Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 30 of 131
Found at i:7005053 original size:21 final size:21
Alignment explanation
Indices: 7004929--7005059 Score: 68
Period size: 21 Copynumber: 5.9 Consensus size: 21
7004919 ATATAAAATC
*
7004929 ATGCAAATAAATATATTAATAA
1 ATGCAAACAAATATATTAAT-A
* * * *
7004951 TCATGCAATCAAATTAAATATCATC
1 --ATGCAAACAAA-TATAT-TAATA
* *
7004976 ATACAAATAAATATATTAATA
1 ATGCAAACAAATATATTAATA
*
7004997 AT-CACAAC-AAGATATTAATAA
1 ATGCA-AACAAATATATTAAT-A
* *
7005018 ATCACACAAATAAATATATTAATA
1 AT---GCAAACAAATATATTAATA
7005042 ATGCAAACAAATATATTA
1 ATGCAAACAAATATATTA
7005060 GGCAAATAAA
Statistics
Matches: 81, Mismatches: 17, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
20 12 0.15
21 24 0.30
22 4 0.05
23 8 0.10
24 14 0.17
25 16 0.20
26 3 0.04
ACGTcount: A:0.56, C:0.11, G:0.03, T:0.30
Consensus pattern (21 bp):
ATGCAAACAAATATATTAATA
Found at i:7005070 original size:17 final size:17
Alignment explanation
Indices: 7005044--7005089 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
7005034 TATTAATAAT
*
7005044 GCAAACAAATATATTAG
1 GCAAATAAATATATTAG
*
7005061 GCAAATAAAT-TATTAT
1 GCAAATAAATATATTAG
7005077 GCAAATATAATAT
1 GCAAATA-AATAT
7005090 TAGTCATGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 12 0.48
17 12 0.48
18 1 0.04
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (17 bp):
GCAAATAAATATATTAG
Found at i:7005080 original size:16 final size:17
Alignment explanation
Indices: 7005042--7005089 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
7005032 TATATTAATA
*
7005042 ATGCAAACAAATATATT
1 ATGCAAATAAATATATT
*
7005059 AGGCAAATAAAT-TATT
1 ATGCAAATAAATATATT
7005075 ATGCAAATATAATAT
1 ATGCAAATA-AATAT
7005090 TAGTCATGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 12 0.46
17 13 0.50
18 1 0.04
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.31
Consensus pattern (17 bp):
ATGCAAATAAATATATT
Found at i:7007158 original size:29 final size:30
Alignment explanation
Indices: 7007101--7007159 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
7007091 AAAATGAAAA
*
7007101 AAAATATTTTTTAATGTCATATTTAAATTT
1 AAAATATTTTTTAATGTCATATATAAATTT
* *
7007131 AAAA-ATTTTTTAATGTGATATATGAATTT
1 AAAATATTTTTTAATGTCATATATAAATTT
7007160 TGATTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.51
Consensus pattern (30 bp):
AAAATATTTTTTAATGTCATATATAAATTT
Found at i:7007237 original size:29 final size:29
Alignment explanation
Indices: 7007191--7007259 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
7007181 TATTATAGTA
* *
7007191 ATTAAAAA-ATTTATAATTT-AAATATTAT
1 ATTAAAAATTTTTAAAATTTAAAAT-TTAT
7007219 ATTAAAAATTTTTAAAATTTAAAATTTAT
1 ATTAAAAATTTTTAAAATTTAAAATTTAT
*
7007248 ATTAAATATTTT
1 ATTAAAAATTTT
7007260 GTTATAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.22
29 24 0.67
30 4 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
ATTAAAAATTTTTAAAATTTAAAATTTAT
Found at i:7008078 original size:6 final size:6
Alignment explanation
Indices: 7008067--7008093 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7008057 TCAAAATTAT
7008067 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
7008094 GAGAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:7011187 original size:13 final size:14
Alignment explanation
Indices: 7011167--7011201 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
7011157 TCATTTGAAA
7011167 TTTATATTCTCATT
1 TTTATATTCTCATT
*
7011181 TTT-TATTTTCATT
1 TTTATATTCTCATT
7011194 TTTATATT
1 TTTATATT
7011202 GAAAAATCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATATTCTCATT
Found at i:7018694 original size:11 final size:10
Alignment explanation
Indices: 7018680--7018707 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
7018670 TTTCCTTTCC
7018680 TTTTTTTGTT
1 TTTTTTTGTT
7018690 TTTTTTTGTT
1 TTTTTTTGTT
7018700 TTTTTTTG
1 TTTTTTTG
7018708 AGGGAGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:7024776 original size:22 final size:22
Alignment explanation
Indices: 7024751--7024794 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7024741 TTTAAAAAAA
*
7024751 TATTTTTTAAAAT-TAGTTAAAT
1 TATTATTTAAAATATAG-TAAAT
*
7024773 TATTATTTACAATATAGTAAAT
1 TATTATTTAAAATATAGTAAAT
7024795 ATAATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (22 bp):
TATTATTTAAAATATAGTAAAT
Found at i:7034513 original size:25 final size:27
Alignment explanation
Indices: 7034466--7034523 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 27
7034456 AAGGAAAAGA
* * * *
7034466 AAAAAAAAAAAAAGATGAGTGGTTTAT
1 AAAAAGAAAAAAAGATGACTGGTTAAG
7034493 AAAAAGAAAAAAA-AT-ACTGGTTAAG
1 AAAAAGAAAAAAAGATGACTGGTTAAG
7034518 AAAAAG
1 AAAAAG
7034524 GTAGATTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 13 0.48
26 2 0.07
27 12 0.44
ACGTcount: A:0.64, C:0.02, G:0.17, T:0.17
Consensus pattern (27 bp):
AAAAAGAAAAAAAGATGACTGGTTAAG
Found at i:7044948 original size:7 final size:7
Alignment explanation
Indices: 7044938--7044976 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
7044928 TATAATTTAT
7044938 AAATATA
1 AAATATA
7044945 AAATATA
1 AAATATA
7044952 AAATATA
1 AAATATA
7044959 TAAATATA
1 -AAATATA
7044967 AATATATA
1 AA-ATATA
7044975 AA
1 AA
7044977 TTATTATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AAATATA
Found at i:7044957 original size:14 final size:14
Alignment explanation
Indices: 7044938--7044976 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 14
7044928 TATAATTTAT
7044938 AAATATAAAATATA
1 AAATATAAAATATA
7044952 AAATATATAAATATA
1 AAATATA-AAATATA
7044967 AATATATAAA
1 AA-ATATAAA
7044977 TTATTATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.30
15 11 0.48
16 5 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATATAAAATATA
Found at i:7044985 original size:14 final size:14
Alignment explanation
Indices: 7044935--7044977 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
7044925 TTTTATAATT
7044935 TATAAATATA-AAA
1 TATAAATATATAAA
7044948 TATAAAATATATAAA
1 TAT-AAATATATAAA
7044963 TATAAATATATAAA
1 TATAAATATATAAA
7044977 T
1 T
7044978 TATTATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.11
14 19 0.68
15 6 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TATAAATATATAAA
Found at i:7047119 original size:406 final size:405
Alignment explanation
Indices: 7046143--7047351 Score: 1895
Period size: 406 Copynumber: 3.0 Consensus size: 405
7046133 AATATTTATC
7046143 AAAATACCCTTACTATATATATAAGTAATTTCTTTTAAGGTTTCTGAACTTTGTTTCTTTCGGCA
1 AAAATACCCTTACTATATATATAAGTAATTTCTTTTAAGGTTTCTGAACTTTGTTTCTTTCGGCA
7046208 GACCCTGTTTTATTCTTTCATATCCTTTCTCCACATTAGGTAGTGAAAATCTAACTGAAAATCTT
66 GACCCTGTTTTATTCTTTCATATCCTTTCTCCACATTAGGTAGTGAAAATCTAACTGAAAATCTT
7046273 ATCCACATGGTTGAATCTGAGAAATCTTCACCCAATT-A---T----GCTTGATTTCTCTCTTAT
131 ATCCACATGGTTGAATCTGAGAAATCTTCACCCAATTAATTTTCGACGCTTGATTTCTCTCTTAT
*
7046330 CCAGACAGTACAGTGGGTGATTAGTGTACTATCACCTTCAGATTTGGTGCATTTAAAGTCGAATT
196 -CAGACAGTACAGTGGGTG-TTAGTGTACTATCACCTTCAGATTTGGTGCATTTACAGTCGAATT
7046395 TTAAACTCCATGATCTCTTT-AAAAATTTTCTTCCACCCATAGCGTGACGCTGACA-CTGACGTA
259 TTAAACTCCATGATCT-TTTCAAAAATTTTCTTCCACCCATAGCGTGACGCTGA-AGCTGACGTA
* * * *
7046458 TCCCTTCCGACGGATCGACCCCGGGTAAGTGGGCGACTAGGTGAGTTTCGAGGAACGGGTTTTGT
322 TCCCTTCCGACGGATCGACCCCGGATAAGTGGGCGACTGGGCGAGTTTCGAGGAACGGGTCTTGT
* *
7046523 TGGAACCGAATTCAGGCGT
387 TGGAACCGGATTCGGGCGT
*
7046542 AAAATACCCTTACTATATATATAAGTAA-TTCTGTTT-AGGTTTCTGAACTTTATTTCTTTCGGC
1 AAAATACCCTTACTATATATATAAGTAATTTCT-TTTAAGGTTTCTGAACTTTGTTTCTTTCGGC
*
7046605 AGACCCTGTTTTTTTCTTTCATATCCTTTCTCCACATTAGGTAGTGAAAATCTAACTGAAAATCT
65 AGACCCTGTTTTATTCTTTCATATCCTTTCTCCACATTAGGTAGTGAAAATCTAACTGAAAATCT
*
7046670 TATCCACATGGTTGAATATGAGAAATCTTCACCCAATTAATTTTCGACGCTTGATTTCTCTCTTA
130 TATCCACATGGTTGAATCTGAGAAATCTTCACCCAATTAATTTTCGACGCTTGATTTCTCTCTTA
* * *
7046735 TCAGACAGTACAGTGGGTGTTAGTGATACTATCACCTTTAGATTTGATGCATTTACAGCCGAATT
195 TCAGACAGTACAGTGGGTGTTAGTG-TACTATCACCTTCAGATTTGGTGCATTTACAGTCGAATT
7046800 TTAAACTCCATGATCTTTTCAAAAATTTTCTTCCACCCATAGCGTGACGCTGAAGCTGACGTATC
259 TTAAACTCCATGATCTTTTCAAAAATTTTCTTCCACCCATAGCGTGACGCTGAAGCTGACGTATC
* * *
7046865 CCTTCTGACGGATTGACCCCGAATAAGTGGGCGACTGGGCGAGTTTCGAGGAACGGGTCTTGTTG
324 CCTTCCGACGGATCGACCCCGGATAAGTGGGCGACTGGGCGAGTTTCGAGGAACGGGTCTTGTTG
7046930 GAACCGGATTCGGGCGT
389 GAACCGGATTCGGGCGT
* *
7046947 AAAATACCCTTCCTATATATATAAGTAATTTCTTTTAAGGTTTTTGAACTTTGTTTCTTTCGGCA
1 AAAATACCCTTACTATATATATAAGTAATTTCTTTTAAGGTTTCTGAACTTTGTTTCTTTCGGCA
*
7047012 GACCCTGTTTTATTCTTTCATATCCTTTCTCCGCATTAGGTAGTGAAAATCTAACTGAAAATCTT
66 GACCCTGTTTTATTCTTTCATATCCTTTCTCCACATTAGGTAGTGAAAATCTAACTGAAAATCTT
* * * *
7047077 ATCCATATGGTTGAATCTAAAAAATCTTCACCCAATTAATTTTCGACGCTTGATTTTTCTCTTAT
131 ATCCACATGGTTGAATCTGAGAAATCTTCACCCAATTAATTTTCGACGCTTGATTTCTCTCTTAT
*
7047142 CAGACAGTGCAGTGGGTGTTAGTGGTACTATCACCTTCAGATTTGGTGCATTTACAGTCGAATTT
196 CAGACAGTACAGTGGGTGTTAGT-GTACTATCACCTTCAGATTTGGTGCATTTACAGTCGAATTT
* * ** * * * * * *
7047207 TAAACTTCATGATCTCTTCAAAAAAAATT-TTCCACCCATAGCATGACACTGACGTTGATGCATC
260 TAAACTCCATGATCTTTTC-AAAAATTTTCTTCCACCCATAGCGTGACGCTGAAGCTGACGTATC
* * * * * *
7047271 TCTTCCGACGGATCAACCCCGGACAGGTGGGCGACTGGACGAGTTTCGAAGAACGGGTCTTGTTG
324 CCTTCCGACGGATCGACCCCGGATAAGTGGGCGACTGGGCGAGTTTCGAGGAACGGGTCTTGTTG
7047336 GAACCGGATTCGGGCG
389 GAACCGGATTCGGGCG
7047352 CATCCAGTTC
Statistics
Matches: 745, Mismatches: 49, Indels: 25
0.91 0.06 0.03
Matches are distributed among these distances:
398 131 0.18
399 32 0.04
402 1 0.00
404 10 0.01
405 215 0.29
406 348 0.47
407 8 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (405 bp):
AAAATACCCTTACTATATATATAAGTAATTTCTTTTAAGGTTTCTGAACTTTGTTTCTTTCGGCA
GACCCTGTTTTATTCTTTCATATCCTTTCTCCACATTAGGTAGTGAAAATCTAACTGAAAATCTT
ATCCACATGGTTGAATCTGAGAAATCTTCACCCAATTAATTTTCGACGCTTGATTTCTCTCTTAT
