Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 38 of 250
Found at i:11414577 original size:28 final size:28
Alignment explanation
Indices: 11414517--11414588 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
11414507 TTTACTATAT
* * * * *
11414517 TTTTTATAATATTTATTAGTTTTTATGAT
1 TTTTTAT-ATTTTTATAAGTTTATATAAA
11414546 TTTTTATATTTTTATAAGTTTATATAAA
1 TTTTTATATTTTTATAAGTTTATATAAA
11414574 TTTTAATATATTTTT
1 TTTT--TATATTTTT
11414589 TAAAAATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 20 0.56
29 7 0.19
30 9 0.25
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (28 bp):
TTTTTATATTTTTATAAGTTTATATAAA
Found at i:11414865 original size:18 final size:19
Alignment explanation
Indices: 11414831--11414881 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
11414821 TTAATTAAAT
* * *
11414831 TTTTTTTTATTTTTAAG-G
1 TTTTTTTTATATATAAGCC
11414849 TTTTTTTTATATATAAGCC
1 TTTTTTTTATATATAAGCC
*
11414868 TTTTATTTATATAT
1 TTTTTTTTATATAT
11414882 CCATTCCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTTTTTATATATAAGCC
Found at i:11415571 original size:24 final size:24
Alignment explanation
Indices: 11415544--11415590 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11415534 CATCTCTTCT
11415544 TTTTTCTCTGCAT-TTTCTTTTTCC
1 TTTTTC-CTGCATCTTTCTTTTTCC
* *
11415568 TTTTTCCTTCTTCTTTCTTTTTC
1 TTTTTCCTGCATCTTTCTTTTTC
11415591 TTTGTTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTTTCCTGCATCTTTCTTTTTCC
Found at i:11415578 original size:17 final size:17
Alignment explanation
Indices: 11415558--11415590 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11415548 TCTCTGCATT
11415558 TTCTT-TTTCCTTTTTCC
1 TTCTTCTTT-CTTTTTCC
11415575 TTCTTCTTTCTTTTTC
1 TTCTTCTTTCTTTTTC
11415591 TTTGTTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (17 bp):
TTCTTCTTTCTTTTTCC
Found at i:11418391 original size:40 final size:40
Alignment explanation
Indices: 11418333--11418515 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
11418323 CGGATGATAA
* *
11418333 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
11418373 CCGGGCTAAG-CCTTGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCC-CGAAGGCATTTGTGCGAGTTACTATAT
* *
11418413 CCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** * * *
11418453 CAAGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
11418493 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
11418516 CGAACGAGTA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.02
40 116 0.96
41 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:11418524 original size:80 final size:80
Alignment explanation
Indices: 11418329--11418517 Score: 281
Period size: 80 Copynumber: 2.4 Consensus size: 80
11418319 TATTCGGATG
* * * * ** **
11418329 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCTTGAAGGC
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCAAGGCTAAGCCCCGAAGGC
*
11418393 ATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACC
11418409 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCAAGGCTAAGCCCCGAAGGCA
1 ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCAAGGCTAAGCCCCGAAGGCA
11418474 TTTGTGCGAGTTACC
66 TTTGTGCGAGTTACC
11418489 ATAACCGGGCTATGTCCCGAAGGCATTCG
1 ATAACCGGGCTATGTCCCGAAGGCATTCG
11418518 AACGAGTAGC
Statistics
Matches: 99, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 98 0.99
81 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCAAGGCTAAGCCCCGAAGGCA
TTTGTGCGAGTTACC
Found at i:11425366 original size:15 final size:15
Alignment explanation
Indices: 11425346--11425374 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11425336 GTCACCAAAA
11425346 TATCTACATACTTTT
1 TATCTACATACTTTT
11425361 TATCTACATACTTT
1 TATCTACATACTTT
11425375 CTTTAATAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.52
Consensus pattern (15 bp):
TATCTACATACTTTT
Found at i:11439338 original size:5 final size:5
Alignment explanation
Indices: 11439317--11439351 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
11439307 CCTCTAGTCC
*
11439317 TTTAC TTTAT TTT-T TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
11439352 AATTAGAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:11439621 original size:23 final size:21
Alignment explanation
Indices: 11439574--11439614 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11439564 TCAAATTAAA
11439574 TAAAAAATATGAACAATTTTT
1 TAAAAAATATGAACAATTTTT
* *
11439595 TAAAAAATATTAATAATTTT
1 TAAAAAATATGAACAATTTT
11439615 ATTTAAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAAAAATATGAACAATTTTT
Found at i:11441634 original size:46 final size:48
Alignment explanation
Indices: 11441490--11441850 Score: 236
Period size: 48 Copynumber: 7.7 Consensus size: 48
11441480 ATTGTGTGCT
* * *
11441490 AGTGTAAGA-CATATCTGGGACAT-GCATCGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTA-AGCC
* * * * * *
11441536 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGCC
*
11441584 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGCC
* * * *
11441630 AGTGTAA-AGCATGTCTAGAACAT-GCATCGG-CTACGAGATGT---TC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAAGCC
* * * * *
11441673 AGTGTAAGACAATGTTTGGGACATGGCATCGGCAT-GTATAGAGGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCG---AGATGTAAGCC
* * * *
11441721 AGTGTAAGACCATGTCTGGGACATGGCATTGGCAC-GGATATGTAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT-A-AGCC
* ** *
11441771 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGATTTCG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGAT-GTA-AGCC
* *
11441820 AGTGTAAGACCAT-TCTAGGACATGGCGTCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
11441851 TATTATACCC
Statistics
Matches: 254, Mismatches: 40, Indels: 40
0.76 0.12 0.12
Matches are distributed among these distances:
43 8 0.03
44 12 0.05
45 10 0.04
46 67 0.26
47 29 0.11
48 71 0.28
49 20 0.08
50 36 0.14
51 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAAGCC
Found at i:11444319 original size:35 final size:35
Alignment explanation
Indices: 11444272--11444370 Score: 103
Period size: 35 Copynumber: 2.8 Consensus size: 35
11444262 TATATCTAAG
* *
11444272 TATACAATTTCAATATAAGTTCACATGTAATCGAA
1 TATACAAATTCAATATAAGTTCACATGTAACCGAA
** * *
11444307 TACTA-AAATTCAATATAACCTCACATGCAGCCGAA
1 TA-TACAAATTCAATATAAGTTCACATGTAACCGAA
*
11444342 TATACAAGTTCAATATAAGCTT-ACATGTA
1 TATACAAATTCAATATAAG-TTCACATGTA
11444371 CTTACCTATG
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
34 2 0.04
35 46 0.90
36 3 0.06
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (35 bp):
TATACAAATTCAATATAAGTTCACATGTAACCGAA
Found at i:11452520 original size:48 final size:46
Alignment explanation
Indices: 11452419--11452546 Score: 159
Period size: 47 Copynumber: 2.7 Consensus size: 46
11452409 GATATTGTGT
* *
11452419 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCAACACTATGAGA
1 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCAACACAATGAGA
* ** *
11452465 GCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCATTGA-AATGGGA
1 GCTAGTGTAAAA-CATGTCTGGGACAT-GCATCGGCA-ACACAATGAGA
*
11452513 GCTAGTGTAAAACATGTCTGGGATATGCATCGGC
1 GCTAGTGTAAAACATGTCTGGGACATGCATCGGC
11452547 CTCGAGATGT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
46 18 0.25
47 27 0.38
48 25 0.35
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAAACATGTCTGGGACATGCATCGGCAACACAATGAGA
Found at i:11452566 original size:46 final size:46
Alignment explanation
Indices: 11452422--11452631 Score: 187
Period size: 46 Copynumber: 4.5 Consensus size: 46
11452412 ATTGTGTGCT
* * *
11452422 AGTGTAAGACATGTCTGGGACATGCATCGGCAAC-ACTATG-AGAGCC
1 AGTGTAAAACATGTCTGGGACATGCATCGGCATCGA-GATGTA-AGCC
* * ** *
11452468 AGTGTAAAACCATGTCTGGGACATGGCATCGGCATTGAAATGGGAGCT
1 AGTGTAAAA-CATGTCTGGGACAT-GCATCGGCATCGAGATGTAAGCC
* *
11452516 AGTGTAAAACATGTCTGGGATATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAAACATGTCTGGGACATGCATCGGCATCGAGATGTAAGCC
* * * *
11452562 AGTGTAAGACATGTCTAGGACATGCTTCGGC-TACGAGATGT--GTC
1 AGTGTAAAACATGTCTGGGACATGCATCGGCAT-CGAGATGTAAGCC
* *
11452606 AGTGCAAGATCATGTCTGGGACATGC
1 AGTGTAA-AACATGTCTGGGACATGC
11452632 CATCAGCACA
Statistics
Matches: 136, Mismatches: 22, Indels: 13
0.80 0.13 0.08
Matches are distributed among these distances:
44 8 0.06
45 16 0.12
46 60 0.44
47 27 0.20
48 24 0.18
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAAACATGTCTGGGACATGCATCGGCATCGAGATGTAAGCC
Found at i:11454914 original size:27 final size:27
Alignment explanation
Indices: 11454868--11454942 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 27
11454858 ATTACTGAAA
* * *
11454868 TACCCTCAAATTGTAAAATTATCAAAG
1 TACCCTCAATTTATAGAATTATCAAAG
****
11454895 TACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCAATTTATAGAATTATCAAAG
*
11454922 TACCCTCGATTTATAGAATTA
1 TACCCTCAATTTATAGAATTA
11454943 CTGTTTTATC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (27 bp):
TACCCTCAATTTATAGAATTATCAAAG
Found at i:11454948 original size:27 final size:27
Alignment explanation
Indices: 11454895--11454998 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 27
11454885 ATTATCAAAG
* *
11454895 TACCCTCAATTTATAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
11454922 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
11454949 TATCCTTGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
11454976 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
11454999 AAAATACCCT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
27 66 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:11455016 original size:54 final size:54
Alignment explanation
Indices: 11454882--11455023 Score: 142
Period size: 54 Copynumber: 2.6 Consensus size: 54
11454872 CTCAAATTGT
* * * *
11454882 AAAATTA-TCAAAGTACCCTCAATTTATAGAATTATCGTTTTACCCTCGATTTAT
1 AAAATTACT-AAAATACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
* **** * * *
11454936 AGAATTACTGTTTTATCCTTGATTTACAGAATTATTGTTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
* *
11454990 AAAATTACTAAAATACCCTCGGTTTACAAAATTA
1 AAAATTACTAAAATACCCTCGATTTACAGAATTA
11455024 CCAAAATACC
