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
85498141 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
85498168 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:85509880 original size:16 final size:16
Alignment explanation
Indices: 85509859--85509915 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
85509849 TTTGGTTCGC
*
85509859 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
85509875 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
85509891 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
85509907 TGTAATGGA
1 TGTAATGGA
85509916 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:85510182 original size:18 final size:17
Alignment explanation
Indices: 85510161--85510195 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
85510151 TTATTATTAA
*
85510161 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
85510179 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
85510196 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:85510332 original size:16 final size:16
Alignment explanation
Indices: 85510295--85510336 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
85510285 TTAATCATAT
*
85510295 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
85510311 TT-AAATATATTATAA
1 TTAAAATATATTATAA
85510326 TTAAAATATAT
1 TTAAAATATAT
85510337 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:85510338 original size:154 final size:156
Alignment explanation
Indices: 85510055--85510361 Score: 564
Period size: 154 Copynumber: 2.0 Consensus size: 156
85510045 CCCTTAGTAG
85510055 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TATTATCAA
*
85510120 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
65 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA
*
85510185 TTTAATAAAATTCTTAATAATTAGCAT
130 TTTAATAAAATTCTTAAAAATTAGCAT
*
85510212 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-TATCAAT
1 AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATATTATCAAT
85510275 AATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAAT
66 AATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAAT
85510340 TTAATAAAATTCTTAAAAATTA
131 TTAATAAAATTCTTAAAAATTA
85510362 ATATTCTTAT
Statistics
Matches: 147, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 92 0.63
155 1 0.01
157 54 0.37
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
AAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATATTATCAAT
AATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAAT
TTAATAAAATTCTTAAAAATTAGCAT
Found at i:85510343 original size:14 final size:15
Alignment explanation
Indices: 85510304--85510345 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
85510294 TTTAAACATA
*
85510304 ATTATTATTAAATAT
1 ATTATAATTAAATAT
85510319 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
85510333 A-TATAATTTAATA
1 ATTATAATTAAATA
85510346 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:85510432 original size:120 final size:120
Alignment explanation
Indices: 85510298--85510520 Score: 412
Period size: 120 Copynumber: 1.9 Consensus size: 120
85510288 ATCATATTTA
85510298 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-AAATTA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAA-TA
*
85510362 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 AAATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
85510418 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
*
85510483 AATTCTTCTATGAATTTACTCAAATCATAATATATGAT
66 AATTCTTATATGAATTTACTCAAATCATAATATATGAT
85510521 TATAACTAAT
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
120 97 0.97
121 3 0.03
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
AATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:85510463 original size:14 final size:15
