Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 709 of 770
Found at i:223874616 original size:42 final size:43
Alignment explanation
Indices: 223874402--223874605 Score: 353
Period size: 43 Copynumber: 4.8 Consensus size: 43
223874392 ATGAAACTCA
*
223874402 GTGATGTGTATTC-GGCCTTCGTGCCTAGCAGGCTTCGTGCC-
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
223874443 -TGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
223874485 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
*
223874528 GTGATATGCATTC-GGCCTTCGTGCCTAGCAGGCTTCGTGCCG
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
*
223874570 GTGATATGTATTCGGGTCTTCGTGCCTAGCAGGCTT
1 GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTT
223874606 AATGCGGTGA
Statistics
Matches: 155, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
40 11 0.07
41 28 0.18
42 41 0.26
43 75 0.48
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.31
Consensus pattern (43 bp):
GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCG
Found at i:223874834 original size:29 final size:28
Alignment explanation
Indices: 223874796--223874877 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
223874786 AAATTCCGTT
223874796 AACCGAGCACTATGTGTGCGAGATCAGT-
1 AACCGAGCACTATGTGTGCGAGATC-GTC
** * * *
223874824 AATTGAGGCACTGTGTGT-CGAGTTCTTC
1 AACCGA-GCACTATGTGTGCGAGATCGTC
223874852 AACCGAGCACTATGTGTGCGAGATCG
1 AACCGAGCACTATGTGTGCGAGATCG
223874878 GTCAGTGGGC
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
27 11 0.27
28 20 0.49
29 10 0.24
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (28 bp):
AACCGAGCACTATGTGTGCGAGATCGTC
Found at i:223888772 original size:2 final size:2
Alignment explanation
Indices: 223888765--223888794 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
223888755 GCACTTATGA
223888765 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
223888795 GGTATTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:223889444 original size:40 final size:40
Alignment explanation
Indices: 223889386--223889565 Score: 242
Period size: 40 Copynumber: 4.6 Consensus size: 40
223889376 ATTCGGATTG
*
223889386 ATAACC-GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
223889424 ATAACTGGGCCAAGTACCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
223889464 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
223889504 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
* **
223889544 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
223889566 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
38 5 0.04
39 22 0.17
40 100 0.79
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.21
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:223897040 original size:40 final size:39
Alignment explanation
Indices: 223896995--223897202 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 39
223896985 CGGAATACAA
*
223896995 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
223897035 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
223897075 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
223897115 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
223897155 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
223897195 CCGGATAT
1 CCGGATAT
223897203 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 4 0.03
40 134 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:223897135 original size:80 final size:80
Alignment explanation
Indices: 223896995--223897201 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
223896985 CGGAATACAA
* * *
223896995 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
223897059 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
223897075 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
223897139 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
223897155 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
223897202 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 102 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:223908044 original size:32 final size:32
Alignment explanation
Indices: 223908008--223908069 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
223907998 AGCTTTTGGT
223908008 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
223908040 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
223908070 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:223916257 original size:6 final size:6
Alignment explanation
Indices: 223916246--223916324 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
223916236 GGGATCACTA
223916246 ACTAAT ACTAAT -CTAAT -CT-A- ACTAAT ACTAAT -CTAAT ACTAAT
1 ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT ACTAAT
* *
223916289 A-GAAT A-GAAT ACTAAT -CTAAT ACTCTAAT ACTAAT A
1 ACTAAT ACTAAT ACTAAT ACTAAT A--CTAAT ACTAAT A
223916325 GAATAGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
4 3 0.05
5 27 0.43
6 27 0.43
8 6 0.10
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (6 bp):
ACTAAT
Found at i:223916268 original size:20 final size:21
Alignment explanation
Indices: 223916242--223916287 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
223916232 AGCCGGGATC
223916242 ACTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
223916263 -CTAACTAATACTAATCTAAT
1 ACTAACTAATACTAATCTAAT
223916283 ACTAA
1 ACTAA
223916288 TAGAATAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
ACTAACTAATACTAATCTAAT
Found at i:223916312 original size:11 final size:11
Alignment explanation
Indices: 223916242--223916288 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
223916232 AGCCGGGATC
223916242 ACTAA-CTAAT
1 ACTAATCTAAT
223916252 ACTAATCTAAT
1 ACTAATCTAAT
223916263 -CTAA-CTAAT
1 ACTAATCTAAT
223916272 ACTAATCTAAT
1 ACTAATCTAAT
223916283 ACTAAT
1 ACTAAT
223916289 AGAATAGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:223916338 original size:14 final size:14
Alignment explanation
Indices: 223916321--223916348 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
223916311 CTCTAATACT
223916321 AATAGAATAGAAAA
1 AATAGAATAGAAAA
223916335 AATAGAATAGAAAA
1 AATAGAATAGAAAA
223916349 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:223930300 original size:38 final size:39
Alignment explanation
Indices: 223930205--223930319 Score: 169
Period size: 38 Copynumber: 2.9 Consensus size: 39
223930195 AGTTGATTCC
* *
223930205 ACTCCCTCCATGCTACTTTGTTTTATTATTAATTAAAACT
1 ACTCCC-CCATACTATTTTGTTTTATTATTAATTAAAACT
*
223930245 ACTCCCCCATACTATTTTGTTTCATTATTAATTAAAACT
1 ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
* *
223930284 A-TTCCCCATACTATTTTGTTTTTTTATTAATTAAAA
1 ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAA
223930320 TCATACTTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
38 32 0.46
39 31 0.45
40 6 0.09
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (39 bp):
ACTCCCCCATACTATTTTGTTTTATTATTAATTAAAACT
Found at i:223930973 original size:22 final size:23
Alignment explanation
Indices: 223930925--223930981 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
223930915 CAACCCCTCT
**
223930925 AATACAATCTCTTCTCTCCCCAA
1 AATACAATCGATTCTCTCCCCAA
*
223930948 AATACAATCGATTCT-TCCTCAA
1 AATACAATCGATTCTCTCCCCAA
*
223930970 AATACCATCGAT
1 AATACAATCGAT
223930982 CCTCCCATCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.35, C:0.32, G:0.04, T:0.30
Consensus pattern (23 bp):
AATACAATCGATTCTCTCCCCAA
Found at i:223931446 original size:13 final size:13
Alignment explanation
Indices: 223931428--223931452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
223931418 GAGTTTTGAG
223931428 TTCTTCGATCTGC
1 TTCTTCGATCTGC
223931441 TTCTTCGATCTG
1 TTCTTCGATCTG
223931453 TTCCCTATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
TTCTTCGATCTGC
Found at i:223931499 original size:44 final size:43
Alignment explanation
Indices: 223931435--223931564 Score: 199
Period size: 44 Copynumber: 3.0 Consensus size: 43
223931425 GAGTTCTTCG
*
223931435 ATCTGCTTCTTCGA-TCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTTCTTCAACT-TGTTCCCTATAAACACAGGGATGCCAA
*
223931478 ATCTGCTGTCTTCAACTTGTTCTCTATAAACACAGGGATGCCAA
1 ATCTGCT-TCTTCAACTTGTTCCCTATAAACACAGGGATGCCAA
*
223931522 ATCTGCTATCTTCAACTTGTTCCCTATAAACACTGGGATGCCA
1 ATCTGCT-TCTTCAACTTGTTCCCTATAAACACAGGGATGCCA
223931565 TGTTGAAATC
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
43 7 0.09
44 72 0.90
45 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (43 bp):
ATCTGCTTCTTCAACTTGTTCCCTATAAACACAGGGATGCCAA
Found at i:223932024 original size:204 final size:203
Alignment explanation
Indices: 223931661--223932443 Score: 1304
Period size: 204 Copynumber: 3.8 Consensus size: 203
223931651 AAATCTATTT
* * * * * * * *
223931661 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATATTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
* * * * *
223931726 GCGAAAGCCAAATCAACTATG-ATTCGATTTGCTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
223931790 GGATCCGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAG--TAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
223931855 AGATGCCAAA
194 AGATGCCAAA
*
223931865 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTC-TCGTAATCA
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGC-TTCATCGTAATCA
*
223931929 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCT
223931994 TGGATCTGCTTCAGTAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
130 TGGATCTGCTTCAGTAAA-CATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
223932059 AGATGCCAAA
194 AGATGCCAAA
223932069 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
223932134 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
223932199 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGT-AAA-CATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
223932264 AGATGCCAAA
194 AGATGCCAAA
*
223932274 CTTCGATTCGTTCTCT-ACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAT
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
223932338 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
223932403 GGATCTGCTTCAGTATAACATCTGAAGGC-AGATCTGTTATG
131 GGATCTGCTTCAGTA-AACATCTGAAGGCGAGATCTGCTATG
223932444 CTGCGGCCTA
Statistics
Matches: 552, Mismatches: 21, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
202 11 0.02
203 19 0.03
204 393 0.71
205 129 0.23
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (203 bp):
CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTAAACATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
ATGCCAAA
Found at i:223944287 original size:22 final size:22
Alignment explanation
Indices: 223944236--223944296 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
223944226 ATAAGTAAAT
* *
223944236 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
223944257 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
223944279 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
223944297 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:223944371 original size:3 final size:3
Alignment explanation
Indices: 223944365--223944427 Score: 117
Period size: 3 Copynumber: 21.0 Consensus size: 3
223944355 TAATATATTA
*
223944365 AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
223944413 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
223944428 GATGATCTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:223944543 original size:16 final size:16
Alignment explanation
Indices: 223944522--223944553 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
223944512 TTATAATAAT
223944522 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
223944538 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
223944554 GTAACAATAG
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:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:223944686 original size:16 final size:15
Alignment explanation
Indices: 223944657--223944699 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
223944647 TATACGTATG
*
223944657 AAAAATAATGATAGT
1 AAAAATAATAATAGT
223944672 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
223944688 AATAATAATAAT
1 AAAAATAATAAT
223944700 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:223944802 original size:3 final size:3
Alignment explanation
Indices: 223944794--223944826 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
223944784 ACACTACCAT
223944794 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
223944827 TAGAAATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:223944928 original size:3 final size:3
Alignment explanation
Indices: 223944920--223944954 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
223944910 AAATATACAC
223944920 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
223944955 TTAAAATGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:223945450 original size:31 final size:30
Alignment explanation
Indices: 223945412--223945489 Score: 115
Period size: 28 Copynumber: 2.6 Consensus size: 30
223945402 GATTTTTTGT
223945412 TCTTGAATCTCAAAAAAAAAGAAAAATCCCC
1 TCTTGAATCTCAAAAAAAAA-AAAAATCCCC
* *
223945443 TCTTGAATCTC--AAAAAAAAAAAATCTCT
1 TCTTGAATCTCAAAAAAAAAAAAAATCCCC
223945471 TCTTGAATCTCAAAAAAAA
1 TCTTGAATCTCAAAAAAAA
223945490 TTCTTCTCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
28 19 0.44
29 7 0.16
30 6 0.14
31 11 0.26
ACGTcount: A:0.51, C:0.19, G:0.05, T:0.24
Consensus pattern (30 bp):
TCTTGAATCTCAAAAAAAAAAAAAATCCCC
Found at i:223946378 original size:205 final size:205
Alignment explanation
Indices: 223946012--223946801 Score: 1255
Period size: 205 Copynumber: 3.9 Consensus size: 205
223946002 AGATTTATTT
* * * *** * * * *
223946012 CTTCGATTTGATCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAT
1 CTTCGATTCGTTCTCTGACAATACAGAGACAACAAATCATCTTAGATTTGCTTCATCGTAATCAC
** * * * * *
223946077 GCGAAAGCCAAATCAACTATG-ATTCGATTTGTTCCTTGTAAGCATAAGGATGCCAATCCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
223946141 GGATCCGTTTCAGCATAAACATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
223946206 AGATGCCAAA
196 AGATGCCAAA
*
223946216 CTTCGATTCGTTCTCTGACAATACAGAGACAACAAATTATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACAACAAATCATCTTAGATTTGCTTCATCGTAATCAC
223946281 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
223946346 GGATCTGCTTCAGCGA-AATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
131 GGATCCGCTTCAGC-ATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
223946410 AAGATGCCAAA
195 AAGATGCCAAA
* * *
223946421 CTTCGATTCGTTCTCTGACGATACAGAGACAACAAATCATCTTAGATTTGCCTCATCCTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACAACAAATCATCTTAGATTTGCTTCATCGTAATCAC
223946486 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
223946551 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
223946616 AGATGCCAAA
196 AGATGCCAAA
* *
223946626 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACAACAAATCATCTTAGATTTGCTTCATCGTAATCAC
223946691 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
223946756 GGATCTGCTTCAG--TGAAATCGTCTGAAGGCGAGATCTGCTATGTGT
131 GGATCCGCTTCAGCAT-AAA-CATCTGAAGGTGAGATCTGCTATGTGT
223946802 GGCCTATTAC
Statistics
Matches: 547, Mismatches: 34, Indels: 9
0.93 0.06 0.02
Matches are distributed among these distances:
203 1 0.00
204 76 0.14
205 469 0.86
206 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (205 bp):
CTTCGATTCGTTCTCTGACAATACAGAGACAACAAATCATCTTAGATTTGCTTCATCGTAATCAC
ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
AGATGCCAAA
Found at i:223954396 original size:40 final size:40
Alignment explanation
Indices: 223954317--223954454 Score: 183
Period size: 39 Copynumber: 3.5 Consensus size: 40
223954307 GGATATAACG
* *
223954317 ACTCGCTCAAATGCCTTCGGGAC-AAACCC-GGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGGTT-TAGTA
*
223954356 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGGTTTAGTA
* *
223954396 ACTCGCACAAATGCCTTCGGG-CTTAACCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGGTTTAGTA
* *
223954435 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
223954455 ATCTTAGTCC
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 55 0.62
40 30 0.34
41 4 0.04
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCGGGTTTAGTA
Found at i:223962333 original size:39 final size:38
Alignment explanation
Indices: 223962290--223962426 Score: 179
Period size: 39 Copynumber: 3.5 Consensus size: 38
223962280 GGATATAACG
*
223962290 ACTCGCTCAAATGCCTTCGGGAC-AAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTAA-CCCGGTT-TAGTA
*
223962329 ACTCGCACGAATGCCTTCGGGACTTAACCCGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGAC-TAACCCGGTTTAGTA
*
223962368 ACTCGCACAAATGCCTTCGGG-CTTAACCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGAC-TAACCCGG-TTTAGTA
*
223962407 ACTCGCACGAATGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
223962427 ATCTTAGTCC
Statistics
Matches: 90, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
38 10 0.11
39 71 0.79
40 7 0.08
41 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (38 bp):
ACTCGCACAAATGCCTTCGGGACTAACCCGGTTTAGTA
Found at i:223962462 original size:78 final size:79
Alignment explanation
Indices: 223962297--223962478 Score: 207
Period size: 78 Copynumber: 2.3 Consensus size: 79
223962287 ACGACTCGCT
*
223962297 CAAATGCCTTCGGGAC--AAGCCCGG-TTATAGTAACTCGCACGAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAA-CCCGGATT-TATTAACTCGCACGAATGCCTTCGGGACTTAACCC
* *
223962359 GGTTTAGTAACTCGCA
64 GGTATAGTAACTAGCA
**
223962375 CAAATGCCTTCGGG-CTTAACCCGGATTTATTAACTCGCACGAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAACCCGGATTTATTAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
*
223962438 G-ATATGTCACTTAGCA
65 GTATA-GTAAC-TAGCA
*
223962454 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
223962479 CATCATTCAA
Statistics
Matches: 90, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
77 6 0.07
78 62 0.69
79 22 0.24
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTATTAACTCGCACGAATGCCTTCGGGACTTAACCCGG
TATAGTAACTAGCA
Found at i:223970354 original size:40 final size:40
Alignment explanation
Indices: 223970273--223970463 Score: 221
Period size: 40 Copynumber: 4.8 Consensus size: 40
223970263 GGATATAACG
* *
223970273 ACTCGCTCAAATGCCTTCGGGAC-AAGCCCGG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* * *
223970312 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
223970352 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
223970391 ACTCGCACGAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
*
223970431 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
223970464 CATCATTCAA
Statistics
Matches: 130, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 53 0.41
40 63 0.48
41 12 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:223970380 original size:79 final size:80
Alignment explanation
Indices: 223970247--223970463 Score: 241
Period size: 79 Copynumber: 2.8 Consensus size: 80
223970237 GAATCACGTA
*** * *
223970247 CCTTCGGAAT-TTAA-CCGGATATAACGACTCGCTCAAATGCCTTCGGGAC-AAGCCCGG-TTAT
1 CCTTCGG-ATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-T
223970308 AGTAACTCGCACGAATG
64 AGTAACTCGCACGAATG
* *
223970325 CCTTCGGGA-CTTAACCCGGGTTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTA
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
*
223970388 TTAACTCGCACGAATG
65 GTAACTCGCACGAATG
** * *
223970404 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAACCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
223970464 CATCATTCAA
Statistics
Matches: 117, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
78 14 0.12
79 82 0.70
80 21 0.18
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAG
TAACTCGCACGAATG
Found at i:223979185 original size:37 final size:37
Alignment explanation
Indices: 223979135--223979225 Score: 173
Period size: 37 Copynumber: 2.4 Consensus size: 37
223979125 TTATTACGAA
223979135 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
223979172 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
223979209 GTCTTACCCGGAACATA
1 GTCTTACCCGG-ACATA
223979226 TTTCCAAGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 48 0.91
38 5 0.09
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:223979323 original size:48 final size:48
Alignment explanation
Indices: 223979265--223979464 Score: 355
Period size: 48 Copynumber: 4.2 Consensus size: 48
223979255 TGTTACAACA
*
223979265 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
223979313 TTCACATTAGCCATTCGGCTTTACTACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
223979361 TCCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
223979409 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
223979457 TTCACATT
1 TTCACATT
223979465 CATCACATCG
Statistics
