Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 225 of 427
Found at i:63431386 original size:22 final size:22
Alignment explanation
Indices: 63431348--63431405 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 22
63431338 ATTTAAATAT
*
63431348 CCCTAAATCC-TAAATCTTAAA
1 CCCTAAAACCTTAAATCTTAAA
63431369 CCCTAAAACCTTAAATCTTAAA
1 CCCTAAAACCTTAAATCTTAAA
* *
63431391 TCCTAAAACTTTAAA
1 CCCTAAAACCTTAAA
63431406 CCCTAAAACC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 9 0.27
22 24 0.73
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (22 bp):
CCCTAAAACCTTAAATCTTAAA
Found at i:63431412 original size:22 final size:22
Alignment explanation
Indices: 63431365--63431421 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
63431355 TCCTAAATCT
* * *
63431365 TAAACCCTAAAACCTTAAATCT
1 TAAAACCTAAAACCTTAAACCC
* *
63431387 TAAATCCTAAAACTTTAAACCC
1 TAAAACCTAAAACCTTAAACCC
*
63431409 TAAAACCTTAAAC
1 TAAAACCTAAAAC
63431422 GCTTTTAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (22 bp):
TAAAACCTAAAACCTTAAACCC
Found at i:63439735 original size:43 final size:43
Alignment explanation
Indices: 63439653--63439748 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 43
63439643 TACATGTAAT
*
63439653 CACATATCGATGTAACTGTCCCAGACAGCATCTTACACGAGAA
1 CACATATCGATGTAACTATCCCAGACAGCATCTTACACGAGAA
* * *
63439696 CACATATCGATGTCAAC-ATCCCCGAC-GTAGTCTTGCACGAGAA
1 CACATATCGATGT-AACTATCCCAGACAGCA-TCTTACACGAGAA
63439739 CACATATCGA
1 CACATATCGA
63439749 AAATCCTATG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
42 2 0.04
43 42 0.89
44 3 0.06
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (43 bp):
CACATATCGATGTAACTATCCCAGACAGCATCTTACACGAGAA
Found at i:63440881 original size:14 final size:15
Alignment explanation
Indices: 63440864--63440893 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
63440854 ACACGAAAAT
63440864 TTCACACAT-ATAAA
1 TTCACACATAATAAA
63440878 TTCACACATAATAAA
1 TTCACACATAATAAA
63440893 T
1 T
63440894 GTACAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:63445948 original size:25 final size:25
Alignment explanation
Indices: 63445920--63445981 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
63445910 ACTATGAGAT
*
63445920 TTTAGTAAAATTTATCCTGTCTCAC
1 TTTAGTAAAATTTATCCTATCTCAC
*
63445945 TTTAGTAAAATTTATGCTATCTCAC
1 TTTAGTAAAATTTATCCTATCTCAC
63445970 TTTA-TATAAATT
1 TTTAGTA-AAATT
63445982 GTATGATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 2 0.06
25 32 0.94
ACGTcount: A:0.32, C:0.15, G:0.06, T:0.47
Consensus pattern (25 bp):
TTTAGTAAAATTTATCCTATCTCAC
Found at i:63446505 original size:32 final size:32
Alignment explanation
Indices: 63446469--63446554 Score: 127
Period size: 32 Copynumber: 2.7 Consensus size: 32
63446459 GGGTAGACAT
*
63446469 ACGGGCATGTGTCTATGCCGTGTGCTTGCCCC
1 ACGGGCATGTGTCTAGGCCGTGTGCTTGCCCC
* *
63446501 ACGGGCATGTGTCTAGGCCTTGTGCTTGTCCC
1 ACGGGCATGTGTCTAGGCCGTGTGCTTGCCCC
* *
63446533 ACGGGCATGTGTATAGGTCGTG
1 ACGGGCATGTGTCTAGGCCGTG
63446555 CGTCCCCTGC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.12, C:0.26, G:0.34, T:0.29
Consensus pattern (32 bp):
ACGGGCATGTGTCTAGGCCGTGTGCTTGCCCC
Found at i:63450018 original size:40 final size:40
Alignment explanation
Indices: 63449866--63450050 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
63449856 TCGAATGATG
* * *
63449866 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
63449906 TCTGGACTAGGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
63449946 TCCGAGCTAAG-CCCGAAGGGATTGGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
63449985 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
63450026 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
63450051 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
39 32 0.27
40 76 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:63450072 original size:79 final size:79
Alignment explanation
Indices: 63449919--63450083 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
63449909 GGACTAGGAT
* * ***
63449919 CCGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGGATTGGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
63449984 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
63449998 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGAGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
63450061 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
63450077 CCGAAGG
1 CCGAAGG
63450084 TACGTGATTC
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.67
80 22 0.31
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:63458100 original size:40 final size:40
Alignment explanation
Indices: 63457951--63458132 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 40
63457941 AATGATGTCC
* * * *
63457951 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCT
* * *
63457991 GGACTAGGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCT
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCT
*
63458031 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCT
* * *
63458070 GGGTTAAGTCCCGAAGGCATTTGTGAGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCT
*
63458110 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
63458133 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
39 35 0.29
40 75 0.62
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCT
Found at i:63458154 original size:79 final size:79
Alignment explanation
Indices: 63458001--63458165 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
63457991 GGACTAGGAT
* * * **
63458001 CCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGAGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
63458066 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* *
63458080 CCGAAGGCATTTGTGAGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGAGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
63458143 TATATC-CGGTTAAATT
63 TAAATCTCGGTTAAATC
63458159 CCGAAGG
1 CCGAAGG
63458166 TACGTGATTC
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGAGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:63459619 original size:43 final size:43
Alignment explanation
Indices: 63459590--63459713 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 43
63459580 TATCACATAT
* * *
63459590 CGATGTCACTGTCCCAGAGAAGGTCTTACATGAAATCAATTAA
1 CGATGCCAATGTCCCAGACAAGGTCTTACATGAAATCAATTAA
* * *
63459633 CGATGCCAATGTCCCAGACATGGTCTTACACGTAACCTCAA-T-A
1 CGATGCCAATGTCCCAGACAAGGTCTTACATG-AA-ATCAATTAA
* * * *
63459676 CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCA
1 CGATGCCAATGTCCCAGACAAGGTCTTACATGAAATCA
63459714 CACCTCGATA
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 3 0.04
42 1 0.01
43 57 0.84
44 3 0.04
45 4 0.06
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACAAGGTCTTACATGAAATCAATTAA
Found at i:63465271 original size:22 final size:21
Alignment explanation
Indices: 63465242--63465310 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 21
63465232 CGAACTAATT
63465242 AATTATTTCAATATCCATTTC
1 AATTATTTCAATATCCATTTC
63465263 AATTCATTTCTTAAT-TCACAGTAATT-
1 AATT-ATTTC--AATATC-CA-T--TTC
63465289 AATTATTTCAATATCCATTTC
1 AATTATTTCAATATCCATTTC
63465310 A
1 A
63465311 CAATAATTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 18
0.68 0.00 0.32
Matches are distributed among these distances:
20 2 0.05
21 5 0.13
22 6 0.15
23 7 0.18
24 7 0.18
25 6 0.15
26 4 0.10
27 2 0.05
ACGTcount: A:0.35, C:0.17, G:0.01, T:0.46
Consensus pattern (21 bp):
AATTATTTCAATATCCATTTC
Found at i:63465326 original size:47 final size:47
Alignment explanation
Indices: 63465237--63465329 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
63465227 AAGGTCGAAC
* * * *
63465237 TAATTAATTATTTCAATATCCATTTCAATTCATTTCTTAATTCACAG
1 TAATTAATTATTTCAATATCCATTTCAAATAATTACTAAATTCACAG
63465284 TAATTAATTATTTCAATATCCATTTCACAATAATTAC-AAATTCACA
1 TAATTAATTATTTCAATATCCATTTCA-AATAATTACTAAATTCACA
63465330 TACATTCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 35 0.85
48 6 0.15
ACGTcount: A:0.39, C:0.17, G:0.01, T:0.43
Consensus pattern (47 bp):
TAATTAATTATTTCAATATCCATTTCAAATAATTACTAAATTCACAG
Found at i:63466402 original size:20 final size:20
Alignment explanation
Indices: 63466379--63466435 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
63466369 TTAATTTATT
63466379 TTTAATAATAATAATCATAA
1 TTTAATAATAATAATCATAA
*
63466399 TTTAATAAT-ATAAATTATAA
1 TTTAATAATAAT-AATCATAA
*
63466419 TTTGATAGAATAATAAT
1 TTT-A-ATAATAATAAT
63466436 AATGATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 2 0.06
20 19 0.61
21 1 0.03
22 7 0.23
23 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (20 bp):
TTTAATAATAATAATCATAA
Found at i:63466611 original size:34 final size:34
Alignment explanation
Indices: 63466550--63466620 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
63466540 ACACTTGCCT
* *
63466550 TTAATTTAATTTAATTCATAATATTATATTTATAA
1 TTAATTTAATTTAATTAATAATATTATAATTA-AA
*
63466585 TTAA-TTAATTTAA-TAATATATTTTATAATTAAA
1 TTAATTTAATTTAATTAATA-ATATTATAATTAAA
63466618 TTA
1 TTA
63466621 TATATATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 9 0.28
34 19 0.59
35 4 0.12
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (34 bp):
TTAATTTAATTTAATTAATAATATTATAATTAAA
Found at i:63466623 original size:20 final size:21
Alignment explanation
Indices: 63466590--63466630 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
63466580 TATAATTAAT
*
63466590 TAATTTAATAATATAT-TTTA
1 TAATTAAATAATATATATTTA
*
63466610 TAATTAAATTATATATATTTA
1 TAATTAAATAATATATATTTA
63466631 CATGATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATTAAATAATATATATTTA
Found at i:63479147 original size:13 final size:13
Alignment explanation
Indices: 63479129--63479154 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63479119 TGTCCTTCTC
63479129 AGATACAGATAAT
1 AGATACAGATAAT
63479142 AGATACAGATAAT
1 AGATACAGATAAT
63479155 CGGAATTCTA
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:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
AGATACAGATAAT
Found at i:63479426 original size:15 final size:15
Alignment explanation
Indices: 63479408--63479437 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63479398 AACATGCTTT
63479408 TATACAAATAACAGA
1 TATACAAATAACAGA
*
63479423 TATACAAATAGCAGA
