Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 268 of 325
Found at i:87627654 original size:37 final size:37
Alignment explanation
Indices: 87627604--87627675 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
87627594 GGAAATATAT
* *
87627604 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACATGTGGAGATTTTG
*
87627641 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACATGTGGAGATTT
87627676 CGTCTGAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACATGTGGAGATTTTG
Found at i:87637431 original size:4 final size:4
Alignment explanation
Indices: 87637422--87637450 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
87637412 TTACTACCAA
87637422 TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG T
87637451 TTTTTTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:87642900 original size:25 final size:25
Alignment explanation
Indices: 87642872--87642966 Score: 102
Period size: 25 Copynumber: 3.8 Consensus size: 25
87642862 CTCTTTTAAT
* *
87642872 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTTGGTA
** *
87642897 AACTAGGGCAAAGCAATTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTTGGTA
* *
87642922 AACTGGGGCAAA-ACCTTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTT-GGTA
*
87642947 AACTAGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
87642967 AGCACTTCTT
Statistics
Matches: 55, Mismatches: 13, Indels: 3
0.77 0.18 0.04
Matches are distributed among these distances:
24 4 0.07
25 45 0.82
26 6 0.11
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTTGGTA
Found at i:87643200 original size:27 final size:27
Alignment explanation
Indices: 87643168--87643384 Score: 256
Period size: 27 Copynumber: 8.0 Consensus size: 27
87643158 GGGGCAAAAT
* * *
87643168 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
87643195 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
87643222 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
87643249 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
87643276 AGTAATTCTACCCTACAAGGGTACTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
87643303 GGTAATTCTACCCTA-TAGTGGTATTTT
1 GGTAATTCTACCCTACAAG-GGTATTTC
* * * *
87643330 GGTAATTCTACCCCATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
87643357 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
87643384 G
1 G
87643385 ATATTTTACA
Statistics
Matches: 162, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 2 0.01
27 159 0.98
28 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:87643380 original size:54 final size:54
Alignment explanation
Indices: 87643167--87643382 Score: 297
Period size: 54 Copynumber: 4.0 Consensus size: 54
87643157 AGGGGCAAAA
* * *
87643167 TGGTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* *
87643221 TGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
** * * * *
87643275 CAGTAATTCTACCCTACAAGGGTACTTCGGTAATTCTACCCTATAGTGGTATTT
1 TGGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* * * *
87643329 TGGTAATTCTACCCCATAGGGGTATTTTGGTAATTCTACCTTACAGGGGTATTT
1 TGGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
87643383 CGATATTTTA
Statistics
Matches: 141, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 141 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
TGGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
Found at i:87643403 original size:27 final size:27
Alignment explanation
Indices: 87643372--87643474 Score: 91
Period size: 27 Copynumber: 3.9 Consensus size: 27
87643362 TTCTACCTTA
*
87643372 CAGGGGTATTTCGAT-ATTTTACAAGC
1 CAGGGGTATTTCGATAATTTTACAAAC
* * *
87643398 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTCGATAATTTTACAAAC
* ** *
87643425 CAGTGGTATTTTAATAATTTTTCAAAC
1 CAGGGGTATTTCGATAATTTTACAAAC
** * *
87643452 TGGGGGTATTTTGGTAATTTTAC
1 CAGGGGTATTTCGATAATTTTAC
87643475 TGATCGAGGG
Statistics
Matches: 61, Mismatches: 15, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
26 12 0.20
27 49 0.80
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTCGATAATTTTACAAAC
Found at i:87643433 original size:53 final size:53
Alignment explanation
Indices: 87643348--87643526 Score: 137
Period size: 54 Copynumber: 3.3 Consensus size: 53
87643338 TACCCCATAG
* ** * *
87643348 GGGTATTTTGGTAATTCTACCTTACAGGGGTATTTCGAT-ATTTTACAAGCCAA
1 GGGTATTTTGGTAATTTTA-CAAACAGGGGTATTTCAATAATTTTACAAACCAA
* * * ***
87643401 GGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTAATAATTTTTCAAACTGG
1 GGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTCAATAATTTTACAAACCAA
* * *** **
87643455 GGGTATTTTGGTAATTTTACTGATC-GAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTAC-AAACAG-GGGTATTTCAATAATTTTACAAACCAA
*
87643509 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
87643527 TTAAATCGAG
Statistics
Matches: 100, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
52 2 0.02
53 31 0.31
54 66 0.66
55 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.42
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACAGGGGTATTTCAATAATTTTACAAACCAA
Found at i:87643511 original size:27 final size:26
Alignment explanation
Indices: 87643400--87643540 Score: 115
Period size: 27 Copynumber: 5.2 Consensus size: 26
87643390 TTACAAGCCA
*
87643400 AGGGTATTTTGGTAATTTTACAAACC-
1 AGGGTATTTTGGTAATTTT-TAAACCG
** *
87643426 AGTGGTATTTTAATAATTTTTCAAACTG
1 AG-GGTATTTTGGTAATTTTT-AAACCG
* * *
87643454 GGGGTATTTTGGTAA-TTTTACTGATCG
1 AGGGTATTTTGGTAATTTTTA--AACCG
*
87643481 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTT-TAAACCG
* *
87643508 AGGGTATTTTAGTAATTTTTTAAATCG
1 AGGGTATTTTGGTAA-TTTTTAAACCG
87643535 AGGGTA
1 AGGGTA
87643541 AAACAATAAT
Statistics
Matches: 90, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
25 1 0.01
26 6 0.07
27 73 0.81
28 8 0.09
29 2 0.02
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTTAAACCG
Found at i:87643535 original size:54 final size:54
Alignment explanation
Indices: 87643387--87643540 Score: 152
Period size: 54 Copynumber: 2.9 Consensus size: 54
87643377 GTATTTCGAT
* * * *
87643387 ATTTTACAAGCCAAGGGTATTTTGGTAATTTTACAAA-CCAGTGGTATTTTAATA
1 ATTTTTCAAACCAAGGGTATTTTGGTAATTTTATAAATCGAG-GGTATTTTAATA
*** * **
87643441 ATTTTTCAAACTGGGGGTATTTTGGTAATTTTACT-GATCGAGGGTATTTTGGTA
1 ATTTTTCAAACCAAGGGTATTTTGGTAATTTTA-TAAATCGAGGGTATTTTAATA
* *
87643495 ATTTTGT-AAACCAAGGGTATTTTAGTAATTTTTTAAATCGAGGGTA
1 ATTTT-TCAAACCAAGGGTATTTTGGTAATTTTATAAATCGAGGGTA
87643541 AAACAATAAT
Statistics
Matches: 80, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
53 1 0.01
54 75 0.94
55 4 0.05
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (54 bp):
ATTTTTCAAACCAAGGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTAATA
Found at i:87643551 original size:81 final size:81
Alignment explanation
Indices: 87643400--87643551 Score: 173
Period size: 81 Copynumber: 1.9 Consensus size: 81
87643390 TTACAAGCCA
* *****
87643400 AGGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTAATAATTTTTCAAACTGGGGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTAATAATTTTTCAAACTGAGGGTAAAACA
*
87643465 GTAATTTTACTGATCG
66 ATAATTTTACTGATCG
** * *
87643481 AGGGTATTTTGGTAATTTTGTAAACCAAG-GGTATTTTAGTAATTTTTTAAA-TCGAGGGTAAAA
1 AGGGTATTTTGGTAATTTTACAAACC-AGTGGTATTTTAATAATTTTTCAAACT-GAGGGTAAAA
87643544 CAATAATT
64 CAATAATT
87643552 CTGTAAATTG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
80 1 0.02
81 55 0.95
82 2 0.03
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTAATAATTTTTCAAACTGAGGGTAAAACA
ATAATTTTACTGATCG
Found at i:87643835 original size:27 final size:27
Alignment explanation
Indices: 87643519--87643821 Score: 399
Period size: 27 Copynumber: 11.2 Consensus size: 27
87643509 GGGTATTTTA
* * *
87643519 GTAATTTTTTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
87643546 ATAATTCTGTAAATTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
87643573 ATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
87643600 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * * *
87643627 ATAATTCTGTAAATTGAGGATAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
87643654 ATAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
87643681 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
87643708 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* ** * *
87643735 GTAATTTTATAAATTAAGGATAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
87643762 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
87643789 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
87643816 GTAATT
1 GTAATT
87643822 TTACAAATTA
Statistics
Matches: 245, Mismatches: 31, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 245 1.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:87677310 original size:46 final size:46
Alignment explanation
Indices: 87677250--87677418 Score: 164
Period size: 46 Copynumber: 3.7 Consensus size: 46
87677240 TGGTTGAGCA
*
87677250 TCCGAACTCGTTGAGTTGAGTCCCAGTTCAATTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAATG
* * * * *
87677296 TCCGAACTCCTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAA--ATG
* * * * *
87677341 CATCCGAACTCATTGAGTTTAGTCCGAGTTCATTTATGGATACGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAATG
* *
87677389 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
87677419 CTTAGGGGCG
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 53 0.54
47 27 0.28
48 4 0.04
50 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCAAATG
Found at i:87677406 original size:93 final size:93
Alignment explanation
Indices: 87677247--87677417 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
87677237 GGATGGTTGA
* * *
87677247 GCATCCGAACTCGTTGAGTTGAGTCCCAGTTCAATTATGGATGCAAATGTCCGAACTCCTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCCAGTTCAATTATGGATACAAATGCCCGAACTCCTTGAGT
87677312 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * * *
87677340 GCATCCGAACTCATTGAGTTTAGTCCGAGTTCATTTATGGATACGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCCAGTTCAATTATGGATACAAATGCCCGAACTCCTTGAGT
87677405 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
87677418 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCCAGTTCAATTATGGATACAAATGCCCGAACTCCTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:87677684 original size:19 final size:20
Alignment explanation
Indices: 87677647--87677684 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
