Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 315 of 373
Found at i:106445453 original size:30 final size:30
Alignment explanation
Indices: 106445417--106445502 Score: 145
Period size: 30 Copynumber: 2.9 Consensus size: 30
106445407 CTAGCCTTTG
*
106445417 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCC
106445447 CCACCACCAACTCCACTAGCCACACTTGCC
1 CCACCACCAACTCCACTAGCCACACTTGCC
* *
106445477 CCACTACCTACTCCACTAGCCACACT
1 CCACCACCAACTCCACTAGCCACACT
106445503 CCACCACCAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.27, C:0.51, G:0.06, T:0.16
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCC
Found at i:106446035 original size:24 final size:23
Alignment explanation
Indices: 106445987--106446038 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
106445977 TTTTTTTTGT
*
106445987 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
106446010 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
106446034 TATTA
1 TATTA
106446039 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:106446094 original size:25 final size:25
Alignment explanation
Indices: 106446054--106446208 Score: 82
Period size: 25 Copynumber: 6.0 Consensus size: 25
106446044 ATTCTAAATT
* *
106446054 CTATATTACGTATATATATATATTATA
1 CTATATTATGTATATATAT-T-TAATA
* *
106446081 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
* * *
106446106 CTATATTATTTATATATTTTTTTTCTACATG
1 CTATATTATGTATATA----TATT-TA-ATA
* *
106446137 TTATCTTATGTATATAT-TTTAAT-
1 CTATATTATGTATATATATTTAATA
* * * *
106446160 -TATATTATGTATGTATTTTTTACA
1 CTATATTATGTATATATATTTAATA
* *
106446184 CTATATTATGTACATATTTTTAATA
1 CTATATTATGTATATATATTTAATA
106446209 TTATCACTAT
Statistics
Matches: 100, Mismatches: 19, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
22 14 0.14
23 4 0.04
24 2 0.02
25 40 0.40
26 3 0.03
27 17 0.17
29 3 0.03
30 2 0.02
31 15 0.15
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:106446211 original size:20 final size:20
Alignment explanation
Indices: 106446186--106446243 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 20
106446176 TTTTTACACT
106446186 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* *
106446206 ATATTAT-CACTATTTATTTTTT
1 ATATTATGTAC-A--TATTTTTA
106446228 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
106446244 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
19 7 0.23
20 8 0.26
21 4 0.13
22 12 0.39
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:106446242 original size:23 final size:23
Alignment explanation
Indices: 106446200--106446245 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
106446190 TATGTACATA
106446200 TTTTTAATATTATCACTATTTAT
1 TTTTTAATATTATCACTATTTAT
106446223 TTTTTATATATGTA-CA-TATTTAT
1 TTTTTA-ATAT-TATCACTATTTAT
106446246 GTAGTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 13 0.62
24 6 0.29
25 2 0.10
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTTTAATATTATCACTATTTAT
Found at i:106446382 original size:16 final size:15
Alignment explanation
Indices: 106446358--106446405 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
106446348 TAATTATTAT
*
106446358 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
106446374 TATTTTAATATTTTA
1 TATTTTAATATTTTA
*
106446389 TATTTTATATACTTTA
1 TATTTTA-ATATTTTA
106446405 T
1 T
106446406 TATTCACATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:106446393 original size:7 final size:8
Alignment explanation
Indices: 106446358--106446409 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
106446348 TAATTATTAT
*
106446358 TATTCTAA
1 TATTTTAA
*
106446366 TATTTTGA
1 TATTTTAA
106446374 TATTTTAA
1 TATTTTAA
106446382 TATTTT-A
1 TATTTTAA
106446389 TATTTTATA
1 TATTTTA-A
* *
106446398 TACTTTAT
1 TATTTTAA
106446406 TATT
1 TATT
106446410 CACATCACTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 22 0.61
9 7 0.19
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:106447048 original size:21 final size:21
Alignment explanation
Indices: 106447009--106447048 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
106446999 TCTTAGGATA
*
106447009 TAGTTTTTCTAAATAAATGGT
1 TAGTTTTTCTAAAAAAATGGT
106447030 TAGTTTTT-TAAAAACAATG
1 TAGTTTTTCTAAAAA-AATG
106447049 TATGGGTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (21 bp):
TAGTTTTTCTAAAAAAATGGT
Found at i:106459493 original size:42 final size:42
Alignment explanation
Indices: 106459431--106459533 Score: 161
Period size: 42 Copynumber: 2.5 Consensus size: 42
106459421 CTTCTACCGG
* * *
106459431 TCCTACTTCTTCCGGTTTACTTAGGAGTTCTCCTATGACTGC
1 TCCTACTTCTTCCGGGTTACTTAGGAGTTCTCCTATAACTAC
106459473 TCCTACTTCTTCCGGGTTACTTAGGAGTTCTCCTATAACTAC
1 TCCTACTTCTTCCGGGTTACTTAGGAGTTCTCCTATAACTAC
* *
106459515 TCTTACTTTTTCCGGGTTA
1 TCCTACTTCTTCCGGGTTA
106459534 ATTGGGAATC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.16, C:0.27, G:0.16, T:0.42
Consensus pattern (42 bp):
TCCTACTTCTTCCGGGTTACTTAGGAGTTCTCCTATAACTAC
Found at i:106459560 original size:42 final size:42
Alignment explanation
Indices: 106459434--106459560 Score: 139
Period size: 42 Copynumber: 3.0 Consensus size: 42
106459424 CTACCGGTCC
* * * *
106459434 TACTTCTTCCGGTTTACTTAGGAGTTCTCCTATGACTGCTCC
1 TACTTCTTCCGGGTTAATTAGGAGATCTCCTATGACTGCTCT
* * * *
106459476 TACTTCTTCCGGGTTACTTAGGAGTTCTCCTATAACTACTCT
1 TACTTCTTCCGGGTTAATTAGGAGATCTCCTATGACTGCTCT
* * *
106459518 TACTTTTTCCGGGTTAATTGGGA-ATCATCCTATGCCTGCTCT
1 TACTTCTTCCGGGTTAATTAGGAGATC-TCCTATGACTGCTCT
106459560 T
1 T
106459561 CCTCAAAATA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 2 0.03
42 71 0.97
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.41
Consensus pattern (42 bp):
TACTTCTTCCGGGTTAATTAGGAGATCTCCTATGACTGCTCT
Found at i:106470030 original size:2 final size:2
Alignment explanation
Indices: 106470023--106470095 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
106470013 AAGTCTTCAT
106470023 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
106470065 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
106470096 TTGCTTTCTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:106473860 original size:32 final size:32
Alignment explanation
Indices: 106473824--106473885 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
106473814 TACTTTTAGG
*
106473824 TTTAACTGTTAGCAT-TAATTGTTTTGTTAAGT
1 TTTAACTGTTAGCATGT-ATTGTTTGGTTAAGT
*
106473856 TTTAACTGTTAGTATGTATTGTTTGGTTAA
1 TTTAACTGTTAGCATGTATTGTTTGGTTAA
106473886 ATTTGTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.24, C:0.05, G:0.18, T:0.53
Consensus pattern (32 bp):
TTTAACTGTTAGCATGTATTGTTTGGTTAAGT
Found at i:106474026 original size:30 final size:29
Alignment explanation
Indices: 106473992--106474077 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 29
106473982 ATTGTTCAAC
106473992 TTAAATTTTAAAATTTAAAATATAAGAAGA
1 TTAAATTTTAAAATTTAAAATATAA-AAGA
**
106474022 TTAAATTTATTAAAAAATAAAA-ATAAAAGA
1 TTAAA-TT-TTAAAATTTAAAATATAAAAGA
*
106474052 TTAAA-TTTAAAATTTAAAATTTAAAA
1 TTAAATTTTAAAATTTAAAATATAAAA
106474078 TTTTAGAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
27 11 0.23
28 6 0.12
30 14 0.29
31 6 0.12
32 11 0.23
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (29 bp):
TTAAATTTTAAAATTTAAAATATAAAAGA
Found at i:106474062 original size:14 final size:14
Alignment explanation
Indices: 106473992--106474077 Score: 50
Period size: 14 Copynumber: 5.9 Consensus size: 14
106473982 ATTGTTCAAC
* *
106473992 TTAAATTTTAAAAT
1 TTAAAATTTAAAAA
*
106474006 TTAAAATATAAGAAGA
1 TTAAAATTTAA-AA-A
*
106474022 TTAAATTTATTAAAAA
1 TTAAA-AT-TTAAAAA
* *
106474038 ATAAAA-ATAAAAGA
1 TTAAAATTTAAAA-A
*
106474052 TT-AAATTTAAAAT
1 TTAAAATTTAAAAA
106474065 TTAAAATTTAAAA
1 TTAAAATTTAAAA
106474078 TTTTAGAAAG
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
13 10 0.19
14 26 0.48
15 2 0.04
16 10 0.19
17 3 0.06
18 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
TTAAAATTTAAAAA
Found at i:106474066 original size:7 final size:7
Alignment explanation
Indices: 106474054--106474080 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
106474044 ATAAAAGATT
106474054 AAATTTA
1 AAATTTA
106474061 AAATTTA
1 AAATTTA
106474068 AAATTTA
1 AAATTTA
106474075 AAATTT
1 AAATTT
106474081 TAGAAAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AAATTTA
Found at i:106474123 original size:27 final size:28
Alignment explanation
Indices: 106474067--106474130 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
106474057 TTTAAAATTT
*
106474067 AAAATTTAAAATTTTAGAAAGATATAAA
1 AAAATTTAAAATTTTAGAAAAATATAAA
106474095 AAAATTTAAAATTTTAGAAAAATAT-AA
1 AAAATTTAAAATTTTAGAAAAATATAAA
106474122 AAAATTTAA
1 AAAATTTAA
106474131 CCTGAAATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 11 0.31
28 24 0.69
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (28 bp):
AAAATTTAAAATTTTAGAAAAATATAAA
Found at i:106484365 original size:20 final size:20
Alignment explanation
Indices: 106484329--106484368 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
106484319 TAAAAAAATT
*
106484329 ATAATTTTTATACTTTTTAA
1 ATAATTTTAATACTTTTTAA
106484349 ATAATTTTAATTA-TTTTTAA
1 ATAATTTTAA-TACTTTTTAA