1 TATACAAATAACAGA
63479438 CAGTCAGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.13, G:0.10, T:0.20
Consensus pattern (15 bp):
TATACAAATAACAGA
Found at i:63480384 original size:89 final size:89
Alignment explanation
Indices: 63480221--63480402 Score: 301
Period size: 89 Copynumber: 2.0 Consensus size: 89
63480211 AGCGTAATCA
*
63480221 AACGATGTACAACAAGGAGATGAACTAGAAAAATGAAAAAAAGGGAGAGGAAGAGACAAAAATTT
1 AACGATGTACAACAAGGAGATGAACTAGAAAAATGAAAAAAAGGGAGAGGAAGAGACAAAAAATT
63480286 GGCAAAGAAGGGGGAAAGAAACAG
66 GGCAAAGAAGGGGGAAAGAAACAG
* * *
63480310 AACGATGTACAACAAGGAGTTGAACTAGAAAAATGAAAGAAAGGGAGAGGAATAGACAAAAAATT
1 AACGATGTACAACAAGGAGATGAACTAGAAAAATGAAAAAAAGGGAGAGGAAGAGACAAAAAATT
* * *
63480375 GGTAGAGAAGGGGGAAAGAAATAG
66 GGCAAAGAAGGGGGAAAGAAACAG
63480399 AACG
1 AACG
63480403 TCAAAAGCTG
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 86 1.00
ACGTcount: A:0.53, C:0.07, G:0.30, T:0.10
Consensus pattern (89 bp):
AACGATGTACAACAAGGAGATGAACTAGAAAAATGAAAAAAAGGGAGAGGAAGAGACAAAAAATT
GGCAAAGAAGGGGGAAAGAAACAG
Found at i:63486379 original size:40 final size:40
Alignment explanation
Indices: 63486175--63486381 Score: 188
Period size: 40 Copynumber: 5.2 Consensus size: 40
63486165 CAATTGAATG
* * ** **
63486175 ATATCCGGGCTAAGTCCCGAAGACATTTATGC-TAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAT-GTGGTT
* * **
63486215 A-ATCTGGGTTAAGACCCGAAGGCCATT-GTGC-TAGTGACT
1 ATATCCGGGCTAAGACCCGAAGG-CATTCGTGCAT-GTGGTT
* * *
63486254 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
* * * * *
63486294 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
*
63486334 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
63486374 ATATCCGG
1 ATATCCGG
63486382 TTGTATTCCG
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 31 0.22
40 108 0.78
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
Found at i:63494299 original size:40 final size:40
Alignment explanation
Indices: 63494240--63494447 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
63494230 CAATTGAATG
* * * *
63494240 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
63494280 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
63494320 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
63494360 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
63494400 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
63494440 ATATCCGG
1 ATATCCGG
63494448 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:63494378 original size:80 final size:80
Alignment explanation
Indices: 63494241--63494447 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
63494231 AATTGAATGA
* * ** * * *
63494241 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
63494306 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
63494319 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
63494384 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
63494401 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
63494448 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:63498360 original size:29 final size:29
Alignment explanation
Indices: 63498297--63498354 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
63498287 TACCCACACC
63498297 ATATTCCATATTATCAAACCCACATGTAT
1 ATATTCCATATTATCAAACCCACATGTAT
63498326 ATATTCCATATTATCAAACCCACATGTAT
1 ATATTCCATATTATCAAACCCACATGTAT
63498355 TCATTCACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (29 bp):
ATATTCCATATTATCAAACCCACATGTAT
Found at i:63498791 original size:26 final size:26
Alignment explanation
Indices: 63498734--63498785 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
63498724 GAATTAGATG
*
63498734 AAATTTGAAATCTTGAAAATTATTAA
1 AAATTTGAAATCTTGAAAATTATGAA
*
63498760 AAATTTGAAATCTTTAAAATT-TGAA
1 AAATTTGAAATCTTGAAAATTATGAA
63498785 A
1 A
63498786 TTATTTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (26 bp):
AAATTTGAAATCTTGAAAATTATGAA
Found at i:63498792 original size:17 final size:17
Alignment explanation
Indices: 63498736--63498793 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 17
63498726 ATTAGATGAA
*
63498736 ATTTGAAATCTTGAAAATT
1 ATTTAAAAT-TTG-AAATT
*
63498755 ATTAAAAATTTGAAA-T
1 ATTTAAAATTTGAAATT
*
63498771 CTTTAAAATTTGAAATT
1 ATTTAAAATTTGAAATT
63498788 ATTTAA
1 ATTTAA
63498794 TATATATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 14 0.42
17 9 0.27
18 3 0.09
19 7 0.21
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (17 bp):
ATTTAAAATTTGAAATT
Found at i:63498948 original size:8 final size:7
Alignment explanation
Indices: 63498907--63498970 Score: 83
Period size: 7 Copynumber: 8.7 Consensus size: 7
63498897 CCAAACACTA
63498907 AACCCCT
1 AACCCCT
63498914 AACCCCT
1 AACCCCT
*
63498921 ATCCCCTT
1 AACCCC-T
*
63498929 AACACCTT
1 AAC-CCCT
63498937 AACCCCT
1 AACCCCT
63498944 AAACCCCT
1 -AACCCCT
63498952 AACCCCT
1 AACCCCT
63498959 AACCCCT
1 AACCCCT
63498966 AACCC
1 AACCC
63498971 ATGCCCCTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
7 34 0.68
8 14 0.28
9 2 0.04
ACGTcount: A:0.30, C:0.53, G:0.00, T:0.17
Consensus pattern (7 bp):
AACCCCT
Found at i:63499077 original size:21 final size:21
Alignment explanation
Indices: 63499047--63499106 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
63499037 ATTAAATATT
*
63499047 AACCCTTAAATTTTAAA-CCTTA
1 AACCC-TAAATTCTAAATCC-TA
**
63499069 AACCCTAAACCCTAAATCCTA
1 AACCCTAAATTCTAAATCCTA
63499090 AACCCTAAATTCCTAAA
1 AACCCTAAATT-CTAAA
63499107 CCCAATCCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (21 bp):
AACCCTAAATTCTAAATCCTA
Found at i:63499153 original size:29 final size:29
Alignment explanation
Indices: 63499116--63499312 Score: 101
Period size: 29 Copynumber: 6.6 Consensus size: 29
63499106 ACCCAATCCT
63499116 TAAACCATAAACCATAATCCCTAAACCCA
1 TAAACCATAAACCATAATCCCTAAACCCA
* * * *
63499145 TAATCCATAATCCATAATCCATAAACCTTAAAA
1 TAAACCATAAACCATAATCCCTAAACC----CA
*
63499178 TATTAACTCATAAACCATAAACCCTTAAA-CCA
1 TA--AAC-CATAAACCATAATCCC-TAAACCCA
** * * *
63499210 TAAACCCCAACCCGTAATCGCTAAACCCA
1 TAAACCATAAACCATAATCCCTAAACCCA
* * **** * *
63499239 TAATCCATAAACCTTAAAATATTAACTCA
1 TAAACCATAAACCATAATCCCTAAACCCA
* * *
63499268 TAAACCATAAACCCTAAACCCTAAA-CTA
1 TAAACCATAAACCATAATCCCTAAACCCA
* *
63499296 TATACCCTAAACCATAA
1 TAAACCATAAACCATAA
63499313 ACCTTAGACT
Statistics
Matches: 122, Mismatches: 37, Indels: 19
0.69 0.21 0.11
Matches are distributed among these distances:
28 19 0.16
29 74 0.61
30 3 0.02
32 3 0.02
33 3 0.02
35 2 0.02
36 14 0.11
37 4 0.03
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (29 bp):
TAAACCATAAACCATAATCCCTAAACCCA
Found at i:63499198 original size:7 final size:7
Alignment explanation
Indices: 63499060--63499315 Score: 115
Period size: 7 Copynumber: 35.9 Consensus size: 7
63499050 CCTTAAATTT
*
63499060 TAAACCT
1 TAAACCA
*
63499067 TAAACCC
1 TAAACCA
*
63499074 TAAACCC
1 TAAACCA
63499081 TAAATCC-
1 TAAA-CCA
*
63499088 TAAACCC
1 TAAACCA
63499095 TAAATTCC-
1 TAAA--CCA
63499103 TAAACC-
1 TAAACCA
* * *
63499109 CAATCCT
1 TAAACCA
63499116 TAAACCA
1 TAAACCA
63499123 TAAACCA
1 TAAACCA
* *
63499130 TAATCCC
1 TAAACCA
63499137 TAAACCCA
1 TAAA-CCA
*
63499145 TAATCCA
1 TAAACCA
*
63499152 TAATCCA
1 TAAACCA
*
63499159 TAATCCA
1 TAAACCA
*
63499166 TAAACCT
1 TAAACCA
**
63499173 TAAAATA
1 TAAACCA
*
63499180 TTAACTCA
1 TAAAC-CA
63499188 TAAACCA
1 TAAACCA
*
63499195 TAAACCCT
1 TAAA-CCA
63499203 TAAACCA
1 TAAACCA
*
63499210 TAAACCC
1 TAAACCA
* * *
63499217 CAACCCG
1 TAAACCA
*
63499224 TAATCGC-
1 TAAAC-CA
63499231 TAAACCCA
1 TAAA-CCA
*
63499239 TAATCCA
1 TAAACCA
*
63499246 TAAACCT
1 TAAACCA
**
63499253 TAAAATA
1 TAAACCA
*
63499260 TTAACTCA
1 TAAAC-CA
63499268 TAAACCA
1 TAAACCA
*
63499275 TAAACCC
1 TAAACCA
*
63499282 TAAACCC
1 TAAACCA
*
63499289 TAAACTA
1 TAAACCA
* *
63499296 TATACCC
1 TAAACCA
63499303 TAAACCA
1 TAAACCA
63499310 TAAACC
1 TAAACC
63499316 TTAGACTATA
Statistics
Matches: 190, Mismatches: 47, Indels: 24
0.73 0.18 0.09
Matches are distributed among these distances:
6 8 0.04
7 148 0.78
8 32 0.17
9 2 0.01
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:63499287 original size:14 final size:14
Alignment explanation
Indices: 63499060--63499315 Score: 127
Period size: 14 Copynumber: 17.9 Consensus size: 14
63499050 CCTTAAATTT
*
63499060 TAAACCTTAAACCC
1 TAAACCATAAACCC
* *
63499074 TAAACCCTAAATCC
1 TAAACCATAAACCC
* *
63499088 TAAACCCTAAATTCC
1 TAAACCATAAA-CCC
* * *
63499103 TAAACC-CAATCCT
1 TAAACCATAAACCC
*
63499116 TAAACCATAAACCA
1 TAAACCATAAACCC
* *
63499130 TAATCCCTAAACCC
1 TAAACCATAAACCC
* * *
63499144 ATAATCCATAATCCA
1 -TAAACCATAAACCC
* *
63499159 TAATCCATAAACCT
1 TAAACCATAAACCC
** * *
63499173 TAAAATATTAACTCA
1 TAAACCATAAAC-CC
63499188 TAAACCATAAACCC
1 TAAACCATAAACCC
63499202 TTAAACCATAAACCC
1 -TAAACCATAAACCC
* * * * *
63499217 CAACCCGTAATCGC
1 TAAACCATAAACCC
* *
63499231 TAAACCCATAATCCA
1 TAAA-CCATAAACCC
* ***
63499246 TAAACCTTAAAATA
1 TAAACCATAAACCC
* *
63499260 TTAACTCATAAACCA
1 TAAAC-CATAAACCC
*
63499275 TAAACCCTAAACCC
1 TAAACCATAAACCC
* *
63499289 TAAACTATATACCC
1 TAAACCATAAACCC
63499303 TAAACCATAAACC
1 TAAACCATAAACC
63499316 TTAGACTATA
Statistics
Matches: 183, Mismatches: 52, Indels: 14
0.73 0.21 0.06
Matches are distributed among these distances:
13 7 0.04
14 111 0.61
15 65 0.36
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:63499790 original size:40 final size:41
Alignment explanation
Indices: 63499745--63499839 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 41
63499735 AATTAATTTG
*
63499745 GGCGTTTTTTAAAAAATGC-C-GTTA-ATGCTCGATCTATAGC
1 GGCGTTTTTTAAAAAA-GCACTGCTACA-GCTCGATCTATAGC
*
63499785 GGCG-TTTTTGAAAAAGCACTGCTACAGCTCGATCTATAGC
1 GGCGTTTTTTAAAAAAGCACTGCTACAGCTCGATCTATAGC
*
63499825 GGCGTTTTTCAAAAA
1 GGCGTTTTTTAAAAA
63499840 GCCCCGCTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
38 2 0.04
39 11 0.23
40 25 0.53
41 9 0.19
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (41 bp):
GGCGTTTTTTAAAAAAGCACTGCTACAGCTCGATCTATAGC
Found at i:63499914 original size:154 final size:156
Alignment explanation
Indices: 63499650--63500297 Score: 774
Period size: 154 Copynumber: 4.2 Consensus size: 156
63499640 GAAAAACTGT
* * *
63499650 CGCTATAGCTCGATCTATAGCGGTGTTTTTCAAAAAGCGCCGCTAATACCACTAACGCTCAACAA