CAGACAGTACAGTGGGTGTTAGTGTACTATCACCTTCAGATTTGGTGCATTTACAGTCGAATTTT
AAACTCCATGATCTTTTCAAAAATTTTCTTCCACCCATAGCGTGACGCTGAAGCTGACGTATCCC
TTCCGACGGATCGACCCCGGATAAGTGGGCGACTGGGCGAGTTTCGAGGAACGGGTCTTGTTGGA
ACCGGATTCGGGCGT
Found at i:7052076 original size:17 final size:15
Alignment explanation
Indices: 7052056--7052102 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
7052046 TTTTAACATA
7052056 TTGTTAGTTATTATATT
1 TTGTT-GTTA-TATATT
7052073 TTGTTGTTATATATT
1 TTGTTGTTATATATT
*
7052088 AT-TTGTTA-ATATT
1 TTGTTGTTATATATT
7052101 TT
1 TT
7052103 ATTATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 7 0.25
16 4 0.14
17 5 0.18
ACGTcount: A:0.23, C:0.00, G:0.11, T:0.66
Consensus pattern (15 bp):
TTGTTGTTATATATT
Found at i:7052237 original size:17 final size:14
Alignment explanation
Indices: 7052204--7052259 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 14
7052194 TGGTAAATAA
7052204 TATTATTTTTTTAAT
1 TATTA-TTTTTTAAT
7052219 TAATTCATTTTTTATAT
1 T-ATT-ATTTTTTA-AT
*
7052236 TATTATTTTTAAAT
1 TATTATTTTTTAAT
7052250 ATATTATTTT
1 -TATTATTTT
7052260 ATGAAATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
14 2 0.06
15 17 0.47
16 13 0.36
17 4 0.11
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATTTTTTAAT
Found at i:7052243 original size:15 final size:15
Alignment explanation
Indices: 7052204--7052259 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 15
7052194 TGGTAAATAA
7052204 TATTATTTTTT-TAAT
1 TATTATTTTTTAT-AT
7052219 TAATTCATTTTTTATAT
1 T-ATT-ATTTTTTATAT
*
7052236 TATTA-TTTTTAAAT
1 TATTATTTTTTATAT
7052250 ATATTATTTT
1 -TATTATTTT
7052260 ATGAAATTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 8 0.23
15 7 0.20
16 9 0.26
17 10 0.29
18 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTATTTTTTATAT
Found at i:7052259 original size:29 final size:29
Alignment explanation
Indices: 7052203--7052259 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
7052193 TTGGTAAATA
*
7052203 ATATTATTTTTTTAATTAATTCATTTTTT
1 ATATTATTTTTTTAAATAATTCATTTTTT
7052232 ATATTATTATTTTTAAATATATT-ATTTT
1 ATATTATT-TTTTTAAATA-ATTCATTTT
7052260 ATGAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 8 0.32
30 14 0.56
31 3 0.12
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (29 bp):
ATATTATTTTTTTAAATAATTCATTTTTT
Found at i:7064927 original size:41 final size:41
Alignment explanation
Indices: 7064852--7064931 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
7064842 GAGTTTTATC
* * * *
7064852 GATGATCATTTGTTGAGATCATTTTAAATGCATGATTTACA
1 GATGATCATTTATTGAGATCATCTCAAATACATGATTTACA
*
7064893 GATGATCATTTATTGAGATCATCTCGAATACATGATTTA
1 GATGATCATTTATTGAGATCATCTCAAATACATGATTTA
7064932 TAGTTATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (41 bp):
GATGATCATTTATTGAGATCATCTCAAATACATGATTTACA
Found at i:7066295 original size:23 final size:26
Alignment explanation
Indices: 7066243--7066295 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 26
7066233 AACTTTAAAT
7066243 AATTTTATTAGTATGATATAATCAATA
1 AATTTTATTAGTA-GATATAATCAATA
*
7066270 AATTTTATTA-TA-ATA-AATTAATA
1 AATTTTATTAGTAGATATAATCAATA
7066293 AAT
1 AAT
7066296 AAATGAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 10 0.40
24 3 0.12
26 2 0.08
27 10 0.40
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (26 bp):
AATTTTATTAGTAGATATAATCAATA
Found at i:7066296 original size:12 final size:12
Alignment explanation
Indices: 7066281--7066356 Score: 50
Period size: 12 Copynumber: 6.6 Consensus size: 12
7066271 ATTTTATTAT
7066281 AATAAATTAATA
1 AATAAATTAATA
*
7066293 AATAAATGAATA
1 AATAAATTAATA
* ** *
7066305 TATATGTTCATA
1 AATAAATTAATA
* *
7066317 ATTAAATAAATA
1 AATAAATTAATA
* *
7066329 ATTAAAATAA-A
1 AATAAATTAATA
7066340 AATAAA--AATA
1 AATAAATTAATA
7066350 AATAAAT
1 AATAAAT
7066357 ATATTAAAAT
Statistics
Matches: 47, Mismatches: 15, Indels: 5
0.70 0.22 0.07
Matches are distributed among these distances:
9 2 0.04
10 7 0.15
11 6 0.13
12 32 0.68
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (12 bp):
AATAAATTAATA
Found at i:7066478 original size:29 final size:27
Alignment explanation
Indices: 7066416--7066478 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
7066406 AAAGACATTA
7066416 AATATAAAAATTATTATATTTAAACTTT
1 AATAT-AAAATTATTATATTTAAACTTT
* * *
7066444 AA-ATAAATTTATTATATATATTAATTTT
1 AATATAAAATTATTATAT-T-TAAACTTT
7066472 AATATAA
1 AATATAA
7066479 TTTTTTCTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 12 0.41
27 3 0.10
28 10 0.34
29 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
AATATAAAATTATTATATTTAAACTTT
Found at i:7069096 original size:8 final size:8
Alignment explanation
Indices: 7069085--7069127 Score: 68
Period size: 8 Copynumber: 5.4 Consensus size: 8
7069075 GATGTTCTCT
*
7069085 CTCTCTCA
1 CTCTTTCA
7069093 CTCTTTCA
1 CTCTTTCA
7069101 CTCTTTCA
1 CTCTTTCA
*
7069109 CTCTTTCC
1 CTCTTTCA
7069117 CTCTTTCA
1 CTCTTTCA
7069125 CTC
1 CTC
7069128 CCCTTTGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.09, C:0.44, G:0.00, T:0.47
Consensus pattern (8 bp):
CTCTTTCA
Found at i:7070347 original size:2 final size:2
Alignment explanation
Indices: 7070340--7070371 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
7070330 TCTTTGTTCC
*
7070340 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7070372 TCTTTTATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7074258 original size:19 final size:18
Alignment explanation
Indices: 7074236--7074286 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
7074226 ATAAAAATAT
7074236 AAATATAATATAAATTATA
1 AAATATAATATAAATT-TA
* *
7074255 AAATAT-GTTTAAATTTA
1 AAATATAATATAAATTTA
7074272 AAATATAAATATAAA
1 AAATAT-AATATAAA
7074287 ATATTTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 8 0.31
18 7 0.27
19 11 0.42
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (18 bp):
AAATATAATATAAATTTA
Found at i:7074575 original size:12 final size:12
Alignment explanation
Indices: 7074547--7074593 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
7074537 TTAATACTTA
*
7074547 TTTAATATGTA-
1 TTTAATATATAT
7074558 TTTAATATATAT
1 TTTAATATATAT
*
7074570 TTTAATTTATAT
1 TTTAATATATAT
*
7074582 TTATATTATATA
1 TT-TAATATATA
7074594 ACTATATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 10 0.33
12 13 0.43
13 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (12 bp):
TTTAATATATAT
Found at i:7074582 original size:23 final size:25
Alignment explanation
Indices: 7074547--7074593 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
7074537 TTAATACTTA
*
7074547 TTTAATATGTATTTA-A-TATATAT
1 TTTAATATATATTTATATTATATAT
*
7074570 TTTAATTTATATTTATATTATATA
1 TTTAATATATATTTATATTATATA
7074594 ACTATATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 1 0.05
25 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTAATATATATTTATATTATATAT
Found at i:7074584 original size:11 final size:11
Alignment explanation
Indices: 7074545--7074584 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
7074535 AATTAATACT
*
7074545 TATTTAATATG
1 TATTTAATATA
7074556 TATTTAATATA
1 TATTTAATATA
*
7074567 TATTTTAATTTA
1 TA-TTTAATATA
7074579 TATTTA
1 TATTTA
7074585 TATTATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (11 bp):
TATTTAATATA
Found at i:7075005 original size:13 final size:13
Alignment explanation
Indices: 7074985--7075030 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
7074975 CATAATAAAA
7074985 TTTA-TATATAAT
1 TTTATTATATAAT
7074997 TTTATTATATAA-
1 TTTATTATATAAT
*
7075009 TTT-TTATATTAT
1 TTTATTATATAAT
*
7075021 ATTATTATAT
1 TTTATTATAT
7075031 TATATCTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 7 0.24
12 9 0.31
13 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTATTATATAAT
Found at i:7075010 original size:24 final size:24
Alignment explanation
Indices: 7074983--7075030 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
7074973 ATCATAATAA
*
7074983 AATTTATATATAATTTTATTATAT
1 AATTTATATATAATATTATTATAT
* *
7075007 AATTTTTATATTATATTATTATAT
1 AATTTATATATAATATTATTATAT
7075031 TATATCTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
AATTTATATATAATATTATTATAT
Found at i:7075031 original size:13 final size:13
Alignment explanation
Indices: 7074998--7075035 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
7074988 ATATATAATT
7074998 TTATTATA-TA-A
1 TTATTATATTATA
*
7075009 TTTTTATATTATA
1 TTATTATATTATA
7075022 TTATTATATTATA
1 TTATTATATTATA
7075035 T
1 T
7075036 CTAAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 7 0.30
12 2 0.09
13 14 0.61
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:7085224 original size:10 final size:10
Alignment explanation
Indices: 7085209--7085233 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7085199 TTATATTGGG
7085209 ATTTAAATAA
1 ATTTAAATAA
7085219 ATTTAAATAA
1 ATTTAAATAA
7085229 ATTTA
1 ATTTA
7085234 TAATTTATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATTTAAATAA
Found at i:7088696 original size:12 final size:12
Alignment explanation
Indices: 7088679--7088703 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7088669 TCTAATATAT
7088679 ATGTTAGAGGTG
1 ATGTTAGAGGTG
7088691 ATGTTAGAGGTG
1 ATGTTAGAGGTG
7088703 A
1 A
7088704 ATGATAGAAG
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:0.28, C:0.00, G:0.40, T:0.32
Consensus pattern (12 bp):
ATGTTAGAGGTG
Found at i:7092268 original size:29 final size:30
Alignment explanation
Indices: 7092235--7092307 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
7092225 TATAATTTTA
*
7092235 AATATAATATAATATTATAATAAAAA-AAT
1 AATATAATTTAATATTATAATAAAAATAAT
* *
7092264 AATATAATTTAAAATTTTAATAAAAATAAT
1 AATATAATTTAATATTATAATAAAAATAAT
7092294 -ATATTAATTTAATA
1 AATA-TAATTTAATA
7092308 AAAATAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 26 0.68