106484369 TTTATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
ATAATTTTAATACTTTTTAA
Found at i:106484371 original size:16 final size:18
Alignment explanation
Indices: 106484350--106484385 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
106484340 ACTTTTTAAA
106484350 TAATTT-TAAT-TATTTT
1 TAATTTATAATATATTTT
106484366 TAATTTATAATATATTTT
1 TAATTTATAATATATTTT
106484384 TA
1 TA
106484386 TTATTTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 4 0.22
18 8 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TAATTTATAATATATTTT
Found at i:106484861 original size:17 final size:17
Alignment explanation
Indices: 106484839--106484872 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
106484829 AAAATGCTTA
106484839 TAAACAAATATTAATTT
1 TAAACAAATATTAATTT
106484856 TAAACAAATATTAATTT
1 TAAACAAATATTAATTT
106484873 ATTGATTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAACAAATATTAATTT
Found at i:106485404 original size:5 final size:5
Alignment explanation
Indices: 106485394--106485420 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
106485384 AAAATTTGTG
106485394 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
106485421 TTTCACAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:106488711 original size:47 final size:47
Alignment explanation
Indices: 106488654--106488910 Score: 356
Period size: 47 Copynumber: 5.4 Consensus size: 47
106488644 ATTGATGTAC
* * *
106488654 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
106488701 AAGTATATATATGCGTGATAAGGCTGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
106488750 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
106488797 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
106488844 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
106488891 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
106488911 TCCCGAAGGG
Statistics
Matches: 194, Mismatches: 12, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
46 1 0.01
47 153 0.79
49 39 0.20
50 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:106488835 original size:22 final size:22
Alignment explanation
Indices: 106488808--106488882 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
106488798 CATGTGTATG
106488808 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
106488830 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
106488855 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
106488877 TGTGAT
1 TGTGAT
106488883 GGATGTGGAA
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 14 0.37
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:106498380 original size:41 final size:41
Alignment explanation
Indices: 106498227--106498369 Score: 277
Period size: 41 Copynumber: 3.5 Consensus size: 41
106498217 ACATAATTCA
*
106498227 GACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCA
1 GACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCG
106498268 GACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCG
1 GACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCG
106498309 GACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCG
1 GACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCG
106498350 GACTATAAGTCTAGCAGGCT
1 GACTATAAGTCTAGCAGGCT
106498370 AAGAGCCGGT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (41 bp):
GACTATAAGTCTAGCAGGCTTAATGCCGGTGACACATTTCG
Found at i:106498640 original size:33 final size:32
Alignment explanation
Indices: 106498584--106498647 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
106498574 ATAGATATGT
106498584 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
106498616 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
106498648 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:106498664 original size:33 final size:33
Alignment explanation
Indices: 106498591--106498664 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
106498581 TGTATATATA
* * **
106498591 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
106498623 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
106498656 TGTATGTAT
1 TATATGTAT
106498665 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:106505996 original size:41 final size:41
Alignment explanation
Indices: 106505830--106505985 Score: 294
Period size: 41 Copynumber: 3.8 Consensus size: 41
106505820 TTTATCGTTA
* *
106505830 GTGACATAATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
106505871 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
106505912 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
106505953 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
106505986 AAGAGCCGGT
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 113 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:106506256 original size:33 final size:32
Alignment explanation
Indices: 106506200--106506263 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
106506190 ATAGATATGT
106506200 ATATATATATATGTTGCATTCGGCATAGGTGG
1 ATATATATATATGTTGCATTCGGCATAGGTGG
* *
106506232 ATATATTTATGTGTATGCATTCGGCATAGGTG
1 ATATATATATATGT-TGCATTCGGCATAGGTG
106506264 AAAATAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (32 bp):
ATATATATATATGTTGCATTCGGCATAGGTGG
Found at i:106506280 original size:33 final size:33
Alignment explanation
Indices: 106506207--106506280 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
106506197 TGTATATATA
* * **
106506207 TATATGT-TGCATTCGGCATAGGTGGATATATT
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
106506239 TATGTGTATGCATTCGGCATAGGTGAAAATAAG
1 TATATGTATGCATTCGGCATAGGTGAAAATAAG
*
106506272 TGTATGTAT
1 TATATGTAT
106506281 CTATGCATTC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (33 bp):
TATATGTATGCATTCGGCATAGGTGAAAATAAG
Found at i:106509901 original size:37 final size:37
Alignment explanation
Indices: 106509851--106509928 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
106509841 TTTATATTTC
* **
106509851 TTATTTTATAATTTTGTCTGATTGATGCCAAAACATT
1 TTATTTTATAATTTAGTCCAATTGATGCCAAAACATT
106509888 TTATTTTATAATTTAGTCCAATTGATGCCAAAACATT
1 TTATTTTATAATTTAGTCCAATTGATGCCAAAACATT
106509925 TTAT
1 TTAT
106509929 ACTTATCATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (37 bp):
TTATTTTATAATTTAGTCCAATTGATGCCAAAACATT
Found at i:106511610 original size:98 final size:98
Alignment explanation
Indices: 106511441--106511627 Score: 329
Period size: 98 Copynumber: 1.9 Consensus size: 98
106511431 AGAGGCTATA
106511441 GAAATGAATTTGTAATGCACATAAGTGTTTTGCCATAACACATCAACCACGGGTTTTTATCACAT
1 GAAATGAATTTGTAATGCACATAAGTGTTTTGCCATAACACATCAACCACGGGTTTTTATCACAT
106511506 CTTATATCACACATGCACATAAATCTCCTATTG
66 CTTATATCACACATGCACATAAATCTCCTATTG
* ** *
106511539 GAAATGAATTTGTAATGCACATAAGTGTTTTGCCTTAAGGCATCAACCATGGGTTTTTATCACAT
1 GAAATGAATTTGTAATGCACATAAGTGTTTTGCCATAACACATCAACCACGGGTTTTTATCACAT
*
106511604 CTTATATCACATATGCACATAAAT
66 CTTATATCACACATGCACATAAAT
106511628 TAAGCTATTG
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 84 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (98 bp):
GAAATGAATTTGTAATGCACATAAGTGTTTTGCCATAACACATCAACCACGGGTTTTTATCACAT
CTTATATCACACATGCACATAAATCTCCTATTG
Found at i:106513460 original size:15 final size:17
Alignment explanation
Indices: 106513442--106513473 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
106513432 TAGCATAATT
106513442 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
106513457 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
106513474 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:106519897 original size:15 final size:17
Alignment explanation
Indices: 106519879--106519910 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
106519869 TAGCATAATT
106519879 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
106519894 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
106519911 CAAGTATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:106522160 original size:43 final size:43
Alignment explanation
Indices: 106522071--106522160 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 43
106522061 ACCTACAGAG
* * * * **
106522071 GACACACGGCCGTGTTAGATGGACGTGTGTCACACATGACTAA
1 GACACACAGCCGTGTCACATGGACATGTGTCACACACAACTAA
* *
106522114 GACACACAGCCGTGTCACATGGCCATGTGTCACACACAACTGA
1 GACACACAGCCGTGTCACATGGACATGTGTCACACACAACTAA
106522157 GACA
1 GACA
106522161 TACGCTCGTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.28, G:0.24, T:0.18
Consensus pattern (43 bp):
GACACACAGCCGTGTCACATGGACATGTGTCACACACAACTAA
Found at i:106522171 original size:43 final size:42
Alignment explanation
Indices: 106522096--106522180 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 42
106522086 TAGATGGACG
**
106522096 TGTGTCACACATGACTAAGACACACAGCCGTGTCACATGGCCA
1 TGTGTCACACACAACTAAGACACACAGCCGTGTCACA-GGCCA
* * *
106522139 TGTGTCACACACAACTGAGACATAC-GCTCGTGTCTCAGGCCA
1 TGTGTCACACACAACTAAGACACACAGC-CGTGTCACAGGCCA
106522181 CGTGGACTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
42 7 0.19
43 29 0.81
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (42 bp):
TGTGTCACACACAACTAAGACACACAGCCGTGTCACAGGCCA
Found at i:106524663 original size:21 final size:23
Alignment explanation
