Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 290 of 313
Found at i:88952434 original size:7 final size:6
Alignment explanation
Indices: 88952414--88952444 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
88952404 TTCAACATAT
88952414 AAATAA AAATAA AAATAAA AAATAA AAATAA
1 AAATAA AAATAA AAAT-AA AAATAA AAATAA
88952445 TAGGTGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:88952436 original size:13 final size:13
Alignment explanation
Indices: 88952414--88952444 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
88952404 TTCAACATAT
88952414 AAAT-AAAAATAA
1 AAATAAAAAATAA
88952426 AAATAAAAAATAA
1 AAATAAAAAATAA
88952439 AAATAA
1 AAATAA
88952445 TAGGTGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:88958875 original size:68 final size:67
Alignment explanation
Indices: 88958803--88958952 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
88958793 CATCATGTGT
* * * *
88958803 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
88958865 ATGTAG
62 ATGTAG
** * *
88958871 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
88958936 AG
66 AG
88958938 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
88958953 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:88958908 original size:64 final size:64
Alignment explanation
Indices: 88958827--88959010 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
88958817 AGACATTATG
* *
88958827 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
88958891 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
88958956 AA
63 AA
* * * *
88958958 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
88959011 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:88972122 original size:68 final size:66
Alignment explanation
Indices: 88972048--88972223 Score: 178
Period size: 67 Copynumber: 2.6 Consensus size: 66
88972038 CATCATGTGT
* * *
88972048 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGGGTGATACCAGTGAAGGACACCA
88972111 TGTAG
62 TGTAG
** * * *
88972116 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGATACCA-GTGAAGGACACCATGT
88972181 AG
65 AG
* * * *
88972183 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTG
88972224 GTACTGAGTG
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
64 24 0.26
65 3 0.03
66 20 0.22
67 32 0.35
68 13 0.14
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGGGTGATACCAGTGAAGGACACCATGTA
G
Found at i:88972153 original size:64 final size:64
Alignment explanation
Indices: 88972072--88972255 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
88972062 AGACATTATG
* * *
88972072 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
88972136 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
88972201 AA
63 AA
* * *
88972203 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
88972256 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:88979995 original size:21 final size:20
Alignment explanation
Indices: 88979944--88979986 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
88979934 TCTGGTTGTC
88979944 TAACAAACTCCACCCCCGAT
1 TAACAAACTCCACCCCCGAT
88979964 TAACAAACTCCACCCCCGAT
1 TAACAAACTCCACCCCCGAT
88979984 TAA
1 TAA
88979987 TCTTTCTCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.42, G:0.05, T:0.16
Consensus pattern (20 bp):
TAACAAACTCCACCCCCGAT
Found at i:88986046 original size:27 final size:27
Alignment explanation
Indices: 88986016--88986193 Score: 128
Period size: 27 Copynumber: 6.6 Consensus size: 27
88986006 ATATTGAGCC
* *
88986016 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
88986043 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
88986070 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* ** ** *
88986098 CGCACACTTAGTCCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
88986125 CTCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
88986152 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
88986179 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88986194 GTACAATTTA
Statistics
Matches: 119, Mismatches: 27, Indels: 10
0.76 0.17 0.06
Matches are distributed among these distances:
26 2 0.02
27 94 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:88998513 original size:80 final size:80
Alignment explanation
Indices: 88998379--88998544 Score: 201
Period size: 80 Copynumber: 2.1 Consensus size: 80
88998369 CATTTGGATA
* * * *
88998379 AAAAATACAGCTAAAGATCGAGCATTAACAGCGCTTCTTGAAAAATACTACTATAGATCGAGC-A
1 AAAAACACAGCTAAAGATCGAGCATTAACAGCGCTTCTTAAAAAACACCACTATAGATCGA-CTA
*
88998443 TTAGTGGCGCTTTTTG
65 TTAGTGGCGCTTTCTG
* * * * *
88998459 AAAAACACCGCTATAGATCGAGCATTAGCGGCGCTT-TTCAAAAAACACCGCTATAGATCGACTA
1 AAAAACACAGCTAAAGATCGAGCATTAACAGCGCTTCTT-AAAAAACACCACTATAGATCGACTA
88998523 TTAGTGGCGCTTTCTG
65 TTAGTGGCGCTTTCTG
*
88998539 TAAAAC
1 AAAAAC
88998545 GCCGTAAAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
79 3 0.04
80 70 0.96
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (80 bp):
AAAAACACAGCTAAAGATCGAGCATTAACAGCGCTTCTTAAAAAACACCACTATAGATCGACTAT
TAGTGGCGCTTTCTG
Found at i:88998544 original size:40 final size:39
Alignment explanation
Indices: 88998379--88998544 Score: 172
Period size: 40 Copynumber: 4.2 Consensus size: 39
88998369 CATTTGGATA
* * * ***
88998379 AAAAATACAGCTAAAGATCGAGCATTAACAGCGCTTCTTG
1 AAAAACACCGCTATAGATCGAGCATTAGTGGCGCTT-TTG
* **
88998419 AAAAATACTACTATAGATCGAGCATTAGTGGCGCTTTTTG
1 AAAAACACCGCTATAGATCGAGCATTAGTGGCGC-TTTTG
* *
88998459 AAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTCA
1 AAAAACACCGCTATAGATCGAGCATTAGTGGCGCTTTT-G
88998499 AAAAACACCGCTATAGATCGA-CTATTAGTGGCGCTTTCTG
1 AAAAACACCGCTATAGATCGAGC-ATTAGTGGCGCTTT-TG
*
88998539 TAAAAC
1 AAAAAC
88998545 GCCGTAAAAA
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
39 5 0.05
40 100 0.93
41 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (39 bp):
AAAAACACCGCTATAGATCGAGCATTAGTGGCGCTTTTG
Found at i:88998749 original size:108 final size:107
Alignment explanation
Indices: 88998480--88998781 Score: 329
Period size: 114 Copynumber: 2.7 Consensus size: 107
88998470 TATAGATCGA
* ** * * *
88998480 GCATTAGCGGCGCTTTTCAAAAAACACCGCTATAGATCGACTATTAGTGGCGCTTTCTGTAAAAC
1 GCATTAGCGGCACTTTTTGAAAAACACCGCTATAGATCGACT-TTAGCGGCGCTTTCTGAAAAAT
*
88998545 GCCGTAAAAAAATTAAGCACAACGCCGTCGTTTTATGTTGAGCTTTAGT
65 GCCG-AAAAAAATTAAGCACAACACCGTC----T-TGTTGAGCTTTAGT
* * * *
88998594 GTATTAGCGGCACTTTTTGAAAAACACCGCTATAGATCAACCATTAGCGGCGCTTTTTGAAAAAT
1 GCATTAGCGGCACTTTTTGAAAAACACCGCTATAGATCGA-CTTTAGCGGCGCTTTCTGAAAAAT
88998659 GCCGCAAAAAAATTAAGCACAACACCGTC-T-TTGAGCTTTAGT
65 GCCG-AAAAAAATTAAGCACAACACCGTCTTGTTGAGCTTTAGT
* * ** * *
88998701 GGCATTAGCGGCACTTTTTGAAAAGCGCCGCTATAGATCGAGCTTTAGCGATGCTTTGTCAAAAA
1 -GCATTAGCGGCACTTTTTGAAAAACACCGCTATAGATCGA-CTTTAGCGGCGCTTTCTGAAAAA
88998766 TGCCGAAAAATAATTA
64 TGCCGAAAAA-AATTA
88998782 TCTATCTATT
Statistics
Matches: 163, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
107 17 0.10
108 65 0.40
114 80 0.49
115 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (107 bp):
GCATTAGCGGCACTTTTTGAAAAACACCGCTATAGATCGACTTTAGCGGCGCTTTCTGAAAAATG
CCGAAAAAAATTAAGCACAACACCGTCTTGTTGAGCTTTAGT
Found at i:89003324 original size:85 final size:85
Alignment explanation
Indices: 89003178--89003356 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
89003168 GGCCGGCCAT
*
89003178 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
89003243 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
89003263 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
89003328 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
89003348 GAGCATGGG
1 GAGCATGGG
89003357 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.39, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAATGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:89007486 original size:40 final size:40
Alignment explanation
Indices: 89007043--89007474 Score: 693
Period size: 40 Copynumber: 10.8 Consensus size: 40
89007033 GAGAATTGAG
*
89007043 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
89007083 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
89007123 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
89007163 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
89007203 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
89007243 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
89007283 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
89007323 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
89007363 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
89007403 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
89007443 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
89007475 ATCATGCTGG
Statistics
Matches: 382, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 382 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:89011362 original size:47 final size:47
Alignment explanation
Indices: 89011309--89011721 Score: 727
Period size: 47 Copynumber: 8.7 Consensus size: 47
89011299 TTAGGATTCT
89011309 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
89011356 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
89011405 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
89011452 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
89011499 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
89011546 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
89011593 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
89011640 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
89011687 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
89011722 TCCCGAAGGG
Statistics
Matches: 352, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 306 0.87
49 46 0.13
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:89013977 original size:19 final size:19
Alignment explanation
Indices: 89013954--89014000 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
89013944 ATTTAATCTA
*
89013954 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
89013972 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
89013992 ATTTTTATT
1 ATTTTTATT
89014001 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:89014367 original size:43 final size:43
Alignment explanation
Indices: 89014259--89014370 Score: 131
Period size: 40 Copynumber: 2.7 Consensus size: 43
89014249 TAATTTTTAT
* * * * *
89014259 TAAAGGTCATGTTCTTTAGCGGTGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTTAGAAAAAGCGCCAC
* *
89014302 TAAAGGT--T-CTCTTTAGCGGCGTTTTTAGAAAAAGTGCCAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTTAGAAAAAGCGCCAC
*
89014342 TAAAGGTCATGTTCTTTAGCAGCGTTTTT
1 TAAAGGTCATGTTCTTTAGCGGCGTTTTT
89014371 CACATAAACG
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
40 32 0.56
41 1 0.02
42 1 0.02
43 23 0.40
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTTTAGAAAAAGCGCCAC
Found at i:89023033 original size:27 final size:27
Alignment explanation