Alignment explanation
Indices: 85510414--85510465 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
85510404 GTAAAATATA
85510414 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
85510429 TATTAAATATATTAT
1 AATTAAATATATTAT
85510444 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
85510457 AATTTAATA
1 AATTAAATA
85510466 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:85510480 original size:44 final size:43
Alignment explanation
Indices: 85510391--85510481 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
85510381 CTCAAATCAT
* * *
85510391 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
85510434 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
85510478 AATA
1 AATA
85510482 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:85510516 original size:59 final size:59
Alignment explanation
Indices: 85510333--85510516 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
85510323 TAATTAAAAT
85510333 ATATAATTTAATAAAATTCTTAA-AAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAA-TAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * * *
85510392 ATAT-ATGATACTGTAAAA-TATAAATTAACATAATTATTATTAAAT-ATATTATAATTAAA--A
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-ATAA-TATTCTTATATGA-ATT-TACTCAAATCA
85510452 T-
58 TA
* *
85510453 ATATAATTTAATAAAATTCTTAATAAATAAAATTCTTCTATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
85510512 ATATA
1 ATATA
85510517 TGATTATAAC
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 8 0.09
61 11 0.12
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
Found at i:85510532 original size:17 final size:16
Alignment explanation
Indices: 85510510--85510556 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
85510500 ACTCAAATCA
85510510 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
85510527 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
85510541 TAAATATATGATTTAA
1 T-AATATATGATTTAA
85510557 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:85510557 original size:17 final size:17
Alignment explanation
Indices: 85510529--85510562 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
85510519 ATTATAACTA
*
85510529 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
85510546 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
85510563 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:85510705 original size:93 final size:91
Alignment explanation
Indices: 85510595--85510788 Score: 275
Period size: 93 Copynumber: 2.1 Consensus size: 91
85510585 GATTATAGTT
* * *
85510595 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
85510658 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 AT-AAATTCTTAATAAT-AAAATGTTCTTA
* *
85510688 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
85510753 AAATTCTTAATAATAAAATGTTCTTA
66 AAATTCTTAATAATAAAATGTTCTTA
85510779 TATGAATTTA
1 TATGAATTTA
85510789 CTAAAATCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
91 21 0.23
92 13 0.14
93 54 0.59
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAATTCTTAATAATAAAATGTTCTTA
Found at i:85518195 original size:4 final size:4
Alignment explanation
Indices: 85518186--85518223 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
85518176 ACTTGTACTT
*
85518186 AATA AATA AATA AATA AATA AATA AATA AATA GATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AA
85518224 GAAGAAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:85519495 original size:19 final size:18
Alignment explanation
Indices: 85519425--85519496 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 18
85519415 CCAGTTCAAG
85519425 TTTTTATGACTTTTTAAATAA
1 TTTTTATGA--TTTT-AATAA
* *
85519446 TTTTTATAACTTTATATCAA
1 TTTTTATGATTTTA-AT-AA
*
