Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, 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: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 39 of 39
Found at i:7709636 original size:35 final size:35
Alignment explanation
Indices: 7709561--7709636 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
7709551 TAACTTAATT
*
7709561 TTTATTATTTTAATATATTTTAAATCATTACTTTA
1 TTTATTATTTTAATATATTATAAATCATTACTTTA
* * *
7709596 ATTATTGTTTTACTATATTATAAAT-ATATA-TATTA
1 TTTATTATTTTAATATATTATAAATCAT-TACT-TTA
7709631 TTTATT
1 TTTATT
7709637 TAATAATGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
34 3 0.09
35 31 0.91
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTATTATTTTAATATATTATAAATCATTACTTTA
Found at i:7719774 original size:189 final size:189
Alignment explanation
Indices: 7719442--7719875 Score: 461
Period size: 188 Copynumber: 2.3 Consensus size: 189
7719432 CCATCAATGT
* * *
7719442 AAACTCATGT-ATATTTTAGGTTGTAATAAGAATTCTTACTGAATATGTAACTTTTTTTAGGTTA
1 AAACTCATGTAATATTTTAGGTTATAATAAGAATTCTTACCGAATATGTAACTTTTTATA-GTTA
* * * *
7719506 GACAGGGAAATATTTTAAGTTGAAACTGAAAATGTTACATTATTCATAATAAATCATTTAGATCA
65 GACAGGGAAATATTTTAAGTTGAAACCGAAAATGTTACATTATCCATAATAAATCATATAAATCA
* * *
7719571 AATAACTTTTTAGGTTAAAACGTAAAATGTTGCCATCAATGTT-AGTTTTTTTCCAATTGAG
130 AATAACTTTTTAGGTT-AAACGTAAAATGTTACCATCAATGTTAAGTTCTTTT-CAATTAAG
*
7719632 AAACTCATGTAATATTTTAGGTTATAGCCT-A-AATTCTTACCGAATATGTAACTTTTTATA-TT
1 AAACTCATGTAATATTTTAGGTTATA--ATAAGAATTCTTACCGAATATGTAACTTTTTATAGTT
* * * * * * *
7719694 GGATA-TGATAGTATTTTAGGTT-AGAACCGAAAATGTTATATTCTCCATAATAAATCATATAAA
64 AGACAGGGA-AATATTTTAAGTTGA-AACCGAAAATGTTACATTATCCATAATAAATCATATAAA
* * * *
7719757 TTGAAA-AACTTTTTAGGTTAAACGTAAAATGTTACTATTAGTGTTAAGTTCTTTTCAATTAAG
127 -TCAAATAACTTTTTAGGTTAAACGTAAAATGTTACCATCAATGTTAAGTTCTTTTCAATTAAG
* * * * * * ** *
7719820 AAACTCGTGTAACATTTTAGATTTTAATAAAAAATCTTACATAATACGTAACTTTT
1 AAACTCATGTAATATTTTAGGTTATAATAAGAATTCTTACCGAATATGTAACTTTT
7719876 AGAGGGGAGA
Statistics
Matches: 204, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
186 1 0.00
187 1 0.00
188 75 0.37
189 70 0.34
190 14 0.07
191 41 0.20
192 1 0.00
193 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (189 bp):
AAACTCATGTAATATTTTAGGTTATAATAAGAATTCTTACCGAATATGTAACTTTTTATAGTTAG
ACAGGGAAATATTTTAAGTTGAAACCGAAAATGTTACATTATCCATAATAAATCATATAAATCAA
ATAACTTTTTAGGTTAAACGTAAAATGTTACCATCAATGTTAAGTTCTTTTCAATTAAG
Found at i:7721275 original size:16 final size:16
Alignment explanation
Indices: 7721254--7721288 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7721244 GCTTCTAATT
* *
7721254 TTTTTTTGAGTTCGAG
1 TTTTTTGGAGTTCAAG
7721270 TTTTTTGGAGTTCAAG
1 TTTTTTGGAGTTCAAG
7721286 TTT
1 TTT
7721289 CAATATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.14, C:0.06, G:0.23, T:0.57
Consensus pattern (16 bp):
TTTTTTGGAGTTCAAG
Found at i:7727499 original size:21 final size:21
Alignment explanation
Indices: 7727475--7727535 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
7727465 AACTTTGAAA
7727475 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
7727496 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
7727510 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
7727531 AAATG
1 AAATG
7727536 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:7727557 original size:72 final size:75
Alignment explanation
Indices: 7727467--7727622 Score: 241
Period size: 72 Copynumber: 2.1 Consensus size: 75
7727457 TGGTAACCAA
7727467 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG-AAAAT-GGTTTTCAAAGTTTG
1 CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTTCTTTGAAAAATAGGTTTTCAAAGTTTG
7727529 GTAAATGTTT
66 GTAAATGTTT
* *
7727539 CTTTGAAAAATA-GTTTTTCAAAGTTTGGTAAATGTTTCTTTGAAAAATAGTTTTTCAAAGTTTG
1 CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTTCTTTGAAAAATAGGTTTTCAAAGTTTG
*
7727603 GTAGATGTTT
66 GTAAATGTTT
*
7727613 -GTTGAAAAAT
1 CTTTGAAAAAT
7727623 GATAATGGGA
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
72 39 0.51
73 15 0.19
74 23 0.30
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (75 bp):
CTTTGAAAAATATGGTTTTCAAAGTTTGGTAAATGTTTCTTTGAAAAATAGGTTTTCAAAGTTTG
GTAAATGTTT
Found at i:7727566 original size:37 final size:37
Alignment explanation
Indices: 7727467--7727622 Score: 239
Period size: 37 Copynumber: 4.3 Consensus size: 37
7727457 TGGTAACCAA
7727467 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GGTTTTCAAAGTTTGGTAAATGTTT
7727504 CTTTG-AAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
*
7727539 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
* *
7727576 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
*
7727613 -GTTGAAAAAT
1 CTTTGAAAAAT
7727623 GATAATGGGA
Statistics
Matches: 113, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
35 30 0.27
36 18 0.16
37 65 0.58
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (37 bp):
CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:7734320 original size:23 final size:23
Alignment explanation
Indices: 7734294--7734343 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
7734284 AATAACATAT
7734294 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
*
7734317 TAGGTAGCGTTTATATAATGTAA
1 TAGGTAGCGCTTATATAATGTAA
7734340 TAGG
1 TAGG
7734344 CATTTAACCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATGTAA
Found at i:7739322 original size:12 final size:12
Alignment explanation
Indices: 7739305--7739360 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
7739295 ACTTGTTTGG
*
7739305 ATCATCATCATC
1 ATCATCATCTTC
* *
7739317 ATCATCGTCGTC
1 ATCATCATCTTC
*
7739329 ATCTTCATCTTC
1 ATCATCATCTTC
*
7739341 ATCGTCATCTTC
1 ATCATCATCTTC
*
7739353 ATCTTCAT
1 ATCATCAT
7739361 TGACCGCTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.21, C:0.32, G:0.05, T:0.41
Consensus pattern (12 bp):
ATCATCATCTTC
Found at i:7739336 original size:6 final size:6
Alignment explanation
Indices: 7739327--7739360 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
7739317 ATCATCGTCG
*
7739327 TCATCT TCATCT TCATCG TCATCT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCAT
7739361 TGACCGCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.32, G:0.03, T:0.47
Consensus pattern (6 bp):
TCATCT
Found at i:7739336 original size:18 final size:18
Alignment explanation
Indices: 7739309--7739360 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
7739299 GTTTGGATCA
* *
7739309 TCATCATCATCATCGTCG
1 TCATCTTCATCATCATCG
*
7739327 TCATCTTCATCTTCATCG
1 TCATCTTCATCATCATCG
*
7739345 TCATCTTCATCTTCAT
1 TCATCTTCATCATCAT
7739361 TGACCGCTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.19, C:0.33, G:0.06, T:0.42
Consensus pattern (18 bp):
TCATCTTCATCATCATCG
Found at i:7739336 original size:21 final size:21
Alignment explanation
Indices: 7739306--7739360 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
7739296 CTTGTTTGGA
7739306 TCATCATCATCATCATCGTCG
1 TCATCATCATCATCATCGTCG
* * *
7739327 TCATCTTCATCTTCATCGTCA
1 TCATCATCATCATCATCGTCG
* *
7739348 TCTTCATCTTCAT
1 TCATCATCATCAT
7739361 TGACCGCTTG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.33, G:0.05, T:0.42
Consensus pattern (21 bp):
TCATCATCATCATCATCGTCG
Found at i:7741363 original size:21 final size:21
Alignment explanation
Indices: 7741337--7741389 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
7741327 TGTTTATGGG
7741337 ATCGACACTTTTTGAAAATGT
1 ATCGACACTTTTTGAAAATGT
7741358 ATCGACACTTTTTGAAAATGT
1 ATCGACACTTTTTGAAAATGT
7741379 ATCGACACTTT
1 ATCGACACTTT
7741390 ATGCGTTCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (21 bp):
ATCGACACTTTTTGAAAATGT
Found at i:7741709 original size:201 final size:201
Alignment explanation
Indices: 7740824--7743573 Score: 4374
Period size: 201 Copynumber: 13.7 Consensus size: 201
7740814 TATTTAAATT
*
7740824 AGTATCGACACAAAATTAAACAAGTGTCGATACAAGTTGTAGACCTATTCTCTCATAAAACCGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
* ** *
7740889 ATATTTATACTGGTTACATTGTAAATTTACCCATTACATTATACTTATGGATGCATATGTTTTTG
66 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
*
7740954 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCAGCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
7741019 ACCAAA
196 ACCAAA
* *
7741025 AGTATCGACACAAAATTAAACAAGTGTCGATACATTTTGTAGACATATTCTCTCATAAAACCGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
* * * *
7741090 ATATTTATACCGGCTATATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTATG
66 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
* * * * * * * * * *** *
7741155 GGATCGACACTTTATG----CGT-T-TACCCTTTTTG-G--CAGCC-ATTCTG-TGCCA-AAAGT
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
*
7741208 ATC---
196 ACCAAA
* *
7741211 -G-A-C-ACA-AAA-TTAAACAAGTGTCGATACATGTTGTAGACCTATTATCTCATAAAATCGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
* * *
7741270 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATAGATGCATATGTTTATG
66 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
* * *
7741335 GGATCGACACTTTTTGAAAATGTATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTT-CA
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATG----CGT-TC-ACCCTTT-T---TTGCA
* * *
7741399 CCCTTTTTGGCAGCCATTCTGGACCAA
186 GCCATTCTGG-A--C---C---A--AA
* * * *
7741426 AAGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTACTCTCTCATAAAATCGA
1 AG-TATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGG
* *
7741491 TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATATTTCT
65 TATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCT
* * *
7741556 GGGATCGACACTTTTTGAAAATATATCGACACTTTATGCGTTCACCATTTTTGGCAGCCATTCTG
130 GGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTG
7741621 GACCAAA
195 GACCAAA
* * *
7741628 AATATCGACACAAAATTAAACAAATGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
* * * *
7741693 ATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATACTTATAGATGCATATGTTTTTG
66 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
* *
7741758 GGATTGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACTCTTTTTTGCAGCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
7741823 ACCAAA
196 ACCAAA
* *
7741829 AGTATCAACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGAT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
*
7741894 ATATTTATACCGGTTACATTGTAAATTTATATATTACATTATACTTATGGATGCATATGTTTCTG
66 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
7741959 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
7742024 ACCAAA
196 ACCAAA
*
7742030 AGTATCGACACAAAATTAAACAAGTGTTGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
7742095 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
66 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
* *
7742160 GGATCGACACTTTTTGAAAATGTATCAACACTTTATGCGTTCACCCTTTTTGGCAGCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
7742225 ACCAAA
196 ACCAAA
*
7742231 AGTATCGACACAAAATTAAACAAGTTTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
* *
7742296 ATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
66 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
*
7742361 GGATTGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
7742426 ACCAAA
196 ACCAAA
7742432 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
* *
7742497 ATATTTATATCGGTTACATTGTAAATTTATATATTACATTATACTTATGGATGCATATGTTTCTG
66 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
7742562 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
7742627 ACCAAA
196 ACCAAA
*
7742633 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
7742698 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
66 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
* *
7742763 GGATCGACACTTTTTGAAAATGTATCAACACTTTATGCGTTCACCCTTTTTGGCAGCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
7742828 ACCAAA
196 ACCAAA
*
7742834 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATCGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
* *
7742899 ATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
66 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
* *
7742964 GGATTGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTATGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
7743029 ACCAAA
196 ACCAAA
7743035 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
* *
7743100 ATATTTATATCGGTTACATTGTAAATTTATATATTACATTATACTTATGGATGCATATGTTTCTG
66 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
7743165 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
7743230 ACCAAA
196 ACCAAA
* **
7743236 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACATGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
7743301 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
66 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
* *
7743366 GGATCGACACTTTTTGAAAATGTATCGACACTTTATACGTTCACCCTTTTTGGCAGCCATTCTGG
131 GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
7743431 ACCAAA
196 ACCAAA
* *
7743437 AGTATTGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACTGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
* *
7743502 ATATTTATACCGATTACATTGTAAATTTACCTATTACATTATACTTATGGATGCATATGTTTCTG
66 ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
7743567 GGATCGA
131 GGATCGA
7743574 TAAATTTTAC
Statistics
Matches: 2369, Mismatches: 136, Indels: 88
0.91 0.05 0.03
Matches are distributed among these distances:
180 123 0.05
181 3 0.00
182 3 0.00
183 1 0.00
184 3 0.00
185 2 0.00
186 9 0.00
189 3 0.00
190 4 0.00
191 4 0.00
192 4 0.00
194 2 0.00
195 10 0.00
196 2 0.00
197 3 0.00
200 3 0.00
201 2008 0.85
202 5 0.00
204 1 0.00
207 2 0.00
210 1 0.00
212 2 0.00
213 9 0.00
215 1 0.00
216 5 0.00
217 2 0.00
218 3 0.00
219 1 0.00
220 3 0.00
221 3 0.00
222 144 0.06
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (201 bp):
AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
ATATTTATACCGGTTACATTGTAAATTTACATATTACATTATACTTATGGATGCATATGTTTCTG
GGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTTGCAGCCATTCTGG
ACCAAA
Found at i:7745805 original size:24 final size:20
Alignment explanation
Indices: 7745748--7745785 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
7745738 TTCCCCTTGA
7745748 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
7745768 AGTGCATCGATGCATTCT
1 AGTGCATCGATGCATTCT
7745786 TTAACATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:7745880 original size:64 final size:63
Alignment explanation
Indices: 7745793--7745933 Score: 169
Period size: 64 Copynumber: 2.2 Consensus size: 63
7745783 TCTTTAACAT
* * * *
7745793 GTGCATCAATGCACTACCCATGCATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAGGG
1 GTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
* * * *
7745856 GATGCATCGATGCACT-CCTTATGCATCGATGCACCAATTACATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTACC-CATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
7745920 GTGCATCGATGCAC
1 GTGCATCGATGCAC
7745934 ATTGAATATG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
63 21 0.31
64 46 0.69
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:7747196 original size:16 final size:17
Alignment explanation
Indices: 7747162--7747196 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
7747152 CTTTTAACTC
*
7747162 ATCCCATTCATTTCTTT
1 ATCCCATTCATTCCTTT
7747179 ATCCCATT-ATTCCTTT
1 ATCCCATTCATTCCTTT
7747195 AT
1 AT
7747197 TTATTCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.20, C:0.29, G:0.00, T:0.51
Consensus pattern (17 bp):
ATCCCATTCATTCCTTT
Found at i:7749989 original size:24 final size:20
Alignment explanation
Indices: 7749936--7749993 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
7749926 TTCCCCTTGA
*
7749936 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
7749956 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
7749979 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
7749994 CTGCCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:7750068 original size:64 final size:63
Alignment explanation
Indices: 7749981--7750121 Score: 169
Period size: 64 Copynumber: 2.2 Consensus size: 63
7749971 TCTTTAACAT
* * * *
7749981 GTGCATCGATGCACTGCCCATGCATCGATACACAAATTACCTTTGATGTTTTCAT-TTTAAGGG
1 GTGCATCGATGCACTGCCCATGCATCGATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
* * * *
7750044 GATGCATCGATGCACT-CCTTATGCATCGATGCACCAATTACATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTGCC-CATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
7750108 GTGCATCGATGCAC
1 GTGCATCGATGCAC
7750122 ATTGAATATG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
63 21 0.31
64 46 0.69
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTGCCCATGCATCGATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:7752235 original size:33 final size:33
Alignment explanation
Indices: 7752198--7752263 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
7752188 CATCTTAAGA
* *
7752198 TCACCCCTTAACACCTCAACTTCTTTTACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
7752231 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
7752264 CCATATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.45, G:0.00, T:0.32
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:7752321 original size:21 final size:21
Alignment explanation
Indices: 7752297--7752361 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
7752287 CCCCTTATGC
*
7752297 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTATCTTCGACT
*
7752318 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTATCTTCGACT
* *
7752339 CTCTCAATTTTTTCTTCGACT
1 CTCTCAAGTTTATCTTCGACT
7752360 CT
1 CT
7752362 TGATTGTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.15, C:0.31, G:0.09, T:0.45
Consensus pattern (21 bp):
CTCTCAAGTTTATCTTCGACT
Found at i:7754617 original size:20 final size:20
Alignment explanation
Indices: 7754592--7754643 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
7754582 AGCGCTTTAT
7754592 CGGTTTTATCATTTTAATAC
1 CGGTTTTATCATTTTAATAC
* *
7754612 CGGTTTTATCATTTTGATAT
1 CGGTTTTATCATTTTAATAC
7754632 CGGTTTTATCAT
1 CGGTTTTATCAT
7754644 ATTTTTACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.52
Consensus pattern (20 bp):
CGGTTTTATCATTTTAATAC
Found at i:7764817 original size:130 final size:130
Alignment explanation
Indices: 7764578--7764839 Score: 400
Period size: 130 Copynumber: 2.0 Consensus size: 130
7764568 ATCATCAAAC
* * *
7764578 AAATCACAACATGTGATCAAACTACTGAAAGACCAATGACAATCGTAAATCAGAGTTGAGCGTCG
1 AAATCACAACATGTCATCAAACTACTGAAAGACCAATGACAATCGTAAATCAGAGTCGAGCGTCA
* *
7764643 TGAGGAAACTATCTTTGAAAGTAATCTATGTATCCAAATTTAATATGAGGCTCAAAATCAGAAAA
66 TGAGAAAACTATCTTTGAAAGTAATCTATGTATCCAAATCTAATATGAGGCTCAAAATCAGAAAA
* * *
7764708 AAATCACAACATGTCATCAAACTACTGAAAGACCACTTATAATCGTAAATCAGAGTCGAGCGTCA