Indices: 89022954--89023113 Score: 110
Period size: 27 Copynumber: 6.0 Consensus size: 27
89022944 TATGAGCCAC
* *
89022954 CCACATTAGATAGTCCTGTCGGACTTT
1 CCACATTAGATAGTCCTGACGAACTTT
* * * * *
89022981 CCATAGATA-ATAGT-CTTAGTGGACTTT
1 CCACA-TTAGATAGTCCTGA-CGAACTTT
* * *
89023008 CCACGTTAGGTAGTCCTGACGAACTTC
1 CCACATTAGATAGTCCTGACGAACTTT
* * *
89023035 CCACATAAGATAGTCTTGACGGACTTT
1 CCACATTAGATAGTCCTGACGAACTTT
* *
89023062 CCACATTAGATAGTACTGAAG-ACTTT
1 CCACATTAGATAGTCCTGACGAACTTT
** * *
89023088 ATACATTAGATAGTTCTGACAAACTT
1 CCACATTAGATAGTCCTGACGAACTT
89023114 CTACATATAC
Statistics
Matches: 100, Mismatches: 28, Indels: 10
0.72 0.20 0.07
Matches are distributed among these distances:
26 25 0.25
27 70 0.70
28 5 0.05
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (27 bp):
CCACATTAGATAGTCCTGACGAACTTT
Found at i:89040896 original size:96 final size:94
Alignment explanation
Indices: 89040620--89040898 Score: 328
Period size: 96 Copynumber: 2.9 Consensus size: 94
89040610 CATAGGGTGA
* * * * ** *
89040620 ATTGCCGATGCCATGTTCAAAACATGGTCTTACACTGGCTCGCATGTTGAGGTTGATGCCATGTC
1 ATTGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT-ATGAGGCCGATCCCATGTC
* * *
89040685 ACAGACATGGTCTTACACTAGCTCTCGTCTC
65 CCAGACATGGTCTTACACTGGCTCTC-TCAC
* * * *
89040716 ATTG-TCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATGATGCGGCCGATCCCATGT
1 ATTGCT-GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT-ATGAGGCCGATCCCATGT
*
89040780 CCAAGACATGGTCTTACACTGGCTCT-TACAAC
64 CCCAGACATGGTCTTACACTGGCTCTCT-C-AC
* *
89040812 ATTGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCCGATTCCATGTC
1 ATTGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAT-GAGGCCGATCCCATGTC
89040877 CCAGACATGGTCTTACACTGGC
65 CCAGACATGGTCTTACACTGGC
89040899 ACACATATCA
Statistics
Matches: 157, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
94 1 0.01
95 3 0.02
96 152 0.97
97 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (94 bp):
ATTGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATGAGGCCGATCCCATGTCC
CAGACATGGTCTTACACTGGCTCTCTCAC
Found at i:89040906 original size:48 final size:48
Alignment explanation
Indices: 89040623--89040907 Score: 275
Period size: 48 Copynumber: 5.9 Consensus size: 48
89040613 AGGGTGAATT
* * * * * * *
89040623 GCCGATGCCATGTTCAAAACATGGTCTTACACTGGCTCGCATGTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
** * * * * * *
89040671 GTTGATGCCATGTCACAGACATGGTCTTACACTAGCTCTCGTCTCATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
* * *
89040719 GTCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATGAT-GCG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGTG
* * * * * * *
89040767 GCCGATCCCATGTCCAAGACATGGTCTTACACTGGCTCTTACAACATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
* * *
89040815 GCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
* * *
89040863 GCCGATTCCATGTCCCAGACATGGTCTTACACTGGCACACATATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC
89040908 ACCCAAATGT
Statistics
Matches: 186, Mismatches: 49, Indels: 4
0.78 0.21 0.02
Matches are distributed among these distances:
47 1 0.01
48 184 0.99
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGTG
Found at i:89054264 original size:40 final size:40
Alignment explanation
Indices: 89054209--89054301 Score: 150
Period size: 40 Copynumber: 2.3 Consensus size: 40
89054199 NNNNNNNNNN
*
89054209 GACCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAA
1 GACCCGAAGGCAATTATGCAAGATGATATATCCGGGCTAA
* * *
89054249 GACCCGAAGGCAATTATGCAAGTTGATATGTCCGGGTTAA
1 GACCCGAAGGCAATTATGCAAGATGATATATCCGGGCTAA
89054289 GACCCGAAGGCAA
1 GACCCGAAGGCAA
89054302 ATGTGTTTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.19
Consensus pattern (40 bp):
GACCCGAAGGCAATTATGCAAGATGATATATCCGGGCTAA
Found at i:89058303 original size:41 final size:41
Alignment explanation
Indices: 89058169--89058428 Score: 355
Period size: 41 Copynumber: 6.3 Consensus size: 41
89058159 ACATAAAATT
* * *
89058169 TGCTAGGC-ATAAAGCCT-AGTATAATACACTGACACAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCGGCACAAAGCC
* *
89058210 TGCAAGGC-ATAAGCCTGATATAATACACCGGCATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGC--ACAAAGCC
89058252 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* *
89058293 TGCTAGGCAATAACCCTGATTTAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* *
89058334 TGCTAGGCAATAACCCTGATATAATACACCGTCACAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
* * *
89058375 TGCTAGGCAATAAGCCTGATTTAATACACTGGCACAAAGCT
1 TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
89058416 TGCTAGGCAATAA
1 TGCTAGGCAATAA
89058429 AGCCCGAATA
Statistics
Matches: 199, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
40 18 0.09
41 144 0.72
42 13 0.07
43 24 0.12
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.20
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCC
Found at i:89058621 original size:41 final size:41
Alignment explanation
Indices: 89058564--89058687 Score: 194
Period size: 41 Copynumber: 3.0 Consensus size: 41
89058554 CAAATCTCAT
*
89058564 ACCCTGATTTAATACACCGGAACAAAGCCTGCTAGGCAATA
1 ACCCTGATTTAATACACCGGCACAAAGCCTGCTAGGCAATA
* *
89058605 ACCCTGATATAATACACCGTCACAAAGCCTGCTAGGCAATA
1 ACCCTGATTTAATACACCGGCACAAAGCCTGCTAGGCAATA
* * *
89058646 AGCCTGATTTAATACACTGGCACAAAGCTTGCTAGGCAATA
1 ACCCTGATTTAATACACCGGCACAAAGCCTGCTAGGCAATA
89058687 A
1 A
89058688 AGCCCGAATA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (41 bp):
ACCCTGATTTAATACACCGGCACAAAGCCTGCTAGGCAATA
Found at i:89058764 original size:259 final size:259
Alignment explanation
Indices: 89058305--89058823 Score: 1029
Period size: 259 Copynumber: 2.0 Consensus size: 259
89058295 CTAGGCAATA
*
89058305 ACCCTGATTTAATACACCGGCACAAAGCCTGCTAGGCAATAACCCTGATATAATACACCGTCACA
1 ACCCTGATTTAATACACCGGAACAAAGCCTGCTAGGCAATAACCCTGATATAATACACCGTCACA
89058370 AAGCCTGCTAGGCAATAAGCCTGATTTAATACACTGGCACAAAGCTTGCTAGGCAATAAAGCCCG
66 AAGCCTGCTAGGCAATAAGCCTGATTTAATACACTGGCACAAAGCTTGCTAGGCAATAAAGCCCG
89058435 AATATCACTGATACAGACTCGGTCTTACACATAATTCATATTTCGGAAATCCTAATTATTTCTTA
131 AATATCACTGATACAGACTCGGTCTTACACATAATTCATATTTCGGAAATCCTAATTATTTCTTA
89058500 ATGTTCATATTAAGCTTTTCAAACATCATATCTCAATTGAATCGAACTTGTTCCCAAATCTCAT
196 ATGTTCATATTAAGCTTTTCAAACATCATATCTCAATTGAATCGAACTTGTTCCCAAATCTCAT
89058564 ACCCTGATTTAATACACCGGAACAAAGCCTGCTAGGCAATAACCCTGATATAATACACCGTCACA
1 ACCCTGATTTAATACACCGGAACAAAGCCTGCTAGGCAATAACCCTGATATAATACACCGTCACA
89058629 AAGCCTGCTAGGCAATAAGCCTGATTTAATACACTGGCACAAAGCTTGCTAGGCAATAAAGCCCG
66 AAGCCTGCTAGGCAATAAGCCTGATTTAATACACTGGCACAAAGCTTGCTAGGCAATAAAGCCCG
89058694 AATATCACTGATACAGACTCGGTCTTACACATAATTCATATTTCGGAAATCCTAATTATTTCTTA
131 AATATCACTGATACAGACTCGGTCTTACACATAATTCATATTTCGGAAATCCTAATTATTTCTTA
89058759 ATGTTCATATTAAGCTTTTCAAACATCATATCTCAATTGAATCGAACTTGTTCCCAAATCTCAT
196 ATGTTCATATTAAGCTTTTCAAACATCATATCTCAATTGAATCGAACTTGTTCCCAAATCTCAT
89058823 A
1 A
89058824 AACATTTATA
Statistics
Matches: 259, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
259 259 1.00
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (259 bp):
ACCCTGATTTAATACACCGGAACAAAGCCTGCTAGGCAATAACCCTGATATAATACACCGTCACA
AAGCCTGCTAGGCAATAAGCCTGATTTAATACACTGGCACAAAGCTTGCTAGGCAATAAAGCCCG
AATATCACTGATACAGACTCGGTCTTACACATAATTCATATTTCGGAAATCCTAATTATTTCTTA
ATGTTCATATTAAGCTTTTCAAACATCATATCTCAATTGAATCGAACTTGTTCCCAAATCTCAT
Found at i:89065455 original size:27 final size:26
Alignment explanation
Indices: 89065407--89065466 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
89065397 GCGAGGCTGC
*
89065407 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
89065434 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
89065460 CAGATAT
1 CAGATAT
89065467 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:89066164 original size:54 final size:54
Alignment explanation
Indices: 89066106--89066218 Score: 120
Period size: 54 Copynumber: 2.1 Consensus size: 54
89066096 TTAACACCCT
*
89066106 AGGGGAAAAATGGCAATTT-TACCCCACAAGGGTATCTCGATAATTTTACCCTAC
1 AGGGGAAAAATGG-AATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTAC
* *** * * * * *
89066160 AGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTAC
1 AGGGGAAAAATGGAATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTAC
89066214 AGGGG
1 AGGGG
89066219 TATTTCGGTA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
53 4 0.08
54 44 0.92
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (54 bp):
AGGGGAAAAATGGAATTTCTACCCCACAAGGGTATCTCGATAATTCTACCCTAC
Found at i:89066219 original size:54 final size:54
Alignment explanation
Indices: 89066121--89066262 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 54
89066111 AAAAATGGCA
* * * *
89066121 ATTT-TACCCCACAAGGGTATCTCGATAATTTTACCCTACAGGGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGT
* *
89066174 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGT
* * * * * *
89066228 AATTCTAACTTATAGGGGTATTTCAATAATTCTAC
1 ATTTCTACCCTACAAGGGTATTTCGATAATTCTAC
89066263 AACTTATCCA
Statistics
Matches: 74, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
53 4 0.05
54 70 0.95
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGT
Found at i:89066232 original size:27 final size:27
Alignment explanation
Indices: 89066120--89066262 Score: 151
Period size: 27 Copynumber: 5.3 Consensus size: 27
89066110 GAAAAATGGC
* * * * *
89066120 AATTTTACCCCACAAGGGTATCTCGAT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
89066147 AATTTTACCCTACAGGGGTATTTTGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* *
89066174 ATTTCTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
*
89066201 AATTCTATCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGGT
* * * **
89066228 AATTCTAACTTATAGGGGTATTTCAAT
1 AATTCTACCCTACAGGGGTATTTCGGT
89066255 AATTCTAC
1 AATTCTAC
89066263 AACTTATCCA
Statistics
Matches: 98, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGGT
Found at i:89067615 original size:15 final size:14
Alignment explanation
Indices: 89067592--89067627 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
89067582 AAATAATCCA
*
89067592 AATAAAAATGAATT
1 AATAAAAATGAATG
89067606 AATAAGAAATGAATG
1 AATAA-AAATGAATG
89067621 AATAAAA
1 AATAAAA
89067628 GAAGAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (14 bp):
AATAAAAATGAATG
Found at i:89068930 original size:24 final size:24
Alignment explanation
Indices: 89068872--89068939 Score: 111
Period size: 23 Copynumber: 2.9 Consensus size: 24
89068862 GAAATGACTT
*
89068872 TGGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGGATTTGTA
*
89068896 -GACACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGGATTTGTA
89068919 TGGCACTATGTGTGCGGATTT
1 TGGCACTATGTGTGCGGATTT
89068940 CAATGTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 21 0.52
24 19 0.47
ACGTcount: A:0.19, C:0.13, G:0.31, T:0.37
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGTA
Found at i:89068952 original size:24 final size:24
