Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 207 of 318
Found at i:65509388 original size:32 final size:32
Alignment explanation
Indices: 65509347--65509415 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
65509337 TATTAAAAGC
*
65509347 TGGATCTAGCATTCTTTTGATGTTATTTAACA
1 TGGATCTAGCATTCTTTTGATGATATTTAACA
65509379 TGGATCTAGCATTCTTTTGATGATATTTAACA
1 TGGATCTAGCATTCTTTTGATGATATTTAACA
65509411 TGGAT
1 TGGAT
65509416 TTTTATGAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (32 bp):
TGGATCTAGCATTCTTTTGATGATATTTAACA
Found at i:65515017 original size:10 final size:10
Alignment explanation
Indices: 65514999--65515030 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
65514989 AACTTTAAAC
*
65514999 AGTCAAAAAT
1 AGTCCAAAAT
65515009 AGTCCAAAAT
1 AGTCCAAAAT
65515019 AGTCCAAAAT
1 AGTCCAAAAT
65515029 AG
1 AG
65515031 AATAAACCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (10 bp):
AGTCCAAAAT
Found at i:65527391 original size:26 final size:26
Alignment explanation
Indices: 65527362--65527469 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
65527352 TGGTACAAAT
65527362 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
65527388 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65527414 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
65527440 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65527466 TGAT
1 TGAT
65527470 GGGCATTTCA
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:65538059 original size:47 final size:48
Alignment explanation
Indices: 65537908--65538118 Score: 191
Period size: 48 Copynumber: 4.4 Consensus size: 48
65537898 GGGTGTTACA
* * * * **
65537908 ATGGCCCGAAGCCAACTC-AA-TAAATCTCGTACCCAAAGTGCTAATATC
1 ATGGCCCGAAGCCAAATCAAAGT-AA-CTAGCACCCGAAGTGCCGATATC
* * * * *
65537956 ATGGCCCGTAGCCAAATC--AGTGAAGCTCGCAGCTGAAGTGTCGATATC
1 ATGGCCCGAAGCCAAATCAAAGT-AA-CTAGCACCCGAAGTGCCGATATC
* *
65538004 ATTGCCCGAAGCAAAATCAAAGTAACTAGCACCCGAAGTG-CGATATC
1 ATGGCCCGAAGCCAAATCAAAGTAACTAGCACCCGAAGTGCCGATATC
* *
65538051 -TAGGCCCGAAGCCAAATCAAAGTAACTCGCACCCAAAGTGCCGATATC
1 AT-GGCCCGAAGCCAAATCAAAGTAACTAGCACCCGAAGTGCCGATATC
*
65538099 ATGGCCAGAAGCCAAATCAA
1 ATGGCCCGAAGCCAAATCAA
65538119 TATATCCCCT
Statistics
Matches: 135, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
46 1 0.01
47 42 0.31
48 86 0.64
49 3 0.02
50 3 0.02
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (48 bp):
ATGGCCCGAAGCCAAATCAAAGTAACTAGCACCCGAAGTGCCGATATC
Found at i:65542541 original size:26 final size:26
Alignment explanation
Indices: 65542512--65542567 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
65542502 TGGTACAAAT
65542512 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
65542538 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65542564 TGAT
1 TGAT
65542568 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:65551731 original size:45 final size:45
Alignment explanation
Indices: 65551682--65551771 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
65551672 ATTAATAGGT
65551682 ATAAACATACAATTCAAACTTAATAATAGAATATAGAAAGTTCCA
1 ATAAACATACAATTCAAACTTAATAATAGAATATAGAAAGTTCCA
* *
65551727 ATAAACATACAATTCAAACTTAATTATAGAATATAGTAAGTTCCA
1 ATAAACATACAATTCAAACTTAATAATAGAATATAGAAAGTTCCA
65551772 TATGACTTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.51, C:0.13, G:0.07, T:0.29
Consensus pattern (45 bp):
ATAAACATACAATTCAAACTTAATAATAGAATATAGAAAGTTCCA
Found at i:65554351 original size:51 final size:50
Alignment explanation
Indices: 65554265--65554363 Score: 135
Period size: 51 Copynumber: 2.0 Consensus size: 50
65554255 CTACCTCATA
* * * *
65554265 ACATGTATACATCCATAATGAACTCGGACCTCTCAACGAGCTTGGATGTT
1 ACATGAATACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGTT
* *
65554315 ACATGAATCACATCCATTATGAATTCAGACCACTCAACGAGCTCGGATG
1 ACATGAAT-ACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATG
65554364 CTCGCATCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 7 0.17
51 35 0.83
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (50 bp):
ACATGAATACATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGTT
Found at i:65554394 original size:43 final size:43
Alignment explanation
Indices: 65554322--65554490 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 43
65554312 GTTACATGAA
* * * * *
65554322 TCACATCCATTATGAATTCAGACCACTCAACGAGCTCGGATGC
1 TCACATACATCATGAACTCGGACCACTCAACGAGCTCAGATGC
* * * * * *
65554365 TCGCATCCATAATGAACTCGGACCTCTCAATGAGTTCAGATGC
1 TCACATACATCATGAACTCGGACCACTCAACGAGCTCAGATGC
* * * * *
65554408 -CACATAGATCATGAACTTGAACCACTCAACGAGTTCAGATTC
1 TCACATACATCATGAACTCGGACCACTCAACGAGCTCAGATGC
* * * *
65554450 TCACATATATCACGAACTCGGACCGCTCAACGAGCTTAGAT
1 TCACATACATCATGAACTCGGACCACTCAACGAGCTCAGAT
65554491 TTTTAAATTC
Statistics
Matches: 101, Mismatches: 24, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
42 33 0.33
43 68 0.67
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
TCACATACATCATGAACTCGGACCACTCAACGAGCTCAGATGC
Found at i:65555645 original size:16 final size:16
Alignment explanation
Indices: 65555624--65555674 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
65555614 CCTTTTGTTT
65555624 TAATATTTTTAACATA
1 TAATATTTTTAACATA
* * *
65555640 TAATATTATTAATTAAA
1 TAATATTTTTAA-CATA
*
65555657 TAA-AATTTTAACATA
1 TAATATTTTTAACATA
65555672 TAA
1 TAA
65555675 AATCTTTATA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
15 5 0.19
16 17 0.63
17 5 0.19
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATATTTTTAACATA
Found at i:65564694 original size:129 final size:129
Alignment explanation
Indices: 65564377--65564703 Score: 370
Period size: 129 Copynumber: 2.5 Consensus size: 129
65564367 AAAATTCTTC
* *
65564377 AAAACGAAGACGAAATTTGATGTTCGGCGATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * *
65564442 TTTCGTATTTGCTCAAAATAATCAATTTCCCTTCGAAATTTCTTTCATATCTTTTAAAATCCCT
66 TTTCGCATTTGCTCAAAATAATCAATATCACTTCAAAATTTCTCTCATATCTTTTAAAATCCCT
* * * * * *
65564506 TAAATGAAGATGAGATTTGATGTTTGGCAATTCGCGAAATTGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * * * * *
65564571 TTTTGCATTTGTTCAAAATAATCTAATATCATTTTAAAATTT-TGCTCGTGTCTTTTAAAATCTC
66 TTTCGCATTTGCTCAAAATAATC-AATATCACTTCAAAATTTCT-CTCATATCTTTTAAAATCCC
65564635 T
129 T
* * * * * * * *
65564636 AAAACGAAGGCGATATGTGATATTTGGCAATTCGTGGGATCGTGCCCTAACATG-TGGGTAGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
65564700 TTTC
66 TTTC
65564704 CCGATTGTTT
Statistics
Matches: 162, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
129 90 0.56
130 72 0.44
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (129 bp):
AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
TTTCGCATTTGCTCAAAATAATCAATATCACTTCAAAATTTCTCTCATATCTTTTAAAATCCCT
Found at i:65566021 original size:37 final size:37
Alignment explanation
Indices: 65565962--65566107 Score: 256
Period size: 37 Copynumber: 3.9 Consensus size: 37
65565952 AGCTCAGACG
* * *
65565962 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
65565999 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65566036 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
65566073 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
65566108 ATATATTTCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:65566304 original size:46 final size:46
Alignment explanation
Indices: 65566251--65566341 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
65566241 TATATATACA
* * *
65566251 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
65566297 CATCTCATACACGTTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATAT
65566342 ATTCATGTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.26, C:0.32, G:0.09, T:0.33
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:65566377 original size:47 final size:47
Alignment explanation
Indices: 65566315--65566850 Score: 685
Period size: 47 Copynumber: 11.1 Consensus size: 47
65566305 ACACGTTTCG
* * * **
65566315 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** * *
65566362 TATTGGCCATTCGGCCTTATTTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
65566409 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
65566456 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
65566503 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
* ** *
65566556 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
65566609 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
65566656 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* * *
65566707 CATTGGCCATTCGACATTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
65566754 CATTGGCCATTCGGTCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
65566801 CACTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
65566848 CAT
1 CAT
65566851 AAAATCCTAA
Statistics
Matches: 443, Mismatches: 36, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
47 304 0.69
49 1 0.00
51 43 0.10
53 95 0.21
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:65566801 original size:25 final size:25
Alignment explanation
Indices: 65566772--65566849 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
65566762 ATTCGGTCTT
65566772 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
* * *
65566797 ATCACAC-T-GGCCA--TTCGGCCTT-
1 ATCACACATACG-CATGTTC-ACATTC
*
65566819 ATCACACATACGCATGTTCACATCC
1 ATCACACATACGCATGTTCACATTC
65566844 ATCACA
1 ATCACA
65566850 TAAAATCCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
22 10 0.26
23 7 0.18
24 6 0.15
25 16 0.41
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.26
Consensus pattern (25 bp):
ATCACACATACGCATGTTCACATTC
Found at i:65569834 original size:40 final size:40
Alignment explanation
Indices: 65569776--65569981 Score: 313
Period size: 40 Copynumber: 5.2 Consensus size: 40
65569766 CTGAATACAC
* * * * *
65569776 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATAT
* *
65569816 AACACCAGCACGAATGCTCCTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATAT
65569856 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATAT
* *
65569896 ATCAATAGCACGAATGCTCCGCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATAT
* *
65569936 ATCACTAGCACGAATGCTCTTCAGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATAT
65569976 ATCACT
1 ATCACT
65569982 CTCAATTCTC
Statistics
Matches: 153, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 153 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATAT
Found at i:65571292 original size:37 final size:37
Alignment explanation
Indices: 65571233--65571378 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
65571223 AGCTCAGACG
* * *
65571233 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65571270 AAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65571307 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
65571344 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