1 AAATCACAACATGTCATCAAACTACTGAAAGACCAATGACAATCGTAAATCAGAGTCGAGCGTCA
* ** *
7764773 TGATAAAACTATCTTTGAACA-TAATCTATGTATTTAAATCTAATATGAGGCTTAAAATCAGAAA
66 TGAGAAAACTATCTTTGAA-AGTAATCTATGTATCCAAATCTAATATGAGGCTCAAAATCAGAAA
7764837 A
130 A
7764838 AA
1 AA
7764840 TCAATAGGAC
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
130 118 0.99
131 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (130 bp):
AAATCACAACATGTCATCAAACTACTGAAAGACCAATGACAATCGTAAATCAGAGTCGAGCGTCA
TGAGAAAACTATCTTTGAAAGTAATCTATGTATCCAAATCTAATATGAGGCTCAAAATCAGAAAA
Found at i:7773102 original size:2 final size:2
Alignment explanation
Indices: 7773095--7773130 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7773085 GGACCCAATG
7773095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7773131 TTAAGTGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7774187 original size:16 final size:16
Alignment explanation
Indices: 7774166--7774196 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7774156 GTCGAGTGTG
7774166 GATGAACACAATTAAT
1 GATGAACACAATTAAT
*
7774182 GATGAACACCATTAA
1 GATGAACACAATTAA
7774197 ATTAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (16 bp):
GATGAACACAATTAAT
Found at i:7776009 original size:16 final size:16
Alignment explanation
Indices: 7775988--7776018 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7775978 ATAAATTAAT
*
7775988 TTAATGTTGCTCATCA
1 TTAATGGTGCTCATCA
7776004 TTAATGGTGCTCATC
1 TTAATGGTGCTCATC
7776019 CGTGGTCGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (16 bp):
TTAATGGTGCTCATCA
Found at i:7776821 original size:33 final size:33
Alignment explanation
Indices: 7776783--7776859 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 33
7776773 TTTTTTTAAG
** *
7776783 CGCCGCAAAAAACACTTGCGGTGATATGATAAA
1 CGCCGCAAAAAACACTAACGATGATATGATAAA
*
7776816 CGCCGCAAAAAACACTAACGATTATATGATAAA
1 CGCCGCAAAAAACACTAACGATGATATGATAAA
7776849 CGCCGCAAAAA
1 CGCCGCAAAAA
7776860 GCGTCGGGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.16
Consensus pattern (33 bp):
CGCCGCAAAAAACACTAACGATGATATGATAAA
Found at i:7777685 original size:20 final size:19
Alignment explanation
Indices: 7777662--7777713 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
7777652 ACATATACGT
7777662 ATATAATAATAAAAATAATA
1 ATATAATAATAAAAA-AATA
*
7777682 ATATAATAGCATAAATAAATA
1 ATATAATA--ATAAAAAAATA
7777703 A-ATAATAATAA
1 ATATAATAATAA
7777714 TAGTAAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 4 0.14
20 14 0.48
21 5 0.17
22 6 0.21
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
ATATAATAATAAAAAAATA
Found at i:7777842 original size:2 final size:2
Alignment explanation
Indices: 7777835--7777872 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
7777825 GGTAAAATGA
7777835 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7777873 GTAAATACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7779877 original size:105 final size:105
Alignment explanation
Indices: 7779585--7780331 Score: 1316
Period size: 105 Copynumber: 7.1 Consensus size: 105
7779575 GTGCAGTTAG
* * * *
7779585 AATTGGCTATGAAATTGAGAAGT-TGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
1 AATTGGCTCTGAATTTGAGAAATGT-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* *
7779649 TTGCGTTGTCTGGTGTCCAATATCCTTCGCTGTGAAGTTGA
65 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
* * * *
7779690 AATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
1 AATTGGCTCTGAATTTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
* *
7779755 TTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAATTGA
65 TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
* * *
7779796 AATTGGCTCTGGATTTGAGAAATGCTTGTAGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
1 AATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
7779861 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
66 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
* *
7779901 AATTGGTTCTGAATCTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
1 AATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
7779966 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
66 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
7780006 AATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
1 AATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
7780071 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
66 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
7780111 AATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
1 AATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
7780176 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
66 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
7780216 AATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
1 AATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
7780281 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
66 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
7780321 AATTGGCTCTG
1 AATTGGCTCTG
7780332 GGTAAAACCT
Statistics
Matches: 615, Mismatches: 25, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
105 521 0.85
106 93 0.15
107 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
AATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
Found at i:7781140 original size:63 final size:64
Alignment explanation
Indices: 7781057--7781180 Score: 171
Period size: 62 Copynumber: 2.0 Consensus size: 64
7781047 ACCTTATTTT
* * ** *
7781057 CTCTTCTTTTTTTCTCTTTTTTATTTTTCAATTTAGGGTGCCCTTTCGGGTTTTCACCCTAAACA
1 CTCTTCTTTTTTTCTCTTTTTT-TTTTCCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACA
*
7781122 CTCTT-TTTTTTT-TCTTTTTTTTTTCCAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 CTCTTCTTTTTTTCTCTTTTTTTTTTCCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
7781181 GCGAAGTATT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
62 33 0.62
63 8 0.15
64 7 0.13
65 5 0.09
ACGTcount: A:0.13, C:0.24, G:0.10, T:0.52
Consensus pattern (64 bp):
CTCTTCTTTTTTTCTCTTTTTTTTTTCCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACA
Found at i:7790581 original size:10 final size:10
Alignment explanation
Indices: 7790556--7790589 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
7790546 AACGTTAGTA
*
7790556 AAATAGAAAT
1 AAATAAAAAT
*
7790566 AGATAAAAAT
1 AAATAAAAAT
7790576 AAATAAAAAT
1 AAATAAAAAT
7790586 AAAT
1 AAAT
7790590 GGTAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:7791922 original size:20 final size:19
Alignment explanation
Indices: 7791899--7791950 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
7791889 ACATATACGT
7791899 ATATAATAATAAAAATAATA
1 ATATAATAATAAAAA-AATA
*
7791919 ATATAATAGCATAAATAAATA
1 ATATAATA--ATAAAAAAATA
7791940 A-ATAATAATAA
1 ATATAATAATAA
7791951 TAGTAAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 4 0.14
20 14 0.48
21 5 0.17
22 6 0.21
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
ATATAATAATAAAAAAATA
Found at i:7792079 original size:2 final size:2
Alignment explanation
Indices: 7792072--7792103 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7792062 GGTAAAATGA
*
7792072 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7792104 GTAAATACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7797610 original size:23 final size:23
Alignment explanation
Indices: 7797542--7797610 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
7797532 GAATATTGAT
*
7797542 ATAATTTT-TTAATATTAATTATTA
1 ATAATTTTAATAATATT-A-TATTA
*
7797566 A-AATATTTAAAAAATATT-TATTA
1 ATAAT-TTT-AATAATATTATATTA
7797589 ATAATTTTAATAATATTATATT
1 ATAATTTTAATAATATTATATT
7797611 TTTTCAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
22 8 0.22
23 16 0.43
24 7 0.19
26 6 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATAATTTTAATAATATTATATTA
Found at i:7797626 original size:27 final size:27
Alignment explanation
Indices: 7797579--7797631 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
7797569 TATTTAAAAA
*
7797579 ATATTTATTAATAATTTTAATAATATT
1 ATATTTATTAATAATTATAATAATATT
*
7797606 ATATTTTTTCAAT-ATTATAATAATAT
1 ATATTTATT-AATAATTATAATAATAT
7797632 ATACTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
ATATTTATTAATAATTATAATAATATT
Found at i:7800717 original size:16 final size:16
Alignment explanation
Indices: 7800696--7800727 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7800686 TAAACTAAAC
7800696 TTTTTTAATAATTTAT
1 TTTTTTAATAATTTAT
*
7800712 TTTTTTAATATTTTAT
1 TTTTTTAATAATTTAT
7800728 ATTTAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTAATAATTTAT
Found at i:7800800 original size:30 final size:30
Alignment explanation
Indices: 7800764--7800821 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
7800754 TTATTTATAT
* *
7800764 TTAAATAATAT-CTTAAATTTTCTAAAAAAA
1 TTAAATAA-ATCCTCAAACTTTCTAAAAAAA
7800794 TTAAATAAATCCTCAAACTTTCTAAAAA
1 TTAAATAAATCCTCAAACTTTCTAAAAA
7800822 TTTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (30 bp):
TTAAATAAATCCTCAAACTTTCTAAAAAAA
Found at i:7801454 original size:20 final size:20
Alignment explanation
Indices: 7801424--7801476 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 20
7801414 TCAAAAAACT
7801424 AAAACTAAAAATTATTTTATG
1 AAAA-TAAAAATTATTTTATG
7801445 AAAATAAAAAGTTATTTTATG
1 AAAATAAAAA-TTATTTTATG
7801466 AAAATAAAAAT
1 AAAATAAAAAT
7801477 AGAAAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.23
21 24 0.77
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (20 bp):