85519466 TTTTAAT-ATTTCTAATAA
1 TTTTTATGATTT-TAATAA
85519484 TTTTTATGATTTT
1 TTTTTATGATTTT
85519497 TATAGAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
18 10 0.24
19 14 0.33
20 10 0.24
21 8 0.19
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTTATGATTTTAATAA
Found at i:85519507 original size:20 final size:19
Alignment explanation
Indices: 85519425--85519527 Score: 82
Period size: 20 Copynumber: 5.2 Consensus size: 19
85519415 CCAGTTCAAG
*
85519425 TTTTTATGACTTTTTAAATAA
1 TTTTTAT-A-TTTTTATATAA
**
85519446 TTTTTATAACTTTATATCAA
1 TTTTTATATTTTTATAT-AA
* *
85519466 TTTTAATATTTCTA-ATAA
1 TTTTTATATTTTTATATAA
*
85519484 TTTTTATGATTTTTATAGAA
1 TTTTTAT-ATTTTTATATAA
* *
85519504 TTTTAATATGTTTTATAAAA
1 TTTTTATAT-TTTTATATAA
85519524 TTTT
1 TTTT
85519528 AAATATGTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
18 8 0.12
19 16 0.24
20 35 0.53
21 7 0.11
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (19 bp):
TTTTTATATTTTTATATAA
Found at i:85519587 original size:19 final size:17
Alignment explanation
Indices: 85519556--85519595 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
85519546 TTATAGATTC
*
85519556 ATTTATAAATTATTAGA
1 ATTTATAAATTATTAAA
85519573 ATTTATTAAATTTATTAAA
1 ATTTA-TAAA-TTATTAAA
85519592 ATTT
1 ATTT
85519596 TCTAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 4 0.20
19 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTATAAATTATTAAA
Found at i:85519625 original size:29 final size:28
Alignment explanation
Indices: 85519592--85519704 Score: 86
Period size: 29 Copynumber: 3.9 Consensus size: 28
85519582 ATTTATTAAA
*
85519592 ATTTTCTAATATTTTTATTATTTTTTAT
1 ATTTTTTAATATTTTTATTATTTTTTAT
* * *
85519620 ATTTTTTACA-AGTTCTTATCAATTTTTAT
1 ATTTTTTA-ATA-TTTTTATTATTTTTTAT
** *
85519649 ATTCTTTTAATATTTAACATTTTTTTTTAT
1 ATT-TTTTAATATTT-TTATTATTTTTTAT
*
85519679 AATTTTTATAATTTTTTTATT-TTTTT
1 -ATTTTT-TAATATTTTTATTATTTTT
85519705 ATAAAATTTT
Statistics
Matches: 65, Mismatches: 13, Indels: 13
0.71 0.14 0.14
Matches are distributed among these distances:
28 8 0.12
29 26 0.40
30 21 0.32
31 10 0.15
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.68
Consensus pattern (28 bp):
ATTTTTTAATATTTTTATTATTTTTTAT
Found at i:85519693 original size:8 final size:9
Alignment explanation
Indices: 85519442--85519743 Score: 76
Period size: 10 Copynumber: 32.2 Consensus size: 9
85519432 GACTTTTTAA
85519442 ATAATTTTT
1 ATAATTTTT
*
85519451 ATAACTTTAT
1 ATAA-TTTTT
*
85519461 ATCAATTTTA
1 AT-AATTTTT
*
85519471 AT-ATTTCTA
1 ATAATTT-TT
85519480 ATAATTTTT
1 ATAATTTTT
*
85519489 ATGATTTTT
1 ATAATTTTT
*
85519498 ATAGAATTTT
1 ATA-ATTTTT
85519508 A-ATATGTTTT
1 ATA-AT-TTTT
*
85519518 ATAAAATTTT
1 AT-AATTTTT
85519528 A-AATATGTTT
1 ATAAT-T-TTT
85519538 AATTAA-TTTT
1 -A-TAATTTTT
85519548 ATAGATTCATTT
1 ATA-ATT--TTT
*
85519560 ATAAATTATT
1 AT-AATTTTT
*
85519570 AGAATTTATT
1 ATAATTT-TT
85519580 A-AATTTATT
1 ATAATTT-TT
*
85519589 AAAATTTTCT
1 ATAATTTT-T
85519599 A-ATATTTTT
1 ATA-ATTTTT
*
85519608 ATTATTTTTT
1 A-TAATTTTT
*
85519618 ATATTTTTT
1 ATAATTTTT
* *
85519627 ACAAGTTCTT
1 ATAA-TTTTT
85519637 ATCAATTTTT
1 AT-AATTTTT
85519647 AT-ATTCTTT
1 ATAATT-TTT
*
85519656 -TAATATTT
1 ATAATTTTT
85519664 A-ACA--TTT
1 ATA-ATTTTT
85519671 -T--TTTTT
1 ATAATTTTT
85519677 ATAATTTTT
1 ATAATTTTT
85519686 ATAATTTTT
1 ATAATTTTT
* *
85519695 TTATTTTTTT
1 ATA-ATTTTT
*
85519705 ATAAAATTTT
1 AT-AATTTTT
*
85519715 CT-ATTTTT
1 ATAATTTTT
*
85519723 ATGATTTTT
1 ATAATTTTT
*
85519732 AATCATTTTT
1 -ATAATTTTT
85519742 AT
1 AT
85519744 GGGAAAATAT
Statistics
Matches: 223, Mismatches: 30, Indels: 80
0.67 0.09 0.24
Matches are distributed among these distances:
6 3 0.01
7 4 0.02
8 22 0.10
9 81 0.36
10 92 0.41
11 9 0.04
12 9 0.04
13 3 0.01