30 12 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (30 bp):
AATATAATTTAATATTATAATAAAAATAAT
Found at i:7092304 original size:22 final size:22
Alignment explanation
Indices: 7092279--7092329 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 22
7092269 AATTTAAAAT
*
7092279 TTTAATAAAAATAATATATTA-A
1 TTTAATAAAAATAA-AAATTATA
7092301 TTTAATAAAAATAAAAATTATA
1 TTTAATAAAAATAAAAATTATA
7092323 TTTAATA
1 TTTAATA
7092330 TTATATATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTAATAAAAATAAAAATTATA
Found at i:7092342 original size:18 final size:18
Alignment explanation
Indices: 7092319--7092381 Score: 51
Period size: 18 Copynumber: 3.5 Consensus size: 18
7092309 AAATAAAAAT
7092319 TATATTTAATATTATATA
1 TATATTTAATATTATATA
*
7092337 TATA-TTAATCATAATATA
1 TATATTTAAT-ATTATATA
* *
7092355 -ATAATTTTTATAGT-TATA
1 TAT-A-TTTAATATTATATA
7092373 TATATTTAA
1 TATATTTAA
7092382 CATAAAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 11
0.69 0.10 0.22
Matches are distributed among these distances:
17 11 0.31
18 17 0.49
19 3 0.09
20 4 0.11
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
TATATTTAATATTATATA
Found at i:7092910 original size:29 final size:28
Alignment explanation
Indices: 7092876--7092945 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
7092866 TATATTAAAA
7092876 TATTAATATAATATTTAAAATTTAAAAATT
1 TATTAATATAATATTT-AAA-TTAAAAATT
* * *
7092906 T-TTAATATGATATTTGAATTATAAATT
1 TATTAATATAATATTTAAATTAAAAATT
7092933 TATTAAT-TAATAT
1 TATTAATATAATAT
7092946 CATGCTTGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 14 0.40
28 7 0.20
29 13 0.37
30 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (28 bp):
TATTAATATAATATTTAAATTAAAAATT
Found at i:7096290 original size:22 final size:22
Alignment explanation
Indices: 7096265--7096307 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7096255 AAATGAATAG
* * *
7096265 AATAAGATAAGATGATATTATA
1 AATAAAATAAAATAATATTATA
7096287 AATAAAATAAAATAATATTAT
1 AATAAAATAAAATAATATTAT
7096308 CATATCTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (22 bp):
AATAAAATAAAATAATATTATA
Found at i:7098166 original size:3 final size:3
Alignment explanation
Indices: 7098154--7098208 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
7098144 TTTTTTTTTT
*
7098154 TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
7098202 TTC TTC T
1 TTC TTC T
7098209 CAGAAACATT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:7104021 original size:3 final size:3
Alignment explanation
Indices: 7104015--7104072 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
7104005 TATTTATTTG
* * *
7104015 TTA TTA TTA TTA GTA TTA -TA TT- TT- TTGT TTA CTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA -TTA TTA TTA
7104059 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
7104073 TATGATTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
2 6 0.13
3 36 0.78
4 4 0.09
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7105060 original size:123 final size:120
Alignment explanation
Indices: 7104912--7105275 Score: 339
Period size: 123 Copynumber: 2.9 Consensus size: 120
7104902 ATGATTTTTC
*
7104912 TAAAATAAAAATTTTAAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATGTTTCTTGAAAA
1 TAAAA-AAAAAGTTT-AAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAAT-TTTCTTGAAAA
7104976 TAAAATTTTTTTAAAAAAATATTTTTAAGGGAAAGTTGAAAATATCAATTTCCATGAAAA
62 TAAAATTTTTTTAAAAAAATATTTTT-AGGGAAAGTTGAAAATATCAATTTCCATGAAAA
*
7105036 TTAAAAAAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
1 -TAAAAAAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAA-TTTTCTTGAAAATA
* ** * ** * **
7105101 AAGTTTCTAAAATAAAAAATTTCAAAAACATTTTGGGGGGAAGTT-AAAAGTATCAATTTTTATG
64 AAATTT-T----T------TTAAAAAAATATTTTTAGGGAAAGTTGAAAA-TATCAATTTCCATG
7105165 AAAA
117 AAAA
7105169 T---AAAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAA-TTTCTCTGAAAATAA
1 TAAAAAAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCT-TGAAAATAA
**** *
7105230 AAAAAATTT--AAAAATATTTTTAGAGAAAAGTTGAAAATATCAATTT
65 AATTTTTTTAAAAAAATATTTTTAG-GGAAAGTTGAAAATATCAATTT
7105276 TTCTTAAAAA
Statistics
Matches: 200, Mismatches: 22, Indels: 43
0.75 0.08 0.16
Matches are distributed among these distances:
115 11 0.05
116 15 0.08
117 6 0.03
123 51 0.25
124 11 0.05
125 5 0.03
127 5 0.03
128 10 0.05
129 45 0.22
132 5 0.03
133 24 0.12
134 12 0.06
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.34
Consensus pattern (120 bp):
TAAAAAAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTTGAAAATAAA
ATTTTTTTAAAAAAATATTTTTAGGGAAAGTTGAAAATATCAATTTCCATGAAAA
Found at i:7105225 original size:58 final size:56
Alignment explanation
Indices: 7105104--7105299 Score: 216
Period size: 58 Copynumber: 3.4 Consensus size: 56
7105094 AAAAATAAAG
* * ** *
7105104 TTTCT-AAAATAAAAAATTTCAAAAACA-TTTTGGGGGGAAGTTAAAAGTATCAATT
1 TTTCTGAAAATAAAAAATTT-AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATT
*
7105159 TTTATGAAAATAAAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATT
1 TTTCTGAAAATAAAAAA-TTT-AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATT
* * *
7105217 TCTCTGAAAATAAAAAAAATTTAAAAATATTTTTAGAGAAAAGTTGAAAATATCAATT
1 TTTCTGAAAAT--AAAAAATTTAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATT
* **
7105275 TTTCTTAAAAATAAAATTTTTAAAA
1 TTTC-TGAAAATAAAAAATTTAAAA
7105300 TAAAAATTTT
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
55 4 0.03
56 11 0.09
57 20 0.17
58 70 0.58
59 9 0.08
60 6 0.05
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.35
Consensus pattern (56 bp):
TTTCTGAAAATAAAAAATTTAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATT
Found at i:7105281 original size:187 final size:189
Alignment explanation
Indices: 7104908--7105383 Score: 640
Period size: 187 Copynumber: 2.5 Consensus size: 189
7104898 TTTAATGATT
* * *
7104908 TTTCTAAAATAAAAATTTTAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATGTTTCTTGA
1 TTTCTAAAATAAAAATTTT-CAAAAACA-TTTTGGGGAAAAGTTGAAAGTATCAAT-TTT-TTGA
***
7104973 AAATAAAATTTTTTTAAAAAAATATTTTTAAGGGAAAGTTGAAAATATCAATTTCCATGAAAATT
62 AAATAAAA-AAGTTT-AAAAAATATTTTT-AGGGAAAGTTGAAAATATCAATTTCCATGAAAATT
* *
7105038 AAAAAAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA
124 AAAAAAAAAGTTTAAAAAATATTTTTAGAGAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAA
*
7105103 G
189 A
* ** *
7105104 TTTCTAAAATAAAAAATTTCAAAAACATTTTGGGGGGAAGTTAAAAGTATCAATTTTTATGAAAA
1 TTTCTAAAATAAAAATTTTCAAAAACATTTTGGGGAAAAGTTGAAAGTATCAATTTTT-TGAAAA
*
7105169 TAAAAAAGTTTAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTCTC-TGAAAA-T-AAA
65 TAAAAAAGTTTAAAAAATATTTTTAGGG-AAAGTTGAAAATATCAATTTC-CATGAAAATTAAAA
7105231 AAAAA-TTT-AAAAATATTTTTAGAGAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAA
128 AAAAAGTTTAAAAAATATTTTTAGAGAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAA
* *
7105291 TTTTTAAAATAAAAATTTTCAAAAACATTTTGGAGGAAAAAGTTGAAAGTATCAATTTCTCTGAA
1 TTTCTAAAATAAAAATTTTCAAAAACATTTTGG-GG-AAAAGTTGAAAGTATCAATTT-TTTGAA
7105356 AAT-AAAAAGTTTTAAAAAATATTTTTAG
63 AATAAAAAAG-TTTAAAAAATATTTTTAG
7105384 AAAAATATTA
Statistics
Matches: 253, Mismatches: 20, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
187 80 0.32
188 11 0.04
189 51 0.20
190 6 0.02
191 39 0.15
192 5 0.02
193 14 0.06
194 23 0.09
195 6 0.02
196 18 0.07
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (189 bp):
TTTCTAAAATAAAAATTTTCAAAAACATTTTGGGGAAAAGTTGAAAGTATCAATTTTTTGAAAAT
AAAAAAGTTTAAAAAATATTTTTAGGGAAAGTTGAAAATATCAATTTCCATGAAAATTAAAAAAA
AAGTTTAAAAAATATTTTTAGAGAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAA
Found at i:7105299 original size:15 final size:16
Alignment explanation
Indices: 7105279--7105315 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
7105269 TCAATTTTTC
7105279 TTAAAAAT-AAAATTT
1 TTAAAAATAAAAATTT
7105294 TT-AAAATAAAAATTT
1 TTAAAAATAAAAATTT
*
7105309 TCAAAAA
1 TTAAAAA
7105316 CATTTTGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.26
15 10 0.53
16 4 0.21
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAAAATAAAAATTT
Found at i:7105305 original size:73 final size:73
Alignment explanation
Indices: 7105230--7105372 Score: 177
Period size: 73 Copynumber: 2.0 Consensus size: 73
7105220 CTGAAAATAA
* *
7105230 AAAAAATTT-AAAAATATTTTTAGA-G-AAAAGTTGAAAATATCAATTTTTCTTAAAAAT-AAAA
1 AAAAAATTTCAAAAACA-TTTTAGAGGAAAAAGTTGAAAATATCAATTTCTC-TAAAAATAAAAA
*
7105291 TTTTTAAAAT
64 GTTTTAAAAT
* * * *
7105301 AAAAATTTTCAAAAACATTTTGGAGGAAAAAGTTGAAAGTATCAATTTCTCTGAAAATAAAAAGT
1 AAAAAATTTCAAAAACATTTTAGAGGAAAAAGTTGAAAATATCAATTTCTCTAAAAATAAAAAGT
7105366 TTTAAAA
66 TTTAAAA
7105373 AATATTTTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
71 14 0.23
72 13 0.21
73 34 0.56
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (73 bp):
AAAAAATTTCAAAAACATTTTAGAGGAAAAAGTTGAAAATATCAATTTCTCTAAAAATAAAAAGT
TTTAAAAT
Found at i:7105398 original size:58 final size:58
Alignment explanation
Indices: 7105296--7105406 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
7105286 TAAAATTTTT
* * *
7105296 AAAATAAAAATTTTCAAAAACATTTTGGAGGAAAAAGTTGAAAGTATCAATTTCTCTG
1 AAAATAAAAATTTTAAAAAACATTTTGGAGGAAAAAATTAAAAGTATCAATTTCTCTG
* * *
7105354 AAAATAAAAAGTTTTAAAAAATATTTT-TA-GAAAAATATTAAAAGTATTAATTT
1 AAAATAAAAA-TTTTAAAAAACATTTTGGAGGAAAAA-ATTAAAAGTATCAATTT
7105407 TTCACTTTCC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
57 6 0.13
58 25 0.56
59 14 0.31
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.34
Consensus pattern (58 bp):
AAAATAAAAATTTTAAAAAACATTTTGGAGGAAAAAATTAAAAGTATCAATTTCTCTG
Found at i:7109252 original size:14 final size:13
Alignment explanation
Indices: 7109206--7109245 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
7109196 AATGACAGGC
*
7109206 AACAAAAAAAAAA
1 AACATAAAAAAAA
*