Matches: 144, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 144 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:223979511 original size:18 final size:18
Alignment explanation
Indices: 223979480--223979515 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
223979470 CATCGGCCAT
*
223979480 TAGGCCTTATCACATATA
1 TAGGCCTTACCACATATA
*
223979498 TAGGCTTTACCACATATA
1 TAGGCCTTACCACATATA
223979516 CATATCACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
TAGGCCTTACCACATATA
Found at i:223979521 original size:123 final size:123
Alignment explanation
Indices: 223979377--223979619 Score: 468
Period size: 123 Copynumber: 2.0 Consensus size: 123
223979367 TTAGCCCTTC
223979377 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
*
223979442 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ATATCACACATATATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
223979500 GGCTTTACCACATATACATATCACACATATGTTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
223979565 ATATCACACATATATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
66 ATATCACACATATATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
223979620 GTGACAACCC
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 118 1.00
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (123 bp):
GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ATATCACACATATATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:223979594 original size:57 final size:57
Alignment explanation
Indices: 223979410--223979619 Score: 179
Period size: 57 Copynumber: 3.5 Consensus size: 57
223979400 CACATATATT
* * * *
223979410 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGTTTCACATTCA
1 TCACATCAGCCATTAGGCCTTACCACATATACATATCACACATATATTTCACATTCA
* * * * *
223979467 TCACATCGGCCATTAGGCCTTATCACATATATAGGCT-TTACCACATATACATATCACACATATG
1 TCACATCAGCCATTAGGCCTTACCACATATACA---TATCA-CACATAT--AT-T-TCACAT-T-
**
223979531 TT
56 CA
* * *
223979533 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCACATTCA
1 TCACATCAGCCATTAGGCCTTACCACATATACATATCACACATATATTTCACATTCA
* *
223979590 TCACATCGGCCATTAGGCCTTATCACATAT
1 TCACATCAGCCATTAGGCCTTACCACATAT
223979620 GTGACAACCC
Statistics
Matches: 116, Mismatches: 26, Indels: 22
0.71 0.16 0.13
Matches are distributed among these distances:
57 52 0.45
58 1 0.01
59 7 0.06
60 9 0.08
61 2 0.02
62 1 0.01
63 9 0.08
64 7 0.06
65 1 0.01
66 27 0.23
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.32
Consensus pattern (57 bp):
TCACATCAGCCATTAGGCCTTACCACATATACATATCACACATATATTTCACATTCA
Found at i:223985809 original size:40 final size:40
Alignment explanation
Indices: 223985764--223985930 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
223985754 CGGAATATAA
223985764 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
223985804 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
223985844 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
223985884 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
223985923 CCGGATAT
1 CCGGATAT
223985931 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:223993814 original size:40 final size:40
Alignment explanation
Indices: 223993769--223993935 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
223993759 CGGAATATAA
223993769 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
223993809 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
223993849 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
223993889 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
223993928 CCGGATAT
1 CCGGATAT
223993936 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:223999699 original size:41 final size:41
Alignment explanation
Indices: 223999654--223999771 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
223999644 TGAAAGATAA
223999654 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
223999695 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
223999725 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
223999766 ATGTAG
1 ATGTAG
223999772 ACAGAGAGCT
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:223999749 original size:71 final size:70
Alignment explanation
Indices: 223999627--223999784 Score: 307
Period size: 71 Copynumber: 2.2 Consensus size: 70
223999617 AGACAAGAGA
223999627 GTAGACAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGAC
1 GTAGACAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGAC
223999692 ACCAT
66 ACCAT
223999697 GTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGA
1 GTAGAC-AGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGA
223999762 CACCAT
65 CACCAT
223999768 GTAGACAGAGAGCTACG
1 GTAGACAGAGAGCTACG
223999785 AGACAAATCG
Statistics
Matches: 87, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
70 17 0.20
71 70 0.80
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (70 bp):
GTAGACAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGAC
ACCAT
Found at i:224001269 original size:50 final size:49
Alignment explanation
Indices: 224001093--224001345 Score: 406
Period size: 50 Copynumber: 5.2 Consensus size: 49
224001083 GGGTGTTACA
* *
224001093 ACATATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 ACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATC
*
224001142 AC--ATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTATC
1 ACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATC
*
224001189 ACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATC
1 ACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATC
224001238 AACATATATATACACTTTCACATTCATCACATTGGCCATTAGG-CTTATC
1 -ACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATC
*
224001287 ACATATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCGTA-C
1 AC--ATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATC
224001337 ACATATATA
1 ACATATATA
224001346 CATCTCATAN
Statistics
Matches: 191, Mismatches: 7, Indels: 13
0.91 0.03 0.06
Matches are distributed among these distances:
47 44 0.23
48 9 0.05
49 51 0.27
50 84 0.44
51 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (49 bp):
ACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATC
Found at i:224004101 original size:40 final size:40
Alignment explanation
Indices: 224004035--224004201 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
224004025 AAATTGAATG
* * *
224004035 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
224004074 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
224004114 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
224004154 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
224004194 ATATCCGG
1 ATATCCGG
224004202 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:224010416 original size:40 final size:40
Alignment explanation
Indices: 224010357--224010525 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
224010347 CGGGACTTTA
* * *
224010357 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
224010397 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
224010437 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
224010477 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
224010517 CCCGGATAT
1 CCCGGATAT
224010526 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:224018428 original size:40 final size:40
Alignment explanation
Indices: 224018360--224018537 Score: 175
Period size: 40 Copynumber: 4.5 Consensus size: 40
224018350 ACCAAGGCCA
* * * *
224018360 CGGGACTTA-CCCGGATATCACGATTTGCACAAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* *
224018399 CGGGTCTTAGCCCGGATTTAACAACTTGCACGAATGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * * *
224018439 CGGGTCTTAGCCCGGATATAGCTACTAGCACAATTGCCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
* * *
224018479 CGGGTCTTAACCCGGATAT-A-AA-TTTCAGCATAATTGTCTT
1 CGGGTCTTAGCCCGGATATAACAACTTGCA-CA-AA-TGCCTT
*
224018519 CGGGGCTTAGCCCGGATAT
1 CGGGTCTTAGCCCGGATAT
224018538 CATTCAATTT
Statistics
Matches: 114, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 9 0.08
40 99 0.87
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CGGGTCTTAGCCCGGATATAACAACTTGCACAAATGCCTT
Found at i:224024109 original size:40 final size:40
Alignment explanation
Indices: 224024016--224024232 Score: 309
Period size: 40 Copynumber: 5.5 Consensus size: 40
224024006 AAGCCAAGTA
* * *
224024016 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
224024054 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
224024094 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
224024134 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
224024174 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAG-AGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA-CAAATG
224024214 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
224024233 TTATCATCCA
Statistics
Matches: 166, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
38 12 0.07
39 19 0.11
40 135 0.81
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:224029621 original size:49 final size:49
Alignment explanation
Indices: 224029553--224029675 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
224029543 TACATATATG
*
224029553 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
224029602 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
*
224029651 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATGAGGCCTAATGGCCGATGT
224029676 AAAATATATG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTACGTATA
Found at i:224029821 original size:37 final size:37
Alignment explanation
Indices: 224029778--224029855 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
224029768 GTTCCGGGCG
224029778 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
224029815 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
224029852 AGAC
1 AGAC
224029856 TTCTTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
Found at i:224031298 original size:33 final size:34
Alignment explanation
Indices: 224031218--224031305 Score: 85
Period size: 33 Copynumber: 2.6 Consensus size: 34
224031208 GTCTCAGTTA
* * *
224031218 GGGCCTTAGCCCATTTTAGTAACAGTAATAGTCT
1 GGGCCTAAGCCCATTTCAGTAACAGTAATAGTCG
*
224031252 GGGCC-AGAG-CCATTTCAGTAGCAGT-ATCAGT-G
1 GGGCCTA-AGCCCATTTCAGTAACAGTAAT-AGTCG
224031284 GGGCCTAAGCCCATTTACAGTA
1 GGGCCTAAGCCCATTT-CAGTA
224031306 TTAGTACAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
32 9 0.20