87677637 ATAAGGTGGT
87677647 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
87677667 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
87677685 TGATGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:87679713 original size:39 final size:40
Alignment explanation
Indices: 87679635--87679821 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
87679625 TGATAACCGA
* * * * **
87679635 GCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
87679675 GC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
* * * *
87679714 GCTAAGTCACGATGGAATTTGTGCGAGTTACTAAATCCAG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
* *
87679754 GCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-CCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAATCCGG
* *
87679794 GCTATGTCCCGAAGGCATTTGAGCGAGT
1 GCTAAGTCCCGAAGGCATTTGTGCGAGT
87679822 AGCTATATCG
Statistics
Matches: 126, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
39 33 0.26
40 91 0.72
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGG
Found at i:87687785 original size:40 final size:40
Alignment explanation
Indices: 87687651--87687840 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 40
87687641 TGGATGATAA
* * * * **
87687651 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
87687691 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
87687730 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
87687769 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
87687809 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
87687841 AGCTATATCC
Statistics
Matches: 136, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
38 5 0.04
39 60 0.44
40 69 0.51
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:87687851 original size:80 final size:78
Alignment explanation
Indices: 87687648--87687852 Score: 263
Period size: 78 Copynumber: 2.6 Consensus size: 78
87687638 ATTTGGATGA
* * *
87687648 TAACCGGGCTAAGTCCCGAAGGCATCTGCGCTAGT-GACTAGT-TCCGGGCAAGTCCCGAAGGCA
1 TAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAG-CTA-TATCCGGGCAAGTCCCGAAGGCA
*
87687711 TTTGTGCGAGTTACT
64 ATTGTGCGAGTTACT
* * * *
87687726 AAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGCTAAGTCCCGAAGGCA
1 TAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCCGGGC-AAGTCCCGAAGGCA
87687790 ATTGTGCGAGTTACT
64 ATTGTGCGAGTTACT
*
87687805 CTAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCGG
1 -TAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCGG
87687853 TTAAATTCCG
Statistics
Matches: 109, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
78 39 0.36
79 31 0.28
80 39 0.36
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (78 bp):
TAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCGGGCAAGTCCCGAAGGCAAT
TGTGCGAGTTACT
Found at i:87701618 original size:28 final size:28
Alignment explanation
Indices: 87701587--87701651 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
87701577 AGTGTGCGGG
87701587 AATAAGTGTTCACGGTTGTGAGATTGGC
1 AATAAGTGTTCACGGTTGTGAGATTGGC
87701615 AATAAGTGTTCACGGTTGTGAGATTGGC
1 AATAAGTGTTCACGGTTGTGAGATTGGC
*
87701643 ACTAAGTGT
1 AATAAGTGT
87701652 GCGGGCCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.26, C:0.11, G:0.31, T:0.32
Consensus pattern (28 bp):
AATAAGTGTTCACGGTTGTGAGATTGGC
Found at i:87701664 original size:44 final size:44
Alignment explanation
Indices: 87701614--87701701 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
87701604 GTGAGATTGG
87701614 CAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGGC
1 CAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGGC
87701658 CAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGGC
1 CAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGGC
87701702 TTGAAATGCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (44 bp):
CAATAAGTGTTCACGGTTGTGAGATTGGCACTAAGTGTGCGGGC
Found at i:87701718 original size:29 final size:29
Alignment explanation
Indices: 87701683--87701756 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
87701673 GTTGTGAGAT
* *
87701683 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
87701712 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
87701741 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
87701757 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:87702189 original size:40 final size:40
Alignment explanation
Indices: 87702066--87702261 Score: 184
Period size: 40 Copynumber: 4.9 Consensus size: 40
87702056 TTGAATGATG
** *
87702066 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
87702106 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
87702146 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
87702186 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
87702226 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
87702262 CGTGTATTCG
Statistics
Matches: 130, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 110 0.85
41 19 0.15
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:87702202 original size:80 final size:81
Alignment explanation
Indices: 87702066--87702262 Score: 222
Period size: 80 Copynumber: 2.5 Consensus size: 81
87702056 TTGAATGATG
**
87702066 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGACCATATCCGGACTAAGATCCGAAGAGCA
* *
87702128 TTGGTGCGAGTTACTAAA
65 TTCGTGCGAGTGA-TAAA
** * *
87702146 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAGTTCCGAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAGAGCAT
* *
87702210 TCGTGCTAGTGATATA
66 TCGTGCGAGTGATAAA
* * * *
87702226 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAC
87702263 GTGTATTCGG
Statistics
Matches: 99, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
80 73 0.74
81 20 0.20
82 6 0.06
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAGAGCAT
TCGTGCGAGTGATAAA
Found at i:87704811 original size:47 final size:47
Alignment explanation
Indices: 87704745--87705311 Score: 901
Period size: 47 Copynumber: 12.1 Consensus size: 47
87704735 GAAATGATAG
*
87704745 TAAGGCCTAATGGCCGATGTGTTGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
87704792 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
87704841 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTG-
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
87704885 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
87704931 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
87704978 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
87705025 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
87705072 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
87705121 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
87705168 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
87705215 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
87705261 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
87705308 TAAG
1 TAAG
87705312 TCCCGAAGGG
Statistics
Matches: 491, Mismatches: 20, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
43 24 0.05
44 11 0.02
45 16 0.03
46 51 0.10
47 296 0.60
49 93 0.19
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:87705486 original size:37 final size:37
Alignment explanation
Indices: 87705430--87705508 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
87705420 CCGAGCTCTA
* *
87705430 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
87705467 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
87705504 AAGAC
1 AAGAC
87705509 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:87707254 original size:19 final size:20
Alignment explanation
Indices: 87707217--87707254 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
87707207 ATAAGGTGGT
87707217 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
87707237 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
87707255 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:87709844 original size:60 final size:60
Alignment explanation
Indices: 87709776--87709895 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
87709766 ATAAGCAAAA
87709776 ATAGTATTTTTATTCTTATTAATAATATTCAGTTTGAACATACTCTTATACATATACCTT
1 ATAGTATTTTTATTCTTATTAATAATATTCAGTTTGAACATACTCTTATACATATACCTT
87709836 ATAGTATTTTTATTCTTATTAATAATATTCAGTTTGAACATACTCTTATACATATACCTT
1 ATAGTATTTTTATTCTTATTAATAATATTCAGTTTGAACATACTCTTATACATATACCTT
87709896 TTCCCTACAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.33, C:0.13, G:0.05, T:0.48
Consensus pattern (60 bp):
ATAGTATTTTTATTCTTATTAATAATATTCAGTTTGAACATACTCTTATACATATACCTT
Found at i:87709883 original size:30 final size:30
Alignment explanation
Indices: 87709789--87709884 Score: 76
Period size: 30 Copynumber: 3.2 Consensus size: 30
87709779 GTATTTTTAT
87709789 TCTTATTAATAATATTCAGTTTGAACATAC
1 TCTTATTAATAATATTCAGTTTGAACATAC
* ** *
87709819 TCTTA-TACAT-ATACCTTATAGTATT---TTTAT
1 TCTTATTA-ATAATA--TT-CAGT-TTGAACATAC
87709849 TCTTATTAATAATATTCAGTTTGAACATAC
1 TCTTATTAATAATATTCAGTTTGAACATAC
87709879 TCTTAT
1 TCTTAT
87709885 ACATATACCT
Statistics
Matches: 48, Mismatches: 8, Indels: 20
0.63 0.11 0.26
Matches are distributed among these distances:
27 2 0.04
28 3 0.06
29 7 0.15
30 24 0.50
31 7 0.15
32 3 0.06
33 2 0.04
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (30 bp):
TCTTATTAATAATATTCAGTTTGAACATAC
Found at i:87711595 original size:20 final size:20
Alignment explanation
Indices: 87711570--87711611 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
87711560 AAATAAACAC
**
87711570 ATAACTATTCATTTAATATT
1 ATAACTATTCAAATAATATT
87711590 ATAACTATTCAAATAATATT
1 ATAACTATTCAAATAATATT
87711610 AT
1 AT
87711612 TTAAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAACTATTCAAATAATATT
Found at i:87714212 original size:3 final size:3
Alignment explanation
Indices: 87714204--87714250 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
87714194 ATCACATGTT
87714204 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
87714251 TGGATGTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:87718588 original size:3 final size:3
Alignment explanation
Indices: 87718580--87718605 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
87718570 ATCACATGTT
87718580 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
87718606 TGGATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:87726932 original size:17 final size:17