Indices: 106524604--106524669 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
106524594 GCTTTACCGA
106524604 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* **
106524627 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
106524649 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
106524670 ACTGATCAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:106526294 original size:33 final size:33
Alignment explanation
Indices: 106526257--106526354 Score: 126
Period size: 33 Copynumber: 3.0 Consensus size: 33
106526247 TCACCTGAGT
* *
106526257 TAATCCTTCCAACACACCAATGCTCATAAGAGC
1 TAATCCTACCATCACACCAATGCTCATAAGAGC
*
106526290 TAAT-CTAACCATCACACCAATACTCATAAGAGC
1 TAATCCT-ACCATCACACCAATGCTCATAAGAGC
* * *
106526323 TAAACCAACCATCACACCAATGCTTATAAGAG
1 TAATCCTACCATCACACCAATGCTCATAAGAG
106526355 TTAAAGCAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
32 2 0.04
33 53 0.95
34 1 0.02
ACGTcount: A:0.41, C:0.31, G:0.08, T:0.20
Consensus pattern (33 bp):
TAATCCTACCATCACACCAATGCTCATAAGAGC
Found at i:106526369 original size:33 final size:33
Alignment explanation
Indices: 106526269--106526375 Score: 151
Period size: 33 Copynumber: 3.2 Consensus size: 33
106526259 ATCCTTCCAA
* *
106526269 CACACCAATGCTCATAAGAGCTAATCTAACCAT
1 CACACCAATGCTCATAAGAGCTAAACCAACCAT
*
106526302 CACACCAATACTCATAAGAGCTAAACCAACCAT
1 CACACCAATGCTCATAAGAGCTAAACCAACCAT
* * * *
106526335 CACACCAATGCTTATAAGAGTTAAAGCAATCAT
1 CACACCAATGCTCATAAGAGCTAAACCAACCAT
106526368 CACACCAA
1 CACACCAA
106526376 ACAGAGAGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.43, C:0.30, G:0.08, T:0.19
Consensus pattern (33 bp):
CACACCAATGCTCATAAGAGCTAAACCAACCAT
Found at i:106534359 original size:212 final size:213
Alignment explanation
Indices: 106533978--106534362 Score: 693
Period size: 212 Copynumber: 1.8 Consensus size: 213
106533968 ATTGGGCAAT
* * *
106533978 TTACACTTTTGGGCTCTTATACTTTTCAAAATTTATAATTTGATTCTTTTTACCAAAATCTCATA
1 TTACACTTTTGGGATCTTATACTTTTCAAAATTTATAATTTGATCCTTTTTACCAAAATCTCAAA
106534043 TTCACAACCATTCTCAAATAGTTCCTTTTCAAAAAATCAAATTAATTCATTAAGATTTCATTTAT
66 TTCACAACCATTCTCAAATAGTTCCTTTTCAAAAAATCAAATTAATTCATTAAGATTTCATTTAT
106534108 TACACTTGTTTTCAAATGATTATTCATATTAAGATTATTATGTCTGGACTAACAATACATTGCAC
131 TACACTTGTTTTCAAATGATTATTCATATTAAGATTATTATGTCTGGACTAACAATACATTGCAC
106534173 ATAAAATTCAATAACATA
196 ATAAAATTCAATAACATA
*
106534191 TTACAC-TTTGGGATCTTATACTTTTCAAAATTTATAATTTGGTCCTTTTTACCAAAATCTCAAA
1 TTACACTTTTGGGATCTTATACTTTTCAAAATTTATAATTTGATCCTTTTTACCAAAATCTCAAA
*
106534255 TTCACAACCATTCTCAAAT-GTTTCCTTTTCAAAAAATCAAATTAATTCTTTAAGATTTCATTTA
66 TTCACAACCATTCTCAAATAG-TTCCTTTTCAAAAAATCAAATTAATTCATTAAGATTTCATTTA
*
106534319 TTACACTTGTTTTCAAATGATTATTCATATTAGGATTATTATGT
130 TTACACTTGTTTTCAAATGATTATTCATATTAAGATTATTATGT
106534363 TGTCTATAAG
Statistics
Matches: 165, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
211 1 0.01
212 158 0.96
213 6 0.04
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (213 bp):
TTACACTTTTGGGATCTTATACTTTTCAAAATTTATAATTTGATCCTTTTTACCAAAATCTCAAA
TTCACAACCATTCTCAAATAGTTCCTTTTCAAAAAATCAAATTAATTCATTAAGATTTCATTTAT
TACACTTGTTTTCAAATGATTATTCATATTAAGATTATTATGTCTGGACTAACAATACATTGCAC
ATAAAATTCAATAACATA
Found at i:106538417 original size:28 final size:27
Alignment explanation
Indices: 106538377--106538429 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 27
106538367 ATTTTAAATT
106538377 TTTTTTTTGAAATTTTAACTTTCTTTATA
1 TTTTTTTTGAAATTTTAA-TTT-TTTATA
106538406 TTTTTTTT-AAATTTTAATTTTTTA
1 TTTTTTTTGAAATTTTAATTTTTTA
106538430 AAATATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 4 0.17
27 3 0.12
28 9 0.38
29 8 0.33
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (27 bp):
TTTTTTTTGAAATTTTAATTTTTTATA
Found at i:106538440 original size:24 final size:26
Alignment explanation
Indices: 106538413--106538461 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
106538403 ATATTTTTTT
*
106538413 TAAATTTTA-ATTTTTTA-AAATATA
1 TAAATTTTAGAATTTTTATAAATATA
106538437 TAAATTTTAGAATTTTTATAAATAT
1 TAAATTTTAGAATTTTTATAAATAT
106538462 TTTGAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 7 0.32
26 6 0.27
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TAAATTTTAGAATTTTTATAAATATA
Found at i:106538472 original size:18 final size:19
Alignment explanation
Indices: 106538435--106538471 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
106538425 TTTTAAAATA
*
106538435 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
106538453 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
106538472 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:106538477 original size:18 final size:21
Alignment explanation
Indices: 106538440--106538483 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
106538430 AAATATATAA
*
106538440 ATTTTAGAATTTTTATAAA-T
1 ATTTTAGAATTTTTAAAAATT
106538460 ATTTT-GAA-TTTTAAAAATT
1 ATTTTAGAATTTTTAAAAATT
106538479 ATTTT
1 ATTTT
106538484 TTAATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 9 0.41
20 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTTTAGAATTTTTAAAAATT
Found at i:106538505 original size:11 final size:12
Alignment explanation
Indices: 106538474--106538505 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
106538464 TGAATTTTAA
106538474 AAATTATTTTTT
1 AAATTATTTTTT
106538486 -AATTATTTTTT
1 AAATTATTTTTT
106538497 AAATT-TTTT
1 AAATTATTTT
106538506 GTTGAGAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
AAATTATTTTTT
Found at i:106546578 original size:14 final size:14
Alignment explanation
Indices: 106546540--106546570 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
106546530 TTGTTTCATT
106546540 GAAAATAATTTTTG
1 GAAAATAATTTTTG
106546554 GAAAATAATTTTTG
1 GAAAATAATTTTTG
106546568 GAA
1 GAA
106546571 TATGATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (14 bp):
GAAAATAATTTTTG
Found at i:106547158 original size:16 final size:16
Alignment explanation
Indices: 106547127--106547163 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
106547117 ATGTGAATAA
106547127 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
106547143 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
106547159 TATTA
1 TATTA
106547164 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:106550241 original size:24 final size:23
Alignment explanation
Indices: 106550162--106550242 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 23
106550152 TTTTTGTCTC
* *
106550162 ATTTTTTATTTGTTTTTTTTAAT
1 ATTTTTTATTTATTTTTTTAAAT
* *
106550185 ATTTGTT-TTTATGTTTTTAAAT
1 ATTTTTTATTTATTTTTTTAAAT
* * *
106550207 GTATTTGATTTATTATTTTTAAAT
1 ATTTTTTATTTATT-TTTTTAAAT
*
106550231 TTTTTTTATTTA
1 ATTTTTTATTTA
106550243 ATAAAAAAAG
Statistics
Matches: 44, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
22 15 0.34
23 11 0.25
24 18 0.41
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (23 bp):
ATTTTTTATTTATTTTTTTAAAT
Found at i:106552640 original size:15 final size:15
Alignment explanation
Indices: 106552620--106552649 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
106552610 TTGTTTGGTT
106552620 TATATACAGGGAATA
1 TATATACAGGGAATA
106552635 TATATACAGGGAATA
1 TATATACAGGGAATA
106552650 GGAATTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (15 bp):
TATATACAGGGAATA
Found at i:106564161 original size:16 final size:16
Alignment explanation
Indices: 106564140--106564170 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
106564130 TATTTCTAGG
106564140 TTACTATCGATTGTTT
1 TTACTATCGATTGTTT
106564156 TTACTATCGATTGTT
1 TTACTATCGATTGTT
106564171 CTTTGAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.13, G:0.13, T:0.55
Consensus pattern (16 bp):
TTACTATCGATTGTTT
Found at i:106567295 original size:18 final size:18
Alignment explanation
Indices: 106567272--106567323 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
106567262 CCATGCTTTT
106567272 ATTATAAATTAGAAAAAA
1 ATTATAAATTAGAAAAAA
* *
106567290 ATTATAAAAATA-AAAATA
1 ATTAT-AAATTAGAAAAAA
*
106567308 A-TATATATTAGAAAAA
1 ATTATAAATTAGAAAAA
106567324 TTATTAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
16 4 0.15
17 7 0.26
18 11 0.41
19 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
ATTATAAATTAGAAAAAA
Found at i:106567349 original size:18 final size:19
Alignment explanation
Indices: 106567301--106567349 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
106567291 TTATAAAAAT
*
106567301 AAAAATA-ATATATATTAG
1 AAAAATATATAAATATTAG
*
106567319 AAAAAT-TATTAAATTTTA-
1 AAAAATATA-TAAATATTAG
106567337 AAAAATATATAAA
1 AAAAATATATAAA
106567350 AAATTAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATATATAAATATTAG
Found at i:106567370 original size:19 final size:21
Alignment explanation
Indices: 106567342--106567392 Score: 72
Period size: 18 Copynumber: 2.6 Consensus size: 21
106567332 TTTTAAAAAA
106567342 TATATAAAAAATTAG-AATTT
1 TATATAAAAAATTAGAAATTT
106567362 TAT-T-AAAAATTAGAAATTT
1 TATATAAAAAATTAGAAATTT
*
106567381 TTTATAAAAAAT
1 TATATAAAAAAT
106567393 CTTAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 9 0.33
19 8 0.30
20 4 0.15
21 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (21 bp):