1 CGCTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATACCACTAAGGCTCAACAA
* ** *
63499715 AAAACAAGGGCGTGTTGATGAATTAATTTG-GGCG-TTTTTTAAAAAATGCCGTTAATGCTCGAT
66 AAAACGACAGCGTGTTGATGAATTAATTTGCGGCGATTTTTTAAAAAATGCCGCTAATGCTCGAT
*
63499778 CTATAGCGGCGTTTTTGAAAAAGCAC
131 CTATAGCGGCGTTTTTCAAAAAGCAC
* * * *
63499804 TGCTACAGCTCGATCTATAGCGGCGTTTTTCAAAAAGCCCCGCTAATGCCACTAAGGCTCAACAA
1 CGCTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATACCACTAAGGCTCAACAA
* ** *
63499869 AAAATGATGGCGTGTTGATGAATTAATTTGCGGTG-TTTTTTAAAAAATGCCGCTAATGCT-GAT
66 AAAACGACAGCGTGTTGATGAATTAATTTGCGGCGATTTTTTAAAAAATGCCGCTAATGCTCGAT
* * *
63499932 CTATAACGGCGTTTTTCAAAGAGCGC
131 CTATAGCGGCGTTTTTCAAAAAGCAC
* * * * *
63499958 CGCTAAAGGTTGATCTATAGCGGCG-CTTTCGAAAAAGCGCCGCTAATGCTACTAAGGCTCAACA
1 CGCTAAAGCTCGATCTATAGCGGCGTTTTTC-AAAAAGCGCCGCTAATACCACTAAGGCTCAACA
* ** ** *
63500022 AAAAACGACAGCGTGTTGATGAAATAATTTGCAACGA-TTTTTAAAAAACACCACTAATGCTC-A
65 AAAAACGACAGCGTGTTGATGAATTAATTTGCGGCGATTTTTTAAAAAATGCCGCTAATGCTCGA
* * *
63500085 TATATAGCAGCGTTTTCCAAAAAGCAC
130 TCTATAGCGGCGTTTTTCAAAAAGCAC
* * *
63500112 CGCTAAAGCTCGATTTATAGCGGCGTTTTCCAAAAAGCGCTGCTAATACCACTAAGGCTCAACAA
1 CGCTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATACCACTAAGGCTCAACAA
* * * * * * *
63500177 AAAATGACAGTGTTTTGATGAATTATTTTACGGTG-TTTTTTATAAAAATGCTGCTAATGCTCGA
66 AAAACGACAGCGTGTTGATGAATTAATTTGCGGCGATTTTTTA-AAAAATGCCGCTAATGCTCGA
* * * * *
63500241 TCTATTGTGGCGCTTTTCTAAAATCAC
130 TCTATAGCGGCGTTTTTCAAAAAGCAC
63500268 CGCTAATAG-TCGATCTATAGCGGCGTTTTT
1 CGCTAA-AGCTCGATCTATAGCGGCGTTTTT
63500298 TATACAAACG
Statistics
Matches: 416, Mismatches: 69, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
153 4 0.01
154 320 0.77
155 45 0.11
156 45 0.11
157 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (156 bp):
CGCTAAAGCTCGATCTATAGCGGCGTTTTTCAAAAAGCGCCGCTAATACCACTAAGGCTCAACAA
AAAACGACAGCGTGTTGATGAATTAATTTGCGGCGATTTTTTAAAAAATGCCGCTAATGCTCGAT
CTATAGCGGCGTTTTTCAAAAAGCAC
Found at i:63499960 original size:39 final size:39
Alignment explanation
Indices: 63499917--63500007 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 39
63499907 TTTAAAAAAT
* *
63499917 GCCGCTAATGCTGATCTATAACGGCGTTTTTC-AAAGAGC
1 GCCGCTAATGCTGATCTATAACGGCG-CTTTCGAAAAAGC
* * *
63499956 GCCGCTAAAGGTTGATCTATAGCGGCGCTTTCGAAAAAGC
1 GCCGCT-AATGCTGATCTATAACGGCGCTTTCGAAAAAGC
63499996 GCCGCTAATGCT
1 GCCGCTAATGCT
63500008 ACTAAGGCTC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
39 14 0.33
40 29 0.67
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (39 bp):
GCCGCTAATGCTGATCTATAACGGCGCTTTCGAAAAAGC
Found at i:63500131 original size:40 final size:39
Alignment explanation
Indices: 63500064--63500149 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 39
63500054 AACGATTTTT
* *
63500064 AAAAAACACCACTAATGCTCATATATAGCAGCGTTTTCC
1 AAAAAGCACCACTAAAGCTCATATATAGCAGCGTTTTCC
* * *
63500103 AAAAAGCACCGCTAAAGCTCGATTTATAGCGGCGTTTTCC
1 AAAAAGCACCACTAAAGCTC-ATATATAGCAGCGTTTTCC
63500143 AAAAAGC
1 AAAAAGC
63500150 GCTGCTAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 17 0.41
40 24 0.59
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.23
Consensus pattern (39 bp):
AAAAAGCACCACTAAAGCTCATATATAGCAGCGTTTTCC
Found at i:63507974 original size:19 final size:19
Alignment explanation
Indices: 63507950--63507987 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
63507940 TGATCTTAAT
63507950 ATTTTGAGTATATGGCATG
1 ATTTTGAGTATATGGCATG
63507969 ATTTTGAGTATATGGCATG
1 ATTTTGAGTATATGGCATG
63507988 TATAGGGACT
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:0.26, C:0.05, G:0.26, T:0.42
Consensus pattern (19 bp):
ATTTTGAGTATATGGCATG
Found at i:63509687 original size:33 final size:33
Alignment explanation
Indices: 63509605--63509669 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
63509595 CTAAAAGTCG
*
63509605 AAAACCCTTTTCTTCTCAAGATCCAAAAAGCCA
1 AAAACCCTTTTCTTTTCAAGATCCAAAAAGCCA
63509638 AAAACCCTTTTCTTTTCAAGATCCAAAAAGCC
1 AAAACCCTTTTCTTTTCAAGATCCAAAAAGCC
63509670 GAAACCTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.29, G:0.06, T:0.26
Consensus pattern (33 bp):
AAAACCCTTTTCTTTTCAAGATCCAAAAAGCCA
Found at i:63510636 original size:29 final size:29
Alignment explanation
Indices: 63510581--63510670 Score: 121
Period size: 29 Copynumber: 3.1 Consensus size: 29
63510571 GTGAGCATGA
* * *
63510581 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
63510609 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
*
63510638 ATATACA-GATGATTTGGGCCTAATGGGCC
1 ATATAAATG-TGATTTGGGCCTAATGGGCC
63510667 ATAT
1 ATAT
63510671 GGATATGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
28 12 0.21
29 44 0.79
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:63510666 original size:58 final size:57
Alignment explanation
Indices: 63510594--63510702 Score: 146
Period size: 58 Copynumber: 1.9 Consensus size: 57
63510584 TGAATGTGAC
* * *
63510594 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGATGATT
1 TGGGCCTAACGGGCCATATAAATATGA-ATGGGCCTAATGGGCCAGATACAGATGATT
* ** *
63510652 TGGGCCTAATGGGCCATATGGATATGAATGGGCTTAATGGGCCAGATACAG
1 TGGGCCTAACGGGCCATATAAATATGAATGGGCCTAATGGGCCAGATACAG
63510703 GCATGTAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 21 0.48
58 23 0.52
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGAATGGGCCTAATGGGCCAGATACAGATGATT
Found at i:63510678 original size:29 final size:29
Alignment explanation
Indices: 63510594--63510695 Score: 125
Period size: 29 Copynumber: 3.6 Consensus size: 29
63510584 TGAATGTGAC
* *
63510594 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATATGATT
* *
63510623 TGGGCCTAATGGGCCATATACAGATGATT
1 TGGGCCTAATGGGCCATATAAATATGATT
** *
63510652 TGGGCCTAATGGGCCATATGGATATGA-A
1 TGGGCCTAATGGGCCATATAAATATGATT
*
63510680 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
63510696 GATACAGGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 15 0.23
29 49 0.77
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATATGATT
Found at i:63513447 original size:6 final size:6
Alignment explanation
Indices: 63513429--63513463 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
63513419 TGTACCGCTT
* *
63513429 CTGTTA CTATTA CTGTTA CTGTTA CTATTA CTGTT
1 CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTT
63513464 TCTATGTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.51
Consensus pattern (6 bp):
CTGTTA
Found at i:63513452 original size:18 final size:18
Alignment explanation
Indices: 63513429--63513463 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
63513419 TGTACCGCTT
63513429 CTGTTACTATTACTGTTA
1 CTGTTACTATTACTGTTA
63513447 CTGTTACTATTACTGTT
1 CTGTTACTATTACTGTT
63513464 TCTATGTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.51
Consensus pattern (18 bp):
CTGTTACTATTACTGTTA
Found at i:63516402 original size:40 final size:40
Alignment explanation
Indices: 63516353--63516441 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
63516343 TCAATATTGT
*
63516353 ACACTTAGTGCCACATATAGCCGAAGCTATTCCAATTCGC
1 ACACTTAGTGCCACATATAGCCGAAGCTATTCCAAATCGC
* ** * *
63516393 ACACTTAGTGCTATTTATAGCTGAAGCTATTTCAAATCGC
1 ACACTTAGTGCCACATATAGCCGAAGCTATTCCAAATCGC
*
63516433 ACACATAGT
1 ACACTTAGT
63516442 ACCGAACATA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (40 bp):
ACACTTAGTGCCACATATAGCCGAAGCTATTCCAAATCGC
Found at i:63519256 original size:21 final size:22
Alignment explanation
Indices: 63519232--63519273 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
63519222 TTTAGGTATC
*
63519232 AAAA-TTGAATTATAAATTTTT
1 AAAATTTGAAATATAAATTTTT
*
63519253 AAAATTTTAAATATAAATTTT
1 AAAATTTGAAATATAAATTTT
63519274 ATCTTGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAATTTGAAATATAAATTTTT
Found at i:63519414 original size:26 final size:26
Alignment explanation
Indices: 63519380--63519440 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
63519370 AATTTATAAT
* *
63519380 TTATAATTTTTTGAGAAGGGCTAGAA
1 TTATAATTTTGTGAGAAGGACTAGAA
63519406 TTATAATTTTGTGAGAAGGACTAGAA
1 TTATAATTTTGTGAGAAGGACTAGAA
*
63519432 TTCTAATTT
1 TTATAATTT
63519441 CCATTATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (26 bp):
TTATAATTTTGTGAGAAGGACTAGAA
Found at i:63520483 original size:31 final size:31
Alignment explanation
Indices: 63520445--63520539 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
63520435 CCTTTTCATA
*
63520445 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
63520476 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
63520507 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
63520538 TT
1 TT
63520540 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:63520809 original size:23 final size:24
Alignment explanation
Indices: 63520744--63520848 Score: 167
Period size: 24 Copynumber: 4.4 Consensus size: 24
63520734 TTGGAGGCCT
*
63520744 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
63520769 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
63520793 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
63520816 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
63520840 AGCCCTTTT
1 AGCCCTTTT
63520849 TCACTTCCTC
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
23 23 0.30
24 49 0.64
25 4 0.05
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:63520819 original size:47 final size:48
Alignment explanation
Indices: 63520744--63520848 Score: 167
Period size: 47 Copynumber: 2.2 Consensus size: 48
63520734 TTGGAGGCCT
63520744 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
* **
63520793 AGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
63520840 AGCCCTTTT
1 AGCCCTTTT
63520849 TCACTTCCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
47 44 0.83
48 5 0.09
49 4 0.08
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
Found at i:63520923 original size:20 final size:20
Alignment explanation
Indices: 63520898--63520958 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
63520888 TTATGATTAC
63520898 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
63520918 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
63520938 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
63520958 A
1 A
63520959 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:63521033 original size:25 final size:25
Alignment explanation