Alignment explanation
Indices: 89068901--89068953 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
89068891 TTGTAGACAC
** *
89068901 TATGTGTGCGGATTTGTATGGCAC
1 TATGTGTGCGGATTTCAATGGCAA
*
89068925 TATGTGTGCGGATTTCAATGTCAA
1 TATGTGTGCGGATTTCAATGGCAA
89068949 TATGT
1 TATGT
89068954 ATGTGAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.21, C:0.11, G:0.28, T:0.40
Consensus pattern (24 bp):
TATGTGTGCGGATTTCAATGGCAA
Found at i:89075962 original size:27 final size:27
Alignment explanation
Indices: 89075932--89076184 Score: 292
Period size: 27 Copynumber: 9.4 Consensus size: 27
89075922 GGGGGAAAAT
* * *
89075932 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
89075959 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
89075986 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
89076013 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
89076040 AATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
89076067 AGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
89076094 GATAATTCTATACTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
89076121 GGTAA-TCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
89076147 AATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
89076174 GGTAATTCTAC
1 GGTAATTCTAC
89076185 AACTTATCCA
Statistics
Matches: 194, Mismatches: 31, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 20 0.10
27 174 0.90
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:89083782 original size:18 final size:19
Alignment explanation
Indices: 89083740--89083788 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
89083730 TTATTTTCTC
*
89083740 AAAAATTTAA-AAATTATT
1 AAAAATTTAATAAATTATA
*
89083758 AATAATTTAATAAATTA-A
1 AAAAATTTAATAAATTATA
*
89083776 AAAAATTAAATAA
1 AAAAATTTAATAA
89083789 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTTAATAAATTATA
Found at i:89096597 original size:48 final size:48
Alignment explanation
Indices: 89096459--89096694 Score: 230
Period size: 48 Copynumber: 4.9 Consensus size: 48
89096449 ATAGGATGAA
* * *
89096459 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCGCATGTCG
1 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATCTCC
** * * * *
89096507 AGGCCAATGCCAT-ATCCTAGACATGGTCTTACACTAGCTCTCATCTCC
1 TTGCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCTCATCTCC
* * *
89096555 TTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGTTCTCACAACATCC
1 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGG--CTCTCATC-TCC
* * **
89096606 TT---GATGCTATGTTCCAAACATGGTCTTACACTGGTTCTCA-CAAC
1 TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATCTCC
* *
89096650 ATCCCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT
1 TTGCC-GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT
89096695 ATTACCCAAA
Statistics
Matches: 151, Mismatches: 27, Indels: 19
0.77 0.14 0.10
Matches are distributed among these distances:
44 2 0.01
45 1 0.01
46 4 0.03
47 3 0.02
48 128 0.85
49 2 0.01
50 6 0.04
51 5 0.03
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.30
Consensus pattern (48 bp):
TTGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATCTCC
Found at i:89096650 original size:25 final size:25
Alignment explanation
Indices: 89096574--89096651 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
89096564 CCATGTCCCA
89096574 AACATGGTCTTACACTGGTTCTCAC
1 AACATGGTCTTACACTGGTTCTCAC
* ** *
89096599 AACAT--CCTTGATGCTATGTTC-CA-
1 AACATGGTCTT-ACACT-GGTTCTCAC
89096622 AACATGGTCTTACACTGGTTCTCAC
1 AACATGGTCTTACACTGGTTCTCAC
89096647 AACAT
1 AACAT
89096652 CCCTGATGCC
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
23 12 0.31
24 10 0.26
25 17 0.44
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (25 bp):
AACATGGTCTTACACTGGTTCTCAC
Found at i:89098129 original size:26 final size:26
Alignment explanation
Indices: 89098089--89098162 Score: 105
Period size: 25 Copynumber: 2.9 Consensus size: 26
89098079 CCTTTACATA
89098089 TATGCTCACATGAGCTATGAAAAGAG
1 TATGCTCACATGAGCTATGAAAAGAG
* **
89098115 TATGCTCACACGAGCCGTG-AAAGAG
1 TATGCTCACATGAGCTATGAAAAGAG
*
89098140 TATGCTTACATGAGCTATGAAAA
1 TATGCTCACATGAGCTATGAAAA
89098163 TGGGTCAGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 21 0.52
26 19 0.47
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (26 bp):
TATGCTCACATGAGCTATGAAAAGAG
Found at i:89117935 original size:27 final size:27
Alignment explanation
Indices: 89117905--89118082 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
89117895 ATATTGAGCC
* * * *
89117905 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* * *
89117932 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
89117959 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
89117987 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
89118014 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
89118041 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
89118068 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
89118083 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:89118044 original size:82 final size:81
Alignment explanation
Indices: 89117926--89118081 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
89117916 TGCTATATAA
* *
89117926 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
89117991 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
89118008 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
89118072 CACTTAGTGC
65 CACTTAGTGC
89118082 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 17 0.25
82 50 0.75
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:89123040 original size:18 final size:18
Alignment explanation
Indices: 89123009--89123051 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
89122999 CCTATTACAA
89123009 TAACAATAAATAGTGCAG
1 TAACAATAAATAGTGCAG
* *
89123027 TAACAGTAATTAGTGCAG
1 TAACAATAAATAGTGCAG
89123045 TAACAAT
1 TAACAAT
89123052 TTAAACAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.26
Consensus pattern (18 bp):
TAACAATAAATAGTGCAG
Found at i:89123415 original size:27 final size:26
Alignment explanation
Indices: 89123385--89123533 Score: 99
Period size: 26 Copynumber: 5.5 Consensus size: 26
89123375 ACATAGGGAA
*
89123385 AAAAAAGTCATCTTACTACATAAGGGT
1 AAAAAAGTCAT-TTACTACATAAGGGC
**
89123412 AAAACAA-TCATTTTTTATCATATGTAGGGC
1 AAAA-AAGTCATTTACTA-CATA---AGGGC
* *
89123442 -AAAGAGTCATTCTACCACATAAGGGC
1 AAAAAAGTCATT-TACTACATAAGGGC
*
89123468 AAAATAGTCATTTTACTA-ATAAGGGC
1 AAAAAAGTCA-TTTACTACATAAGGGC
* *
89123494 AAAATAGTCATTTTACCACATAAGGGC
1 AAAAAAGTCA-TTTACTACATAAGGGC
*
89123521 TAAACAA-TCATTT
1 -AAAAAAGTCATTT
89123534 TATCAATTTT
Statistics
Matches: 99, Mismatches: 12, Indels: 23
0.74 0.09 0.17
Matches are distributed among these distances:
26 37 0.37
27 35 0.35
28 9 0.09
29 12 0.12
30 6 0.06
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (26 bp):
AAAAAAGTCATTTACTACATAAGGGC
Found at i:89123534 original size:27 final size:27
Alignment explanation
Indices: 89123437--89123535 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
89123427 TATCATATGT
* *
89123437 AGGGC-AAAGAGTCATTCTACCACATA
1 AGGGCAAAATAGTCATTTTACCACATA
*
89123463 AGGGCAAAATAGTCATTTTACTA-ATA
1 AGGGCAAAATAGTCATTTTACCACATA
89123489 AGGGCAAAATAGTCATTTTACCACATA
1 AGGGCAAAATAGTCATTTTACCACATA
* * *
89123516 AGGGCTAAACAATCATTTTA
1 AGGGCAAAATAGTCATTTTA
89123536 TCAATTTTTG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
26 30 0.47
27 34 0.53
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.26
Consensus pattern (27 bp):
AGGGCAAAATAGTCATTTTACCACATA
Found at i:89131078 original size:13 final size:13
Alignment explanation
Indices: 89131060--89131085 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89131050 AGGATTTGTT
89131060 TTAACTAAACTAA
1 TTAACTAAACTAA
89131073 TTAACTAAACTAA
1 TTAACTAAACTAA
89131086 GAATGCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:89131906 original size:13 final size:13
Alignment explanation
Indices: 89131885--89131922 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
89131875 ACTCGATAGG
*
89131885 GACATGCCCGTGC
1 GACACGCCCGTGC
89131898 GACACGCCCGTGC
1 GACACGCCCGTGC
89131911 GACACGCCCGTG
1 GACACGCCCGTG
89131923 TGAGTTGGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.16, C:0.42, G:0.32, T:0.11
Consensus pattern (13 bp):
GACACGCCCGTGC
Found at i:89132022 original size:48 final size:48
Alignment explanation
Indices: 89131911--89132023 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 48
89131901 ACGCCCGTGC
* *
89131911 GACACGCCCGTGTGAGTTGGCTTAGGCCGTGTTTAAAGTCTGCTAAATA
1 GACACGGCTGTGTG-GTTGGCTTAGGCCGTGTTTAAAGTCTGCTAAATA
* * *
89131960 GACACGGCTATGTGGTGTGGCTTAGGCTGTG-TTACAAG-CTGTTAAATA
1 GACACGGCTGTGTGGT-TGGCTTAGGCCGTGTTTA-AAGTCTGCTAAATA
89132008 GACACAGG-TGTGTGGT
1 GACAC-GGCTGTGTGGT
89132024 CTACCTGTGT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
48 26 0.47
49 29 0.53
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (48 bp):
GACACGGCTGTGTGGTTGGCTTAGGCCGTGTTTAAAGTCTGCTAAATA
Found at i:89140174 original size:13 final size:13
Alignment explanation
Indices: 89140156--89140181 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89140146 AGGATTTGTT
89140156 TTAACTAAACTAA
1 TTAACTAAACTAA
89140169 TTAACTAAACTAA
1 TTAACTAAACTAA
89140182 GAATGCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:89142513 original size:26 final size:27
Alignment explanation
Indices: 89142459--89142517 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
89142449 CAAAACAGTC
* * * *
89142459 ATTTTACCCTACAGGGGTATTTTGGTA
1 ATTTTACACTACAGAGGTATTTCGATA
89142486 ATTTTACACTACA-AGGTATTTCGATA
1 ATTTTACACTACAGAGGTATTTCGATA
89142512 ATTTTA
1 ATTTTA
89142518 TAAATTGGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (27 bp):
ATTTTACACTACAGAGGTATTTCGATA
Found at i:89142586 original size:27 final size:27
Alignment explanation
Indices: 89142473--89142647 Score: 130
Period size: 27 Copynumber: 6.6 Consensus size: 27
89142463 TACCCTACAG
* *
89142473 GGGTATTTTGGTAATTTTAC-ACTAC-A
1 GGGTATTTCGGTAATTTTACAAAT-CTA
* * * *
89142499 AGGTATTTCGATAATTTTATAAAT-TGG
1 GGGTATTTCGGTAATTTTACAAATCT-A
* * * * *
89142526 GGGAATTTAGGTAATTTGATAAA-CCA
1 GGGTATTTCGGTAATTTTACAAATCTA
*
89142552 GAGGTATTTCGATAATTTTAC-AATCTA
1 G-GGTATTTCGGTAATTTTACAAATCTA
*
89142579 GGGATATTTTGGTAATTTTACAAAT-TA
1 GGG-TATTTCGGTAATTTTACAAATCTA
89142606 GGGTATTTCGGTAATTTTACAAATC-A
1 GGGTATTTCGGTAATTTTACAAATCTA
*
89142632 GGGGTATTTCAGTAAT
1 -GGGTATTTCGGTAAT
89142648 CTAAACAGTT
Statistics
Matches: 116, Mismatches: 23, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
26 42 0.36
27 71 0.61
28 3 0.03
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCTA
Found at i:89142625 original size:53 final size:53
Alignment explanation
Indices: 89142471--89142640 Score: 159
Period size: 53 Copynumber: 3.2 Consensus size: 53
89142461 TTTACCCTAC
* * * *
89142471 AGGGGTATTTTGGTAATTTTAC-ACTACAAGGTATTTCGATAATTTTATAAAT-T