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (9 bp):
ATAATTTTT
Found at i:85519720 original size:28 final size:29
Alignment explanation
Indices: 85519670--85519731 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
85519660 ATTTAACATT
* *
85519670 TTTTTTTATAATTTTTATAATTTTT-TTA
1 TTTTTTTATAAATTTTATAATTTTTATGA
*
85519698 TTTTTTTATAAAATTTTCT-ATTTTTATGA
1 TTTTTTTAT-AAATTTTATAATTTTTATGA
85519727 TTTTT
1 TTTTT
85519732 AATCATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (29 bp):
TTTTTTTATAAATTTTATAATTTTTATGA
Found at i:85520744 original size:21 final size:21
Alignment explanation
Indices: 85520697--85520747 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
85520687 AGGTTTTACT
* *
85520697 AATCCAATTGGTGTGGATTCA
1 AATCCCATTGGTGTAGATTCA
85520718 AATCCCATTGGTGTAGATTCA
1 AATCCCATTGGTGTAGATTCA
85520739 AATCCCATT
1 AATCCCATT
85520748 ATATGCGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (21 bp):
AATCCCATTGGTGTAGATTCA
Found at i:85522500 original size:16 final size:16
Alignment explanation
Indices: 85522470--85522499 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
85522460 GAAAAAGCAA
85522470 GAAGAAAAAGAAAAAG
1 GAAGAAAAAGAAAAAG
85522486 GAAG-AAAAGAAAAA
1 GAAGAAAAAGAAAAA
85522500 AATCGCAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
GAAGAAAAAGAAAAAG
Found at i:85528447 original size:17 final size:17
Alignment explanation
Indices: 85528414--85528459 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
85528404 AACAAATACA
*
85528414 GTTCCAGATTCAGATTCG
1 GTTCCA-ATTCAAATTCG
85528432 GTTCCAATTCAAATTCG
1 GTTCCAATTCAAATTCG
85528449 GTTCCAATTCA
1 GTTCCAATTCA
85528460 GATTTAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (17 bp):
GTTCCAATTCAAATTCG
Found at i:85529599 original size:16 final size:15
Alignment explanation
Indices: 85529570--85529610 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
85529560 CACCGAAACG
85529570 AAGAAAAAAAAAGAA
1 AAGAAAAAAAAAGAA
*
85529585 AAGAAAAAAGGAAGAA
1 AAGAAAAAA-AAAGAA
85529601 AAGAAAAAAA
1 AAGAAAAAAA
85529611 GACTACAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAAAGAA
Found at i:85531398 original size:40 final size:39
Alignment explanation
Indices: 85531304--85531448 Score: 164
Period size: 40 Copynumber: 3.6 Consensus size: 39
85531294 TACTCGAATG
*
85531304 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCT-AGCGACT
* *
85531345 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGCGACT
* * * *
85531385 ATATTCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTC-CGAAGGCATTTGTGCTAGCGACT
* *
85531425 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-TCCGAAGGC
85531449 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
39 2 0.02
40 57 0.64
41 29 0.33
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGCGACT
Found at i:85533174 original size:21 final size:21
Alignment explanation
Indices: 85533148--85533191 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
85533138 TACATTCGAA
85533148 CTAATACGGCTGTTCCACAAC
1 CTAATACGGCTGTTCCACAAC
85533169 CTAATACGGCTGTTCCACAAC
1 CTAATACGGCTGTTCCACAAC
85533190 CT
1 CT
85533192 TCATTCCCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.25
Consensus pattern (21 bp):
CTAATACGGCTGTTCCACAAC
Found at i:85539440 original size:40 final size:40
Alignment explanation
Indices: 85539346--85539490 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
85539336 TACTCGAATG
*
85539346 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
85539387 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTGGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
85539427 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
85539467 ATATTCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