7109219 AAAATAAAAAAAA
1 AACATAAAAAAAA
7109232 AACATAAACAAAAA
1 AACATAAA-AAAAA
7109246 CCTATAACGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 18 0.78
14 5 0.22
ACGTcount: A:0.88, C:0.07, G:0.00, T:0.05
Consensus pattern (13 bp):
AACATAAAAAAAA
Found at i:7126838 original size:14 final size:14
Alignment explanation
Indices: 7126819--7126848 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7126809 TTTGACAAGG
7126819 AAAATAGAAATATT
1 AAAATAGAAATATT
*
7126833 AAAATAGAAATTTT
1 AAAATAGAAATATT
7126847 AA
1 AA
7126849 TTAAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (14 bp):
AAAATAGAAATATT
Found at i:7127606 original size:24 final size:23
Alignment explanation
Indices: 7127565--7127609 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
7127555 GATTAAAATA
*
7127565 TTAAAAAATTATTTTTAAAAACT
1 TTAAAAAAATATTTTTAAAAACT
7127588 TTAAATAAAATATTTTTAAAAA
1 TTAAA-AAAATATTTTTAAAAA
7127610 ATATATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TTAAAAAAATATTTTTAAAAACT
Found at i:7131155 original size:22 final size:21
Alignment explanation
Indices: 7131113--7131180 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 21
7131103 GATCGAATCA
*
7131113 AATTTAAATATTTTTATATTT
1 AATTAAAATATTTTTATATTT
7131134 AATTAAAATAATTTATTA-ATTT
1 AATTAAAAT-ATTT-TTATATTT
7131156 AATT--AA-ATTTTTATATTTT
1 AATTAAAATATTTTTATA-TTT
7131175 AATTAA
1 AATTAA
7131181 TAAAAAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
17 3 0.08
18 5 0.12
19 7 0.17
20 2 0.05
21 8 0.20
22 12 0.30
23 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTAAAATATTTTTATATTT
Found at i:7131733 original size:2 final size:2
Alignment explanation
Indices: 7131726--7131755 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7131716 ACAAAGGACC
7131726 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
7131756 CAACCACATA
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:7142333 original size:27 final size:25
Alignment explanation
Indices: 7142303--7142394 Score: 60
Period size: 27 Copynumber: 3.4 Consensus size: 25
7142293 ATGAAAACTT
7142303 TAAAATTAAAAAAAGTCAAAATTTTAA
1 TAAAATTAAAAAAA-T-AAAATTTTAA
* * **
7142330 TAAAA-AAATACAAAACTTAAATTTTTT
1 TAAAATTAA-A-AAAA-TAAAATTTTAA
7142357 TGAAAAATTCAAAAAAATAAAAATTTTAA
1 T--AAAATT-AAAAAAAT-AAAATTTTAA
7142386 TAAAATTAA
1 TAAAATTAA
7142395 TATTTTCCTA
Statistics
Matches: 49, Mismatches: 9, Indels: 15
0.67 0.12 0.21
Matches are distributed among these distances:
26 4 0.08
27 20 0.41
28 6 0.12
29 16 0.33
30 1 0.02
31 2 0.04
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (25 bp):
TAAAATTAAAAAAATAAAATTTTAA
Found at i:7142645 original size:28 final size:27
Alignment explanation
Indices: 7142621--7142672 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
7142611 AAATTTTAGC
*
7142621 ATATTTC-AATTTTTTGAAAATTTTTA
1 ATATTTCAAATTTTTTAAAAATTTTTA
*
7142647 ATTTTTCATAATTTTTTAAAAATTTT
1 ATATTTCA-AATTTTTTAAAAATTTT
7142673 AAGAATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
28 16 0.73
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (27 bp):
ATATTTCAAATTTTTTAAAAATTTTTA
Found at i:7142672 original size:21 final size:21
Alignment explanation
Indices: 7142649--7142701 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
7142639 AATTTTTAAT
7142649 TTTTCATAATTTTTTA-AAAA
1 TTTTCATAATTTTTTATAAAA
* * *
7142669 TTTTAAGAATTTTTTATTAAA
1 TTTTCATAATTTTTTATAAAA
7142690 TTTTCAT-ATTTT
1 TTTTCATAATTTT
7142702 AAAAAAGTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTCATAATTTTTTATAAAA
Found at i:7142761 original size:14 final size:13
Alignment explanation
Indices: 7142742--7142776 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
7142732 TTTCAAAAAA
7142742 TTTAGATTTTTTAT
1 TTTAGATTTTTT-T
7142756 TTTAGATTTTTTT
1 TTTAGATTTTTTT
7142769 TTTA-ATTT
1 TTTAGATTT
7142777 GAAGAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.19
13 5 0.24
14 12 0.57
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (13 bp):
TTTAGATTTTTTT
Found at i:7142806 original size:19 final size:18
Alignment explanation
Indices: 7142784--7142844 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
7142774 TTTGAAGAAA
7142784 TTTTTATTTCTATTACAAT
1 TTTTTATTTCTATTA-AAT
*
7142803 TTTTTAATTTTTATTAAAT
1 TTTTT-ATTTCTATTAAAT
*
7142822 TTTTTAATTT-T-TTGAAT
1 TTTTT-ATTTCTATTAAAT
7142839 TTTTTA
1 TTTTTA
7142845 AATTTAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.03
17 10 0.26
18 1 0.03
19 18 0.46
20 9 0.23
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTTATTTCTATTAAAT
Found at i:7142807 original size:20 final size:19
Alignment explanation
Indices: 7142784--7142866 Score: 77
Period size: 17 Copynumber: 4.5 Consensus size: 19
7142774 TTTGAAGAAA
7142784 TTTTT-ATTTCTATTACAAT
1 TTTTTAATTTCTATTA-AAT
*
7142803 TTTTTAATTTTTATTAAAT
1 TTTTTAATTTCTATTAAAT
*
7142822 TTTTTAATTT-T-TTGAAT
1 TTTTTAATTTCTATTAAAT
* *
7142839 TTTTTAAATT-TAAT-AAT
1 TTTTTAATTTCTATTAAAT
7142856 TTTTATAATTT
1 TTTT-TAATTT
7142867 GTAAAAATGA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
17 22 0.39
18 7 0.12
19 18 0.32
20 9 0.16
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.66
Consensus pattern (19 bp):
TTTTTAATTTCTATTAAAT
Found at i:7142828 original size:9 final size:9
Alignment explanation
Indices: 7142800--7142849 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
7142790 TTTCTATTAC
7142800 AATTTTTTA
1 AATTTTTTA
*
7142809 ATTTTTATTA
1 AATTTT-TTA
7142819 AATTTTTT-
1 AATTTTTTA
*
7142827 AATTTTTTG
1 AATTTTTTA
7142836 AATTTTTTA
1 AATTTTTTA
7142845 AATTT
1 AATTT
7142850 AATAATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 8 0.22
9 20 0.56
10 8 0.22
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (9 bp):
AATTTTTTA
Found at i:7142832 original size:26 final size:25
Alignment explanation
Indices: 7142800--7142866 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 25
7142790 TTTCTATTAC
**
7142800 AATTTTTTAATTTTTATTAAATTTTTT
1 AATTTTTTAA-TTTT-TTAAATTTAAT
7142827 AATTTTTTGAATTTTTTAAATTTAAT
1 AATTTTTT-AATTTTTTAAATTTAAT
7142853 AATTTTTATAATTT
1 AATTTTT-TAATTT
7142867 GTAAAAATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 21 0.58
27 13 0.36
28 2 0.06
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (25 bp):
AATTTTTTAATTTTTTAAATTTAAT
Found at i:7142863 original size:9 final size:8
Alignment explanation
Indices: 7142800--7142866 Score: 62
Period size: 9 Copynumber: 7.6 Consensus size: 8
7142790 TTTCTATTAC
7142800 AATTTTTT
1 AATTTTTT
7142808 AATTTTTATT
1 AA-TTTT-TT
7142818 AAATTTTTT
1 -AATTTTTT
7142827 AATTTTTT
1 AATTTTTT
7142835 GAATTTTTT
1 -AATTTTTT
**
7142844 AAATTTAAT
1 -AATTTTTT
7142853 AATTTTTAT
1 AATTTTT-T
7142862 AATTT
1 AATTT
7142867 GTAAAAATGA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
8 15 0.31
9 26 0.53
10 6 0.12
11 2 0.04
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (8 bp):
AATTTTTT
Found at i:7143324 original size:21 final size:21
Alignment explanation
Indices: 7143300--7143375 Score: 59
Period size: 21 Copynumber: 3.7 Consensus size: 21
7143290 GCATTAAAAG
*
7143300 AAAATTTATAAAAAATTATTT
1 AAAAATTATAAAAAATTATTT
* *
7143321 AAAAAATCTAAAAAA-T-TTT
1 AAAAATTATAAAAAATTATTT
* * *
7143340 AAAGAGTTTAAAAAAAATTA-TA
1 AAA-A-ATTATAAAAAATTATTT
7143362 AAAAATTATAAAAA
1 AAAAATTATAAAAA
7143376 CTGAAATGTT
Statistics
Matches: 41, Mismatches: 10, Indels: 9
0.68 0.17 0.15
Matches are distributed among these distances:
19 6 0.15
20 10 0.24
21 20 0.49
22 5 0.12
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (21 bp):
AAAAATTATAAAAAATTATTT
Found at i:7143364 original size:9 final size:10
Alignment explanation
Indices: 7143300--7143375 Score: 64
Period size: 10 Copynumber: 7.4 Consensus size: 10
7143290 GCATTAAAAG
*
7143300 AAAATTTATA
1 AAAAATTATA
7143310 AAAAATTATTTA
1 AAAAATTA--TA
*
7143322 AAAAA-TCTA
1 AAAAATTATA
*
7143331 AAAAATTTTA
1 AAAAATTATA
** *
7143341 AAGAGTTTAAA
1 AA-AAATTATA
7143352 AAAAATTATA
1 AAAAATTATA
7143362 AAAAATTATA
1 AAAAATTATA
7143372 AAAA
1 AAAA
7143376 CTGAAATGTT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
9 7 0.13
10 31 0.60
11 7 0.13
12 7 0.13
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (10 bp):
AAAAATTATA
Found at i:7143577 original size:19 final size:18
Alignment explanation
Indices: 7143525--7143566 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
7143515 AAACTTTTAA
7143525 AATTTTGAAAAAAATTGT
1 AATTTTGAAAAAAATTGT
7143543 AATTTTGAAAAAAATTGT
1 AATTTTGAAAAAAATTGT
7143561 AATTTT
1 AATTTT
7143567 TTTATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (18 bp):
AATTTTGAAAAAAATTGT
Found at i:7143987 original size:10 final size:10
Alignment explanation
Indices: 7143974--7144129 Score: 73
Period size: 9 Copynumber: 16.5 Consensus size: 10
7143964 TTCTTTTTTG
7143974 AATTTTTTAA
1 AATTTTTTAA
**
7143984 AATTTCAT-A
1 AATTTTTTAA
7143993 AATTTTTTAA
1 AATTTTTTAA
*
7144003 AATTTTTTAT
1 AATTTTTTAA
7144013 AA-TTTTTAA
1 AATTTTTTAA
* * *
7144022 AAGTATTT-C
1 AATTTTTTAA
7144031 AATTTTTT--
1 AATTTTTTAA
* ** *
7144039 TACCTTTTAT
1 AATTTTTTAA
7144049 AA-TTTTTAA
1 AATTTTTTAA
* *
7144058 AA-TATTTCA
1 AATTTTTTAA
*
7144067 TATTTTTTCAA
1 AATTTTTT-AA
*
7144078 AAATTTTT-A
1 AATTTTTTAA
*
7144087 GATTTTTT--
1 AATTTTTTAA
*
7144095 AATTTCTTT-G
1 AATTT-TTTAA
7144105 AATTTTTTAA
1 AATTTTTTAA
7144115 AATTTTTTAA
1 AATTTTTTAA
7144125 AATTT
1 AATTT
7144130 AATTAAATAC
Statistics
Matches: 110, Mismatches: 27, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
8 9 0.08
9 47 0.43
10 47 0.43
11 7 0.06
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:7143988 original size:30 final size:30
Alignment explanation
Indices: 7143930--7143989 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
7143920 TCTTAGAACT
* **
7143930 TTTTTTCTATTTTTTATTTTTTTTAATTTC