1 AGGGATATTTTGGTAATTTTACAAAT-CAGGGTATTTCGATAATTTTA-CAATCT
* * * * *
89142524 GGGGGA-ATTTAGGTAATTTGATAAACCAGAGGTATTTCGATAATTTTACAATCT
1 -AGGGATATTTTGGTAATTTTACAAATCAG-GGTATTTCGATAATTTTACAATCT
* *
89142578 AGGGATATTTTGGTAATTTTACAAATTAGGGTATTTCGGTAATTTTACAAATC-
1 AGGGATATTTTGGTAATTTTACAAATCAGGGTATTTCGATAATTTTAC-AATCT
*
89142631 AGGGGTATTT
1 AGGGATATTT
89142641 CAGTAATCTA
Statistics
Matches: 94, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
53 49 0.52
54 45 0.48
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (53 bp):
AGGGATATTTTGGTAATTTTACAAATCAGGGTATTTCGATAATTTTACAATCT
Found at i:89142647 original size:53 final size:53
Alignment explanation
Indices: 89142499--89142647 Score: 149
Period size: 54 Copynumber: 2.8 Consensus size: 53
89142489 TTACACTACA
* ** * *
89142499 AGGTATTTCGATAATTTTATAAATTGGGGGAATTTAGGTAATTTGATAAACCAG
1 AGGTATTTCGATAATTTTACAAATCAGGGGTATTTA-GTAATTTGACAAACCAG
* * * **
89142553 AGGTATTTCGATAATTTTAC-AATCTAGGGATATTTTGGTAATTTTACAAATTAG
1 AGGTATTTCGATAATTTTACAAATC-AGGGGTA-TTTAGTAATTTGACAAACCAG
*
89142607 -GGTATTTCGGTAATTTTACAAATCAGGGGTATTTCAGTAAT
1 AGGTATTTCGATAATTTTACAAATCAGGGGTATTT-AGTAAT
89142648 CTAAACAGTT
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
52 3 0.04
53 32 0.41
54 40 0.51
55 3 0.04
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (53 bp):
AGGTATTTCGATAATTTTACAAATCAGGGGTATTTAGTAATTTGACAAACCAG
Found at i:89147492 original size:24 final size:24
Alignment explanation
Indices: 89147464--89147530 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
89147454 TTCCTCAAAT
* *
89147464 CTCTCCATAAATCACTCCTTGATT
1 CTCTCCATAAATCACTCCATGATA
* *
89147488 TTCTCC-TAATATCTCTCCATGATA
1 CTCTCCATAA-ATCACTCCATGATA
* *
89147512 CACTCTATAAATCACTCCA
1 CTCTCCATAAATCACTCCA
89147531 ACCTCCCATT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (24 bp):
CTCTCCATAAATCACTCCATGATA
Found at i:89151537 original size:40 final size:40
Alignment explanation
Indices: 89151493--89151654 Score: 222
Period size: 40 Copynumber: 4.0 Consensus size: 40
89151483 TGATACTTGA
89151493 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
* *
89151533 GGAAT-TGTATCTGGGCTTAAAGACCCGCAGGCTAT-ATGCT
1 GGAATGT-TATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCT
*
89151573 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCGTGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
* * *
89151613 AGAACTG-TATCCGGGCTTAAAGACCCGCAGGCTACGAGCT
1 GGAA-TGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
89151653 GG
1 GG
89151655 TATTATACTG
Statistics
Matches: 107, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
39 2 0.02
40 101 0.94
41 4 0.04
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
Found at i:89151629 original size:80 final size:80
Alignment explanation
Indices: 89151493--89151646 Score: 272
Period size: 80 Copynumber: 1.9 Consensus size: 80
89151483 TGATACTTGA
* * * *
89151493 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCTGGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTAGAACTGTATCCGGGCTTAAAGACC
89151558 CGCAGGCTATATGCT
66 CGCAGGCTATATGCT
89151573 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTAGAACTGTATCCGGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTAGAACTGTATCCGGGCTTAAAGACC
89151638 CGCAGGCTA
66 CGCAGGCTA
89151647 CGAGCTGGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAAGCTTCGTGCTAGAACTGTATCCGGGCTTAAAGACC
CGCAGGCTATATGCT
Found at i:89153091 original size:20 final size:19
Alignment explanation
Indices: 89153045--89153091 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
89153035 GTAATTCATG
89153045 TTTAATTGCTGAATGGAGT
1 TTTAATTGCTGAATGGAGT
* *
89153064 TTTGAATTGGTAGAATTGAGT
1 TTT-AATTGCT-GAATGGAGT
89153085 TTTAATT
1 TTTAATT
89153092 TTAAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTAATTGCTGAATGGAGT
Found at i:89157245 original size:142 final size:142
Alignment explanation
Indices: 89156989--89157272 Score: 514
Period size: 142 Copynumber: 2.0 Consensus size: 142
89156979 CTATCAGCAT
* *
89156989 CTATTTTAAGGTAAATTTCACCTATTTCATAGTTTCCATGATTCAACTAGCCATTTGACATACAT
1 CTATTTTAAGGCAAATTTCACCTATTTCATAGTTTCCATGATTCAACTAGCCATTTAACATACAT
*
89157054 AGCACCAAATATGATCGTGATTAACCATTCCAATGGCTAATCATTGCCAAGCATTTCCACACCTC
66 AGCACCAAATATAATCGTGATTAACCATTCCAATGGCTAATCATTGCCAAGCATTTCCACACCTC
89157119 TCAATAACCATA
131 TCAATAACCATA
* * *
89157131 CTATTTTAAGGCAGATTTTACCTATTTCATAGTTTCCATGATTCAAGTAGCCATTTAACATACAT
1 CTATTTTAAGGCAAATTTCACCTATTTCATAGTTTCCATGATTCAACTAGCCATTTAACATACAT
89157196 AGCACCAAATATAATCGTGATTAACCATTCCAATGGCTAATCATTGCCAAGCATTTCCACACCTC
66 AGCACCAAATATAATCGTGATTAACCATTCCAATGGCTAATCATTGCCAAGCATTTCCACACCTC
89157261 TCAATAACCATA
131 TCAATAACCATA
89157273 TATATTCAAA
Statistics
Matches: 136, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 136 1.00
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.32
Consensus pattern (142 bp):
CTATTTTAAGGCAAATTTCACCTATTTCATAGTTTCCATGATTCAACTAGCCATTTAACATACAT
AGCACCAAATATAATCGTGATTAACCATTCCAATGGCTAATCATTGCCAAGCATTTCCACACCTC
TCAATAACCATA
Found at i:89159895 original size:23 final size:22
Alignment explanation
Indices: 89159865--89159908 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
89159855 TCTCAATTCA
*
89159865 TAAATAAATTCATACCAAAACT
1 TAAATAAAATCATACCAAAACT
*
89159887 TAAACTAAAATCATACCTAAAC
1 TAAA-TAAAATCATACCAAAAC
89159909 ATACGATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAATAAAATCATACCAAAACT
Found at i:89173995 original size:19 final size:19
Alignment explanation
Indices: 89173971--89174008 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
89173961 ATGCATAGAA
89173971 GTGCTTTAGTTTAGGGTCG
1 GTGCTTTAGTTTAGGGTCG
89173990 GTGCTTTAGTTTAGGGTCG
1 GTGCTTTAGTTTAGGGTCG
89174009 ACCAAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.37, T:0.42
Consensus pattern (19 bp):
GTGCTTTAGTTTAGGGTCG
Found at i:89179621 original size:41 final size:41
Alignment explanation
Indices: 89179564--89179643 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
89179554 ATTGCTCAGA
* *
89179564 GGATAGGTGCTGGAATTAATTAACAACACGTCAACAAAAAT
1 GGATAGGTGCTAGAATTAATTAACAACACATCAACAAAAAT
*
89179605 GGATAGGTGTTAGAATTAATTAACAACACATCAACAAAA
1 GGATAGGTGCTAGAATTAATTAACAACACATCAACAAAA
89179644 TATAACGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (41 bp):
GGATAGGTGCTAGAATTAATTAACAACACATCAACAAAAAT
Found at i:89179837 original size:13 final size:13
Alignment explanation
Indices: 89179819--89179852 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
89179809 CATACATTTT
*
89179819 ATATTCATTTCTC
1 ATATTCAATTCTC
89179832 ATATTCAATTCTC
1 ATATTCAATTCTC
89179845 ATATTCAA
1 ATATTCAA
89179853 ACAAAAGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTCAATTCTC
Found at i:89180232 original size:13 final size:13
Alignment explanation
Indices: 89180214--89180247 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
89180204 ACTAACTTGT
89180214 GCCACACGACCAA
1 GCCACACGACCAA
89180227 GCCACACGACCAA
1 GCCACACGACCAA
89180240 GCCACACG
1 GCCACACG
89180248 TCCGTGTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.47, G:0.18, T:0.00
Consensus pattern (13 bp):
GCCACACGACCAA
Found at i:89182141 original size:24 final size:24
Alignment explanation
Indices: 89182087--89182177 Score: 101
Period size: 24 Copynumber: 3.7 Consensus size: 24
89182077 GACTCACCAA
* *
89182087 AGCTCGTATGAGCTTACCGATATATC
1 AGCTCGTAAGAGCTTA-CTAT-TATC
89182113 AGCTCGTAAGAGCTTACTATTATC
1 AGCTCGTAAGAGCTTACTATTATC
* * * *
89182137 AGCTCATAAGAACTTACTGTTTTC
1 AGCTCGTAAGAGCTTACTATTATC
*
89182161 AGCTCGTTAGAGCTTAC
1 AGCTCGTAAGAGCTTAC
89182178 CGTTTCAGCT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
24 38 0.68
25 3 0.05
26 15 0.27
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACTATTATC
Found at i:89182173 original size:48 final size:47
Alignment explanation
Indices: 89182111--89182203 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 47
89182101 TACCGATATA
*
89182111 TCAGCTCGTAAGAGCTTACTATTATCAGCTC-ATAAGAACTTACTGTTT
1 TCAGCTCGTAAGAGCTTACCATT-TCAGCTCAAT-AGAACTTACTGTTT
* * *
89182159 TCAGCTCGTTAGAGCTTACCGTTTCAGCTCAATAGAGCTTACTGT
1 TCAGCTCGTAAGAGCTTACCATTTCAGCTCAATAGAACTTACTGT
89182204 CCATTAGCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 18 0.45
48 22 0.55
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (47 bp):
TCAGCTCGTAAGAGCTTACCATTTCAGCTCAATAGAACTTACTGTTT
Found at i:89182182 original size:24 final size:24
Alignment explanation
Indices: 89182087--89182200 Score: 97
Period size: 24 Copynumber: 4.7 Consensus size: 24
89182077 GACTCACCAA
89182087 AGCTCG-TATGAGCTTACCGATATATC
1 AGCTCGTTA-GAGCTTACCG-T-TATC
* **
89182113 AGCTCGTAAGAGCTTACTATTATC
1 AGCTCGTTAGAGCTTACCGTTATC
* * * * *
89182137 AGCTCATAAGAACTTACTGTTTTC
1 AGCTCGTTAGAGCTTACCGTTATC
89182161 AGCTCGTTAGAGCTTACCGTT-TC
1 AGCTCGTTAGAGCTTACCGTTATC
**
89182184 AGCTCAATAGAGCTTAC
1 AGCTCGTTAGAGCTTAC
89182201 TGTCCATTAG
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
23 17 0.23
24 41 0.55
25 1 0.01
26 14 0.19
27 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (24 bp):
AGCTCGTTAGAGCTTACCGTTATC
Found at i:89191235 original size:21 final size:21
Alignment explanation
Indices: 89191211--89191252 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
89191201 TCATCAGATC
*
89191211 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
89191232 TACATGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
89191253 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.40, T:0.21
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:89193134 original size:193 final size:192
Alignment explanation
Indices: 89192805--89193157 Score: 679
Period size: 193 Copynumber: 1.8 Consensus size: 192
89192795 CTTAAGATTC
89192805 ACCCGTTGAACACATCGGAATATAATTTGAATACGCGGATTTCATGAACGTAAGTGTCATACGCG
1 ACCCGTTGAACACATCGGAATATAATTTGAATACGCGGATTTCATGAACGTAAGTGTCATACGCG
89192870 CAGCTAGACAAACTCAATAGCCTGCGGAACTTATGTAGCCAAGCTACCATGTAACCCGCCCATAA
66 CAGCTAGACAAACTCAATAGCCTGCGGAACTTATGTAGCCAAGCTACCATGTAACCCGCCCATAA
89192935 GTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAANAGTAGAACTTT
131 GTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAA-AGTAGAACTTT
*
89192998 ACCCGTTGAACACATCGGAATATAATTTGAATACGCGGATTTCATGAACGTAAGTGTCATATGCG
1 ACCCGTTGAACACATCGGAATATAATTTGAATACGCGGATTTCATGAACGTAAGTGTCATACGCG
*
89193063 CAGCTAGACAAACTCAATAGCCTGCGGAACTTATGTAGCCAAGCTATCATGTAACCCGCCCATAA
66 CAGCTAGACAAACTCAATAGCCTGCGGAACTTATGTAGCCAAGCTACCATGTAACCCGCCCATAA
89193128 GTGAACTCGGACTCAACTCAACGAGCTCGG
131 GTGAACTCGGACTCAACTCAACGAGCTCGG
89193158 ATGCCTAGTT
Statistics
Matches: 158, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
193 158 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (192 bp):
ACCCGTTGAACACATCGGAATATAATTTGAATACGCGGATTTCATGAACGTAAGTGTCATACGCG
CAGCTAGACAAACTCAATAGCCTGCGGAACTTATGTAGCCAAGCTACCATGTAACCCGCCCATAA
GTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAAAGTAGAACTTT
Found at i:89194356 original size:27 final size:27
Alignment explanation
Indices: 89194315--89194487 Score: 175
Period size: 27 Copynumber: 6.4 Consensus size: 27
89194305 TGGATAAGTT
* *
89194315 GTAGAATTACCGAAATACCCCTATCGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
89194342 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
89194369 GTAGAATTACCGAAATACCCCTGTACG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
89194396 ATAGAATTACTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
89194423 GTAGAAATACCAAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** * * * *
89194450 ACAGAATTACTGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
89194477 GCAAAATTACC
1 GTAGAATTACC
89194488 ATTTTGCCCC
Statistics
Matches: 117, Mismatches: 29, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:89194401 original size:54 final size:54
Alignment explanation
Indices: 89194315--89194487 Score: 222
Period size: 54 Copynumber: 3.2 Consensus size: 54
89194305 TGGATAAGTT
* * *
89194315 GTAGAATTACCGAAATACCCCTAT-CGGGTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTATAC-GATAGAATTACTGAAATACCCTTGTAGG
*
89194369 GTAGAATTACCGAAATACCCCTGTACGATAGAATTACTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTATACGATAGAATTACTGAAATACCCTTGTAGG
* * * * * *
89194423 GTAGAAATACCAAAATACCCCTATAGGACAGAATTACTGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTATACGATAGAATTACTGAAATACCCTTGTAGG
* *
89194477 GCAAAATTACC
1 GTAGAATTACC
89194488 ATTTTGCCCC
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
54 103 0.99
55 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (54 bp):
GTAGAATTACCGAAATACCCCTATACGATAGAATTACTGAAATACCCTTGTAGG
Found at i:89195425 original size:84 final size:84
Alignment explanation
Indices: 89195284--89195451 Score: 300
Period size: 84 Copynumber: 2.0 Consensus size: 84
89195274 TCTGGGTTGG
*
89195284 GATTTTTGCATTCATGATATATTTGTTCTCTATCTGCTATGGGCCTATGGGTTTCATTCTGATTT
1 GATTTTTGCATTCATGATATATTTGTTCTCTATCTACTATGGGCCTATGGGTTTCATTCTGATTT
* *
89195349 CTGTACTGGGCCAAGGCCC
66 ATGTACTAGGCCAAGGCCC
*
89195368 GATTTTTGCATTCATGATATATTTGTTCTCTATCTACTATGGGTCTATGGGTTTCATTCTGATTT
1 GATTTTTGCATTCATGATATATTTGTTCTCTATCTACTATGGGCCTATGGGTTTCATTCTGATTT
89195433 ATGTACTAGGCCAAGGCCC
66 ATGTACTAGGCCAAGGCCC
89195452 AGATAAGTCT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.18, C:0.19, G:0.20, T:0.42
Consensus pattern (84 bp):
GATTTTTGCATTCATGATATATTTGTTCTCTATCTACTATGGGCCTATGGGTTTCATTCTGATTT
ATGTACTAGGCCAAGGCCC
Found at i:89206980 original size:40 final size:40
Alignment explanation
Indices: 89206925--89207110 Score: 268
Period size: 40 Copynumber: 4.7 Consensus size: 40
89206915 ATTTGATGTG
*
89206925 GTATCTGGGCTTAAAGACCCGTAGGCTATATGCTGGAATT
1 GTATCTGGGCTTAAAGACCCGCAGGCTATATGCTGGAATT
*
89206965 GTATCTGGGCTTAAAGACCTGCAGGCTATATGCTGGAATT
1 GTATCTGGGCTTAAAGACCCGCAGGCTATATGCTGGAATT
*
89207005 GTATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATT
1 GTATCTGGGCTTAAAGACCCGCAGGCTATATGCTGGAATT
* * * * *
89207045 GTATCCGGGCATAAAGACCCGCAGGCT-TCGTGTTGGAATG
1 GTATCTGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATT
*
89207085 GTATCTGGG-TTAAAGACCCGTAGGCT
1 GTATCTGGGCTTAAAGACCCGCAGGCT
89207111 TGCGCTAGAA
Statistics
Matches: 134, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 16 0.12
40 118 0.88
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
GTATCTGGGCTTAAAGACCCGCAGGCTATATGCTGGAATT
Found at i:89214106 original size:29 final size:27
Alignment explanation
Indices: 89214088--89214157 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
89214078 ATATTAAGTC
89214088 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
89214115 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
89214143 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
89214158 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:89214151 original size:28 final size:28
Alignment explanation
Indices: 89214088--89214185 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
89214078 ATATTAAGTC
*
89214088 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
89214115 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
89214143 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
89214172 CGCACACTTAGTGC
1 CGCACACTTAGTGC
89214186 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:89216701 original size:45 final size:45
Alignment explanation
Indices: 89216599--89216953 Score: 491
Period size: 45 Copynumber: 7.9 Consensus size: 45
89216589 TTTTCTCAAA
* * * * * **
89216599 TCACCGGCAT-TTCGCCTGCTAGGCTC-GAGGCCTGATTACCATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
* * * *
89216642 TCACCGGTATTATAGCCTGCTATGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATCATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATT
* * *
89216687 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
89216732 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
* * *
89216777 TCACCGGCATCATAGCCTACTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
* *
89216822 TCACCAGCATCATAGCCTACTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
* *
89216867 TCACCGGCATCAGAACCTGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
89216912 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
89216954 CAAATCAACG
Statistics
Matches: 280, Mismatches: 28, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
43 9 0.03
44 16 0.06
45 254 0.91
46 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (45 bp):
TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
Found at i:89224437 original size:59 final size:59
Alignment explanation
Indices: 89224365--89224482 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
89224355 TACTAAATTA
89224365 ACCTTTATAAAATAATAATAAAACTATATAATACATGTCCAAAACTGTCCATGTAACAT
1 ACCTTTATAAAATAATAATAAAACTATATAATACATGTCCAAAACTGTCCATGTAACAT
89224424 ACCTTTATAAAATAATAATAAAACTATATAATACATGTCCAAAACTGTCCATGTAACAT
1 ACCTTTATAAAATAATAATAAAACTATATAATACATGTCCAAAACTGTCCATGTAACAT
89224483 CTCGAATTAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.31
Consensus pattern (59 bp):
ACCTTTATAAAATAATAATAAAACTATATAATACATGTCCAAAACTGTCCATGTAACAT
Found at i:89245113 original size:29 final size:29
Alignment explanation
Indices: 89245080--89245136 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
89245070 CCCGAGCCTA
*
89245080 GGGGCAAAAGTGTAATTATGCAAAAGTTT
1 GGGGCAAAAATGTAATTATGCAAAAGTTT
* *
89245109 GGGGCAAAAATGTAATTTTGCCAAAGTT
1 GGGGCAAAAATGTAATTATGCAAAAGTT
89245137 CGTATTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (29 bp):
GGGGCAAAAATGTAATTATGCAAAAGTTT
Found at i:89255573 original size:43 final size:42
Alignment explanation
Indices: 89255441--89255591 Score: 203
Period size: 42 Copynumber: 3.6 Consensus size: 42
89255431 CTGAAATTAT
* *
89255441 GTGTAAGACCATATCTGAGATATGACATCGATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
89255483 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
* * * * *
89255525 GTGTAAGACCATAGCTGGGCTATTGGCATCGATACGGGATTTC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACTTC
* * *
89255568 ATGTAAGACCATATTTGAGATATG
1 GTGTAAGACCATATCTGGGATATG
89255592 TCATTGGTAT
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 62 0.65
43 34 0.35
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
Found at i:89260374 original size:31 final size:31
Alignment explanation
Indices: 89260338--89260525 Score: 322
Period size: 31 Copynumber: 6.1 Consensus size: 31
89260328 TTTAACGGTT
* * *
89260338 ACTGGGTCGAAGCCTTTTCATAAATCATATT
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
*
89260369 ACTGGGCCAAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
89260400 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
89260431 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
*
89260462 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
*
89260493 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTATCATAAATCATATC
89260524 AC
1 AC
89260526 NNNNNNNNNN
Statistics
Matches: 151, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 151 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTATCATAAATCATATC
Found at i:89261851 original size:57 final size:57
Alignment explanation
Indices: 89261762--89261873 Score: 197
Period size: 57 Copynumber: 2.0 Consensus size: 57
89261752 AAATACACAT
89261762 CTGATAGGAGACTGGAGTTAATCCACGCTCCGAGCACTCTTAGCCGACACCCAACAC
1 CTGATAGGAGACTGGAGTTAATCCACGCTCCGAGCACTCTTAGCCGACACCCAACAC
* * *
89261819 CTGATAGGAGACTGGGGTTAATCCACGTTCCGAGCACTCTTAGCCGACGCCCAAC
1 CTGATAGGAGACTGGAGTTAATCCACGCTCCGAGCACTCTTAGCCGACACCCAAC
89261874 CTAAACGAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.26, C:0.32, G:0.23, T:0.19
Consensus pattern (57 bp):
CTGATAGGAGACTGGAGTTAATCCACGCTCCGAGCACTCTTAGCCGACACCCAACAC
Found at i:89262352 original size:76 final size:76
Alignment explanation
Indices: 89262226--89262377 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
89262216 ATAAATTGTA
89262226 AGAGCCCAGGCTTGAACCCAGGCTCCCATACAACCTTAATGACTCCACAACCACTAGACTACAAG
1 AGAGCCCAGGCTTGAACCCAGGCTCCCATACAACCTTAATGACTCCACAACCACTAGACTACAAG
89262291 CTTCCTTGTGT
66 CTTCCTTGTGT
89262302 AGAGCCCAGGCTTGAACCCAGGCTCCCATACAACCTTAATGACTCCACAACCACTAGACTACAAG
1 AGAGCCCAGGCTTGAACCCAGGCTCCCATACAACCTTAATGACTCCACAACCACTAGACTACAAG
89262367 CTTCCTTGTGT
66 CTTCCTTGTGT
89262378 CATTTATTTA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.29, C:0.34, G:0.16, T:0.21
Consensus pattern (76 bp):
AGAGCCCAGGCTTGAACCCAGGCTCCCATACAACCTTAATGACTCCACAACCACTAGACTACAAG
CTTCCTTGTGT
Found at i:89263807 original size:64 final size:64
Alignment explanation
Indices: 89263706--89263833 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
89263696 ACAGTAGTGT
*
89263706 GGCCATCTCCGAGTCCCTCGCAGCTCCAAACCATCTAAGCTTAGGGATTACCTGTACAGTTAGA
1 GGCCATCTCCGAGTCCCTCGCAACTCCAAACCATCTAAGCTTAGGGATTACCTGTACAGTTAGA
89263770 GGCCATCTCCGAGTCCCTCGCAACTCCAAACCATCTAAGCTTAGGGATTACCTGTACAGTTAGA
1 GGCCATCTCCGAGTCCCTCGCAACTCCAAACCATCTAAGCTTAGGGATTACCTGTACAGTTAGA
89263834 AACGGCGTGA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (64 bp):
GGCCATCTCCGAGTCCCTCGCAACTCCAAACCATCTAAGCTTAGGGATTACCTGTACAGTTAGA
Found at i:89264013 original size:31 final size:31
Alignment explanation
Indices: 89263971--89264111 Score: 219
Period size: 31 Copynumber: 4.5 Consensus size: 31
89263961 TTTAACGGTT
*
89263971 ACTGGGTCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
89264002 ACTGGGCCGAAGCCTTATCATAAATCATATG
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
**
89264033 ACTGGGCCGAAGCCTTACCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
89264064 TCTGGGCCGAAGCCTTTTCAAAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
89264095 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
89264112 ACTGTAAACG
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 100 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:89265214 original size:27 final size:26