85539491 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 59 0.66
41 28 0.31
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:85541844 original size:295 final size:297
Alignment explanation
Indices: 85541308--85542065 Score: 876
Period size: 295 Copynumber: 2.6 Consensus size: 297
85541298 GTTACAATAA
* *
85541308 GCATATTTTAATTGGTTTTTGTTAAAATGAAAATGCTAAAATACCCTCAAATAGTATAACTTATT
1 GCATATTTTAATTGGTTTTTGTTAAAATGAAAATACTAAAATACCATCAAATAGTATAACTTATT
* * * * * * *
85541373 TTAATTTTGGAAGGGCATTTCCATAACTTTCTAA-C-ATAGTTGGTGACCCGATTGA--G-GAAG
66 TTAATTATGGAAGGACATTTTCGTAATTTTCTAATCGA-A-TTGGTGACCCAATTGAGGGTGAAT
** * * * * *
85541433 ACTCTCAGTAAAACACTTAATAAGTAGTAT-GTATATATATAGCTAATGGAAATAATAACTTATG
129 AAACTCAGTAAAACACTTAATAAATAGTATAG-ATATA-ACAACTAATAGAAATAATAACATATG
** * * *
85541497 CATATTAAAATAAAAATGTATTAAATATATCAATATGAAGCTTTGATTGAGTGGTAAATTTAAGA
192 CATATTAAAATAAAAATGTAGAAAATACACCAATATGAAACTTTGATTGAGTGGTAAATTTAA-A
* * * * *
85541562 T-TTTGCTATTCCAATTAGCA-CAAGCTCAAATCTTATTATAT
256 TAATTACTAATCCAACTAGCATC-AGCTCAAATCTTATCATAT
* *
85541603 GCATATTTTAATTGGTTTTTGTTAAAATGAAAATATTAAAATACCATCAAATAATATAACTTATT
1 GCATATTTTAATTGGTTTTTGTTAAAATGAAAATACTAAAATACCATCAAATAGTATAACTTATT
* * *
85541668 TTACTTACGGAAGGACATTTTCGTAATTTTTTAATCGAATTGGTGACCCAATTGAGGGTGAATAA
66 TTAATTATGGAAGGACATTTTCGTAATTTTCTAATCGAATTGGTGACCCAATTGAGGGTGAATAA
* * * * *
85541733 ACTCAGTAAAACACTTAATAAATATTATAGATA-AACAATTAATAGAGATGATAACATGTGCATA
131 ACTCAGTAAAACACTTAATAAATAGTATAGATATAACAACTAATAGAAATAATAACATATGCATA
85541797 TTAAAATAAAAATGTAGAAAATACACCAA-ATGAAACTTT-AGTTGAGTGGTAAATTTAAATAAT
196 TTAAAATAAAAATGTAGAAAATACACCAATATGAAACTTTGA-TTGAGTGGTAAATTTAAATAAT
* * * * * *
85541860 TATTAATCCAACTGGTATCGGTTCAAATTTTATCATAT
260 TACTAATCCAACTAGCATCAGCTCAAATCTTATCATAT
* * * * *
85541898 GCATATTTTAATTGATTTTCGTTAAAATG-AAAGACCAAAATACCATCAAATAGGATAACTTATT
1 GCATATTTTAATTGGTTTTTGTTAAAATGAAAATACTAAAATACCATCAAATAGTATAACTTATT
* * * *
85541962 TTAATCATGAAATGACATTTTCGTAATTTCCTAATCGAATTGGTGACCCAATTGAGGGTGACACT
66 TTAATTATGGAAGGACATTTTCGTAATTTTCTAATCGAATTGGTGACCCAATTGAGGGTGA-A-T
*
85542027 -AACTCAGTAAAATACTTAATAAATAGTATAGATATAACA
129 AAACTCAGTAAAACACTTAATAAATAGTATAGATATAACA
85542066 TAATTTCTTT
Statistics
Matches: 393, Mismatches: 58, Indels: 23
0.83 0.12 0.05
Matches are distributed among these distances:
294 87 0.22
295 215 0.55
296 55 0.14
297 3 0.01
298 32 0.08
299 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (297 bp):
GCATATTTTAATTGGTTTTTGTTAAAATGAAAATACTAAAATACCATCAAATAGTATAACTTATT
TTAATTATGGAAGGACATTTTCGTAATTTTCTAATCGAATTGGTGACCCAATTGAGGGTGAATAA
ACTCAGTAAAACACTTAATAAATAGTATAGATATAACAACTAATAGAAATAATAACATATGCATA
TTAAAATAAAAATGTAGAAAATACACCAATATGAAACTTTGATTGAGTGGTAAATTTAAATAATT
ACTAATCCAACTAGCATCAGCTCAAATCTTATCATAT
Found at i:85542334 original size:17 final size:18
Alignment explanation
Indices: 85542301--85542336 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
85542291 GAAAATATTT
85542301 ATTTATATATATATTTAA
1 ATTTATATATATATTTAA
*
85542319 ATTTAT-TATATTTTTAA
1 ATTTATATATATATTTAA
85542336 A
1 A
85542337 AATATCTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTATATATATATTTAA
Found at i:85545183 original size:17 final size:17
Alignment explanation
Indices: 85545145--85545186 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
85545135 GAAATCACAT
85545145 TCATTT-TTTAATATAA
1 TCATTTATTTAATATAA
* *
85545161 TCCATTTATTTAATTTTA
1 T-CATTTATTTAATATAA
85545179 TCATTTAT
1 TCATTTAT
85545187 ATTCATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 12 0.55
18 9 0.41
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (17 bp):
TCATTTATTTAATATAA
Found at i:85558924 original size:11 final size:11
Alignment explanation