Indices: 63521001--63521048 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
63520991 ATACATAAAC
* * *
63521001 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
63521026 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
63521049 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:63522302 original size:27 final size:27
Alignment explanation
Indices: 63522282--63522516 Score: 269
Period size: 27 Copynumber: 8.7 Consensus size: 27
63522272 AGGGTATTTT
*
63522282 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
63522309 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
63522336 GGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
63522363 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
63522390 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
63522417 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
63522444 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
63522471 AGTAATTCTGTAAA-CTAAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
63522498 GGTAATTCTGTAAATCGAG
1 AGTAATTCTGTAAATCGAG
63522517 AGTACTTTGG
Statistics
Matches: 178, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.01
27 173 0.97
28 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:63522342 original size:81 final size:81
Alignment explanation
Indices: 63522255--63522469 Score: 209
Period size: 81 Copynumber: 2.7 Consensus size: 81
63522245 AGGGTATTGC
**** * *
63522255 GGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTCTA
1 GGTAATTTCACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTATA
63522319 TAAATCGAGGGTAAAAT
65 TAAATCGAGGGTAAAAT
*** * * * *
63522336 GGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGT
1 GGTAATTTCACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTATAT
*
63522401 AAATCGGGGGTAAAAT
66 AAATCGAGGGTAAAAT
** ** * * *
63522417 GGTAATTAT-GTAAATTAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
1 GGTAATT-TCACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAA
63522470 TAGTAATTCT
Statistics
Matches: 114, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
81 112 0.98
82 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
GGTAATTTCACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTATAT
AAATCGAGGGTAAAAT
Found at i:63522477 original size:81 final size:81
Alignment explanation
Indices: 63522283--63522512 Score: 304
Period size: 81 Copynumber: 2.8 Consensus size: 81
63522273 GGGTATTTTA
* * *
63522283 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGTAATTTTGTA
1 GTAATTCTGTAAATCGAGGGTAAAA-AGTAATTCTGTAAATCGAGGGTAAAATGGTAATTATGTA
*
63522348 AA-TCGAGGGTAAAACG
65 AATTAGAGGGTAAAACG
* * *
63522364 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCGGGGGTAAAATGGTAATTATGTA
1 GTAATTCTGTAAATCGAGGGTAAAAAG-TAATTCTGTAAATCGAGGGTAAAATGGTAATTATGTA
63522429 AATTAG-GGGTAAAACG
65 AATTAGAGGGTAAAACG
* * * *
63522445 GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTAAGGGTAAAACGGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAA-AGTAATTCTGTAAATC-GAGGGTAAAATGGTAATTATGT
63522509 AAAT
64 AAAT
63522513 CGAGAGTACT
Statistics
Matches: 131, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
80 2 0.02
81 126 0.96
82 3 0.02
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAAAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTATGTAA
ATTAGAGGGTAAAACG
Found at i:63525394 original size:38 final size:35
Alignment explanation
Indices: 63525335--63525452 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
63525325 TCAATCATGC
*
63525335 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
63525374 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
63525405 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
63525436 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
63525453 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:63525396 original size:31 final size:31
Alignment explanation
Indices: 63525358--63525452 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
63525348 CCTTTTCATA
*
63525358 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
63525389 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
63525420 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
63525451 TT
1 TT
63525453 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:63525695 original size:24 final size:24
Alignment explanation
Indices: 63525644--63525809 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
63525634 GCTTTATCAT
*
63525644 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
63525669 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
63525693 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
63525716 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
63525739 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
63525763 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
63525787 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
63525810 TCACTTCCTC
Statistics
Matches: 133, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
23 45 0.34
24 76 0.57
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:63525719 original size:47 final size:46
Alignment explanation
Indices: 63525665--63525808 Score: 225
Period size: 47 Copynumber: 3.1 Consensus size: 46
63525655 CCTAGCCTCT
*
63525665 TTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTT-AATAACTGGGGCATAAGCCC
*
63525712 TTTAATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
* *
63525758 TTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
63525806 TTT
1 TTT
63525809 TTCACTTCCT
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
46 19 0.21
47 50 0.55
48 22 0.24
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC
Found at i:63525884 original size:20 final size:20
Alignment explanation
Indices: 63525859--63525919 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
63525849 TTATGATTAC
63525859 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
63525879 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
63525899 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
63525919 A
1 A
63525920 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:63525994 original size:25 final size:25
Alignment explanation
Indices: 63525962--63526009 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
63525952 ATACATAAAC
* * *
63525962 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
63525987 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
63526010 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:63527266 original size:27 final size:27
Alignment explanation
Indices: 63527246--63527479 Score: 287
Period size: 27 Copynumber: 8.7 Consensus size: 27
63527236 AGGGTATTTT
*
63527246 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
63527273 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
63527300 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
63527327 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
63527354 -GATAATTATGTAAATCG-GGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * *
63527380 GGTAATTATGTAAAT-TAGGGGTAAAAC
1 AGTAATTCTGTAAATCGA-GGGTAAAAC
* * *
63527407 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
63527434 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
63527461 GGTAATTCTGTAAATCGAG
1 AGTAATTCTGTAAATCGAG
63527480 AGTACTTTGG
Statistics
Matches: 182, Mismatches: 18, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
26 23 0.13
27 157 0.86
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:63527306 original size:81 final size:81
Alignment explanation
Indices: 63527219--63527432 Score: 204
Period size: 80 Copynumber: 2.7 Consensus size: 81
63527209 AGGGTATTGC
**** * *
63527219 GGTAATTTC-ACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTCT
1 GGTAATTTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTAT
63527282 ATAAATCGAGGGTAAAAT
65 ATAAATCG-GGGTAAAAT
** * * * *
63527300 GGTAA-TTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATG
1 GGTAATTTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTATA
63527364 TAAATCGGGGTAAAAT
66 TAAATCGGGGTAAAAT
* ** * * *
63527380 GGTAATTATGT--AAATTAGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
1 GGTAATT-TCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAA
63527433 TAGTAATTCT
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
80 55 0.49
81 54 0.48
82 3 0.03
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
GGTAATTTCTACAAACCAAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAATTATA
TAAATCGGGGTAAAAT
Found at i:63527508 original size:54 final size:54
Alignment explanation
Indices: 63527247--63527479 Score: 319
Period size: 54 Copynumber: 4.3 Consensus size: 54
63527237 GGGTATTTTA
* ** * *
63527247 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
*
63527301 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
* * * *
63527355 ATAATTATGTAAATCG-GGGTAAAATGGTAATTATGTAAAT-TAGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGA-GGGTAAAACG
* *
63527408 GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATC-GAGGGTAAAACG
63527462 GTAATTCTGTAAATCGAG
1 GTAATTCTGTAAATCGAG
63527480 AGTACTTTGG
Statistics
Matches: 159, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
52 1 0.01
53 45 0.28
54 112 0.70
55 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:63533105 original size:40 final size:40
Alignment explanation
Indices: 63533046--63533210 Score: 197
Period size: 40 Copynumber: 4.1 Consensus size: 40
63533036 CATTTGAATG
* *
63533046 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
63533086 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * **
63533126 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * *
63533166 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
63533206 ATATC
1 ATATC
63533211 TGGCTAAATT
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.97
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:63534728 original size:35 final size:35
Alignment explanation
Indices: 63534657--63534773 Score: 105
Period size: 35 Copynumber: 3.4 Consensus size: 35
63534647 GTATTCAATT
* *
63534657 GGTCCTTCAGGGC-ACACCATGAAGATGATATCTA
1 GGTCCTTCAGGGCGACACCATGAAAATGATATATA
*
63534691 GGTCCTTCAGGGCGACA-CAGTTAAAATGATATATA
1 GGTCCTTCAGGGCGACACCA-TGAAAATGATATATA