Alignment explanation
Indices: 87726910--87726947 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
87726900 TATTTTATTT
* *
87726910 AACTTGTCTTGCAAGTA
1 AACTTGACTTGCAAATA
87726927 AACTTGACTTGCAAATA
1 AACTTGACTTGCAAATA
87726944 AACT
1 AACT
87726948 CTTCAAATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (17 bp):
AACTTGACTTGCAAATA
Found at i:87734868 original size:27 final size:28
Alignment explanation
Indices: 87734731--87734908 Score: 270
Period size: 28 Copynumber: 6.4 Consensus size: 28
87734721 GAGATTGGCG
* * * *
87734731 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
87734760 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
87734788 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
87734816 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
87734844 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
87734871 CGAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
87734898 CTGAGTGTGCG
1 CTAAGTGTGCG
87734909 GACTTAATAT
Statistics
Matches: 140, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 49 0.35
28 76 0.54
29 15 0.11
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:87743223 original size:27 final size:28
Alignment explanation
Indices: 87743086--87743263 Score: 270
Period size: 28 Copynumber: 6.4 Consensus size: 28
87743076 GAGATTGGCG
* * * *
87743086 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
87743115 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
87743143 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
87743171 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
87743199 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
87743226 CGAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
87743253 CTGAGTGTGCG
1 CTAAGTGTGCG
87743264 GACTTAATAT
Statistics
Matches: 140, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 49 0.35
28 76 0.54
29 15 0.11
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:87747448 original size:22 final size:22
Alignment explanation
Indices: 87747402--87747448 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
87747392 TTAACTAAGG
* *
87747402 TGAAATTATATACATGTATGCA
1 TGAAATGATATACATGTATGAA
87747424 TGAAATGATATACTATG-ATGAA
1 TGAAATGATATAC-ATGTATGAA
87747446 TGA
1 TGA
87747449 TGGAATTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (22 bp):
TGAAATGATATACATGTATGAA
Found at i:87756063 original size:16 final size:18
Alignment explanation
Indices: 87756038--87756081 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
87756028 AAATATGATC
87756038 AAATATATATGAGATTGG
1 AAATATATATGAGATTGG
87756056 AAATATATATGAGATTGG
1 AAATATATATGAGATTGG
87756074 AAATATAT
1 AAATATAT
87756082 CCGGACATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.34
Consensus pattern (18 bp):
AAATATATATGAGATTGG
Found at i:87756121 original size:39 final size:39
Alignment explanation
Indices: 87756071--87756202 Score: 183
Period size: 39 Copynumber: 3.4 Consensus size: 39
87756061 TATATGAGAT
87756071 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* *
87756110 TGGAAAAATATCCGGACATGAGATCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* * * * ** *
87756149 TAGAAATATATCCGGACTTGAGGTCTGCAGGCGACGTGT
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
87756188 TGGAAATATATCCGG
1 TGGAAATATATCCGG
87756203 GTTAAAGACC
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:87756216 original size:78 final size:77
Alignment explanation
Indices: 87756073--87756228 Score: 188
Period size: 78 Copynumber: 2.0 Consensus size: 77
87756063 TATGAGATTG
* * * *
87756073 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGC
1 GAAATATATCCGGACATGAGGTCCGCAGGCGACATGCTGGAAAAATATCCGGACATAAGACCCGC
87756138 AGGCTATATGCTA
66 AGGCT-TATGCTA
* * * * * **
87756151 GAAATATATCCGGACTTGAGGTCTGCAGGCGACGTGTTGGAAATATATCCGG-GTTAAAGACCCG
1 GAAATATATCCGGACATGAGGTCCGCAGGCGACATGCTGGAAAAATATCCGGACAT-AAGACCCG
87756215 CAGGCTTATGCTA
65 CAGGCTTATGCTA
87756228 G
1 G
87756229 TAATGTATTC
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
77 9 0.14
78 57 0.86
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (77 bp):
GAAATATATCCGGACATGAGGTCCGCAGGCGACATGCTGGAAAAATATCCGGACATAAGACCCGC
AGGCTTATGCTA
Found at i:87765412 original size:40 final size:40
Alignment explanation
Indices: 87765330--87765540 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
87765320 TATTCGAATG
* * * * *
87765330 ATATCCGGGCTAAGTCCCGAGGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * *
87765370 ATATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGACT
* *
87765410 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
87765450 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
87765490 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
87765529 ATATCC-GGCTAA
1 ATATCCGGGCTAA
87765541 ATTCTGAAGA
Statistics
Matches: 145, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
38 6 0.04
39 16 0.11
40 121 0.83
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:87765818 original size:22 final size:22
Alignment explanation
Indices: 87765776--87765819 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
87765766 AAAATGTGCA
* *
87765776 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
87765798 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
87765820 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:87780312 original size:39 final size:39
Alignment explanation
Indices: 87780268--87780395 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
87780258 TATATGAGAT
*
87780268 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
*
87780307 TGGAAAAATATCCGGACATGAGATCCGCAGGCTATATGC
1 TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
* * * * **
87780346 TAGAAATATATCCAGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
87780385 TGGAAAAATAT
1 TGGAAAAATAT
87780396 ATGGGTTAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (39 bp):
TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:87780413 original size:78 final size:77
Alignment explanation
Indices: 87780270--87780425 Score: 197
Period size: 78 Copynumber: 2.0 Consensus size: 77
87780260 TATGAGATTG
* * * *
87780270 GAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGC
1 GAAATATATCCAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGC
87780335 AGGCTATATGCTA
66 AGGCT-TATGCTA
* * ** **
87780348 GAAATATATCCAGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATATGG-GTTAAAGACCCG
1 GAAATATATCCAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
87780412 CAGGCTTATGCTA
65 CAGGCTTATGCTA
87780425 G
1 G
87780426 TAATGTATTC
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
77 9 0.13
78 58 0.87
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (77 bp):
GAAATATATCCAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGC
AGGCTTATGCTA
Found at i:87784567 original size:6 final size:6
Alignment explanation
Indices: 87784558--87784628 Score: 52
Period size: 6 Copynumber: 11.3 Consensus size: 6
87784548 AATAAAATTG
* * * * *
87784558 AAATGA AAATAA AAATCA AAAGAG AAATAA AAATAAA ATAACAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAAT-AA A-AATAA AAATAA
* *
87784608 AAATTA GAATAA ATAATAA AA
1 AAATAA AAATAA A-AATAA AA
87784629 TAGGAGGATT
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
6 35 0.71
7 12 0.24
8 2 0.04
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:87784569 original size:25 final size:24
Alignment explanation
Indices: 87784538--87784631 Score: 82
Period size: 24 Copynumber: 3.8 Consensus size: 24
87784528 TATGTCTTTC
* *
87784538 AAAATAAAATAATAAAATTGAAATG
1 AAAAT-AAATAATAAAATAGAAATA
*
87784563 AAAATAAA-AATCAAAAGAGAAATA
1 AAAATAAATAAT-AAAATAGAAATA
* * *
87784587 AAAATAAAATAACAAAAATAAAAATT
1 AAAAT-AAATAA-TAAAATAGAAATA
*
87784613 AGAATAAATAATAAAATAG
1 AAAATAAATAATAAAATAG
87784632 GAGGATTTAA
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
23 3 0.05
24 23 0.42
25 14 0.25
26 15 0.27
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.19
Consensus pattern (24 bp):
AAAATAAATAATAAAATAGAAATA
Found at i:87789879 original size:30 final size:30
Alignment explanation
Indices: 87789845--87789905 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
87789835 TCCTTAACTC
87789845 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
87789875 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
87789905 A
1 A
87789906 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:87802115 original size:7 final size:7
Alignment explanation
Indices: 87802103--87802130 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
87802093 ATTTTCAAAA
87802103 CATATTT
1 CATATTT
87802110 CATATTT
1 CATATTT
87802117 CATATTT
1 CATATTT
87802124 CATATTT
1 CATATTT
87802131 TCAAAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
CATATTT
Found at i:87805602 original size:46 final size:44
Alignment explanation
Indices: 87805543--87805676 Score: 142
Period size: 44 Copynumber: 3.0 Consensus size: 44
87805533 ACAGGACAGA
* * *
87805543 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAAGATGGCATTGGAG
* *
87805589 ACAGGATTGAGCCATGTAAGTCCATATTATAGATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAGATGGCATTGGAG
* ** * *
87805633 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAG--ATGGCATTGG
87805677 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 38 0.51
46 36 0.49
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAGATGGCATTGGAG
Found at i:87805649 original size:44 final size:45
Alignment explanation
Indices: 87805543--87805676 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 45
87805533 ACAGGACAGA
* * * *
87805543 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAAGATGGCATTGGAG
* * *
87805589 ACAGGATTGAGCCATGTAAGTCCATATT-ATAGATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAAGATGGCATTGGAG
** * * *
87805633 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-AGATGGCATTGG
87805677 CAGGATATTG
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
44 35 0.48
45 1 0.01
46 37 0.51
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAAGATGGCATTGGAG
Found at i:87810141 original size:30 final size:31
Alignment explanation
Indices: 87810088--87810152 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
87810078 CTACTGAGTT
87810088 TGTGATTAGAGTGTCAAAACCCTTAAGCCGG
1 TGTGATTAGAGTGTCAAAACCCTTAAGCCGG
* * * *