Indices: 85558908--85558932 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
85558898 TTACCATCTC
85558908 TTTCTTTTCTT
1 TTTCTTTTCTT
85558919 TTTCTTTTCTT
1 TTTCTTTTCTT
85558930 TTT
1 TTT
85558933 GCCAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:85562643 original size:10 final size:9
Alignment explanation
Indices: 85562626--85562712 Score: 52
Period size: 10 Copynumber: 8.9 Consensus size: 9
85562616 CGTAAAAAAC
85562626 TATAAAATA
1 TATAAAATA
85562635 TATAGAAATA
1 TATA-AAATA
*
85562645 TAGAAAAAATA
1 T--ATAAAATA
*
85562656 TATAAAATTT
1 TATAAAA-TA
85562666 TATAAAATCA
1 TATAAAAT-A
85562676 TA-AGAAA-A
1 TATA-AAATA
85562684 TGATAAAATAA
1 T-ATAAAAT-A
*
85562695 TATAAAGAAA
1 TATAAA-ATA
85562705 TATAAAAT
1 TATAAAAT
85562713 TCGTAAAAGA
Statistics
Matches: 61, Mismatches: 6, Indels: 22
0.69 0.07 0.25
Matches are distributed among these distances:
8 2 0.03
9 16 0.26
10 32 0.52
11 9 0.15
12 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (9 bp):
TATAAAATA
Found at i:85562698 original size:29 final size:27
Alignment explanation
Indices: 85562605--85562700 Score: 72
Period size: 30 Copynumber: 3.4 Consensus size: 27
85562595 TTAGAAAAAT
*
85562605 ATAATA-AAAATCGTAAAAAACTATAAA
1 ATAATATAAAATCATAAAAAA-TATAAA
85562632 AT-ATATAGAAAT-ATAGAAAAAATATATAAA
1 ATAATATA-AAATCAT---AAAAA-ATATAAA
**
85562662 ATTTTATAAAATCATAAGAAAATGATAAA
1 ATAATATAAAATCATAA-AAAAT-ATAAA
85562691 ATAATATAAA
1 ATAATATAAA
85562701 GAAATATAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
26 3 0.05
27 4 0.07
28 8 0.15
29 16 0.29
30 17 0.31
31 7 0.13
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (27 bp):
ATAATATAAAATCATAAAAAATATAAA
Found at i:85562945 original size:20 final size:20
Alignment explanation
Indices: 85562908--85562946 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
85562898 TTAAAGGACC
85562908 TTTTTGATGCATTTTATAAT
1 TTTTTGATGCATTTTATAAT
*
85562928 TTTTTTATG-ATTTCTATAA
1 TTTTTGATGCATTT-TATAA
85562947 AATTTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTTTGATGCATTTTATAAT
Found at i:85562997 original size:19 final size:17
Alignment explanation
Indices: 85562950--85562994 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
85562940 TCTATAAAAT
*
85562950 TTTACAATTATATATATA
1 TTTATAATT-TATATATA
*
85562968 TTTATGATTTATATATA
1 TTTATAATTTATATATA
85562985 TTTATAATTT
1 TTTATAATTT
85562995 TTAGTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTATAATTTATATATA
Found at i:85566105 original size:21 final size:21
Alignment explanation
Indices: 85566060--85566105 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
85566050 TAATTAAAGT
** * *
85566060 ATTATATTATATTGTATTATT
1 ATTATATTATAAAGTAATATA
85566081 ATTATATTATAAAGTAATATA
1 ATTATATTATAAAGTAATATA
85566102 ATTA
1 ATTA
85566106 AGAAATAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTATATTATAAAGTAATATA
Found at i:85566186 original size:19 final size:17
Alignment explanation
Indices: 85566162--85566202 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 17
85566152 GGGTAGCAGG
85566162 GGAAAGAAAGAAGAAAAGA
1 GGAAAGAAA-AAGAAAA-A
85566181 GGAAAGAAAAAGAAAAA
1 GGAAAGAAAAAGAAAAA
85566198 GGAAA
1 GGAAA
85566203 AATTAGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.27
18 7 0.32
19 9 0.41
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
GGAAAGAAAAAGAAAAA
Found at i:85567391 original size:18 final size:18
Alignment explanation
Indices: 85567351--85567394 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
85567341 TTTGTACGGA
* *
85567351 ATAATTGACTGTTATTGT
1 ATAACTGACTGTTATAGT
85567369 ATAACTGACTGTTATAG-
1 ATAACTGACTGTTATAGT
85567386 AGTAACTGA
1 A-TAACTGA
85567395 ATGCTACTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (18 bp):
ATAACTGACTGTTATAGT