TATATAAAAAATTAGAAATTT
Found at i:106572890 original size:44 final size:44
Alignment explanation
Indices: 106572842--106573880 Score: 327
Period size: 44 Copynumber: 23.6 Consensus size: 44
106572832 CATTTCAATT
* * * * *
106572842 TGCTCCACTATTGCTTAGGGAGATATGATTTGTAATTTTCAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
* *
106572886 TGCTCCACTGCTGCTTAGGGAGATAAGATCTGCACTCTTCAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
* * * * **** * **
106572930 TGTTCCACTACTACTTAGGGAGATAGGGT-TGGTGGCTTGAATC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
** * ** * *
106572973 TGCTCCA-TTGTCACTATATAGAGATAAGAT-TCGTC-GTCTTC-GATC
1 TGCTCCACTACT-GCT-TAGGGAGATAAGATCT-G-CAATCTTCAG-CC
* *
106573018 TGCTCCGCTACTACTTAGGGAGATAAGATCTGCAATCTTCAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
* * *** ** **
106573062 TGTTCCACTACTGCTTAGGGAGATAAG-GCTGCTGGCTGAAAAC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
* * ** * * * *
106573105 TGCTCCATTGCCACTACATGGAGATAAGAT-T-CACCGTCTTC-GATC
1 TGCTCCACTACTGCT-TAGGGAGATAAGATCTGCA--ATCTTCAG-CC
* *
106573150 TGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
* **** * **
106573194 TGTTCCACTACTGCTTAGGGAGATAAGA-CTGGTGGCTTGAATC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
** * * * *
106573237 TGCTCCA-TTTTCGCTACATGGAGATACGAT-T-C-ATCGTCCTC-GATC
1 TGCTCCACTACT-GCT-TAGGGAGATAAGATCTGCAATC-T--TCAG-CC
*
106573282 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
* * * * **** * **
106573326 TGTTCAACTACTGCTTAGAGAGATAAG-GCTGGTGGCTTGAATC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
* * * * * * * *
106573369 TGTTCCATTTCTGCTACATGGAGATACGAT-T-CATCGTCTTC-GATC
1 TGCTCCACTACTGCT-TAGGGAGATAAGATCTGCA--ATCTTCAG-CC
* * *
106573414 TGTTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
* ** **** * ***
106573458 TGTTCCACTACTGCTTAGGGAGAT-AGGGCTGGTGGCTTGAATT
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
* * * * * * *
106573501 TGCTCCATTGCCGCTACATGGAGATAAGATTTGTC-ATCTTC-GATC
1 TGCTCCACTACTGCT-TAGGGAGATAAGATCTG-CAATCTTCAG-CC
* *
106573546 TGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTTAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
* * * *** * **
106573590 TGTTCCGCTACTGCTTAGGGAGATAAG-GCTGCTGGCTTGAATC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
* * * * * * * * *
106573633 TGCTCTATTGCCGCTACATGGAGATAAGGTTTGTC-ATCTTC-GATC
1 TGCTCCACTACTGCT-TAGGGAGATAAGATCTG-CAATCTTCAG-CC
*
106573678 TGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTCAGCC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
* * *** * **
106573722 TGTTCCACTACTGCTTAGGGAGATAAG-GCTGCTGGCTTGAATC
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
* ** * * * * *
106573765 TGCTCCATTTTTGCTACATGGAGATACGAT-T-CATCGTCTTC-GATC
1 TGCTCCACTACTGCT-TAGGGAGATAAGATCTGCA--ATCTTCAG-CC
** * *
106573810 TGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCT
1 TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
*
106573854 TGTTCCACTACTGCTTAGGGAGATAAG
1 TGCTCCACTACTGCTTAGGGAGATAAG
106573881 GCTGGTGGCT
Statistics
Matches: 705, Mismatches: 233, Indels: 114
0.67 0.22 0.11
Matches are distributed among these distances:
42 5 0.01
43 133 0.19
44 424 0.60
45 129 0.18
46 11 0.02
47 3 0.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (44 bp):
TGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCC
Found at i:106573098 original size:132 final size:132
Alignment explanation
Indices: 106572885--106574014 Score: 1629
Period size: 132 Copynumber: 8.6 Consensus size: 132
106572875 AATTTTCAGC
* * *
106572885 CTGCTCCACTGCTGCTTAGGGAGATAAGATCTGCACTCTTCAGCCTGTTCCACTACTACTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGTTCCACTACTGCTTAGGG
* * * * * *
106572950 AGATAGGGTTGGTGGCTTGAATCTGCTCCATTGTCACTATATAGAGATAAGATTCGTCGTCTTCG
66 AGATAAGGCTGGTGGCTTGAATCTGCTCCATTGTCGCTACATGGAGATAAGATTCATCGTCTTCG
106573015 AT
131 AT
* *
106573017 CTGCTCCGCTACTACTTAGGGAGATAAGATCTGCAATCTTCAGCCTGTTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGTTCCACTACTGCTTAGGG
* * * * *
106573082 AGATAAGGCTGCTGGC-TGAAAACTGCTCCATTGCCACTACATGGAGATAAGATTCACCGTCTTC
66 AGATAAGGCTGGTGGCTTG-AATCTGCTCCATTGTCGCTACATGGAGATAAGATTCATCGTCTTC
106573146 GAT
130 GAT
* *
106573149 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGCCTGTTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGTTCCACTACTGCTTAGGG
* * * *
106573214 AGATAAGACTGGTGGCTTGAATCTGCTCCATTTTCGCTACATGGAGATACGATTCATCGTCCTCG
66 AGATAAGGCTGGTGGCTTGAATCTGCTCCATTGTCGCTACATGGAGATAAGATTCATCGTCTTCG
106573279 AT
131 AT
* * *
106573281 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTTAGCCTGTTCAACTACTGCTTAGAG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGTTCCACTACTGCTTAGGG
* *
106573346 AGATAAGGCTGGTGGCTTGAATCTGTTCCATT-TCTGCTACATGGAGATACGATTCATCGTCTTC
66 AGATAAGGCTGGTGGCTTGAATCTGCTCCATTGTC-GCTACATGGAGATAAGATTCATCGTCTTC
106573410 GAT
130 GAT
* * *
106573413 CTGTTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGTTCCACTACTGCTTAGGG
* * * ** *
106573478 AGATAGGGCTGGTGGCTTGAATTTGCTCCATTGCCGCTACATGGAGATAAGATTTGTCATCTTCG
66 AGATAAGGCTGGTGGCTTGAATCTGCTCCATTGTCGCTACATGGAGATAAGATTCATCGTCTTCG
106573543 AT
131 AT
* * *
106573545 CTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTTAGCCTGTTCCGCTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGTTCCACTACTGCTTAGGG
* * * * ** *
106573610 AGATAAGGCTGCTGGCTTGAATCTGCTCTATTGCCGCTACATGGAGATAAGGTTTGTCATCTTCG
66 AGATAAGGCTGGTGGCTTGAATCTGCTCCATTGTCGCTACATGGAGATAAGATTCATCGTCTTCG
106573675 AT
131 AT
*
106573677 CTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTCAGCCTGTTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGTTCCACTACTGCTTAGGG
* * * *
106573742 AGATAAGGCTGCTGGCTTGAATCTGCTCCATTTTTGCTACATGGAGATACGATTCATCGTCTTCG
66 AGATAAGGCTGGTGGCTTGAATCTGCTCCATTGTCGCTACATGGAGATAAGATTCATCGTCTTCG
106573807 AT
131 AT
** * *
106573809 CTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCTTGTTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGTTCCACTACTGCTTAGGG
* * *
106573874 AGATAAGGCTGGTGGCTTGAATCTGCTCTATT-TCCACTACATAGAGATACA-ATTCATCGTCTT
66 AGATAAGGCTGGTGGCTTGAATCTGCTCCATTGT-CGCTACATGGAGATA-AGATTCATCGTCTT
*
106573937 TGAT
129 CGAT
* * * *
106573941 CTACTCCACTACTGCTTAGGGAGATAATATCTGCAATCTTTAGCCTGTTCCACTACTGCTTAGAG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGTTCCACTACTGCTTAGGG
106574006 AGATAAGGC
66 AGATAAGGC
106574015 AAGTTGAAAT
Statistics
Matches: 903, Mismatches: 89, Indels: 12
0.90 0.09 0.01
Matches are distributed among these distances:
131 5 0.01
132 895 0.99
133 3 0.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (132 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATCTTCAGCCTGTTCCACTACTGCTTAGGG
AGATAAGGCTGGTGGCTTGAATCTGCTCCATTGTCGCTACATGGAGATAAGATTCATCGTCTTCG
AT
Found at i:106611577 original size:628 final size:628
Alignment explanation
Indices: 106610381--106611634 Score: 2163
Period size: 628 Copynumber: 2.0 Consensus size: 628
106610371 CACTGAGAAA
* * *
106610381 CAAAGCTAAACAGTCATTGAACTCGTTACCATGAGGGTCTATCACTACTTGGGAACAAATGACCG
1 CAAAGCTAAACAATCATTGAACTAGTTACCACGAGGGTCTATCACTACTTGGGAACAAATGACCG
*
106610446 AAAATTTTTTACTAAAATACCTTTCGCCAGCTAAAACGGAAAAATAATGCAATGATATCTCTTCT
66 AAAATTTTTTACTAAAATACCTTTCGCCAGCTAAAACGGAAAAATAACGCAATGATATCTCTTCT
106610511 TTTGTGCAAATGGATTTAGAAACACTTTACGATGCATGAGAGAGATACAAGGACATACTGAGAAG
131 TTTGTGCAAATGGATTTAGAAACACTTTACGATGCATGAGAGAGATACAAGGACATACTGAGAAG
106610576 GTGCCCTCACCATGGGTTACCGCTTTGGCTTCAAATACAAACATTCCACAATGGTCTGAATCCCT
196 GTGCCCTCACCATGGGTTACCGCTTTGGCTTCAAATACAAACATTCCACAATGGTCTGAATCCCT
* * * *
106610641 CGACTCGGCAAATGGTTGACGCGGCTGTTGGCGGAACCATCAACAATAAAACACCGGAAGATGCC
261 CGACTCGGCAAATGGTTGACACGGCTGCTAGCGGAACCATCAACAATAAAACACCGAAAGATGCC
*
106610706 TATGAGTTTATAGAGGAGATGTCACTGAATAACTATCAGTGGCAAGTTATAAGGATAAAGCCAAC
326 TATGAGTTTATAGAGGAGATGTCACTGAATAACTATCAGTGGCAAGTTATAAGGACAAAGCCAAC
* *
106610771 GAAAACAGTCGGTGTTTATAACGTCGACTCAGTTACTATACTGTCAAATCAGGTAGAACTTCCCA
391 AAAAACAGTCGATGTTTATAACGTCGACTCAGTTACTATACTGTCAAATCAGGTAGAACTTCCCA
*
106610836 ATAAAAAGATTAATGGTTTACTTGGTTCTACGCAGGTACATCCAGTAATGAGGTGTGACGCGAGT
456 ATAAAAAGATTAATGGTTTACTTGGTTCTACGCAGGTACATCCAATAATGAGGTGTGACGCGAGT
*
106610901 GGAAGAGGTGTGCATACAGAATATCAATCCTTCAATCCTACAACCGAAGAGGAACAAGTCAACTA
521 GGAAGAGGTGTGCATACAGAATATCAATCCTTCAATCCCACAACCGAAGAGGAACAAGTCAACTA
106610966 TATGGGTAACAATAACTTTAGATCTCAAAATAACCCATACAAG
586 TATGGGTAACAATAACTTTAGATCTCAAAATAACCCATACAAG
**
106611009 CAAAGCTAAACAATGGTTGAACTAGTTACCACGAGGGTCTATCACTACTTGGGAACAAATGACC-
1 CAAAGCTAAACAATCATTGAACTAGTTACCACGAGGGTCTATCACTACTTGGGAACAAATGACCG
** *
106611073 AAAATTTTTTTACTAAAATA-CTTTCCGCCAGCTAAAACGGCTAAATTACGCAATGATATCTCTT
66 AAAA-TTTTTTACTAAAATACCTTT-CGCCAGCTAAAACGGAAAAATAACGCAATGATATCTCTT
* *
106611137 CTTTTGTGCAAATGGATTTAGAAATACTTTACGATGCAT-AGGAGAGATACAAGGACTTACTGAG
129 CTTTTGTGCAAATGGATTTAGAAACACTTTACGATGCATGA-GAGAGATACAAGGACATACTGAG
*
106611201 AAGGTGCCCTCACCATGGGTTACCGCTTTGGCTTCAAATACAAACATTCCACAATGGTTTGAATC
193 AAGGTGCCCTCACCATGGGTTACCGCTTTGGCTTCAAATACAAACATTCCACAATGGTCTGAATC
* **
106611266 CCTCGACTCGGCAAATGGTTGACATGGCTGCTAGCGGAACCATCAACAATAAAACATTGAAAGAT