87810119 TGTGA-TAGGGTGTCGAACCCCTTAGGCCGG
1 TGTGATTAGAGTGTCAAAACCCTTAAGCCGG
87810149 TGTG
1 TGTG
87810153 TTTTGGCTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (31 bp):
TGTGATTAGAGTGTCAAAACCCTTAAGCCGG
Found at i:87810269 original size:13 final size:13
Alignment explanation
Indices: 87810251--87810279 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
87810241 GTTTGATATA
87810251 ATTCTGGGTATGG
1 ATTCTGGGTATGG
87810264 ATTCTGGGTATGG
1 ATTCTGGGTATGG
87810277 ATT
1 ATT
87810280 GGCTAACGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.34, T:0.41
Consensus pattern (13 bp):
ATTCTGGGTATGG
Found at i:87815886 original size:29 final size:29
Alignment explanation
Indices: 87815820--87815879 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
87815810 ATATGGATCT
* *
87815820 CATTCATTTGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAAATCA
* *
87815849 TATTCATATGGCCCATTAGGCCCGAAATCA
1 CATTCATATGGCCCATCAGGCCC-AAATCA
87815879 C
1 C
87815880 CTTATATTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAAATCA
Found at i:87822496 original size:46 final size:46
Alignment explanation
Indices: 87822443--87822537 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
87822433 TCAATCACTT
87822443 GTTCAAAACATATGATTTGATGAAAACAAGTCACTTTAAAAATTTA
1 GTTCAAAACATATGATTTGATGAAAACAAGTCACTTTAAAAATTTA
*
87822489 GTTCAAAACATATGATTTGATGAAAATAAGTCACTTTAAAAATTTA
1 GTTCAAAACATATGATTTGATGAAAACAAGTCACTTTAAAAATTTA
87822535 GTT
1 GTT
87822538 GCGGAAACGT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (46 bp):
GTTCAAAACATATGATTTGATGAAAACAAGTCACTTTAAAAATTTA
Found at i:87823555 original size:29 final size:29
Alignment explanation
Indices: 87823487--87823588 Score: 120
Period size: 29 Copynumber: 3.6 Consensus size: 29
87823477 ACCCCTAAAT
* *
87823487 ACATGCATATGGGCCAT-TGGCCCAATT-
1 ACATTCATATGGCCCATCTGGCCCAATTC
*
87823514 TCATTCACT-TGGCCCATCTGGCCCAATTC
1 ACATTCA-TATGGCCCATCTGGCCCAATTC
* *
87823543 ACATTCATATGGCTCATCAGGCCCAATTC
1 ACATTCATATGGCCCATCTGGCCCAATTC
*
87823572 ATATTCATATGGCCCAT
1 ACATTCATATGGCCCAT
87823589 TAGGCCCCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
27 12 0.19
28 12 0.19
29 39 0.62
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (29 bp):
ACATTCATATGGCCCATCTGGCCCAATTC
Found at i:87825301 original size:43 final size:44
Alignment explanation
Indices: 87825198--87825305 Score: 141
Period size: 44 Copynumber: 2.5 Consensus size: 44
87825188 ATGATTCGTT
* * *
87825198 TAAGACCACGTTTGGGACGTTGGCATCGATTTGTGATTTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTTACATG
*
87825242 TAAGACC-CTTTCTGGGACAG-TGGCATCGATATGTGA-TTACATG
1 TAAGACCAC-GTCTGGGAC-GTTGGCATCGATATGTGATTTACATG
87825285 TAAGACCACGTCTGGGACGTT
1 TAAGACCACGTCTGGGACGTT
87825306 ATAATTTTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.02
43 23 0.42
44 30 0.55
45 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (44 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTTACATG
Found at i:87827647 original size:14 final size:14
Alignment explanation
Indices: 87827630--87827660 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
87827620 AAAACTCAGA
87827630 AAAAGAAAAAAAAG
1 AAAAGAAAAAAAAG
*
87827644 AAAAGAAACAAAAG
1 AAAAGAAAAAAAAG
87827658 AAA
1 AAA
87827661 GGGGAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAG
Found at i:87828942 original size:43 final size:43
Alignment explanation
Indices: 87828668--87829085 Score: 374
Period size: 43 Copynumber: 9.7 Consensus size: 43
87828658 TTTGTTTATG
* * *
87828668 CTTCGTTATATCCGATGATGCACTATGTATGCCAGTATAGTTA
1 CTTCGGTATATCCGATGATGCACTGTGTGTGCCAGTATAGTTA
* * * *
87828711 CTTCTGTATA-CCAGATGATGATTCACTGTATGTGCCAATATAGGTA
1 CTTCGGTATATCC-GATGATG---CACTGTGTGTGCCAGTATAGTTA
* * * *
87828757 CTTTGGTATATCCGATGATGAACTGTGTTTGTCTA-TATAGTTA
1 CTTCGGTATATCCGATGATGCACTGTGTGTG-CCAGTATAGTTA
* *
87828800 CTTCGGTATATCCGATGATACACTATGTGT-CCTAGTATAGTTA
1 CTTCGGTATATCCGATGATGCACTGTGTGTGCC-AGTATAGTTA
* * **
87828843 CTTCGGTATATCCGATGATGCACTGTGTGTGCTAGTACAGTGG
1 CTTCGGTATATCCGATGATGCACTGTGTGTGCCAGTATAGTTA
* * * * *
87828886 CTTTGATATATCCAATGATGCACTGTGTTTGCCAATATAGTTA
1 CTTCGGTATATCCGATGATGCACTGTGTGTGCCAGTATAGTTA
* * * * * *
87828929 CTTCGGTATATCCAATAATGCATTGTATGTGCCATTATAGTTG
1 CTTCGGTATATCCGATGATGCACTGTGTGTGCCAGTATAGTTA
** * *
87828972 CTTTAGTATATCTGATGATGCACTGTGTGTGCCAGTATAGTTT
1 CTTCGGTATATCCGATGATGCACTGTGTGTGCCAGTATAGTTA
* * * * * *
87829015 TTTAGGTTTATTCGATGATGCACTGTGTGTTCCAGTATAGTTG
1 CTTCGGTATATCCGATGATGCACTGTGTGTGCCAGTATAGTTA
* ** * *
87829058 TTTTAGTATATCTGATGATGCATTGTGT
1 CTTCGGTATATCCGATGATGCACTGTGT
87829086 ATATCAATAT
Statistics
Matches: 300, Mismatches: 66, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
41 1 0.00
42 3 0.01
43 258 0.86
44 3 0.01
46 33 0.11
47 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (43 bp):
CTTCGGTATATCCGATGATGCACTGTGTGTGCCAGTATAGTTA
Found at i:87829471 original size:11 final size:12
Alignment explanation
Indices: 87829444--87829472 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
87829434 AATGATAATA
87829444 AAAATCAAAATT
1 AAAATCAAAATT
87829456 AAAATCAAAA-T
1 AAAATCAAAATT
87829467 AAAATC
1 AAAATC
87829473 CCATTACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATCAAAATT
Found at i:87830078 original size:21 final size:21
Alignment explanation
Indices: 87830041--87830080 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
87830031 GAGCACCAAG
*
87830041 AGTCAAAAGGAGGCAAAAACA
1 AGTCAAAAGGAGACAAAAACA
87830062 AGTCAAAAAGG-GACAAAAA
1 AGTC-AAAAGGAGACAAAAA
87830081 GGACCAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.60, C:0.12, G:0.23, T:0.05
Consensus pattern (21 bp):
AGTCAAAAGGAGACAAAAACA
Found at i:87831125 original size:14 final size:13
Alignment explanation
Indices: 87831106--87831135 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
87831096 TTTAGTTTAA
87831106 TTAGTTAATTAAGT
1 TTAGTTAATT-AGT
87831120 TTAGTTAATTAGT
1 TTAGTTAATTAGT
87831133 TTA
1 TTA
87831136 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:87831802 original size:27 final size:27
Alignment explanation
Indices: 87831764--87831817 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
87831754 TAGACCGGCT
87831764 ATAGCTACAAATACTTTTGAACTGAAA
1 ATAGCTACAAATACTTTTGAACTGAAA
87831791 ATAGCTACAAATACTTTTGAACTGAAA
1 ATAGCTACAAATACTTTTGAACTGAAA
87831818 CCTAACACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (27 bp):
ATAGCTACAAATACTTTTGAACTGAAA
Found at i:87835840 original size:12 final size:12
Alignment explanation
Indices: 87835794--87835840 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
87835784 AATTTTCTTA
87835794 TCTTTTTATTTT
1 TCTTTTTATTTT
**
87835806 GATTTTTATTTT
1 TCTTTTTATTTT
*
87835818 TCTTATTATTTT
1 TCTTTTTATTTT
*
87835830 TCTTTTCATTT
1 TCTTTTTATTT
87835841 CAATTTTATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.77
Consensus pattern (12 bp):
TCTTTTTATTTT
Found at i:87835847 original size:29 final size:30
Alignment explanation
Indices: 87835784--87835853 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 30
87835774 AGGATCATTA
* * *
87835784 AATTTTCTTA-TCTTTTTATTTTGATTTTT
1 AATTTTCTTATTATTTTTATTTTCATTTTC
* *
87835813 ATTTTTCTTATTATTTTTCTTTTCA-TTTC
1 AATTTTCTTATTATTTTTATTTTCATTTTC
*
87835842 AATTTTATTATT
1 AATTTTCTTATT
87835854 TTCTTTTGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
29 22 0.67
30 11 0.33
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.71
Consensus pattern (30 bp):
AATTTTCTTATTATTTTTATTTTCATTTTC
Found at i:87842621 original size:19 final size:19
Alignment explanation
Indices: 87842580--87842640 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
87842570 GCGCTTATGT
** * *
87842580 GCCAGGATGCACTTCATGT
1 GCCAGGATGTGCTTCGTGC
*
87842599 GCCAGGATGTGCTTTGTGC
1 GCCAGGATGTGCTTCGTGC
87842618 GCCAGGATGTGCTTCGTGC
1 GCCAGGATGTGCTTCGTGC
87842637 GCCA
1 GCCA
87842641 ATATGCATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.15, C:0.26, G:0.33, T:0.26
Consensus pattern (19 bp):
GCCAGGATGTGCTTCGTGC
Found at i:87845236 original size:33 final size:33
Alignment explanation
Indices: 87845172--87845245 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
87845162 CAAATTGCCG
* *
87845172 ATAAGACTATAGCCGGGCTATGGCAATTGAATA
1 ATAAGACCATAACCGGGCTATGGCAATTGAATA
* *
87845205 ATAAGACCATAACCGGGTTATGGC-ATGTGAATG
1 ATAAGACCATAACCGGGCTATGGCAAT-TGAATA
87845238 A-AAGACCA
1 ATAAGACCA
87845246 CAGCAAGGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 9 0.25
33 27 0.75
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (33 bp):
ATAAGACCATAACCGGGCTATGGCAATTGAATA
Found at i:87855560 original size:28 final size:28
Alignment explanation
Indices: 87855482--87855563 Score: 121
Period size: 28 Copynumber: 2.9 Consensus size: 28
87855472 AGCATGACGG
***
87855482 TAAATGTGATTGGGCCTAAT-GGCTGTA
1 TAAATGTGATTGGGCCTAATGGGCCACA
87855509 TAAATGTGATTTGGGCCTAATGGGCCACA
1 TAAATGTGA-TTGGGCCTAATGGGCCACA
87855538 TAAATGTGATTGGGCCTAATGGGCCA
1 TAAATGTGATTGGGCCTAATGGGCCA
87855564 TATGAGGGAG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
27 9 0.18
28 28 0.56
29 13 0.26
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (28 bp):
TAAATGTGATTGGGCCTAATGGGCCACA
Found at i:87855576 original size:28 final size:28
Alignment explanation
Indices: 87855489--87855594 Score: 97
Period size: 28 Copynumber: 3.8 Consensus size: 28
87855479 CGGTAAATGT
** * *
87855489 GATTGGGCCTAAT-GGCTGTATAAATGT
1 GATTGGGCCTAATGGGCCATATAAAGGA
* * *
87855516 GATTTGGGCCTAATGGGCCACATAAATGT
1 GA-TTGGGCCTAATGGGCCATATAAAGGA
* *
87855545 GATTGGGCCTAATGGGCCATATGAGGGA
1 GATTGGGCCTAATGGGCCATATAAAGGA
* *
87855573 GATTAGGCCTAGTGGGCCATAT
1 GATTGGGCCTAATGGGCCATAT
87855595 TCAAGTATGT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 2 0.03
28 52 0.78
29 13 0.19
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GATTGGGCCTAATGGGCCATATAAAGGA
Found at i:87855582 original size:56 final size:56
Alignment explanation
Indices: 87855482--87855591 Score: 132
Period size: 56 Copynumber: 2.0 Consensus size: 56
87855472 AGCATGACGG
** * * *
87855482 TAAATGTGATTGGGCCTAATGGCTGTATAAATGTGATTTGGGCCTAATGGGCCACA
1 TAAATGTGATTGGGCCTAATGGCCATATAAAGGAGATTTAGGCCTAATGGGCCACA
* * *
87855538 TAAATGTGATTGGGCCTAATGGGCCATATGAGGGAGA-TTAGGCCTAGTGGGCCA
1 TAAATGTGATTGGGCCTAAT-GGCCATATAAAGGAGATTTAGGCCTAATGGGCCA
87855592 TATTCAAGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