1 TTTTTTCTATTTTTAATTTTTTAAAATTTC
7143960 TTTTTTCT-TTTTTGAATTTTTTAAAATTTC
1 TTTTTTCTATTTTT-AATTTTTTAAAATTTC
7143990 ATAAATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.75
Consensus pattern (30 bp):
TTTTTTCTATTTTTAATTTTTTAAAATTTC
Found at i:7144018 original size:19 final size:18
Alignment explanation
Indices: 7143967--7144125 Score: 79
Period size: 19 Copynumber: 8.5 Consensus size: 18
7143957 TTCTTTTTTC
*
7143967 TTTTTTGAATTTTTTAAAA
1 TTTTTT-AAATTTTTAAAA
**
7143986 TTTCATAAATTTTTTAAAA
1 TTTTTTAAA-TTTTTAAAA
7144005 TTTTTTATAATTTTTAAAA
1 TTTTTTA-AATTTTTAAAA
* * * **
7144024 GTATTTCAATTTTT-TTA
1 TTTTTTAAATTTTTAAAA
**
7144041 CCTTTTATAATTTTTAAAA
1 TTTTTTA-AATTTTTAAAA
* * *
7144060 TATTTCATATTTTTTCAAAA
1 TTTTTTA-AATTTTT-AAAA
* * *
7144080 ATTTTTAGATTTTT-TAA
1 TTTTTTAAATTTTTAAAA
*
7144097 TTTCTTTGAATTTTTTAAAA
1 TTT-TTT-AAATTTTTAAAA
7144117 TTTTTTAAA
1 TTTTTTAAA
7144126 ATTTAATTAA
Statistics
Matches: 101, Mismatches: 31, Indels: 17
0.68 0.21 0.11
Matches are distributed among these distances:
17 8 0.08
18 21 0.21
19 57 0.56
20 15 0.15
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTTTAAATTTTTAAAA
Found at i:7148751 original size:21 final size:21
Alignment explanation
Indices: 7148704--7148753 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
7148694 TTTAATAGTG
**
7148704 TATAAATTTTGAGAATTTTTT
1 TATAAATTTTGAGAATTTTAA
*
7148725 TAATAAATTTTGATAATTTTAA
1 T-ATAAATTTTGAGAATTTTAA
7148747 TATAAAT
1 TATAAAT
7148754 AGTTTTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (21 bp):
TATAAATTTTGAGAATTTTAA
Found at i:7161497 original size:1 final size:1
Alignment explanation
Indices: 7161491--7161518 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
7161481 TCTCTACATG
7161491 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
7161519 GGAGCCTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:7164767 original size:18 final size:19
Alignment explanation
Indices: 7164724--7164774 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
7164714 TCATAATCCT
*
7164724 TAATATTATATTTAATTATA
1 TAATATTATA-TTAACTATA
7164744 T-A-ATTATA-TAACTATA
1 TAATATTATATTAACTATA
*
7164760 TAATATTACATTAAC
1 TAATATTATATTAAC
7164775 ACTTAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
16 8 0.31
17 1 0.04
18 11 0.42
19 5 0.19
20 1 0.04
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATATTATATTAACTATA
Found at i:7167229 original size:19 final size:18
Alignment explanation
Indices: 7167190--7167245 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
7167180 TATTTAAGTA
*
7167190 ATTTTTTAATAAATATGT
1 ATTTTTTAATAAATATAT
7167208 ATTTTTTAAATACAA-ATAT
1 ATTTTTT-AATA-AATATAT
*
7167227 ATTAGTTCTAATAAATATA
1 ATT--TTTTAATAAATATA
7167246 AAATAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 7 0.23
19 12 0.39
20 9 0.29
21 3 0.10
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (18 bp):
ATTTTTTAATAAATATAT
Found at i:7167270 original size:19 final size:18
Alignment explanation
Indices: 7167246--7167288 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
7167236 AATAAATATA
*
7167246 AAATAAAATTCATATTATT
1 AAATAAAATTAAT-TTATT
7167265 AAATAAAAATTAATTTATT
1 AAAT-AAAATTAATTTATT
7167284 AAATA
1 AAATA
7167289 TATCTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 13 0.59
20 8 0.36
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATAAAATTAATTTATT
Found at i:7167552 original size:14 final size:14
Alignment explanation
Indices: 7167533--7167568 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
7167523 CTTGATGAAT
7167533 AAGAAAAATTATAA
1 AAGAAAAATTATAA
*
7167547 AAGAAAAATTTTAA
1 AAGAAAAATTATAA
*
7167561 GAGAAAAA
1 AAGAAAAA
7167569 AAATCTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.19
Consensus pattern (14 bp):
AAGAAAAATTATAA
Found at i:7167910 original size:19 final size:20
Alignment explanation
Indices: 7167878--7167918 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
7167868 TATGTTTATA
7167878 ATTTTTTATAATTAGTAGAT
1 ATTTTTTATAATTAGTAGAT
* *
7167898 ATTTTTT-TTATTAGTATAT
1 ATTTTTTATAATTAGTAGAT
7167917 AT
1 AT
7167919 AAGTTAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (20 bp):
ATTTTTTATAATTAGTAGAT
Found at i:7170850 original size:18 final size:18
Alignment explanation
Indices: 7170827--7170863 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
7170817 AAATTTTATT
**
7170827 TTAAAAATTTAAATTAAA
1 TTAAAAATAAAAATTAAA
7170845 TTAAAAATAAAAATTAAA
1 TTAAAAATAAAAATTAAA
7170863 T
1 T
7170864 GATTTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAAAATAAAAATTAAA
Found at i:7171011 original size:19 final size:22
Alignment explanation
Indices: 7170962--7171012 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 22
7170952 TGTGAATTAC
7170962 TATA-TAATTAAAATAATAAAA
1 TATATTAATTAAAATAATAAAA
7170983 TATATT--TTAAAAT-ATAAAA
1 TATATTAATTAAAATAATAAAA
7171002 -AT-TTAATTAAA
1 TATATTAATTAAA
7171013 TTTGTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 2 0.07
18 2 0.07
19 11 0.41
20 7 0.26
21 4 0.15
22 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TATATTAATTAAAATAATAAAA
Found at i:7176693 original size:17 final size:17
Alignment explanation
Indices: 7176644--7176697 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
7176634 TTTTTATTTA
*
7176644 TTTTAGTTAATT-TTAA
1 TTTTAGTTAATTATTAT
*
7176660 TTTCA-TTAA-TA--AT
1 TTTTAGTTAATTATTAT
7176673 TTTTAGTTAATTATTAT
1 TTTTAGTTAATTATTAT
7176690 TTTTAGTT
1 TTTTAGTT
7176698 TATAGAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
13 5 0.17
14 5 0.17
15 6 0.20
16 4 0.13
17 10 0.33
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (17 bp):
TTTTAGTTAATTATTAT
Found at i:7176922 original size:3 final size:3
Alignment explanation
Indices: 7176914--7176946 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7176904 TATAAAAATT
7176914 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7176947 AGGTTTATTT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7178331 original size:20 final size:20
Alignment explanation
Indices: 7178295--7178333 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7178285 TAAACTATAT
*
7178295 AAAATAATAAAATAAAAGTA
1 AAAATAATAAAAAAAAAGTA
7178315 AAAATAA-AAATAAAAAAGT
1 AAAATAATAAA-AAAAAAGT
7178334 GGGCCTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAATAATAAAAAAAAAGTA
Found at i:7188631 original size:1 final size:1
Alignment explanation
Indices: 7188625--7188661 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
7188615 GGTTTTCTAG
7188625 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
7188662 AATTTAAACT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:7190636 original size:2 final size:2
Alignment explanation
Indices: 7190623--7190671 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
7190613 GTACCCACCA
*
7190623 CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
7190665 CT C- CT CT
1 CT CT CT CT
7190672 TTTACTTCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:7199188 original size:109 final size:109
Alignment explanation
Indices: 7199065--7199289 Score: 369
Period size: 109 Copynumber: 2.1 Consensus size: 109
7199055 CTTCAGTTTG
*
7199065 TGCATAAATATAAAAATAATTTTACACACAATTAATTACATCAAGCACCAATGACAATTTTACAA
1 TGCATAAATATAAAAATAATTTTACACACAATTAATCACATCAAGCACCAATGACAATTTTACAA
* * *
7199130 GCATGCATGATATCATCAATATCTAACATTTAGATACACAATTA
66 GCATGCATGATATCATCAATATCCAACATTCAGATACACAATCA
* * *
7199174 TGCATAAATATAAAAATAATTTTGCACACAATTAATCACATCAAGCATCTATGACAATTTTACAA
1 TGCATAAATATAAAAATAATTTTACACACAATTAATCACATCAAGCACCAATGACAATTTTACAA
* *
7199239 GCATGCATGATATCATCAATATCCAACATTCATATACCCAATCA
66 GCATGCATGATATCATCAATATCCAACATTCAGATACACAATCA
7199283 TGCATAA
1 TGCATAA
7199290 GCAAGTTTTC
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
109 107 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (109 bp):
TGCATAAATATAAAAATAATTTTACACACAATTAATCACATCAAGCACCAATGACAATTTTACAA
GCATGCATGATATCATCAATATCCAACATTCAGATACACAATCA
Found at i:7206604 original size:36 final size:36
Alignment explanation
Indices: 7206557--7206629 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
7206547 AACTTATTGA
7206557 TATGGATCCAACTGATGGTTGAACAGGTTCCTTTTT
1 TATGGATCCAACTGATGGTTGAACAGGTTCCTTTTT
7206593 TATGGATCCAACTGATGGTTGAACAGGTTCCTTTTT
1 TATGGATCCAACTGATGGTTGAACAGGTTCCTTTTT
7206629 T
1 T
7206630 TTACTCCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (36 bp):
TATGGATCCAACTGATGGTTGAACAGGTTCCTTTTT
Found at i:7207829 original size:2 final size:2
Alignment explanation
Indices: 7207816--7207859 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
7207806 TTTGAAGCAA
* *
7207816 AT AT AT AC AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7207858 AT
1 AT
7207860 GGAGAATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7213142 original size:19 final size:19
Alignment explanation
Indices: 7213118--7213154 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7213108 CCAAAGTAAA
* *
7213118 TATATTTTAAAATTTTTAC
1 TATATTTCAAAACTTTTAC
7213137 TATATTTCAAAACTTTTA
1 TATATTTCAAAACTTTTA
7213155 ATAAAATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TATATTTCAAAACTTTTAC
Found at i:7215708 original size:21 final size:21
Alignment explanation
Indices: 7215667--7215722 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
7215657 TTTTCATATG
* *
7215667 ATAATTATTT-TAATTTAAAT
1 ATAATTATTTAAAATATAAAT
7215687 ATAATTATTTAAAATATAAAT
1 ATAATTATTTAAAATATAAAT
*
7215708 AAAATTAATTTAAAA
1 ATAATT-ATTTAAAA
7215723 ATTAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 10 0.32
21 13 0.42
22 8 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAATTATTTAAAATATAAAT
Found at i:7216781 original size:12 final size:12
Alignment explanation
Indices: 7216764--7216788 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7216754 AAATGAAACG