258 CCTCGACTCGGCAAATGGTTGACACGGCTGCTAGCGGAACCATCAACAATAAAACACCGAAAGAT
*
106611331 GCCTATGAGTTTATAGAGGAGATGTCACTGAATAACTATCAGTGGCAAGTTATGAGGACAAAGCC
323 GCCTATGAGTTTATAGAGGAGATGTCACTGAATAACTATCAGTGGCAAGTTATAAGGACAAAGCC
* * ** *
106611396 AACAAAAATAGTCGATGTTTATAACGTCGACTTAGTTACTATGTTGTCAAATCAGGTAGAACTTT
388 AACAAAAACAGTCGATGTTTATAACGTCGACTCAGTTACTATACTGTCAAATCAGGTAGAACTTC
* *
106611461 CCAATAAAAAGATTGATGGTTTACTTGGTTCTACGCAGGTACATCCAATAATGAGGTGTGACGTG
453 CCAATAAAAAGATTAATGGTTTACTTGGTTCTACGCAGGTACATCCAATAATGAGGTGTGACGCG
*
106611526 AGTGGAGGAGGTGTGCATACAGAATATCAATCCTTCAATCCCACAACCGAAGAGGAACAAGTCAA
518 AGTGGAAGAGGTGTGCATACAGAATATCAATCCTTCAATCCCACAACCGAAGAGGAACAAGTCAA
106611591 CTATATGGGTAACAATAACTTTAGATCTCAAAATAACCCATACA
583 CTATATGGGTAACAATAACTTTAGATCTCAAAATAACCCATACA
106611635 GTAATACTTA
Statistics
Matches: 590, Mismatches: 33, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
627 9 0.02
628 581 0.98
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (628 bp):
CAAAGCTAAACAATCATTGAACTAGTTACCACGAGGGTCTATCACTACTTGGGAACAAATGACCG
AAAATTTTTTACTAAAATACCTTTCGCCAGCTAAAACGGAAAAATAACGCAATGATATCTCTTCT
TTTGTGCAAATGGATTTAGAAACACTTTACGATGCATGAGAGAGATACAAGGACATACTGAGAAG
GTGCCCTCACCATGGGTTACCGCTTTGGCTTCAAATACAAACATTCCACAATGGTCTGAATCCCT
CGACTCGGCAAATGGTTGACACGGCTGCTAGCGGAACCATCAACAATAAAACACCGAAAGATGCC
TATGAGTTTATAGAGGAGATGTCACTGAATAACTATCAGTGGCAAGTTATAAGGACAAAGCCAAC
AAAAACAGTCGATGTTTATAACGTCGACTCAGTTACTATACTGTCAAATCAGGTAGAACTTCCCA
ATAAAAAGATTAATGGTTTACTTGGTTCTACGCAGGTACATCCAATAATGAGGTGTGACGCGAGT
GGAAGAGGTGTGCATACAGAATATCAATCCTTCAATCCCACAACCGAAGAGGAACAAGTCAACTA
TATGGGTAACAATAACTTTAGATCTCAAAATAACCCATACAAG
Found at i:106616793 original size:48 final size:48
Alignment explanation
Indices: 106616701--106616793 Score: 107
Period size: 48 Copynumber: 1.9 Consensus size: 48
106616691 TAAATTACTG
* * * * *
106616701 ACTAAAATACGTTGTGGATAAACCATTAGTAGTTCATATGAACTGCCA
1 ACTAAAATACGTTATGGATAAACCACTAGTAGTGCAAATAAACTGCCA
* *
106616749 ACTAAAATACGTTATGGATAAATCACTGGCT-GTGCAAATAAACTG
1 ACTAAAATACGTTATGGATAAACCACTAG-TAGTGCAAATAAACTG
106616794 TCGACTACTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
48 36 0.97
49 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (48 bp):
ACTAAAATACGTTATGGATAAACCACTAGTAGTGCAAATAAACTGCCA
Found at i:106622793 original size:5 final size:5
Alignment explanation
Indices: 106622779--106622827 Score: 91
Period size: 5 Copynumber: 10.0 Consensus size: 5
106622769 AAGTATTAAG
106622779 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
106622828 AATAAAACAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.09
5 40 0.91
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:106623655 original size:16 final size:17
Alignment explanation
Indices: 106623629--106623664 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
106623619 TATTATGAAT
*
106623629 ATATATGTGTAAATGTG
1 ATATATGTGTAAATATG
106623646 ATAT-TGTGTAAATATG
1 ATATATGTGTAAATATG
106623662 ATA
1 ATA
106623665 ATTGGAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.19, T:0.42
Consensus pattern (17 bp):
ATATATGTGTAAATATG
Found at i:106623792 original size:27 final size:25
Alignment explanation
Indices: 106623768--106623824 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
106623758 AACCTTAGCA
106623768 CGCTCTCTGATTATTAGCACATTAG
1 CGCTCTCTGATTATTAGCACATTAG
* *
106623793 TGCTCTCTGATTATTGGCACATTAG
1 CGCTCTCTGATTATTAGCACATTAG
*
106623818 TGCTCTC
1 CGCTCTC
106623825 CATTTAGCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.39
Consensus pattern (25 bp):
CGCTCTCTGATTATTAGCACATTAG
Found at i:106623797 original size:25 final size:24
Alignment explanation
Indices: 106623769--106623870 Score: 115
Period size: 22 Copynumber: 4.3 Consensus size: 24
106623759 ACCTTAGCAC
106623769 GCTCTCTGATTATTAGCACATTAGT
1 GCTCTCTGA-TATTAGCACATTAGT
*
106623794 GCTCTCTGATTATTGGCACATTAGT
1 GCTCTCTGA-TATTAGCACATTAGT
*
106623819 GCTCTC-CAT-TTAGCACATTCA-T
1 GCTCTCTGATATTAGCACATT-AGT
*
106623841 GCTCTCTG-TA-TAGCACTTTAGT
1 GCTCTCTGATATTAGCACATTAGT
106623863 GCTCTCTG
1 GCTCTCTG
106623871 TTTAATAGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.01
22 34 0.50
23 2 0.03
24 1 0.01
25 30 0.44
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.39
Consensus pattern (24 bp):
GCTCTCTGATATTAGCACATTAGT
Found at i:106623835 original size:47 final size:44
Alignment explanation
Indices: 106623781--106623868 Score: 115
Period size: 47 Copynumber: 1.9 Consensus size: 44
106623771 TCTCTGATTA
*
106623781 TTAGCACATT-AGTGCTCTCTGATTATTGGCACATTAGTGCTCTCCAT
1 TTAGCACATTCA-TGCTCTCTG--TA-TAGCACATTAGTGCTCTCCAT
*
106623828 TTAGCACATTCATGCTCTCTGTATAGCACTTTAGTGCTCTC
1 TTAGCACATTCATGCTCTCTGTATAGCACATTAGTGCTCTC
106623869 TGTTTAATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
44 16 0.42
45 2 0.05
47 19 0.50
48 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.16, T:0.39
Consensus pattern (44 bp):
TTAGCACATTCATGCTCTCTGTATAGCACATTAGTGCTCTCCAT
Found at i:106626783 original size:27 final size:27
Alignment explanation
Indices: 106626735--106626892 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
106626725 GCGAGGCTGC
* *
106626735 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
106626762 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
106626788 CAGATATATGTGGCAAAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
106626815 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
106626842 CAGATATATGTGGCAGAGCCACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
106626869 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
106626893 AGACGCTTCC
Statistics
Matches: 114, Mismatches: 9, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.09
27 99 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:106626825 original size:54 final size:54
Alignment explanation
Indices: 106626735--106626892 Score: 230
Period size: 54 Copynumber: 2.9 Consensus size: 54
106626725 GCGAGGCTGC
* * * *
106626735 CAGATAT-TGTGACGAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
*
106626788 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
* *
106626842 CAGATATATGTGGCAGAGCCACCAAATCAGATAATTGTGGCATAGCCACCA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCA
106626893 AGACGCTTCC
Statistics
Matches: 96, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
53 12 0.12
54 84 0.88
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:106627298 original size:8 final size:8
Alignment explanation
Indices: 106627282--106627311 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
106627272 CTCAAAATAC
106627282 CGGCTTTT
1 CGGCTTTT
*
106627290 CGGCATTT
1 CGGCTTTT
106627298 CGGCTTTT
1 CGGCTTTT
106627306 CGGCTT
1 CGGCTT
106627312 GTGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:106628520 original size:26 final size:26
Alignment explanation
Indices: 106628489--106628596 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
106628479 TGAAATGCCC
*
106628489 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
106628515 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
106628541 ATCATGGAATATTTATCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
106628567 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
106628593 ATCA
1 ATCA
106628597 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:106634178 original size:39 final size:40
Alignment explanation
Indices: 106634062--106634245 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
106634052 CTACTCGTTA
*
106634062 AAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAC
*
106634102 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
106634142 CAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * * * *
106634181 AAATTCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCAC
1 AAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
**
106634222 AAA-GCCTTCAAGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAGCCCGGA
106634246 CATCATTCAA
Statistics
Matches: 119, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 74 0.62
41 12 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:106642338 original size:119 final size:120
Alignment explanation
Indices: 106642162--106642384 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
106642152 TACTCGTTCA
* * *
106642162 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
* *
106642227 ATAGT-AACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTCAACTAGCACAAA-GCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACC
* * *
106642282 AATGCCTTCAGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCAGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGG
* ** *
106642344 ATATGGTCATTTAGCACAAAGCCTTCAGGACTTAGCCCGGA
64 ATATAGTCAACTAGCACAAAGCCTTCAGGACTTAACCCGGA
106642385 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.73
120 20 0.23
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
ATAGTCAACTAGCACAAAGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:106642384 original size:40 final size:40
Alignment explanation
Indices: 106642141--106642384 Score: 264
Period size: 40 Copynumber: 6.1 Consensus size: 40
106642131 CGAAATTTAA