* * * **
63534726 GGT-CTTCCAGGGTGACATCATGTAAACAATATATA
1 GGTCCTT-CAGGGCGACACCATGAAAATGATATATA
* *
63534761 GGTTCTTTAGGGC
1 GGTCCTTCAGGGC
63534774 AGTACCCCAA
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
34 18 0.26
35 45 0.66
36 5 0.07
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (35 bp):
GGTCCTTCAGGGCGACACCATGAAAATGATATATA
Found at i:63541906 original size:26 final size:26
Alignment explanation
Indices: 63541847--63541907 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
63541837 TAATCTAATG
* *
63541847 AAATGACTGTTATACCCCTATGAGGT
1 AAATGACTGATATACCCCTATGAGAT
* * *
63541873 AAAAGACTGATATACCTCTATGTGAT
1 AAATGACTGATATACCCCTATGAGAT
*
63541899 ATATGACTG
1 AAATGACTG
63541908 TTGAACATGC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (26 bp):
AAATGACTGATATACCCCTATGAGAT
Found at i:63544959 original size:23 final size:23
Alignment explanation
Indices: 63544931--63544980 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
63544921 TAATATTAGT
*
63544931 AGCTTTATTGCGTTACTACTAGC
1 AGCTTTATTGCATTACTACTAGC
* * *
63544954 AGCTTTGTTGTATTACTATTAGC
1 AGCTTTATTGCATTACTACTAGC
63544977 AGCT
1 AGCT
63544981 ACGCTGCGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (23 bp):
AGCTTTATTGCATTACTACTAGC
Found at i:63549412 original size:37 final size:36
Alignment explanation
Indices: 63549362--63549448 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
63549352 TACGAAGTCT
63549362 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
63549398 GTACCCGGACATAATCTCCACTCGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
63549435 TCACCCGGAACATA
1 T-ACCCGG-ACATA
63549449 TTTCCAAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.87
38 5 0.11
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.22
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:63549590 original size:27 final size:27
Alignment explanation
Indices: 63549560--63549649 Score: 69
Period size: 27 Copynumber: 3.3 Consensus size: 27
63549550 ATTAGGCCTT
63549560 ATCACATATATATACATTTTCACATTC
1 ATCACATATATATACATTTTCACATTC
** * *
63549587 ATCACATCGGCCAT-TAGGCCTTATCACA-T-
1 ATCACAT-----ATATATACATTTTCACATTC
*
63549616 ATCACATATATATACATTTTCACATCC
1 ATCACATATATATACATTTTCACATTC
63549643 ATCACAT
1 ATCACAT
63549650 CGGCCATTAG
Statistics
Matches: 46, Mismatches: 9, Indels: 16
0.65 0.13 0.23
Matches are distributed among these distances:
24 2 0.04
25 10 0.22
27 14 0.30
29 7 0.15
30 1 0.02
31 10 0.22
32 2 0.04
ACGTcount: A:0.34, C:0.27, G:0.04, T:0.34
Consensus pattern (27 bp):
ATCACATATATATACATTTTCACATTC
Found at i:63549597 original size:49 final size:49
Alignment explanation
Indices: 63549517--63550067 Score: 924
Period size: 49 Copynumber: 11.1 Consensus size: 49
63549507 TTTACCACAT
*
63549517 ATATATATACA-TTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
63549565 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCC---T----TATCAC
*
63549621 ATATATATACATTTTCACATCCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
63549670 ATATATATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTACCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
63549719 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
63549768 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
63549817 ATATATATACACTTTCACATTCGTCACCTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
63549866 ATATATATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
63549915 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
63549964 ATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
63550013 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
63550062 ATATAT
1 ATATAT
63550068 TATTATGTAC
Statistics
Matches: 475, Mismatches: 20, Indels: 15
0.93 0.04 0.03
Matches are distributed among these distances:
48 11 0.02
49 415 0.87
52 1 0.00
53 1 0.00
56 47 0.10
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:63555767 original size:46 final size:46
Alignment explanation
Indices: 63555714--63555889 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
63555704 TATTTGGGCA
63555714 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
63555760 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* *
63555807 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
63555853 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
63555890 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.30
48 2 0.02
50 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:63555869 original size:93 final size:93
Alignment explanation
Indices: 63555710--63555881 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
63555700 GGGATATTTG
* * *
63555710 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
63555775 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
63555803 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
63555868 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
63555882 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:63560641 original size:23 final size:23
Alignment explanation
Indices: 63560613--63560669 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
63560603 CATGTTTACC
*
63560613 ACTATTAGCGGCTTTGCTGCATT
1 ACTATTAGCAGCTTTGCTGCATT
*
63560636 ACTATTAGCAGCTTTGCTGCGTT
1 ACTATTAGCAGCTTTGCTGCATT
63560659 ACTATTAGCAG
1 ACTATTAGCAG
63560670 GTACGCTGCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (23 bp):
ACTATTAGCAGCTTTGCTGCATT
Found at i:63560677 original size:23 final size:23
Alignment explanation
Indices: 63560613--63560679 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
63560603 CATGTTTACC
* ** *
63560613 ACTATTAGCGGCTTTGCTGCATT
1 ACTATTAGCAGCTACGCTGCGTT
**
63560636 ACTATTAGCAGCTTTGCTGCGTT
1 ACTATTAGCAGCTACGCTGCGTT
*
63560659 ACTATTAGCAGGTACGCTGCG
1 ACTATTAGCAGCTACGCTGCG
63560680 ATATTGGTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.34
Consensus pattern (23 bp):
ACTATTAGCAGCTACGCTGCGTT
Found at i:63560835 original size:28 final size:29
Alignment explanation
Indices: 63560804--63560872 Score: 77
Period size: 33 Copynumber: 2.3 Consensus size: 29
63560794 ATTTTAGGCA
*
63560804 TAGGCCCAC-ACTGTTACTGCATAGGGTT
1 TAGGCCCACAACTGTTACTGCATAGGGCT
*
63560832 TAGGCCCAGACAATACTGTTATTGCATAGGGCT
1 TAGGCCC--AC-A-ACTGTTACTGCATAGGGCT
63560865 TAGGCCCA
1 TAGGCCCA
63560873 GACGGTATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
28 7 0.21
30 2 0.06
31 1 0.03
33 24 0.71
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (29 bp):
TAGGCCCACAACTGTTACTGCATAGGGCT
Found at i:63560852 original size:33 final size:33
Alignment explanation
Indices: 63560813--63560935 Score: 147
Period size: 33 Copynumber: 3.7 Consensus size: 33
63560803 ATAGGCCCAC
* *
63560813 ACTGTTACTGCATAGGGTTTAGGCCCAGACAAT
1 ACTGTTACTGCATAGGGCTTAGGCCCAGACAGT
* *
63560846 ACTGTTATTGCATAGGGCTTAGGCCCAGACGGT
1 ACTGTTACTGCATAGGGCTTAGGCCCAGACAGT
* * * *
63560879 ATTGTTACTGCATAGGACTTAGGCCTAGACTGT
1 ACTGTTACTGCATAGGGCTTAGGCCCAGACAGT
* * *
63560912 ACTGTTATTGAATAGGGCTCAGGC
1 ACTGTTACTGCATAGGGCTTAGGC
63560936 TCAGGCCCAG
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (33 bp):
ACTGTTACTGCATAGGGCTTAGGCCCAGACAGT
Found at i:63563576 original size:28 final size:28
Alignment explanation
Indices: 63563509--63563580 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
63563499 ATAGTGAATC
* * *
63563509 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATAGA-TATCAACT
63563538 CGCACACTTAGTGCTATAGA-ATCAAACT
1 CGCACACTTAGTGCTATAGATATC-AACT
63563566 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
63563581 GTACAATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 18 0.46
29 19 0.49
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGATATCAACT
Found at i:63571398 original size:27 final size:29
Alignment explanation
Indices: 63571368--63571426 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
63571358 ATACAAGAGC
*
63571368 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
63571395 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
63571424 ATA
1 ATA
63571427 GAATCAAACT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 5 0.19
28 3 0.12
29 18 0.69
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:63573654 original size:37 final size:36
Alignment explanation
Indices: 63573604--63573690 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
63573594 TACGAAGTCT
63573604 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
63573640 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
63573677 TCACCCGGAACATA
1 T-ACCCGG-ACATA
63573691 TTTCTAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:63573831 original size:49 final size:49
Alignment explanation
Indices: 63573759--63573960 Score: 368
Period size: 49 Copynumber: 4.1 Consensus size: 49
63573749 TTTACCACAT
* * *
63573759 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCTTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
63573808 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
63573857 ATATATATACAGTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
63573906 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
63573955 ATATAT
1 ATATAT
63573961 TATTATGTAC
Statistics
Matches: 148, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 148 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.35
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:63576901 original size:40 final size:40
Alignment explanation
Indices: 63576850--63576997 Score: 129
Period size: 40 Copynumber: 3.7 Consensus size: 40
63576840 ATAGTGATTC
* *
63576850 GCACAATTGCCTTTGGGAATTAGCCCGGATTTAATAACTA
1 GCACAAATGCCTTCGGGAATTAGCCCGGATTTAATAACTA
* * * ** *
63576890 GCACGAATGCCTTCGGGACTTAACCCGG-TTCTGGTAACTC
1 GCACAAATGCCTTCGGGAATTAGCCCGGATT-TAATAACTA
* * *
63576930 GCACAAATGCCTTCGGGAGTT-GACCCGGATTTAGTCACTTA
1 GCACAAATGCCTTCGGGAATTAG-CCCGGATTTAATAAC-TA
* * *
63576971 GCACAAAAGCCTTCAGGACTTAGCCCG
1 GCACAAATGCCTTCGGGAATTAGCCCG
63576998 AACACCATTC
Statistics
Matches: 86, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
39 2 0.02
40 58 0.67
41 25 0.29
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGAATTAGCCCGGATTTAATAACTA
Found at i:63576941 original size:80 final size:81
Alignment explanation
Indices: 63576848--63576997 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 81