7216764 AAAATGATATAA
1 AAAATGATATAA
7216776 AAAATGATATAA
1 AAAATGATATAA
7216788 A
1 A
7216789 TATAATAATT
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAATGATATAA
Found at i:7217844 original size:30 final size:29
Alignment explanation
Indices: 7217810--7217910 Score: 105
Period size: 30 Copynumber: 3.4 Consensus size: 29
7217800 AATTGCATAT
* *
7217810 AAATAAGTCTTTAACTTTTACTTTATATTT
1 AAATAAG-CTTTAACTTTTAATTTATATTC
*
7217840 AAATAAGCCTTTAAAC-TTTAATTTATAATC
1 AAATAAG-CTTT-AACTTTTAATTTATATTC
* *
7217870 AAATAAGCTCTTATCTTTTAATTTTTATTC
1 AAATAAGCT-TTAACTTTTAATTTATATTC
*
7217900 AAATAAACTTT
1 AAATAAGCTTT
7217911 TAATACAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
29 6 0.10
30 51 0.85
31 3 0.05
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.48
Consensus pattern (29 bp):
AAATAAGCTTTAACTTTTAATTTATATTC
Found at i:7219877 original size:15 final size:15
Alignment explanation
Indices: 7219857--7219895 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
7219847 ATGCATGTCA
7219857 TTTGAAATGAAAATT
1 TTTGAAATGAAAATT
*
7219872 TTTGAAGAAGAAAATT
1 TTTGAA-ATGAAAATT
*
7219888 GTTGAAAT
1 TTTGAAAT
7219896 CAGAAGCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (15 bp):
TTTGAAATGAAAATT
Found at i:7225761 original size:6 final size:6
Alignment explanation
Indices: 7225750--7225786 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
7225740 CCTTAATTTT
*
7225750 TTTAAA TTTAAA TTTAAA -TTAAA -TTAAA TTAAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
7225787 TCTTTTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 10 0.36
6 18 0.64
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:7225773 original size:11 final size:11
Alignment explanation
Indices: 7225750--7225782 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
7225740 CCTTAATTTT
7225750 TTTAAATTTAAA
1 TTTAAA-TTAAA
7225762 TTTAAATTAAA
1 TTTAAATTAAA
7225773 -TTAAATTAAA
1 TTTAAATTAAA
7225783 ATTTTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 5 0.24
12 6 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:7225916 original size:58 final size:59
Alignment explanation
Indices: 7225806--7226243 Score: 215
Period size: 58 Copynumber: 7.2 Consensus size: 59
7225796 TGAATTTTTT
* * *
7225806 AAAATAAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTTG
1 AAAATAAAATTTTCAAAAAAATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTG
* ** * *
7225865 AAAATTAAATTTTTTAAAAAATA-TTTTAAAGAAAAGTTGAATGTATCAA-TTTCCTTTG
1 AAAATAAAATTTTCAAAAAAATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTC-TTG
* * **** * * **
7225923 AACATAAAA--AT--AAAAAATAGGTTTTGGGGGGAAAGTTG-AATTAATCAATTTCCCTTG
1 AAAATAAAATTTTCAAAAAAATA--TTTTTAAAGAAAAGTTGAAAGT-ATCAATTTTTCTTG
** *
7225980 AAAATAAAAAGGTT-AAAAAATATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCTT-
1 AAAAT-AAAATTTTCAAAAAA-ATATTTTTAAAG-AAAAGTTGAAAGTATCAATTTTTCTTG
* * *
7226039 AAAATTAAAA-TTTCTAAAATAAAAATTTCTAAAAAGTATTTTGGGAGAAAGTTGAAATTATCAA
1 AAAA-TAAAATTTTC-AAAA-AAATATTT-T--TAA--A------GA-AAAGTTGAAAGTATCAA
7226103 TTTTTCTTG
51 TTTTTCTTG
* * *
7226112 AGAATAAAAGGGTTTTCAAAAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTTCTC
1 AAAATAAAA---TTTTC---AAAAAAATATTTTTAAAG-AAAAGTTGAAAGTATCAATTTTTCTT
7226176 G
59 G
* *
7226177 AAATTAAAA-TTTCAAAAAAAAATATTTT-AAGAAAAAGTTGAAAGTATCAATATTTT-TT-
1 AAAATAAAATTTTCAAAAAAATAT-TTTTAAAG-AAAAGTTGAAAGTATCAAT-TTTTCTTG
7226235 AAAATAAAA
1 AAAATAAAA
7226244 AAATTTTCAA
Statistics
Matches: 294, Mismatches: 45, Indels: 81
0.70 0.11 0.19
Matches are distributed among these distances:
54 8 0.03
56 3 0.01
57 27 0.09
58 59 0.20
59 57 0.19
60 37 0.13
61 15 0.05
62 3 0.01
64 1 0.00
65 32 0.11
66 1 0.00
71 1 0.00
72 30 0.10
73 4 0.01
76 5 0.02
77 7 0.02
78 4 0.01
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.36
Consensus pattern (59 bp):
AAAATAAAATTTTCAAAAAAATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTG
Found at i:7226058 original size:15 final size:15
Alignment explanation
Indices: 7226033--7226072 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
7226023 AGTATCAATT
*
7226033 TTTCTTAAAATTAAAA
1 TTTC-TAAAATAAAAA
7226049 TTTCTAAAATAAAAA
1 TTTCTAAAATAAAAA
7226064 TTTCTAAAA
1 TTTCTAAAA
7226073 AGTATTTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
TTTCTAAAATAAAAA
Found at i:7226205 original size:59 final size:61
Alignment explanation
Indices: 7226069--7226232 Score: 199
Period size: 65 Copynumber: 2.6 Consensus size: 61
7226059 AAAAATTTCT
* * * * *
7226069 AAAAAGTATTTTGGGAGAAAGTTGAAATTATCAATTTTTCTTGAGAATAAAAGGGTTTTCAAAA
1 AAAAAATATTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTCGAGAATAAAA--G-TTTCAAAA
7226133 AAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTCGA-AATTAAAA-TTTC-AAA
1 AAAAAATA-TTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTCGAGAA-TAAAAGTTTCAAAA
*
7226193 AAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATATTTT
1 AAAAAATATTTTAGGAAAAAGTTGAAAGTATCAAT-TTTT
7226233 TTAAAATAAA
Statistics
Matches: 91, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
59 26 0.29
60 15 0.16
61 4 0.04
64 9 0.10
65 37 0.41
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (61 bp):
AAAAAATATTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTCGAGAATAAAAGTTTCAAAA
Found at i:7236599 original size:8 final size:8
Alignment explanation
Indices: 7236586--7236657 Score: 83
Period size: 8 Copynumber: 9.0 Consensus size: 8
7236576 ACTATACTTG
7236586 AAAAAAAT
1 AAAAAAAT
7236594 AAAAAAAAT
1 -AAAAAAAT
7236603 AAAAAAAT
1 AAAAAAAT
7236611 AAAAAAA-
1 AAAAAAAT
**
7236618 ATGAAAAT
1 AAAAAAAT
7236626 AAAAAAAT
1 AAAAAAAT
**
7236634 AAAAAAGG
1 AAAAAAAT
*
7236642 AAAAAATT
1 AAAAAAAT
7236650 AAAAAAAT
1 AAAAAAAT
7236658 GACTCAAGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
7 5 0.09
8 40 0.75
9 8 0.15
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:7236600 original size:9 final size:9
Alignment explanation
Indices: 7236586--7236656 Score: 72
Period size: 9 Copynumber: 7.7 Consensus size: 9
7236576 ACTATACTTG
7236586 AAAAAAATA
1 AAAAAAATA
7236595 AAAAAAAT-
1 AAAAAAATA
7236603 AAAAAAATA
1 AAAAAAATA
7236612 AAAAAAATGA
1 AAAAAAAT-A
*
7236622 AAATAAAAAA
1 AAA-AAAATA
**
7236632 ATAAAAAAGG
1 A-AAAAAATA
*
7236642 AAAAAATTA
1 AAAAAAATA
7236651 AAAAAA
1 AAAAAA
7236657 TGACTCAAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
8 8 0.15
9 27 0.52
10 11 0.21
11 6 0.12
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.11
Consensus pattern (9 bp):
AAAAAAATA
Found at i:7236614 original size:23 final size:22
Alignment explanation
Indices: 7236588--7236657 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 22
7236578 TATACTTGAA
7236588 AAAAATAAAAAAAATAAAAAAAT
1 AAAAA-AAAAAAAATAAAAAAAT
*
7236611 AAAAAAAATGAAAATAAAAAAAT
1 AAAAAAAA-AAAAATAAAAAAAT
*
7236634 AAAAAAGGAAAAAATTAAAAAAAT
1 AAAAAA--AAAAAAATAAAAAAAT
7236658 GACTCAAGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
22 3 0.07
23 24 0.59
24 12 0.29
25 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (22 bp):
AAAAAAAAAAAAATAAAAAAAT
Found at i:7236653 original size:14 final size:14
Alignment explanation
Indices: 7236585--7236654 Score: 56
Period size: 13 Copynumber: 5.0 Consensus size: 14
7236575 TACTATACTT
7236585 GAAAAAAATAAAAA
1 GAAAAAAATAAAAA
*
7236599 -AAATAAAA-AAATA
1 GAAA-AAAATAAAAA
*
7236612 -AAAAAAATGAAAA
1 GAAAAAAATAAAAA
*
7236625 TAAAAAAATAAAAAA
1 GAAAAAAAT-AAAAA
*
7236640 GGAAAAAATTAAAAA
1 -GAAAAAAATAAAAA
7236655 AATGACTCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
12 4 0.09
13 13 0.29
14 12 0.27
15 9 0.20
16 7 0.16
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (14 bp):
GAAAAAAATAAAAA
Found at i:7237407 original size:21 final size:20
Alignment explanation
Indices: 7237356--7237407 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 20
7237346 TAATTAGCAA
7237356 GCATTTGCATAGCATGCATT
1 GCATTTGCATAGCATGCATT
*
7237376 GAATTT---T-GCATGCATT
1 GCATTTGCATAGCATGCATT
7237392 GCATTTCGCATAGCAT
1 GCATTT-GCATAGCAT
7237408 ATACTACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 9
0.69 0.06 0.25
Matches are distributed among these distances:
16 14 0.56
17 1 0.04
20 6 0.24
21 4 0.16
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (20 bp):
GCATTTGCATAGCATGCATT
Found at i:7237849 original size:88 final size:88
Alignment explanation
Indices: 7237708--7237972 Score: 309
Period size: 88 Copynumber: 3.0 Consensus size: 88
7237698 AGATGAGCAA
* * * *
7237708 TTTATTTTTTTTAAGTTGTTGAGCCTCTGTTTAAAGGAGCTTT-TGTTATTTTTTCAAAGTCGTT
1 TTTATTTTTTTAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTTGTTTTA-TTTTTCAAAGTCGTT
* *
7237772 GAGCCTTTGTTTAGATGAACTTTG
65 GAGCCTCTGTTTAGAGGAACTTTG
* *
7237796 TTTATTTTTTTAAAGTTGTTAAGCCTCTGTTTAGAGGAACTTTGTTTTATTTTTCTAAAGTCATT
1 TTTATTTTTTTAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTTGTTTTATTTTTC-AAAGTCGTT
* * *
7237861 GACCCTCTGTTTAGAGGAGCTTTA
65 GAGCCTCTGTTTAGAGGAACTTTG
* ** * * *
7237885 TTTATTTTTTCAAAGTCATTAAGCTTCTATTTAGAAGAGCTTTG-TTTATTTTTCCAAAGTCGTT
1 TTTATTTTTTTAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTTGTTTTATTTTT-CAAAGTCGTT
* **
7237949 AAGCCTCTACTTAGAGGAACTTTG
65 GAGCCTCTGTTTAGAGGAACTTTG
7237973 ATCAAAATTT
Statistics
Matches: 149, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
88 80 0.54
89 69 0.46
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (88 bp):
TTTATTTTTTTAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTTGTTTTATTTTTCAAAGTCGTTG
AGCCTCTGTTTAGAGGAACTTTG
Found at i:7237889 original size:89 final size:89
Alignment explanation
Indices: 7237689--7237945 Score: 299
Period size: 89 Copynumber: 2.9 Consensus size: 89
7237679 AGTTATGGTA
* * * *
7237689 CCTCTGTTTAGATGAGC--AATTTATTTTTTTTAAGTTGTTGAGCCTCTGTTTAAAGGAGCTTT-