** * *
106642141 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCAGGACTTAGC
* *
106642181 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGC
* * *
106642221 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGC
* *
106642261 CCGGATTTAGTAACTCGCACCAATGCCTTCAGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGC
* *
106642300 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCAGGA-CTTAGC
* ** *
106642340 CCGGATATGGTCATTTAGCACAAA-GCCTTCAGGACTTAGC
1 CCGGATATAGT-AACTCGCACAAATGCCTTCAGGACTTAGC
106642380 CCGGA
1 CCGGA
106642385 CATCATTCAA
Statistics
Matches: 179, Mismatches: 18, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.18
40 131 0.73
41 14 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTAGC
Found at i:106645540 original size:38 final size:38
Alignment explanation
Indices: 106645453--106645609 Score: 172
Period size: 38 Copynumber: 4.0 Consensus size: 38
106645443 AAACCCAAAC
* * * *
106645453 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGAT
* *
106645493 ATAATACCAGCACTAGGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
106645531 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
** * *
106645569 ATAATTTCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGAT
1 ATAATACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGAT
106645609 A
1 A
106645610 CAATCTCAGC
Statistics
Matches: 102, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.01
38 63 0.62
39 8 0.08
40 30 0.29
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
Found at i:106645544 original size:78 final size:78
Alignment explanation
Indices: 106645453--106645609 Score: 194
Period size: 78 Copynumber: 2.0 Consensus size: 78
106645443 AAACCCAAAC
* *
106645453 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGATATAATACCAGCACTA-GGCCTGCGG
1 ATAACACCAGCACGAAGCCTACGGGA-TTT-AACCCAGATATAATACCAGCA-TATAGCCTGCGG
106645517 G-ATTTAA-CCCGGAT
63 GTATTTAAGCCCGGAT
* * * ** *
106645531 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTTCAGCATATAGCCTGCGGGTC
1 ATAACACCAGCACGAAGCCTACGGGATTTAACCCAGATATAATACCAGCATATAGCCTGCGGGTA
106645596 TTTAAGCCCGGAT
66 TTTAAGCCCGGAT
106645609 A
1 A
106645610 CAATCTCAGC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
75 2 0.03
76 26 0.38
77 8 0.12
78 32 0.47
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (78 bp):
ATAACACCAGCACGAAGCCTACGGGATTTAACCCAGATATAATACCAGCATATAGCCTGCGGGTA
TTTAAGCCCGGAT
Found at i:106648275 original size:26 final size:26
Alignment explanation
Indices: 106648225--106648277 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
106648215 ATTTTATTTT
*
106648225 TATCAATAACTATATAATAATAAATA
1 TATCAATAACTATATAATAAAAAATA
106648251 TATCAATAAACTACT-TAA-AAAAAATA
1 TATCAAT-AACTA-TATAATAAAAAATA
106648277 T
1 T
106648278 CAATTCATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 15 0.62
27 8 0.33
28 1 0.04
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.32
Consensus pattern (26 bp):
TATCAATAACTATATAATAAAAAATA
Found at i:106649119 original size:28 final size:28
Alignment explanation
Indices: 106649083--106649142 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
106649073 ATAACATTTT
*
106649083 ATTAAAAAAATAATCTTTAATAAATAGA
1 ATTAAAAAAATAATCCTTAATAAATAGA
*
106649111 ATTATAAAAATAATCCTTAATAAATAGA
1 ATTAAAAAAATAATCCTTAATAAATAGA
106649139 ATTA
1 ATTA
106649143 CATTTGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.33
Consensus pattern (28 bp):
ATTAAAAAAATAATCCTTAATAAATAGA
Found at i:106650892 original size:47 final size:47
Alignment explanation
Indices: 106650823--106650919 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
106650813 TTCACACAAC
*
106650823 ATGTTCTGTCAAAAGCATGCTATTTAAG-TTCATCTTTGCTTAGTTTA
1 ATGTTCTGTCAAAAGCATGCTATTT-AGCTTCATCTTTGCTCAGTTTA
106650870 ATGTTCTGTCAAAAGCATGCTATTTAGCTTCATCTTTGCTCAGTTTA
1 ATGTTCTGTCAAAAGCATGCTATTTAGCTTCATCTTTGCTCAGTTTA
106650917 ATG
1 ATG
106650920 GAGGTTTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 2 0.04
47 46 0.96
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.43
Consensus pattern (47 bp):
ATGTTCTGTCAAAAGCATGCTATTTAGCTTCATCTTTGCTCAGTTTA
Found at i:106653969 original size:23 final size:22
Alignment explanation
Indices: 106653943--106653986 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
106653933 AATTATTTTA
106653943 ATTTAATGATATTTTTTGAAATT
1 ATTTAATGATATTTTTT-AAATT
* **
106653966 ATTTTATTTTATTTTTTAAAT
1 ATTTAATGATATTTTTTAAAT
106653987 GAAGATAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (22 bp):
ATTTAATGATATTTTTTAAATT
Found at i:106654023 original size:19 final size:19
Alignment explanation
Indices: 106653983--106654023 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
106653973 TTTATTTTTT
***
106653983 AAATGAAGATAATTATTTA
1 AAATGAAGATAATTAAACA
106654002 AAATGAAGATAATTAAACA
1 AAATGAAGATAATTAAACA
106654021 AAA
1 AAA
106654024 CCATTTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.61, C:0.02, G:0.10, T:0.27
Consensus pattern (19 bp):
AAATGAAGATAATTAAACA
Found at i:106654358 original size:17 final size:17
Alignment explanation
Indices: 106654336--106654368 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
106654326 ATTCATTTAT
106654336 GGTTTCAACAAGCTAGC
1 GGTTTCAACAAGCTAGC
*
106654353 GGTTTCAACGAGCTAG
1 GGTTTCAACAAGCTAG
106654369 TAGACGGACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (17 bp):
GGTTTCAACAAGCTAGC
Found at i:106665425 original size:46 final size:43
Alignment explanation
Indices: 106665304--106665450 Score: 141
Period size: 46 Copynumber: 3.2 Consensus size: 43
106665294 CATTGCCATA
* * *
106665304 TCCCAGACATAGTTTTACACTGACACATCTCGTAGCCGATGCATG
1 TCCCAGACAT-GTCTTACACTGACTCGTCTCG-AGCCGATGCATG
* * *
106665349 TCCCAGACATGTCTTACATTGGCTTACGTCTCGAGGCCGAAGCATG
1 TCCCAGACATGTCTTACACTGAC-T-CGTCTCGA-GCCGATGCATG
* *
106665395 TCCCAGACATGTCTTACACTAGAACTCGTCTCAATGTCGATGCCATG
1 TCCCAGACATGTCTTACACT-G-ACTCGTCTCGA-GCCGATG-CATG
106665442 TCCCAGACA
1 TCCCAGACA
106665451 AGGTCTTATA
Statistics
Matches: 84, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
44 10 0.12
45 11 0.13
46 47 0.56
47 15 0.18
48 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGTCTTACACTGACTCGTCTCGAGCCGATGCATG
Found at i:106668474 original size:94 final size:94
Alignment explanation
Indices: 106668313--106668688 Score: 689
Period size: 94 Copynumber: 4.0 Consensus size: 94
106668303 AATATGACCG
* * *
106668313 TATATGCTATTTGAATTAAGTAAGTTGCCATATTATAATGAGTTAACATTGGCACTATGTGGGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
*
106668378 GAATTAAATGTCACTTTGTGTGTAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
106668407 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
106668472 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
106668501 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
106668566 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
*
106668595 TATATGCTATTTGAATTAAGTAAATTACCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
* *
106668660 GAATTAAATGGCACTATGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
106668689 GAATGTCGAT
Statistics
Matches: 275, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 275 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (94 bp):
TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
GAATTAAATGTCACTTTGTGTGCAGATTT
Found at i:106671670 original size:16 final size:18
Alignment explanation
Indices: 106671643--106671676 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
106671633 TTAGAATTGG
106671643 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
106671660 ATTGA-AAAATTAATTTA
1 ATTGAGAAAATTAATTTA
106671677 GTTAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:106671701 original size:8 final size:9
Alignment explanation
Indices: 106671667--106671700 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
106671657 TTAATTGAAA
106671667 AATTAATTT
1 AATTAATTT
*
106671676 AGTTAATTT
1 AATTAATTT
106671685 AATTAA-TT
1 AATTAATTT
106671693 AATTAATT
1 AATTAATT
106671701 ATATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (9 bp):
AATTAATTT
Found at i:106707115 original size:16 final size:17
Alignment explanation
Indices: 106707096--106707137 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
106707086 ATTTCAAAAT
*
106707096 TTAAAAAATATA-TAAA
1 TTAAAAAATATACCAAA
106707112 TT-AAAAATA-ACCAAA
1 TTAAAAAATATACCAAA
106707127 TTAAAAAATAT
1 TTAAAAAATAT
106707138 GGACTAAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 1 0.05
15 12 0.55
16 9 0.41
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAAAAAATATACCAAA
Found at i:106707119 original size:32 final size:30
Alignment explanation
Indices: 106707078--106707137 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
106707068 GTTTTAGATA
**
106707078 AAATTAAAATTTCAAAATTTAAAAAATATAT
1 AAATTAAAATAACAAAA-TTAAAAAATATAT
*
106707109 AAATTAAAAATAACCAAATTAAAAAATAT
1 AAATT-AAAATAACAAAATTAAAAAATAT
106707138 GGACTAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (30 bp):
AAATTAAAATAACAAAATTAAAAAATATAT
Found at i:106729277 original size:8 final size:8
Alignment explanation
Indices: 106729264--106729294 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