65571379 ATATATTTCC
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:65571590 original size:46 final size:46
Alignment explanation
Indices: 65571522--65571612 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
65571512 TATATATACA
* *
65571522 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTTGGCCTTACCACATATC
* * *
65571568 CATCTCATACACGTTTCGCATTAGCCATTTGGCCTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTTGGCCTTACCACATAT
65571613 ATTCATGTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTTGGCCTTACCACATATC
Found at i:65571649 original size:47 final size:47
Alignment explanation
Indices: 65571586--65572068 Score: 687
Period size: 47 Copynumber: 10.1 Consensus size: 47
65571576 ACACGTTTCG
* * * * **
65571586 CATTAGCCATTTGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
65571633 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
65571680 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
65571727 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
65571774 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
65571827 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
65571874 CATTGGCCATTCGACCTTATCACACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACAC----ATACGCATGTTCACATTCATCA
* *
65571925 CATTGGCCATTCGGCATTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
65571972 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* *
65572019 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
65572066 CAT
1 CAT
65572069 AAAATCCTAA
Statistics
Matches: 396, Mismatches: 30, Indels: 20
0.89 0.07 0.04
Matches are distributed among these distances:
47 310 0.78
49 1 0.00
51 43 0.11
53 42 0.11
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:65572024 original size:245 final size:241
Alignment explanation
Indices: 65571586--65572046 Score: 769
Period size: 245 Copynumber: 1.9 Consensus size: 241
65571576 ACACGTTTCG
* * ** *
65571586 CATTAGCCATTTGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTT
* * * *
65571651 ATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTT
66 ATCACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCATTATCACACATACGCATGTT
*
65571716 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
131 CACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
*
65571781 CATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
196 CATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCA
* *
65571827 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTT
1 CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTT
65571892 ATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCATTATCACACATACGCA
66 AT--CAC--ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCATTATCACACATACGCA
65571957 TGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
127 TGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
65572022 TGGCCATTCGGCCTTATCACACATA
192 TGGCCATTCGGCCTTATCACACATA
65572047 CACATGTTCA
Statistics
Matches: 203, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
241 60 0.30
243 2 0.01
245 141 0.69
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (241 bp):
CATTAGCCATTCGGCCTTACCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTT
ATCACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCATTATCACACATACGCATGTT
CACATCCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGC
CATTCGGCCTTATCACACATATATATATACAGGTTCACATTCATCA
Found at i:65575594 original size:16 final size:18
Alignment explanation
Indices: 65575573--65575606 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
65575563 TGAGGTGTAT
65575573 AAGAAG-AAGGA-AAGAC
1 AAGAAGTAAGGATAAGAC
65575589 AAGAAGTAAGGATAAGAC
1 AAGAAGTAAGGATAAGAC
65575607 TTGTTGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.59, C:0.06, G:0.29, T:0.06
Consensus pattern (18 bp):
AAGAAGTAAGGATAAGAC
Found at i:65582706 original size:24 final size:24
Alignment explanation
Indices: 65582669--65582724 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
65582659 TATATATACC
65582669 AATTCAATCAATA-TAAATTCAATA
1 AATTCAATCAATATTAAA-TCAATA
*
65582693 AATTC-ATCACATATTAAATCAATC
1 AATTCAATCA-ATATTAAATCAATA
*
65582717 ATTTCAAT
1 AATTCAAT
65582725 TGAAAAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 4 0.15
24 17 0.63
25 6 0.22
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (24 bp):
AATTCAATCAATATTAAATCAATA
Found at i:65583356 original size:15 final size:16
Alignment explanation
Indices: 65583336--65583371 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
65583326 AACCCTAACT
65583336 TTTCTCTTTTT-TTTC
1 TTTCTCTTTTTCTTTC
65583351 TTTCTCTTTTTCTTTC
1 TTTCTCTTTTTCTTTC
65583367 TTTCT
1 TTTCT
65583372 TTTCCCCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTCTCTTTTTCTTTC
Found at i:65583361 original size:16 final size:15
Alignment explanation
Indices: 65583336--65583371 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
65583326 AACCCTAACT
*
65583336 TTTCTCTTTTTTTTC
1 TTTCTCTTTTCTTTC
65583351 TTTCTCTTTTTCTTTC
1 TTTCTC-TTTTCTTTC
65583367 TTTCT
1 TTTCT
65583372 TTTCCCCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTCTTTTCTTTC
Found at i:65588347 original size:24 final size:24
Alignment explanation
Indices: 65588310--65588356 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
65588300 TATATATACC
65588310 AATTCAATCAATA-TAAATTCAATA
1 AATTCAATCAATATTAAA-TCAATA
65588334 AATTC-ATCACATATTAAATCAAT
1 AATTCAATCA-ATATTAAATCAAT
65588357 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTCAATCAATATTAAATCAATA
Found at i:65589203 original size:19 final size:20
Alignment explanation
Indices: 65589160--65589198 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
65589150 ATTAATAAGC
65589160 AATACATAT-TTTATTATTA
1 AATACATATGTTTATTATTA
65589179 AATACATATGTTTATTATTA
1 AATACATATGTTTATTATTA
65589199 TTACACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (20 bp):
AATACATATGTTTATTATTA
Found at i:65590497 original size:23 final size:23
Alignment explanation
Indices: 65590467--65590570 Score: 122
Period size: 22 Copynumber: 4.6 Consensus size: 23
65590457 CGATAAGATC
* *
65590467 TATTCTATAATGACTTTGTGGCA
1 TATTCTATAATGCCTTCGTGGCA
* *
65590490 TATTCTATGATGCCTTCGTGGAA
1 TATTCTATAATGCCTTCGTGGCA
*
65590513 TATT-TGTAATGCCTTCGTGGCA
1 TATTCTATAATGCCTTCGTGGCA
* *
65590535 TA-TCTATGATGCCTTTGTGGCA
1 TATTCTATAATGCCTTCGTGGCA
*
65590557 TATTCTGTAATGCC
1 TATTCTATAATGCC
65590571 CTCGAGGAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
21 1 0.01
22 34 0.51
23 32 0.48
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.41
Consensus pattern (23 bp):
TATTCTATAATGCCTTCGTGGCA
Found at i:65590527 original size:22 final size:22
Alignment explanation
Indices: 65590499--65590579 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
65590489 ATATTCTATG
65590499 ATGCCTTCGTGGAATATTTGTA
1 ATGCCTTCGTGGAATATTTGTA
* * * *
65590521 ATGCCTTCGTGGCATATCTATG
1 ATGCCTTCGTGGAATATTTGTA
* *
65590543 ATGCCTTTGTGGCATATTCTGTA
1 ATGCCTTCGTGGAATATT-TGTA
* *
65590566 ATGCCCTCGAGGAA
1 ATGCCTTCGTGGAA
65590580 AAATCTGGTT
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 34 0.74
23 12 0.26
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (22 bp):
ATGCCTTCGTGGAATATTTGTA
Found at i:65593250 original size:28 final size:29
Alignment explanation
Indices: 65593219--65593275 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
65593209 ATCCGAAATA
65593219 CTGATAT-CATGGCCTGAAGCCAAATCAG
1 CTGATATGCATGGCCTGAAGCCAAATCAG
*
65593247 CTGATATGCATGGCTTGAAGCCAAATCAG
1 CTGATATGCATGGCCTGAAGCCAAATCAG
65593276 TTTATCTCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (29 bp):
CTGATATGCATGGCCTGAAGCCAAATCAG
Found at i:65595981 original size:209 final size:209
Alignment explanation
Indices: 65595620--65596021 Score: 741
Period size: 209 Copynumber: 1.9 Consensus size: 209
65595610 GTTTACAAGC
65595620 CAATACATTTGGCCAAAGCATAATAACACATGTCATAAAACTAGATCCCTATACATGCCACTCAC
1 CAATACATTTGGCCAAAGCATAATAACACATGTCATAAAACTAGATCCCTATACATGCCACTCAC
*
65595685 TTGAAATTTCTAATATATGCTTCATTATTCCAAAGGTAGTGACTTGATAGTGTGATGATGCCTCC
66 TTGAAATTTCTAATATATGCTTCATTATTCCAAAGGTAGTGACTTGATAGTGTAATGATGCCTCC
* *
65595750 GACGATCTCCAACTCTGAGCTAACCTGACAAGCTAAAAGAAATGGAAATGAGGGAGTAAGCTTAT
131 GACGATCTCCAACTCCGAGCTAACCTGACAAGCTAAAAGAAATGGAAAGGAGGGAGTAAGCTTAT
65595815 AACTCAATATAAGT
196 AACTCAATATAAGT
* * *
65595829 CAATACATTTGGCCAAAGCATAATAACATATGTCATAAAACTAGATCTCTATACATGCTACTCAC
1 CAATACATTTGGCCAAAGCATAATAACACATGTCATAAAACTAGATCCCTATACATGCCACTCAC
65595894 TTGAAATTTCTAATATATGCTTCATTATTCCAAAGGTAGTGACTTGATAGTGTAATGATGCCTCC
66 TTGAAATTTCTAATATATGCTTCATTATTCCAAAGGTAGTGACTTGATAGTGTAATGATGCCTCC
*
65595959 GATGATCTCCAACTCCGAGCTAACCTGACAAGCTAAAAGAAATGGAAAGGAGGGAGTAAGCTT
131 GACGATCTCCAACTCCGAGCTAACCTGACAAGCTAAAAGAAATGGAAAGGAGGGAGTAAGCTT
65596022 CATGGTTAGT
Statistics
Matches: 186, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
209 186 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (209 bp):
CAATACATTTGGCCAAAGCATAATAACACATGTCATAAAACTAGATCCCTATACATGCCACTCAC
TTGAAATTTCTAATATATGCTTCATTATTCCAAAGGTAGTGACTTGATAGTGTAATGATGCCTCC
GACGATCTCCAACTCCGAGCTAACCTGACAAGCTAAAAGAAATGGAAAGGAGGGAGTAAGCTTAT
AACTCAATATAAGT
Found at i:65602394 original size:38 final size:38
Alignment explanation
Indices: 65602278--65602395 Score: 130
Period size: 39 Copynumber: 3.0 Consensus size: 38
65602268 TCCAATTTCT
* * *
65602278 AGCACAAAGCCTGTGGGATTTAACCCGGATATCTATTACC
1 AGCACTAAGCCTGCGGGATTTAACCCGGATA--TAATACC
* * *
65602318 AGCACTAGGCCTGC-GGACTATAAGTCCGGATATAATACC
1 AGCACTAAGCCTGCGGGA-TTTAA-CCCGGATATAATACC
*
65602357 AGCATTAAGCCTGCGGGATTTAACCCGGATATAATACC
1 AGCACTAAGCCTGCGGGATTTAACCCGGATATAATACC
65602395 A
1 A
65602396 CATAAATTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
38 15 0.23
39 25 0.38
40 18 0.28
41 7 0.11
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (38 bp):
AGCACTAAGCCTGCGGGATTTAACCCGGATATAATACC
Found at i:65603465 original size:49 final size:48
Alignment explanation
Indices: 65603401--65603573 Score: 194
Period size: 49 Copynumber: 3.6 Consensus size: 48
65603391 CACATCAAAG
*
65603401 GTGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-
1 GTGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATC-AGT
* * *
65603449 GCTGATGCCCTGTCCCAGACAGGTCTTACACTGGCTCTCATTTATCAGT
1 G-TGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGT
* * * *
65603498 GTCGATGCCATGTCCCAAACAGGTCTTACACTGACACACAT-CA--AGT
1 GT-GATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGT
* *
65603544 -TGACGCCATGTCCTAGACAGGTCTTACACT
1 GTGATGCCATGTCCCAGACAGGTCTTACACT
65603574 AGCTTGTATA
Statistics
Matches: 109, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
44 26 0.24
45 1 0.01
46 3 0.03
48 5 0.05
49 74 0.68
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
GTGATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGT
Found at i:65603691 original size:48 final size:47
Alignment explanation
Indices: 65603403--65603715 Score: 191
Period size: 49 Copynumber: 6.6 Consensus size: 47
65603393 CATCAAAGGT
* * * *
65603403 GATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATA-AT-GTGGCC
* * *
65603452 GATGCCCTGTCCCAGACAGGTCTTACACTGGCTCTCATTTATCAGT-GTC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCA-TAAT--GTGGCC
* * * * *
65603501 GATGCCATGTCCCAAACAGGTCTTACACTGACACACATCAA-GT---T
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCAT-AATGTGGCC
* * * * * *
65603545 GACGCCATGTCCTAGACAGGTCTTACACTAGCT-TGTATATCTCGAGGCC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCT-CATA-AT-GTGGCC
* * * *
65603594 GATG-CATGTCCCAAACATGTCTTACACTAGCTCCCGTC-TCAA--T-ACC
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCT--C-TCAT-AATGTGGCC
*
65603640 GATGCCATGTCCCAGACATGGTCTTACAATGGCTCTCATAATGTGGCC
1 GATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATAATGTGGCC
* *
65603688 GATG-CATGTTCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
65603716 AGCACACATA
Statistics
Matches: 201, Mismatches: 42, Indels: 45
0.70 0.15 0.16
Matches are distributed among these distances:
43 1 0.00
44 29 0.14
45 4 0.02
46 20 0.10
47 25 0.12
48 44 0.22
49 73 0.36
50 3 0.01
51 1 0.00
52 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATAATGTGGCC
Found at i:65603696 original size:142 final size:143
Alignment explanation
Indices: 65603359--65603718 Score: 344
Period size: 142 Copynumber: 2.5 Consensus size: 143
65603349 GATGCCGACA
* * *
65603359 CCATGTCCCAGACATGGTCTTACATTGGCTAGCACATCAA-AGGTGATGCCATGTCCCAGACAGG
1 CCATGTCCCAGACATGGTCTTACAATGGCT--CACATCAAGTGGCGATG-CATGT-CCAGACAGG
* * * *
65603423 TCTTACACT-GACTTTCATATATCGAGGCTGATGCCCTGTCCCAGACAGGTCTTACACTGGCTCT
62 TCTTACACTAG-CTTTCATATATCGAGGCCGATGCCATGTCCCAAACAGGTCTTACACTAGCTCT
** * **
65603487 CATTTATCAGTGTCGATG
126 CACGTATCAATACCGATG
* * * * * *
65603505 CCATGTCCCAAACA-GGTCTTACACTGACACACATCAAGTTGACG--CCATGTCCTAGACAGGTC
1 CCATGTCCCAGACATGGTCTTACAATGGCTCACATCAAG-TGGCGATGCATGTCC-AGACAGGTC
* *
65603567 TTACACTAGCTTGT-ATATCTCGAGGCCGATG-CATGTCCCAAACATGTCTTACACTAGCTC-C-
64 TTACACTAGCTT-TCATATATCGAGGCCGATGCCATGTCCCAAACAGGTCTTACACTAGCTCTCA
*
65603628 CGTCTCAATACCGATG
128 CGTATCAATACCGATG
* *
65603644 CCATGTCCCAGACATGGTCTTACAATGGCTCTCAT-AATGTGGCCGATGCATGTTCCAGACATGT
1 CCATGTCCCAGACATGGTCTTACAATGGCTCACATCAA-GTGG-CGATGCATG-TCCAGACAGGT
65603708 CTTACACTAGC
63 CTTACACTAGC
65603719 ACACATATCA
Statistics
Matches: 175, Mismatches: 28, Indels: 26
0.76 0.12 0.11
Matches are distributed among these distances:
139 27 0.15
140 20 0.11
141 27 0.15
142 61 0.35
143 13 0.07
145 14 0.08
146 13 0.07
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (143 bp):
CCATGTCCCAGACATGGTCTTACAATGGCTCACATCAAGTGGCGATGCATGTCCAGACAGGTCTT
ACACTAGCTTTCATATATCGAGGCCGATGCCATGTCCCAAACAGGTCTTACACTAGCTCTCACGT
ATCAATACCGATG
Found at i:65604398 original size:20 final size:18
Alignment explanation
Indices: 65604361--65604411 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
65604351 CCATAGCAAC
65604361 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
65604378 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
65604398 TTACAACTTTACAA
1 TCACAA-TTTACAA
65604412 AATTACCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:65611287 original size:45 final size:45
Alignment explanation
Indices: 65611182--65611408 Score: 225
Period size: 45 Copynumber: 5.1 Consensus size: 45
65611172 ATGCTATCTC
* * * *
65611182 ATATCGATGCCATTGTCCCAGACAG-GTTCTTAC-ACAAATCA-A-
1 ATATCGATGCCAATGTCCCAGAC-GTGGTCTTACTAAAAAACACAT
* * * ** * *
65611224 GTA-CGATGCCGATGTCCCAGACATGGTCTTAC-ATGTAACCATAT
1 ATATCGATGCCAATGTCCCAGACGTGGTCTTACTA-AAAAACACAT
65611268 ATATCGATGCCAATGTCCCAGACGTGGTCTTACTAAAAAACACAT
1 ATATCGATGCCAATGTCCCAGACGTGGTCTTACTAAAAAACACAT
*
65611313 ATATCGATGCCAACGTCCCAGACGTGGTCTTACTCAAAAAA-ACAT
1 ATATCGATGCCAATGTCCCAGACGTGGTCTTACT-AAAAAACACAT
* * * **
65611358 ATATCGATGCCAACGTCCCAGATGTGGTCTTAATCGAAAACACAT
1 ATATCGATGCCAATGTCCCAGACGTGGTCTTACTAAAAAACACAT
65611403 ATATCG
1 ATATCG
65611409 GAATCCTACT
Statistics
Matches: 157, Mismatches: 20, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
41 25 0.16
42 6 0.04
43 1 0.01
44 6 0.04
45 112 0.71
46 7 0.04
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCCAGACGTGGTCTTACTAAAAAACACAT
Found at i:65615971 original size:84 final size:82
Alignment explanation
Indices: 65615857--65616058 Score: 237
Period size: 84 Copynumber: 2.4 Consensus size: 82
65615847 CAAGTTGGAT
* * * * *
65615857 AGCTTTAAGGTTGAATTAAAAATAAGAGAGTCGATTAACTTGAAATTT-TTA-CCTTTAAAGAGG
1 AGCTTTAAGGTTG-ATTGAAACTAAGAGAGTCAATTAAATGGAAATTTATTATCCTTTAAAGAGG
* *
65615920 AACTGAAGTGTTATAATTTAG
65 AACTCAA--GTTACAA-TTAG
* * *
65615941 AGTTTTAAGGTTGCATTGAAACTAAAAGAGTCAATTAAATGGAAATTTAATTATCCTTTAATGAG
1 AGCTTTAAGGTTG-ATTGAAACTAAGAGAGTCAATTAAATGGAAATTT-ATTATCCTTTAAAGAG
65616006 GAACTCAAGTTACAATTAG
64 GAACTCAAGTTACAATTAG
65616025 AGCTTTAAGGTTGATTTGAAACTAAGAGAGTCAA
1 AGCTTTAAGGTTGA-TTGAAACTAAGAGAGTCAA
65616059 ATTGAAAATT
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
83 1 0.01
84 74 0.73
85 6 0.06
86 3 0.03
87 17 0.17
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (82 bp):
AGCTTTAAGGTTGATTGAAACTAAGAGAGTCAATTAAATGGAAATTTATTATCCTTTAAAGAGGA
ACTCAAGTTACAATTAG
Found at i:65616228 original size:82 final size:83
Alignment explanation
Indices: 65616127--65616307 Score: 258
Period size: 82 Copynumber: 2.2 Consensus size: 83
65616117 CTTAAAGAGT
65616127 GAAGTTAGAATTTAGAGCTTTAAGGTGGAATTGAAACTAAAAGAGTCAATTA-AGTTGAAAATTT
1 GAAGTTAGAATTTAGAGCTTTAAGGTGGAATTGAAACTAAAAGAGTCAATTACA-TTGAAAATTT
*
65616191 TA-CCTTTAATGAGGAACC
65 TATCCTATAATGAGGAACC
* * * * * *
65616209 GAAGTTAGAATTTAGAGCTTTAAGGTTGAATTGAAACTTAAAGATTGAATTACATTTAAAGTTTT
1 GAAGTTAGAATTTAGAGCTTTAAGGTGGAATTGAAACTAAAAGAGTCAATTACATTGAAAATTTT
*
65616274 ATCCTATAATGAGGAACT
66 ATCCTATAATGAGGAACC
*
65616292 GAAGCTAGAATTTAGA
1 GAAGTTAGAATTTAGA
65616308 AGTTTCAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
82 58 0.66
83 30 0.34
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.33
Consensus pattern (83 bp):
GAAGTTAGAATTTAGAGCTTTAAGGTGGAATTGAAACTAAAAGAGTCAATTACATTGAAAATTTT
ATCCTATAATGAGGAACC
Found at i:65616410 original size:121 final size:121
Alignment explanation
Indices: 65616211--65616428 Score: 296
Period size: 121 Copynumber: 1.8 Consensus size: 121
65616201 GAGGAACCGA
* * * * * *
65616211 AGTTAGAATTTAGAGCTTTAAGGTTGAATTGAAACTTAAAGATTGAATTACATTTAAAGTTTTAT
1 AGTTAGAATTTAGAGCTTTAAGGTTGAATTGAAACTTAAAAATTGAATGACAATGAAAATTTTAA
**
65616276 CCTATAATGAGGAACTGAAGCTAGAATTTAGAAGTTTCAAAAAAAGAAAAGAAAAG
66 CCTATAACAAGGAACTGAAGCTAGAATTTAGAAGTTTCAAAAAAAGAAAAGAAAAG
* *
65616332 AGTTAGAATTTGGAGCTTTAATGTTGAATTGAAACTTAAAAACTTG-ATCGA-AATGAAAATTTT
1 AGTTAGAATTTAGAGCTTTAAGGTTGAATTGAAACTTAAAAA-TTGAAT-GACAATGAAAATTTT
* *
65616395 AACCTTTAACAAGGAACTGAAGTTAGAATTTAGA
64 AACCTATAACAAGGAACTGAAGCTAGAATTTAGA
65616429 GCTTTGAGGT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
121 79 0.95
122 4 0.05
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (121 bp):
AGTTAGAATTTAGAGCTTTAAGGTTGAATTGAAACTTAAAAATTGAATGACAATGAAAATTTTAA
CCTATAACAAGGAACTGAAGCTAGAATTTAGAAGTTTCAAAAAAAGAAAAGAAAAG
Found at i:65618109 original size:17 final size:17
Alignment explanation
Indices: 65618077--65618124 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
65618067 TGTTAATAAG
*
65618077 ATAATTAAATATAAAATT
1 ATAATAAAATA-AAAATT
*
65618095 TTAATAAAATAAAAATT
1 ATAATAAAATAAAAATT
*
65618112 ATAA-AACATAAAA
1 ATAATAAAATAAAA
65618125 TTAAAAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 8 0.31
17 9 0.35
18 9 0.35
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAATAAAATAAAAATT
Found at i:65618126 original size:15 final size:15
Alignment explanation
Indices: 65618087--65618146 Score: 50
Period size: 17 Copynumber: 3.7 Consensus size: 15
65618077 ATAATTAAAT
*
65618087 ATAAAATTTTAATAAA
1 ATAAAATTATAA-AAA
*
65618103 ATAAAAATTATAAAAC
1 AT-AAAATTATAAAAA
65618119 ATAAAATTA-AAAATA
1 ATAAAATTATAAAA-A
65618134 ATATAAATATATA
1 ATA-AAAT-TATA
65618147 TTTTTAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 4 0.11
15 10 0.28
16 10 0.28
17 11 0.31
18 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAAAATTATAAAAA
Found at i:65624279 original size:48 final size:48
Alignment explanation
Indices: 65624215--65624362 Score: 215
Period size: 48 Copynumber: 3.1 Consensus size: 48
65624205 TTGATGTACA
* *
65624215 AGATATATATATGTGGTAAAGCCGAATGACTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
65624263 AGATATATATATGTGGTAAAGTCGAAAGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
** ** *
65624311 AGCCATGCATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
65624359 AGAT
1 AGAT
65624363 GTGTATATAT
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (48 bp):
AGATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:65627519 original size:43 final size:43
Alignment explanation
Indices: 65627458--65627613 Score: 231
Period size: 43 Copynumber: 3.6 Consensus size: 43
65627448 CCAGCATCAT
* * * *
65627458 AGCCTGCTAGGCATGAAGGCCTGAATACACATCACCGACACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAA
**
65627501 AGCCTGCTAGGTGCGAAGGCCCGAATACACATCACCGGCACAA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAA
65627544 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAA
** *
65627587 AGCCTATTAGGCACGAAGGCCCAAATA
1 AGCCTGCTAGGCACGAAGGCCCGAATA
65627614 TAATACCAGC
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.33, C:0.31, G:0.24, T:0.12
Consensus pattern (43 bp):
AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAA
Found at i:65632777 original size:50 final size:50
Alignment explanation
Indices: 65632718--65632821 Score: 192
Period size: 50 Copynumber: 2.1 Consensus size: 50
65632708 TTTGACTCAA
65632718 ATATAGGTACTAAAGGTCAATAAGCAAGGTTGGCTTTTTGGCTCTATGTT
1 ATATAGGTACTAAAGGTCAATAAGCAAGGTTGGCTTTTTGGCTCTATGTT
*
65632768 ATATAGGTACTAAAGGTCAATAAGTAAGGTTGGCTTTTTGGCTCTATGTT
1 ATATAGGTACTAAAGGTCAATAAGCAAGGTTGGCTTTTTGGCTCTATGTT
65632818 -TATA
1 ATATA
65632822 CCAGATCACT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 4 0.08
50 49 0.92
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.38
Consensus pattern (50 bp):
ATATAGGTACTAAAGGTCAATAAGCAAGGTTGGCTTTTTGGCTCTATGTT
Found at i:65636582 original size:34 final size:34
Alignment explanation
Indices: 65636544--65636614 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 34
65636534 ATCCACAGAG
* *
65636544 AAAGTCCAC-AGGGACAGTAGACTCAAAATAGAAA
1 AAAGTCCACTA-GGACAGTAAACACAAAATAGAAA
* * *
65636578 AAAGTTCACTAGGATAGTAAACACAAAATAGAGA
1 AAAGTCCACTAGGACAGTAAACACAAAATAGAAA