1 CCTCTGTTTAGATGAGCTTTATTTATTTTTTTAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTTG
* * *
7237751 TGTTATTTTT-TCAAAGTCGTTGAG
66 TTTTATTTTTCT-AAAGTCATTGAC
* * * *
7237775 CCTTTGTTTAGATGAACTTTGTTTATTTTTTTAAAGTTGTTAAGCCTCTGTTTAGAGGAACTTTG
1 CCTCTGTTTAGATGAGCTTTATTTATTTTTTTAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTTG
7237840 TTTTATTTTTCTAAAGTCATTGAC
66 TTTTATTTTTCTAAAGTCATTGAC
* * ** * * *
7237864 CCTCTGTTTAGAGGAGCTTTATTTATTTTTTCAAAGTCATTAAGCTTCTATTTAGAAGAGCTTTG
1 CCTCTGTTTAGATGAGCTTTATTTATTTTTTTAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTTG
*
7237929 -TTTATTTTTCCAAAGTC
66 TTTTATTTTTCTAAAGTC
7237946 GTTAAGCCTC
Statistics
Matches: 144, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
86 15 0.10
88 55 0.38
89 73 0.51
90 1 0.01
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (89 bp):
CCTCTGTTTAGATGAGCTTTATTTATTTTTTTAAAGTTGTTAAGCCTCTGTTTAGAGGAGCTTTG
TTTTATTTTTCTAAAGTCATTGAC
Found at i:7237901 original size:133 final size:133
Alignment explanation
Indices: 7237708--7237972 Score: 354
Period size: 133 Copynumber: 2.0 Consensus size: 133
7237698 AGATGAGCAA
* * ** * * *
7237708 TTTATTTTTTTTAAGTTGTTGAGCCTCTGTTTAAAGGAGCTTTTGTTATTTTTTCAAAGTCGTTG
1 TTTATTTTTCTAAAGTCATTGACCCTCTGTTTAAAGGAGCTTTTGTTATTTTTTCAAAGTCATTA
* * ** * **
7237773 AGCCTT-TGTTTAGATGAACTTTGTTTATTTTTTTAAAGTTGTTAAGCCTCTGTTTAGAGGAACT
66 AG-CTTCTATTTAGAAGAACTTTGTTTATTTTTCCAAAGTCGTTAAGCCTCTACTTAGAGGAACT
7237837 TTGT
130 TTGT
*
7237841 TTTATTTTTCTAAAGTCATTGACCCTCTGTTTAGAGGAGCTTTAT-TTATTTTTTCAAAGTCATT
1 TTTATTTTTCTAAAGTCATTGACCCTCTGTTTAAAGGAGCTTT-TGTTATTTTTTCAAAGTCATT
*
7237905 AAGCTTCTATTTAGAAGAGCTTTGTTTATTTTTCCAAAGTCGTTAAGCCTCTACTTAGAGGAACT
65 AAGCTTCTATTTAGAAGAACTTTGTTTATTTTTCCAAAGTCGTTAAGCCTCTACTTAGAGGAACT
7237970 TTG
130 TTG
7237973 ATCAAAATTT
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
132 3 0.03
133 110 0.96
134 1 0.01
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (133 bp):
TTTATTTTTCTAAAGTCATTGACCCTCTGTTTAAAGGAGCTTTTGTTATTTTTTCAAAGTCATTA
AGCTTCTATTTAGAAGAACTTTGTTTATTTTTCCAAAGTCGTTAAGCCTCTACTTAGAGGAACTT
TGT
Found at i:7237972 original size:44 final size:44
Alignment explanation
Indices: 7237708--7237972 Score: 273
Period size: 44 Copynumber: 6.0 Consensus size: 44
7237698 AGATGAGCAA
** * * * *
7237708 TTTATTTTTTTTAAGTTGTTGAGCCTCTGTTTAAAGGAGCTTT-
1 TTTATTTTTTCAAAGTCGTTAAGCCTCTGTTTAGAGGAACTTTG
* * *
7237751 TGTTATTTTTTCAAAGTCGTTGAGCCTTTGTTTAGATGAACTTTG
1 T-TTATTTTTTCAAAGTCGTTAAGCCTCTGTTTAGAGGAACTTTG
* *
7237796 TTTATTTTTTTAAAGTTGTTAAGCCTCTGTTTAGAGGAACTTTG
1 TTTATTTTTTCAAAGTCGTTAAGCCTCTGTTTAGAGGAACTTTG
* * * * *
7237840 TTT-TATTTTTCTAAAGTCATTGACCCTCTGTTTAGAGGAGCTTTA
1 TTTAT-TTTTTC-AAAGTCGTTAAGCCTCTGTTTAGAGGAACTTTG
* * * * *
7237885 TTTATTTTTTCAAAGTCATTAAGCTTCTATTTAGAAGAGCTTTG
1 TTTATTTTTTCAAAGTCGTTAAGCCTCTGTTTAGAGGAACTTTG
* **
7237929 TTTATTTTTCCAAAGTCGTTAAGCCTCTACTTAGAGGAACTTTG
1 TTTATTTTTTCAAAGTCGTTAAGCCTCTGTTTAGAGGAACTTTG
7237973 ATCAAAATTT
Statistics
Matches: 186, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
43 2 0.01
44 146 0.78
45 37 0.20
46 1 0.01
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (44 bp):
TTTATTTTTTCAAAGTCGTTAAGCCTCTGTTTAGAGGAACTTTG
Found at i:7238191 original size:6 final size:6
Alignment explanation
Indices: 7238170--7238203 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
7238160 CCCATTTTCA
*
7238170 TTTTAT TTTTAT TTTTAT TTTTAT TATTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
7238204 TTATGGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:7239076 original size:5 final size:5
Alignment explanation
Indices: 7239052--7239086 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
7239042 TTTTTAATAG
7239052 TTTAA TTTTAA TTGTAA TTTAA TTTAA TTTAA TTT
1 TTTAA -TTTAA TT-TAA TTTAA TTTAA TTTAA TTT
7239087 TTCTTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:7239173 original size:59 final size:57
Alignment explanation
Indices: 7239099--7239588 Score: 322
Period size: 59 Copynumber: 8.2 Consensus size: 57
7239089 CTTTTTAATG
*
7239099 ATTTTTC-TAAAATAAAATTTTCAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCA
1 ATTTTTCTTGAAATAAAATTTT-AAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCA
* * *
7239156 ATTTTTCTTGAAGATAAAATTTAAAAAAAAATATTTTTGAAGGAAAGTTGAATGTATCA
1 ATTTTTCTTGAA-ATAAAATTT-TAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCA
* * *
7239215 ATTTCCTT-TT-AACACAAAA--AT-AAAAAATAGGTTTTTGAAAAAAAGTTGAAAGTATCA
1 ATTT--TTCTTGAA-ATAAAATTTTAAAAAAATA--TTTTTGAAGAAAAGTTGAAAGTATCA
* ** *
7239272 ATTTTCCTTGAAAATAAAAAGGTTAAAAAATATATTTTT-AGGGAAAAGTTGAAAGTATCA
1 ATTTTTCTTG-AAAT-AAAATTTTAAAAAA-ATATTTTTGA-AGAAAAGTTGAAAGTATCA
* * *
7239332 ATTTTTCTTAAAAATAAAATTTTTAAAATAAAATTTTCAAAAAGTATTTTGAGGGAAAGTTGAAA
1 ATTTTTCTT-GAAATAAAA-TTTT-AAA-AAAA---T-----A-T-TTTTGAAGAAAAGTTGAAA
7239397 GTATCA
52 GTATCA
* * * * *
7239403 ATTTTCCTTCAGAATAAAAAGGTTTT-AAAAAATATTTTT-AGGAAAAAGTTGGAAGTATTA
1 ATTTTTCTTGA-AAT-AAAA--TTTTAAAAAAATATTTTTGAAG-AAAAGTTGAAAGTATCA
* * * *
7239463 ATTTTTCTTGAAATTAAAATTTCATAAAAAAA-AATTTTGAGGAAAAGATGAAA-AATCA
1 ATTTTTCTTGAAA-TAAAATTT--TAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCA
* * *
7239521 ATTTTCCTCGAAATTAAAATTTCAAAAAAA-ATATTTT-AAGAAAAAGTTGAAAGTATCA
1 ATTTTTCTTGAAA-TAAAATTTTAAAAAAATAT-TTTTGAAG-AAAAGTTGAAAGTATCA
7239579 ATTTTTCTTG
1 ATTTTTCTTG
7239589 TACAAAAGCA
Statistics
Matches: 347, Mismatches: 43, Indels: 85
0.73 0.09 0.18
Matches are distributed among these distances:
55 9 0.03
56 12 0.03
57 52 0.15
58 44 0.13
59 82 0.24
60 76 0.22
61 12 0.03
62 7 0.02
64 1 0.00
67 1 0.00
69 1 0.00
70 6 0.02
71 35 0.10
72 5 0.01
73 4 0.01
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.36
Consensus pattern (57 bp):
ATTTTTCTTGAAATAAAATTTTAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCA
Found at i:7239250 original size:116 final size:115
Alignment explanation
Indices: 7239122--7239335 Score: 308
Period size: 116 Copynumber: 1.9 Consensus size: 115
7239112 AAAATTTTCA
* * * *
7239122 AAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAGAT-AAAA-TTTAAAAAAA
1 AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAAGGTT-AAAAAA
*
7239185 AATATTTTTGAAGG-AAAGTTGAATGTATCAATTTCCTTTTAACACAAAAAT
65 AATATTTTT-AAGGAAAAGTTGAAAGTATCAATTTCCTTTTAACACAAAAAT
7239236 AAAAAATAGGTTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAAGGTTAAAAA
1 AAAAAATA--TTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAAGGTTAAAAA
* *
7239301 ATATATTTTTAGGGAAAAGTTGAAAGTATCAATTT
64 AAATATTTTTAAGGAAAAGTTGAAAGTATCAATTT
7239336 TTCTTAAAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
114 8 0.09
116 41 0.47
117 37 0.42
118 2 0.02
ACGTcount: A:0.48, C:0.05, G:0.13, T:0.34
Consensus pattern (115 bp):
AAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAAGGTTAAAAAAA
ATATTTTTAAGGAAAAGTTGAAAGTATCAATTTCCTTTTAACACAAAAAT
Found at i:7239321 original size:60 final size:58
Alignment explanation
Indices: 7239107--7239588 Score: 291
Period size: 60 Copynumber: 8.0 Consensus size: 58
7239097 TGATTTTTCT
* *
7239107 AAAATAAAATTTTCAAAAAA-ATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAA-ATT-AAAAAATATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTG
* * * * * *
7239166 AAGATAAAATTTAAAAAAAAATATTTTTGAAGGAAAGTTGAATGTATCAA-TTTCCTTTT
1 AAAATAAAAATT-AAAAAATATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCC-TTG
* * ** *
7239225 AACACAAAAA-TAAAAAATAGGTTTTTGAAAAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAAATTAAAAAATATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTG
* * *
7239282 AAAATAAAAAGGTTAAAAAATATATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTTCTTA
1 AAAATAAAAA--TTAAAAAATATATTTTTGA-AGAAAAGTTGAAAGTATCAATTTTCCTTG
* * * *
7239342 AAAATAAAATTTTTAAAATAAAATTTTCAAAAAGTATTTTGAGGGAAAGTTGAAAGTATCAATTT
1 AAAATAAAA--ATT--AA-AAAA---T---ATA-T-TTTTGAAGAAAAGTTGAAAGTATCAATTT
*
7239407 TCCTTC
53 TCCTTG
* * * * * *
7239413 AGAATAAAAAGGTTTTAAAAA-ATATTTTT-AGGAAAAAGTTGGAAGTATTAATTTTTCTTG
1 AAAATAAAAA---TTAAAAAATATATTTTTGAAG-AAAAGTTGAAAGTATCAATTTTCCTTG
* * * * * * * *
7239473 AAATTAAAATTTCATAAAAA-AAAATTTTGAGGAAAAGATGAAA-AATCAATTTTCCTCG
1 AAAATAAAAATT-A-AAAAATATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTG
* * * *
7239531 AAATTAAAATTTCAAAAAAAATA-TTTT-AAGAAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAAATT-AAAAAATATATTTTTGAAG-AAAAGTTGAAAGTATCAATTTTCCTTG
7239589 TACAAAAGCA
Statistics
Matches: 336, Mismatches: 56, Indels: 63
0.74 0.12 0.14
Matches are distributed among these distances:
56 2 0.01
57 62 0.18
58 58 0.17
59 69 0.21
60 86 0.26
61 1 0.00
62 4 0.01
63 4 0.01
66 1 0.00
69 6 0.02
70 2 0.01
71 38 0.11
72 3 0.01
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.35
Consensus pattern (58 bp):
AAAATAAAAATTAAAAAATATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:7239351 original size:116 final size:118
Alignment explanation
Indices: 7239099--7239587 Score: 364
Period size: 131 Copynumber: 4.1 Consensus size: 118
7239089 CTTTTTAATG
7239099 ATTTTTC-T-AAAATAAAATTTTCAAAAAAAT-A-TTTTTGAAGAAAAGTTGAAAGTATCAATTT
1 ATTTTTCTTAAAAATAAAA--TT-AAAAAAATAAGTTTTTGAAGAAAAGTTGAAAGTATCAATTT
* * * * *
7239160 TTCTTGAAGAT-AAAATTTAAAAAAAAATATTTTTGAAG-GAAAGTTGAATGTATCA
63 TCCTTGAAAATAAAAAGTTAAAAAAAAATATTTTT-AAGAAAAAGTTGAAAGTATCA
* * *
7239215 ATTTCCTT-TTAACACA-AAAA-T-AAAAAATAGGTTTTTGAAAAAAAGTTGAAAGTATCAATTT
1 ATTT--TTCTTAA-AAATAAAATTAAAAAAATAAGTTTTTGAAGAAAAGTTGAAAGTATCAATTT
* * *
7239276 TCCTTGAAAATAAAAAGGTT-AAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCA
63 TCCTTGAAAATAAAAA-GTTAAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCA
* *
7239332 ATTTTTCTTAAAAATAAAATTTTTAAAATAAAATTTTCAAAAAGTATTTTGAGGGAAAGTTGAAA