33 24 0.53
34 12 0.27
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (34 bp):
GGGCCTAAGCCCATTTCAGTAACAGTAATAGTCG
Found at i:224047046 original size:16 final size:16
Alignment explanation
Indices: 224047027--224047062 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
224047017 GGTAAAAGCC
224047027 GAAATACTGAAAAACT
1 GAAATACTGAAAAACT
*
224047043 GAAATGCTGAAAAACT
1 GAAATACTGAAAAACT
224047059 GAAA
1 GAAA
224047063 GTTTGGCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.11, G:0.17, T:0.17
Consensus pattern (16 bp):
GAAATACTGAAAAACT
Found at i:224047336 original size:29 final size:29
Alignment explanation
Indices: 224047267--224047406 Score: 135
Period size: 29 Copynumber: 4.9 Consensus size: 29
224047257 ATAATATGAT
* *
224047267 TTGGGCCGGATGGGCCATA-GAA-ATGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA-A
*
224047295 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTGATGGGCCATATGAATGTGAA
* * *
224047324 TTGGGCCTGATGGGTCATTTGAACGTGAA
1 TTGGGCCTGATGGGCCATATGAATGTGAA
* * *
224047353 TTGGGCCAGATGGGCCATATAAATGAG-A
1 TTGGGCCTGATGGGCCATATGAATGTGAA
* *
224047381 TTGGGCAT-AGTGGGCCATATGCATGT
1 TTGGGCCTGA-TGGGCCATATGAATGT
224047407 ATGTAGGGGT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
27 1 0.01
28 37 0.41
29 50 0.55
30 3 0.03
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.26
Consensus pattern (29 bp):
TTGGGCCTGATGGGCCATATGAATGTGAA
Found at i:224047400 original size:28 final size:29
Alignment explanation
Indices: 224047267--224047400 Score: 127
Period size: 28 Copynumber: 4.7 Consensus size: 29
224047257 ATAATATGAT
* *
224047267 TTGGGCC-GGATGGGCCATAGAAATGAGA
1 TTGGGCCTAGATGGGCCATATAAATGAGA
* *
224047295 TTGGGCCTA-ATGGGCCATATGAATGTGAA
1 TTGGGCCTAGATGGGCCATATAAATGAG-A
* * *
224047324 TTGGGCCT-GATGGGTCATTTGAACGTGA-A
1 TTGGGCCTAGATGGGCCATAT-AA-ATGAGA
224047353 TTGGGCC-AGATGGGCCATATAAATGAGA
1 TTGGGCCTAGATGGGCCATATAAATGAGA
*
224047381 TTGGGCATAG-TGGGCCATAT
1 TTGGGCCTAGATGGGCCATAT
224047401 GCATGTATGT
Statistics
Matches: 85, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
27 3 0.04
28 41 0.48
29 38 0.45
30 1 0.01
31 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAGATGGGCCATATAAATGAGA
Found at i:224056799 original size:40 final size:40
Alignment explanation
Indices: 224056744--224056953 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
224056734 AACATTGGAA
224056744 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
224056784 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
224056824 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
224056864 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
224056903 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
224056944 CTATATCCGG
1 ATATATCCGG
224056954 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:224063976 original size:28 final size:27
Alignment explanation
Indices: 224063913--224063982 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
224063903 ATAGTGAGTC
224063913 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
224063940 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
224063968 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
224063983 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:224071892 original size:28 final size:27
Alignment explanation
Indices: 224071829--224071898 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
224071819 ATAGTGAGTC
* *
224071829 CGCACGCTTAGTGCAATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
224071856 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
224071884 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
224071899 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:224072616 original size:12 final size:12
Alignment explanation
Indices: 224072599--224072623 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
224072589 GCCGTGAATG
224072599 GAAAAAAAAAAA
1 GAAAAAAAAAAA
224072611 GAAAAAAAAAAA
1 GAAAAAAAAAAA
224072623 G
1 G
224072624 TTCATCCTTT
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
GAAAAAAAAAAA
Found at i:224074348 original size:49 final size:49
Alignment explanation
Indices: 224074292--224074550 Score: 429
Period size: 49 Copynumber: 5.4 Consensus size: 49
224074282 TACATATATG
* * * *
224074292 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
224074341 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG--TA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
224074388 TGTG-TGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
224074436 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
224074485 -GTGAT-AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
224074532 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
224074551 TAATGTAAAA
Statistics
Matches: 199, Mismatches: 6, Indels: 10
0.93 0.03 0.05
Matches are distributed among these distances:
46 38 0.19
47 48 0.24
48 16 0.08
49 97 0.49
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:224074467 original size:95 final size:96
Alignment explanation
Indices: 224074293--224074550 Score: 439
Period size: 95 Copynumber: 2.7 Consensus size: 96
224074283 ACATATATGT
* * * *
224074293 GTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATG
1 GTGAT-AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATG
224074358 GCCGATGTGATGAATGTGAAAGTGTATGTAT-
65 GCCGATGTGATGAATGTGAAAGTGTATGTATA
224074389 GTG-TGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATG
1 GTGAT-AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATG
*
224074453 GCCGATGTGGTGAATGTGAAAGTGTATGTATA
65 GCCGATGTGATGAATGTGAAAGTGTATGTATA
224074485 GTGATAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGG
1 GTGATAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGG
224074550 C
66 C
224074551 TAATGTAAAA
Statistics
Matches: 154, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
95 86 0.56
96 67 0.44
97 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (96 bp):
GTGATAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:224074605 original size:144 final size:143
Alignment explanation
Indices: 224074287--224074606 Score: 387
Period size: 144 Copynumber: 2.2 Consensus size: 143
224074277 TGATATACAT
*
224074287 ATATGTGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGC
1 ATATGTG-G-TAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGC
* * ***
224074352 CTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGTGTGAGGCCTAATGGCCGATGTGGTGA
64 CTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGTGTAAGGCCTAATGGCCAATGTGAAAA
* *
224074417 ATGTGAAAGTGTATGT
129 ATCTG-AAGTGTATGC
* * * *
224074433 ATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA-GTGAT-AGGCCT
1 ATATGTGGTAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCT
* *
224074496 AATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCTAATGT-AAA
66 AATGGCCGATGTGATGAATGTGAAAGTGTATG--TATGTG-TAAGGCCTAATGGCCAATGTGAAA
*
224074560 ATATCTG-TGTGATATGC
128 A-ATCTGAAGTG-TATGC
* *
224074577 ATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATATGTGGTAAGGCCGAATGGCCAATGTGA
224074607 ATGTTGTAAC
Statistics
Matches: 148, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
142 37 0.25
143 8 0.05
144 75 0.51
145 21 0.14
146 7 0.05
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (143 bp):
ATATGTGGTAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTATGTATGTGTAAGGCCTAATGGCCAATGTGAAAAAT
CTGAAGTGTATGC
Found at i:224074749 original size:37 final size:37
Alignment explanation
Indices: 224074652--224074771 Score: 208
Period size: 36 Copynumber: 3.3 Consensus size: 37
224074642 GGAATATGTT
*
224074652 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
224074689 CCGGGTAAGA-CCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
224074725 CCGGGTAAGACCCGATGACTACGTGT-GAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
224074761 CCGGGTAAGAC
1 CCGGGTAAGAC
224074772 TTCTTTTATA
Statistics
Matches: 80, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
36 56 0.70
37 24 0.30
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:224082848 original size:40 final size:40
Alignment explanation
Indices: 224082804--224082989 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
224082794 GCTACTCTTT
*
224082804 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
224082844 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
224082884 CAAATGCCTTC-GGATCTTAGTCTGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* ** * * * *
224082924 TAAATGCCTTC-GGATCTTATTCCGGATATAATCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
224082965 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
224082990 CATTATTCGA
Statistics
Matches: 126, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 111 0.88
41 12 0.10
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:224086281 original size:28 final size:28
Alignment explanation
Indices: 224086249--224086302 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
224086239 GCAGCAGCAT
* * *
224086249 AGTGTGGGCCTTAGCCCAATATAGTAAC
1 AGTGTAGGCCTAAGCCCAATACAGTAAC
224086277 AGTGTAGGCCTAAGCCCAATACAGTA
1 AGTGTAGGCCTAAGCCCAATACAGTA
224086303 TCAGAATCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.22
Consensus pattern (28 bp):
AGTGTAGGCCTAAGCCCAATACAGTAAC
Found at i:224086381 original size:8 final size:8
Alignment explanation
Indices: 224086368--224086397 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
224086358 GTAACAGAAA
224086368 TGCAATAG
1 TGCAATAG
224086376 TGCAATAG
1 TGCAATAG
*
224086384 TGCAATAA
1 TGCAATAG
224086392 TGCAAT
1 TGCAAT
224086398 CCATCCCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (8 bp):
TGCAATAG
Found at i:224087137 original size:27 final size:26
Alignment explanation
Indices: 224087109--224087325 Score: 193
Period size: 27 Copynumber: 8.1 Consensus size: 26
224087099 GTTTTACCCT
*
224087109 ACAGGGGTATTTCGGTAATTTTACACT
1 ACAGGGGTATTTCGGTAATTTTACA-A
** *
224087136 ACAAAGGTATATCGGTAATTTTACAA
1 ACAGGGGTATTTCGGTAATTTTACAA
* *
224087162 ACCAGGGGTATTTTGGTAATTTTATAA
1 A-CAGGGGTATTTCGGTAATTTTACAA
* *
224087189 ACTAAGGGTATTTTGGTAATTTTACAA
1 AC-AGGGGTATTTCGGTAATTTTACAA
* * * ***
224087216 TCTGAGGGTTTTTCAAAAATTTTACAA
1 ACAG-GGGTATTTCGGTAATTTTACAA
* *
224087243 ACTGGAGGTATTTCGATAATTTTACAA
1 ACAGG-GGTATTTCGGTAATTTTACAA
* *
224087270 ACTGAGGGTATTTCAGTAATTTTACAA
1 ACAG-GGGTATTTCGGTAATTTTACAA