65636612 AAA
1 AAA
65636615 CCCATTGGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 30 0.97
35 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.18, T:0.14
Consensus pattern (34 bp):
AAAGTCCACTAGGACAGTAAACACAAAATAGAAA
Found at i:65638197 original size:22 final size:24
Alignment explanation
Indices: 65638172--65638226 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 24
65638162 TAGTATGTTT
65638172 TAAATGCTTTAATATAATT-TG-A
1 TAAATGCTTTAATATAATTATGAA
*
65638194 TAAATGCTTTATTATAATTATGAA
1 TAAATGCTTTAATATAATTATGAA
*
65638218 TATATGCTT
1 TAAATGCTT
65638227 ATTGATTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 18 0.62
23 2 0.07
24 9 0.31
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.47
Consensus pattern (24 bp):
TAAATGCTTTAATATAATTATGAA
Found at i:65638445 original size:42 final size:43
Alignment explanation
Indices: 65638383--65638503 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 43
65638373 AACTAAGGAG
* * * **
65638383 TCCGAACTCGTTGAGTGGTCTGAGTTCATGA-GATATG-TGGCA
1 TCCGAGCTCGTTGAGAGGTCTGAGTTCATGATG-GATGCAAGCA
*
65638425 TCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGCAAGCA
1 TCCGAGCTCGTTGAGAGGTCTGAGTTCATGATGGATGCAAGCA
* * *
65638468 TACGAGCTCGTTGAGA-GTCTGGGTTCATGGTGGATG
1 TCCGAGCTCGTTGAGAGGTCTGAGTTCATGATGGATG
65638504 TGATTCATGT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 48 0.72
43 19 0.28
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.30
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGAGGTCTGAGTTCATGATGGATGCAAGCA
Found at i:65639975 original size:20 final size:20
Alignment explanation
Indices: 65639950--65639996 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
65639940 CGGGTAAGGG
*
65639950 ACACGGGAATGTCCCAAAGC
1 ACACGGCAATGTCCCAAAGC
**
65639970 ACACGGCCGTGTCCCAAAGC
1 ACACGGCAATGTCCCAAAGC
65639990 ACACGGC
1 ACACGGC
65639997 GTGTGCATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.36, G:0.26, T:0.09
Consensus pattern (20 bp):
ACACGGCAATGTCCCAAAGC
Found at i:65641650 original size:55 final size:57
Alignment explanation
Indices: 65641527--65641655 Score: 156
Period size: 55 Copynumber: 2.3 Consensus size: 57
65641517 CAAATAGACA
* * * * *
65641527 AAAATGAAAAATGAAAATGGAGAAATGAAAACATTTGGACATGATTTTTATTTCTTCC
1 AAAAT-AAAAATGAAAATGGAGAAATGAAAACATTTAGAAATGAATGTGATTTCTTCC
* *
65641585 AAAATGAAAATGAAAATGGAG-AATG-GAACATTTAGAAATGAATGTGATTT-TCTCC
1 AAAATAAAAATGAAAATGGAGAAATGAAAACATTTAGAAATGAATGTGATTTCT-TCC
65641640 AAAATAAAAATGAAAA
1 AAAATAAAAATGAAAA
65641656 GGACTTGAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
54 1 0.02
55 37 0.60
56 4 0.06
57 15 0.24
58 5 0.08
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.27
Consensus pattern (57 bp):
AAAATAAAAATGAAAATGGAGAAATGAAAACATTTAGAAATGAATGTGATTTCTTCC
Found at i:65646374 original size:46 final size:45
Alignment explanation
Indices: 65646242--65646460 Score: 185
Period size: 46 Copynumber: 4.7 Consensus size: 45
65646232 CATATCTTTT
* * * *
65646242 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTAGTAT
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTTG-AG
65646288 CCGATGCATGTCCCAGACATGTCTTACACT-G-ACTTACGTCTTGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCAC-T-CGTCTTGA-G
* * * *
65646334 CCGAGGCATGTCCCAAACATTTCTTACACTAGCACTCGTCTTAATG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTGA-G
* * * * **
65646380 CCGATGCTGTGTCCCAGACATGGTCTTACACTTGCTCTCATAATGTAG
1 CCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCACTCGTCTTG-AG
*
65646428 CCGATGCATGTCCTAGACATGTCTTACACTAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC
65646461 TCACAATAAC
Statistics
Matches: 143, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
44 13 0.09
45 15 0.10
46 64 0.45
47 24 0.17
48 26 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTTGAG
Found at i:65654042 original size:46 final size:44
Alignment explanation
Indices: 65653917--65654125 Score: 174
Period size: 46 Copynumber: 4.6 Consensus size: 44
65653907 GTACCGATGC
* *
65653917 CATGTCCCAGACATGGTCTTACACTGACACATCTTGTAGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGACACGTCTTG-AGCTGAGG
* *
65653962 CATGTCCTAGACAT-GTCTTACACTGACTTACGTCTCGAGGCTGAGG
1 CATGTCCCAGACATGGTCTTACACTGAC--ACGTCTTGA-GCTGAGG
* * * *
65654008 CATGTCCCAGACAT-GTCTTACACTAGCACCCGTCTTAATGCCGATGC
1 CATGTCCCAGACATGGTCTTACACT-G-ACACGTCTTGA-GCTGA-GG
* * * *
65654055 CATGTCCCAGACATGGTCTTACACTGACTC-TCATAATGTGGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGACACGTC-T--TGAGCT-GAGG
65654102 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
65654126 AGCTCACAAT
Statistics
Matches: 135, Mismatches: 18, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
44 13 0.10
45 16 0.12
46 59 0.44
47 32 0.24
48 15 0.11
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGGTCTTACACTGACACGTCTTGAGCTGAGG
Found at i:65654105 original size:94 final size:91
Alignment explanation
Indices: 65653911--65654133 Score: 240
Period size: 94 Copynumber: 2.4 Consensus size: 91
65653901 ATATCTGTAC
* * *
65653911 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTTGTAGCTGATGCATGTCCTAGAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACACATCTTATAGCCGATGCATGTCCCAGAC
* *
65653974 ATGTCTTACACTGACTTACGTCTCGAGG
64 ATGTCTTACACTGACTTACATATCGAGG
* * *
65654002 CTGAGGCATGTCCCAGACATGTCTTACACTAGCACCCGTCTTA-ATGCCGATGCCATGTCCCAGA
1 C-GATGCATGTCCCAGACATGTCTTACACTAGCACACATCTTATA-GCCGATG-CATGTCCCAGA
*
65654066 CATGGTCTTACACTGACTCT-CATAAT-GTGG
63 CAT-GTCTTACACTGACT-TACAT-ATCGAGG
*
65654096 TCGATGCATGTCCCAGACATGTCTTACACTAGCTCACA
1 -CGATGCATGTCCCAGACATGTCTTACACTAGCACACA
65654134 ATAACCCATA
Statistics
Matches: 110, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
90 10 0.09
91 17 0.15
92 16 0.15
93 13 0.12
94 51 0.46
95 3 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (91 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTTATAGCCGATGCATGTCCCAGACAT
GTCTTACACTGACTTACATATCGAGG
Found at i:65655257 original size:53 final size:52
Alignment explanation
Indices: 65655177--65655281 Score: 201
Period size: 53 Copynumber: 2.0 Consensus size: 52
65655167 GAGGAAGATA
65655177 AACTAGAATCTAAGTATTGTTAAACAATATTGAATCCATTTTTATCATTGACC
1 AACTAGAATCTAAGTATTGTTAAACAATATTGAATCCA-TTTTATCATTGACC
65655230 AACTAGAATCTAAGTATTGTTAAACAATATTGAATCCATTTTATCATTGACC
1 AACTAGAATCTAAGTATTGTTAAACAATATTGAATCCATTTTATCATTGACC
65655282 GCCTTTTTCC
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 14 0.27
53 38 0.73
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (52 bp):
AACTAGAATCTAAGTATTGTTAAACAATATTGAATCCATTTTATCATTGACC
Found at i:65662478 original size:37 final size:37
Alignment explanation
Indices: 65662419--65662564 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
65662409 AGCTTAGATG
* *
65662419 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65662456 AAATCTTCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65662493 CAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65662530 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
65662565 ATATATTTCC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:65663163 original size:40 final size:40
Alignment explanation
Indices: 65663119--65663317 Score: 272
Period size: 40 Copynumber: 5.0 Consensus size: 40
65663109 GAATACACAT
* * *
65663119 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
65663159 CACCAGCACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
65663199 CTCTAGCACAAATGCTCTTTGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
65663239 CACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
65663279 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
65663318 TATAACTCTC
Statistics
Matches: 138, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 138 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:65664632 original size:37 final size:37
Alignment explanation
Indices: 65664573--65664681 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
65664563 AGCTCAGATG
* *
65664573 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65664610 AAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
65664647 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
65664682 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:65664884 original size:48 final size:48
Alignment explanation
Indices: 65664830--65664921 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
65664820 ACATCGCCTA
* *
65664830 CATATTTCACACTAGTCATTCGGCTTTACGACATATACATATCTCATC
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATC
*
65664878 CATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
65664922 TATACATCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.36
Consensus pattern (48 bp):
CATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATC
Found at i:65689519 original size:46 final size:45
Alignment explanation
Indices: 65689367--65689588 Score: 168
Period size: 46 Copynumber: 4.8 Consensus size: 45
65689357 GGTTATTTGT
* * *
65689367 GTGCCAGTGTAAGACATGTCTCGGACATGCATTGGCCACATTATGAGA-
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-C--TACGAGAC
* * * * *
65689415 GT--CAGTGTAACACCATGTCTGGGACATGGCGTCGACAT-TGAGAC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTACGAGAC
* *
65689459 GAGTGCTAGTGTAAGACATGTTTGGGACATGCATCGGCCT-CGAGAC
1 --GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGAC
* * *
65689505 GTAAGCCAGTGTAAGACATGTCTGGGACATGCATC-GACTATGAGAT
1 GT--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGAC
*
65689551 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
65689589 ACAAATATGC
Statistics
Matches: 141, Mismatches: 20, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
43 5 0.04
44 14 0.10
45 17 0.12
46 63 0.45
47 28 0.20
48 14 0.10
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGAC
Found at i:65692877 original size:10 final size:10
Alignment explanation
Indices: 65692862--65692921 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
65692852 TAATTTTAGG
65692862 ATTTAT-TTT
1 ATTTATCTTT
65692871 CATTTATCTTT
1 -ATTTATCTTT
65692882 ATTTATCTTT
1 ATTTATCTTT
* *
65692892 AATTATATTT
1 ATTTATCTTT
65692902 ATTTAT-TTGT
1 ATTTATCTT-T
65692912 ATTTATCTTT
1 ATTTATCTTT
65692922 TAGAATTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.05
10 37 0.84
11 5 0.11
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:65692906 original size:30 final size:30
Alignment explanation
Indices: 65692864--65692921 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
65692854 ATTTTAGGAT
65692864 TTATTTTCATTTATCTT-TATTTATCTTTAA
1 TTATTTTCATTTAT-TTGTATTTATCTTTAA
65692894 TTATATTT-ATTTATTTGTATTTATCTTT
1 TTAT-TTTCATTTATTTGTATTTATCTTT
65692922 TAGAATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 2 0.08
30 21 0.81
31 3 0.12
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (30 bp):