AAAATAAAAATTATTTTATG
Found at i:7804159 original size:60 final size:60
Alignment explanation
Indices: 7804058--7804186 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 60
7804048 ACAAATGGTC
* * * *
7804058 TCCGACTATAGGGTATTATTTTACTGAGTCCCTCGATTATTAAAAGTTACAAAGT-GATCA
1 TCCGACTATAGAGTATTATTTTACTGAATCCATCGACTATTAAAAGTTACAAAGTAG-TCA
* ** * *
7804118 TCCGACTATAGAGTATTGTTTTGTTGAATCCATTGACTATTAAAAGTTATAAAGTAGTCA
1 TCCGACTATAGAGTATTATTTTACTGAATCCATCGACTATTAAAAGTTACAAAGTAGTCA
*
7804178 TCTGACTAT
1 TCCGACTAT
7804187 TCATATGTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 57 0.98
61 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (60 bp):
TCCGACTATAGAGTATTATTTTACTGAATCCATCGACTATTAAAAGTTACAAAGTAGTCA
Found at i:7806072 original size:19 final size:19
Alignment explanation
Indices: 7806050--7806099 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
7806040 AACACGTAAG
7806050 AAATAATAAAATAT-AATAA
1 AAATAA-AAAATATGAATAA
*
7806069 AAATAAACAATATGAATAA
1 AAATAAAAAATATGAATAA
7806088 AATATTAAAAAA
1 AA-A-TAAAAAA
7806100 CAAAGACACC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 6 0.23
19 13 0.50
20 1 0.04
21 6 0.23
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
AAATAAAAAATATGAATAA
Found at i:7806073 original size:11 final size:10
Alignment explanation
Indices: 7806052--7806092 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
7806042 CACGTAAGAA
7806052 ATAATAAAAT
1 ATAATAAAAT
7806062 ATAATAAAA-
1 ATAATAAAAT
*
7806071 ATAA-ACAAT
1 ATAATAAAAT
7806080 ATGAATAAAAT
1 AT-AATAAAAT
7806091 AT
1 AT
7806093 TAAAAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 3 0.12
9 6 0.23
10 11 0.42
11 6 0.23
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (10 bp):
ATAATAAAAT
Found at i:7806355 original size:34 final size:36
Alignment explanation
Indices: 7806315--7806395 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 36
7806305 TATAATATAT
7806315 ATATATATATAAAC-A-AAAATAGAATATTAAGAAAAA
1 ATATATATA-AAACGATAAAATA-AATATTAAGAAAAA
*
7806351 ATATATATAAAAACGTATAAAATATATATTAAGAAAAA
1 ATATATAT-AAAACG-ATAAAATAAATATTAAGAAAAA
7806389 ATATATA
1 ATATATA
7806396 ATAGTAAATG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
36 12 0.30
37 1 0.03
38 21 0.52
39 6 0.15
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.28
Consensus pattern (36 bp):
ATATATATAAAACGATAAAATAAATATTAAGAAAAA
Found at i:7806436 original size:2 final size:2
Alignment explanation
Indices: 7806429--7806502 Score: 91
Period size: 2 Copynumber: 38.5 Consensus size: 2
7806419 ACATCTAAAC
7806429 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
7806471 AT AA AT A- AA AT AT A- AT A- AT AA AA AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7806503 AATAAATAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
1 3 0.05
2 61 0.95
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:7807029 original size:37 final size:36
Alignment explanation
Indices: 7806986--7807087 Score: 156
Period size: 34 Copynumber: 2.9 Consensus size: 36
7806976 TTAGTAGAAC
7806986 TCTATCCTATTTTTAGAAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGAAGTTTGAATCCTAG-AAAAT
*
7807023 GT-TATCCTATTTTTAGGAGTTTGAATCCT--AAAAT
1 -TCTATCCTATTTTTAGAAGTTTGAATCCTAGAAAAT
7807057 TCTATCCTATTTTTAGAAGTTTGAATCCTAG
1 TCTATCCTATTTTTAGAAGTTTGAATCCTAG
7807088 TAGGACGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
33 1 0.02
34 31 0.53
37 26 0.44
38 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (36 bp):
TCTATCCTATTTTTAGAAGTTTGAATCCTAGAAAAT
Found at i:7807935 original size:105 final size:104
Alignment explanation
Indices: 7807635--7808190 Score: 753
Period size: 105 Copynumber: 5.3 Consensus size: 104
7807625 CATTGTTCCA
* * * ** * *
7807635 AGTCCAATATCCTCCATCGTGAAGTTGAAATTGGCTCTGGAACCGAGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAATTGAGAAGTTG-TTGTTGACAAG
* * * *
7807700 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
7807741 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAAC-CTGAA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTG-GCTCTGAATTGAGAAGTTGTTGTTGACAAGC
*
7807801 AACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
7807841 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-ATTGAGAAGTTGTTGTTGACAAGC
*
7807906 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
7807946 AGTCTAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AATTGAGAAGTTGTTGTTGACAAGC
*
7808011 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
7808051 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AATTGAGAAGTTG-TTGTTGACAAG
* * * *
7808116 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
7808157 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
7808191 CGCGGATGGC
Statistics
Matches: 408, Mismatches: 30, Indels: 21
0.89 0.07 0.05
Matches are distributed among these distances:
99 1 0.00
100 83 0.20
101 1 0.00
102 4 0.01
103 4 0.01
104 4 0.01
105 203 0.50
106 82 0.20
107 4 0.01
109 22 0.05
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (104 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGAGAAGTTGTTGTTGACAAGCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:7810011 original size:22 final size:22
Alignment explanation
Indices: 7809985--7810039 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
7809975 TTGTGTTTGG
*
7809985 TCAAAGGTTTGGCATTTGATGT
1 TCAAAGGTTTGGCATTTGATGC
7810007 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
7810029 TCAAAGGTTTG
1 TCAAAGGTTTG
7810040 ATGGGGTAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.24, C:0.11, G:0.27, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:7810661 original size:22 final size:20
Alignment explanation
Indices: 7810636--7810689 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
7810626 TTTTTTGTCC
*
7810636 CTTTTCCTTTTGATTTTTGATT
1 CTTTTCCTTTTG-TTCTTG-TT
*
7810658 CTTTTCTTTTTTGTTCTTGTT
1 CTTTTC-CTTTTGTTCTTGTT
*
7810679 TTTTTCCTTTT
1 CTTTTCCTTTT
7810690 TTGCTTCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 4 0.15
21 7 0.26
22 11 0.41
23 5 0.19
ACGTcount: A:0.04, C:0.15, G:0.07, T:0.74
Consensus pattern (20 bp):
CTTTTCCTTTTGTTCTTGTT
Found at i:7810706 original size:16 final size:16
Alignment explanation
Indices: 7810674--7810713 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
7810664 TTTTTTGTTC
*
7810674 TTGTTTTTTTCCTTTT
1 TTGTTCTTTTCCTTTT
7810690 TTGCTTCTTTT-CTTTT
1 TTG-TTCTTTTCCTTTT
7810706 TTGTTCTT
1 TTGTTCTT
7810714 GATTGAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 5 0.23
16 11 0.50
17 6 0.27
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (16 bp):
TTGTTCTTTTCCTTTT
Found at i:7815320 original size:19 final size:19
Alignment explanation
Indices: 7815298--7815347 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
7815288 AACACGTAAG
7815298 AAATAATAAAATAT-AATAA
1 AAATAA-AAAATATGAATAA
*
7815317 AAATAAACAATATGAATAA
1 AAATAAAAAATATGAATAA
7815336 AATATTAAAAAA
1 AA-A-TAAAAAA
7815348 CAAAGACACC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 6 0.23
19 13 0.50
20 1 0.04
21 6 0.23
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
AAATAAAAAATATGAATAA
Found at i:7815321 original size:11 final size:10
Alignment explanation
Indices: 7815300--7815340 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
7815290 CACGTAAGAA
7815300 ATAATAAAAT
1 ATAATAAAAT
7815310 ATAATAAAA-
1 ATAATAAAAT
*
7815319 ATAA-ACAAT
1 ATAATAAAAT
7815328 ATGAATAAAAT
1 AT-AATAAAAT
7815339 AT
1 AT
7815341 TAAAAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 3 0.12
9 6 0.23
10 11 0.42
11 6 0.23
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (10 bp):
ATAATAAAAT
Found at i:7815536 original size:56 final size:55
Alignment explanation
Indices: 7815467--7815621 Score: 147
Period size: 56 Copynumber: 2.7 Consensus size: 55
7815457 TAAAACAAAT
*
7815467 AAAAATAATAAAAATAGAATACTAAGTAAAAA-A-AATAAAGATATATATGATATTAA
1 AAAAATAATAAAAATAAAATA--AAGTAAAAATATAATAAAGATATATAT-ATATTAA
*
7815523 AAAAATAGA-AAAAATAAAATAAAGTAAAAATATAATATATATATATATATATATATAA
1 AAAAATA-ATAAAAATAAAATAAAGTAAAAATATAATA-A-AGATATATATATAT-TAA
* * *
7815581 ATAAA-AACAAAAATAAAATATTAAGAAAAAATATATATAAA
1 AAAAATAATAAAAATAAAATA--AAGTAAAAATATA-ATAAA
7815622 AACGTATAAA
Statistics
Matches: 85, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
54 9 0.11
55 1 0.01
56 23 0.27
57 19 0.22
58 17 0.20
59 13 0.15
60 3 0.04
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.26
Consensus pattern (55 bp):
AAAAATAATAAAAATAAAATAAAGTAAAAATATAATAAAGATATATATATATTAA
Found at i:7815618 original size:17 final size:17
Alignment explanation
Indices: 7815598--7815657 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
7815588 CAAAAATAAA
7815598 ATATTAAGAAAAAATAT
1 ATATTAAGAAAAAATAT
* *
7815615 ATATAAAAACGTATAAAATAT
1 ATAT--TAA-G-AAAAAATAT
7815636 AATATTAAGAAAAAATAT
1 -ATATTAAGAAAAAATAT
7815654 ATAT
1 ATAT
7815658 ACATAGTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 8 0.24
18 8 0.24
19 3 0.09
20 3 0.09
21 8 0.24
22 4 0.12
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (17 bp):
ATATTAAGAAAAAATAT
Found at i:7815642 original size:39 final size:36
Alignment explanation
Indices: 7815575--7815658 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 36
7815565 ATATATATAT
*
7815575 ATATAAATAAAAACAAAAATAAAATATTAAGAAAAA
1 ATATATATAAAAACAAAAATAAAATATTAAGAAAAA
*
7815611 ATATATATAAAAACGTATAAAATATAATATTAAGAAAAA