224087297 ATC-GGGAGTATTTCGGTAATTTTACAA
1 A-CAGGG-GTATTTCGGTAATTTTACAA
224087324 AC
1 AC
224087326 TAGAGATATG
Statistics
Matches: 157, Mismatches: 26, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
26 6 0.04
27 149 0.95
28 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (26 bp):
ACAGGGGTATTTCGGTAATTTTACAA
Found at i:224087318 original size:81 final size:80
Alignment explanation
Indices: 224087113--224087326 Score: 218
Period size: 81 Copynumber: 2.6 Consensus size: 80
224087103 TACCCTACAG
* * * * * * *
224087113 GGGTATTTCGGTAATTTTACACTAC-AAAGGTATATCGGTAATTTTACAAACCAGGGGTATTTTG
1 GGGTATTTCAGTAATTTTACAAT-CTGAGGGTATTTCGGTAATTTTACAAA-CTGGGGTATTTCG
* *
224087177 GTAATTTTATAAACTAA
64 ATAATTTTACAAACTAA
** * ***
224087194 GGGTATTTTGGTAATTTTACAATCTGAGGGTTTTTCAAAAATTTTACAAACTGGAGGTATTTCGA
1 GGGTATTTCAGTAATTTTACAATCTGAGGGTATTTCGGTAATTTTACAAACTGG-GGTATTTCGA
*
224087259 TAATTTTACAAACTGA
65 TAATTTTACAAACTAA
224087275 GGGTATTTCAGTAATTTTACAAATC-G-GGAGTATTTCGGTAATTTTACAAACT
1 GGGTATTTCAGTAATTTTAC-AATCTGAGG-GTATTTCGGTAATTTTACAAACT
224087327 AGAGATATGT
Statistics
Matches: 109, Mismatches: 20, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
80 6 0.06
81 99 0.91
82 4 0.04
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (80 bp):
GGGTATTTCAGTAATTTTACAATCTGAGGGTATTTCGGTAATTTTACAAACTGGGGTATTTCGAT
AATTTTACAAACTAA
Found at i:224093423 original size:24 final size:24
Alignment explanation
Indices: 224093391--224093451 Score: 122
Period size: 24 Copynumber: 2.5 Consensus size: 24
224093381 AATCTCAAAT
224093391 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
224093415 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
224093439 GCACTATGTGTGC
1 GCACTATGTGTGC
224093452 AAACATAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:224106221 original size:18 final size:20
Alignment explanation
Indices: 224106177--224106221 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
224106167 AGCAATAAGC
224106177 TATTAATT-TAATATAAATG
1 TATTAATTATAATATAAATG
*
224106196 TGTT-ATTATAA-ATAAAT-
1 TATTAATTATAATATAAATG
224106213 TATTAATTA
1 TATTAATTA
224106222 ATTTTAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 3 0.14
18 13 0.59
19 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (20 bp):
TATTAATTATAATATAAATG
Found at i:224107914 original size:43 final size:43
Alignment explanation
Indices: 224107858--224108045 Score: 189
Period size: 43 Copynumber: 4.4 Consensus size: 43
224107848 CATTTTTTAG
* * * *
224107858 AAAAAAACGCCGCTAAAGACCACGATCTTTCGCGGCGTTTTTT
1 AAAAAAGCGCCGCTAAAGACCACGACCTTTAGCGGCGTCTTTT
* ** * *
224107901 ATAAAAGCGCCGCTAAAGACCACGATATTTAGTGGCGTCCTTT
1 AAAAAAGCGCCGCTAAAGACCACGACCTTTAGCGGCGTCTTTT
* * * * *
224107944 ATAAAAGCGTCGCTGAAGACCAAGACCTTTAGCGGCG-CTCTT
1 AAAAAAGCGCCGCTAAAGACCACGACCTTTAGCGGCGTCTTTT
* * * * *
224107986 AAAAAAACGCCGCCAAAGACCAGGACCTATAGCGGCGTTTTTT
1 AAAAAAGCGCCGCTAAAGACCACGACCTTTAGCGGCGTCTTTT
*
224108029 AAAAAAGTGCCGCTAAA
1 AAAAAAGCGCCGCTAAA
224108046 AGTACAGGTC
Statistics
Matches: 117, Mismatches: 27, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
42 33 0.28
43 84 0.72
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (43 bp):
AAAAAAGCGCCGCTAAAGACCACGACCTTTAGCGGCGTCTTTT
Found at i:224108095 original size:128 final size:129
Alignment explanation
Indices: 224107858--224108127 Score: 307
Period size: 128 Copynumber: 2.1 Consensus size: 129
224107848 CATTTTTTAG
* * * * *
224107858 AAAAAAACGCCGCTAAAGACCACGATCTTTCGCGGCGTTTTTTATAAAAGCGCCGCTAAAGACCA
1 AAAAAAACGCCGCCAAAGACCACGACCTATAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGACCA
* * *
224107923 CGATATTTAGTGGCGTCCTTTATAAAAGCGTCGCTGAAGACCAAGACCTTTAGCGGCG-CTCTT
66 CGATATATAGTGGCGTCCTTTATAAAAACGTCGCTGAAGACCAAGAACTTTAGCGGCGCCTCTT
* *
224107986 AAAAAAACGCCGCCAAAGACCAGGACCTATAGCGGCGTTTTTTAAAAAAGTGCCGCTAAAAGTA-
1 AAAAAAACGCCGCCAAAGACCACGACCTATAGCGGCGTTTTTTAAAAAAGCGCCGCT-AAAG-AC
* * * * * *
224108050 CA-GGTCTATAGTGGTGT-TTTTCTAAAAAACGTCGCT-ATAGGCCAAGAACTTTAGCGGCGCCT
64 CACGATATATAGTGGCGTCCTTTAT-AAAAACGTCGCTGA-AGACCAAGAACTTTAGCGGCGCCT
*
224108112 TTT
127 CTT
*
224108115 TAAAAAACGCCGC
1 AAAAAAACGCCGC
224108128 TATAGACCTG
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
127 5 0.04
128 91 0.76
129 22 0.18
130 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (129 bp):
AAAAAAACGCCGCCAAAGACCACGACCTATAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGACCA
CGATATATAGTGGCGTCCTTTATAAAAACGTCGCTGAAGACCAAGAACTTTAGCGGCGCCTCTT
Found at i:224108172 original size:73 final size:73
Alignment explanation
Indices: 224108083--224108218 Score: 220
Period size: 73 Copynumber: 1.9 Consensus size: 73
224108073 AAAAAACGTC
* * *
224108083 GCTATAGGCCAAGAACTTTAGCGGCGCCTT-TTTAAAAAACGCCGCTATAGACCTGTACTTTTAC
1 GCTATAGACCAAGAACTTTAGCGGCG-CTTCTGTAAAAAACGCCGCTATAGACCTATACTTTTAC
224108147 AAAAGCGCT
65 AAAAGCGCT
*
224108156 GCTATAGACGAAGAACTTTAGCGGCGCTTCTGTAAAAAACGCCGCTATAGACCTATACTTTTA
1 GCTATAGACCAAGAACTTTAGCGGCGCTTCTGTAAAAAACGCCGCTATAGACCTATACTTTTA
224108219 GCGGCACTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
72 3 0.05
73 55 0.95
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (73 bp):
GCTATAGACCAAGAACTTTAGCGGCGCTTCTGTAAAAAACGCCGCTATAGACCTATACTTTTACA
AAAGCGCT
Found at i:224108219 original size:43 final size:43
Alignment explanation
Indices: 224108172--224108333 Score: 218
Period size: 44 Copynumber: 3.7 Consensus size: 43
224108162 GACGAAGAAC
*
224108172 TTTAGCGGCGCTTCTGTAAAAAACGCCGCTATAGACCTATACT
1 TTTAGCGGCGCTTTTGTAAAAAACGCCGCTATAGACCTATACT
* *
224108215 TTTAGCGGCACTTTTGTAGAAAAATGCCGCTATAGACCTATACT
1 TTTAGCGGCGCTTTTGTA-AAAAACGCCGCTATAGACCTATACT
* * *
224108259 TTTAGCGGCGCTTTTGCAAAAAAAGCCGCTATA-ATCCTGTACT
1 TTTAGCGGCGCTTTTGTAAAAAACGCCGCTATAGA-CCTATACT
**
224108302 TTTAGCGGCGCTTTTACAAAAAAACGCCGCTA
1 TTTAGCGGCGCTTTT-GTAAAAAACGCCGCTA
224108334 ATTTGCCCAG
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
42 1 0.01
43 52 0.49
44 53 0.50
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTGTAAAAAACGCCGCTATAGACCTATACT
Found at i:224108250 original size:44 final size:43
Alignment explanation
Indices: 224108172--224108333 Score: 218
Period size: 43 Copynumber: 3.7 Consensus size: 43
224108162 GACGAAGAAC
* *
224108172 TTTAGCGGCGCTTCTGTAAAAAACGCCGCTATAGACCTATACT
1 TTTAGCGGCGCTTTTGTAAAAAAAGCCGCTATAGACCTATACT
* *
224108215 TTTAGCGGCACTTTTGTAGAAAAATGCCGCTATAGACCTATACT
1 TTTAGCGGCGCTTTTGTA-AAAAAAGCCGCTATAGACCTATACT
* *
224108259 TTTAGCGGCGCTTTTGCAAAAAAAGCCGCTATA-ATCCTGTACT
1 TTTAGCGGCGCTTTTGTAAAAAAAGCCGCTATAGA-CCTATACT
**
224108302 TTTAGCGGCGCTTTTACAAAAAAACGCCGCTA
1 TTTAGCGGCGCTTTTGTAAAAAAA-GCCGCTA
224108334 ATTTGCCCAG
Statistics
Matches: 108, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
42 1 0.01
43 60 0.56
44 47 0.44
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTGTAAAAAAAGCCGCTATAGACCTATACT
Found at i:224108325 original size:87 final size:87
Alignment explanation
Indices: 224108172--224108333 Score: 227
Period size: 87 Copynumber: 1.9 Consensus size: 87
224108162 GACGAAGAAC
* * ** *
224108172 TTTAGCGGCGCTTCTGTAAAAAACGCCGCTATAGACCTATACTTTTAGCGGCACTTTTGTAGAAA
1 TTTAGCGGCGCTTCTGCAAAAAAAGCCGCTATAGACCTATACTTTTAGCGGCACTTTTACAAAAA
*
224108237 AATGCCGCTATAGACCTATACT
66 AACGCCGCTATAGACCTATACT
* * *
224108259 TTTAGCGGCGCTTTTGCAAAAAAAGCCGCTATA-ATCCTGTACTTTTAGCGGCGCTTTTACAAAA
1 TTTAGCGGCGCTTCTGCAAAAAAAGCCGCTATAGA-CCTATACTTTTAGCGGCACTTTTACAAAA
224108323 AAACGCCGCTA
65 AAACGCCGCTA
224108334 ATTTGCCCAG
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
86 1 0.02
87 64 0.98
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (87 bp):
TTTAGCGGCGCTTCTGCAAAAAAAGCCGCTATAGACCTATACTTTTAGCGGCACTTTTACAAAAA
AACGCCGCTATAGACCTATACT
Found at i:224115209 original size:29 final size:29
Alignment explanation
Indices: 224115177--224115252 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
224115167 CTGGAAATAT
*
224115177 ATGGCACTAAGTGTGCGAGCTCAAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
* * * *
224115206 ATGGCACTATGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
224115235 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
224115253 AATCGAGTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:224117520 original size:21 final size:21
Alignment explanation
Indices: 224117496--224117535 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
224117486 AAATTAATTC
*
224117496 ATACTTAAGTTGAATCAAATA
1 ATACTTAAGTTGAACCAAATA
224117517 ATACTTAAGTTGAACCAAA
1 ATACTTAAGTTGAACCAAA
224117536 ATATAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.30
Consensus pattern (21 bp):
ATACTTAAGTTGAACCAAATA
Found at i:224121475 original size:12 final size:12
Alignment explanation
Indices: 224121453--224121488 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
224121443 AGTCAGTAAA
224121453 CAAAA-CCATTT
1 CAAAACCCATTT
224121464 CAAAACCCATTT
1 CAAAACCCATTT
224121476 C-AAACCCATTT
1 CAAAACCCATTT
224121487 CA
1 CA
224121489 GTAAACAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (12 bp):
CAAAACCCATTT
Found at i:224122652 original size:15 final size:15
Alignment explanation
Indices: 224122628--224122657 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
224122618 TCAAATAATA
*
224122628 ATATATATTTATCTT
1 ATATACATTTATCTT
224122643 ATATACATTTATCTT
1 ATATACATTTATCTT
224122658 CTAAATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATACATTTATCTT
Found at i:224122720 original size:22 final size:22
Alignment explanation
Indices: 224122690--224122731 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
224122680 ACTCTAAATT
224122690 TAAAACCCTAAACCTGAGACTC
1 TAAAACCCTAAACCTGAGACTC
* *
224122712 TAAACCCCTAAACCTTAGAC
1 TAAAACCCTAAACCTGAGAC
224122732 CACAAACACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.19
Consensus pattern (22 bp):
TAAAACCCTAAACCTGAGACTC
Found at i:224123078 original size:25 final size:25
Alignment explanation
Indices: 224123043--224123094 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
224123033 TTTCTAGCTA
224123043 ATAGTTAAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
*
224123068 ATAGTTCAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
224123093 AT
1 AT
224123095 TCAAAATCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (25 bp):
ATAGTTAAACAAATGCTAATTCCAC
Found at i:224123548 original size:41 final size:41
Alignment explanation