TTATTTTCATTTATTTGTATTTATCTTTAA
Found at i:65693669 original size:17 final size:18
Alignment explanation
Indices: 65693637--65693670 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65693627 TTTTCCTCAT
*
65693637 TTTAATTTCTGCAATTTA
1 TTTAACTTCTGCAATTTA
65693655 TTTAACTTC-GCAATTT
1 TTTAACTTCTGCAATTT
65693671 CAATTCACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.26, C:0.15, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTAACTTCTGCAATTTA
Found at i:65695790 original size:16 final size:16
Alignment explanation
Indices: 65695757--65695791 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
65695747 ATGTATCGAC
* *
65695757 AAAAGTCGAAGTGTCG
1 AAAAGTCGAAATGCCG
65695773 AAAAGTCGAAATGCCG
1 AAAAGTCGAAATGCCG
65695789 AAA
1 AAA
65695792 TACCGAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.14, G:0.26, T:0.14
Consensus pattern (16 bp):
AAAAGTCGAAATGCCG
Found at i:65696068 original size:29 final size:29
Alignment explanation
Indices: 65696028--65696093 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
65696018 AATGTGACTA
* * *
65696028 GGCCTAACGGGCCATATAAATGTCATTTG
1 GGCCTAATGGGCCATATAAAGGTAATTTG
*
65696057 GGCCTAATGGGCCATATACAGGTAATTTG
1 GGCCTAATGGGCCATATAAAGGTAATTTG
65696086 GGCCTAAT
1 GGCCTAAT
65696094 AGTGGGCCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAAGGTAATTTG
Found at i:65703735 original size:47 final size:47
Alignment explanation
Indices: 65703672--65704221 Score: 818
Period size: 47 Copynumber: 11.6 Consensus size: 47
65703662 ACCTTCGGGA
* * *
65703672 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
65703719 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
65703766 CTTATCTCATTTATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
65703813 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
65703860 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
65703907 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
65703956 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
65704003 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
65704052 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
65704099 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
65704146 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
65704195 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
65704222 TATTCAAATA
Statistics
Matches: 477, Mismatches: 18, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 339 0.71
49 136 0.29
50 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:65703984 original size:96 final size:94
Alignment explanation
Indices: 65703672--65704221 Score: 818
Period size: 96 Copynumber: 5.8 Consensus size: 94
65703662 ACCTTCGGGA
* * * *
65703672 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
65703737 TTTCACATTCATCACATTGGCCATTCGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
* * * * * *
65703766 CTTATCTCATTTATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACA
65703830 -TGTTCACATTCATCACATTGGCCATTCGGC
65 CT-TTCACATTCATCACATTGGCCATTCGGC
* * *
65703860 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATA
65703924 CACTTTCACATTCATCACATTGGCCATTCGGC
63 CACTTTCACATTCATCACATTGGCCATTCGGC
*
65703956 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATAC
* *
65704021 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATTGGCCATTCGGC
* *
65704052 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* *
65704117 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
65704146 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
65704211 ACTTTCACATT
64 ACTTTCACATT
65704222 TATTCAAATA
Statistics
Matches: 426, Mismatches: 22, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
93 2 0.00
94 181 0.42
96 241 0.57
97 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGC
Found at i:65703996 original size:143 final size:142
Alignment explanation
Indices: 65703672--65704221 Score: 822
Period size: 143 Copynumber: 3.9 Consensus size: 142
65703662 ACCTTCGGGA
* * * * *
65703672 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
* * * *
65703736 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATTTATGCA-TGTTCACATTCATCACA
66 CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACA
65703800 TTGGCCATTCGGC
130 TTGGCCATTCGGC
* * * * * *
65703813 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ACATACAC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATAC
*
65703876 A-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATC
65 ACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
65703940 ACATTGGCCATTCGGC
127 ACATTGGCCATTCGGC
65703956 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
*
65704021 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* * *
65704086 TCGGCTATTAGGC
130 TTGGCCATTCGGC
65704099 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
65704164 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATT
65 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATT
65704222 TATTCAAATA
Statistics
Matches: 378, Mismatches: 22, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
140 2 0.01
141 90 0.24
143 242 0.64
144 2 0.01
145 41 0.11
146 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
TGGCCATTCGGC
Found at i:65705620 original size:85 final size:85
Alignment explanation
Indices: 65705491--65705669 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
65705481 TATTTTATTG
*
65705491 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
*
65705556 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATATTGTCCA
65705576 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
65705641 TAGCCATAACATATTGTCCA
66 TAGCCATAACATATTGTCCA
65705661 CCCATGCTC
1 CCCATGCTC
65705670 ATGGCTGGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATATTGTCCA
Found at i:65712507 original size:22 final size:22
Alignment explanation
Indices: 65712479--65712600 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
65712469 TTCCACATCC
65712479 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
65712501 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
65712525 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
65712548 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
65712572 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
65712595 ATCACA
1 ATCACA
65712601 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:65712514 original size:47 final size:47
Alignment explanation
Indices: 65712451--65713331 Score: 1265
Period size: 47 Copynumber: 18.6 Consensus size: 47
65712441 CCCTTCGGGA
* * *
65712451 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
65712498 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
65712545 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
65712592 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
65712639 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
65712686 CTTATCTCATATATGCA-TGTTCACATTCATCAAATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
65712733 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
65712780 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
65712829 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
65712876 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
65712923 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
65712970 CTTATCACACATACACA-TGTTCACATTGATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
65713017 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
65713066 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
65713113 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
65713162 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
65713209 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
65713256 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
65713305 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
65713332 TATTCAAATA
Statistics
Matches: 778, Mismatches: 44, Indels: 24
0.92 0.05 0.03
Matches are distributed among these distances:
46 2 0.00
47 596 0.77
49 178 0.23
50 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:65712879 original size:143 final size:141
Alignment explanation
Indices: 65712451--65713331 Score: 1247
Period size: 143 Copynumber: 6.2 Consensus size: 141
65712441 CCCTTCGGGA
** * * *
65712451 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACACATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
65712516 TTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATT
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATT
65712581 GGCCATTCGGC
131 GGCCATTCGGC
* * *
65712592 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTTGGCCTTATCACACATACACA
1 CTTATCACACATACACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
* * *
65712656 -TGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCAAA
65 CT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACA
65712720 TTGGCCATTCGGC
129 TTGGCCATTCGGC
65712733 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATA
1 CTTATCACACATACACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATA
65712797 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTCACATTCATCA
63 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA-TGTTCACATTCATCA
*
65712861 CATCGGCCATTCGGC
127 CATTGGCCATTCGGC
* *
65712876 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCA
1 CTTATCACACATACACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
* * *
65712940 -TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTGATCACA
65 CT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACA
65713004 TTGGCCATTCGGC
129 TTGGCCATTCGGC
* *
65713017 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ACATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
65713082 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT-TTCACATTCATC
64 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACA-TGTTCACATTCATC
* *
65713146 ACATCGGCCATTAGGC
126 ACATTGGCCATTCGGC
* * * * *
65713162 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACACATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
65713227 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT-TTCACATTCATCAC
66 TTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACA-TGTTCACATTCATCAC
*
65713291 ATTGGCCATTAGGC
128 ATTGGCCATTCGGC
* *
65713305 CTTATCACATATATACACTTTCACATT
1 CTTATCACACATACACACTTTCACATT
65713332 TATTCAAATA
Statistics
Matches: 688, Mismatches: 37, Indels: 28
0.91 0.05 0.04
Matches are distributed among these distances:
140 4 0.01
141 267 0.39
143 372 0.54
144 4 0.01
145 40 0.06
146 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (141 bp):
CTTATCACACATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTCATCACATT
GGCCATTCGGC
Found at i:65715273 original size:56 final size:56
Alignment explanation