56 35 0.78
57 10 0.22
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (56 bp):
TAAATGTGATTGGGCCTAATGGCCATATAAAGGAGATTTAGGCCTAATGGGCCACA
Found at i:87856540 original size:54 final size:54
Alignment explanation
Indices: 87856480--87856587 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
87856470 TTAGTATGGA
87856480 TTGTAATAAGGCGTCCCCCTTTTATTATTGTTTGGATTATTAAATTCATGCATT
1 TTGTAATAAGGCGTCCCCCTTTTATTATTGTTTGGATTATTAAATTCATGCATT
87856534 TTGTAATAAGGCGTCCCCCTTTTATTATTGTTTGGATTATTAAATTCATGCATT
1 TTGTAATAAGGCGTCCCCCTTTTATTATTGTTTGGATTATTAAATTCATGCATT
87856588 GTAATTATAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (54 bp):
TTGTAATAAGGCGTCCCCCTTTTATTATTGTTTGGATTATTAAATTCATGCATT
Found at i:87857988 original size:21 final size:20
Alignment explanation
Indices: 87857951--87857990 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
87857941 TATGCATGAG
*
87857951 TTTTGATGATTGATGATAGA
1 TTTTGATAATTGATGATAGA
*
87857971 TTTTGAATAATTGTTGATAG
1 TTTTG-ATAATTGATGATAG
87857991 TTAAACAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (20 bp):
TTTTGATAATTGATGATAGA
Found at i:87858077 original size:29 final size:27
Alignment explanation
Indices: 87858019--87858081 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
87858009 GTGATTTTTG
*
87858019 GTGAAATTGTAAAATAGGGATTAAATT
1 GTGAAATTGTAAAATAGGGATTAAAAT
*
87858046 GTGAAATGTGTAAAGGTAGTGG-TTAAAAT
1 GTGAAAT-TGTAAA-ATAG-GGATTAAAAT
87858075 GTGAAAT
1 GTGAAAT
87858082 AAATGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 7 0.23
28 6 0.19
29 16 0.52
30 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (27 bp):
GTGAAATTGTAAAATAGGGATTAAAAT
Found at i:87861050 original size:48 final size:46
Alignment explanation
Indices: 87860934--87861053 Score: 141
Period size: 46 Copynumber: 2.6 Consensus size: 46
87860924 TGATAAGTGT
* * *
87860934 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGAAGAAA
* * * *
87860980 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGA-AGA-AA
* *
87861028 GCTAGTGTAAGACCTATCTGGGACAT
1 GCTAGTGTAAGACATGTCTGGGACAT
87861054 TGCGTCAGCT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 37 0.60
47 1 0.02
48 24 0.39
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACATCGAGAAGAAA
Found at i:87861135 original size:49 final size:48
Alignment explanation
Indices: 87861074--87861246 Score: 172
Period size: 49 Copynumber: 3.5 Consensus size: 48
87861064 TGTTGTGTAT
*
87861074 CAGTGTACGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTA-GACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * * *
87861123 CAGTGTGAGACCTGTCTGGGACACGGCATCGGCCTCGATATATGAAAGT
1 CAGTGT-AGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
* * * **
87861172 CAGTGTAAGACCTCTCTGGGACATGGCATCGACTTTGAT-G-TGTTAGC
1 CAGTGT-AGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
*
87861219 CAGTGTAAGACCATGTCAGGGACATGGC
1 CAGTGT-AGACC-TGTCTGGGACATGGC
87861247 GTTGGCATCT
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
47 16 0.15
48 14 0.13
49 73 0.70
50 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (48 bp):
CAGTGTAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:87861178 original size:142 final size:138
Alignment explanation
Indices: 87860937--87861244 Score: 343
Period size: 142 Copynumber: 2.2 Consensus size: 138
87860927 TAAGTGTGCT
** * *
87860937 AGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGAGCTAGTGTAAGACATGTTTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACACCGAGACGAGAGCCAGTGTAAGACATGTCTGGG
*
87861002 ACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTATCTGGGACATTGCGTCAGCTTGT
66 ACAGGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTATCTGGGACATTGCGTCAGCTTGT
87861067 TGTGTATC
131 TGTGTATC
* * * * *
87861075 AGTGTACGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTGAGACCTGTCT
1 AGTGTAAGACATGTCTGGGACAT-GCATCGACACCG--AGACGAGAGCCAGTGTAAGACATGTCT
* * * *
87861140 GGGACACGGCATCGGCCTCGATATATGA-AAG-TCAGTGTAAGACCTCTCTGGGACATGGCATC-
63 GGGACA-GGCATCGGCCTCGAGATAT-ACAAGCT-AGTGTAAGACCTATCTGGGACATTGCGTCA
* *
87861202 GACTTTGATGTGTTAGCC
125 G-C-TTGTTGTG-TA-TC
*
87861220 AGTGTAAGACCATGTCAGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
87861245 GCGTTGGCAT
Statistics
Matches: 140, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
138 21 0.15
139 10 0.07
141 30 0.21
142 47 0.34
143 8 0.06
144 2 0.01
145 10 0.07
146 12 0.09
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (138 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACACCGAGACGAGAGCCAGTGTAAGACATGTCTGGG
ACAGGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTATCTGGGACATTGCGTCAGCTTGT
TGTGTATC
Found at i:87876678 original size:45 final size:45
Alignment explanation
Indices: 87876627--87876712 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
87876617 ATGTAACCTA
* * *
87876627 AACTCATTGAA-TTGTGGTTTGAGTTCATGATATATGTGACATCCG
1 AACTCATT-AAGTTCTGGTCTGAGTTCATAATATATGTGACATCCG
*
87876672 AACTCATTAAGTTCTGGTCTGAGTTCGTAATATATGTGACA
1 AACTCATTAAGTTCTGGTCTGAGTTCATAATATATGTGACA
87876713 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 2 0.06
45 34 0.94
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (45 bp):
AACTCATTAAGTTCTGGTCTGAGTTCATAATATATGTGACATCCG
Found at i:87881190 original size:19 final size:20
Alignment explanation
Indices: 87881159--87881197 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
87881149 CGTCAGTTGA
87881159 TTGGAAGAAAGAAGAAAAAT
1 TTGGAAGAAAGAAGAAAAAT
*
87881179 TTGGAA-AAAGAATAAAAAT
1 TTGGAAGAAAGAAGAAAAAT
87881198 AAAATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.18
Consensus pattern (20 bp):
TTGGAAGAAAGAAGAAAAAT
Found at i:87891239 original size:65 final size:65
Alignment explanation
Indices: 87891159--87891301 Score: 198
Period size: 65 Copynumber: 2.2 Consensus size: 65
87891149 CGACTACTAT
* * * * * *
87891159 AGCTCTTTGTGAGTGTCCTGTTTAT-TGATTGGTTGTGATCGTGCATATGTTGCGAACACAAACG
1 AGCTCTTTATGAGTGTCCTG-TTATGCGATCGGTTGTGATCCTACATATGTTACGAACACAAACG
87891223 C
65 C
* *
87891224 AGCTCTTTATGAGTGTCCTGTTATGCGATCGGTTGTGATCCTACATATGTTATGGACACAAACGC
1 AGCTCTTTATGAGTGTCCTGTTATGCGATCGGTTGTGATCCTACATATGTTACGAACACAAACGC
87891289 AGCTCTTTATGAG
1 AGCTCTTTATGAG
87891302 CATCCTGATA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 4 0.06
65 65 0.94
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (65 bp):
AGCTCTTTATGAGTGTCCTGTTATGCGATCGGTTGTGATCCTACATATGTTACGAACACAAACGC
Found at i:87908334 original size:16 final size:16
Alignment explanation
Indices: 87908309--87908347 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
87908299 AGTTTCATAT
*
87908309 AAAAAT-TAAAATAGA
1 AAAAATATAAAATAAA
87908324 AAAAATATAAAATAAA
1 AAAAATATAAAATAAA
87908340 ATAAAATA
1 A-AAAATA
87908348 AACCCGAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 6 0.29
16 9 0.43
17 6 0.29
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAAATATAAAATAAA
Found at i:87909064 original size:49 final size:49
Alignment explanation
Indices: 87908914--87909177 Score: 199
Period size: 48 Copynumber: 5.5 Consensus size: 49
87908904 TATGTGTACT
* * * *
87908914 AGTGTAAGACATGCCTGAGACAT-GCATCGGCCAC-AT-TATG-GAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATATATGAGAGCC
* * *
87908959 AGTGTAAGACATGTCTGGGATAT-ACATC-AGCCTCGATATATG-GAAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGA-CCTCGATATATGAG-AGCC
* * *
87909007 AATGTAAGACGTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGAC-CTCGATATATGAGAGCC
* * * * *
87909056 AGTGTAAGACCTGTCTGGAACACGGCATCGGCCTCGATATATGA-AGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATATATGAGAGCC
* * * * * * **
87909104 AGTGTAAGACTTGTTTGGGACATGGCATCAACTTTG--ATGTGCTAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATATATGAGAGCC
*
87909151 AGTGTAATACCATGTCTGGGACATGGC
1 AGTGTAAGA-CATGTCTGGGACATGGC
87909178 GTCAGCATCT
Statistics
Matches: 174, Mismatches: 34, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
45 27 0.16
46 6 0.03
47 16 0.09
48 70 0.40
49 52 0.30
50 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATATATGAGAGCC
Found at i:87909071 original size:97 final size:97
Alignment explanation
Indices: 87908954--87909132 Score: 261
Period size: 97 Copynumber: 1.8 Consensus size: 97
87908944 CCACATTATG
* * *
87908954 GAGCCAGTGTAAGACATGTCTGGGATA-TACATCAGCCTCGATATATGGAAGTCAATGTAAGACG
1 GAGCCAGTGTAAGACATGTCTGGAACACGACATCAGCCTCGATATAT-GAAGTCAATGTAAGACG
87909018 TGTCTGGGACATGGCATCGACACCGATAGATGA
65 TGTCTGGGACATGGCATCGACACCGATAGATGA
* * * * *
87909051 GAGCCAGTGTAAGACCTGTCTGGAACACGGCATCGGCCTCGATATATGAAGTCAGTGTAAGACTT
1 GAGCCAGTGTAAGACATGTCTGGAACACGACATCAGCCTCGATATATGAAGTCAATGTAAGACGT
*
87909116 GTTTGGGACATGGCATC
66 GTCTGGGACATGGCATC
87909133 AACTTTGATG
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
97 56 0.78
98 16 0.22
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (97 bp):
GAGCCAGTGTAAGACATGTCTGGAACACGACATCAGCCTCGATATATGAAGTCAATGTAAGACGT
GTCTGGGACATGGCATCGACACCGATAGATGA
Found at i:87909131 original size:48 final size:48
Alignment explanation
Indices: 87908914--87909132 Score: 214
Period size: 48 Copynumber: 4.6 Consensus size: 48
87908904 TATGTGTACT
* * * *
87908914 AGTGTAAGACATGCCTGAGACAT-GCATCGGCCAC-AT-TATGGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGATATATGAAGCC
* * * *
87908959 AGTGTAAGACATGTCTGGGATAT-ACATCAGCCTCGATATATGGAAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGATATAT-GAAGCC
* * * *
87909007 AATGTAAGACGTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGC-CTCGATATATGA-AGCC
* * * *
87909056 AGTGTAAGACCTGTCTGGAACACGGCATCGGCCTCGATATATGAAGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGATATATGAAGCC
* *
87909104 AGTGTAAGACTTGTTTGGGACATGGCATC
1 AGTGTAAGACATGTCTGGGACATGGCATC
87909133 AACTTTGATG
Statistics
Matches: 140, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
45 28 0.20
46 2 0.01
47 3 0.02
48 55 0.39
49 51 0.36
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGATATATGAAGCC
Found at i:87911136 original size:22 final size:22
Alignment explanation
Indices: 87911111--87911157 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
87911101 CACATGGGCT
*
87911111 TGTCCCTATGTCCACACAGGCG
1 TGTCCCTATGTCCACACAAGCG
*
87911133 TGTCCTTATGTCCACACAAGCG
1 TGTCCCTATGTCCACACAAGCG
87911155 TGT
1 TGT
87911158 GACCCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.32, G:0.21, T:0.28