Alignment explanation
Indices: 89265180--89265257 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
89265170 GGGCATATTC
89265180 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
89265207 GTCATTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAGGGG-TATTACG
* *
89265234 GTCTTTTTACCTAATAGGGGTATT
1 GTCATTTTACCT-ACAGGGGTATT
89265258 TTAGTCATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
26 4 0.09
27 38 0.84
28 3 0.07
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:89265328 original size:27 final size:27
Alignment explanation
Indices: 89265275--89265607 Score: 210
Period size: 27 Copynumber: 12.3 Consensus size: 27
89265265 TTTCACCCTA
* * * **
89265275 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
**
89265302 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* * *
89265329 CAATGGTATTTCT-ATAATTTT-TAGAAAGT
1 CAAGGGTATTT-TGGTAATTTTGT--AAA-C
*
89265358 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTGTAAAC
** *
89265385 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTGTAAAC
** **
89265412 TGAGGGTATTTTGGTAATTTCACT-AAC
1 CAAGGGTATTTTGGTAATTT-TGTAAAC
* **
89265439 CAATGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* * **
89265466 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* * * * **
89265493 TAGGGGTATTTTAGCAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* * * *
89265519 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTT-GTAAAC
*
89265546 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* *
89265573 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTGTAAAC
*
89265600 CGAGGGTA
1 CAAGGGTA
89265608 AAACAGTAAT
Statistics
Matches: 247, Mismatches: 48, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
26 20 0.08
27 201 0.81
28 6 0.02
29 19 0.08
30 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTGTAAAC
Found at i:89265566 original size:80 final size:80
Alignment explanation
Indices: 89265248--89265593 Score: 261
Period size: 81 Copynumber: 4.3 Consensus size: 80
89265238 TTTTACCTAA
* * *** * * * *
89265248 TAGGGGTATTTTAGTCATTTCACCCTACAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTT
1 TAGGGGTATTTTAGTAATTTTACTAAACAAGGGTATTTTGGTAATTTTACAAA-CGAGGGTATTT
** **
89265313 CAGTAATTTTGTAAAC
65 TGGTAATTTTACAAAC
* ** * ** *
89265329 CAATGGTATTTCTA-TAATTTTTA-GAAAGTCAAGGGTATTTCT-GTAATTTTGTAAATCAAGGG
1 TAGGGGTATTT-TAGTAA-TTTTACTAAA--CAAGGGTATTT-TGGTAATTTTACAAA-CGAGGG
89265391 TATTTTGGTAATTTTACAAA-
60 TATTTTGGTAATTTTACAAAC
* * * * * *
89265411 TTGAGGGTATTTTGGTAATTTCACTAACCAATGGTATTTTGGTAATTTTACAAACTAGGGGTATT
1 TAG-GGGTATTTTAGTAATTTTACTAAACAAGGGTATTTTGGTAATTTTACAAACGA-GGGTATT
89265476 TTGGTAATTTTACAAAC
64 TTGGTAATTTTACAAAC
* * * *
89265493 TAGGGGTATTTTAGCAATTTTAC-AAACTAGGGTATTTTGGTAATTTTACTGATCGAGGGTATTT
1 TAGGGGTATTTTAGTAATTTTACTAAACAAGGGTATTTTGGTAATTTTAC-AAACGAGGGTATTT
**
89265557 TGGTAATTTTGTAAAC
65 TGGTAATTTTACAAAC
* *
89265573 CAAGGGTATTTTAGTAATTTT
1 TAGGGGTATTTTAGTAATTTT
89265594 GTAAATCGAG
Statistics
Matches: 208, Mismatches: 45, Indels: 25
0.75 0.16 0.09
Matches are distributed among these distances:
80 66 0.32
81 75 0.36
82 13 0.06
83 53 0.25
84 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (80 bp):
TAGGGGTATTTTAGTAATTTTACTAAACAAGGGTATTTTGGTAATTTTACAAACGAGGGTATTTT
GGTAATTTTACAAAC
Found at i:89265602 original size:54 final size:54
Alignment explanation
Indices: 89265275--89265607 Score: 273
Period size: 54 Copynumber: 6.1 Consensus size: 54
89265265 TTTCACCCTA
* * * ** *
89265275 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
* * * *
89265329 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-CCAAGGGTATTT-TGGTAATTTTGTAAAT
*** ** *
89265385 CAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACT-AAC
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTT-TGTAAAT
* * * **
89265439 CAATGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
* * * * * *
89265492 CTAGGGGTATTTTAGCAATTTTACAAA-CTAGGGTATTTTGGTAATTTTACT-GAT
1 C-AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTT-GTAAAT
* ** *
89265546 CGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
*
89265600 CGAGGGTA
1 CAAGGGTA
89265608 AAACAGTAAT
Statistics
Matches: 222, Mismatches: 44, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
53 41 0.18
54 127 0.57
55 17 0.08
56 37 0.17
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
Found at i:89265615 original size:27 final size:27
Alignment explanation
Indices: 89265585--89265712 Score: 165
Period size: 27 Copynumber: 4.9 Consensus size: 27
89265575 AGGGTATTTT
*
89265585 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
89265612 AGTAATTTTGTAAATCGAGGGTGAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
89265639 AGTAATTCTATAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
89265666 AGTAATTCTGTAAA--GAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
89265691 -GATAATTATGTAAATC-AGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
89265713 CTTTGGTAAT
Statistics
Matches: 91, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
24 1 0.01
25 22 0.24
26 6 0.07
27 62 0.68
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:89265617 original size:54 final size:54
Alignment explanation
Indices: 89265559--89265679 Score: 145
Period size: 54 Copynumber: 2.2 Consensus size: 54
89265549 GGGTATTTTG
*** * *
89265559 GTAATTTTGTAAACCAAGGGT-ATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTTTGTAAACCAAGGGTGA-AACAGTAATTCTATAAATCGAGGGTAAAACA
* * *
89265613 GTAATTTTGTAAATCGAGGGTGAAACAGTAATTCTATAAATTGAGGGTAAAACA
1 GTAATTTTGTAAACCAAGGGTGAAACAGTAATTCTATAAATCGAGGGTAAAACA
*
89265667 GTAATTCTGTAAA
1 GTAATTTTGTAAA
89265680 GAGGGTAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 56 0.98
55 1 0.02
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (54 bp):
GTAATTTTGTAAACCAAGGGTGAAACAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:89268206 original size:40 final size:40
Alignment explanation
Indices: 89268147--89268327 Score: 242
Period size: 40 Copynumber: 4.5 Consensus size: 40
89268137 TATTCGGATG
* *
89268147 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
89268187 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
89268227 ATATCCGGGCTAAATCCCAAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
89268267 ATATCCGGGCTAAGACCCAAAGGCATTTGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TGACT
89268307 ATATCC-GGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
89268328 ATACTTGGGT
Statistics
Matches: 125, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 14 0.11
40 109 0.87
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:89271967 original size:40 final size:40
Alignment explanation
Indices: 89271862--89272078 Score: 237
Period size: 40 Copynumber: 5.5 Consensus size: 40
89271852 GGATTGATAA
* **
89271862 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
89271902 CCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
89271941 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
89271981 TCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
89272021 CCGGGCTATGTCCCGAAGGTATTCGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
89272061 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
89272079 TACTTGGCTG
Statistics
Matches: 153, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 48 0.31
40 104 0.68
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:89275541 original size:31 final size:30
Alignment explanation
Indices: 89275503--89275674 Score: 272
Period size: 31 Copynumber: 5.6 Consensus size: 30
89275493 TTTAACGGTT
89275503 ACTGGGCCGAAGCCTTTCCATAAATCATATC
1 ACTGGGCCGAAGCCTTT-CATAAATCATATC
*
89275534 ACTGGGCCGAAGCCTTTTCATAAATCATATT
1 ACTGGGCCGAAGCC-TTTCATAAATCATATC
89275565 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTT-TCATAAATCATATC
89275596 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTT-TCATAAATCATATC
*
89275627 TCTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCC-TTTCATAAATCATATC
*
89275658 ACTAGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
89275675 ACTGTAAACG
Statistics
Matches: 133, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
30 5 0.04
31 123 0.92
32 5 0.04
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (30 bp):
ACTGGGCCGAAGCCTTTCATAAATCATATC
Found at i:89275949 original size:25 final size:24
Alignment explanation
Indices: 89275880--89275960 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
89275870 CTAGAGGCCT
*
89275880 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
89275904 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
* *
89275928 AGCCCTTTTCGGTAAACTGGGG-AT
1 AGCCCTTTT-GATAAACTGGGGCAA
89275952 AGCCCTTTT
1 AGCCCTTTT
89275961 AGCACTTCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
23 7 0.13
24 34 0.65
25 11 0.21
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:89276804 original size:27 final size:27
Alignment explanation
Indices: 89276769--89276851 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
89276759 GGGCATATTC
* *
89276769 GTCATTTTACCATACAGGGGTATTACG
1 GTCACTTTACCCTACAGGGGTATTACG
* *
89276796 GTCACTTTACCCTACAAGGGCT-TTACA
1 GTCACTTTACCCTAC-AGGGGTATTACG
*
89276823 GTCACTTTACCCTGCAGGGG-ATTTACG
1 GTCACTTTACCCTACAGGGGTA-TTACG
89276850 GT
1 GT
89276852 GTTTTTACCT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
26 4 0.09
27 37 0.80
28 5 0.11
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGTATTACG
Found at i:89277027 original size:27 final size:27
Alignment explanation
Indices: 89276963--89277209 Score: 184
Period size: 27 Copynumber: 9.1 Consensus size: 27
89276953 TTTCTATAAT
* *
89276963 TTTTAGAAAGTCAAGGGTATTTCT-GTAA
1 TTTTACAAA-TCAGGGGTATTT-TGGTAA
** *
89276991 TTTTGTAAATCAGGGGTATTCTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* * *
89277018 TTTTACAAAT-TGAGGGTATTTCGATAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* *
89277045 TTTCACAAA-CTAGTGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
*
89277072 TTTTACAAA-CTAGGGGTAATTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
* *
89277099 TTTTACAAA-CTAGGGGTATTTTAGCAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
* *
89277126 TTTTACAGACCA-GGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
**
89277152 TTTTACTGATC-GAGGGTATTTTGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
** * * *
89277179 TTTTGTAAACCAAGGGTATTTTAGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
89277206 TTTT
1 TTTT
89277210 GTAAATCGAG
Statistics
Matches: 178, Mismatches: 33, Indels: 17
0.78 0.14 0.07
Matches are distributed among these distances:
26 23 0.13
27 146 0.82
28 9 0.05
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:89277097 original size:81 final size:80
Alignment explanation
Indices: 89276976--89277157 Score: 203
Period size: 81 Copynumber: 2.3 Consensus size: 80
89276966 TAGAAAGTCA
** *
89276976 AGGGTATTTCT-GTAATTTTGTAAA-TCAGGGGTATTCTGGTAATTTTACAAA-TTGAGGGTATT