Indices: 65715206--65715325 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
65715196 TATTAGTTTA
65715206 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
65715262 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
65715318 TTGCCCAT
1 TTGCCCAT
65715326 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:65717859 original size:39 final size:39
Alignment explanation
Indices: 65717811--65718072 Score: 427
Period size: 39 Copynumber: 6.7 Consensus size: 39
65717801 TGTGTGAGAT
* *
65717811 TTATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
65717850 TTATGTCCGGGCTAAGTCCCGAAGGCATTCTTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
65717889 TTATGTCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* ** *
65717928 TTATATCCAGGCTAAGTCTTGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
65717967 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
65718006 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCT-GTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
65718044 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
65718073 TGTGTTGGAA
Statistics
Matches: 207, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
38 31 0.15
39 176 0.85
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:65720784 original size:26 final size:26
Alignment explanation
Indices: 65720748--65720852 Score: 165
Period size: 26 Copynumber: 4.0 Consensus size: 26
65720738 TACAAATTGC
*
65720748 TAATGGGTTAGGTAAATGTTCCATGA
1 TAATGGATTAGGTAAATGTTCCATGA
* *
65720774 TAATCGATTAGGTAAATATTCCATGA
1 TAATGGATTAGGTAAATGTTCCATGA
*
65720800 TAATGGGTTAGGTAAATGTTCCATGA
1 TAATGGATTAGGTAAATGTTCCATGA
*
65720826 TAATGGTTTAGGTAAATGTTCCATGA
1 TAATGGATTAGGTAAATGTTCCATGA
65720852 T
1 T
65720853 GGGCATTTCA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (26 bp):
TAATGGATTAGGTAAATGTTCCATGA
Found at i:65720810 original size:52 final size:52
Alignment explanation
Indices: 65720748--65720852 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
65720738 TACAAATTGC
65720748 TAATGGGTTAGGTAAATGTTCCATGATAATCGATTAGGTAAATATTCCATGA
1 TAATGGGTTAGGTAAATGTTCCATGATAATCGATTAGGTAAATATTCCATGA
* * *
65720800 TAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCATGA
1 TAATGGGTTAGGTAAATGTTCCATGATAATCGATTAGGTAAATATTCCATGA
65720852 T
1 T
65720853 GGGCATTTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.36
Consensus pattern (52 bp):
TAATGGGTTAGGTAAATGTTCCATGATAATCGATTAGGTAAATATTCCATGA
Found at i:65725186 original size:40 final size:38
Alignment explanation
Indices: 65725076--65725186 Score: 116
Period size: 39 Copynumber: 2.8 Consensus size: 38
65725066 ATGTGTTATT
* *
65725076 ATATCCGGGTTAAATCCCGCAGGCTTAATGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATG
* * *
65725114 ATATCCGGACTTATAGT-CCGCAGGCCTAGTGCTGGTAATAG
1 ATATCCGG-GTTA-AATCCCGCAGGCTTAGTGCTGGT-AT-G
* *
65725155 ATATCCGGGTTAAATCCCACAGGCTTTGTGCT
1 ATATCCGGGTTAAATCCCGCAGGCTTAGTGCT
65725187 AGAAATTGGA
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
38 8 0.14
39 22 0.38
40 20 0.34
41 8 0.14
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTATG
Found at i:65734597 original size:31 final size:31
Alignment explanation
Indices: 65734559--65734622 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
65734549 CCTTTTCATA
*
65734559 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
**
65734590 TTTCATATTTCATATTACTGGGCCAAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
65734621 TT
1 TT
65734623 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCAAAGCCT
Found at i:65734868 original size:24 final size:24
Alignment explanation
Indices: 65734831--65734960 Score: 206
Period size: 24 Copynumber: 5.4 Consensus size: 24
65734821 CTTGAGGCCT
*
65734831 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
65734856 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
65734880 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
65734904 AGCCCTTTTAATAACTGGGGCAAA
1 AGCCCTTTTAATAACTGGGGCATA
* * *
65734928 ATCCCTTTTAATAATTGAGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
65734952 AGCCCTTTT
1 AGCCCTTTT
65734961 GCACTTCCTC
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
24 94 0.96
25 4 0.04
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:65735032 original size:9 final size:9
Alignment explanation
Indices: 65735018--65735074 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
65735008 ACCTCATGTG
65735018 CATATCATA
1 CATATCATA
*
65735027 CATATCATGTG
1 CATATCA--TA
65735038 CATATCATA
1 CATATCATA
*
65735047 CATATCATGTG
1 CATATCA--TA
65735058 CATATCATA
1 CATATCATA
*
65735067 CATGTCAT
1 CATATCAT
65735075 GTGCATATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
9 23 0.59
11 16 0.41
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:65735036 original size:20 final size:20
Alignment explanation
Indices: 65735011--65735096 Score: 145
Period size: 20 Copynumber: 4.3 Consensus size: 20
65735001 TATGAATACC
65735011 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
65735031 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
65735051 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
65735071 TCATGTGCATATCATATATA
1 TCATGTGCATATCATACATA
*
65735091 CCATGT
1 TCATGT
65735097 TTATCAAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:65735041 original size:11 final size:11
Alignment explanation
Indices: 65735011--65735085 Score: 72
Period size: 11 Copynumber: 7.4 Consensus size: 11
65735001 TATGAATACC
65735011 TCATGTGCATA
1 TCATGTGCATA
*
65735022 TCA--TACATA
1 TCATGTGCATA
65735031 TCATGTGCATA
1 TCATGTGCATA
*
65735042 TCA--TACATA
1 TCATGTGCATA
65735051 TCATGTGCATA
1 TCATGTGCATA
* *
65735062 TCA--TACATG
1 TCATGTGCATA
65735071 TCATGTGCATA
1 TCATGTGCATA
65735082 TCAT
1 TCAT
65735086 ATATACCATG
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
9 23 0.46
11 27 0.54
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:65735161 original size:25 final size:25
Alignment explanation
Indices: 65735133--65735180 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
65735123 ATATATAAAC
* * *
65735133 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
65735158 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
65735181 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:65752379 original size:27 final size:27
Alignment explanation
Indices: 65752338--65752391 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
65752328 TGTCATGTGA
* *
65752338 AATTGAATGACAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
**
65752365 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGACAAATTACTATTACATG
65752392 GGTTGTATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:65760190 original size:53 final size:53
Alignment explanation
Indices: 65760010--65760214 Score: 205
Period size: 55 Copynumber: 3.8 Consensus size: 53
65760000 AGGGTTTAAG
* * ** * *
65760010 GATACCGTGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTC-TAAGGTAAG
1 GATACCATGTAAGACCATGCCAAGACATG-GCATTGGTAA-G-TTCATAAGGCAAA
* * * *
65760065 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGCAAA
* * * *
65760120 GATCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAA
* * *
65760173 GCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
65760215 TCAAAAGGAT
Statistics
Matches: 123, Mismatches: 24, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
52 2 0.02
53 47 0.38
54 8 0.07
55 66 0.54
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.23
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAA
Found at i:65760213 original size:108 final size:110
Alignment explanation
Indices: 65760017--65760214 Score: 276
Period size: 108 Copynumber: 1.8 Consensus size: 110
65760007 AAGGATACCG
* *
65760017 TGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAGGTAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
65760082 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGATCCCA
** * * **
65760127 TGTAAGACCATGCCAAGGCATG-GCATTGGTGA-G-TTCATAAGGCAATGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
65760189 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
65760215 TCAAAAGGAT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.58
109 7 0.09
110 22 0.29
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGAAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGATCCCA
Found at i:65760474 original size:16 final size:16
Alignment explanation
Indices: 65760453--65760483 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65760443 ATAAATTTGA
65760453 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
65760469 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
65760484 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:65767696 original size:53 final size:53
Alignment explanation
Indices: 65767516--65767767 Score: 219
Period size: 55 Copynumber: 4.8 Consensus size: 53
65767506 AGGGTTTAAG
* * * * *
65767516 GATACCGTGTATGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCATAAGGCAAA
* * * *
65767571 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-C-ATAAGGCAAA
* * * *
65767626 GATCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAA
* * * *
65767679 GCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---AAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCAT-AAGGCAAA
* * * *
65767728 GATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
65767768 GTACCCGTGT
Statistics
Matches: 165, Mismatches: 28, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
49 38 0.23
51 1 0.01
52 4 0.02
53 47 0.28
54 8 0.05
55 67 0.41
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGCAAA
Found at i:65767719 original size:108 final size:110
Alignment explanation
Indices: 65767523--65767720 Score: 285
Period size: 108 Copynumber: 1.8 Consensus size: 110
65767513 AAGGATACCG
* *
65767523 TGTATGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
65767588 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGATCCCA
* * * **
65767633 TGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAATGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
65767695 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
65767721 TCAAAAGGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.59
109 7 0.09
110 22 0.28
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGATCCCA
Found at i:65767985 original size:16 final size:16
Alignment explanation
Indices: 65767964--65767994 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65767954 ATAAATTTGA
65767964 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
65767980 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
65767995 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:65773673 original size:55 final size:53
Alignment explanation
Indices: 65773548--65773736 Score: 209