Indices: 224123491--224123628 Score: 233
Period size: 41 Copynumber: 3.4 Consensus size: 41
224123481 GGTTTATGAC
*
224123491 TTTTAGCGACGTTTTACCCAAAACGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAACGCCGCTAATGATCTGGT
*
224123532 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAACGCCGCTAATGATCTGGT
*
224123573 TTTTAGCGGCGTTTTA-CCTAAACGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCCAAAACGCCGCTAATGATCTGGT
*
224123613 TTTTAGCGGCGCTTTA
1 TTTTAGCGGCGTTTTA
224123629 GTGATCTGGT
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
40 37 0.40
41 55 0.60
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCCAAAACGCCGCTAATGATCTGGT
Found at i:224123639 original size:66 final size:67
Alignment explanation
Indices: 224123564--224123695 Score: 230
Period size: 67 Copynumber: 2.0 Consensus size: 67
224123554 GCGCCGCTAA
**
224123564 TGATCTGGTTTTTAGCGGCGTTTTACCTAAA-CGCCGCTAATGATCTGGTTTTTAGCGGCGCTTT
1 TGATCTGGTTTTTAGCGGAATTTTACCTAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGCTTT
224123628 AG
66 AG
*
224123630 TGATCTGGTTTTTAGCGGAATTTTACCTAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTT
1 TGATCTGGTTTTTAGCGGAATTTTACCTAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGCTTT
224123695 A
66 A
224123696 CCTAAAGCGC
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
66 29 0.47
67 33 0.53
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (67 bp):
TGATCTGGTTTTTAGCGGAATTTTACCTAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGCTTT
AG
Found at i:224123654 original size:26 final size:26
Alignment explanation
Indices: 224123604--224123654 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
224123594 ACGCCGCTAA
**
224123604 TGATCTGGTTTTTAGCGGCGCTTTAG
1 TGATCTGGTTTTTAGCGGAACTTTAG
*
224123630 TGATCTGGTTTTTAGCGGAATTTTA
1 TGATCTGGTTTTTAGCGGAACTTTA
224123655 CCTAAAGCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.16, C:0.12, G:0.27, T:0.45
Consensus pattern (26 bp):
TGATCTGGTTTTTAGCGGAACTTTAG
Found at i:224123742 original size:148 final size:148
Alignment explanation
Indices: 224123502--224123771 Score: 384
Period size: 148 Copynumber: 1.8 Consensus size: 148
224123492 TTTAGCGACG
*
224123502 TTTTACCCAAAACGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGA
1 TTTTACCCAAAACGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGCGCAGCTAATGA
* * *
224123567 TCTGGTTTTTAGCGGCGTTTTACCT-AAACGCCGCTAATGATCTGGTTTTTAGCGGCGCTTTAGT
66 TCTGATTTTTACCAGCGTTTTACCTAAAACGCCGCTAATGATCT-GTTTTTAGCGGCGCTTTAGT
224123631 GATCTGGTTTTTAGCGGAA
130 GATCTGGTTTTTAGCGGAA
* * * **
224123650 TTTTACCTAAAGCGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCTAAAGCGCAGCTAATTC
1 TTTTACCCAAAACGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGCGCAGCTAATGA
* * *
224123715 TCT-ATTTTTACCAGCGTTTTTTA-CTAAAACGCCGCTATTGCTCTGTTTTTAGTGGCG
66 TCTGATTTTTACCAGCG--TTTTACCTAAAACGCCGCTAATGATCTGTTTTTAGCGGCG
224123772 TTTTCCTTAA
Statistics
Matches: 107, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
147 10 0.09
148 76 0.71
149 21 0.20
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (148 bp):
TTTTACCCAAAACGCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGCGCAGCTAATGA
TCTGATTTTTACCAGCGTTTTACCTAAAACGCCGCTAATGATCTGTTTTTAGCGGCGCTTTAGTG
ATCTGGTTTTTAGCGGAA
Found at i:224123773 original size:41 final size:40
Alignment explanation
Indices: 224123637--224123806 Score: 157
Period size: 41 Copynumber: 4.2 Consensus size: 40
224123627 TAGTGATCTG
** * * *
224123637 GTTTTTAGCGGAATTTTACCTAAAGCGCCGCTAATGATCT
1 GTTTTTAGCGGCGTTTTACCTAAAACGCCGCTATTGCTCT
* *
224123677 GGTTTTTAGCGGCGTTTTACCTAAAGCGCAGCTAATT-CTCT
1 -GTTTTTAGCGGCGTTTTACCTAAAACGCCGCT-ATTGCTCT
* * *
224123718 ATTTTTACCAGCGTTTTTTA-CTAAAACGCCGCTATTGCTCT
1 GTTTTTAGCGGCG--TTTTACCTAAAACGCCGCTATTGCTCT
* *
224123759 GTTTTTAGTGGCGTTTT-CCTTAAAACACCGCTATTGCTCT
1 GTTTTTAGCGGCGTTTTACC-TAAAACGCCGCTATTGCTCT
224123799 GTATTTTA
1 GT-TTTTA
224123807 AAATTTTTGT
Statistics
Matches: 107, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
39 5 0.05
40 34 0.32
41 61 0.57
42 7 0.07
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (40 bp):
GTTTTTAGCGGCGTTTTACCTAAAACGCCGCTATTGCTCT
Found at i:224131270 original size:17 final size:18
Alignment explanation
Indices: 224131228--224131276 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
224131218 AGTTGAAAAG
224131228 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
224131247 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
224131264 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
224131277 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:224132164 original size:40 final size:40
Alignment explanation
Indices: 224132098--224132264 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
224132088 AAATTGAATG
* * *
224132098 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
224132137 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
224132177 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
224132217 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
224132257 ATATCCGG
1 ATATCCGG
224132265 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:224139274 original size:17 final size:18
Alignment explanation
Indices: 224139232--224139280 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
224139222 AGTTGAAAAG
224139232 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
224139251 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
224139268 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
224139281 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:224140168 original size:40 final size:39
Alignment explanation
Indices: 224140102--224140267 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
224140092 AAATTGAATG
* * *
224140102 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
224140141 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
224140180 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
224140220 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
224140260 ATATCCGG
1 ATATCCGG
224140268 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:224147266 original size:17 final size:18
Alignment explanation
Indices: 224147224--224147272 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
224147214 AGTTGAAAAG
224147224 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
224147243 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
224147260 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
224147273 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:224148160 original size:40 final size:40
Alignment explanation
Indices: 224148094--224148260 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
224148084 AAATTGAATG
* * *
224148094 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
224148133 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
224148173 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
224148213 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
224148253 ATATCCGG
1 ATATCCGG
224148261 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:224151053 original size:29 final size:28
Alignment explanation
Indices: 224151019--224151121 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
224151009 TACTCAATCA
*
224151019 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
224151048 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
224151077 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
224151106 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
224151122 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:224153946 original size:29 final size:28
Alignment explanation
Indices: 224153912--224154013 Score: 114
Period size: 29 Copynumber: 3.6 Consensus size: 28
224153902 TACTCAATCA
* *
224153912 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATACAAGCT
* * *
224153941 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TACAAGCT
* *
224153970 CGCACACTTAGTGCCGTACATACAAGCT
1 CGCACACTTAGTGCCATATATACAAGCT
*
224153998 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
224154014 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
28 21 0.34
29 40 0.66
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATACAAGCT
Found at i:224161932 original size:29 final size:28
Alignment explanation
Indices: 224161898--224162000 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
224161888 TACTCAATCA
*
224161898 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
224161927 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
224161956 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
224161985 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
224162001 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:224164203 original size:40 final size:40
Alignment explanation
Indices: 224164146--224164329 Score: 209
Period size: 39 Copynumber: 4.7 Consensus size: 40
224164136 TCGAATGATG
* * * *
224164146 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
224164186 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
224164226 TCC-GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
224164265 TCCGG-GTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
224164305 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
224164330 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.01
39 71 0.55
40 49 0.38
41 8 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:224164343 original size:40 final size:39
Alignment explanation
Indices: 224164199--224164348 Score: 110
Period size: 39 Copynumber: 3.8 Consensus size: 39
224164189 GGACTAAGAT
** * **
224164199 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGTAAG-TC
** *
224164238 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGTAAGTC
** *
224164277 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGG-TAAGTC
* *
224164317 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
224164349 TTAAACTCCG
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
38 1 0.01
39 66 0.67
40 32 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGTAAGTC
Found at i:224164347 original size:79 final size:79
Alignment explanation
Indices: 224164180--224164348 Score: 186
Period size: 79 Copynumber: 2.1 Consensus size: 79
224164170 GTGCTAAGTG
*
224164180 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGACTAAGATCCGAAGG
1 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGACTAAGATCCGAAGG
**
224164245 CATTTGTGCGAGTT
66 CATTTGAACGAGTT
* * * *
224164259 ACTAAATCCGG-GTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCG
1 ACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGCTACTA-AATCC-GACTAAGAT-CCG
*
224164320 AAGGTATTTGAACGAG-T
62 AAGGCATTTGAACGAGTT
224164337 AGCTATATCCGG
1 A-CTATATCCGG
224164349 TTAAACTCCG
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
77 1 0.01
78 33 0.43
79 42 0.55
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (79 bp):
ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGACTAAGATCCGAAGG
CATTTGAACGAGTT
Found at i:224172344 original size:40 final size:40
Alignment explanation
Indices: 224172261--224172406 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
224172251 TCGAATGATG
* * *
224172261 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
224172301 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
224172341 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
224172382 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
224172407 AATGAGTAGC
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 80 0.89
41 9 0.10
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:224175615 original size:43 final size:43
Alignment explanation
Indices: 224175469--224175656 Score: 242
Period size: 43 Copynumber: 4.5 Consensus size: 43
224175459 TAAAAAATTT
* *
224175469 CATGACCTTTAGCGGCGATTGTGGG-AAAGCGCCGCTAAAGGT
1 CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
* * * * *
224175511 CACGGCTTTTAGCGGAGTTTGTGGGAAAAGCGCCGCTAAAGTC
1 CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
* *
224175554 GCA--A-CTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTGAAGGC
1 -CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
*
224175595 CATGACCTTTACCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
1 CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
224175638 CATGA-CTTTAGCGGCGTTT
1 CATGACCTTTAGCGGCGTTT
224175657 TTTTAAAATA
Statistics
Matches: 124, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
40 2 0.02
41 32 0.26
42 34 0.27
43 54 0.44
44 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (43 bp):
CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
Found at i:224175615 original size:84 final size:83
Alignment explanation
Indices: 224175475--224175656 Score: 240
Period size: 84 Copynumber: 2.2 Consensus size: 83
224175465 ATTTCATGAC
* * * * * *
224175475 CTTTAGCGGCGATTGTGGGAAAGCGCCGCTAAAGGTCACGGCTTTTAGCGGAGTTTGTGGGAAAA
1 CTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGCCACGACCTTTACCGGAGTTTGTGGGAAAA
*
224175540 GCGCCGCTAAAGTCGCA-A
66 GCGCCGCTAAAGGC-CAGA
* * *
224175558 CTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTGAAGGCCATGACCTTTACCGGCGTTTGTGGGAAA
1 CTTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGCCACGACCTTTACCGGAGTTTGTGGGAAA
224175623 AGCGCCGCTAAAGGCCATGA
65 AGCGCCGCTAAAGGCCA-GA
224175643 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
224175657 TTTTAAAATA
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
83 18 0.21
84 53 0.62
85 15 0.17
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (83 bp):
CTTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGCCACGACCTTTACCGGAGTTTGTGGGAAAA
GCGCCGCTAAAGGCCAGA
Found at i:224176760 original size:2 final size:2
Alignment explanation
Indices: 224176753--224176780 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
224176743 TTAGTCCTTC
224176753 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
224176781 GTGTGCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:224176896 original size:24 final size:23
Alignment explanation
Indices: 224176844--224176896 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
224176834 ATTTTACATT
*
224176844 ATATTGTTTTAATAATTTATGTA
1 ATATTTTTTTAATAATTTATGTA
* *
224176867 AGATTTTTTTAA-ATATTTTTGTGA
1 ATATTTTTTTAATA-ATTTATGT-A
224176891 ATATTT
1 ATATTT
224176897 GTACATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 1 0.04
23 17 0.71
24 6 0.25
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.58
Consensus pattern (23 bp):
ATATTTTTTTAATAATTTATGTA
Found at i:224179938 original size:2 final size:2
Alignment explanation
Indices: 224179931--224179964 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
224179921 TCAAGGTGAA
224179931 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
224179965 TTATCTGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:224181994 original size:35 final size:35
Alignment explanation
Indices: 224181952--224182020 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
224181942 TGAAAAAAAT
224181952 TATTGTAAATAC-AAAAAATAACTTTTAAAACATTA
1 TATTGTAAATACAAAAAAATAA-TTTTAAAACATTA
*
224181987 TATTGTAAATACAAAAAAATAATTTTACAACATT
1 TATTGTAAATACAAAAAAATAATTTTAAAACATT
224182021 TTTTAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 23 0.72
36 9 0.28
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.35
Consensus pattern (35 bp):
TATTGTAAATACAAAAAAATAATTTTAAAACATTA
Found at i:224184100 original size:14 final size:13
Alignment explanation
Indices: 224184081--224184118 Score: 67
Period size: 13 Copynumber: 2.8 Consensus size: 13
224184071 AACCCAACCT
224184081 AAAAAAAAAAATC
1 AAAAAAAAAAATC
224184094 AAAAAAAAAAATC
1 AAAAAAAAAAATC
224184107 AAAAAAAGAAAA
1 AAAAAAA-AAAA
224184119 AACTTAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.87, C:0.05, G:0.03, T:0.05
Consensus pattern (13 bp):
AAAAAAAAAAATC
Found at i:224184358 original size:26 final size:24
Alignment explanation
Indices: 224184319--224184376 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 24
224184309 AGAGAAGAAA
*
224184319 TTTTTTTGAGATTCAAGAAGAGATTT
1 TTTTTTTGAAATTCAAG-AG-GATTT
*
224184345 TTTTTTTGAAATTCAAGAGGGTTT
1 TTTTTTTGAAATTCAAGAGGATTT
224184369 TTTTTTTG
1 TTTTTTTG
224184377 GGAACAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 12 0.40
25 2 0.07
26 16 0.53
ACGTcount: A:0.24, C:0.03, G:0.19, T:0.53
Consensus pattern (24 bp):
TTTTTTTGAAATTCAAGAGGATTT
Found at i:224185097 original size:3 final size:3
Alignment explanation
Indices: 224184875--224185082 Score: 115
Period size: 3 Copynumber: 68.7 Consensus size: 3
224184865 TTTTCTTGCA
* *
224184875 TAT TAGT TAC TAT TAT TAT TAT TAT TACCT TCAT T-T CAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TA--T T-AT TAT TAT TAT TAT TAT
* ** * * * *
224184923 TAC TAT TGC TAT T-T TTT TGT TGT T-T ATAT TTT TAT T-T ATAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT TAT
*
224184967 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CTCCGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -T--AT
* * * * * *
224185018 GAC TAT TAT TAT TAT T-T TGT TA- TAT TAT TGT TA- TAT TAT CAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
224185063 TTT TCT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
224185083 CTACAACTAT
Statistics
Matches: 158, Mismatches: 31, Indels: 32
0.71 0.14 0.14
Matches are distributed among these distances:
2 11 0.07
3 135 0.85
4 8 0.05
5 2 0.01
6 2 0.01
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:224185270 original size:21 final size:21
Alignment explanation
Indices: 224185225--224185305 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
224185215 TTTCTCTGTT
** *
224185225 TTATTACTATTATTAATATCA
1 TTATTACTATTATTTTTATTA
*
224185246 TTATTACTATTATTTTTATTT
1 TTATTACTATTATTTTTATTA
224185267 TTATT--T-TTATTTTTATTA
1 TTATTACTATTATTTTTATTA
* * *
224185285 CTACTACTGTTATTTTTATTA
1 TTATTACTATTATTTTTATTA
224185306 ACATATTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
18 14 0.28
19 1 0.02
20 1 0.02
21 34 0.68
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.64
Consensus pattern (21 bp):
TTATTACTATTATTTTTATTA
Found at i:224185303 original size:6 final size:6
Alignment explanation
Indices: 224185255--224185283 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
224185245 ATTATTACTA
224185255 TTATTT TTATTT TTATTT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATT
224185284 ACTACTACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:224185419 original size:15 final size:15
Alignment explanation
Indices: 224185399--224185429 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
224185389 TATTATTTTC
224185399 TATTTATTACTATTA
1 TATTTATTACTATTA
224185414 TATTTATTACTATTA
1 TATTTATTACTATTA
224185429 T
1 T
224185430 TATATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATTACTATTA
Found at i:224185446 original size:18 final size:18
Alignment explanation
Indices: 224185409--224185446 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
224185399 TATTTATTAC
*
224185409 TATTATATTTATTACTAT
1 TATTATATTTATTACCAT
224185427 TATTATATTT-TTACCCAT
1 TATTATATTTATTA-CCAT
224185445 TA
1 TA
224185447 CTCTTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTATATTTATTACCAT
Found at i:224197629 original size:205 final size:204
Alignment explanation
Indices: 224197032--224198426 Score: 2434
Period size: 205 Copynumber: 6.9 Consensus size: 204
224197022 GTAATAGGCC
* * *
224197032 ACACATAGCAGATCTCGCCTTCAGACGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATG-TTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
224197097 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
65 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
224197162 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
130 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
224197227 TGGAGAGCAG
195 TGGAGAGCAG
*
224197237 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGC-GATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTT-CGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
224197301 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
65 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
224197366 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
130 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
224197431 TGGAGAGCAG
195 TGGAGAGCAG
224197441 ACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATG-TTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
224197506 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
65 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
224197571 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
130 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