1 ATATATATAAAAAC--A-AAAATAAAATATTAAGAAAAA
7815650 ATATATATA
1 ATATATATA
7815659 CATAGTAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 13 0.30
38 1 0.02
39 29 0.67
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (36 bp):
ATATATATAAAAACAAAAATAAAATATTAAGAAAAA
Found at i:7815710 original size:2 final size:2
Alignment explanation
Indices: 7815705--7815760 Score: 82
Period size: 2 Copynumber: 29.5 Consensus size: 2
7815695 ACACACACAC
7815705 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
7815746 -T AT A- AG AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
7815761 ATAAAAATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
1 3 0.06
2 47 0.94
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7815764 original size:14 final size:15
Alignment explanation
Indices: 7815705--7815779 Score: 84
Period size: 14 Copynumber: 5.1 Consensus size: 15
7815695 ACACACACAC
7815705 ATATATATAT-ATAT
1 ATATATATATAATAT
7815719 ATATATATAT-ATAT
1 ATATATATATAATAT
7815733 ATATATATATAATTAT
1 ATATATATATAA-TAT
* *
7815749 AAGATATATATAATAA
1 -ATATATATATAATAT
*
7815765 AAATA-ATATAATAT
1 ATATATATATAATAT
7815779 A
1 A
7815780 AATAAATAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
14 33 0.61
15 5 0.09
16 5 0.09
17 11 0.20
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (15 bp):
ATATATATATAATAT
Found at i:7815784 original size:14 final size:15
Alignment explanation
Indices: 7815705--7815783 Score: 90
Period size: 16 Copynumber: 5.2 Consensus size: 15
7815695 ACACACACAC
*
7815705 ATATATAT-ATATAT
1 ATATATATAATATAA
*
7815719 ATATATATATATATAT
1 ATATATATA-ATATAA
7815735 ATATATATAATTATAA
1 ATATATATAA-TATAA
*
7815751 GATATATATAATAAAA
1 -ATATATATAATATAA
7815767 ATA-ATATAATATAA
1 ATATATATAATATAA
7815781 ATA
1 ATA
7815784 AATAAAAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
14 21 0.36
15 4 0.07
16 23 0.40
17 10 0.17
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (15 bp):
ATATATATAATATAA
Found at i:7816280 original size:37 final size:37
Alignment explanation
Indices: 7816230--7816318 Score: 99
Period size: 37 Copynumber: 2.4 Consensus size: 37
7816220 GTGCTTGTGG
* * * *
7816230 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACT-CT
1 ATCCTATTTTTAGGAATTTAAATCCTAGCA-AAATGCT
* * *
7816267 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATGTT
1 ATCCTATTTTTAGGAATTTAAATCCTAGCAAAATGCT
7816304 ATCCTATTTTTAGGA
1 ATCCTATTTTTAGGA
7816319 GTTTGAATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 3 0.07
37 41 0.93
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAATTTAAATCCTAGCAAAATGCT
Found at i:7819413 original size:16 final size:16
Alignment explanation
Indices: 7819392--7819427 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
7819382 TTAAACAAAT
7819392 AAATAAATTTTTCATC
1 AAATAAATTTTTCATC
7819408 AAATAAATTTTTCATC
1 AAATAAATTTTTCATC
7819424 AAAT
1 AAAT
7819428 GACAAGACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATAAATTTTTCATC
Found at i:7819777 original size:2 final size:2
Alignment explanation
Indices: 7819770--7819796 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7819760 TTTATAAACT
7819770 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7819797 CCAAATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7822251 original size:196 final size:197
Alignment explanation
Indices: 7821917--7822309 Score: 779
Period size: 196 Copynumber: 2.0 Consensus size: 197
7821907 ACATGAGTAG
7821917 TCAGAGGACTCAACAAAGCAACATCTTATAATCAGGAGACCATTTTATAACATTTAATAGTCGAA
1 TCAGAGGACTCAACAAAGCAACATCTTATAATCAGGAGACCATTTTATAACATTTAATAGTCGAA
7821982 AGACTTAATAAAATAATATCCCATAGTCGGAGAGCATTTGTGTACTTTACCCTTATATCTTTAAC
66 AGACTTAATAAAATAATATCCCATAGTCGGAGAGCATTTGTGTACTTTACCCTTATATCTTTAAC
7822047 AGACCTCTTCGTATTTTAAACGTTTGTACAAG-TTTATTTGTTAAGTTTTTTTTTATTCAATCAC
131 AGACCTCTTCGTATTTTAAACGTTTGTACAAGTTTTATTTGTTAAGTTTTTTTTTATTCAATCAC
7822111 AA
196 AA
7822113 TCAGAGGACTCAACAAAGCAACATCTTATAATCAGGAGACCATTTTATAACATTTAATAGTCGAA
1 TCAGAGGACTCAACAAAGCAACATCTTATAATCAGGAGACCATTTTATAACATTTAATAGTCGAA
7822178 AGACTTAATAAAATAATATCCCATAGTCGGAGAGCATTTGTGTACTTTACCCTTATATCTTTAAC
66 AGACTTAATAAAATAATATCCCATAGTCGGAGAGCATTTGTGTACTTTACCCTTATATCTTTAAC
7822243 AGACCTCTTCGTATTTTAAACGTTTGTACAAGTTTTATTTGTTAAGTTTTTTTTTATTCAATCAC
131 AGACCTCTTCGTATTTTAAACGTTTGTACAAGTTTTATTTGTTAAGTTTTTTTTTATTCAATCAC
7822308 AA
196 AA
7822310 ATTTTACTAG
Statistics
Matches: 196, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
196 162 0.83
197 34 0.17
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (197 bp):
TCAGAGGACTCAACAAAGCAACATCTTATAATCAGGAGACCATTTTATAACATTTAATAGTCGAA
AGACTTAATAAAATAATATCCCATAGTCGGAGAGCATTTGTGTACTTTACCCTTATATCTTTAAC
AGACCTCTTCGTATTTTAAACGTTTGTACAAGTTTTATTTGTTAAGTTTTTTTTTATTCAATCAC
AA
Found at i:7826605 original size:2 final size:2
Alignment explanation
Indices: 7826598--7826632 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7826588 AGAAAATTAG
7826598 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7826633 ACATATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:7826640 original size:2 final size:2
Alignment explanation
Indices: 7826635--7826665 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7826625 CTCTCTCTAC
7826635 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7826666 TCGCGCAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7827439 original size:31 final size:31
Alignment explanation
Indices: 7827368--7827454 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 31
7827358 CAAAAATAAT
* * * *
7827368 GGAAACAAAAACCCATGAAAGC-ATACCAAA
1 GGAAACAGAAACCCATCACAGCAAAACCAAA
* * * *
7827398 GAAAATAGAAACCCATTACAGCAAAAGCAAA
1 GGAAACAGAAACCCATCACAGCAAAACCAAA
*
7827429 GGAAACAGAAACCCATCACAACAAAA
1 GGAAACAGAAACCCATCACAGCAAAA
7827455 AATAAAGAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 17 0.38
31 28 0.62
ACGTcount: A:0.57, C:0.23, G:0.13, T:0.07
Consensus pattern (31 bp):
GGAAACAGAAACCCATCACAGCAAAACCAAA
Found at i:7827465 original size:31 final size:31
Alignment explanation
Indices: 7827395--7827466 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
7827385 AAAGCATACC
* * * *
7827395 AAAGAAAATAGAAACCCATTACAGCAAAAGCA
1 AAAG-AAACAGAAACCCATCACAACAAAAGAA
*
7827427 AAGGAAACAGAAACCCATCACAACAAAA-AA
1 AAAGAAACAGAAACCCATCACAACAAAAGAA
7827457 TAAAGAAACA
1 -AAAGAAACA
7827467 AAGATACGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
30 1 0.03
31 29 0.88
32 3 0.09
ACGTcount: A:0.62, C:0.19, G:0.11, T:0.07
Consensus pattern (31 bp):
AAAGAAACAGAAACCCATCACAACAAAAGAA
Found at i:7828264 original size:20 final size:21
Alignment explanation
Indices: 7828239--7828290 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
7828229 TTTTCCTAAT
*
7828239 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* *
7828259 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAATTAAGAAAA
7828280 TCGCAATGCGA
1 TCGCAATGCGA
7828291 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:7828304 original size:20 final size:20
Alignment explanation
Indices: 7828279--7828413 Score: 119
Period size: 20 Copynumber: 6.7 Consensus size: 20
7828269 AATTGAGAAA
7828279 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
7828299 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* * **
7828319 ATCGCAATGCGATAATATAAA
1 ATCGCAATGCGATACT-GACT
* *
7828340 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
7828360 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
7828380 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
7828400 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
7828414 TTTCAAAGCG
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
19 2 0.02
20 67 0.71
21 26 0.27
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:7828323 original size:61 final size:61
Alignment explanation
Indices: 7828258--7828413 Score: 188
Period size: 61 Copynumber: 2.6 Consensus size: 61
7828248 GAATAAGTAA
* * * *
7828258 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACT
1 ATCGCAACGCGATAAT-ACAAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACT
* * * * * *
7828319 ATCGCAATGCGATAATATAAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATAATACAAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACT
* *
7828380 TTCGCAACGCGATAATACATAATCGCAATGCGAT
1 ATCGCAACGCGATAATACAAAATCGCAATGCGAT
7828414 TTTCAAAGCG
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
61 77 0.97
62 2 0.03
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (61 bp):
ATCGCAACGCGATAATACAAAATCGCAATGCGATACTGACTATCGCAACGCGATACTGACT
Found at i:7828613 original size:22 final size:22
Alignment explanation
Indices: 7828582--7828625 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7828572 CACTCTCTCA
*
7828582 CCCATCTCCGACGAAATCCGTC
1 CCCATATCCGACGAAATCCGTC
*
7828604 CCCATATCCGGCGAAATCCGTC
1 CCCATATCCGACGAAATCCGTC
7828626 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.43, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATATCCGACGAAATCCGTC
Found at i:7828927 original size:20 final size:20
Alignment explanation
Indices: 7828873--7828931 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
7828863 GCGATTCTCT
**
7828873 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
7828893 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
7828913 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
7828932 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:7830254 original size:18 final size:18