Statistics
Matches: 67, Mismatches: 20, Indels: 2
0.75 0.22 0.02
Matches are distributed among these distances:
54 66 0.99
55 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTAC
Found at i:11455034 original size:54 final size:55
Alignment explanation
Indices: 11454976--11455327 Score: 267
Period size: 54 Copynumber: 6.5 Consensus size: 55
11454966 ATTATTGTTT
** * *
11454976 TACCCTCGA-TTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTCGGTTTACAAAATTACTAAAA
* * * * *
11455030 TACCCTCGA-TTAGTAAAATTACCAAAATACCCT-AGTCTATAAAATTGCTAAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTCGGTTTACAAAATTACTAAAA
* * ** ** *
11455083 TACCCTTG-GTTTGTAAAATTA-TAGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGAGTTTGTAAAATTACCA-AAATACCCTCGGTTTACAAAATTACTAAAA
* *** *
11455137 TACCC-CTAGTTTGTAAAATTACCAAAATACCACT-GGTTTGTGAAATTACTGAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACC-CTCGGTTTACAAAATTACTAAAA
* * *
11455191 TACCCTC-AGTTTGTAAAACTACCAAAATACCC-CTGATTTACAAAGTTA-TAGAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAATACCCTC-GGTTTACAAAATTACTA-AAA
* * * ** * * *
11455245 TACCCTTGACTTTCTAAAAATTATGAAAATACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGAGTTTGT-AAAATTACCAAAATACCCTCGGTTTACAAAATTACTAAAA
* * *
11455301 TACCCTTG-GTTTGTAGATTTACCAAAA
1 TACCCTCGAGTTTGTAAAATTACCAAAA
11455328 CACCATTGTA
Statistics
Matches: 235, Mismatches: 49, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
52 1 0.00
53 44 0.19
54 139 0.59
55 13 0.06
56 37 0.16
57 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (55 bp):
TACCCTCGAGTTTGTAAAATTACCAAAATACCCTCGGTTTACAAAATTACTAAAA
Found at i:11455061 original size:81 final size:78
Alignment explanation
Indices: 11454976--11455250 Score: 277
Period size: 81 Copynumber: 3.4 Consensus size: 78
11454966 ATTATTGTTT
** *
11454976 TACCCTCGATTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCTCGATT
1 TACCC-CGATTTACAAAATTACTAAAATACCCT-GGTTTGTAAAATTACTAAAATACCCTC-ATT
*
11455041 AGTAAAATTACCAAAA
63 TGTAAAATTACCAAAA
* * * *
11455057 TA-CCCTAGTCTATAAAATTGCTAAAATACCCTTGGTTTGTAAAATTA-TAGAAATACCCTCAAT
1 TACCCCGA-TTTACAAAATTACTAAAATACCC-TGGTTTGTAAAATTACTA-AAATACCCTC-AT
11455120 TTGTAAAATTACCAAAA
62 TTGTAAAATTACCAAAA
* ** * * *
11455137 TACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACTGAAATACCCTCAGTT
1 TACCCCGA-TTTACAAAATTACTAAAATACC-CTGGTTTGTAAAATTACTAAAATACCCTCA-TT
*
11455202 TGTAAAACTACCAAAA
63 TGTAAAATTACCAAAA
*
11455218 TACCCCTGATTTACAAAGTTA-TAGAAATACCCT
1 TACCCC-GATTTACAAAATTACTA-AAATACCCT
11455251 TGACTTTCTA
Statistics
Matches: 164, Mismatches: 21, Indels: 19
0.80 0.10 0.09
Matches are distributed among these distances:
79 3 0.02
80 68 0.41
81 90 0.55
82 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (78 bp):
TACCCCGATTTACAAAATTACTAAAATACCCTGGTTTGTAAAATTACTAAAATACCCTCATTTGT
AAAATTACCAAAA
Found at i:11455309 original size:27 final size:27
Alignment explanation
Indices: 11454976--11455312 Score: 218
Period size: 27 Copynumber: 12.4 Consensus size: 27
11454966 ATTATTGTTT
* * *
11454976 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * *
11455003 TACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * *
11455030 TACCC-TCGATTAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-TAAAATTACTAAAA
* * *
11455057 TACCC-TAGTCTATAAAATTGCTAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
*
11455083 TACCCTTGGTTTGTAAAATTA-TAGAAA
1 TACCCTTGGTTTATAAAATTACTA-AAA
*** * *
11455110 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * * *
11455137 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * *
11455164 TACCAC-TGGTTTGTGAAATTACTGAAA
1 TACC-CTTGGTTTATAAAATTACTAAAA
** * * *
11455191 TACCCTCAGTTTGTAAAACTACCAAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
* * * *
11455218 TACCCCTGATTTACAAAGTTA-TAGAAA
1 TACCCTTGGTTTATAAAATTACTA-AAA
* *
11455245 TACCCTTGACTTTCTAAAAATTA-TGAAAA
1 TACCCTTG-GTTTAT-AAAATTACT-AAAA
* * *
11455274 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTATAAAATTACTAAAA
11455301 TACCCTTGGTTT
1 TACCCTTGGTTT
11455313 GTAGATTTAC
Statistics
Matches: 247, Mismatches: 52, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
26 25 0.10
27 195 0.79
28 9 0.04
29 17 0.07
30 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTATAAAATTACTAAAA
Found at i:11455457 original size:27 final size:27
Alignment explanation
Indices: 11455366--11455457 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
11455356 ACCTCTATTA
* *
11455366 GGTAAAAAGACCGTAAAGCCCCTATAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
11455393 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
11455420 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
11455447 GGTAAAATGAC
1 GGTAAAATGAC
11455458 GAATATGCCC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:11456331 original size:25 final size:26
Alignment explanation
Indices: 11456258--11456354 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
11456248 GAGGAAGTGC
11456258 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
11456284 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
11456310 GAAAGGGCTT-TGCCCCAATTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
11456335 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
11456355 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 31 0.48
26 34 0.52
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:11456650 original size:31 final size:31
Alignment explanation
Indices: 11456573--11456651 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
11456563 CATTTACAGT
*
11456573 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
11456604 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
11456635 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
11456652 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:11463060 original size:40 final size:40
Alignment explanation
Indices: 11463023--11463207 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
11463013 GCTACTCGTT
*
11463023 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
11463063 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
11463103 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
11463142 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
11463183 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11463208 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 79 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:11463134 original size:79 final size:82
Alignment explanation
Indices: 11463023--11463207 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
11463013 GCTACTCGTT
* * *
11463023 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCC
* *
11463086 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
11463103 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCACACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
* *
11463166 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
11463183 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11463208 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:11465700 original size:11 final size:11
Alignment explanation
Indices: 11465684--11465716 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
11465674 GGTCAAGAAG
11465684 TTAAGGAATAA
1 TTAAGGAATAA
11465695 TTAAGGAATAA
1 TTAAGGAATAA
11465706 TTAAGGAATAA
1 TTAAGGAATAA
11465717 AAGTGTAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (11 bp):
TTAAGGAATAA
Found at i:11467267 original size:48 final size:49
Alignment explanation
Indices: 11467200--11467428 Score: 152
Period size: 48 Copynumber: 4.7 Consensus size: 49
11467190 GCTACGAGAT
*
11467200 GTGTCAGTGTAAGATCATGTCTGGGACATGGCATCAGCAC-ATATAG-AA
1 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGATAT-GTAA
* ** * *
11467248 GTGTCAATGTAAGACCATGTCTGGGATTTAGCATCGGCACGGATATGTAA
1 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAC-GATATGTAA
* ** * *
11467298 GAG-CTAGTGTAAGACCATGTCTGGGACATGGTGTCGGCCTCG--ATGTCAA
1 GTGTC-AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGATATGT-AA
* * * * *
11467347 -TACTCAGTGTAAGGCCATGTCTGGGACATGGCATC-G-AC-TTGATGGAT
1 GT-GTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGAT-ATGTAA
* * * *
11467394 GAGCCAGTGTAAAACCATGTATGGGACATGGCATC
1 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATC
11467429 GACATTATAA
Statistics
Matches: 141, Mismatches: 28, Indels: 25
0.73 0.14 0.13
Matches are distributed among these distances:
46 1 0.01
47 29 0.21
48 42 0.30
49 31 0.22
50 36 0.26
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (49 bp):
GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGATATGTAA
Found at i:11467335 original size:50 final size:50
Alignment explanation
Indices: 11467068--11467429 Score: 211
Period size: 46 Copynumber: 7.6 Consensus size: 50
11467058 ATTGTGTGCT
* * * *
11467068 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGAAACG--GGAGCT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATATGTAAGAGCTC
* * *
11467115 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGATGT-A-AGC-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGATATGTAAGAGCTC
* * * *
11467161 AATGTAAGA-CATGTCTAGGACAT-GCTTCGGCTACGAGATGT----G-TC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACGATATGTAAGAGCTC
* * *
11467205 AGTGTAAGATCATGTCTGGGACATGGCATCAGCAC-ATATAG-AAGTG-TC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATAT-GTAAGAGCTC
* ** *
11467253 AATGTAAGACCATGTCTGGGATTTAGCATCGGCACGGATATGTAAGAGCT-
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GATATGTAAGAGCTC
** * *
11467303 AGTGTAAGACCATGTCTGGGACATGGTGTCGGCCTCG--ATGTCAATA-CTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACGATATGT-AAGAGCTC
* * * *
11467352 AGTGTAAGGCCATGTCTGGGACATGGCATC-G-AC-TTGATGGATGAGC-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGAT-ATGTAAGAGCTC
* *
11467399 AGTGTAAAACCATGTATGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
11467430 ACATTATAAC
Statistics
Matches: 252, Mismatches: 39, Indels: 47
0.75 0.12 0.14
Matches are distributed among these distances:
44 13 0.05
45 17 0.07
46 57 0.23
47 53 0.21
48 43 0.17
49 31 0.12
50 35 0.14
51 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATATGTAAGAGCTC
Found at i:11475620 original size:13 final size:13
Alignment explanation
Indices: 11475602--11475641 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
11475592 AGAGTAATAG
11475602 CACACGGGCGTGT
1 CACACGGGCGTGT
*
11475615 CACACGGGTGTGT
1 CACACGGGCGTGT
11475628 CACACGGGCGTGT
1 CACACGGGCGTGT
11475641 C
1 C
11475642 CCTTCCGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.30, G:0.38, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:11479898 original size:39 final size:40
Alignment explanation
Indices: 11479781--11479965 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
11479771 GCTACTCGTT
*
11479781 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
11479821 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
11479861 CCAATGCCTTCGGG-CTTATCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
11479900 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
11479941 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11479966 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:11479949 original size:79 final size:80
Alignment explanation
Indices: 11479781--11479965 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
11479771 GCTACTCGTT
* *
11479781 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
* *
11479845 GATTTAGTAACTCGCAC
64 GATATAGTAACTAGCAC
* * * *
11479862 CAATGCCTTCGGG-CTTATCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* *
11479925 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
11479941 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
11479966 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.66
80 24 0.27
81 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TATAGTAACTAGCAC
Found at i:11486880 original size:14 final size:13
Alignment explanation
Indices: 11486860--11486891 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
11486850 AATATTTAAC
11486860 TTGTTCTTAATTA
1 TTGTTCTTAATTA
11486873 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
11486887 TTGTT
1 TTGTT
11486892 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:11495659 original size:46 final size:46
Alignment explanation
Indices: 11495592--11495765 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
11495582 TGTAACCCGC
*
11495592 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
11495638 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
11495688 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
11495731 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCG
11495766 ATGCTCAACC
Statistics
Matches: 109, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:11495712 original size:93 final size:92
Alignment explanation
Indices: 11495599--11495769 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 92
11495589 CGCCCATAAG
* *
11495599 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
11495664 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTC-GATGCCTAGTTACATCTCA
*
11495692 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
11495757 ACGAGTTCGATGC
66 ACGAGTTCGATGC
11495770 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 5 0.07
93 70 0.93
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGATGCCTAGTTACATCTCA
Found at i:11501709 original size:40 final size:40
Alignment explanation
Indices: 11501649--11501912 Score: 345
Period size: 40 Copynumber: 6.5 Consensus size: 40
11501639 TATTCGGATG
* * *
11501649 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
11501689 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
* *
11501732 ATACCCGGGCCAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
11501772 ATACCCGGGCAAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
11501812 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
11501852 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
11501892 ATATCC-GGCTAAATCTCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
11501913 ATACTTGGGT
Statistics
Matches: 201, Mismatches: 17, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
39 14 0.07
40 150 0.75
41 2 0.01
43 34 0.17
44 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:11503589 original size:13 final size:13
Alignment explanation
Indices: 11503567--11503603 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
11503557 GTAATCGCAT
*
11503567 ACGGGTGTGTCAC
1 ACGGGCGTGTCAC
11503580 ACGGGCGTGTCAC
1 ACGGGCGTGTCAC
*
11503593 ACGAGCGTGTC
1 ACGGGCGTGTC
11503604 CCTGCCGAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.16, C:0.27, G:0.38, T:0.19
Consensus pattern (13 bp):
ACGGGCGTGTCAC
Found at i:11527362 original size:40 final size:41
Alignment explanation
Indices: 11527268--11527373 Score: 119
Period size: 40 Copynumber: 2.6 Consensus size: 41
11527258 GTGACTCGAA
* * *
11527268 CTTCACTGATACACAACTTGTCACTTAAGCTCGCATAGGGAG
1 CTTCTCTGATACACAACTTATCACATAAGCTC-CATAGGGAG
* *
11527310 TTTCTCTAATACACAACTTATCA-ATAAGCT-CATGAGGGAG
1 CTTCTCTGATACACAACTTATCACATAAGCTCCAT-AGGGAG
11527350 CTTCGT-TGATACACAACTTATCAC
1 CTTC-TCTGATACACAACTTATCAC
11527374 TAACGAGGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
39 3 0.06
40 25 0.46
41 7 0.13
42 19 0.35
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (41 bp):
CTTCTCTGATACACAACTTATCACATAAGCTCCATAGGGAG
Found at i:11527429 original size:14 final size:15
Alignment explanation
Indices: 11527406--11527436 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
11527396 CATAACTTAT
11527406 AAAACTATTTTTTAA
1 AAAACTATTTTTTAA
11527421 AAAAC-ATTTTTTAA
1 AAAACTATTTTTTAA
11527435 AA
1 AA
11527437 TCTTAGCCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAACTATTTTTTAA
Found at i:11537260 original size:30 final size:30
Alignment explanation
Indices: 11537224--11537281 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
11537214 CCCGAGCCTA
*
11537224 GGGGCAAAA-GTGTAATTATGCAAAAGTTTG
1 GGGGCAAAATG-GTAATTATGAAAAAGTTTG
*
11537254 GGGGCAAAATGGTAATTTTGAAAAAGTT
1 GGGGCAAAATGGTAATTATGAAAAAGTT
11537282 CGTATTAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.38, C:0.05, G:0.29, T:0.28
Consensus pattern (30 bp):
GGGGCAAAATGGTAATTATGAAAAAGTTTG
Found at i:11537754 original size:47 final size:47
Alignment explanation
Indices: 11537702--11537875 Score: 196
Period size: 47 Copynumber: 3.7 Consensus size: 47
11537692 TGGTTGAACA
*
11537702 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGTGAAACG
* * *
11537749 TCCGAACTCGTTGAGTTGAGTCCGAGTT--CGTGA-GATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGTGAA--A--CG
* *
11537796 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGTGAAACG
* * *
11537842 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
11537876 TGGGCGGGTT
Statistics
Matches: 107, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 4 0.04
46 32 0.30
47 56 0.52
48 1 0.01
49 2 0.02
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGTGAAACG
Found at i:11540450 original size:31 final size:31
Alignment explanation
Indices: 11540412--11540474 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
11540402 ACGTTAATGA
11540412 ATCAATATATGTAACCGTGGCATATCCACTT
1 ATCAATATATGTAACCGTGGCATATCCACTT
* * *
11540443 ATCAATATGTGTAATCGTGGTATATCCACTT
1 ATCAATATATGTAACCGTGGCATATCCACTT
11540474 A
1 A
11540475 GCACCATGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (31 bp):
ATCAATATATGTAACCGTGGCATATCCACTT
Found at i:11544762 original size:28 final size:28
Alignment explanation
Indices: 11544731--11544784 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
11544721 CCATCACAGA
* *
11544731 AACAGTATCAGGTGGGCCTT-AGCCCAGT
1 AACAGAATCAAGTGGG-CTTAAGCCCAGT
11544759 AACAGAATCAAGTGGGCTTAAGCCCA
1 AACAGAATCAAGTGGGCTTAAGCCCA
11544785 ATTGATTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (28 bp):
AACAGAATCAAGTGGGCTTAAGCCCAGT
Found at i:11561143 original size:33 final size:31
Alignment explanation
Indices: 11561084--11561146 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 31
11561074 TTAAGTAATT
* *
11561084 TAACTTTTTTTAGAAAGTTAATAGTCAAATA
1 TAACTTTTTTTAAAAAGTTAAGAGTCAAATA
*
11561115 TAACTTTTTTTTAAAAAGGTTGAGAGTCAAAT
1 TAAC-TTTTTTTAAAAA-GTTAAGAGTCAAAT
11561147 GTAGCGTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 4 0.15
32 11 0.41
33 12 0.44
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (31 bp):
TAACTTTTTTTAAAAAGTTAAGAGTCAAATA
Found at i:11562606 original size:20 final size:20
Alignment explanation
Indices: 11562583--11562625 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11562573 AAATCCAAAT
11562583 TAAAATACTAAAATTCAAGA
1 TAAAATACTAAAATTCAAGA
* * *
11562603 TAAAATCCTGAAATTCAGGA
1 TAAAATACTAAAATTCAAGA
11562623 TAA
1 TAA
11562626 GAGTACTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAAGA
Found at i:11563497 original size:16 final size:17
Alignment explanation
Indices: 11563461--11563497 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
11563451 CAAATTTATT
11563461 TAATAATAAATGTTAAA
1 TAATAATAAATGTTAAA
*
11563478 -AATAAT-AATTTTAAA
1 TAATAATAAATGTTAAA
11563493 TAATA
1 TAATA
11563498 TTCATCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TAATAATAAATGTTAAA
Found at i:11566347 original size:20 final size:20
Alignment explanation
Indices: 11566324--11566361 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11566314 GGTATAATTG
*
11566324 TTATTCCCAGAAAATAAAAT
1 TTATACCCAGAAAATAAAAT
*
11566344 TTATACCTAGAAAATAAA
1 TTATACCCAGAAAATAAA
11566362 TTTCTCACTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (20 bp):
TTATACCCAGAAAATAAAAT
Found at i:11569052 original size:19 final size:18
Alignment explanation
Indices: 11569019--11569054 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
11569009 GGGTAGGTTG
11569019 TGTGGTCACACACGCCCA
1 TGTGGTCACACACGCCCA
*
11569037 TGTGGCTCAGACACGCCC
1 TGTGG-TCACACACGCCC
11569055 GTGTCTTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.19, C:0.39, G:0.25, T:0.17
Consensus pattern (18 bp):
TGTGGTCACACACGCCCA
Found at i:11570695 original size:50 final size:50