63576838 TTATAGTGAT
* * * * *
63576848 TCGCACAATTGCCTTTGGGAATT-AGCCCGGATTTAATAAC-TAGCACGAATGCCTTCGGGACTT
1 TCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAATAACTTAGCACAAAAGCCTTCAGGACTT
63576911 AACCCGGTTCTGGTAAC
65 AACCCGGTTCTGGTAAC
* * *
63576928 TCGCACAAATGCCTTCGGGAGTTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCAGGACTTA
1 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAATAACTTAGCACAAAAGCCTTCAGGACTTA
*
63576993 GCCCG
66 ACCCG
63576998 AACACCATTC
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
80 33 0.56
81 26 0.44
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAATAACTTAGCACAAAAGCCTTCAGGACTTA
ACCCGGTTCTGGTAAC
Found at i:63577806 original size:40 final size:40
Alignment explanation
Indices: 63577744--63577975 Score: 383
Period size: 40 Copynumber: 5.8 Consensus size: 40
63577734 TCAGTATGAT
* * * *
63577744 TGCTCTTCGGGACCTAGCCCGGATACATCGCTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
63577784 TGCTCTTCGAAACTTAGTCCGGATACATCACTAGCAGGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
63577824 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
63577864 TGCTCTTTGGAACTTAGTCCGGATACGTCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
63577904 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
63577944 TGCTCTTCGGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
63577976 CTCAATTCTC
Statistics
Matches: 179, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:63582532 original size:37 final size:37
Alignment explanation
Indices: 63582482--63582554 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
63582472 TACGAAGTCT
63582482 TACCCGGACATAATCTACACACGTAGTCATCGGGTCG
1 TACCCGGACATAATCTACACACGTAGTCATCGGGTCG
*
63582519 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTACACACGTAGTCATCGGGTC
63582555 TCACCCGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.22
Consensus pattern (37 bp):
TACCCGGACATAATCTACACACGTAGTCATCGGGTCG
Found at i:63582711 original size:49 final size:49
Alignment explanation
Indices: 63582639--63582840 Score: 368
Period size: 49 Copynumber: 4.1 Consensus size: 49
63582629 TACCACATAT
* * *
63582639 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCTTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
63582688 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
63582737 ATATATATACAGTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
63582786 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
63582835 ATATAT
1 ATATAT
63582841 TATTATGTAC
Statistics
Matches: 148, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 148 1.00
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.35
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:63588497 original size:21 final size:22
Alignment explanation
Indices: 63588465--63588507 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
63588455 AATTATTAAC
*
63588465 ATATTAAAATTTAATTAATTTT
1 ATATTAAAATTTAATAAATTTT
*
63588487 ATATT-AAATTTCATAAATTTT
1 ATATTAAAATTTAATAAATTTT
63588508 GATTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
ATATTAAAATTTAATAAATTTT
Found at i:63595668 original size:31 final size:31
Alignment explanation
Indices: 63595630--63595692 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
63595620 AAACTTTGAA
63595630 AGTATGATGAGGGAATGTGTGATGACTAATT
1 AGTATGATGAGGGAATGTGTGATGACTAATT
*
63595661 AGTATGATGGGGGAATGTGTGATGACTAATT
1 AGTATGATGAGGGAATGTGTGATGACTAATT
63595692 A
1 A
63595693 AAGCATGCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.33, T:0.32
Consensus pattern (31 bp):
AGTATGATGAGGGAATGTGTGATGACTAATT
Found at i:63597258 original size:39 final size:39
Alignment explanation
Indices: 63597160--63597349 Score: 188
Period size: 40 Copynumber: 4.8 Consensus size: 39
63597150 CGAATGATGT
* * *
63597160 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AAC
* * * *
63597200 CGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAATC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA-C
*
63597240 CGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAACC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA-C
* *
63597279 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAC
** *
63597319 CGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
63597350 CGTTATATCC
Statistics
Matches: 124, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 34 0.27
40 81 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAC
Found at i:63597296 original size:79 final size:81
Alignment explanation
Indices: 63597160--63597342 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
63597150 CGAATGATGT
* * *
63597160 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTCG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
*
63597224 TGCGAGTTAATA-AATC
66 TGCGAGTCAATATAA-C
* ** *
63597240 CGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
*
63597302 GTGCGAGTCACTATAAC
65 GTGCGAGTCAATATAAC
**
63597319 CGGGCTTCGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
63597343 AGCGAGTCGT
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCGAGTCAATATAAC
Found at i:63597373 original size:79 final size:79
Alignment explanation
Indices: 63597210--63597375 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
63597200 CGGACTAGGA
* * *
63597210 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
*
63597275 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * * ** * **
63597289 CCCGAAGGCATTTGTGCGAGTCACTATAA-CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGT
1 TCCGAAGGCATTCGTGCGAGTCAATA-AATCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCAC
* *
63597353 TATATCC-GGTTAAAT
64 TAAACCCGGGTTAAAT
63597368 TCCGAAGG
1 TCCGAAGG
63597376 TACGTGATTC
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
79 44 0.63
80 26 0.37
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
AACCCGGGTTAAAT
Found at i:63601513 original size:40 final size:39
Alignment explanation
Indices: 63601469--63601649 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
63601459 GTTCAAAACA
* * ** * *
63601469 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
63601509 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
63601549 CCTTCGGGCTTAGCCCGG-TATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
63601587 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
63601626 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
63601650 CTCGAACATT
Statistics
Matches: 129, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
38 36 0.28
39 53 0.41
40 40 0.31
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:63601619 original size:77 final size:79
Alignment explanation
Indices: 63601499--63601649 Score: 252
Period size: 77 Copynumber: 1.9 Consensus size: 79
63601489 TATGGTAACC
63601499 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
63601564 CGG-TATCATAGCT
66 CGGATATCATAGCT
* * * *
63601577 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
63601641 CGGATATCA
66 CGGATATCA
63601650 CTCGAACATT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
77 46 0.68
78 22 0.32
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:63601621 original size:39 final size:39
Alignment explanation
Indices: 63601499--63601649 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
63601489 TATGGTAACC
* * * *
63601499 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
63601539 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
63601577 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
63601616 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
63601650 CTCGAACATT
Statistics
Matches: 106, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
38 36 0.34
39 53 0.50
40 17 0.16
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:63609478 original size:40 final size:39
Alignment explanation
Indices: 63609434--63609615 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
63609424 GTTCAAAACA
* * ** * *
63609434 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
63609474 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* * *
63609514 CCTTCGGGCTTAGCCCGGGTATCATAGCTGGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
63609553 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
63609592 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
63609616 CTCGAACATT
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.69
40 40 0.31
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:63609548 original size:39 final size:39
Alignment explanation
Indices: 63609464--63609615 Score: 241
Period size: 39 Copynumber: 3.9 Consensus size: 39
63609454 TATGGTAACC
* * * *
63609464 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
63609504 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
63609543 GGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
63609582 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
63609616 CTCGAACATT
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 87 0.84
40 17 0.16
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:63611491 original size:27 final size:27
Alignment explanation
Indices: 63611461--63611536 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 27
63611451 TAAATTTACC
*
63611461 GAAATACTCTTAG-TTTGTAAAAATACT
1 GAAATAC-CCTAGATTTGTAAAAATACT
* *
63611488 GAAATACCCTCGATTTGTAAAATTACT
1 GAAATACCCTAGATTTGTAAAAATACT
* * * *
63611515 AAAATACCTTCGACTTGTAAAA
1 GAAATACCCTAGATTTGTAAAA
63611537 TTACCAAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.07
27 39 0.93
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.33
Consensus pattern (27 bp):
GAAATACCCTAGATTTGTAAAAATACT
Found at i:63611576 original size:27 final size:27
Alignment explanation
Indices: 63611546--63611757 Score: 248
Period size: 27 Copynumber: 7.9 Consensus size: 27
63611536 ATTACCAAAG
* * *
63611546 TACCCCCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
63611573 TACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
63611600 TAACCC-CGATTTACATAATTA-TCGTTT
1 T-ACCCTCGATTTACAAAATTACT-GTTT
* *
63611627 TACCCTCGACTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
63611654 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
63611681 TACTCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