Alignment explanation
Indices: 7830233--7830277 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
7830223 TCCACTTCGG
*
7830233 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
7830251 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
7830269 GAGCCATCA
1 GAGCCATCA
7830278 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:7830784 original size:20 final size:20
Alignment explanation
Indices: 7830759--7830804 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
7830749 TAGTTTACTT
*
7830759 TCGCAACATGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
7830779 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
7830799 TCGCAA
1 TCGCAA
7830805 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:7830813 original size:19 final size:20
Alignment explanation
Indices: 7830770--7830825 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
7830760 CGCAACATGA
7830770 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
7830790 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
7830809 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
7830826 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:7830856 original size:19 final size:18
Alignment explanation
Indices: 7830798--7830861 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
7830788 GGAAATGGCT
7830798 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
*
7830817 ATCGCAA--CGACA--AA
1 ATCGCAATGCGAAATGAA
7830831 ATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAATGAA
7830849 AGTCGCAATGCGA
1 A-TCGCAATGCGA
7830862 TTTGTGTTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 9 0.24
16 4 0.11
17 4 0.11
18 3 0.08
19 18 0.47
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (18 bp):
ATCGCAATGCGAAATGAA
Found at i:7830892 original size:14 final size:14
Alignment explanation
Indices: 7830873--7830962 Score: 81
Period size: 14 Copynumber: 5.8 Consensus size: 14
7830863 TTGTGTTTCG
7830873 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
7830887 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
7830903 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
7830919 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
7830936 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
7830952 CGTTGCGATTT
1 CGTTGCGATTT
7830963 GCATTTCGCA
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 26 0.41
15 3 0.05
16 12 0.19
17 4 0.06
18 12 0.19
19 6 0.10
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:7830937 original size:33 final size:33
Alignment explanation
Indices: 7830868--7830979 Score: 199
Period size: 33 Copynumber: 3.4 Consensus size: 33
7830858 GCGATTTGTG
*
7830868 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
7830900 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
7830933 TTTCGCATTGCGATTTTGTCGTTGCGATTTGCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
7830966 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
7830980 AGCCATTTCC
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 26 0.34
33 51 0.66
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:7830945 original size:19 final size:18
Alignment explanation
Indices: 7830889--7830979 Score: 90
Period size: 14 Copynumber: 5.4 Consensus size: 18
7830879 GATTTTGTCG
7830889 TTGCGATTTCATTTCGCA
1 TTGCGATTTCATTTCGCA
*
7830907 TTGCGATTT--TGTCG--
1 TTGCGATTTCATTTCGCA
7830921 TTGCGATTTTCATTTCGCA
1 TTGCGA-TTTCATTTCGCA
*
7830940 TTGCGATTT--TGTCG--
1 TTGCGATTTCATTTCGCA
7830954 TTGCGATTTGCATTTCGCA
1 TTGCGATTT-CATTTCGCA
7830973 TTGCGAT
1 TTGCGAT
7830980 AGCCATTTCC
Statistics
Matches: 59, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
14 15 0.25
15 3 0.05
16 8 0.14
17 8 0.14
18 12 0.20
19 13 0.22
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.46
Consensus pattern (18 bp):
TTGCGATTTCATTTCGCA
Found at i:7830998 original size:20 final size:19
Alignment explanation
Indices: 7830964--7831019 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
7830954 TTGCGATTTG
*
7830964 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
7830983 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
7831003 CATTTTTGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
7831020 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 24 0.75
21 3 0.09
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:7831480 original size:41 final size:42
Alignment explanation
Indices: 7831384--7831471 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 42
7831374 GACTCACCTG
* *
7831384 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
* * *
7831426 TCCTCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
7831467 TCATC
1 TCATC
7831472 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCACTA
Found at i:7832915 original size:14 final size:14
Alignment explanation
Indices: 7832881--7832919 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
7832871 TTGATTGTTT
7832881 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
7832895 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
7832909 TGTTGATTTGT
1 AATTGATTTGT
7832920 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:7833080 original size:19 final size:19
Alignment explanation
Indices: 7833056--7833123 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
7833046 ATCGCAACGA
7833056 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
7833075 GAAAATCACAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
7833094 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
7833108 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
7833124 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.25
15 1 0.02
16 2 0.05
17 2 0.05
19 28 0.64
ACGTcount: A:0.49, C:0.18, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:7833416 original size:20 final size:20
Alignment explanation
Indices: 7833391--7833482 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
7833381 TTGAAGATGA
7833391 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
***
7833411 TTGCGAAAGTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
* **
7833431 TTGCGATTTTGTATTATCTCG
1 TTGCGATTTT-CAGAATCTCG
** * * *
7833452 TTGCGATAGTCAGTATCGCA
1 TTGCGATTTTCAGAATCTCG
7833472 TTGCGATTTTC
1 TTGCGATTTTC
7833483 CAAATTCGCA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:7833511 original size:20 final size:21
Alignment explanation
Indices: 7833467--7833518 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
7833457 ATAGTCAGTA
*
7833467 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
7833488 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
7833508 TCGCATTGCGA
1 TCGCATTGCGA
7833519 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:7833744 original size:12 final size:12
Alignment explanation
Indices: 7833715--7833755 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
7833705 CTCTCCGGCG
*
7833715 ACATCCGTTCTT
1 ACATCCGTTCCT
*
7833727 ATATCCGTTCCT
1 ACATCCGTTCCT
7833739 ACATCC-TTCCT
1 ACATCCGTTCCT
7833750 -CATCCG
1 ACATCCG
7833756 GCAACATGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
10 5 0.20
11 5 0.20
12 15 0.60
ACGTcount: A:0.17, C:0.39, G:0.07, T:0.37
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:7834548 original size:12 final size:12
Alignment explanation
Indices: 7834531--7834555 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7834521 ATATAATCCT
7834531 GAAGAAGAAAAA
1 GAAGAAGAAAAA
7834543 GAAGAAGAAAAA
1 GAAGAAGAAAAA
7834555 G
1 G
7834556 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:7836860 original size:19 final size:19
Alignment explanation
Indices: 7836838--7836968 Score: 112
Period size: 19 Copynumber: 7.7 Consensus size: 19
7836828 GGAAATTACT
7836838 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
7836857 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
7836871 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
7836890 ATCGCAACGCG-AAT----
1 ATCGCAATGCGAAATGAAA
*
7836904 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
7836923 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
7836937 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
7836956 ATCGCAACGCGAA
1 ATCGCAATGCGAA
7836969 TTTAATTTCG
Statistics
Matches: 88, Mismatches: 9, Indels: 30
0.69 0.07 0.24
Matches are distributed among these distances:
14 29 0.33
15 5 0.06
16 4 0.05
17 4 0.05
18 5 0.06
19 41 0.47
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:7836880 original size:33 final size:33
Alignment explanation
Indices: 7836838--7836964 Score: 209
Period size: 33 Copynumber: 3.8 Consensus size: 33
7836828 GGAAATTACT
7836838 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
* *
7836871 ATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
* **
7836904 TTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
7836937 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
7836965 CGAATTTAAT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 86 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAAA
Found at i:7836945 original size:66 final size:66
Alignment explanation
Indices: 7836839--7836971 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
7836829 GAAATTACTA
7836839 TCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
7836904 T
66 T
**
7836905 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
7836970 T
66 T
7836971 T
1 T