Period size: 55 Copynumber: 3.5 Consensus size: 53
65773538 AACTTACCAT
* * * * *
65773548 TGCCATGTCTTGACATAGTCTTACGTGGTATCCTTGCCTTAT-GAACCCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * * *
65773601 TGCCATACCTTGCCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
65773656 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
*
65773710 TGCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
65773737 ATATCCTTAT
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 32 0.28
54 35 0.31
55 42 0.37
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:65773732 original size:54 final size:54
Alignment explanation
Indices: 65773537--65773744 Score: 222
Period size: 54 Copynumber: 3.9 Consensus size: 54
65773527 TTTCCTTTTT
* * * * * *
65773537 GAACTTACCATTGCCATGTCTTGACATAGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * ** *
65773590 GAACCCACCAATGCCATACCTTGCCATGGTCTTACATGGGA-CCTTTTCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * *
65773644 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
65773699 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
65773745 ATCTTGCCAA
Statistics
Matches: 128, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
52 2 0.02
53 40 0.31
54 42 0.33
55 42 0.33
56 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:65773778 original size:47 final size:47
Alignment explanation
Indices: 65773723--65773885 Score: 247
Period size: 47 Copynumber: 3.5 Consensus size: 47
65773713 CATGCCTTGG
* *
65773723 CATGGTCTTACATGATATCCTTATCTTGCCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
65773770 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* * ***
65773817 CATGGTCTTACATGGTATCCTTGTCTTACCATATGCCATG-TCTTGA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
65773863 CATGGTCTTACATGGTATCCTTA
1 CATGGTCTTACATGGTATCCTTA
65773886 ACTATCAATT
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 25 0.23
47 83 0.77
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:65780173 original size:40 final size:40
Alignment explanation
Indices: 65780118--65780200 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
65780108 TATTCGGATG
* *
65780118 ATATCTGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
* *
65780158 ATATCCGGACTAAGATCTGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
65780198 ATA
1 ATA
65780201 ACCTGGTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.33
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTACT
Found at i:65780220 original size:40 final size:39
Alignment explanation
Indices: 65780134--65780310 Score: 196
Period size: 40 Copynumber: 4.4 Consensus size: 39
65780124 GGACTAAGAT
* * * *
65780134 CCGAAGGCATTTGTGCTAGTTACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCTAGTTATTATAACCGG-TTAAG-TC
*
65780174 CTGAAGGCAATT-GTGCTAGTTATTATAACCTGGTTAAGTC
1 CCGAAGGC-ATTCGTGCTAGTTATTATAACC-GGTTAAGTC
**
65780214 CCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCTAGTTATTATAACC-GGTTAAGTC
* **
65780254 CCGAAGGTATTCGTGCGGGTTATTATAACCGAGTTAAGTC
1 CCGAAGGCATTCGTGCTAGTTATTATAACCG-GTTAAGTC
65780294 CCGAAGGCATTCGTGCT
1 CCGAAGGCATTCGTGCT
65780311 GGTTGTTACA
Statistics
Matches: 121, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 5 0.04
40 111 0.92
41 5 0.04
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCTAGTTATTATAACCGGTTAAGTC
Found at i:65780326 original size:40 final size:40
Alignment explanation
Indices: 65780192--65780314 Score: 203
Period size: 40 Copynumber: 3.1 Consensus size: 40
65780182 AATTGTGCTA
65780192 GTTATTATAACCTG-GTTAAGTCCCGAAGGCATTCGTGCGG
1 GTTATTATAACC-GAGTTAAGTCCCGAAGGCATTCGTGCGG
* *
65780232 GTTATTATAACCGGGTTAAGTCCCGAAGGTATTCGTGCGG
1 GTTATTATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGG
*
65780272 GTTATTATAACCGAGTTAAGTCCCGAAGGCATTCGTGCTG
1 GTTATTATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGG
65780312 GTT
1 GTT
65780315 GTTACATCCG
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 77 0.99
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (40 bp):
GTTATTATAACCGAGTTAAGTCCCGAAGGCATTCGTGCGG
Found at i:65789611 original size:39 final size:40
Alignment explanation
Indices: 65789490--65789712 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
65789480 GCTCCTCGTT
* *
65789490 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
65789530 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
65789570 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
65789609 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
65789648 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
65789689 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65789713 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 63 0.38
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:65789696 original size:78 final size:79
Alignment explanation
Indices: 65789490--65789712 Score: 244
Period size: 79 Copynumber: 2.8 Consensus size: 79
65789480 GCTCCTCGTT
* * * *
65789490 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTAGCACAAATGCCTTCGGGACTTAGCCC
* *
65789553 AGATTTAGTAACTCGCA
63 GGAATTAGTAACTCGCA
*
65789570 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCACAAATGCCTTCGGGACTTAGCCCGGA
*
65789634 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
* *
65789648 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCAC-AA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TAGCACAAATGCCTTCGGGACTTAGCC
65789709 CGGA
62 CGGA
65789713 CATCATTCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 45 0.35
79 58 0.46
80 24 0.19
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:65791518 original size:40 final size:40
Alignment explanation
Indices: 65791463--65791574 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
65791453 TATTCGGATG
*
65791463 ATATCTGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* *
65791503 ATATCCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
* ** *
65791543 ATAACCGGGTTAAG-TCCCGAAGGCATTCGTGC
1 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGC
65791575 GGGTTATTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.02
40 62 0.98
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACT
Found at i:65791581 original size:40 final size:40
Alignment explanation
Indices: 65791479--65791659 Score: 224
Period size: 40 Copynumber: 4.5 Consensus size: 40
65791469 GGACTAAGAT
* * * * **
65791479 CCGAAGGCATTTGTGCTAGTTACTATATCCGGACTAAGAT-
1 CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAG-TC
*
65791519 CCGAAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTC
1 CCGAAGGC-ATTCGTGCTGGTTATTATAACCGGGTTAAGTC
* *
65791559 CCGAAGGCATTCGTGCGGGTTATTATAACGGGGTTAAGTC
1 CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAGTC
*
65791599 CCGAAGGTATTCGTG-TGGGTTATTATAACCGGGTTAAGTC
1 CCGAAGGCATTCGTGCT-GGTTATTATAACCGGGTTAAGTC
65791639 CCGAAGGCATTCGTGCTGGTT
1 CCGAAGGCATTCGTGCTGGTT
65791660 GTTACATCCG
Statistics
Matches: 125, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
39 4 0.03
40 117 0.94
41 4 0.03
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCTGGTTATTATAACCGGGTTAAGTC
Found at i:65794871 original size:55 final size:54
Alignment explanation
Indices: 65794758--65794934 Score: 232
Period size: 55 Copynumber: 3.3 Consensus size: 54
65794748 CCATATCTTC
* *
65794758 ACATGGTCTTACATGGTATCTTTGCCTTAT-GAACTCACCAATGCCATGCCTTG
1 ACATGGTCTTACATGGTACCTTTGCCTTATAGAACTCATCAATGCCATGCCTTG
* * * *
65794811 GCATGGTATTACATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTG
1 ACATGGTCTTACATGGTACCTTTGCCTTATAG-AACTCATCAATGCCATGCCTTG
* * * *
65794866 ACATGGTCTTACATGATTTCC-TTCCCTTATAGAACTTATCAATGCCATGCCTTG
1 ACATGGTCTTACATG-GTACCTTTGCCTTATAGAACTCATCAATGCCATGCCTTG
65794920 ACATGGTCTTACATG
1 ACATGGTCTTACATG
65794935 ATATCCTTAT
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
53 26 0.24
54 36 0.34
55 43 0.40
56 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (54 bp):
ACATGGTCTTACATGGTACCTTTGCCTTATAGAACTCATCAATGCCATGCCTTG
Found at i:65794924 original size:54 final size:54
Alignment explanation
Indices: 65794735--65794942 Score: 231
Period size: 54 Copynumber: 3.9 Consensus size: 54
65794725 TTTTCCTTTT
* * ** * * *
65794735 GAACTTACCATTGCCATATCTTCACATGGTCTTACATGGTATCTTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * **
65794788 GAACTCACCAATGCCATGCCTTGGCATGGTATTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * * *
65794842 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTCCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* *
65794897 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
65794943 ATCTTACCAA
Statistics
Matches: 131, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.01
53 42 0.32
54 43 0.33
55 43 0.33
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:65794979 original size:47 final size:47
Alignment explanation
Indices: 65794920--65795083 Score: 242
Period size: 47 Copynumber: 3.5 Consensus size: 47
65794910 CCATGCCTTG
* *
65794920 ACATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTTCAA
1 ACATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTTCAA
** * *
65794967 ACATTATCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAA
1 ACATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTTCAA
*
65795014 ACATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTCTT--A
1 ACATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGT-TTCAA
65795060 ACATGGTCTTACATGGTATCCTTA
1 ACATGGTCTTACATGGTATCCTTA
65795084 ACCGTCAATT
Statistics
Matches: 106, Mismatches: 10, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
46 24 0.23
47 81 0.76
48 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (47 bp):
ACATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTTCAA
Found at i:65795166 original size:44 final size:44
Alignment explanation
Indices: 65795087--65795171 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
65795077 ATCCTTAACC
* * *
65795087 GTCAATTCCTCCTTAAATGTCATGTTATGAACATGGACTTTTCT
1 GTCAATTCCTCCTTAAATGCCATGGTATCAACATGGACTTTTCT
* *
65795131 GTCAATTCTTCCTTAATTGCCATGGTA-CAACCATGGACTTT
1 GTCAATTCCTCCTTAAATGCCATGGTATCAA-CATGGACTTT
65795172 GAGATATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 33 0.94
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGTATCAACATGGACTTTTCT
Found at i:65797604 original size:55 final size:56
Alignment explanation
Indices: 65797484--65797650 Score: 273
Period size: 55 Copynumber: 3.0 Consensus size: 56
65797474 GAACATGACA
* *
65797484 TCGATATATGTGTGTGAGTAAGACAACGTTTAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* *
65797540 CCAATATATGTGTGCGAGTAAGACCACGTTTAATA-GTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
* *
65797595 TCGATATATGTGTGCGAGTAAGACCACGTCTAGTACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