63611708 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
63611735 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAAAATTACT
63611758 AAAATACCCT
Statistics
Matches: 160, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.03
27 152 0.95
28 4 0.03
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:63611593 original size:81 final size:81
Alignment explanation
Indices: 63611492--63611794 Score: 236
Period size: 81 Copynumber: 3.7 Consensus size: 81
63611482 AATACTGAAA
** * *
63611492 TACCCTCGATTTGTAAAATTACTAAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCTCGATTTACAAAATTACTAAAATACCTTCGATTTGTAAAATTACCAAATTACCCCCGATT
*
63611557 TATAGAATTACTGTTT
66 TACAGAATTACTGTTT
* *** * ** * * *** *
63611573 TACCCTCGATTTACATAATTACCGTTTTA-ACC-CCGATTTACATAATTATCGTTTTACCCTCGA
1 TACCCTCGATTTACAAAATTA-C-TAAAATACCTTCGATTTGTAAAATTACCAAATTACCCCCGA
* * *
63611636 CTTACAAAATTACCGTTT
64 TTTACAGAATTACTGTTT
* *** * * ** **
63611654 TACCCTCGATTTACAGAATTACTATTTTA-CTCTCGATTTATAAAATTACTATTTTACCCTTGAT
1 TACCCTCGATTTACAAAATTACTAAAATACCT-TCGATTTGTAAAATTACCAAATTACCCCCGAT
*
63611718 TTACAGAATTACTATTT
65 TTACAGAATTACTGTTT
* *
63611735 TACCCTCGATTTACAAAATTACTAAAATACCCTT-GGTTTGTAAAATTACCAAAATACCCC
1 TACCCTCGATTTACAAAATTACTAAAATA-CCTTCGATTTGTAAAATTACCAAATTACCCC
63611795 TAGTTTGTAA
Statistics
Matches: 169, Mismatches: 46, Indels: 14
0.74 0.20 0.06
Matches are distributed among these distances:
79 4 0.02
80 2 0.01
81 154 0.91
82 5 0.03
83 4 0.02
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTAAAATACCTTCGATTTGTAAAATTACCAAATTACCCCCGATT
TACAGAATTACTGTTT
Found at i:63611758 original size:54 final size:54
Alignment explanation
Indices: 63611546--63611756 Score: 273
Period size: 54 Copynumber: 3.9 Consensus size: 54
63611536 ATTACCAAAG
* * * * *
63611546 TACCCCCGATTTATAGAATTACTGTTTTACCCTCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
* * * *
63611600 TAACCC-CGATTTACATAATTA-TCGTTTTACCCTCGACTTACAAAATTACCGTTT
1 T-ACCCTCGATTTACAGAATTACT-ATTTTACCCTCGATTTACAAAATTACCATTT
* * *
63611654 TACCCTCGATTTACAGAATTACTATTTTACTCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
*
63611708 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
63611757 TAAAATACCC
Statistics
Matches: 139, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
53 5 0.04
54 129 0.93
55 5 0.04
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACCATTT
Found at i:63611765 original size:27 final size:27
Alignment explanation
Indices: 63611479--63611958 Score: 166
Period size: 27 Copynumber: 17.7 Consensus size: 27
63611469 CTTAGTTTGT
* * **
63611479 AAAAATACTGAAATACCCTCGATTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* * **
63611506 AAAATTACTAAAATACCTTCGACTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* * * *
63611533 AAAATTACCAAAGTACCCCCGATTTAT
1 AAAATTACTAAAATACCCTCGATTTAC
* ****
63611560 AGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* ***
63611587 ATAATTACCGTTTTA-ACCC-CGATTTAC
1 AAAATTA-C-TAAAATACCCTCGATTTAC
* ** *
63611614 ATAATTATCGT--TTTACCCTCGACTTAC
1 AAAATTA-C-TAAAATACCCTCGATTTAC
*****
63611641 AAAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* *** * *
63611668 AGAATTACTATTTTACTCTCGATTTAT
1 AAAATTACTAAAATACCCTCGATTTAC
*** *
63611695 AAAATTACTATTTTACCCTTGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* ***
63611722 AGAATTACTATTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* * **
63611749 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* * **
63611776 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACTAAAATACCCTCGA-TTTAC
* * * * **
63611803 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* ** * * **
63611830 GAAATTACCGAAATACCCTCAATCTGT
1 AAAATTACTAAAATACCCTCGATTTAC
* *
63611857 AAAATTACCAAAATACCCTTGATTTAC
1 AAAATTACTAAAATACCCTCGATTTAC
* *
63611884 AAAGTTAC-AGAAATACCCTTGACTTT-C
1 AAAATTACTA-AAATACCCTCGA-TTTAC
* * *
63611911 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACTA-AAATACCCTCGATTTAC
63611940 AAAATTACTAAAATACCCT
1 AAAATTACTAAAATACCCT
63611959 TGGTTTGTAG
Statistics
Matches: 365, Mismatches: 73, Indels: 30
0.78 0.16 0.06
Matches are distributed among these distances:
25 1 0.00
26 6 0.02
27 323 0.88
28 13 0.04
29 22 0.06
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (27 bp):
AAAATTACTAAAATACCCTCGATTTAC
Found at i:63611974 original size:27 final size:27
Alignment explanation
Indices: 63611749--63611987 Score: 212
Period size: 27 Copynumber: 8.8 Consensus size: 27
63611739 CTCGATTTAC
*
63611749 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
63611776 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
63611803 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *** *
63611830 GAAATTACCGAAATACCCTCAATCTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* **
63611857 AAAATTACCAAAATACCCTTGATTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
63611884 AAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCA-AAATACCCTTG-GTTTGT
* * **
63611912 AAAAATTA-TAGAAATACCATTGGTTTAC
1 -AAAATTACCA-AAATACCCTTGGTTTGT
*
63611940 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * *
63611967 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
63611988 TAGGATGAAA
Statistics
Matches: 171, Mismatches: 37, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
26 2 0.01
27 143 0.84
28 8 0.05
29 18 0.11
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:63612048 original size:27 final size:27
Alignment explanation
Indices: 63612018--63612109 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
63612008 ACCCCTATTA
*
63612018 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
63612045 GGTAAAGTGACCGTAAAGCCCCTATAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
63612072 GGTAAAGTGACCATAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
63612099 GGTAAAATGAC
1 GGTAAAATGAC
63612110 AAATATGCCC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 56 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:63612941 original size:26 final size:26
Alignment explanation
Indices: 63612912--63613061 Score: 257
Period size: 26 Copynumber: 5.8 Consensus size: 26
63612902 GAGGAAGTGC
63612912 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
63612938 AAAAGGGCTTATGCCCCAGTTTACAG
1 AAAAGGGCTTATGCCCCAGTTTACCG
63612964 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
63612990 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
63613016 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
63613042 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
63613062 AATAAAGAGG
Statistics
Matches: 117, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
25 9 0.08
26 108 0.92
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:63613265 original size:42 final size:42
Alignment explanation
Indices: 63613206--63613297 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
63613196 TAGTCTCCCC
** *
63613206 AAATGGGCTTGCATACAT-TCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCT-ATTGACATTACATGTGATATTG
63613248 AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
63613290 AAATGGGC
1 AAATGGGC
63613298 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCTATTGACATTACATGTGATATTG
Found at i:63618747 original size:47 final size:47
Alignment explanation
Indices: 63618674--63618784 Score: 116
Period size: 47 Copynumber: 2.4 Consensus size: 47
63618664 TAATAATCTA
** * * *
63618674 TAAATTTGGTGCTTTATCCACAACTATATGCATTGGCAACTTGTCTG
1 TAAATTTGGTGGATTGTCTACAACTATATGAATTGGCAACTTGTCTG
* * * *
63618721 -GAATTTCGGTGGATTGTCTACAACTATGTGAATTGGTAGCTTGTCTG
1 TAAATTT-GGTGGATTGTCTACAACTATATGAATTGGCAACTTGTCTG
*
63618768 TAAATTTGGTGGCTTGT
1 TAAATTTGGTGGATTGT
63618785 GTGCTGGTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
46 5 0.10
47 41 0.80
48 5 0.10
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.40
Consensus pattern (47 bp):
TAAATTTGGTGGATTGTCTACAACTATATGAATTGGCAACTTGTCTG
Found at i:63627630 original size:41 final size:41
Alignment explanation
Indices: 63627585--63627702 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
63627575 TGAAAGATAA
63627585 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
63627626 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
63627656 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
63627697 ATGTAG
1 ATGTAG
63627703 ACAAGAGATA
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:63627641 original size:71 final size:71
Alignment explanation
Indices: 63627553--63627710 Score: 316
Period size: 71 Copynumber: 2.2 Consensus size: 71
63627543 GAGATGTATC
63627553 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
63627618 AGGACA
66 AGGACA
63627624 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
63627689 AGGACA
66 AGGACA
63627695 CCATGTAGACAAGAGA
1 CCATGTAGACAAGAGA
63627711 TACGAGACAA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 87 1.00
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:63636766 original size:40 final size:40
Alignment explanation
Indices: 63636680--63636829 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
63636670 AATTGAATGA
* * * **
63636680 TATCCGGGCTAAG-CCCGAAGACAATTATGCTAGAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCA-TAC
* * *
63636719 TAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT--CATAC
*
63636760 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATAC
*
63636799 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
63636830 AAATCGTGAT
Statistics
Matches: 92, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 16 0.17
40 73 0.79
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATAC
Found at i:63636843 original size:40 final size:39
Alignment explanation
Indices: 63636679--63636861 Score: 131
Period size: 40 Copynumber: 4.6 Consensus size: 39
63636669 AAATTGAATG
*
63636679 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTAG-AAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-T-GCAAATCGT
* * * * * *
63636718 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
63636758 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
63636798 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
63636837 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