7836972 AATTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.16
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:7836996 original size:14 final size:15
Alignment explanation
Indices: 7836979--7837034 Score: 62
Period size: 14 Copynumber: 3.7 Consensus size: 15
7836969 TTTAATTTCG
7836979 CGTTGCGA-TCATCT
1 CGTTGCGATTCATCT
*
7836993 CGTTGCGATTTCATTTCG
1 CGTTGCGA-TTCA--TCT
7837011 CGTTGCGATTC-TCT
1 CGTTGCGATTCATCT
7837025 CGTTGCGATT
1 CGTTGCGATT
7837035 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
18 10 0.28
ACGTcount: A:0.11, C:0.25, G:0.23, T:0.41
Consensus pattern (15 bp):
CGTTGCGATTCATCT
Found at i:7837043 original size:33 final size:33
Alignment explanation
Indices: 7836968--7837052 Score: 129
Period size: 32 Copynumber: 2.6 Consensus size: 33
7836958 CGCAACGCGA
*
7836968 ATTTAATTTCGCGTTGCGA-TCATCTCGTTGCG
1 ATTTCATTTCGCGTTGCGATTCATCTCGTTGCG
7837000 ATTTCATTTCGCGTTGCGATTC-TCTCGTTGCG
1 ATTTCATTTCGCGTTGCGATTCATCTCGTTGCG
*
7837032 ATTTTCATTTCGCATTGCGAT
1 A-TTTCATTTCGCGTTGCGAT
7837053 AGTACTTTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
32 29 0.59
33 20 0.41
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.44
Consensus pattern (33 bp):
ATTTCATTTCGCGTTGCGATTCATCTCGTTGCG
Found at i:7837178 original size:14 final size:14
Alignment explanation
Indices: 7837159--7837195 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
7837149 CATCAATTAA
7837159 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
7837173 ACAAATCACCTTTT
1 ACAAATCAACTTTT
7837187 ACAAATCAA
1 ACAAATCAA
7837196 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:7838557 original size:21 final size:21
Alignment explanation
Indices: 7838491--7838557 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
7838481 GTGAATCGGG
*
7838491 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
7838511 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
7838533 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
7838554 CTCT
1 CTCT
7838558 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:7838576 original size:42 final size:41
Alignment explanation
Indices: 7838491--7838604 Score: 104
Period size: 42 Copynumber: 2.7 Consensus size: 41
7838481 GTGAATCGGG
* * * *
7838491 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
7838533 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
7838575 CTCTTCAACGATAGGAGTGGACTCTTGAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG
7838605 GACAGGCGAG
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.07
42 52 0.87
43 4 0.07
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:7838937 original size:93 final size:91
Alignment explanation
Indices: 7838828--7839012 Score: 284
Period size: 91 Copynumber: 2.0 Consensus size: 91
7838818 ATTTCAAACT
* *
7838828 TTCAACCAAAAGAC-AAA-ACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTA
1 TTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTT----AATAAACAGTTTA
*
7838891 GCAGAATTGGCAGCAACTGAATAAATTTAC
62 GCAGAATTGGCAGCAACCGAATAAATTTAC
7838921 TTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
1 TTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
*
7838986 TATTGGCAGCAACCGAATAAATTTAC
66 AATTGGCAGCAACCGAATAAATTTAC
7839012 T
1 T
7839013 AAGTAATCTA
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
91 41 0.48
93 14 0.16
94 3 0.03
95 28 0.33
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (91 bp):
TTCAACCAAAAGACAAAATAAAAAGACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAG
AATTGGCAGCAACCGAATAAATTTAC
Found at i:7840067 original size:53 final size:53
Alignment explanation
Indices: 7840006--7840111 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
7839996 CCGAGTAAAA
7840006 TCATCTTTCTTATTAAACAATTTCTTCATGTCGTCGACATGTAAGTTCGGCTT
1 TCATCTTTCTTATTAAACAATTTCTTCATGTCGTCGACATGTAAGTTCGGCTT
7840059 TCATCTTTCTTATTAAACAATTTCTTCATGTCGTCGACATGTAAGTTCGGCTT
1 TCATCTTTCTTATTAAACAATTTCTTCATGTCGTCGACATGTAAGTTCGGCTT
7840112 CTCTATTGAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (53 bp):
TCATCTTTCTTATTAAACAATTTCTTCATGTCGTCGACATGTAAGTTCGGCTT
Found at i:7840703 original size:19 final size:19
Alignment explanation
Indices: 7840618--7840729 Score: 110
Period size: 19 Copynumber: 6.1 Consensus size: 19
7840608 GTCTTTGGTT
*
7840618 GAAATG-AAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
7840636 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
7840656 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
7840674 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
7840690 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
7840709 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
7840728 GA
1 GA
7840730 TTTTGGTTTC
Statistics
Matches: 78, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
14 9 0.12
15 1 0.01
16 2 0.03
17 1 0.01
18 4 0.05
19 37 0.47
20 22 0.28
21 2 0.03
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:7840703 original size:33 final size:34
Alignment explanation
Indices: 7840642--7840707 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
7840632 ACGAGATAAT
**
7840642 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGGAAATGAAAATCGCAACGA
7840676 GAGAATCGCAACGC-GAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGGAAATGAAAATCGCAACG
7840708 CGAAATGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 16 0.53
34 14 0.47
ACGTcount: A:0.41, C:0.23, G:0.26, T:0.11
Consensus pattern (34 bp):
GAGAATCGCAACGCGGAAATGAAAATCGCAACGA
Found at i:7840758 original size:19 final size:19
Alignment explanation
Indices: 7840725--7840791 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
7840715 AAAATCGCAA
**
7840725 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
7840744 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
7840763 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
7840783 TGCGATTTT
1 TGCGATTTT
7840792 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:7841350 original size:20 final size:20
Alignment explanation
Indices: 7841309--7841503 Score: 76
Period size: 20 Copynumber: 9.6 Consensus size: 20
7841299 GCTATGTAAA
* *
7841309 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-TTACGTAT
7841329 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* * *
7841349 TCGTATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
* * * *
7841370 TCGCATTGCGAATTATGAAAA
1 TCGCATTGCGATTTACG-TAT
** * *
7841391 TCGCAACGCGA-ATACGTAAA
1 TCGCATTGCGATTTACGT-AT
* * * *
7841411 TCGCAATGCGAATTAGGAAAAT
1 TCGCATTGCGATTTACG--TAT
*
7841433 T-GCATTGCGATAGT-CAGTA-
1 TCGCATTGCGAT-TTAC-GTAT
* **
7841452 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACGTAT
*
7841473 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTACGTAT
7841493 TCGCATTGCGA
1 TCGCATTGCGA
7841504 ATTGGGAAAA
Statistics
Matches: 129, Mismatches: 33, Indels: 26
0.69 0.18 0.14
Matches are distributed among these distances:
19 4 0.03
20 73 0.57
21 48 0.37
22 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:7841394 original size:21 final size:21
Alignment explanation
Indices: 7841370--7841442 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
7841360 TTTTCCTAAT
* *
7841370 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
7841391 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
7841411 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
7841432 TTGCATTGCGA
1 TCGCAATGCGA
7841443 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:7841415 original size:41 final size:41
Alignment explanation
Indices: 7841370--7841545 Score: 117
Period size: 41 Copynumber: 4.3 Consensus size: 41
7841360 TTTTCCTAAT
*
7841370 TCGCATTGCGAATTATGAAAATCGCAACGCGAATACGTAAA
1 TCGCATTGCGAATTAGGAAAATCGCAACGCGAATACGTAAA
* * ** *
7841411 TCGCAATGCGAATTAGGAAAATTGCATTGCG-ATA-GTCAGTA
1 TCGCATTGCGAATTAGGAAAATCGCAACGCGAATACGT-A-AA
* *** * ** * * *
7841452 TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTAC-TTAT
1 TCGCATTGCGAATTAGGAAAATCGCAACGCGA-ATACGTAAA
* *
7841493 TCGCATTGCGAATTGGGAAAATCGCAACGCGAA-ACTGGAAAA
1 TCGCATTGCGAATTAGGAAAATCGCAACGCGAATAC--GTAAA
7841535 TCGCATTGCGA
1 TCGCATTGCGA
7841546 TAGTCATAAT
Statistics
Matches: 99, Mismatches: 28, Indels: 15
0.70 0.20 0.11
Matches are distributed among these distances:
39 4 0.04
40 4 0.04
41 76 0.77
42 12 0.12
43 3 0.03
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (41 bp):
TCGCATTGCGAATTAGGAAAATCGCAACGCGAATACGTAAA
Found at i:7841545 original size:21 final size:22
Alignment explanation
Indices: 7841493--7841545 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
7841483 ATTTACTTAT
*
7841493 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAACTGGGAAAA
**
7841514 TCGCAACGCGAAACT-GGAAAA
1 TCGCATTGCGAAACTGGGAAAA
7841535 TCGCATTGCGA
1 TCGCATTGCGA
7841546 TAGTCATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (22 bp):
TCGCATTGCGAAACTGGGAAAA
Found at i:7845798 original size:21 final size:21
Alignment explanation
Indices: 7845768--7845817 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
7845758 AACTTGAATT
*
7845768 GAACTTGATAATGTGAGAAAC
1 GAACTCGATAATGTGAGAAAC
**
7845789 GAACTCGATAATGTGAGAATT
1 GAACTCGATAATGTGAGAAAC
7845810 GAACTCGA
1 GAACTCGA
7845818 CCTGTATCTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (21 bp):
GAACTCGATAATGTGAGAAAC
Found at i:7866104 original size:40 final size:40
Alignment explanation
Indices: 7866060--7866148 Score: 160
Period size: 40 Copynumber: 2.2 Consensus size: 40