Alignment explanation
Indices: 11570571--11570856 Score: 284
Period size: 50 Copynumber: 5.6 Consensus size: 50
11570561 AACCATCGCT
* * * * * **
11570571 TACACATAGTGGCCTGCATTTAGTACCACACATGTGATCGAAGCTATCGGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CTATCTTG
* *
11570622 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTTG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTTG
* * * * * *
11570672 TACACGTAGTAGCATGCATTTAGTACTACACATGTGACCTAAAACCATTTTA
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACTATCTTG
* * * * * * **
11570724 AACACATAGTGGCTTGCACTTAGTACCACACATGTGATCGAAGCTATCGGG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CTATCTTG
* * *
11570775 TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCTTG
1 TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTTG
* *
11570825 TACACGTAGTAGCCTGCATTTAGTACTACACA
1 TACACATAGTAGCCTGCACTTAGTACTACACA
11570857 CGTGTTCTTA
Statistics
Matches: 188, Mismatches: 44, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
50 77 0.41
51 72 0.38
52 39 0.21
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
TACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTTG
Found at i:11570806 original size:103 final size:102
Alignment explanation
Indices: 11570626--11570856 Score: 268
Period size: 103 Copynumber: 2.3 Consensus size: 102
11570616 ATCGGGTACG
* * ** * *
11570626 CATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTTGTACACGTAGTAGCATGCAT
1 CATAGTAGCCTGCACTTAGTACCACACATGCGACCGAACTATCGGGTACACATAGTAGCATGCAC
*
11570691 TTAGTACTACACATGTGACCTAAAACCATTTTAAACA
66 TTAGTACTACACATGCGACCTAAAACCATTTTAAACA
* * * * * *
11570728 CATAGTGGCTTGCACTTAGTACCACACATGTGATCGAAGCTATCGGGTACGCATAGTAGCCTGCA
1 CATAGTAGCCTGCACTTAGTACCACACATGCGACCGAA-CTATCGGGTACACATAGTAGCATGCA
* **
11570793 CTTAGTACTACACATGCGACCT--AACCATCTTGTACA
65 CTTAGTACTACACATGCGACCTAAAACCATTTTAAACA
* * *
11570829 CGTAGTAGCCTGCATTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACCACACA
11570857 CGTGTTCTTA
Statistics
Matches: 107, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
101 34 0.32
102 32 0.30
103 41 0.38
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (102 bp):
CATAGTAGCCTGCACTTAGTACCACACATGCGACCGAACTATCGGGTACACATAGTAGCATGCAC
TTAGTACTACACATGCGACCTAAAACCATTTTAAACA
Found at i:11570837 original size:153 final size:153
Alignment explanation
Indices: 11570572--11570856 Score: 534
Period size: 153 Copynumber: 1.9 Consensus size: 153
11570562 ACCATCGCTT
*
11570572 ACACATAGTGGCCTGCATTTAGTACCACACATGTGATCGAAGCTATCGGGTACGCATAGTAGCCT
1 ACACATAGTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGGTACGCATAGTAGCCT
*
11570637 GCACTTAGTACTACACATGCGACCTAACTATCTTGTACACGTAGTAGCATGCATTTAGTACTACA
66 GCACTTAGTACTACACATGCGACCTAACCATCTTGTACACGTAGTAGCATGCATTTAGTACTACA
11570702 CATGTGACCTAAAACCATTTTAA
131 CATGTGACCTAAAACCATTTTAA
*
11570725 ACACATAGTGGCTTGCACTTAGTACCACACATGTGATCGAAGCTATCGGGTACGCATAGTAGCCT
1 ACACATAGTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGGTACGCATAGTAGCCT
*
11570790 GCACTTAGTACTACACATGCGACCTAACCATCTTGTACACGTAGTAGCCTGCATTTAGTACTACA
66 GCACTTAGTACTACACATGCGACCTAACCATCTTGTACACGTAGTAGCATGCATTTAGTACTACA
11570855 CA
131 CA
11570857 CGTGTTCTTA
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
153 128 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (153 bp):
ACACATAGTGGCCTGCACTTAGTACCACACATGTGATCGAAGCTATCGGGTACGCATAGTAGCCT
GCACTTAGTACTACACATGCGACCTAACCATCTTGTACACGTAGTAGCATGCATTTAGTACTACA
CATGTGACCTAAAACCATTTTAA
Found at i:11574888 original size:18 final size:19
Alignment explanation
Indices: 11574853--11574896 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
11574843 ATTTTTCCTT
11574853 TCTTTTTTTTTCTATTCTC
1 TCTTTTTTTTTCTATTCTC
*
11574872 TCTTTTTTTTTC-CTTCTC
1 TCTTTTTTTTTCTATTCTC
*
11574890 ACTTTTT
1 TCTTTTT
11574897 CCCTCTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTTTTTTTTCTATTCTC
Found at i:11577792 original size:31 final size:31
Alignment explanation
Indices: 11577754--11577814 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
11577744 TTCCTGCACT
11577754 AAATCCAACCAAAAACAGCAAATATAGCATG
1 AAATCCAACCAAAAACAGCAAATATAGCATG
*
11577785 AAATCCAACCAAAAACAGCAAATGTAGCAT
1 AAATCCAACCAAAAACAGCAAATATAGCAT
11577815 AAAAAATACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.54, C:0.23, G:0.10, T:0.13
Consensus pattern (31 bp):
AAATCCAACCAAAAACAGCAAATATAGCATG
Found at i:11578095 original size:21 final size:21
Alignment explanation
Indices: 11578079--11578119 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11578069 GTTGCTGTCT
*
11578079 CTGCCTCTCTCACTGCTGCCA
1 CTGCCTCCCTCACTGCTGCCA
*
11578100 CTGCCTCCCTCTCTGCTGCC
1 CTGCCTCCCTCACTGCTGCC
11578120 TTCGCTCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.05, C:0.51, G:0.15, T:0.29
Consensus pattern (21 bp):
CTGCCTCCCTCACTGCTGCCA
Found at i:11578556 original size:13 final size:14
Alignment explanation
Indices: 11578530--11578558 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
11578520 ACTAACGATG
11578530 AATTAAACCATTAT
1 AATTAAACCATTAT
11578544 AATTAAA-CATTAT
1 AATTAAACCATTAT
11578557 AA
1 AA
11578559 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:11583552 original size:42 final size:43
Alignment explanation
Indices: 11583488--11583602 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 43
11583478 CTATTCGAGC
* * *
11583488 CTTCGAGCCTAGCAGGCTATAATGCCGGTGATTTAATAT-GGG
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGAGTTAATATCGGG
* * *
11583530 TTTTAAGCCTAGCATGCTATAATGCCAGTGAGTTAATATCGGG
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGAGTTAATATCGGG
* * *
11583573 CTTCGAGCCTAGCAGGC-GTAATACCAGTGA
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGA
11583603 ATGAATTCAG
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 44 0.73
43 16 0.27
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (43 bp):
CTTCAAGCCTAGCAGGCTATAATGCCAGTGAGTTAATATCGGG
Found at i:11589836 original size:24 final size:24
Alignment explanation
Indices: 11589804--11589852 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
11589794 TCGAGGTAAG
11589804 TTTTAAGTAGTTAAACATAAATAA
1 TTTTAAGTAGTTAAACATAAATAA
11589828 TTTTAAGTAGTTAAACATAAATAA
1 TTTTAAGTAGTTAAACATAAATAA
11589852 T
1 T
11589853 ATTCGATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (24 bp):
TTTTAAGTAGTTAAACATAAATAA
Found at i:11590266 original size:43 final size:43
Alignment explanation
Indices: 11590200--11590397 Score: 165
Period size: 42 Copynumber: 4.7 Consensus size: 43
11590190 TTATTCGAGC
* * *
11590200 CTTCGAGCCTAGCA-GCTATAATGCCGGTGATTTAATATCGGG
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGAATTAATATCGGG
* *
11590242 CTTTAAGCCTAGCAGGCTATAATGCTAGTGAATTAATATCGGG
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGAATTAATATCGGG
* * * * *
11590285 CTTCGAGCCTAGCAGGC-GTAATGCCAGTGAATGAAT-TCAGA
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGAATTAATATCGGG
* * * * * * *
11590326 CTTAAAGTCTAGCAGGCT-TCATGTCAGTG-ATAAAAATTCAGG
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGAATTAATA-TCGGG
* * *
11590368 TTTCAAACCTAGCAGGCTA-ATTGCCAGTGA
1 CTTCAAGCCTAGCAGGCTATAATGCCAGTGA
11590398 TTTGATATAC
Statistics
Matches: 123, Mismatches: 27, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
40 4 0.03
41 26 0.21
42 53 0.43
43 40 0.33
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (43 bp):
CTTCAAGCCTAGCAGGCTATAATGCCAGTGAATTAATATCGGG
Found at i:11592238 original size:9 final size:9
Alignment explanation
Indices: 11592218--11592448 Score: 88
Period size: 9 Copynumber: 25.9 Consensus size: 9
11592208 ATGTATTACA
*
11592218 TAAGTTAAG
1 TAAGTTATG
11592227 TAAGCTT-TG
1 TAAG-TTATG
11592236 TAAGTTATG
1 TAAGTTATG
11592245 TAAGTTATG
1 TAAGTTATG
* * *
11592254 TTA-TGATA
1 TAAGTTATG
*
11592262 TACATTTATG
1 TA-AGTTATG
*
11592272 TAAGGTATG
1 TAAGTTATG
11592281 TAAGTTATG
1 TAAGTTATG
* ** *
11592290 ATATGACATA
1 -TAAGTTATG
*
11592300 T-ATTTATG
1 TAAGTTATG
11592308 T-A-TTATG
1 TAAGTTATG
*
11592315 TAAGTTGTG
1 TAAGTTATG
11592324 TAAGTTATG
1 TAAGTTATG
* * *
11592333 ATATGATATA
1 -TAAGTTATG
*
11592343 T-ATTTATG
1 TAAGTTATG
11592351 T-A-TTATG
1 TAAGTTATG
* *
11592358 TTAGTTGTG
1 TAAGTTATG
11592367 TAAGTTATG
1 TAAGTTATG
* * *
11592376 ATATGATATA
1 -TAAGTTATG
*
11592386 T-ATTTATG
1 TAAGTTATG
*
11592394 ATATATATTTATG
1 ---TA-AGTTATG
11592407 T-A-TTATG
1 TAAGTTATG
*
11592414 TAAGTTTTG
1 TAAGTTATG
11592423 TAAGTTATG
1 TAAGTTATG
11592432 TAAGTTATG
1 TAAGTTATG
11592441 TAAGTTAT
1 TAAGTTAT
11592449 TATATGATAT
Statistics
Matches: 164, Mismatches: 40, Indels: 36
0.68 0.17 0.15
Matches are distributed among these distances:
7 18 0.11
8 22 0.13
9 91 0.55
10 25 0.15
11 1 0.01
13 7 0.04
ACGTcount: A:0.33, C:0.01, G:0.18, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:11592281 original size:36 final size:36
Alignment explanation
Indices: 11592234--11592309 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
11592224 AAGTAAGCTT
* * *
11592234 TGTAAGTTATGTAAGTTATGTTATGATATACATTTA
1 TGTAAGGTATGTAAGTTATGATATGACATACATTTA
*
11592270 TGTAAGGTATGTAAGTTATGATATGACATATATTTA
1 TGTAAGGTATGTAAGTTATGATATGACATACATTTA
11592306 TGTA
1 TGTA
11592310 TTATGTAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (36 bp):
TGTAAGGTATGTAAGTTATGATATGACATACATTTA
Found at i:11592326 original size:43 final size:43
Alignment explanation
Indices: 11592267--11592393 Score: 218
Period size: 43 Copynumber: 3.0 Consensus size: 43
11592257 TGATATACAT
* * *
11592267 TTATGTAAGGTATGTAAGTTATGATATGACATATATTTATGTA
1 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
11592310 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
*
11592353 TTATGTTAGTTGTGTAAGTTATGATATGATATATATTTATG
1 TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATG
11592394 ATATATATTT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 80 1.00
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.48
Consensus pattern (43 bp):
TTATGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTA
Found at i:11592338 original size:79 final size:83