1 AGGGTATTT-TGGTAATTTTACAAACT-AGGGGTATTCTGGTAATTTTACAAACTAG-GGGTATT
* *
89277038 TCGA-TAATTTCACAAACT
63 T-GAGCAATTTCACAAACC
89277056 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTAATT-TGGTAATTTTACAAACTAGGGGTATTT
1 AG-GGTATTTTGGTAATTTTACAAACTAGGGGT-ATTCTGGTAATTTTACAAACTAGGGGTATTT
* * *
89277120 TAGCAATTTTACAGACC
64 GAGCAATTTCACAAACC
89277137 AGGGTATTTTGGTAATTTTAC
1 AGGGTATTTTGGTAATTTTAC
89277158 TGATCGAGGG
Statistics
Matches: 88, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
80 23 0.26
81 59 0.67
82 6 0.07
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTACAAACTAGGGGTATTCTGGTAATTTTACAAACTAGGGGTATTTGA
GCAATTTCACAAACC
Found at i:89277175 original size:80 final size:81
Alignment explanation
Indices: 89277002--89277209 Score: 226
Period size: 80 Copynumber: 2.6 Consensus size: 81
89276992 TTTGTAAATC
* * * * *
89277002 AGGGGTATTCTGGTAATTTTACAAA-TTGAGGGTA-TTTCGATAATTTCACAAACTAGTGGTATT
1 AGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTAG-TAATTTTACAAACCAGTGGTATT
*
89277065 TTGGTAATTTTACAAACT
64 TTGGTAATTTTACAAACG
* * *
89277083 AGGGGTAATTTGGTAATTTTACAAACTAGGGGTATTTTAGCAATTTTACAGACCAG-GGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTT
* *
89277147 GGTAATTTTACTGATCG
66 GGTAATTTTAC-AAACG
** * *
89277164 A-GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTT
89277210 GTAAATCGAG
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
80 58 0.54
81 43 0.40
82 6 0.06
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAGTGGTATTTT
GGTAATTTTACAAACG
Found at i:89277210 original size:27 final size:27
Alignment explanation
Indices: 89276891--89277223 Score: 181
Period size: 27 Copynumber: 12.3 Consensus size: 27
89276881 TTTCACCCTA
* * * *
89276891 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*** *
89276918 CAAGGGTATTCCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
89276945 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTATAAA-C
* *
89276974 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * * *
89277001 CAGGGGTATTCTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * * *
89277028 TGAGGGTATTTCGATAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
89277054 CTAGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * * *
89277082 TAGGGGTAATTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * * * *
89277109 TAGGGGTATTTTAGCAATTTTACAGAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
89277136 C-AGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
89277162 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
89277189 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
89277216 CGAGGGTA
1 CAAGGGTA
89277224 AAACAGTAAT
Statistics
Matches: 241, Mismatches: 56, Indels: 18
0.77 0.18 0.06
Matches are distributed among these distances:
26 24 0.10
27 187 0.78
28 15 0.06
29 15 0.06
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:89277218 original size:54 final size:54
Alignment explanation
Indices: 89276893--89277223 Score: 210
Period size: 54 Copynumber: 6.1 Consensus size: 54
89276883 TCACCCTACA
* * * ** * *
89276893 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTCCAGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
* * * *
89276947 ATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAATTTTGTAAATC-
1 AGGGTATTT-TGGTAA-TTTTACAAA-CCAAGGGTATTT-TAGTAATTTTGTAAATCG
* *** * *** *
89277002 AGGGGTATTCTGGTAATTTTACAAATTGAGGGTA-TTTCGATAATTTCACAAA-CT
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG-TAATTTTGTAAATCG
* * * * ** *
89277056 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTAATTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
* * * * * *
89277110 AGGGGTATTTTAGCAATTTTACAGACC-AGGGTATTTTGGTAATTTTACT-GATCG
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT-GTAAATCG
**
89277164 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
89277218 AGGGTA
1 AGGGTA
89277224 AAACAGTAAT
Statistics
Matches: 218, Mismatches: 43, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
52 1 0.00
53 44 0.20
54 118 0.54
55 22 0.10
56 33 0.15
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
Found at i:89277231 original size:27 final size:27
Alignment explanation
Indices: 89277201--89277301 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 27
89277191 AGGGTATTTT
*
89277201 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
89277228 AGTAATTCTATAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
89277255 AGTAATTCTGTAAA--GAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
89277280 -GATAATTATGTAAATCG-GGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
89277302 CTTTGGTAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
24 1 0.02
25 22 0.33
26 5 0.08
27 38 0.58
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:89284855 original size:61 final size:61
Alignment explanation
Indices: 89284760--89284889 Score: 253
Period size: 61 Copynumber: 2.1 Consensus size: 61
89284750 TCAGAACATA
89284760 ATTTCATTAATATATAAATTTGGTTCGTATATAAGTTTAAATAAATATAATTTACCGAAAT
1 ATTTCATTAATATATAAATTTGGTTCGTATATAAGTTTAAATAAATATAATTTACCGAAAT
89284821 ATTTCATTAATATATAAATTTGGTTCGTATATAAGTTTAAATAAATATAATTTACCGAAAT
1 ATTTCATTAATATATAAATTTGGTTCGTATATAAGTTTAAATAAATATAATTTACCGAAAT
89284882 ATTT-ATTA
1 ATTTCATTA
89284890 TAATTAATGT
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
60 4 0.06
61 65 0.94
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (61 bp):
ATTTCATTAATATATAAATTTGGTTCGTATATAAGTTTAAATAAATATAATTTACCGAAAT
Found at i:89289254 original size:27 final size:27
Alignment explanation
Indices: 89289219--89289454 Score: 251
Period size: 27 Copynumber: 8.7 Consensus size: 27
89289209 ATACCCCCAG
* * *
89289219 TTGTGAAATTACCAAAGTACCCCCGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
* * *
89289246 TTATAAAATTACCCAAATA-TCCTCGAT
1 TTGTAAAATTACCAAAATACCCCT-GAT
*
89289273 TTGTAAAATTACCAAAATTCCCGC-GAT
1 TTGTAAAATTACCAAAATACCC-CTGAT
** * *
89289300 CAGTAAAATTACTAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGAT
* *
89289327 TTGTAAAATTACCAAAATATCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGAT
* *
89289354 TTGTAAAATTACTAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGAT
* **
89289381 TTGTACAATTACCAAAATACCCCTGGC
1 TTGTAAAATTACCAAAATACCCCTGAT
89289408 TTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCCCTGAT
* * *
89289435 TTGTGAAATTATCGAAATAC
1 TTGTAAAATTACCAAAATAC
89289455 TCTCAGTTTG
Statistics
Matches: 175, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.02
27 170 0.97
28 1 0.01
29 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGAT
Found at i:89289632 original size:27 final size:27
Alignment explanation
Indices: 89289474--89289634 Score: 180
Period size: 27 Copynumber: 6.0 Consensus size: 27
89289464 GTAAAATATC
* *
89289474 GAAATAACCCTGTAGGGTAGAA-TAAT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
89289500 CGAAATACCCCTGTAAGGTAGAATTACT
1 -GAAATACCCCTGTAGGGTAGAATTACT
* *
89289528 GAAATACCCCTGTAAGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
89289555 GAAATACCCTTATAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACT
*
89289582 GAAATACCCCTGTAGGATAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
89289609 GAGATACCCTTGTGGGGTAAAATTAC
1 GAAATACCCCTGTAGGGTAGAATTAC
89289635 CATTTTGCCC
Statistics
Matches: 113, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
27 110 0.97
28 3 0.03
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:89289633 original size:81 final size:81
Alignment explanation
Indices: 89289464--89289633 Score: 213
Period size: 81 Copynumber: 2.1 Consensus size: 81
89289454 CTCTCAGTTT
* *
89289464 GTAAAA-TATCGAAATAACCCTGTAGGGTAGAATAATCGAAATACCCCTGTAAGGTAGAATTACT
1 GTAAAATTATCGAAATAACCCTATAGGGTAGAATAACCGAAATACCCCTGTAAGGTAGAATTACT
89289528 GAAATACCCCTGTAAG
66 GAAATACCCCTGTAAG
* *
89289544 GTAGAATTATTGAAAT-ACCCTTATAGGGTAGAA-ATACCGAAATACCCCTGT-AGGATAGAATT
1 GTAAAATTATCGAAATAACCC-TATAGGGTAGAATA-ACCGAAATACCCCTGTAAGG-TAGAATT
* * **
89289606 ACTGAGATACCCTTGTGGG
63 ACTGAAATACCCCTGTAAG
89289625 GTAAAATTA
1 GTAAAATTA
89289634 CCATTTTGCC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
80 13 0.17
81 64 0.83
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (81 bp):
GTAAAATTATCGAAATAACCCTATAGGGTAGAATAACCGAAATACCCCTGTAAGGTAGAATTACT
GAAATACCCCTGTAAG
Found at i:89291664 original size:29 final size:29
Alignment explanation
Indices: 89291625--89291703 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
89291615 CTTAATAATC
*
89291625 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
89291655 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
89291684 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
89291704 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:89293621 original size:25 final size:25
Alignment explanation
Indices: 89293591--89293686 Score: 84
Period size: 25 Copynumber: 3.6 Consensus size: 25
89293581 AATTCACATT
*
89293591 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
* *
89293616 CCGATTCTGATTTTGATTCTGTTACTTGATA
1 -C-----TGATTCTGATTCTGTTACCTGATA
* * *
89293647 CTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGTTACCTGATA
89293672 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
89293687 ATTCTAGTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
25 34 0.58
26 1 0.02
30 1 0.02
31 23 0.39
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTGATA
Found at i:89293626 original size:31 final size:31
Alignment explanation
Indices: 89293588--89293658 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
89293578 TTAAATTCAC
89293588 ATTCTGATTTTGATTCTGTTACCTGATACCG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
* *
89293619 ATTCTGATTTTGATTCTGTTACTTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
89293650 ATTCTGATT
1 ATTCTGATT
89293659 CTGTCACCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACCG
Found at i:89293632 original size:6 final size:6
Alignment explanation
Indices: 89293588--89293700 Score: 72
Period size: 6 Copynumber: 18.3 Consensus size: 6
89293578 TTAAATTCAC
* * * *
89293588 ATTCTG ATTTTG ATTCTG -TTACCTG ATACCG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
89293637 -TTACTTG ATACTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG
1 ATT-C-TG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
89293687 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
89293701 AATGTTTCTT
Statistics
Matches: 82, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
5 6 0.07
6 64 0.78
7 9 0.11
8 3 0.04
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:89293682 original size:31 final size:29
Alignment explanation
Indices: 89293588--89293691 Score: 90
Period size: 31 Copynumber: 3.6 Consensus size: 29
89293578 TTAAATTCAC
* * *
89293588 ATTCTGATTTTGATTCTGTTACCTGATACCG
1 ATTCTGATTCTGATTCTG-TACCT-ATTCTG
* *
89293619 ATTCTGATTTTGATTCTGT---TACT-TG