Found at i:85578656 original size:9 final size:9
Alignment explanation
Indices: 85578642--85578671 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
85578632 TTAATTGATA
85578642 AATTAATTT
1 AATTAATTT
85578651 AATTAATTT
1 AATTAATTT
85578660 AATTAA-TT
1 AATTAATTT
85578668 AATT
1 AATT
85578672 TTATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.29
9 15 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
AATTAATTT
Found at i:85578665 original size:13 final size:13
Alignment explanation
Indices: 85578626--85578682 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
85578616 GGGTTGAGAA
85578626 AATT-ATTTAATT
1 AATTAATTTAATT
* *
85578638 GA-TAAATTAATTT
1 AATTAATTTAA-TT
85578651 AATTAATTTAATT
1 AATTAATTTAATT
*
85578664 AATTAATTTTATT
1 AATTAATTTAATT
*
85578677 TATTAA
1 AATTAA
85578683 ATAATTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
11 1 0.03
12 6 0.17
13 22 0.61
14 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (13 bp):
AATTAATTTAATT
Found at i:85578694 original size:18 final size:18
Alignment explanation
Indices: 85578656--85578690 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
85578646 AATTTAATTA
*
85578656 ATTTAATTAATTAATTTT
1 ATTTAATTAAATAATTTT
85578674 ATTT-ATTAAATAATTTT
1 ATTTAATTAAATAATTTT
85578691 TATTGGGTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTAATTAAATAATTTT
Found at i:85583230 original size:662 final size:664
Alignment explanation
Indices: 85581442--85583420 Score: 3802
Period size: 662 Copynumber: 3.0 Consensus size: 664
85581432 TCCAGCCAAA
85581442 GCACCAATCAAATGATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATT
1 GCACCAATCAAATGATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATT
85581507 AAAAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTT
66 AAAAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTT
85581572 TTAGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTA
131 TTAGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTA
85581637 GTTTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGTTGACTGTAGCTTATTTTGATTTACATGT
196 GTTTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGTTGACTGTAGCTTATTTTGATTTACATGT
85581702 TAAAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTT
261 TAAAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTT
85581767 TCTTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTT
326 TCTTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTT
85581832 TTCATTTTAGTTTATTAAGTT-AAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAAT
391 TTCATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAAT
85581896 AGCTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAG
456 AGCTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAG
85581961 GTGCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGT
521 GTGCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGT
*
85582026 GAGACACGAAGGTAATCTTGTTTCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAA
586 GAGACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAA
85582091 GATAGTGTTTAAGG
651 GATAGTGTTTAAGG
* *
85582105 GAACCAATCAAATAATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATT
1 GCACCAATCAAATGATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATT
85582170 AAAAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTT
66 AAAAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTT
85582235 TTAGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTA
131 TTAGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTA
* * * *
85582300 GTTTATGTTTCTTTCTGGTTTTACTTAGTTTCGTAGCTGACTATAGCTTATTTTGATTTACAAGT
196 GTTTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGTTGACTGTAGCTTATTTTGATTTACATGT
85582365 TAAAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTT
261 TAAAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTT
*
85582430 TCTTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTACCTTTGTGTTAGTTGCTT
326 TCTTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTT
*
85582495 TTCATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTGTTCTTTTTGTTCAAGTTTATGTTAAT
391 TTCATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAAT
*
85582560 AGCTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACCTTAG
456 AGCTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAG
85582625 GTGCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGT
521 GTGCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGT
* *
85582690 GAGACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCAGTGAGATTGAAA
586 GAGACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAA
85582755 GATAGTGTTTAAGG
651 GATAGTGTTTAAGG
85582769 GCACCAATCAAATGATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATT
1 GCACCAATCAAATGATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATT
85582834 AAAAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAG-TTTAGGTT-AAAAAGCTCATTAGTT
66 AAAAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTT
85582897 TTAGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTA
131 TTAGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTA
85582962 GTTTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGTTGACTGTAGCTTATTTTGATTTACATGT
196 GTTTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGTTGACTGTAGCTTATTTTGATTTACATGT
*
85583027 TAAAGACTTTAAACTTAGTTGTAATCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTT
261 TAAAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTT
* *
85583092 TCTTTTCATCTATTGAAGCTTTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTT
326 TCTTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTT
85583157 TTCATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAAT
391 TTCATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAAT
85583222 AGCTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAG
456 AGCTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAG
85583287 GTGCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGT
521 GTGCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGT
85583352 GAGACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAA
586 GAGACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAA
85583417 GATA
651 GATA
85583421 AATCAAAATT
Statistics
Matches: 1289, Mismatches: 26, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
662 528 0.41
663 412 0.32
664 349 0.27
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (664 bp):
GCACCAATCAAATGATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATT
AAAAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTT
TTAGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTA
GTTTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGTTGACTGTAGCTTATTTTGATTTACATGT
TAAAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTT
TCTTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTT
TTCATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAAT
AGCTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAG
GTGCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGT
GAGACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAA
GATAGTGTTTAAGG
Found at i:85583956 original size:12 final size:12
Alignment explanation
Indices: 85583939--85583969 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
85583929 GACATAAAAA
*
85583939 TAGGAGTGGGAT
1 TAGGAGTGGGAG
85583951 TAGGAGTGGGAG
1 TAGGAGTGGGAG
85583963 TAGGAGT
1 TAGGAGT
85583970 ATGAGTGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.52, T:0.23
Consensus pattern (12 bp):
TAGGAGTGGGAG
Done.