Consensus pattern (22 bp):
TGTCCCTATGTCCACACAAGCG
Found at i:87912313 original size:21 final size:21
Alignment explanation
Indices: 87912283--87912325 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
87912273 AAAAACAATA
87912283 TAATGATTTTG-TATTTTAACT
1 TAATGATTTTGAT-TTTTAACT
*
87912304 TAATGGTTTTGATTTTTAACT
1 TAATGATTTTGATTTTTAACT
87912325 T
1 T
87912326 TAAAAAAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.58
Consensus pattern (21 bp):
TAATGATTTTGATTTTTAACT
Found at i:87914270 original size:22 final size:23
Alignment explanation
Indices: 87914223--87914270 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
87914213 TTTATCTTCG
* **
87914223 TTAATTAATTAGTTTGAGTTTTT
1 TTAAGTAATTAGTTTGAGTTAAT
87914246 TTAAGTAA-TAGTTTGAGTTAAT
1 TTAAGTAATTAGTTTGAGTTAAT
87914268 TTA
1 TTA
87914271 GTTTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (23 bp):
TTAAGTAATTAGTTTGAGTTAAT
Found at i:87916328 original size:43 final size:40
Alignment explanation
Indices: 87916247--87916367 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 40
87916237 GTTAAGATTA
** *
87916247 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTT
1 CGTGTAAGACCATAT-TGGGATATGGCATTGATATGAGA-TC
*
87916289 CGTGTAAGACCATAGTTGGGTTATTGGCATTGATATGAGATC
1 CGTGTAAGACCATA-TTGGGATA-TGGCATTGATATGAGATC
* * *
87916331 CTATGTAAGACTATATTTGGGATATGGCATTGGTATG
1 C-GTGTAAGACCATA-TTGGGATATGGCATTGATATG
87916368 GTACTATGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 34 0.51
43 33 0.49
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.33
Consensus pattern (40 bp):
CGTGTAAGACCATATTGGGATATGGCATTGATATGAGATC
Found at i:87917248 original size:40 final size:42
Alignment explanation
Indices: 87917204--87917283 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
87917194 TATTTTTGCC
* *
87917204 CACATGGGTAG-AC-ATGGGTGTGT-GTCTAGGCCGTGTGTGA
1 CACATGGCTAGCACTATGGGTGTGTAATC-AGGCCGTGTGTGA
*
87917244 CACATGGCTAGCCCTATGGGTGTGTAATCAGGCCGTGTGT
1 CACATGGCTAGCACTATGGGTGTGTAATCAGGCCGTGTGT
87917284 CCCTTGCATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 10 0.29
41 1 0.03
42 21 0.62
43 2 0.06
ACGTcount: A:0.17, C:0.19, G:0.36, T:0.28
Consensus pattern (42 bp):
CACATGGCTAGCACTATGGGTGTGTAATCAGGCCGTGTGTGA
Found at i:87923258 original size:21 final size:21
Alignment explanation
Indices: 87923232--87923277 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
87923222 TTACCCCAAG
87923232 GAAGTCGATTGATCCATCTCA
1 GAAGTCGATTGATCCATCTCA
87923253 GAAGTCGATTGATCCATCTCA
1 GAAGTCGATTGATCCATCTCA
87923274 GAAG
1 GAAG
87923278 CCGAATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (21 bp):
GAAGTCGATTGATCCATCTCA
Found at i:87923291 original size:21 final size:21
Alignment explanation
Indices: 87923232--87923288 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
87923222 TTACCCCAAG
* *
87923232 GAAGTCGATTGATCCATCTCA
1 GAAGCCGATTCATCCATCTCA
* *
87923253 GAAGTCGATTGATCCATCTCA
1 GAAGCCGATTCATCCATCTCA
87923274 GAAGCCGAATTCATC
1 GAAGCCG-ATTCATC
87923289 ATCAAGACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
21 27 0.82
22 6 0.18
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (21 bp):
GAAGCCGATTCATCCATCTCA
Found at i:87929648 original size:43 final size:42
Alignment explanation
Indices: 87929559--87929670 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 42
87929549 TGAGATTACG
* * * *
87929559 TGTAAGACCATA-TCTAGGATATGACATCGATATGAGACTTCG
1 TGTAAGACCATAGT-TGGGATATGGCATCGATATGAGACTCCA
*
87929601 TGTAAGACCATAGTTGGGCTATTGGCATCGATATGAGA-TCCCA
1 TGTAAGACCATAGTTGGGATA-TGGCATCGATATGAGACT-CCA
*
87929644 TGTAAGACCATATTTGGGATATGGCAT
1 TGTAAGACCATAGTTGGGATATGGCAT
87929671 TGGTATGGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 24 0.40
43 36 0.60
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATAGTTGGGATATGGCATCGATATGAGACTCCA
Found at i:87932137 original size:10 final size:10
Alignment explanation
Indices: 87932122--87932146 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
87932112 CCATAATTTA
87932122 TGATACAAAT
1 TGATACAAAT
87932132 TGATACAAAT
1 TGATACAAAT
87932142 TGATA
1 TGATA
87932147 ATGGGTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (10 bp):
TGATACAAAT
Found at i:87932181 original size:26 final size:26
Alignment explanation
Indices: 87932142--87932249 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
87932132 TGATACAAAT
87932142 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
87932168 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87932194 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87932220 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87932246 TGAT
1 TGAT
87932250 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87939931 original size:40 final size:40
Alignment explanation
Indices: 87939876--87940172 Score: 386
Period size: 40 Copynumber: 7.5 Consensus size: 40
87939866 CGGATGATAA
* * *
87939876 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
87939916 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
87939956 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** * *
87939996 CCGGGCTAAGTCCTAAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
87940036 CCGGGCTAAGTTCCGAAGGCATTTGTACGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
87940076 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
87940116 TCGGGCTATGTCCCGAAGGCA-TTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
87940155 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
87940173 TACTTGGTTT
Statistics
Matches: 226, Mismatches: 29, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
38 15 0.07
39 14 0.06
40 197 0.87
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:87947470 original size:40 final size:40
Alignment explanation
Indices: 87947207--87947469 Score: 402
Period size: 40 Copynumber: 6.6 Consensus size: 40
87947197 CGGATGATAA
* * *
87947207 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
87947247 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
87947287 CCGGGCTAAGTCCCAAAGGCATTTGGGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
87947327 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
87947367 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
87947407 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
87947447 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
87947470 GAGCAAGTAG
Statistics
Matches: 203, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 1 0.00
40 202 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:87954573 original size:40 final size:40
Alignment explanation
Indices: 87954310--87954572 Score: 377
Period size: 40 Copynumber: 6.6 Consensus size: 40
87954300 CGGATGATAA
* * *
87954310 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
87954350 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
87954390 CCGGGCTAAGTCCCAAAGGCATTTGGGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
87954430 CCGGGCTAAGTCCCAAAGGCATTTGTGTGATTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
87954470 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
87954510 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
87954550 CCGGGCTATA-TCCCGAAGGCATT
1 CCGGGCTA-AGTCCCGAAGGCATT
87954573 GAGCAAGTAG
Statistics
Matches: 201, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.00
40 199 0.99
41 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:87960563 original size:40 final size:40
Alignment explanation
Indices: 87960505--87960774 Score: 371
Period size: 40 Copynumber: 6.6 Consensus size: 40
87960495 CGGATGATAA
* * * *
87960505 CCGGGCTAAGTCCAGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
87960545 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
87960585 CAGGGCTAAGTCCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 C-CGG----G--CTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
87960632 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
87960672 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
87960712 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
87960752 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
87960775 GAGCAAGTAG
Statistics
Matches: 208, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
39 1 0.00
40 165 0.79
41 2 0.01
42 1 0.00
45 1 0.00
46 2 0.01
47 36 0.17
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:87962286 original size:26 final size:26
Alignment explanation
Indices: 87962257--87962364 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
87962247 TGATACAAAT
87962257 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
87962283 TGATAATGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
87962309 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87962335 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87962361 TGAT
1 TGAT
87962365 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87966211 original size:46 final size:46
Alignment explanation
Indices: 87966150--87966319 Score: 137
Period size: 46 Copynumber: 3.7 Consensus size: 46
87966140 CTCTTAGCCG
* * * * *
87966150 ATGCGTGTCCAAGACACGTCTTACACTGGCTATGATAGTATGGCTA
1 ATGCATGTCCCAGACACGTCTTACACTGGCTCTCATAGTATGGCCA
** * * * * *
87966196 ATGCATGTCCCAGACATTTCTTACACTAGCCCTCACTTGGAT-GCCG
1 ATGCATGTCCCAGACACGTCTTACACTGGCTCTCA-TAGTATGGCCA
* * * * *
87966242 ATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCCCGA
1 ATG-CATGTCCCAGACA-CGTCTTACACTGGCTCTCATAGTATGGCC-A
87966291 A-GCATGTCCCAGACACGTCTTACACTGGC
1 ATGCATGTCCCAGACACGTCTTACACTGGC
87966320 GCACAAATCA
Statistics
Matches: 94, Mismatches: 25, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
46 45 0.48
47 30 0.32
48 18 0.19
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (46 bp):
ATGCATGTCCCAGACACGTCTTACACTGGCTCTCATAGTATGGCCA
Found at i:87966296 original size:94 final size:91
Alignment explanation
Indices: 87966055--87966316 Score: 233
Period size: 94 Copynumber: 2.8 Consensus size: 91
87966045 ATATATTACT
* * * * * *
87966055 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATACGCTTTCTGATGCATGTCCTAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATG--TGCCGAAGCATGTCCCAGA
* *
87966120 CATGTCTTGCACTAGCACAACTCTTAGCC
63 CATGTCTTACACTAGCACAACTCTGAGCC
* * * * * * * * *