65797651 ACATGTAAGA
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
55 51 0.50
56 51 0.50
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.34
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
Found at i:65799310 original size:38 final size:38
Alignment explanation
Indices: 65799227--65799311 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 38
65799217 ACGGTACTTT
** * *
65799227 ATGGTGTGTAGGGTTGGATGGGTCAATTTTATCCCCAT
1 ATGGTGTACAGGGATGGATGGGTCAATTTTATCCCCAC
* *
65799265 ATTTGGTGTACAGGGATGGGTGGGTCGATTTTATCCCCAC
1 A--TGGTGTACAGGGATGGATGGGTCAATTTTATCCCCAC
65799305 ATGGTGT
1 ATGGTGT
65799312 GTTGGGTTGG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
38 7 0.18
40 32 0.82
ACGTcount: A:0.18, C:0.14, G:0.33, T:0.35
Consensus pattern (38 bp):
ATGGTGTACAGGGATGGATGGGTCAATTTTATCCCCAC
Found at i:65803045 original size:47 final size:45
Alignment explanation
Indices: 65802889--65803199 Score: 213
Period size: 47 Copynumber: 6.7 Consensus size: 45
65802879 GGATACATTA
* *
65802889 CCGATGCCATGTCCCAAACATGGTCTTACACTAGC--TCTCATATACGTG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCTC-TGTA-G-G
* * *
65802937 TACTGATGCATGTCCTAGACATGTCTTACACTAGCATAACTCT-TA-G
1 --CCGATGCATGTCCCAGACATGTCTTACACTAGC-TATCTCTGTAGG
* * *
65802983 CCAATGTATGTCCCAGACACGTCTTACACTAGCTATCTCTGTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTATCTCTGT--AGG
* * * *
65803030 CCGATGTATGTCCCAGACATGTCTTATACTGGCTAT-TACAGTATGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTATCT-CTGTA-GG
* * ** *
65803076 CTGATGCATGTCCCAGACATGTCATACACTAGCCCTCGTCTAG-ATG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTATC-TCT-GTAGG
* * *
65803122 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTATC-T-CTGTAGG
* *
65803170 CCGAAGCATGTCCTAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
65803200 GGCGCACAAA
Statistics
Matches: 212, Mismatches: 33, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
43 6 0.03
44 29 0.14
45 1 0.00
46 50 0.24
47 65 0.31
48 37 0.17
49 15 0.07
50 6 0.03
51 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTATCTCTGTAGG
Found at i:65804808 original size:22 final size:21
Alignment explanation
Indices: 65804775--65804816 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
65804765 GAACATGGTG
65804775 AATTTTAGTTAATTTTGTACTT
1 AATTTTAGTTAATTTT-TACTT
65804797 AATTTT-GATTAATTTTTACT
1 AATTTTAG-TTAATTTTTACT
65804817 ATTCTCGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.60
Consensus pattern (21 bp):
AATTTTAGTTAATTTTTACTT
Found at i:65811587 original size:15 final size:15
Alignment explanation
Indices: 65811567--65811602 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
65811557 ACATACGAGA
65811567 CACCTTTAGGGATGT
1 CACCTTTAGGGATGT
65811582 CACCTTTAGGGATGT
1 CACCTTTAGGGATGT
65811597 CACCTT
1 CACCTT
65811603 ACAGGTTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.33
Consensus pattern (15 bp):
CACCTTTAGGGATGT
Found at i:65813196 original size:17 final size:16
Alignment explanation
Indices: 65813162--65813196 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
65813152 TTTTAATTTT
*
65813162 TTTTTCAATTAGTTAA
1 TTTTTCAATTAATTAA
65813178 TTTTTCAATTAATTGAA
1 TTTTTCAATTAATT-AA
65813195 TT
1 TT
65813197 ATTAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (16 bp):
TTTTTCAATTAATTAA
Found at i:65816100 original size:10 final size:11
Alignment explanation
Indices: 65816075--65816108 Score: 52
Period size: 10 Copynumber: 3.1 Consensus size: 11
65816065 TGAATTTCAG
65816075 TTAATTTTGTAC
1 TTAATTTTG-AC
65816087 TTAATTTTGA-
1 TTAATTTTGAC
65816097 TTAATTTTGAC
1 TTAATTTTGAC
65816108 T
1 T
65816109 ATTTTCGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.48
11 2 0.10
12 9 0.43
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (11 bp):
TTAATTTTGAC
Found at i:65823930 original size:46 final size:45
Alignment explanation
Indices: 65823880--65824055 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
65823870 TGTTTGGGCA
*
65823880 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
65823926 TCCGAACTCATTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCATTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
65823973 TCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
65824019 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
65824056 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:65824035 original size:93 final size:93
Alignment explanation
Indices: 65823876--65824047 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
65823866 AGGATGTTTG
* * *
65823876 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
65823941 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
65823969 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
*
65824034 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
65824048 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:65828422 original size:53 final size:53
Alignment explanation
Indices: 65828241--65828449 Score: 256
Period size: 53 Copynumber: 3.9 Consensus size: 53
65828231 ATTAGGTTGT
* * * *
65828241 AAGGATACCAAGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG-TTTATAAGGC
* * * * * *
65828295 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGT-TTATAAGGC
* * * *
65828350 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTATAAGGC
*
65828403 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTA
65828450 AAAAGGAAAG
Statistics
Matches: 130, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
53 50 0.38
54 39 0.30
55 41 0.32
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTATAAGGC
Found at i:65841415 original size:43 final size:45
Alignment explanation
Indices: 65841348--65841475 Score: 156
Period size: 45 Copynumber: 2.9 Consensus size: 45
65841338 CTTGAGTTCA
* **
65841348 TTCACCGGCATT-TCGCCTGCTAGGCTTGAA-GCCCG-ATA-TCAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-AT
* *
65841390 TTCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTAT
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
* *
65841435 CTCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
65841476 TTACTGTACG
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 11 0.15
43 15 0.21
44 4 0.05
45 42 0.58
46 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (45 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
Found at i:65845294 original size:8 final size:8
Alignment explanation
Indices: 65845281--65845321 Score: 73
Period size: 8 Copynumber: 5.1 Consensus size: 8
65845271 ACAATAGCAA
65845281 CACTGTAG
1 CACTGTAG
65845289 CACTGTAG
1 CACTGTAG
65845297 CACTGTAG
1 CACTGTAG
65845305 CACTGTAG
1 CACTGTAG
*
65845313 CACTCTAG
1 CACTGTAG
65845321 C
1 C
65845322 TGAAACTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (8 bp):
CACTGTAG
Found at i:65857807 original size:21 final size:21
Alignment explanation
Indices: 65857783--65857844 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
65857773 TGGTAAATTA
65857783 TAAACTATAAACCTTAAACCC
1 TAAACTATAAACCTTAAACCC
* *
65857804 TAAA-TATTAAACCTTGAATCC
1 TAAACTA-TAAACCTTAAACCC
* *
65857825 TAAACCATAAAACCCTAAAC
1 TAAACTAT-AAACCTTAAAC
65857845 TATAAATAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.06
21 21 0.66
22 9 0.28
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAACTATAAACCTTAAACCC
Found at i:65857986 original size:20 final size:20
Alignment explanation
Indices: 65857948--65857987 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
65857938 CTTAAAACTA
***
65857948 TAAACCCTAAATTTTAAACC
1 TAAACCCTAAATCCAAAACC
65857968 TAAACCCTAAATCCAAAACC
1 TAAACCCTAAATCCAAAACC
65857988 ATAATACCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAACCCTAAATCCAAAACC
Found at i:65858357 original size:3 final size:3
Alignment explanation
Indices: 65858349--65858398 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
65858339 ATTAATAGTA
* * *
65858349 AAT AAT AAT AAT AAT AAA AAT AAT AAG AAT AAG AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65858397 AA
1 AA
65858399 AAGAGAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:65862521 original size:15 final size:13
Alignment explanation
Indices: 65862499--65862593 Score: 63
Period size: 14 Copynumber: 7.2 Consensus size: 13
65862489 TCAATCTTAT
65862499 TTTAATTAATATAA
1 TTTAATTAAT-TAA
* *
65862513 TTTGGATTAATTTA
1 TTT-AATTAATTAA
65862527 TTTAATT-ATT-A
1 TTTAATTAATTAA
65862538 TTTAATTAATATAA
1 TTTAATTAAT-TAA
* *
65862552 TTTGGATTAATTTA
1 TTT-AATTAATTAA
*
65862566 TTTAAAT-ATT-A
1 TTTAATTAATTAA
*
65862577 TTAAATTAATATAA
1 TTTAATTAAT-TAA
65862591 TTT
1 TTT
65862594 TTATAAATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
11 14 0.22
12 10 0.16
13 7 0.11
14 20 0.32
15 12 0.19
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (13 bp):
TTTAATTAATTAA
Found at i:65862524 original size:19 final size:18
Alignment explanation
Indices: 65862500--65862593 Score: 73
Period size: 19 Copynumber: 4.9 Consensus size: 18
65862490 CAATCTTATT
65862500 TTAATTAATATAATTTGGA
1 TTAATTAATATAATTT-GA
* * *
65862519 TTAATTTATTTAATTATTA
1 TTAATTAATATAATT-TGA
65862538 TTTAATTAATATAATTTGGA
1 -TTAATTAATATAATTT-GA
* *
65862558 TTAATTTATTTAAATATT-A
1 TTAATTAATAT-AAT-TTGA
65862577 TTAAATTAATATAATTT
1 TT-AATTAATATAATTT
65862594 TTATAAATAT
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
18 2 0.03
19 30 0.51
20 25 0.42
21 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
TTAATTAATATAATTTGA
Found at i:65862543 original size:39 final size:39
Alignment explanation
Indices: 65862499--65862613 Score: 176
Period size: 39 Copynumber: 2.9 Consensus size: 39
65862489 TCAATCTTAT
65862499 TTTAATTAATATAATTTGGATTAATTTATTTAATTATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAATTATTA
*
65862538 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAATTATTA
* ** *
65862577 TTAAATTAATATAATTTTTATAAATATTATTTAATTA
1 TTTAATTAATATAATTTGGATTAAT-TTATTTAATTA
65862614 AAATAAAATT
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 59 0.86
40 10 0.14
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (39 bp):
TTTAATTAATATAATTTGGATTAATTTATTTAATTATTA
Found at i:65862544 original size:20 final size:19
Alignment explanation
Indices: 65862518--65862613 Score: 77
Period size: 20 Copynumber: 4.9 Consensus size: 19
65862508 TATAATTTGG
65862518 ATTAATTTATTTAATTATT
1 ATTAATTTATTTAATTATT
* * *
65862537 ATTTAATTAATATAATT-TGG
1 A-TTAATTTATTTAATTAT-T
*
65862557 ATTAATTTATTTAAATATT
1 ATTAATTTATTTAATTATT
* * *
65862576 ATTAAATTAATATAATTTTT
1 ATT-AATTTATTTAATTATT
*
65862596 ATAAATATTATTTAATTA
1 ATTAAT-TTATTTAATTA
65862614 AAATAAAATT
Statistics
Matches: 57, Mismatches: 15, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
19 20 0.35
20 37 0.65
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
ATTAATTTATTTAATTATT
Done.