224197636 TGGAGAGCAG
195 TGGAGAGCAG
* *
224197646 ACACATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTT-CGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
224197711 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
65 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
224197776 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
130 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
224197841 TGGAGAGCAG
195 TGGAGAGCAG
224197851 ACACATAGCAGATCTCACCTTCAGATGATTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATG-TTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
224197916 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
65 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
224197981 TCTAAGATGATTTGTCGTCTCTGTAT-GTCAGAGAACGAATCGAAGTTTGGCATCTT--CTTTGA
130 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGA
224198043 TGGAGAGCAG
195 TGGAGAGCAG
224198053 ACA-ATAGCAGATCTCACCTTCAGATG-TTCGCTGAAGC-GATCCAAGAT-GTTTGGCATCCTTG
1 ACACATAGCAGATCTCACCTTCAGATGTTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTTG
224198114 TGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAAT
66 TGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAAT
224198179 CTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAAGTTTGGCATCTTCACTTTGA
131 CTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCG-AAGTTTGGCATCTTCACTTTGA
224198244 TGGAGAGCAG
195 TGGAGAGCAG
* * *
224198254 ACACATAGCAGATCTCACCTTC-GATGTTTATGCTGAA-CGGATCCAAGATGGATTGGCATCCTT
1 ACACATAGCAGATCTCACCTTCAGATGTTT-CGCTGAAGCAGATCCAAGATGGTTTGGCATCCTT
* * * * ** * * *
224198317 ATGCTTACAAGGAACAAATCGAA-TCATAGTTGATTTGGCTTTCGCGTGCTTACGTTAAAGCAAA
65 GTGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAA
* * * * * *
224198381 TCTAAGATGATTTGGCATCTCTGTATTGTCAGGGATCAAATCGAAG
130 TCTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAG
224198427 AAATAAATCT
Statistics
Matches: 1150, Mismatches: 26, Indels: 31
0.95 0.02 0.03
Matches are distributed among these distances:
197 104 0.09
198 26 0.02
199 25 0.02
201 46 0.04
202 43 0.04
203 87 0.08
204 268 0.23
205 548 0.48
206 3 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (204 bp):
ACACATAGCAGATCTCACCTTCAGATGTTTCGCTGAAGCAGATCCAAGATGGTTTGGCATCCTTG
TGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGATGAAGCAAAT
CTAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGAT
GGAGAGCAG
Found at i:224198790 original size:11 final size:11
Alignment explanation
Indices: 224198774--224198805 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
224198764 CCCAACCCAA
224198774 AAAAAAAAATC
1 AAAAAAAAATC
224198785 AAAAAAAAATC
1 AAAAAAAAATC
224198796 AAAAAGAAAA
1 AAAAA-AAAA
224198806 AAACCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.84, C:0.06, G:0.03, T:0.06
Consensus pattern (11 bp):
AAAAAAAAATC
Found at i:224201965 original size:40 final size:40
Alignment explanation
Indices: 224201906--224202047 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
224201896 AAATTGAATG
* * *
224201906 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
224201946 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
224201986 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
224202026 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
224202048 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:224202048 original size:40 final size:39
Alignment explanation
Indices: 224201945--224202073 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
224201935 TGCTGGAAAT
* * *
224201945 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
224201985 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
224202025 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
224202065 TATATCCGG
1 TATATCCGG
224202074 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:224209957 original size:40 final size:40
Alignment explanation
Indices: 224209898--224210039 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
224209888 AAATTGAATG
* * *
224209898 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
224209938 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
224209978 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
224210018 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
224210040 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:224210040 original size:40 final size:39
Alignment explanation
Indices: 224209937--224210065 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
224209927 TGCTGGAAAT
* * *
224209937 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
224209977 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
224210017 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
224210057 TATATCCGG
1 TATATCCGG
224210066 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:224212952 original size:40 final size:40
Alignment explanation
Indices: 224212869--224213020 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
224212859 TCGAATGATG
* *
224212869 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
224212909 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
224212949 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* *
224212990 -CCGGGCTATGTCCCGAAGGC-TTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
224213021 CGCTATATCC
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.01
39 10 0.11
40 72 0.77
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:224214470 original size:48 final size:48
Alignment explanation
Indices: 224214399--224214591 Score: 361
Period size: 48 Copynumber: 4.0 Consensus size: 48
224214389 TACGGGGTGT
224214399 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
224214447 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
224214495 TACATATTTCACATTAGCCATT-GGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
224214542 TACATATTTCACATTAGCCATTCGGCTTTACCAGATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
224214590 TA
1 TA
224214592 AGCCATTCGG
Statistics
Matches: 141, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
47 46 0.33
48 95 0.67
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:224214599 original size:35 final size:35
Alignment explanation
Indices: 224214557--224214626 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
224214547 ATTTCACATT
*
224214557 AGCCATTCGGCTTTACCAGATATACATATCTCATA
1 AGCCATTCGGCTTTACCACATATACATATCTCATA
224214592 AGCCATTCGGCTTTACCACATATACATATCTCATA
1 AGCCATTCGGCTTTACCACATATACATATCTCATA
224214627 CATATTTCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (35 bp):
AGCCATTCGGCTTTACCACATATACATATCTCATA
Found at i:224214615 original size:83 final size:82
Alignment explanation
Indices: 224214510--224214674 Score: 303
Period size: 83 Copynumber: 2.0 Consensus size: 82
224214500 ATTTCACATT
224214510 AGCCATTGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
1 AGCCATTGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
*
224214575 GATATACATATCTCATA
66 CATATACATATCTCATA
224214592 AGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
1 AGCCATT-GGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
*
224214657 ACATATACTTATCTCATA
65 ACATATACATATCTCATA
224214675 CATCAATTTC
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
82 7 0.09
83 73 0.91
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (82 bp):
AGCCATTGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCA
CATATACATATCTCATA
Found at i:224218096 original size:29 final size:28
Alignment explanation
Indices: 224218037--224218127 Score: 105
Period size: 28 Copynumber: 3.2 Consensus size: 28
224218027 CTGACTGATT
*
224218037 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* *
224218065 TCGCACACATAGTGTCTCGATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
*
224218094 TCGCACACATAGTGCTC-AGTTGAAGAAC
1 TCGCACACATAGTGCTCGA-TTAAAGAAC
224218122 TCGCAC
1 TCGCAC
224218128 TCTCATGCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
27 2 0.04
28 26 0.49
29 24 0.45
30 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.22
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:224218381 original size:40 final size:40
Alignment explanation
Indices: 224218349--224218654 Score: 407
Period size: 40 Copynumber: 7.7 Consensus size: 40
224218339 CCAGCATGAT
* * * * *
224218349 TGCTCTTCAGGACCTAGCCCGGTTATAACACCAGTACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
* * * *
224218389 TGCTCTTCGGGACTTAACCCTGATATAACTCTAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
* **
224218429 TGCTCTT-GAGACTTAGCCCACATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
* * * * *
224218468 TGCTCTTTGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
224218508 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
* * * *
224218548 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
*
224218588 TGCTCTTCGGGACTTAGCCCGAATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
224218628 TGCTCTTCGGGACTTAGCCCGGATATA
1 TGCTCTTCGGGACTTAGCCCGGATATA
224218655 TATAACTCTC
Statistics
Matches: 228, Mismatches: 37, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 33 0.14
40 195 0.86
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAA
Found at i:224218552 original size:80 final size:80
Alignment explanation
Indices: 224218333--224218652 Score: 462
Period size: 80 Copynumber: 4.0 Consensus size: 80
224218323 GCCCGAATAC
* * * * * * * *
224218333 ACATCACCAGCATGATTGCTCTTCAGGACCTAGCCCGGTTATAACACCAGTACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
* *
224218398 GGACTTAACCCTGAT
66 GGACTTAGCCCGGAT
* * * * * ** *
224218413 ATAACTCTAGCACAAATGCTCTT-GAGACTTAGCCCACATATAACACCAGCACAAATGCTCTTTG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
224218477 GGACTTAGCCCGGAT
66 GGACTTAGCCCGGAT
224218492 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
224218557 GGACTTAGCCCGGAT
66 GGACTTAGCCCGGAT
*
224218572 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGAATATAACACCAGCACAAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
224218637 GGACTTAGCCCGGAT
66 GGACTTAGCCCGGAT
224218652 A
1 A
224218653 TATATAACTC
Statistics
Matches: 212, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
79 64 0.30
80 148 0.70
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (80 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACAAATGCTCTTCG
GGACTTAGCCCGGAT
Done.