63636862 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 24, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
36 1 0.01
37 3 0.03
38 2 0.02
39 15 0.13
40 92 0.81
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:63636844 original size:80 final size:79
Alignment explanation
Indices: 63636677--63636906 Score: 185
Period size: 80 Copynumber: 2.9 Consensus size: 79
63636667 AGAAATTGAA
* * * *
63636677 TGATATCCGGGCTAAGCCCGAAGACAATTATGCTAGAAATTATAACCGGGTTAAGACCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGC-ATTGTGCGAGAAATTATAACCGGGCTAAGACCCGAAGGC
* * *
63636742 AATTGTGCTAGTGGC
65 AATTGTGCAAATCGC
* ** * *
63636757 T-ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATTCTATCCGGGCTAAGACCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGGCATT-GTGCGAGAAATTATAACCGGGCTAAGACCCGAAGG
*
63636821 CATTTGTGCAAATCG-
64 CAATTGTGCAAATCGC
* * * * ** ** * *
63636836 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGGCATT-GTGCGAGAAATTATAACCGGGCTAAGACCCGAAGG
*
63636901 CGATTG
64 CAATTG
63636907 ATCGAGTAGC
Statistics
Matches: 118, Mismatches: 29, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
79 17 0.14
80 101 0.86
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCATTGTGCGAGAAATTATAACCGGGCTAAGACCCGAAGGCA
ATTGTGCAAATCGC
Found at i:63640215 original size:39 final size:39
Alignment explanation
Indices: 63640075--63640215 Score: 165
Period size: 39 Copynumber: 3.6 Consensus size: 39
63640065 CATATTCACC
* * * *
63640075 TTCAAGCATATATCACATTACACATATAATTACGTAACA
1 TTCAAGCATATATCACAATACTCATATAATCACATAACA
* * *
63640114 TTTAAGAATATATCACAATAATCATATAATCACATAACA
1 TTCAAGCATATATCACAATACTCATATAATCACATAACA
* * * * *
63640153 TTTAAGCATAGATCAAAACACTCATATAACCACATAACA
1 TTCAAGCATATATCACAATACTCATATAATCACATAACA
*
63640192 TTCAAGCATATATCACATTACTCA
1 TTCAAGCATATATCACAATACTCA
63640216 AAAACCTGTT
Statistics
Matches: 84, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 84 1.00
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (39 bp):
TTCAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:63647923 original size:24 final size:23
Alignment explanation
Indices: 63647865--63647923 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 23
63647855 TGCCAAACTT
*
63647865 ATACCAAATTTAACTATTAAGCAC
1 ATACCAAA-TTAACAATTAAGCAC
63647889 ATACC-AA--AACAATTAAGCAC
1 ATACCAAATTAACAATTAAGCAC
63647909 ATACCAAATTGAACA
1 ATACCAAATT-AACA
63647924 TTTCATTTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 17 0.57
21 2 0.07
23 2 0.07
24 9 0.30
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.22
Consensus pattern (23 bp):
ATACCAAATTAACAATTAAGCAC
Found at i:63650941 original size:42 final size:43
Alignment explanation
Indices: 63650843--63651001 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
63650833 AGCTCGTACA
* * * * *
63650843 ATGCCAACGTCCTAGACATGGTCTTACATATAATCAAATATTG
1 ATGCCAACGTCCCAGATAGGGTCTTACACAAAATCAAATATTG
* *
63650886 ATGCC-ACTGTCCCAGATAGGGTCTTACACAAAATCATATA-CG
1 ATGCCAAC-GTCCCAGATAGGGTCTTACACAAAATCAAATATTG
* * *
63650928 ATGCCAATGTCCCAGATATGGTCTTACACGTAAATCACAA-ATTG
1 ATGCCAACGTCCCAGATAGGGTCTTACAC-AAAATCA-AATATTG
63650972 ATGCCAACGTCCCAGAT-GTGGTCTTACACA
1 ATGCCAACGTCCCAGATAG-GGTCTTACACA
63651002 TATCGGAATC
Statistics
Matches: 95, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 28 0.29
43 39 0.41
44 28 0.29
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGATAGGGTCTTACACAAAATCAAATATTG
Found at i:63650987 original size:86 final size:85
Alignment explanation
Indices: 63650843--63651001 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 85
63650833 AGCTCGTACA
*
63650843 ATGCCAACGTCCTAGACATGGTCTTACATATAATCAAATATTGATGCCACTGTCCCAGATAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACATATAATCAAATATTGATGCCACTGTCCCAGAT-GTGG
63650907 TCTTACACAAAATCATATACG
65 TCTTACACAAAATCATATACG
* *
63650928 ATGCCAATGTCCCAGATATGGTCTTACACGTA-AATCACAA-ATTGATGCCAAC-GTCCCAGATG
1 ATGCCAACGTCCCAGACATGGTCTTACA--TATAATCA-AATATTGATGCC-ACTGTCCCAGATG
63650990 TGGTCTTACACA
62 TGGTCTTACACA
63651002 TATCGGAATC
Statistics
Matches: 66, Mismatches: 3, Indels: 9
0.85 0.04 0.12
Matches are distributed among these distances:
85 26 0.39
86 34 0.52
87 6 0.09
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATGGTCTTACATATAATCAAATATTGATGCCACTGTCCCAGATGTGGT
CTTACACAAAATCATATACG
Found at i:63660303 original size:26 final size:26
Alignment explanation
Indices: 63660274--63660333 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
63660264 TCCCTTTGAA
* * *
63660274 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
63660300 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
63660328 CCATTC
1 TCATTC
63660334 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:63660319 original size:28 final size:28
Alignment explanation
Indices: 63660288--63660359 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
63660278 TCGATATTTT
*
63660288 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
63660316 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
63660344 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
63660360 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:63666130 original size:40 final size:40
Alignment explanation
Indices: 63666064--63666230 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
63666054 AAATTGAATG
* * *
63666064 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
63666103 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
63666143 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
63666183 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
63666223 ATATCCGG
1 ATATCCGG
63666231 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:63668590 original size:57 final size:57
Alignment explanation
Indices: 63668499--63668655 Score: 251
Period size: 57 Copynumber: 2.7 Consensus size: 57
63668489 GATCTCATTT
* * *
63668499 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGAAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
63668558 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
* *
63668615 CACACACAGTGCCTCAACAACCAATCTCGCACACATAGTGC
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGC
63668656 CTCAACAACC
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
57 86 0.92
59 7 0.08
ACGTcount: A:0.31, C:0.36, G:0.16, T:0.17
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
Found at i:63668595 original size:29 final size:29
Alignment explanation
Indices: 63668554--63668741 Score: 202
Period size: 29 Copynumber: 6.6 Consensus size: 29
63668544 GGTTACGAAA
63668554 CTCGCACACACAGTGCCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
**** *
63668583 CTCGCACACACAGTG-CTCGGTTA-CGAAA
1 CTCGCACACACAGTGCCTCAACAACCG-AT
*
63668611 CTCGCACACACAGTGCCTCAACAACCAAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
* *
63668640 CTCGCACACATAGTGCCTCAACAACCAAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
***** * *
63668669 CTCGCACACACAGTG-CTTGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCGAT
*
63668697 CTCGCACACACAGTACCTCAACAACCGAT
1 CTCGCACACACAGTGCCTCAACAACCGAT
63668726 CTCGCACACACAGTGC
1 CTCGCACACACAGTGC
63668742 TCGGTTACGG
Statistics
Matches: 125, Mismatches: 30, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
27 2 0.02
28 39 0.31
29 83 0.66
30 1 0.01
ACGTcount: A:0.31, C:0.38, G:0.15, T:0.16
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAACAACCGAT
Found at i:63668644 original size:86 final size:86
Alignment explanation
Indices: 63668554--63668741 Score: 322
Period size: 86 Copynumber: 2.2 Consensus size: 86
63668544 GGTTACGAAA
*
63668554 CTCGCACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCGCACA
1 CTCGCACACACAGTGCCTCAACAACCAATCTCGCACACACAGTGCTCGGTTACGAAACTCGCACA
*
63668619 CACAGTGCCTCAACAACCAAT
66 CACAGTACCTCAACAACCAAT
* * *
63668640 CTCGCACACATAGTGCCTCAACAACCAATCTCGCACACACAGTGCTTGGTTACGGAACTCGCACA
1 CTCGCACACACAGTGCCTCAACAACCAATCTCGCACACACAGTGCTCGGTTACGAAACTCGCACA
*
63668705 CACAGTACCTCAACAACCGAT
66 CACAGTACCTCAACAACCAAT
63668726 CTCGCACACACAGTGC
1 CTCGCACACACAGTGC
63668742 TCGGTTACGG
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 95 1.00
ACGTcount: A:0.31, C:0.38, G:0.15, T:0.16
Consensus pattern (86 bp):
CTCGCACACACAGTGCCTCAACAACCAATCTCGCACACACAGTGCTCGGTTACGAAACTCGCACA
CACAGTACCTCAACAACCAAT
Found at i:63668701 original size:57 final size:57
Alignment explanation
Indices: 63668640--63668771 Score: 219
Period size: 57 Copynumber: 2.3 Consensus size: 57
63668630 AACAACCAAT
* *
63668640 CTCGCACACATAGTGCCTCAACAACCAATCTCGCACACACAGTGCTTGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCAATCTCGCACACACAGTGCTCGGTTACGGAA
* *
63668697 CTCGCACACACAGTACCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAA
1 CTCGCACACACAGTGCCTCAACAACCAATCTCGCACACACAGTGCTCGGTTACGGAA
*
63668754 CTCACACACACAGTGCCT
1 CTCGCACACACAGTGCCT
63668772 ATGTTCACTT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 69 1.00
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.17
Consensus pattern (57 bp):
CTCGCACACACAGTGCCTCAACAACCAATCTCGCACACACAGTGCTCGGTTACGGAA
Found at i:63668793 original size:143 final size:143
Alignment explanation
Indices: 63668501--63668771 Score: 470
Period size: 143 Copynumber: 1.9 Consensus size: 143
63668491 TCTCATTTCA
* * *
63668501 CACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGAAACTCGCACACACA
1 CACACATAGTGCCCCAACAACCAATCTCGCACACACAGTGCTTGGTTACGAAACTCGCACACACA
* *
63668566 GTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCGCACACACAGTGCCTCA
66 GTACCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCACACACACAGTGCCTCA
63668631 ACAACCAATCTCG
131 ACAACCAATCTCG
* *
63668644 CACACATAGTGCCTCAACAACCAATCTCGCACACACAGTGCTTGGTTACGGAACTCGCACACACA
1 CACACATAGTGCCCCAACAACCAATCTCGCACACACAGTGCTTGGTTACGAAACTCGCACACACA
*
63668709 GTACCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCACACACACAGTGCCT
66 GTACCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCACACACACAGTGCCT
63668772 ATGTTCACTT
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
143 120 1.00
ACGTcount: A:0.30, C:0.36, G:0.16, T:0.17
Consensus pattern (143 bp):
CACACATAGTGCCCCAACAACCAATCTCGCACACACAGTGCTTGGTTACGAAACTCGCACACACA
GTACCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCACACACACAGTGCCTCA
ACAACCAATCTCG
Done.