7866050 GCCCGATAAA
* *
7866060 GGCAAATTACAATAAAGCTGATTTTAGCTAGCCAGGCAAT
1 GGCAAATTACAATAAAGCTGATTTCACCTAGCCAGGCAAT
7866100 GGCAAATTACAATAAAGCTGATTTCACCTAGCCAGGCAAT
1 GGCAAATTACAATAAAGCTGATTTCACCTAGCCAGGCAAT
7866140 GGCAAATTA
1 GGCAAATTA
7866149 AATCAATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (40 bp):
GGCAAATTACAATAAAGCTGATTTCACCTAGCCAGGCAAT
Found at i:7868114 original size:42 final size:42
Alignment explanation
Indices: 7868019--7868402 Score: 360
Period size: 42 Copynumber: 9.0 Consensus size: 42
7868009 ATCAGTAAGT
* * * *
7868019 GCCATCAGTAAGTCTTTCGAGCATGATGATGAAGTACTTCAG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
7868061 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
** ** * * ** *
7868103 GTAATTTGTAAGCCTTCACCGAAG-A-GTAGTGAAGCAAATCCATCAGTAAG
1 GCCATCAGTAAGTCTT--TCG-AGCATG-A-TG-ATTAAATCCTTC-G---G
**
7868153 TATCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
1 -GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
* *
7868196 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAGTTCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
* * *
7868238 GCCATCAGTAAGTCTTTCGAGCATGATCATGAAGTCCTTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
* * * *
7868280 GCTATCAGTAAGTATTTCGAGCATGATGATTAAATCATTTGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
*
7868322 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCATTCGG
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
* *** * * *
7868364 GTCATTTTTGAGTCTTTCGAGCAAGAT-AATAAATCCTTC
1 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTC
7868403 AGGTCATCCA
Statistics
Matches: 282, Mismatches: 47, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
41 10 0.04
42 221 0.78
43 2 0.01
44 4 0.01
45 4 0.01
46 10 0.04
47 10 0.04
48 4 0.01
49 4 0.01
50 2 0.01
51 11 0.04
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (42 bp):
GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGG
Found at i:7868249 original size:135 final size:135
Alignment explanation
Indices: 7867913--7868354 Score: 505
Period size: 135 Copynumber: 3.3 Consensus size: 135
7867903 AGTAAACAAT
* * * * * *
7867913 TTAAGTCCTTTGGGCCATCAGTAAGGCTTTCGAACATGATGATTAAGTTTTTCAGGTAATTTGTA
1 TTAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAGTTCTTCGGGTAATTTGTA
* **
7867978 AGCCTTCATCGAAGAGTAGTGAAGCAAA-CCTATCAGTAAGTGCCATCAGTAAGTCTTTCGAGCA
66 AGCCTTCACCGAAGAGTAGTGAAGCAAATCC-ATCAGTAAGTATCATCAGTAAGTCTTTCGAGCA
7868042 TGATGA
130 TGATGA
* * * * * *
7868048 TGAAGTACTTCAGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTA
1 TTAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAGTTCTTCGGGTAATTTGTA
7868113 AGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGTATCATCAGTAAGTCTTTCGAGCAT
66 AGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGTATCATCAGTAAGTCTTTCGAGCAT
7868178 GATGA
131 GATGA
** **
7868183 TTAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAGTTCTTCGGGCCATCAGTA
1 TTAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAGTTCTTCGGGTAATTTGTA
* * * * ** *
7868248 AGTCTTTCGAGC-ATGA-TCA-TGAAG----TCCTTC-G---GGCT-ATCAGTAAGTATTTCGAG
66 AG-CCTTC-ACCGAAGAGT-AGTGAAGCAAATCCATCAGTAAGTATCATCAGTAAGTCTTTCGAG
7868301 CATGATGA
128 CATGATGA
* *
7868309 TTAAATCATTTGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAA
1 TTAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAA
7868355 ATCATTCGGG
Statistics
Matches: 271, Mismatches: 32, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
126 69 0.25
127 2 0.01
130 1 0.00
131 5 0.02
135 182 0.67
136 10 0.04
137 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (135 bp):
TTAAATCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAGTTCTTCGGGTAATTTGTA
AGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAGTAAGTATCATCAGTAAGTCTTTCGAGCAT
GATGA
Found at i:7868256 original size:20 final size:20
Alignment explanation
Indices: 7868191--7868340 Score: 76
Period size: 20 Copynumber: 7.2 Consensus size: 20
7868181 GATTAAATCC
7868191 TTCGGGCCATCAGTAAGTCT
1 TTCGGGCCATCAGTAAGTCT
* *
7868211 TTCGAG-CATGATGATTAAGT-T
1 TTCGGGCCATCA-G--TAAGTCT
7868232 CTTCGGGCCATCAGTAAGTCT
1 -TTCGGGCCATCAGTAAGTCT
* * *
7868253 TTCGAGCATGATCA-TGAAGTCC
1 TTCGGGC--CATCAGT-AAGTCT
* *
7868275 TTCGGGCTATCAGTAAGTAT
1 TTCGGGCCATCAGTAAGTCT
* * *
7868295 TTCGAG-CATGATGATTAAATCAT
1 TTCGGGCCATCA-G--TAAGTC-T
7868318 TT-GGGCCATCAGTAAGTCT
1 TTCGGGCCATCAGTAAGTCT
7868337 TTCG
1 TTCG
7868341 AGCATGATGA
Statistics
Matches: 95, Mismatches: 19, Indels: 32
0.65 0.13 0.22
Matches are distributed among these distances:
19 10 0.11
20 37 0.39
21 4 0.04
22 33 0.35
23 11 0.12
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (20 bp):
TTCGGGCCATCAGTAAGTCT
Found at i:7868969 original size:53 final size:53
Alignment explanation
Indices: 7868850--7869151 Score: 281
Period size: 53 Copynumber: 5.7 Consensus size: 53
7868840 ATCACACCAT
* * * ** *
7868850 AAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAAGG-A-GGA-CTATAGGCTG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAACGAACCCGTAGGCAG
* *
7868900 AATATTG-TCTGAGTTCTACTCCCTGAAGCAAGAGGGAACGAACTCGTAGGCAG
1 AAGATTGTTC-GAGTTCTACTCCCTGAAGCAAGAGGGAACGAACCCGTAGGCAG
* ** *
7868953 AAGATTGTTCGAGTTCTACTCTCTGAAGCAAGAGGGAGTGAACCCGTAGGTAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAACGAACCCGTAGGCAG
* * * * *
7869006 AAGATTGTTTGAGTTCTACCCCCTGAAGTAAGAGGGAGCGAACCCGTAAGCAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAACGAACCCGTAGGCAG
* * * * * * * ****
7869059 AAGATTATTCGAGTTCTACTTCCTGAAGAAATAGGGAGCAAACCCATTTTTAG
1 AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAACGAACCCGTAGGCAG
*
7869112 AAGATTGTTCGAGTTCCTTAATCCCTGAA-CAAGAGGGAAC
1 AAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGAAC
7869152 AGACCCATCG
Statistics
Matches: 206, Mismatches: 39, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.01
50 30 0.15
51 1 0.00
52 2 0.01
53 151 0.73
54 11 0.05
55 9 0.04
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (53 bp):
AAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAACGAACCCGTAGGCAG
Found at i:7873918 original size:2 final size:2
Alignment explanation
Indices: 7873911--7873958 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
7873901 TTCTATAGAA
*
7873911 AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7873953 AT AT AT
1 AT AT AT
7873959 TATGAGTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7912700 original size:15 final size:15
Alignment explanation
Indices: 7912680--7912708 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7912670 ATAAATTTTG
7912680 TCAGTACCTATTATA
1 TCAGTACCTATTATA
7912695 TCAGTACCTATTAT
1 TCAGTACCTATTAT
7912709 TTCTCAGGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (15 bp):
TCAGTACCTATTATA
Found at i:7913198 original size:34 final size:34
Alignment explanation
Indices: 7913159--7913265 Score: 151
Period size: 34 Copynumber: 3.1 Consensus size: 34
7913149 TAAGTTGAAA
* *
7913159 TTTAATGTTAAATTTCGAATACTATAATTTATAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
* *
7913193 TTTAATTTTAAATTTCGAATAATATTATTTTTAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
* * *
7913227 TTTTATTTTAAATTTTGAATAATATAATTTGTAT
1 TTTAATTTTAAATTTCGAATAATATAATTTATAT
7913261 TTTAA
1 TTTAA
7913266 AAACATTTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 64 1.00
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (34 bp):
TTTAATTTTAAATTTCGAATAATATAATTTATAT
Found at i:7913817 original size:21 final size:21
Alignment explanation
Indices: 7913786--7913900 Score: 162
Period size: 21 Copynumber: 5.5 Consensus size: 21
7913776 TATGGTATAA
* *
7913786 AACCCTACGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
7913807 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
7913828 AACCCTGCGGGCTCA-GAATGT
1 AACCCTGCGGGCT-AGGAATGT
*
7913849 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
7913870 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
7913891 AACCCTGCGG
1 AACCCTGCGG
7913901 AGATGGCATA
Statistics
Matches: 87, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
20 3 0.03
21 80 0.92
22 4 0.05
ACGTcount: A:0.22, C:0.28, G:0.32, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:7915740 original size:31 final size:33
Alignment explanation
Indices: 7915675--7915754 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
7915665 TTAATAATTC
* *
7915675 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATATTA-TTTAA
*
7915709 TAAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAAATAATAATTACATAAATATTATTTAA
*
7915740 TATAAAATATAATAA
1 TA-AAAAAATAATAA
7915755 CTATTTTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 6 0.15
32 10 0.25
33 2 0.05
34 22 0.55
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
TAAAAAAATAATAATTACATAAATATTATTTAA
Found at i:7916761 original size:31 final size:33
Alignment explanation
Indices: 7916696--7916775 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
7916686 TTAATAATTC
* *
7916696 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATATTA-TTTAA
*
7916730 TAAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAAATAATAATTACATAAATATTATTTAA
*
7916761 TATAAAATATAATAA
1 TA-AAAAAATAATAA
7916776 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 6 0.15
32 10 0.25
33 2 0.05
34 22 0.55
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
TAAAAAAATAATAATTACATAAATATTATTTAA
Done.