106729254 AACGGCAAAA
106729264 GCCGAAAT
1 GCCGAAAT
106729272 GCCGAAAT
1 GCCGAAAT
*
106729280 GTCGAAAT
1 GCCGAAAT
106729288 GCCGAAA
1 GCCGAAA
106729295 AGCCAAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.39, C:0.23, G:0.26, T:0.13
Consensus pattern (8 bp):
GCCGAAAT
Found at i:106729602 original size:29 final size:29
Alignment explanation
Indices: 106729526--106729602 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 29
106729516 TGATTGTGAC
* * * *
106729526 TGGGCCGAACGGGCCATATAGATGTGATT
1 TGGGCCTAATGGGCCATATACAGGTGATT
**
106729555 TGGGCCTAATGGGAAATATACAGGTGATT
1 TGGGCCTAATGGGCCATATACAGGTGATT
*
106729584 TGGGCCTAGTGGGCCATAT
1 TGGGCCTAATGGGCCATAT
106729603 GAATACGATT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.26
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACAGGTGATT
Found at i:106733104 original size:5 final size:6
Alignment explanation
Indices: 106733090--106733123 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
106733080 TAATTTTCCC
106733090 TTTTCT TTTTCT TTTTCT TTTTCCT TCTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTT-CT T-TTTCT TT
106733124 CCCTGCTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 17 0.65
7 6 0.23
8 3 0.12
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTCT
Found at i:106733105 original size:12 final size:13
Alignment explanation
Indices: 106733083--106733123 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
106733073 AAAACCCTAA
*
106733083 TTTTCCCTTTTCT
1 TTTTCCTTTTTCT
106733096 TTTT-CTTTTTCT
1 TTTTCCTTTTTCT
106733108 TTTTCCTTCTTTCT
1 TTTTCCTT-TTTCT
106733122 TT
1 TT
106733124 CCCTGCTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 11 0.44
13 7 0.28
14 7 0.28
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCCTTTTTCT
Found at i:106733204 original size:15 final size:15
Alignment explanation
Indices: 106733184--106733212 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
106733174 TTTATTCTTT
106733184 TATTATATTATTAAC
1 TATTATATTATTAAC
106733199 TATTATATTATTAA
1 TATTATATTATTAA
106733213 TTTCTTAAAT
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:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TATTATATTATTAAC
Found at i:106741702 original size:28 final size:28
Alignment explanation
Indices: 106741644--106741703 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
106741634 CATGCAGTAA
* * * * *
106741644 CAGTTTGGGCCTGAGCCCTATTCAGTAT
1 CAGTGTGGGCCTAAGCCCAATACAATAT
*
106741672 CAGTGTGGGCCTAAGCCCAATACAATTT
1 CAGTGTGGGCCTAAGCCCAATACAATAT
106741700 CAGT
1 CAGT
106741704 ATAGTGCAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (28 bp):
CAGTGTGGGCCTAAGCCCAATACAATAT
Found at i:106741886 original size:26 final size:27
Alignment explanation
Indices: 106741857--106741917 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
106741847 TGCCAGTAGC
* *
106741857 AGTAAGTGTGGCA-AGCCACCACTCAT
1 AGTAAATGTGACATAGCCACCACTCAT
* *
106741883 AGTAAATGTGACATAGTCACCAGTCAT
1 AGTAAATGTGACATAGCCACCACTCAT
106741910 A-TAAATGT
1 AGTAAATGT
106741918 CATACACACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 18 0.60
27 12 0.40
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AGTAAATGTGACATAGCCACCACTCAT
Found at i:106747427 original size:18 final size:19
Alignment explanation
Indices: 106747404--106747442 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
106747394 ATATATTCAC
106747404 ACATTTTCA-CAATTCAAT
1 ACATTTTCATCAATTCAAT
106747422 ACATTTTCATTCAATTCAAT
1 ACATTTTCA-TCAATTCAAT
106747442 A
1 A
106747443 TCAATACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (19 bp):
ACATTTTCATCAATTCAAT
Found at i:106748108 original size:25 final size:23
Alignment explanation
Indices: 106748082--106748158 Score: 66
Period size: 25 Copynumber: 3.2 Consensus size: 23
106748072 AATCCTAACT
106748082 TTTTCTCCTTTCTTTCTCTTTTTC
1 TTTTCTCCTTTC-TTCTCTTTTTC
* *
106748106 TTTTCTTTCTTTCCTTCTCTGTTTC
1 TTTTC-TCCTTT-CTTCTCTTTTTC
* *
106748131 GTTTCTGCTTTGGCTT-TCTTTTTC
1 TTTTCTCCTTT--CTTCTCTTTTTC
106748155 TTTT
1 TTTT
106748159 TCTATTTATT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
24 20 0.47
25 22 0.51
26 1 0.02
ACGTcount: A:0.00, C:0.25, G:0.06, T:0.69
Consensus pattern (23 bp):
TTTTCTCCTTTCTTCTCTTTTTC
Found at i:106748112 original size:17 final size:18
Alignment explanation
Indices: 106748080--106748115 Score: 56
Period size: 17 Copynumber: 2.0 Consensus size: 18
106748070 AAAATCCTAA
106748080 CTTTTTCTCCTTTCTTTCT
1 CTTTTTCT-CTTTCTTTCT
106748099 CTTTTTCT-TTTCTTTCT
1 CTTTTTCTCTTTCTTTCT
106748116 TTCCTTCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (18 bp):
CTTTTTCTCTTTCTTTCT
Found at i:106748135 original size:21 final size:21
Alignment explanation
Indices: 106748089--106748136 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
106748079 ACTTTTTCTC
*
106748089 CTTTCTTTCTCTTTTTCTTTT
1 CTTTCTTTCTCTTTCTCTTTT
106748110 CTTTCTTTC-C-TTCTCTGTTT
1 CTTTCTTTCTCTTTCTCT-TTT
106748130 CGTTTCT
1 C-TTTCT
106748137 GCTTTGGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.21
20 5 0.21
21 14 0.58
ACGTcount: A:0.00, C:0.27, G:0.04, T:0.69
Consensus pattern (21 bp):
CTTTCTTTCTCTTTCTCTTTT
Found at i:106748201 original size:5 final size:5
Alignment explanation
Indices: 106748191--106748215 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
106748181 GTTTTATTAG
106748191 ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA
106748216 TATTGATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:106752330 original size:26 final size:26
Alignment explanation
Indices: 106752294--106752403 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
106752284 TGATACAAAT
106752294 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
106752320 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
106752346 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
106752372 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
106752398 TGATAA
1 TGATAA
106752404 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:106754435 original size:137 final size:137
Alignment explanation
Indices: 106754189--106754475 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
106754179 GAGTAGTCTC
*
106754189 CCCAAATGGGATTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
106754254 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAGTCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACC
106754319 ACTGTTA
131 ACTGTTA
106754326 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
106754391 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACC
106754456 ACTGTTA
131 ACTGTTA
**
106754463 CCTGAATGGGCTT
1 CCCAAATGGGCTT
106754476 AGGCCCAATA
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:106758297 original size:26 final size:26
Alignment explanation
Indices: 106758261--106758344 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
106758251 TGATACAAAT
106758261 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
106758287 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
106758313 TGATAGTGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
106758339 TCATAA
1 TGATAA
106758345 GAATTTCATG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:106763230 original size:21 final size:19
Alignment explanation
Indices: 106763197--106763235 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
106763187 AAAATCCTAG
106763197 CTTTTTCTTCTTTCTTTCT
1 CTTTTTCTTCTTTCTTTCT
106763216 CTTTTTCTTTTCTTTCTTTC
1 CTTTTTC--TTCTTTCTTTC
106763236 CTTCTCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
CTTTTTCTTCTTTCTTTCT
Found at i:106763232 original size:25 final size:25
Alignment explanation
Indices: 106763199--106763247 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
106763189 AATCCTAGCT
*
106763199 TTTTCTTCTTTCTTTCTCT-TTTTC
1 TTTTCTTCTTTCCTTCTCTGTTTTC
106763223 TTTTCTTTCTTTCCTTCTCTGTTTT
1 TTTTC-TTCTTTCCTTCTCTGTTTT
106763248 ATTTCTACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.23
25 13 0.59
26 4 0.18
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTTCTTCTTTCCTTCTCTGTTTTC
Found at i:106763247 original size:21 final size:21
Alignment explanation
Indices: 106763204--106763253 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
106763194 TAGCTTTTTC
*
106763204 TTCTTTCTTTCTCTTTTTCTT
1 TTCTTTCTTTCTCTTTCTCTT
*
106763225 TTCTTTCTTTC-CTTCTCTGTT
1 TTCTTTCTTTCTCTT-TCTCTT
*
106763246 TTATTTCT
1 TTCTTTCT
106763254 ACTTTGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.72
Consensus pattern (21 bp):
TTCTTTCTTTCTCTTTCTCTT
Found at i:106763252 original size:25 final size:25
Alignment explanation
Indices: 106763200--106763253 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
106763190 ATCCTAGCTT
* *
106763200 TTTC-TTCTTTCTTTCTCTTTTTCT
1 TTTCTTTCTTTCCTTCTCTTTTTCA
106763224 TTTCTTTCTTTCCTTCTCTGTTTT-A
1 TTTCTTTCTTTCCTTCTCT-TTTTCA
106763249 TTTCT
1 TTTCT
106763254 ACTTTGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.72
Consensus pattern (25 bp):
TTTCTTTCTTTCCTTCTCTTTTTCA
Found at i:106763318 original size:5 final size:5
Alignment explanation
Indices: 106763308--106763340 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