Alignment explanation
Indices: 11592234--11592393 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 83
11592224 AAGTAAGCTT
*
11592234 TGTAAGTTATGTAAGTTATGTTATGATATACATTTATGTA-A-G-G-TATGTAAGTTATGATATG
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTATGTATATGTGTTATGTAAGTTATGATATG
11592295 ACATATATTTATGTATTA
66 ACATATATTTATGTATTA
* * *
11592313 TGTAAGTTGTGTAAGTTATGATATGATATATATTTATGTATTATGTTAGTTGTGTAAGTTATGAT
1 TGTAAGTTATGTAAGTTATGATATGATATACATTTATGTA-TATG-T-GTTATGTAAGTTATGAT
*
11592378 ATGATATATATTTATG
63 ATGACATATATTTATG
11592394 ATATATATTT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
79 37 0.54
81 1 0.01
82 1 0.01
85 1 0.01
86 29 0.42
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (83 bp):
TGTAAGTTATGTAAGTTATGATATGATATACATTTATGTATATGTGTTATGTAAGTTATGATATG
ACATATATTTATGTATTA
Found at i:11592395 original size:13 final size:13
Alignment explanation
Indices: 11592377--11592406 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
11592367 TAAGTTATGA
11592377 TATGATATATATT
1 TATGATATATATT
11592390 TATGATATATATT
1 TATGATATATATT
11592403 TATG
1 TATG
11592407 TATTATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (13 bp):
TATGATATATATT
Found at i:11592630 original size:15 final size:15
Alignment explanation
Indices: 11592610--11592638 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11592600 TTGTGTCCTG
11592610 ATTAATCCAAAATAA
1 ATTAATCCAAAATAA
11592625 ATTAATCCAAAATA
1 ATTAATCCAAAATA
11592639 TGTAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (15 bp):
ATTAATCCAAAATAA
Found at i:11592930 original size:8 final size:8
Alignment explanation
Indices: 11592917--11592946 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
11592907 ATTAATTGAT
11592917 AAATATTG
1 AAATATTG
11592925 AAATATTG
1 AAATATTG
11592933 AAATATTG
1 AAATATTG
11592941 AAATAT
1 AAATAT
11592947 ATTTAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (8 bp):
AAATATTG
Found at i:11593265 original size:19 final size:19
Alignment explanation
Indices: 11593219--11593266 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
11593209 TTATTTTTAT
*
11593219 TAATAAAAATAAAATTTAA
1 TAATAAAAATAAAATTAAA
* *
11593238 GAATCAAAACTAAAA-TAAA
1 TAAT-AAAAATAAAATTAAA
11593257 TAATAAAAAT
1 TAATAAAAAT
11593267 TGGACTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
18 5 0.22
19 9 0.39
20 9 0.39
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (19 bp):
TAATAAAAATAAAATTAAA
Found at i:11595970 original size:59 final size:59
Alignment explanation
Indices: 11595867--11595987 Score: 154
Period size: 59 Copynumber: 2.1 Consensus size: 59
11595857 GGGGAAAAAT
* * * * * **
11595867 GGGTAATTATTTTAGGGTTTCGAATTAGGGAAAATGGGGGAAATAAACTAGGGAGAAGG
1 GGGTAATTATTTTAGGGATTCGAAGTAGGGAAAATAGGGAAAATAAACCAAAGAGAAGG
*
11595926 GGGTGATTATTTTAGGGATTC-AGAGTAGGGAAAATAGGGAAAATAAACCAAAGAGAAGG
1 GGGTAATTATTTTAGGGATTCGA-AGTAGGGAAAATAGGGAAAATAAACCAAAGAGAAGG
11595985 GGG
1 GGG
11595988 AAAATGAATA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 1 0.02
59 52 0.98
ACGTcount: A:0.38, C:0.04, G:0.36, T:0.22
Consensus pattern (59 bp):
GGGTAATTATTTTAGGGATTCGAAGTAGGGAAAATAGGGAAAATAAACCAAAGAGAAGG
Found at i:11596492 original size:114 final size:114
Alignment explanation
Indices: 11596092--11596665 Score: 579
Period size: 114 Copynumber: 5.0 Consensus size: 114
11596082 TTGCTATAGG
* * * * ** *
11596092 CAAACCAATTGCGGTGTTTTAACAT-AAATGCCACTAAAAAT-CAAACAAAACGATGCCATTTTG
1 CAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAA-AAAACGACACCGTTTTG
* * * * *
11596155 ATATAAATAGAATAAACTTTAGTGGCGTTTTTCCCCTAGCGCCGCTAAAGG
65 ATATAAACAGAATAAACATTAGTGGCGTTTATACCCTAGCGCCGCTAAA-T
*
11596206 CAAATCTATTGCGGCG-TTTAACCCTAAAACGCCACTAAAAATCCAAAAAAAAAACGACGA-CGT
1 CAAACCTATTGCGGCGTTTTAA-CCTAAAACGCCACTAAAAATCC---AAAAAAACGAC-ACCGT
* * * * * * *
11596269 TTTCATATAAACAGAAT-AACATTTAGTGACGTTTTTTCTCCAAGCGTCGCTAAAGG
61 TTTGATATAAACAGAATAAACA-TTAGTGGCGTTTATAC-CCTAGCGCCGCTAAA-T
* * * *
11596325 CGAAA-CTATTGCGGCGTTTTACCCTAAAACGCCACTAACAATCCAATAAAACTACACCGTTTTG
1 C-AAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAAAAAACGACACCGTTTTG
* * *
11596389 ATATAAACAAAATAACCATTAGTGGCGTTTATACCCTAGGGCCGCTAAAT
65 ATATAAACAGAATAAACATTAGTGGCGTTTATACCCTAGCGCCGCTAAAT
* * ** *
11596439 CAAACCTATTGCGGCTTTTTAACCTAAATCGCCACTAAAAATTGAAAAAAACTACACCGTTTTGA
1 CAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAAAAAACGACACCGTTTTGA
* *
11596504 TATAAACAAAATAAACATTAGTGGCGTTTATAACCTAGCGCCGCTAAAT
66 TATAAACAGAATAAACATTAGTGGCGTTTATACCCTAGCGCCGCTAAAT
* * *** * * *
11596553 CAAACCTATTGCGGCGTTTTAACCTAAAACGCCATTAAAGATCCAAAAAAACGATGTC-ATCTAA
1 CAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAAAAAACGACACCGTTTTGA
* * * *
11596617 TAT-AACAGAATAACCTTTAGCGGCGTTTATACCCTAGGGCCGCTAAAT
66 TATAAACAGAATAAACATTAGTGGCGTTTATACCCTAGCGCCGCTAAAT
11596665 C
1 C
11596666 CAATGTTTTT
Statistics
Matches: 388, Mismatches: 58, Indels: 30
0.82 0.12 0.06
Matches are distributed among these distances:
112 40 0.10
113 14 0.04
114 163 0.42
115 28 0.07
116 41 0.11
117 6 0.02
118 38 0.10
119 51 0.13
120 7 0.02
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.26
Consensus pattern (114 bp):
CAAACCTATTGCGGCGTTTTAACCTAAAACGCCACTAAAAATCCAAAAAAACGACACCGTTTTGA
TATAAACAGAATAAACATTAGTGGCGTTTATACCCTAGCGCCGCTAAAT
Found at i:11597047 original size:21 final size:23
Alignment explanation
Indices: 11596998--11597047 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
11596988 AAAACATAAT
*
11596998 CTCTAAACCCTAAAACCCTAACA
1 CTCTAACCCCTAAAACCCTAACA
*
11597021 CT-TAACCCCT-AACCCCTAAC-
1 CTCTAACCCCTAAAACCCTAACA
11597041 CTCTAAC
1 CTCTAAC
11597048 TCCAAACCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.08
21 13 0.54
22 7 0.29
23 2 0.08
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.20
Consensus pattern (23 bp):
CTCTAACCCCTAAAACCCTAACA
Found at i:11597055 original size:21 final size:21
Alignment explanation
Indices: 11597003--11597055 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
11596993 ATAATCTCTA
* *
11597003 AACCCTAAAACCCTAACACTT
1 AACCCCAAACCCCTAACACTT
*
11597024 AACCCCTAACCCCTAAC-CTCT
1 AACCCCAAACCCCTAACACT-T
*
11597045 AACTCCAAACC
1 AACCCCAAACC
11597056 ATTAAACCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 2 0.08
21 24 0.92
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (21 bp):
AACCCCAAACCCCTAACACTT
Found at i:11597070 original size:7 final size:7
Alignment explanation
Indices: 11597051--11597104 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
11597041 CTCTAACTCC
11597051 AAACCATT
1 AAACCA-T
11597059 AAACCAT
1 AAACCAT
11597066 AAACCAT
1 AAACCAT
*
11597073 AAACCCT
1 AAACCAT
11597080 AAACCCAT
1 AAA-CCAT
*
11597088 AATCCAT
1 AAACCAT
*
11597095 AAACCTT
1 AAACCAT
11597102 AAA
1 AAA
11597105 ATAGTAACTC
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
7 29 0.73
8 11 0.28
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCAT
Found at i:11597071 original size:15 final size:14
Alignment explanation
Indices: 11597051--11597104 Score: 63
Period size: 15 Copynumber: 3.7 Consensus size: 14
11597041 CTCTAACTCC
11597051 AAACCATTAAACCAT
1 AAACCA-TAAACCAT
*
11597066 AAACCATAAACCCT
1 AAACCATAAACCAT
*
11597080 AAACCCATAATCCAT
1 AAA-CCATAAACCAT
*
11597095 AAACCTTAAA
1 AAACCATAAA
11597105 ATAGTAACTC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
14 15 0.45
15 18 0.55
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.19
Consensus pattern (14 bp):
AAACCATAAACCAT
Found at i:11597076 original size:22 final size:22
Alignment explanation
Indices: 11597051--11597104 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
11597041 CTCTAACTCC
11597051 AAACCATTAAA-CCATAAACCAT
1 AAACC-TTAAACCCATAAACCAT
* *
11597073 AAACCCTAAACCCATAATCCAT
1 AAACCTTAAACCCATAAACCAT
11597095 AAACCTTAAA
1 AAACCTTAAA
11597105 ATAGTAACTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.19
Consensus pattern (22 bp):
AAACCTTAAACCCATAAACCAT
Found at i:11597168 original size:14 final size:15
Alignment explanation
Indices: 11597126--11597168 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
11597116 TACACTTTAA
11597126 ACCCTAAACCAT-AT
1 ACCCTAAACCATAAT
*
11597140 ACCCTAAGCCATAAT
1 ACCCTAAACCATAAT
*
11597155 -CCCTAAACGATAAT
1 ACCCTAAACCATAAT
11597169 GATAATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 23 0.92
15 2 0.08
ACGTcount: A:0.42, C:0.33, G:0.05, T:0.21
Consensus pattern (15 bp):
ACCCTAAACCATAAT
Found at i:11597473 original size:21 final size:21
Alignment explanation
Indices: 11597408--11597474 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
11597398 ATTTACCCTT
* **
11597408 AAACCCCTAACCCCAAATCTC
1 AAACCCCAAACCATAAATCTC
* * * *
11597429 AAATCCCAAACCTTAAACCAC
1 AAACCCCAAACCATAAATCTC
11597450 AAACCCCAAACCATAAATCTC
1 AAACCCCAAACCATAAATCTC
11597471 AAAC
1 AAAC
11597475 TATAAATCAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.13
Consensus pattern (21 bp):
AAACCCCAAACCATAAATCTC
Found at i:11597492 original size:7 final size:7
Alignment explanation
Indices: 11597436--11597544 Score: 69
Period size: 7 Copynumber: 15.6 Consensus size: 7
11597426 CTCAAATCCC
*
11597436 AAACCTT
1 AAACCAT
*
11597443 AAACCAC
1 AAACCAT
**
11597450 AAACCCC
1 AAACCAT
11597457 AAACCAT
1 AAACCAT
*
11597464 AAATC-T
1 AAACCAT
*
11597470 CAAACTAT
1 -AAACCAT
*
11597478 AAATCAT
1 AAACCAT
11597485 AAACCAT
1 AAACCAT
*
11597492 AAACTC-C
1 AAAC-CAT
*
11597499 AAGCCAT
1 AAACCAT
*
11597506 AAACTAT
1 AAACCAT
*
11597513 AAACTAT
1 AAACCAT
*
11597520 AAACCCT
1 AAACCAT
11597527 AAACCAT
1 AAACCAT
*
11597534 AACCCAT
1 AAACCAT
11597541 AAAC
1 AAAC
11597545 TCTAATGACA
Statistics
Matches: 77, Mismatches: 21, Indels: 8
0.73 0.20 0.08
Matches are distributed among these distances:
6 2 0.03
7 73 0.95
8 2 0.03
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.17
Consensus pattern (7 bp):
AAACCAT
Found at i:11597495 original size:21 final size:21
Alignment explanation
Indices: 11597457--11597544 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 21
11597447 CACAAACCCC
*