87966149 GATG-CGTGTCCAAGACA-CGTCTTACACTGGCTATGATAGTATGGCTAATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCCGAA-GCATGTCCCAGACA
* * *
87966212 TTTCTTACACTAGCCCTCACT-TGGATGCC
65 TGTCTTACACTAGCAC-AACTCT-GA-GCC
*
87966241 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCCCGAAGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG-CCGAAGCATGTCCCAGACA
*
87966306 CGTCTTACACT
65 TGTCTTACACT
87966317 GGCGCACAAA
Statistics
Matches: 129, Mismatches: 32, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
89 2 0.02
90 27 0.21
91 4 0.03
92 24 0.19
93 21 0.16
94 48 0.37
95 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (91 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCCGAAGCATGTCCCAGACAT
GTCTTACACTAGCACAACTCTGAGCC
Found at i:87977926 original size:21 final size:18
Alignment explanation
Indices: 87977900--87977941 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 18
87977890 ACGATTCTAG
87977900 TTAAAATTCAATTTTGTCAAT
1 TTAAAATTC-ATTTT-TC-AT
87977921 TTAAAATTCATTTTTCAT
1 TTAAAATTCATTTTTCAT
87977939 TTA
1 TTA
87977942 GATTGGAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 2 0.10
20 5 0.24
21 9 0.43
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (18 bp):
TTAAAATTCATTTTTCAT
Found at i:87986992 original size:6 final size:6
Alignment explanation
Indices: 87986962--87987104 Score: 105
Period size: 6 Copynumber: 23.3 Consensus size: 6
87986952 AAGAAACATT
* * * *
87986962 ATCAGA A-CTAGA ATCAAA ATAAGA ATCAGA ATCAGA ATTCGGTG AT-AGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA
* * *
87987011 ATCAGA ATCAGA ATCAGA ATCAGA ATCAAA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
87987060 ATTAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
87987105 GTGAATGCAA
Statistics
Matches: 106, Mismatches: 20, Indels: 22
0.72 0.14 0.15
Matches are distributed among these distances:
5 6 0.06
6 87 0.82
7 10 0.09
8 3 0.03
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:87987076 original size:49 final size:49
Alignment explanation
Indices: 87986962--87987082 Score: 163
Period size: 49 Copynumber: 2.5 Consensus size: 49
87986952 AAGAAACATT
* * * * *
87986962 ATCAGAA-CTAGAATCAAAATAAGAATCAGAATCAGAATTCGGTGATAGA
1 ATCAGAATC-AGAATCAGAATCAGAATCAAAATCAGAATTAGGTGACAGA
87987011 ATCAGAATCAGAATCAGAATCAGAATCAAAATCAGAATTAGGTGACAGA
1 ATCAGAATCAGAATCAGAATCAGAATCAAAATCAGAATTAGGTGACAGA
* *
87987060 ATTAGAATCAGAATCAGTATCAG
1 ATCAGAATCAGAATCAGAATCAG
87987083 GTAACAGAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
49 63 0.98
50 1 0.02
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (49 bp):
ATCAGAATCAGAATCAGAATCAGAATCAAAATCAGAATTAGGTGACAGA
Found at i:87987101 original size:31 final size:31
Alignment explanation
Indices: 87987008--87987104 Score: 117
Period size: 31 Copynumber: 3.2 Consensus size: 31
87986998 ATTCGGTGAT
87987008 AGAATCAGAATCA-G-AATCAGAATCAGAATC
1 AGAATCAGAATCAGGTAA-CAGAATCAGAATC
* * * *
87987038 AAAATCAGAATTAGGTGACAGAATTAGAATC
1 AGAATCAGAATCAGGTAACAGAATCAGAATC
* *
87987069 AGAATCAGTATCAGGTAACAGAATCAAAATC
1 AGAATCAGAATCAGGTAACAGAATCAGAATC
87987100 AGAAT
1 AGAAT
87987105 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
30 11 0.20
31 43 0.78
32 1 0.02
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGGTAACAGAATCAGAATC
Found at i:87987271 original size:27 final size:26
Alignment explanation
Indices: 87987223--87987282 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
87987213 GCAAAGCTGC
* *
87987223 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
87987250 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
87987276 CAGATAT
1 CAGATAT
87987283 ATATATGTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:87987327 original size:71 final size:67
Alignment explanation
Indices: 87987250--87987389 Score: 165
Period size: 67 Copynumber: 2.0 Consensus size: 67
87987240 TCACCAGATA
* * *
87987250 CAGATATTGTGGCTAGGCCACCAAAACAGATATATATATGTGGCGAAGCCA-TCAGATTGCAGCG
1 CAGATATTGTGACGAAGCCACCAAAACAG----ATATATGTGGCGAAGCCACT-AGATTGCAGCG
87987314 AAGCTGC
61 AAGCTGC
* * * *
87987321 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACTAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACTAGATTGCAGCGAAGCT
87987386 GC
66 GC
87987388 CA
1 CA
87987390 AAACGCTTCC
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
67 36 0.59
68 1 0.02
71 24 0.39
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACTAGATTGCAGCGAAGCT
GC
Found at i:87987667 original size:27 final size:27
Alignment explanation
Indices: 87987635--87987866 Score: 284
Period size: 27 Copynumber: 8.6 Consensus size: 27
87987625 TACTGCACAA
* * *
87987635 GGGTATCTCGGTAATTCTACCTTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
87987662 GAGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
87987689 GGGTATTTTGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
87987716 GGGTATTTCGATAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
**
87987743 GGGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
87987770 GGGTATTTCGGTATTTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * *
87987797 GGGCATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* * * *
87987824 GGGCATTTCGGCATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
87987851 AGGTATTTCGGTAATT
1 GGGTATTTCGGTAATT
87987867 TTATAAATTG
Statistics
Matches: 178, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 178 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:87987749 original size:81 final size:81
Alignment explanation
Indices: 87987631--87987863 Score: 313
Period size: 81 Copynumber: 2.9 Consensus size: 81
87987621 ATTTTACTGC
* * * *
87987631 ACAAGGGTATCTCGGTAATTCTACCTTATAGGAGTATTTCAGTAATTCTACCCTACAGGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
*
87987696 TTGGTATTTCTACCCT
66 TCGGTATTTCTACCCT
* *
87987712 ACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
87987777 TCGGTATTTCTACCCT
66 TCGGTATTTCTACCCT
* * * * * * * * **
87987793 ACAGGGGCATTTCGGTATTTCTACCCTACAAGGGCATTTCGGCATTTCTACCCTACAAAGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
87987858 TCGGTA
66 TCGGTA
87987864 ATTTTATAAA
Statistics
Matches: 133, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 133 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (81 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATT
TCGGTATTTCTACCCT
Found at i:87987934 original size:27 final size:27
Alignment explanation
Indices: 87987898--87988164 Score: 250
Period size: 27 Copynumber: 9.9 Consensus size: 27
87987888 GCAATTCTGT
*
87987898 AAATCAAGGGTACTTTGGTAATTTTAC
1 AAATCAAGGGTATTTTGGTAATTTTAC
* * ** * *
87987925 AAGTCGAGGGTATTTCAGTAATTTCAA
1 AAATCAAGGGTATTTTGGTAATTTTAC
* * **
87987952 AAATTAGGGGTATTTTAATAATTTTAC
1 AAATCAAGGGTATTTTGGTAATTTTAC
*
87987979 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAATCAAGGGTATTTTGGTAATTTTAC
* * *
87988006 AAAT-TAGAGGTATTTTGATAATTTTAT
1 AAATCAAG-GGTATTTTGGTAATTTTAC
* * **
87988033 AAACCAGGGGTATTTTGGTAATTTTGT
1 AAATCAAGGGTATTTTGGTAATTTTAC
*
87988060 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAATCAAGGGTATTTTGGTAATTTTAC
* * * *
87988087 AAACCAGGGGTATTTTGGTGATTTTAT
1 AAATCAAGGGTATTTTGGTAATTTTAC
**
87988114 AAA-CTAAGGGTATTTTATTAATTTTAC
1 AAATC-AAGGGTATTTTGGTAATTTTAC
* *
87988141 AAACCAGGGGTATTTTGGTAATTT
1 AAATCAAGGGTATTTTGGTAATTT
87988165 GGTAAACTAA
Statistics
Matches: 193, Mismatches: 43, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
26 3 0.02
27 188 0.97
28 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
AAATCAAGGGTATTTTGGTAATTTTAC
Found at i:87987987 original size:81 final size:79
Alignment explanation
Indices: 87987902--87988164 Score: 294
Period size: 81 Copynumber: 3.3 Consensus size: 79
87987892 TTCTGTAAAT
* * * * *
87987902 CAAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCAAAAATTAGGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAA-TCCAGGGTATTT-AGTAATTTTATAAACTAGGGGTATTT
87987967 TAATAATTTTACAAAC
64 TAATAATTTTACAAAC
* * *
87987983 CAAGGGTATTTTGGTAATTTTACAAAT-TAGAGGTATTTTGATAATTTTATAAACCAGGGGTATT
1 CAAGGGTATTTTGGTAATTTTAC-AATCCAG-GGTATTTAG-TAATTTTATAAACTAGGGGTATT
** **
87988047 TTGGTAATTTTGTAAAC
63 TTAATAATTTTACAAAC
* * * *
87988064 CAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACTAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAATCCA-GGGTA-TTTAGTAATTTTATAAACTAGGGGTATTT
*
87988129 TATTAATTTTACAAAC
64 TAATAATTTTACAAAC
*
87988145 CAGGGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
87988165 GGTAAACTAA
Statistics
Matches: 154, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
80 5 0.03
81 142 0.92
82 7 0.05
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (79 bp):
CAAGGGTATTTTGGTAATTTTACAATCCAGGGTATTTAGTAATTTTATAAACTAGGGGTATTTTA
ATAATTTTACAAAC
Found at i:87988171 original size:27 final size:27
Alignment explanation
Indices: 87987957--87988164 Score: 254
Period size: 27 Copynumber: 7.7 Consensus size: 27
87987947 TTCAAAAATT
** *
87987957 AGGGGTATTTTAATAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
* * **
87987984 AAGGGTATTTTGGTAATTTTACAAATT
1 AGGGGTATTTTGGTAATTTTATAAACC
* *
87988011 AGAGGTATTTTGATAATTTTATAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
*
87988038 AGGGGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
* *
87988065 AAGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
* *
87988092 AGGGGTATTTTGGTGATTTTATAAACT
1 AGGGGTATTTTGGTAATTTTATAAACC
* ** *
87988119 AAGGGTATTTTATTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTATAAACC
87988146 AGGGGTATTTTGGTAATTT
1 AGGGGTATTTTGGTAATTT
87988165 GGTAAACTAA
Statistics
Matches: 151, Mismatches: 30, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 151 1.00
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTATAAACC
Found at i:87988171 original size:54 final size:53
Alignment explanation
Indices: 87987959--87988174 Score: 290
Period size: 54 Copynumber: 4.0 Consensus size: 53
87987949 CAAAAATTAG
* ** *
87987959 GGGTATTTTAATAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAA-TTA
1 GGGTATTTT-ATAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAA
* *
87988012 GAGGTATTTTGATAATTTTATAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 G-GGTATTTT-ATAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAA
* * *
87988067 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTT-ATAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAA
*