1 ATTTTTCTTAAAAATAAAA---TT-AAA-AAAA---T----AAGT-TTTTGAAGAAAAGTTGAAA
* * ** * *
7239397 GTATCAATTTTCCTTCAGAATAAAAAGGTT-TTAAAAAATATTTTTAGGAAAAAGTTGGAAGTAT
53 GTATCAATTTTCCTTGAAAATAAAAA-GTTAAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTAT
*
7239461 TA
117 CA
* * * * * *
7239463 ATTTTTCTTGAAATTAAAATTTCATAAAAAA-AA-ATTTTGAGGAAAAGATGAAA-AATCAATTT
1 ATTTTTCTTAAAAATAAAA-TT-A-AAAAAATAAGTTTTTGAAGAAAAGTTGAAAGTATCAATTT
* * * *
7239525 TCCTCG-AAATTAAAATTTCAAAAAAAATA-TTTTAAGAAAAAGTTGAAAGTATCA
63 TCCTTGAAAATAAAAAGTTAAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCA
7239579 ATTTTTCTT
1 ATTTTTCTT
7239588 GTACAAAAGC
Statistics
Matches: 304, Mismatches: 40, Indels: 58
0.76 0.10 0.14
Matches are distributed among these distances:
114 7 0.02
115 4 0.01
116 86 0.28
117 52 0.17
118 17 0.06
119 22 0.07
120 3 0.01
121 2 0.01
122 2 0.01
123 4 0.01
126 1 0.00
129 8 0.03
130 5 0.02
131 91 0.30
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (118 bp):
ATTTTTCTTAAAAATAAAATTAAAAAAATAAGTTTTTGAAGAAAAGTTGAAAGTATCAATTTTCC
TTGAAAATAAAAAGTTAAAAAAAAATATTTTTAAGAAAAAGTTGAAAGTATCA
Found at i:7239359 original size:15 final size:15
Alignment explanation
Indices: 7239339--7239374 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
7239329 TCAATTTTTC
7239339 TTAAAAATAAAATTT
1 TTAAAAATAAAATTT
7239354 TT-AAAATAAAATTT
1 TTAAAAATAAAATTT
*
7239368 TCAAAAA
1 TTAAAAA
7239375 GTATTTTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (15 bp):
TTAAAAATAAAATTT
Found at i:7239525 original size:58 final size:58
Alignment explanation
Indices: 7239429--7239588 Score: 178
Period size: 58 Copynumber: 2.8 Consensus size: 58
7239419 AAAAGGTTTT
* * * * * * *
7239429 AAAAAATATTTTTAGGAAAAAGTTGGAAGTATTAATTTTTCTTGAAATTAAAATTTCA
1 AAAAAAAAATTTTAAGAAAAAGATGAAAGAATCAATTTTTCTTGAAATTAAAATTTCA
* * * *
7239487 TAAAAAAAAATTTTGAGGAAAAGATGAAA-AATCAATTTTCCTCGAAATTAAAATTTCA
1 -AAAAAAAAATTTTAAGAAAAAGATGAAAGAATCAATTTTTCTTGAAATTAAAATTTCA
* * *
7239545 AAAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAAAAAAATTTTAAGAAAAAGATGAAAGAATCAATTTTTCTTG
7239589 TACAAAAGCA
Statistics
Matches: 82, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
57 24 0.29
58 37 0.45
59 21 0.26
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (58 bp):
AAAAAAAAATTTTAAGAAAAAGATGAAAGAATCAATTTTTCTTGAAATTAAAATTTCA
Found at i:7240204 original size:8 final size:8
Alignment explanation
Indices: 7240191--7240226 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
7240181 TTTTGTTAAT
7240191 AAAAAATA
1 AAAAAATA
*
7240199 AAAAAATG
1 AAAAAATA
7240207 AAAAAATA
1 AAAAAATA
7240215 AAAAAATGA
1 AAAAAAT-A
7240224 AAA
1 AAA
7240227 CCAGTGGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 21 0.84
9 4 0.16
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:7240212 original size:16 final size:16
Alignment explanation
Indices: 7240191--7240226 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
7240181 TTTTGTTAAT
7240191 AAAAAATAAAAAAATG
1 AAAAAATAAAAAAATG
7240207 AAAAAATAAAAAAATG
1 AAAAAATAAAAAAATG
7240223 AAAA
1 AAAA
7240227 CCAGTGGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (16 bp):
AAAAAATAAAAAAATG
Found at i:7245122 original size:44 final size:43
Alignment explanation
Indices: 7245072--7245459 Score: 286
Period size: 44 Copynumber: 8.9 Consensus size: 43
7245062 TTAAAGAACT
* * *
7245072 TTATTTATTTTTTCAAAGTCTTTAAGACTCTACCTAGAGGAGTC
1 TTATTTATTTTTTCAAAGTCTTTGAGCCTCTACTTAGAGGAG-C
* * *
7245116 TTATTTATTTTTTCAAAGTCGTTGAGCCTTTACTTAGAGGAAC
1 TTATTTATTTTTTCAAAGTCTTTGAGCCTCTACTTAGAGGAGC
* * * * *
7245159 TTTATTTA-ATTTTCTAAAGTCATTGAGTCTATACTTAGAGAAGCC
1 -TTATTTATTTTTTC-AAAGTCTTTGAGCCTCTACTTAGAGGAG-C
* * * * *
7245204 CTATTTATTTTTTCAAGGT-TATTGAGCCTCTATTTAGAGAAAC
1 TTATTTATTTTTTCAAAGTCT-TTGAGCCTCTACTTAGAGGAGC
* * *
7245247 TTTATTTATTTTTTTAAAGT-TGTTGAGCCTCTGCTTAGAGGAACC
1 -TTATTTATTTTTTCAAAGTCT-TTGAGCCTCTACTTAGAGG-AGC
* * *
7245292 CTATTTATTTTTTCAAAGTCGTTGAGCTTCTACTTAGAGGAGC
1 TTATTTATTTTTTCAAAGTCTTTGAGCCTCTACTTAGAGGAGC
* ** ** * *
7245335 TTCATTTA-CTTTTCAAAGTAATTGAGTTTCTGCTTAGAAGAGC
1 TT-ATTTATTTTTTCAAAGTCTTTGAGCCTCTACTTAGAGGAGC
** * *
7245378 TGTATTTATTTTTTCAAAGT-TATCAAGCCTCTGCTTAGAGAAGC
1 T-TATTTATTTTTTCAAAGTCT-TTGAGCCTCTACTTAGAGGAGC
* * *
7245422 TTTATTCA-TTTTTCAAAGTCATTT-AACCTCTATTTAGA
1 -TTATTTATTTTTTCAAAGTC-TTTGAGCCTCTACTTAGA
7245460 TGAGTTTTTA
Statistics
Matches: 275, Mismatches: 54, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
43 67 0.24
44 198 0.72
45 10 0.04
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (43 bp):
TTATTTATTTTTTCAAAGTCTTTGAGCCTCTACTTAGAGGAGC
Found at i:7245198 original size:88 final size:88
Alignment explanation
Indices: 7245067--7245397 Score: 344
Period size: 88 Copynumber: 3.8 Consensus size: 88
7245057 GATTATTAAA
* * * * * * *
7245067 GAACTTTATTT-ATTTTTTCAAAGTCTTTAAGACTCTACCTAGAGGAGTCTTATTTATTTTTTCA
1 GAACTTTATTTAATTTTCT-AAAGTCATTGAGTCTCTACTTAGAGGAGCCCTATTTATTTTTTCA
7245131 AAGTCGTTGAGCCTTTACTTAGAG
65 AAGTCGTTGAGCCTTTACTTAGAG
* *
7245155 GAACTTTATTTAATTTTCTAAAGTCATTGAGTCTATACTTAGAGAAGCCCTATTTATTTTTTCAA
1 GAACTTTATTTAATTTTCTAAAGTCATTGAGTCTCTACTTAGAGGAGCCCTATTTATTTTTTCAA
* ** * *
7245220 GGTTATTGAGCCTCTATTTAGAG
66 AGTCGTTGAGCCTTTACTTAGAG
* * * ** * * *
7245243 AAACTTTATTTATTTTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAACCCTATTTATTTTTTCAA
1 GAACTTTATTTAATTTTCTAAAGTCATTGAGTCTCTACTTAGAGGAGCCCTATTTATTTTTTCAA
7245308 AGTCGTTGAG-CTTCTACTTAGAG
66 AGTCGTTGAGCCTT-TACTTAGAG
* * * * * * * **
7245331 GAGCTTCATTTACTTTTC-AAAGTAATTGAGTTTCTGCTTAGAAGAGCTGTATTTATTTTTTCAA
1 GAACTTTATTTAATTTTCTAAAGTCATTGAGTCTCTACTTAGAGGAGCCCTATTTATTTTTTCAA
7245395 AGT
66 AGT
7245398 TATCAAGCCT
Statistics
Matches: 199, Mismatches: 42, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
87 43 0.22
88 150 0.75
89 6 0.03
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (88 bp):
GAACTTTATTTAATTTTCTAAAGTCATTGAGTCTCTACTTAGAGGAGCCCTATTTATTTTTTCAA
AGTCGTTGAGCCTTTACTTAGAG
Found at i:7245415 original size:87 final size:87
Alignment explanation
Indices: 7245068--7245440 Score: 343
Period size: 88 Copynumber: 4.3 Consensus size: 87
7245058 ATTATTAAAG
** * * * * * * *
7245068 AACTTTATTTATTTTTTCAAAGTCTTTAAGACTCTACCTAGAGGAGTCTTATTTATTTTTTCAAA
1 AACTTTATTTA-TTTTTCAAAGTAATTGAGTCTCTGCTTAGAAGAGCCCTATTTATTTTTTCAAA
* * *
7245133 GTCGTTGAGCCTTTACTTAGAGG
65 GTCATTGAGCCTCTACTTAGAGA
* * * *
7245156 AACTTTATTTAATTTTCTAAAGTCATTGAGTCTATACTTAG-AGAAGCCCTATTTATTTTTTCAA
1 AACTTTATTTATTTTTC-AAAGTAATTGAGTCTCTGCTTAGAAG-AGCCCTATTTATTTTTTCAA
* * *
7245220 GGTTATTGAGCCTCTATTTAGAGA
64 AGTCATTGAGCCTCTACTTAGAGA
* ** * * *
7245244 AACTTTATTTATTTTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAACCCTATTTATTTTTTCAAA
1 AACTTTATTTA-TTTTTCAAAGTAATTGAGTCTCTGCTTAGAAGAGCCCTATTTATTTTTTCAAA
* * *
7245309 GTCGTTGAGCTTCTACTTAGAGG
65 GTCATTGAGCCTCTACTTAGAGA
* * * * **
7245332 AGCTTCATTTACTTTTCAAAGTAATTGAGTTTCTGCTTAGAAGAGCTGTATTTATTTTTTCAAAG
1 AACTTTATTTATTTTTCAAAGTAATTGAGTCTCTGCTTAGAAGAGCCCTATTTATTTTTTCAAAG
* ** *
7245397 TTATCAAGCCTCTGCTTAGAGA
66 TCATTGAGCCTCTACTTAGAGA
* *
7245419 AGCTTTATTCATTTTTCAAAGT
1 AACTTTATTTATTTTTCAAAGT
7245441 CATTTAACCT
Statistics
Matches: 229, Mismatches: 52, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
87 84 0.37
88 140 0.61
89 5 0.02
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (87 bp):
AACTTTATTTATTTTTCAAAGTAATTGAGTCTCTGCTTAGAAGAGCCCTATTTATTTTTTCAAAG
TCATTGAGCCTCTACTTAGAGA
Found at i:7245655 original size:8 final size:9
Alignment explanation
Indices: 7245636--7245666 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7245626 TTTTGTTAAT
*
7245636 AAAAAATGA
1 AAAAAATAA
7245645 AAAAAATAA
1 AAAAAATAA
7245654 AAAAAATAA
1 AAAAAATAA
7245663 AAAA
1 AAAA
7245667 CCAGTGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (9 bp):
AAAAAATAA
Found at i:7246451 original size:15 final size:16
Alignment explanation
Indices: 7246425--7246463 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
7246415 GAGCTAAGTC
7246425 ATTTTCTTA-TTTTGGT
1 ATTTT-TTATTTTTGGT
*
7246441 ATTTTTTATTTTTGTT
1 ATTTTTTATTTTTGGT
7246457 ATTTTTT
1 ATTTTTT
7246464 TATATTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.77
Consensus pattern (16 bp):
ATTTTTTATTTTTGGT
Found at i:7246471 original size:24 final size:24
Alignment explanation
Indices: 7246426--7246472 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
7246416 AGCTAAGTCA
*
7246426 TTTTCTTATTTTGGTATTTTTTAT
1 TTTTCTTATTTTGGTATATTTTAT
* **
7246450 TTTTGTTATTTTTTTATATTTTA
1 TTTTCTTATTTTGGTATATTTTA
7246473 AGTATTTTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (24 bp):
TTTTCTTATTTTGGTATATTTTAT
Found at i:7246601 original size:23 final size:24
Alignment explanation
Indices: 7246553--7246608 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
7246543 TTCAATAATG
7246553 AAATTTTTAAAAATTTCAAATGGT-
1 AAATTTTTAAAAATTTCAAA-GGTA
* *
7246577 AAATTTTTATAAATTTCCTAA-GTA
1 AAATTTTTAAAAATTT-CAAAGGTA
7246601 AAATTTTT
1 AAATTTTT
7246609 TTTTTCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 23 0.82
25 3 0.11
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (24 bp):
AAATTTTTAAAAATTTCAAAGGTA
Found at i:7248784 original size:28 final size:27
Alignment explanation
Indices: 7248733--7248820 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 27
7248723 TTGATTATAT
**
7248733 TTTAATCATATTAAAAATGATATTTTAA
1 TTTAATCATATTATTAAT-ATATTTTAA
*
7248761 TTTAATCATATTATTAATATTATTATAA
1 TTTAATCATATTATTAATA-TATTTTAA
*
7248789 TTATAAAAT-AAATTATTAATATATTTATAA
1 TT-T--AATCATATTATTAATATATTT-TAA
7248819 TT
1 TT
7248821 ATTTATTATT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
27 1 0.02
28 25 0.50
29 5 0.10
30 16 0.32
31 3 0.06
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (27 bp):
TTTAATCATATTATTAATATATTTTAA
Done.