11597457 AAACCATAAATC-TCAAACTAT
1 AAACCATAAACCAT-AAACTAT
* **
11597478 AAATCATAAACCATAAACTCC
1 AAACCATAAACCATAAACTAT
* *
11597499 AAGCCATAAACTATAAACTAT
1 AAACCATAAACCATAAACTAT
* * *
11597520 AAACCCTAAACCATAACCCAT
1 AAACCATAAACCATAAACTAT
11597541 AAAC
1 AAAC
11597545 TCTAATGACA
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
21 51 0.98
22 1 0.02
ACGTcount: A:0.52, C:0.27, G:0.01, T:0.19
Consensus pattern (21 bp):
AAACCATAAACCATAAACTAT
Found at i:11597507 original size:28 final size:29
Alignment explanation
Indices: 11597457--11597544 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 29
11597447 CACAAACCCC
*
11597457 AAACCATAAA-TCTCAAACTATAAA-TCAT
1 AAACCATAAACTCTCAAACCATAAACT-AT
*
11597485 AAACCATAAACTC-CAAGCCATAAACTAT
1 AAACCATAAACTCTCAAACCATAAACTAT
* * * *
11597513 AAACTATAAACCCT-AAACCATAACCCAT
1 AAACCATAAACTCTCAAACCATAAACTAT
11597541 AAAC
1 AAAC
11597545 TCTAATGACA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
28 47 0.94
29 3 0.06
ACGTcount: A:0.52, C:0.27, G:0.01, T:0.19
Consensus pattern (29 bp):
AAACCATAAACTCTCAAACCATAAACTAT
Found at i:11606312 original size:15 final size:16
Alignment explanation
Indices: 11606283--11606312 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11606273 ATTCCCCCTC
11606283 CAAGAAAAAGACTTGG
1 CAAGAAAAAGACTTGG
11606299 CAAGAAAAAG-CTTG
1 CAAGAAAAAGACTTG
11606313 CAGATGATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.13, G:0.23, T:0.13
Consensus pattern (16 bp):
CAAGAAAAAGACTTGG
Found at i:11611155 original size:6 final size:6
Alignment explanation
Indices: 11611144--11611191 Score: 87
Period size: 6 Copynumber: 8.0 Consensus size: 6
11611134 AACAGAAAGG
*
11611144 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAG TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
11611192 GAAAGGGACT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:11612942 original size:27 final size:26
Alignment explanation
Indices: 11612852--11612943 Score: 78
Period size: 27 Copynumber: 3.5 Consensus size: 26
11612842 TTTGAGGGAT
*
11612852 GCACTAAGTGTGTGAATTTGATACTGA
1 GCACTAAGTGTGTGAA-TTGATTCTGA
* * * *
11612879 CCACTAAGTGTGCGAGTTGGATT-TAA
1 GCACTAAGTGTGTGAATT-GATTCTGA
* * *
11612905 GCATTATGTGTGTGAATTAATTTCTGA
1 GCACTAAGTGTGTGAATTGA-TTCTGA
11612932 GCACTAAGTGTG
1 GCACTAAGTGTG
11612944 CGAAATCAGT
Statistics
Matches: 48, Mismatches: 14, Indels: 6
0.71 0.21 0.09
Matches are distributed among these distances:
25 1 0.02
26 19 0.40
27 28 0.58
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (26 bp):
GCACTAAGTGTGTGAATTGATTCTGA
Found at i:11617481 original size:43 final size:43
Alignment explanation
Indices: 11617434--11617622 Score: 315
Period size: 43 Copynumber: 4.4 Consensus size: 43
11617424 TTTAATGTAC
* *
11617434 TGGCATTAAGTGTGCGATACAATTATAGCTTTGGCTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
*
11617477 TGGCACTAAGTGTGCGATACAATTATAGCTTTGGCTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
* *
11617520 TGGCACTAAATGTGCGGTACAATTATAGCTTCGGCTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
*
11617563 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGTTAATTAAT
1 TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
*
11617606 TAGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
11617623 GTTCATTGAA
Statistics
Matches: 138, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 138 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (43 bp):
TGGCACTAAGTGTGCGATACAATTATAGCTTCGGCTAATTAAT
Found at i:11628878 original size:43 final size:43
Alignment explanation
Indices: 11628825--11628931 Score: 160
Period size: 43 Copynumber: 2.5 Consensus size: 43
11628815 TTATTTGAAA
* * *
11628825 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAACGGCACTTTTCCCAC
* *
11628868 AAACGTCGCTAAAGGTCATGGCCTTTAACGGCACTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAACGGCACTTTTCCCAC
*
11628911 AAACGCCACTAAAGGTCATGA
1 AAACGCCGCTAAAGGTCATGA
11628932 AATTTTAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGACCTTTAACGGCACTTTTCCCAC
Found at i:11631662 original size:81 final size:81
Alignment explanation
Indices: 11631526--11631676 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 81
11631516 ATTCTGAAGT
* * * * * * * *
11631526 CAACAGCCAAGATACACAAGCATGTGATAAACATCTGCAAAATTTTCCCATTGAAAATTTATTAC
1 CAACAGCCAAGATACACAAGCAAGTGACAAAAATATGCAAAATATTCCCACTGAAAATCTATCAC
11631591 AAATTAAACAATGTAC
66 AAATTAAACAATGTAC
*
11631607 CAACAGCCAAGATACACAAGTAAGTGACAAAGAATAT-CAATAA-ATTCCCACTGAAAATCTATC
1 CAACAGCCAAGATACACAAGCAAGTGACAAA-AATATGCAA-AATATTCCCACTGAAAATCTATC
11631670 ACAAATT
64 ACAAATT
11631677 CAAAAAGGTA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
81 54 0.92
82 5 0.08
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.23
Consensus pattern (81 bp):
CAACAGCCAAGATACACAAGCAAGTGACAAAAATATGCAAAATATTCCCACTGAAAATCTATCAC
AAATTAAACAATGTAC
Found at i:11634178 original size:21 final size:21
Alignment explanation
Indices: 11634154--11634193 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11634144 TAATATATCA
*
11634154 AATGTTTTTTTATTTATTTTT
1 AATGTTTTCTTATTTATTTTT
11634175 AATGTTTTCTTATTTATTT
1 AATGTTTTCTTATTTATTT
11634194 ATCAATGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (21 bp):
AATGTTTTCTTATTTATTTTT
Found at i:11634590 original size:24 final size:24
Alignment explanation
Indices: 11634562--11634610 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
11634552 CCAAAATAAC
11634562 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
11634586 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
11634610 A
1 A
11634611 TAAATATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:11634613 original size:11 final size:12
Alignment explanation
Indices: 11634569--11634614 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
11634559 AACAATTAAT
11634569 TTTTATATAAAC
1 TTTTATATAAAC
* * *
11634581 TTTTAAATTAAT
1 TTTTATATAAAC
11634593 TTTTATATAAAC
1 TTTTATATAAAC
11634605 TTTTA-ATAAA
1 TTTTATATAAA
11634615 TATATGAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
11 5 0.18
12 23 0.82
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTATATAAAC
Found at i:11635268 original size:41 final size:41
Alignment explanation
Indices: 11635223--11635464 Score: 313
Period size: 41 Copynumber: 5.9 Consensus size: 41
11635213 TTACATGACT
* *
11635223 TTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGTC
* * *
11635264 TTTAGCGGCATTTTACCAAAAGCGCCGCTGATGCTCTGGTC
1 TTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGTC
* *
11635305 TTTAGCGGCGTTTCACCAAAAACGCCGCTAATGCTCTGGTT
1 TTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGTC
* * *
11635346 TTTAGTGGCGTTTCACCAAAAGCACCGCTGATGCTCTGGTC
1 TTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGTC
* * *
11635387 TTTAGCGGCGTTTCACCAAAAGCACTGCTGATGCTCTGGTC
1 TTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGTC
* * * * *
11635428 TTTAGCGGCATTTTAACAAAAAACGCCGCTATTGCTC
1 TTTAGCGGC-GTTTCACCAAAAGCGCCGCTAATGCTC
11635465 AGTTTTTAGT
Statistics
Matches: 177, Mismatches: 23, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
41 158 0.89
42 19 0.11
ACGTcount: A:0.21, C:0.26, G:0.23, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTCACCAAAAGCGCCGCTAATGCTCTGGTC
Found at i:11635381 original size:123 final size:123
Alignment explanation
Indices: 11635222--11635474 Score: 382
Period size: 123 Copynumber: 2.1 Consensus size: 123
11635212 GTTACATGAC
* * *
11635222 TTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTCTTTAGCGGCATTTTACCAAAAGC
1 TTTTAGTGGCGTTTCACCAAAAGCACCGCTAATGCTCTGGTCTTTAGCGGCATTTCACCAAAAGC
* * * *
11635287 GCCGCTGATGCTCTGGTCTTTAGCGGC-GTTTCACCAAAAACGCCGCTAATGCTCTGGT
66 ACCGCTGATGCTCTGGTCTTTAGCGGCAGTTTAACAAAAAACGCCGCTAATGCTC-AGT
* *
11635345 TTTTAGTGGCGTTTCACCAAAAGCACCGCTGATGCTCTGGTCTTTAGCGGCGTTTCACCAAAAGC
1 TTTTAGTGGCGTTTCACCAAAAGCACCGCTAATGCTCTGGTCTTTAGCGGCATTTCACCAAAAGC
* * *
11635410 ACTGCTGATGCTCTGGTCTTTAGCGGCATTTTAACAAAAAACGCCGCTATTGCTCAGT
66 ACCGCTGATGCTCTGGTCTTTAGCGGCAGTTTAACAAAAAACGCCGCTAATGCTCAGT
11635468 TTTTAGT
1 TTTTAGT
11635475 AAAAACGCCG
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
123 94 0.80
124 23 0.20
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (123 bp):
TTTTAGTGGCGTTTCACCAAAAGCACCGCTAATGCTCTGGTCTTTAGCGGCATTTCACCAAAAGC
ACCGCTGATGCTCTGGTCTTTAGCGGCAGTTTAACAAAAAACGCCGCTAATGCTCAGT
Found at i:11635480 original size:29 final size:30
Alignment explanation
Indices: 11635446--11635502 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
11635436 CATTTTAACA
11635446 AAAAACGCCGCTATTGCTCAGT-TTTTAGT
1 AAAAACGCCGCTATTGCTCAGTGTTTTAGT
*
11635475 AAAAACGCCGCTATTGCTCTGTGTTTTA
1 AAAAACGCCGCTATTGCTCAGTGTTTTA
11635503 CAATTTTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (30 bp):
AAAAACGCCGCTATTGCTCAGTGTTTTAGT
Found at i:11636837 original size:9 final size:10
Alignment explanation
Indices: 11636825--11636881 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
11636815 TACGCGGGAT
11636825 ATGATAT-AC
1 ATGATATGAC
*
11636834 ATGA-ATGAT
1 ATGATATGAC
11636843 ATGATATGCAC
1 ATGATATG-AC
*
11636854 ATGATATG-T
1 ATGATATGAC
11636863 ATGATATGCAC
1 ATGATATG-AC
11636874 ATGATATG
1 ATGATATG
11636882 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 2 0.05
9 17 0.44
10 3 0.08
11 17 0.44
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (10 bp):
ATGATATGAC
Found at i:11636857 original size:20 final size:20
Alignment explanation
Indices: 11636824--11636898 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
11636814 ATACGCGGGA
11636824 TATGATAT--ACATGA-ATG
1 TATGATATGCACATGATATG
11636841 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
11636862 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
11636882 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
11636899 GTAGTCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 42 0.79
21 3 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:11636859 original size:11 final size:11
Alignment explanation
Indices: 11636843--11636898 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