1 ATTCTGATTCTGATTCTGTACCTATTCTG
*
89293644 ATACTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGT-ACCT-ATTCTG
89293675 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
89293692 AGTTCTGATA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
25 18 0.30
26 1 0.02
27 1 0.02
29 1 0.02
30 3 0.05
31 36 0.60
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (29 bp):
ATTCTGATTCTGATTCTGTACCTATTCTG
Found at i:89295714 original size:27 final size:27
Alignment explanation
Indices: 89295679--89295930 Score: 258
Period size: 27 Copynumber: 9.3 Consensus size: 27
89295669 ATACCCCCAG
* * * *
89295679 TTGTGAAATTACCAAAGTACCCCCGAT
1 TTGTAAAATTACCAAAATACCCCTGGT
* * * *
89295706 TTATAAAATTACCCAAATA-TCCTCGAT
1 TTGTAAAATTACCAAAATACCCCT-GGT
*
89295733 TTGTAAAATTACCAAAATA-CCCTCGAT
1 TTGTAAAATTACCAAAATACCCCT-GGT
** *
89295760 CAGTAAAATTACTAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
89295787 TTGTAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
*
89295814 TTGTAAAATTACTAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* *
89295841 TTGTACAATTACCAAAATACCCCTGGC
1 TTGTAAAATTACCAAAATACCCCTGGT
* * *
89295868 TTATAAAATTACCAAAATACCCTTGAT
1 TTGTAAAATTACCAAAATACCCCTGGT
* * * *
89295895 TTGTGAAATTATCGAAATA-CTCTCGGT
1 TTGTAAAATTACCAAAATACCCCT-GGT
89295922 TTGTAAAAT
1 TTGTAAAAT
89295931 ATCGAAATAA
Statistics
Matches: 189, Mismatches: 33, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.02
27 181 0.96
28 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGGT
Found at i:89295965 original size:27 final size:27
Alignment explanation
Indices: 89295930--89296147 Score: 235
Period size: 27 Copynumber: 8.1 Consensus size: 27
89295920 GTTTGTAAAA
* *
89295930 TATCGAAATAACCCTGTTGGGTAGAAT
1 TATCGAAATACCCCTGTAGGGTAGAAT
*
89295957 AATCGAAATACCCCTGTAGGGTAGAAT
1 TATCGAAATACCCCTGTAGGGTAGAAT
*
89295984 TA-CTAAAATACCCCTGTAGGGTAGAAT
1 TATC-GAAATACCCCTGTAGGGTAGAAT
*
89296011 TATCGAAATACCCCTGTAAGGTAGAAT
1 TATCGAAATACCCCTGTAGGGTAGAAT
* *
89296038 TA-CTGAAATACTCCTGTAAGGTAGAAT
1 TATC-GAAATACCCCTGTAGGGTAGAAT
* * *
89296065 TA-CTGAAATACCCTTGTAGGGTAAAAA
1 TATC-GAAATACCCCTGTAGGGTAGAAT
* *
89296092 TACCGAAATGCCCCTGTAGGGTAGAAT
1 TATCGAAATACCCCTGTAGGGTAGAAT
* * * * *
89296119 TACCGAGATACCCTTGTGGGGTAAAAT
1 TATCGAAATACCCCTGTAGGGTAGAAT
89296146 TA
1 TA
89296148 CCATTTTGCC
Statistics
Matches: 165, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.01
27 161 0.98
28 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
TATCGAAATACCCCTGTAGGGTAGAAT
Found at i:89296034 original size:81 final size:80
Alignment explanation
Indices: 89295926--89296148 Score: 275
Period size: 81 Copynumber: 2.8 Consensus size: 80
89295916 CTCGGTTTGT
* * *
89295926 AAAATATCGAAATAACCCTGTTGGGTAGAATAATCGAAATACCCCTGTAGGGTAGAATTACTAAA
1 AAAATATCGAAATACCCCTGTAGGGTAGAATTA-CGAAATACCCCTGTAGGGTAGAATTACTAAA
89295991 ATACCCCTGTAGGGTA
65 ATACCCCTGTAGGGTA
* * * * * *
89296007 GAATTATCGAAATACCCCTGTAAGGTAGAATTACTGAAATACTCCTGTAAGGTAGAATTACTGAA
1 AAAATATCGAAATACCCCTGTAGGGTAGAATTAC-GAAATACCCCTGTAGGGTAGAATTACTAAA
*
89296072 ATACCCTTGTAGGGTA
65 ATACCCCTGTAGGGTA
* * * * * *
89296088 AAAATACCGAAATGCCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 AAAATATCGAAATACCCCTGTAGGGTAGAATTA-CGAAATACCCCTGTAGGGTAGAATTAC
89296149 CATTTTGCCC
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
80 1 0.01
81 117 0.98
82 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (80 bp):
AAAATATCGAAATACCCCTGTAGGGTAGAATTACGAAATACCCCTGTAGGGTAGAATTACTAAAA
TACCCCTGTAGGGTA
Found at i:89296583 original size:25 final size:28
Alignment explanation
Indices: 89296552--89296629 Score: 90
Period size: 31 Copynumber: 2.8 Consensus size: 28
89296542 GCATTCACAT
89296552 TCTGATTTTGATTCTGTTACCTGATACC
1 TCTGATTTTGATTCTGTTACCTGATACC
89296580 GATTCTGATTTTGATTCTGTTACCTGATA--
1 ---TCTGATTTTGATTCTGTTACCTGATACC
* *
89296609 -CTGATTCTGATTCTGTCACCT
1 TCTGATTTTGATTCTGTTACCT
89296630 AATTCTTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
25 19 0.42
31 26 0.58
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.46
Consensus pattern (28 bp):
TCTGATTTTGATTCTGTTACCTGATACC
Found at i:89296588 original size:31 final size:31
Alignment explanation
Indices: 89296550--89296620 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
89296540 TTGCATTCAC
89296550 ATTCTGATTTTGATTCTGTTACCTGATACCG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
*
89296581 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACCG
89296612 ATTCTGATT
1 ATTCTGATT
89296621 CTGTCACCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACCG
Found at i:89296594 original size:6 final size:6
Alignment explanation
Indices: 89296550--89296662 Score: 63
Period size: 6 Copynumber: 18.3 Consensus size: 6
89296540 TTGCATTCAC
* * * *
89296550 ATTCTG ATTTTG ATTCTG -TTACCTG ATACCG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
89296599 -TTACCTG ATACTG ATTCTG ATTCTG -TCACCTA ATTCTT ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
89296649 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
89296663 AATGTTTCTT
Statistics
Matches: 81, Mismatches: 15, Indels: 22
0.69 0.13 0.19
Matches are distributed among these distances:
5 6 0.07
6 63 0.78
7 9 0.11
8 3 0.04
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:89296640 original size:25 final size:25
Alignment explanation
Indices: 89296581--89296648 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
89296571 CCTGATACCG
* * *
89296581 ATTCTGATTTTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTCACCTA
*
89296606 ATACTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
*
89296631 ATTCTTATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
89296649 ATTCTAGTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:89300081 original size:13 final size:13
Alignment explanation
Indices: 89300063--89300089 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89300053 TAATTAAATG
89300063 AATTAAAAGCTAA
1 AATTAAAAGCTAA
89300076 AATTAAAAGCTAA
1 AATTAAAAGCTAA
89300089 A
1 A
89300090 TTTTGTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (13 bp):
AATTAAAAGCTAA
Found at i:89307950 original size:60 final size:60
Alignment explanation
Indices: 89307857--89307975 Score: 229
Period size: 60 Copynumber: 2.0 Consensus size: 60
89307847 GATCTCAAAA
89307857 TTTCAAAGAACATTAAAAACGGGGCTTGAGAGTTGTAACGCCCCCACGCCAGAGACCGTT
1 TTTCAAAGAACATTAAAAACGGGGCTTGAGAGTTGTAACGCCCCCACGCCAGAGACCGTT
*
89307917 TTTCAAAGAACATTAAAAACGGGGCTTGAGAGTTGTAACGCCCCCACGCCCGAGACCGT
1 TTTCAAAGAACATTAAAAACGGGGCTTGAGAGTTGTAACGCCCCCACGCCAGAGACCGT
89307976 CGCCGGAGTC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (60 bp):
TTTCAAAGAACATTAAAAACGGGGCTTGAGAGTTGTAACGCCCCCACGCCAGAGACCGTT
Found at i:89316776 original size:46 final size:46
Alignment explanation
Indices: 89316718--89316892 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
89316708 TGTAACCCGC
* *
89316718 CCATAAGCGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
89316764 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * * * *
89316814 --TTCA-TGAACTCGGACTTAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
89316857 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
89316893 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 61 0.58
47 26 0.25
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:89316885 original size:93 final size:93
Alignment explanation
Indices: 89316726--89316896 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
89316716 GCCCATAAGC
* * *
89316726 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
89316791 CGAGCTCGGATGCCTAGTTACATTTCAT
66 CGAGCTCGGATGCCTAGTTACATTTCAT
* * *
89316819 GAACTCGGACTTAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
89316884 CGAGTTCGGATGC
66 CGAGCTCGGATGC
89316897 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATTTCAT
Found at i:89322506 original size:40 final size:40
Alignment explanation
Indices: 89322462--89322613 Score: 225
Period size: 40 Copynumber: 3.8 Consensus size: 40
89322452 ATAACCACAA
89322462 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
89322502 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * * *
89322542 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAATTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
89322582 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
89322614 CATTCAAATG
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
39 3 0.03
40 91 0.93
41 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:89322569 original size:80 final size:80
Alignment explanation
Indices: 89322442--89322612 Score: 263
Period size: 80 Copynumber: 2.1 Consensus size: 80
89322432 TCTTCGGAAT
* * *
89322442 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
89322506 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * * * *
89322521 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAATTCGCAC
1 TTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
89322586 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
89322601 TTAGCCCGGATA
1 TTAGCCCGGATA
89322613 TCATTCAAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 4 0.05
80 79 0.95
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:89325528 original size:27 final size:27
Alignment explanation
Indices: 89325497--89325674 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
89325487 TAAATTGTAC
89325497 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
89325524 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
89325550 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
89325578 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
89325606 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
89325633 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
89325660 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
89325675 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:89325611 original size:82 final size:81
Alignment explanation
Indices: 89325498--89325653 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
89325488 AAATTGTACA
* *
89325498 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
89325562 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
89325579 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
89325644 TGCGAGTTGA
65 TGCGAATTGA
89325654 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:89325665 original size:82 final size:81
Alignment explanation
Indices: 89325494--89325674 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
89325484 GATTAAATTG
* *
89325494 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
89325559 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
89325575 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
89325639 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
89325657 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
89325675 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Done.