87988121 GGGTATTTTATTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAACTAA
1 GGGTATTTTA-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAA
87988175 AGTATTCTAA
Statistics
Matches: 144, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
53 1 0.01
54 141 0.98
55 2 0.01
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.41
Consensus pattern (53 bp):
GGGTATTTTATAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACTAA
Found at i:87990171 original size:6 final size:6
Alignment explanation
Indices: 87990141--87990249 Score: 71
Period size: 6 Copynumber: 17.8 Consensus size: 6
87990131 ACGAAACATT
* * * *
87990141 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTCGGTG A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA
* * * *
87990190 ATCAGA ATCAGA ATCAGA ATCAAA ATTAG- GTGACAGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
*
87990239 ATCAGT ATCAG
1 ATCAGA ATCAG
87990250 GTAACGGAAT
Statistics
Matches: 78, Mismatches: 17, Indels: 16
0.70 0.15 0.14
Matches are distributed among these distances:
5 3 0.04
6 67 0.86
7 6 0.08
8 2 0.03
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:87990203 original size:37 final size:37
Alignment explanation
Indices: 87990150--87990249 Score: 146
Period size: 37 Copynumber: 2.7 Consensus size: 37
87990140 TATCAGAACT
* * *
87990150 AGAATCAAAATGAGAATCAGAATCAGAATTCGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
*
87990187 AGAATCAGAATCAGAATCAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
* *
87990224 AGAATTAGAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGAATCAGAATCAG
87990250 GTAACGGAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
Found at i:87990267 original size:37 final size:35
Alignment explanation
Indices: 87990151--87990271 Score: 99
Period size: 37 Copynumber: 3.5 Consensus size: 35
87990141 ATCAGAACTA
*
87990151 GAATCAAAATGAGAATCAGAATCAGAATTC-GGTGAC
1 GAATCAAAATTAGAATCAGAATCAGAA-TCAGGT-AC
* * * *
87990187 AGAATCAGAATCAGAATCAGAATCAAAATTAGGT--
1 -GAATCAAAATTAGAATCAGAATCAGAATCAGGTAC
* *
87990221 G-A-CAGAATTAGAATCAGAATCAGTATCAGGTAAC
1 GAATCAAAATTAGAATCAGAATCAGAATCAGGT-AC
87990255 GGAATCAAAATTAGAAT
1 -GAATCAAAATTAGAAT
87990272 GTGAATGCAA
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
31 25 0.37
32 1 0.01
33 1 0.01
35 1 0.01
36 2 0.03
37 38 0.56
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (35 bp):
GAATCAAAATTAGAATCAGAATCAGAATCAGGTAC
Found at i:87990438 original size:27 final size:26
Alignment explanation
Indices: 87990390--87990470 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 26
87990380 GCGAGGCTGC
* *
87990390 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCA-AAA
* * *
87990417 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTGACGAAGCCACCAAAA
*
87990443 CAGATATATATGTGGCGAAGCCACCAAA
1 CAG--ATAT-TGTGACGAAGCCACCAAA
87990471 TTGCAGCGAG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 5 0.11
27 19 0.43
28 4 0.09
29 16 0.36
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:87990508 original size:69 final size:67
Alignment explanation
Indices: 87990417--87990548 Score: 183
Period size: 67 Copynumber: 1.9 Consensus size: 67
87990407 TCACCAGATA
* * *
87990417 CAGATATTGTGGCTAGGCCACCAAAACAGATATATATGTGGCGAAGCCACCAAATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACCAAAACAG--ATATATGTGGCGAAGCCACCAAATTGCAGCGAGG
87990482 CTGC
64 CTGC
* * * *
87990486 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGG
1 CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACCAAATTGCAGCGAGG
87990549 TTTCCAGAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 32 0.57
69 24 0.43
ACGTcount: A:0.32, C:0.22, G:0.28, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACCAAATTGCAGCGAGGCT
GC
Found at i:87990534 original size:27 final size:26
Alignment explanation
Indices: 87990486--87990537 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
87990476 GCGAGGCTGC
*
87990486 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
87990512 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
87990538 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:87990812 original size:27 final size:27
Alignment explanation
Indices: 87990782--87991033 Score: 248
Period size: 27 Copynumber: 9.3 Consensus size: 27
87990772 GGGGTAAAAT
* *
87990782 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
87990809 GGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
* * *
87990836 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
87990863 GGT-ATTTCTACCCCACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
87990890 GGTAATTCTACCCTAC-AGGAGTATTTT
1 GGTAATTTTACCCTACAAGG-GTATTTC
* * *
87990917 AGTAATTCTACCCTAC-AGCGGTATTTT
1 GGTAATTTTACCCTACAAG-GGTATTTC
*
87990944 GGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
87990971 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
87990998 GG-CATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
87991025 GATAATTTT
1 GGTAATTTT
87991034 GTAAATTGAG
Statistics
Matches: 193, Mismatches: 22, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
26 12 0.06
27 170 0.88
28 11 0.06
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:87990848 original size:54 final size:54
Alignment explanation
Indices: 87990782--87991031 Score: 299
Period size: 54 Copynumber: 4.6 Consensus size: 54
87990772 GGGGTAAAAT
* * * *
87990782 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGG-GTATTTC
* * * *
87990836 AGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCCACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
** *
87990890 GGTAATTCTACCCTAC-AGGAGTATTTTAGTAATTCTACCCTAC-AGCGGTATTTT
1 GGTAATTCTACCCTACAAGG-GTATTTCGGTAATTCTACCCTACAAG-GGTATTTC
* * *
87990944 GGTATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
* * *
87990998 GGCATTTCTACCCTACAAGGGTATTTCGATAATT
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATT
87991032 TTGTAAATTG
Statistics
Matches: 166, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
53 4 0.02
54 155 0.93
55 7 0.04
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTC
Found at i:87990907 original size:81 final size:81
Alignment explanation
Indices: 87990786--87991025 Score: 349
Period size: 81 Copynumber: 3.0 Consensus size: 81
87990776 TAAAATGGTA
* *
87990786 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCT
87990850 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
*
87990866 ATTTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCT
* *
87990931 ACAGCGGTATTTTGGT
66 ACAGGGGTATTTCGGT
* * * * * *
87990947 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGG-GTATTTCGGCATTTCTACCC
1 ATTTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTAC-AGGAGTATTTCAGTAATTCTACCC
*
87991011 TACAAGGGTATTTCG
65 TACAGGGGTATTTCG
87991026 ATAATTTTGT
Statistics
Matches: 143, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
80 4 0.03
81 136 0.95
82 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (81 bp):
ATTTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:87991111 original size:27 final size:28
Alignment explanation
Indices: 87991081--87991250 Score: 127
Period size: 27 Copynumber: 6.3 Consensus size: 28
87991071 GGTACTTTGG
*
87991081 TAATTTTACAAGTCGA-GGGTATTTCAA
1 TAATTTTACAAGTCGAGGGGTATTTTAA
* *
87991108 TAATTTTACAGGTCGA-GGGTATTTTAG
1 TAATTTTACAAGTCGAGGGGTATTTTAA
* * **
87991135 TAATTTCACAAATC-AGGGGTATTTTGG
1 TAATTTTACAAGTCGAGGGGTATTTTAA
* * * *
87991162 TAATTTTACAA-ACTATGGGTATTTTGA
1 TAATTTTACAAGTCGAGGGGTATTTTAA
* * **
87991189 TAATTTTACAA-ACTAGGGGTATTTTGG
1 TAATTTTACAAGTCGAGGGGTATTTTAA
* * **
87991216 TAATTTTACAAAT-TAGGGGTATTTTGG
1 TAATTTTACAAGTCGAGGGGTATTTTAA
87991243 TAATTTTA
1 TAATTTTA
87991251 TAAACTAGGG
Statistics
Matches: 126, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.02
27 124 0.98
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.42
Consensus pattern (28 bp):
TAATTTTACAAGTCGAGGGGTATTTTAA
Found at i:87991161 original size:81 final size:81
Alignment explanation
Indices: 87991071--87991383 Score: 272
Period size: 81 Copynumber: 3.9 Consensus size: 81
87991061 GTAAATCAAA
* * **
87991071 GGTACTTTGGTAATTTTACAAGTCGA-GGGTATTTCAATAATTTTACAGGTCGA-GGGTATTTTA
1 GGTATTTTGGTAATTTTACAA-ACGATGGGTATTTCAATAATTTTACA-AACGAGGGGTATTTTA
87991134 GTAATTTCACAAATCAGG
64 GTAATTTCACAAATCAGG
* ** * *
87991152 GGTATTTTGGTAATTTTACAAACTATGGGTATTTTGATAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACGATGGGTATTTCAATAATTTTACAAACGAGGGGTATTTTAGT
* *
87991217 AATTTTACAAATTAGG
66 AATTTCACAAATCAGG
* * * * ** ** * * *
87991233 GGTATTTTGGTAATTTTATAAACTAGGGGTACATT-GGTAATTTTGTAAACCAAGGGTATTTTGG
1 GGTATTTTGGTAATTTTACAAACGATGGGTA-TTTCAATAATTTTACAAACGAGGGGTATTTTAG
* *
87991297 TAATTTTACAAACCAGG
65 TAATTTCACAAATCAGG
* * * * * * * * * *
87991314 GGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTACTTTTACAAACCAAGGGTATTTTGGT
1 GGTATTTTGGTAATTTTACAAACGATGGGTATTTCAATAATTTTACAAACGAGGGGTATTTTAGT
87991379 AATTT
66 AATTT
87991384 GGTAAACTAA
Statistics
Matches: 199, Mismatches: 29, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
80 6 0.03
81 191 0.96
82 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACGATGGGTATTTCAATAATTTTACAAACGAGGGGTATTTTAGT
AATTTCACAAATCAGG
Found at i:87991390 original size:27 final size:27
Alignment explanation
Indices: 87991124--87991383 Score: 322
Period size: 27 Copynumber: 9.6 Consensus size: 27
87991114 TACAGGTCGA
* * *
87991124 GGGTATTTTAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
87991151 GGGTATTTTGGTAATTTTACAAACTAT
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
87991178 GGGTATTTTGATAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
**
87991205 GGGTATTTTGGTAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
87991232 GGGTATTTTGGTAATTTTATAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** ** *
87991259 GGGTACATTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
87991286 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
87991313 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
87991340 GGGTATTTTAGTACTTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
87991367 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
87991384 GGTAAACTAA
Statistics
Matches: 203, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 203 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Done.