11636833 CATGAATGAT
11636843 ATGATATGCAC
1 ATGATATGCAC
*
11636854 ATGATATG--T
1 ATGATATGCAC
11636863 ATGATATGCAC
1 ATGATATGCAC
*
11636874 ATGATATG--T
1 ATGATATGCAC
*
11636883 ATGAAATGCAC
1 ATGATATGCAC
11636894 ATGAT
1 ATGAT
11636899 GTAGTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:11637026 original size:52 final size:51
Alignment explanation
Indices: 11636948--11637070 Score: 176
Period size: 52 Copynumber: 2.4 Consensus size: 51
11636938 GAGGAAGTGC
*
11636948 AAAAGGGCTTATGCCCCAGTTTATTGAAAATGGCTTATGCCCCAGATTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGATTACCG
* * * *
11637000 AAAGGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGATTACCG
*
11637051 AAAAAGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
11637071 ATTAAAGAGG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 9 0.14
51 21 0.33
52 33 0.52
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGATTACCG
Found at i:11637045 original size:25 final size:26
Alignment explanation
Indices: 11636948--11637070 Score: 142
Period size: 26 Copynumber: 4.8 Consensus size: 26
11636938 GAGGAAGTGC
**
11636948 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
11636974 AAAATGGCTTATGCCCCAGATTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* * **
11637000 AAAGGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
11637026 AAAAGGGCTT-TGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
11637051 AAAAAGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
11637071 ATTAAAGAGG
Statistics
Matches: 82, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
25 31 0.38
26 51 0.62
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:11641784 original size:44 final size:44
Alignment explanation
Indices: 11641721--11641808 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
11641711 ATGTGGCTAT
11641721 GAGTAATGTATGATGAGACTTAACGTG-ATAAACTCCCCGTTGAA
1 GAGTAATGTATGATGAGACTTAACG-GCATAAACTCCCCGTTGAA
*
11641765 GAGTAATGTATGATGAGACTTAACGGCATAAACTCCCGGTTGAA
1 GAGTAATGTATGATGAGACTTAACGGCATAAACTCCCCGTTGAA
11641809 CCTTGAGAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 1 0.02
44 41 0.98
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (44 bp):
GAGTAATGTATGATGAGACTTAACGGCATAAACTCCCCGTTGAA
Found at i:11641930 original size:50 final size:49
Alignment explanation
Indices: 11641862--11642035 Score: 190
Period size: 50 Copynumber: 3.6 Consensus size: 49
11641852 CATGTGTGCT
*
11641862 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCATTGACAGATAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-AGATGAGAGCC
* * * *
11641911 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-AGATGAGAGCC
* * * * * * *
11641961 ATTGTAGGACCATGTCTGGGACATGGCATCGACTTTGATG-TGTGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAGATGAGAGCC
* *
11642009 AGTGTAAGACAATGTCCGGGACATGGC
1 AGTGTAAGACCATGTCTGGGACATGGC
11642036 GTTGGCATCT
Statistics
Matches: 104, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
48 28 0.27
49 9 0.09
50 67 0.64
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAGATGAGAGCC
Found at i:11643924 original size:18 final size:19
Alignment explanation
Indices: 11643890--11643925 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11643880 GGACATTATG
*
11643890 GATGTGTATGAAAATTTTT
1 GATGTGAATGAAAATTTTT
11643909 GATGTGAATG-AAATTTT
1 GATGTGAATGAAAATTTT
11643926 ATGGCCCAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (19 bp):
GATGTGAATGAAAATTTTT
Found at i:11651899 original size:47 final size:47
Alignment explanation
Indices: 11651847--11652540 Score: 1127
Period size: 47 Copynumber: 14.6 Consensus size: 47
11651837 GATAATTGTG
* * *
11651847 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
11651894 ATGTGAAAGTATATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
11651941 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
11651988 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
11652037 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
11652084 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
11652133 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
11652182 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
11652229 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
11652276 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
11652325 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
11652374 ACGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
11652421 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
11652468 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
11652515 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
11652541 TCCCGAAGGG
Statistics
Matches: 614, Mismatches: 27, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
47 380 0.62
49 234 0.38
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:11651916 original size:96 final size:94
Alignment explanation
Indices: 11651847--11652540 Score: 1109
Period size: 96 Copynumber: 7.3 Consensus size: 94
11651837 GATAATTGTG
* * *
11651847 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTATATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAT
*
11651912 GTGATAAGGCCGAATGGCCGATGTGATGA
66 GTGATAAGGCCTAATGGCCGATGTGATGA
11651941 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATAT
11652006 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
11652037 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATAT
*
11652102 ATGTGATAAGGCCTAATGGCTGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
11652133 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATAT
11652198 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
11652229 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTATATAT
11652294 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
11652325 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATAT
*
11652390 ATGTGATAAGGCCTAATAGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
11652421 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAT
* * * * * * *
11652486 GTGACAGGGCCGAGTGGCCAACGTGATGG
66 GTGATAAGGCCTAATGGCCGATGTGATGA
*
11652515 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
11652541 TCCCGAAGGG
Statistics
Matches: 565, Mismatches: 27, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
94 191 0.34
96 289 0.51
98 85 0.15
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:11666482 original size:206 final size:205
Alignment explanation
Indices: 11666119--11666674 Score: 824
Period size: 206 Copynumber: 2.7 Consensus size: 205
11666109 GCAGATCTGG
*
11666119 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAATAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAA-ACATAGCT
* * * *
11666184 GATTTGGCTTTCACATGCTTACGATAAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
64 GATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * * *
11666249 AGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGAGTAGATACATAACAGATCTAGCCTT
129 AGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAACAGATCTAACCTT
* *
11666314 CAGATGTTTATA
194 CAGATGGTTAGA
* *
11666326 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAATCATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAA-CATAGCTG
* * *
11666391 ACTTAGCTTTCACGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
65 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
11666456 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
130 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAACAGATCTAACCTTC
11666521 AGATGGTTAGA
195 AGATGGTTAGA
* * * *
11666532 CTGAAGCAAATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAA-ACATAGCTG
* ** * *
11666597 ATTTGGTTTTTGCGTGCTAACGCTGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTCAGA
65 ATTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
11666662 GAACAAATCGAAG
130 GAACAAATCGAAG
11666675 AAGCATATTT
Statistics
Matches: 314, Mismatches: 33, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
205 1 0.00
206 305 0.97
207 8 0.03
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (205 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAACATAGCTGA
TTTGGCTTTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAG
AACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGAGCAGACACATAACAGATCTAACCTTCA
GATGGTTAGA
Found at i:11671300 original size:46 final size:46
Alignment explanation
Indices: 11671256--11671471 Score: 278
Period size: 46 Copynumber: 4.7 Consensus size: 46
11671246 GGCATCTGAA
* *
11671256 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAG
* * *
11671302 CTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG--TCCGAG
* * *
11671349 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAG
*
11671395 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAG
11671441 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11671472 GCGGGTTACA
Statistics
Matches: 149, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
42 1 0.01
43 7 0.05
44 1 0.01
45 2 0.01
46 102 0.68
47 26 0.17
48 2 0.01
49 1 0.01
50 6 0.04
51 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAG
Found at i:11671405 original size:93 final size:92
Alignment explanation
Indices: 11671246--11671471 Score: 289
Period size: 93 Copynumber: 2.4 Consensus size: 92
11671236 AGGATGTTTG
* * * * *
11671246 GGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
*
11671311 TTGAGTCCGAGTT--CGAGAGATGTAACTA
66 TTGAGTCCGAGTTCACGAG-GATGCAA--A
* *
11671339 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
*
11671404 TTGAGTCCGAGTTCACTTATGGATGCAAA
66 TTGAGTCCGAGTTCAC-GA-GGATGCAAA
*
11671433 TGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
11671472 GCGGGTTACA
Statistics
Matches: 119, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
92 36 0.30
93 71 0.60
94 3 0.03
95 1 0.01
96 7 0.06
97 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (92 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCACGAGGATGCAAA
Found at i:11674919 original size:138 final size:138
Alignment explanation
Indices: 11674664--11674940 Score: 500
Period size: 138 Copynumber: 2.0 Consensus size: 138
11674654 AAACAAAGAG
* *
11674664 TGGTTTGTTTTATAGTCCAAAAGAGCAAACAGTAATAGTGTCAACTCATGCTATTTTCCTTGAGG
1 TGGTTTGTTTTATAGTCCAAAAGAGCAAACAGTAATAGTGTCAACTCATGCTACTTTCCTCGAGG
* * *
11674729 AAAGTTACATGAATGACTTTAAACCTCGAAGTAAAAAAGTACTCGAGGAACTTTTGGGAAATACA
66 AAAATTACATGAACGACTTTAAACCTCGAAGTAAAAAAGTACTCGAGAAACTTTTGGGAAATACA
11674794 CAAAGCCC
131 CAAAGCCC
11674802 TGGTTTGTTTTATAGTCCAAAAGAGCAAACAGTAATAGTGTCAACTCATGCTACTTTCCTCGAGG
1 TGGTTTGTTTTATAGTCCAAAAGAGCAAACAGTAATAGTGTCAACTCATGCTACTTTCCTCGAGG
*
11674867 AAAATTACATGAACGACTTTAAACCTCGAAGTAAAAAAGTACTTGAGAAACTTTTGGGAAATACA
66 AAAATTACATGAACGACTTTAAACCTCGAAGTAAAAAAGTACTCGAGAAACTTTTGGGAAATACA
11674932 CAAAGCCC
131 CAAAGCCC
11674940 T
1 T
11674941 ATAGAAATGG
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 133 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (138 bp):
TGGTTTGTTTTATAGTCCAAAAGAGCAAACAGTAATAGTGTCAACTCATGCTACTTTCCTCGAGG
AAAATTACATGAACGACTTTAAACCTCGAAGTAAAAAAGTACTCGAGAAACTTTTGGGAAATACA
CAAAGCCC
Found at i:11680646 original size:48 final size:48
Alignment explanation
Indices: 11680591--11680687 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
11680581 GGAAGGAAGG
*
11680591 AATTACTCAAAGGAAGCTGATTGATCCATCTCAGAAGCCGGATTCATC
1 AATTACTCAAAGAAAGCTGATTGATCCATCTCAGAAGCCGGATTCATC
11680639 AATTACTCAAAGAAAGCTGATTGATCCATCTCAGAAGCCGGATTCATC
1 AATTACTCAAAGAAAGCTGATTGATCCATCTCAGAAGCCGGATTCATC
11680687 A
1 A
11680688 TCAAGACAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (48 bp):
AATTACTCAAAGAAAGCTGATTGATCCATCTCAGAAGCCGGATTCATC
Found at i:11680660 original size:26 final size:25
Alignment explanation
Indices: 11680591--11680660 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 25
11680581 GGAAGGAAGG
*
11680591 AATTACTCAAAGGAAGCTGATTGATC
1 AATTACTCAAA-GAAGCTGATTCATC
* *
11680617 CA-T-CTC--AGAAGCCGGATTCATC
1 AATTACTCAAAGAAG-CTGATTCATC
11680639 AATTACTCAAAGAAAGCTGATT
1 AATTACTCAAAG-AAGCTGATT
11680661 GATCCATCTC
Statistics
Matches: 33, Mismatches: 5, Indels: 12
0.66 0.10 0.24
Matches are distributed among these distances:
21 4 0.12
22 10 0.30
23 1 0.03
24 6 0.18
25 1 0.03
26 8 0.24
27 3 0.09
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (25 bp):
AATTACTCAAAGAAGCTGATTCATC
Found at i:11680682 original size:22 final size:22
Alignment explanation
Indices: 11680609--11680682 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 22
11680599 AAAGGAAGCT
11680609 GATTGATCCATCTCAGAAGCCG
1 GATTGATCCATCTCAGAAGCCG
* * *
11680631 GATTCATCAATTACTCAAAGAAAG-CT
1 GATTGATCCA-T-CTC--AG-AAGCCG
11680657 GATTGATCCATCTCAGAAGCCG
1 GATTGATCCATCTCAGAAGCCG
11680679 GATT
1 GATT
11680683 CATCATCAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
21 3 0.08
22 15 0.38
23 1 0.03
24 6 0.15
25 1 0.03
26 11 0.28
27 3 0.08
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (22 bp):
GATTGATCCATCTCAGAAGCCG
Found at i:11684088 original size:17 final size:17
Alignment explanation
Indices: 11684056--11684089 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
11684046 TGAATGGCGT
11684056 ACACATAAACCAAGAAC
1 ACACATAAACCAAGAAC
11684073 ACACGATAAACC-AGAAC
1 ACAC-ATAAACCAAGAAC
11684090 TACGCCAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.56, C:0.29, G:0.09, T:0.06
Consensus pattern (17 bp):
ACACATAAACCAAGAAC
Found at i:11691104 original size:17 final size:18
Alignment explanation
Indices: 11691067--11691110 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
11691057 GTTGGAAGAT
*
11691067 AAAAGTAAATAAACAATG
1 AAAAGTAAATAAACAAAG
*
11691085 AAAAG-AAATAAATAAAG
1 AAAAGTAAATAAACAAAG
*
11691102 AAAAATAAA
1 AAAAGTAAA
11691111 CAAATGACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.14
Consensus pattern (18 bp):
AAAAGTAAATAAACAAAG
Found at i:11693431 original size:17 final size:18
Alignment explanation
Indices: 11693409--11693442 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11693399 CACATTGAAG
11693409 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
11693426 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
11693443 CTTCTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:11703039 original size:28 final size:28
Alignment explanation
Indices: 11702950--11703041 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 28
11702940 ATCCATAATT
* * *
11702950 ATTCATTTGGCCCATTTAGGCCCAATCTC
1 ATTCATATGGCCCA-TCAGGCCCAATCAC
* * *
11702979 ATTCATATGGCCCATCAGACCTAATCAT
1 ATTCATATGGCCCATCAGGCCCAATCAC
* *
11703007 TTTCATATGGCCCGTCAGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
11703035 ATTCATA
1 ATTCATA
11703042 GTCATGCAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
28 38 0.75
29 13 0.25
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (28 bp):
ATTCATATGGCCCATCAGGCCCAATCAC
Found at i:11703279 original size:16 final size:16
Alignment explanation
Indices: 11703258--11703292 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11703248 GCCAAACTTC
*
11703258 CGGCTTTTTAGCATTT
1 CGGCTTTTTAGCAATT
*
11703274 CGGCTTTTTGGCAATT
1 CGGCTTTTTAGCAATT
11703290 CGG
1 CGG
11703293 GATTTGTCGG
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:0.11, C:0.20, G:0.26, T:0.43
Consensus pattern (16 bp):
CGGCTTTTTAGCAATT
Found at i:11710862 original size:28 final size:28
Alignment explanation
Indices: 11710820--11710892 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
11710810 GCCCCTTTAG
* *
11710820 GCCCAATCTCATTCATATGGCCCATCAG
1 GCCCAATCACATTCATATGGCCCATCAA
* * **
11710848 GTCCAATCACTTTCATATGGCCGGTCAA
1 GCCCAATCACATTCATATGGCCCATCAA
11710876 GCCCAATCACATTCATA
1 GCCCAATCACATTCATA
11710893 GTCATGGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.26
Consensus pattern (28 bp):
GCCCAATCACATTCATATGGCCCATCAA
Found at i:11716298 original size:13 final size:13
Alignment explanation
Indices: 11716280--11716304 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11716270 TGAAGATGAC
11716280 ATAAAATAAGATG
1 ATAAAATAAGATG
11716293 ATAAAATAAGAT
1 ATAAAATAAGAT
11716305 TATATTTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
ATAAAATAAGATG
Found at i:11724322 original size:17 final size:17
Alignment explanation
Indices: 11724300--11724337 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
11724290 CATTAGCGAG
*
11724300 TGTGTGACACATAATCA
1 TGTGTGACACACAATCA
11724317 TGTGTGACACACAATCA
1 TGTGTGACACACAATCA
11724334 TGTG
1 TGTG
11724338 CCAAACTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (17 bp):
TGTGTGACACACAATCA
Found at i:11737422 original size:14 final size:14
Alignment explanation
Indices: 11737403--11737432 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11737393 AGTAAATCGT
11737403 AATAAACAGCATAA
1 AATAAACAGCATAA
*
11737417 AATAAACAGTATAA
1 AATAAACAGCATAA
11737431 AA
1 AA
11737433 CAACAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17
Consensus pattern (14 bp):
AATAAACAGCATAA
Found at i:11751038 original size:12 final size:13
Alignment explanation
Indices: 11751010--11751036 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11751000 ATAATAAAGG
11751010 TTAAGTTAAAATT
1 TTAAGTTAAAATT
11751023 TTAAGTTAAAATT
1 TTAAGTTAAAATT
11751036 T
1 T
11751037 AATAAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TTAAGTTAAAATT
Found at i:11754178 original size:50 final size:50
Alignment explanation
Indices: 11754089--11754199 Score: 161
Period size: 50 Copynumber: 2.2 Consensus size: 50
11754079 CAATCAAAAC
* *
11754089 TGAGCACATCAGTCAGAATAGATCCTAAAGGCTGTTGAACTAAGCAGAGT
1 TGAGCACATCAGTCAGAATAAATCCTAAAGGCTGCTGAACTAAGCAGAGT
* * *
11754139 TGAGGACATTAGTCAGAATAAAT-CTGAAAGGCTGCTGAACTGAGCAGAGT
1 TGAGCACATCAGTCAGAATAAATCCT-AAAGGCTGCTGAACTAAGCAGAGT
11754189 TGAGCACATCA
1 TGAGCACATCA
11754200 TTTAGGTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
49 2 0.04
50 51 0.96
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (50 bp):
TGAGCACATCAGTCAGAATAAATCCTAAAGGCTGCTGAACTAAGCAGAGT
Found at i:11758475 original size:7 final size:7
Alignment explanation
Indices: 11758465--11758503 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
11758455 AAAATGTAAA
11758465 ATGGAGT
1 ATGGAGT
11758472 ATGGAGT
1 ATGGAGT
11758479 ATGAAGAGT
1 ATG--GAGT
*
11758488 ATGGAGC
1 ATGGAGT
11758495 ATGGAGT
1 ATGGAGT
11758502 AT
1 AT
11758504 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 21 0.75
9 7 0.25
ACGTcount: A:0.33, C:0.03, G:0.38, T:0.26
Consensus pattern (7 bp):
ATGGAGT
Found at i:11758702 original size:6 final size:6
Alignment explanation
Indices: 11758691--11758716 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11758681 ATTTATAATC
11758691 ACAGCT ACAGCT ACAGCT ACAGCT AC
1 ACAGCT ACAGCT ACAGCT ACAGCT AC
11758717 TAAATTGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.15, T:0.15
Consensus pattern (6 bp):
ACAGCT
Found at i:11759049 original size:24 final size:24
Alignment explanation
Indices: 11759017--11759086 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
11759007 TTTCTATATT
11759017 CCAGGATGGCTCGCTGGAGCACTG
1 CCAGGATGGCTCGCTGGAGCACTG
* *
11759041 CCAGGATGGCTTGCCGGAGCACTG
1 CCAGGATGGCTCGCTGGAGCACTG
* *
11759065 CC-GGAATAGATCGCTGGAGCAC
1 CCAGG-ATGGCTCGCTGGAGCAC
11759087 CGCTGGGAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 2 0.05
24 37 0.95
ACGTcount: A:0.20, C:0.29, G:0.36, T:0.16
Consensus pattern (24 bp):
CCAGGATGGCTCGCTGGAGCACTG
Found at i:11759587 original size:58 final size:59
Alignment explanation
Indices: 11759497--11759617 Score: 181
Period size: 58 Copynumber: 2.1 Consensus size: 59
11759487 GGGAGGGACA
* * * *
11759497 GGGACGATTCATTCATTGTTGGGTACCGAACATGCAACGGTATCTGAATTCTAGC-TTT
1 GGGACGATTCATTCATTATTGGGGACCGAACATGCAACAGTATCTGAATTCTACCTTTT
* *
11759555 GGGACGGTTCATTCATTATTGGGGACCGAACATGTAACAGTATCTGAATTCTACCTTTT
1 GGGACGATTCATTCATTATTGGGGACCGAACATGCAACAGTATCTGAATTCTACCTTTT
11759614 GGGA
1 GGGA
11759618 TTGGGAAGGG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
58 49 0.88
59 7 0.12
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (59 bp):
GGGACGATTCATTCATTATTGGGGACCGAACATGCAACAGTATCTGAATTCTACCTTTT
Done.