106763298 GTTTTATTAT
106763308 ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATA
106763341 CTTATATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:106764557 original size:446 final size:446
Alignment explanation
Indices: 106763724--106764619 Score: 1792
Period size: 446 Copynumber: 2.0 Consensus size: 446
106763714 GCACTCCGTA
106763724 AATATTTATAAAAATATTTACGGCTCAGTTTATGAAATCGAGGTCTCGATACCTCAGTTTCGAAA
1 AATATTTATAAAAATATTTACGGCTCAGTTTATGAAATCGAGGTCTCGATACCTCAGTTTCGAAA
106763789 CTAATTAATTTGATAAATATTTCTAAAGCACAAATCTCTAATTCATAAGCCTTCCTAAATTCACG
66 CTAATTAATTTGATAAATATTTCTAAAGCACAAATCTCTAATTCATAAGCCTTCCTAAATTCACG
106763854 ATTGGCTCATAAATACTAAATAAATAATTTATAAGCTCACTTGTTAGATTTTATTGGTCTCAAAC
131 ATTGGCTCATAAATACTAAATAAATAATTTATAAGCTCACTTGTTAGATTTTATTGGTCTCAAAC
106763919 CAGTTTTTCTGACATCACTGAAAATTGGGTTATTACATGGCTAGCATGGGGTAGTCTTGAATTTC
196 CAGTTTTTCTGACATCACTGAAAATTGGGTTATTACATGGCTAGCATGGGGTAGTCTTGAATTTC
106763984 ATGAATTTGTGTAATAAGGACTAAATTGTAAAAAAATGAAAAGTTAGGGGCTAATGTGTAAAATA
261 ATGAATTTGTGTAATAAGGACTAAATTGTAAAAAAATGAAAAGTTAGGGGCTAATGTGTAAAATA
106764049 TCTCAAATGCATATTTTGGATTGATTTGAATAAATAGAGGAATAAATAAGTTGATTTTGATTACT
326 TCTCAAATGCATATTTTGGATTGATTTGAATAAATAGAGGAATAAATAAGTTGATTTTGATTACT
106764114 TATAGCTTAAGAAAAGAGGAATTCAGAATTAGATCGGGGAAAAAGCATAGTGATTG
391 TATAGCTTAAGAAAAGAGGAATTCAGAATTAGATCGGGGAAAAAGCATAGTGATTG
106764170 AATATTTATAAAAATATTTACGGCTCAGTTTATGAAATCGAGGTCTCGATACCTCAGTTTCGAAA
1 AATATTTATAAAAATATTTACGGCTCAGTTTATGAAATCGAGGTCTCGATACCTCAGTTTCGAAA
106764235 CTAATTAATTTGATAAATATTTCTAAAGCACAAATCTCTAATTCATAAGCCTTCCTAAATTCACG
66 CTAATTAATTTGATAAATATTTCTAAAGCACAAATCTCTAATTCATAAGCCTTCCTAAATTCACG
106764300 ATTGGCTCATAAATACTAAATAAATAATTTATAAGCTCACTTGTTAGATTTTATTGGTCTCAAAC
131 ATTGGCTCATAAATACTAAATAAATAATTTATAAGCTCACTTGTTAGATTTTATTGGTCTCAAAC
106764365 CAGTTTTTCTGACATCACTGAAAATTGGGTTATTACATGGCTAGCATGGGGTAGTCTTGAATTTC
196 CAGTTTTTCTGACATCACTGAAAATTGGGTTATTACATGGCTAGCATGGGGTAGTCTTGAATTTC
106764430 ATGAATTTGTGTAATAAGGACTAAATTGTAAAAAAATGAAAAGTTAGGGGCTAATGTGTAAAATA
261 ATGAATTTGTGTAATAAGGACTAAATTGTAAAAAAATGAAAAGTTAGGGGCTAATGTGTAAAATA
106764495 TCTCAAATGCATATTTTGGATTGATTTGAATAAATAGAGGAATAAATAAGTTGATTTTGATTACT
326 TCTCAAATGCATATTTTGGATTGATTTGAATAAATAGAGGAATAAATAAGTTGATTTTGATTACT
106764560 TATAGCTTAAGAAAAGAGGAATTCAGAATTAGATCGGGGAAAAAGCATAGTGATTG
391 TATAGCTTAAGAAAAGAGGAATTCAGAATTAGATCGGGGAAAAAGCATAGTGATTG
106764616 AATA
1 AATA
106764620 GTCAGTTTGT
Statistics
Matches: 450, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
446 450 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (446 bp):
AATATTTATAAAAATATTTACGGCTCAGTTTATGAAATCGAGGTCTCGATACCTCAGTTTCGAAA
CTAATTAATTTGATAAATATTTCTAAAGCACAAATCTCTAATTCATAAGCCTTCCTAAATTCACG
ATTGGCTCATAAATACTAAATAAATAATTTATAAGCTCACTTGTTAGATTTTATTGGTCTCAAAC
CAGTTTTTCTGACATCACTGAAAATTGGGTTATTACATGGCTAGCATGGGGTAGTCTTGAATTTC
ATGAATTTGTGTAATAAGGACTAAATTGTAAAAAAATGAAAAGTTAGGGGCTAATGTGTAAAATA
TCTCAAATGCATATTTTGGATTGATTTGAATAAATAGAGGAATAAATAAGTTGATTTTGATTACT
TATAGCTTAAGAAAAGAGGAATTCAGAATTAGATCGGGGAAAAAGCATAGTGATTG
Found at i:106773133 original size:14 final size:14
Alignment explanation
Indices: 106773133--106773202 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
106773123 TCTTAGATAT
*
106773133 GATATGGAATCTTA
1 GATATGCAATCTTA
106773147 GATATGATACAATCTTA
1 GATATG---CAATCTTA
106773164 GATATGATATGCAATCTTA
1 G--AT-AT--GCAATCTTA
106773183 GATATGCAATCTTA
1 GATATGCAATCTTA
106773197 GATATG
1 GATATG
106773203 ATATGCAATC
Statistics
Matches: 47, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
14 21 0.45
16 2 0.04
17 10 0.21
19 11 0.23
20 2 0.04
22 1 0.02
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (14 bp):
GATATGCAATCTTA
Found at i:106773152 original size:33 final size:33
Alignment explanation
Indices: 106773114--106773223 Score: 166
Period size: 33 Copynumber: 3.2 Consensus size: 33
106773104 AATCTTTAAG
*
106773114 GATATGCAATCTTAGATATGATATGGAATCTTA
1 GATATGCAATCTTAGATATGATATGCAATCTTA
106773147 GATATGATACAATCTTAGATATGATATGCAATCTTA
1 GATATG---CAATCTTAGATATGATATGCAATCTTA
106773183 GATATGCAATCTTAGATATGATATGCAATCTTGAA
1 GATATGCAATCTTAGATATGATATGCAATCTT--A
106773218 GATATG
1 GATATG
106773224 ATCTTGTATC
Statistics
Matches: 71, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
33 32 0.45
35 7 0.10
36 32 0.45
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.35
Consensus pattern (33 bp):
GATATGCAATCTTAGATATGATATGCAATCTTA
Found at i:106773222 original size:21 final size:19
Alignment explanation
Indices: 106773114--106773225 Score: 148
Period size: 19 Copynumber: 6.2 Consensus size: 19
106773104 AATCTTTAAG
106773114 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
106773133 GATATGGAATCTTAGATAT
1 GATATGCAATCTTAGATAT
106773152 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
106773169 GATATGCAATC-T---TA-
1 GATATGCAATCTTAGATAT
106773183 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
106773202 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
106773223 GAT
1 GAT
106773226 CTTGTATCTT
Statistics
Matches: 82, Mismatches: 2, Indels: 16
0.82 0.02 0.16
Matches are distributed among these distances:
14 11 0.13
15 3 0.04
17 16 0.20
18 3 0.04
19 40 0.49
21 9 0.11
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:106773228 original size:33 final size:35
Alignment explanation
Indices: 106773104--106773228 Score: 136
Period size: 33 Copynumber: 3.6 Consensus size: 35
106773094 ATGGAAATAT
* *
106773104 AATCTTTAAGGATATGCAATCTTAGATATGATATGG
1 AATCTTGAAGGATATG-AATCTTAGATATGATATGC
* *
106773140 AATCTTAGATATGATA-CAATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGAATCTTAGATATGATATGC
106773176 AATCTT--A-GATATGCAATCTTAGATATGATATGC
1 AATCTTGAAGGATATG-AATCTTAGATATGATATGC
106773209 AATCTTGAA-GATATG-ATCTT
1 AATCTTGAAGGATATGAATCTT
106773229 GTATCTTGGA
Statistics
Matches: 78, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
31 4 0.05
32 1 0.01
33 30 0.38
35 7 0.09
36 30 0.38
37 1 0.01
38 5 0.06
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (35 bp):
AATCTTGAAGGATATGAATCTTAGATATGATATGC
Found at i:106774950 original size:24 final size:24
Alignment explanation
Indices: 106774923--106774970 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
106774913 TTGTTTTAAA
106774923 GAAAACCAGATTTAAATTGTGCTT
1 GAAAACCAGATTTAAATTGTGCTT
106774947 GAAAACCAGATTTAAATTGTGCTT
1 GAAAACCAGATTTAAATTGTGCTT
106774971 ATCAGTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (24 bp):
GAAAACCAGATTTAAATTGTGCTT
Found at i:106782826 original size:17 final size:18
Alignment explanation
Indices: 106782794--106782828 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
106782784 ATGTAGTTCA
*
106782794 CCTGTGTGGACCCACACG
1 CCTGTATGGACCCACACG
106782812 CCTGTATGG-CCCACACG
1 CCTGTATGGACCCACACG
106782829 GCCCAATGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.17, C:0.40, G:0.26, T:0.17
Consensus pattern (18 bp):
CCTGTATGGACCCACACG
Found at i:106786322 original size:14 final size:14
Alignment explanation
Indices: 106786287--106786337 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
106786277 AGAAAAGAAA
106786287 GAATGATGAGGGAT
1 GAATGATGAGGGAT
**
106786301 GAGGGATGAGGGAT
1 GAATGATGAGGGAT
* **
106786315 AAATGATGAATGAT
1 GAATGATGAGGGAT
106786329 GAATGATGA
1 GAATGATGA
106786338 ATGATGAGGA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.22
Consensus pattern (14 bp):
GAATGATGAGGGAT
Found at i:106786322 original size:21 final size:21
Alignment explanation
Indices: 106786298--106786346 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
106786288 AATGATGAGG
*
106786298 GATGAGGGATGAGGGATAAAT
1 GATGAGGGATGAAGGATAAAT
** * *
106786319 GATGAATGATGAATGATGAAT
1 GATGAGGGATGAAGGATAAAT
106786340 GATGAGG
1 GATGAGG
106786347 AATCAAATGA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.22
Consensus pattern (21 bp):
GATGAGGGATGAAGGATAAAT
Found at i:106786326 original size:7 final size:7
Alignment explanation
Indices: 106786316--106786344 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
106786306 ATGAGGGATA
106786316 AATGATG
1 AATGATG
106786323 AATGATG
1 AATGATG
106786330 AATGATG
1 AATGATG
106786337 AATGATG
1 AATGATG
106786344 A
1 A
106786345 GGAATCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.28, T:0.28
Consensus pattern (7 bp):
AATGATG
Found at i:106786337 original size:35 final size:36
Alignment explanation
Indices: 106786287--106786356 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 36
106786277 AGAAAAGAAA
* * *
106786287 GAATGATGAGGGATGAGGGATGAGGGAT-AAATGAT
1 GAATGATGAAGGATGAAGGATGAGGAATCAAATGAT
* *
106786322 GAATGATGAATGATGAATGATGAGGAATCAAATGA
1 GAATGATGAAGGATGAAGGATGAGGAATCAAATGA
106786357 GGTCTTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 23 0.79
36 6 0.21
ACGTcount: A:0.41, C:0.01, G:0.36, T:0.21
Consensus pattern (36 bp):
GAATGATGAAGGATGAAGGATGAGGAATCAAATGAT
Found at i:106795185 original size:53 final size:58
Alignment explanation
Indices: 106795127--106795255 Score: 144
Period size: 61 Copynumber: 2.2 Consensus size: 58
106795117 TTGTTATTAA
* *
106795127 ATTTTAATAGAATTA-T-TT-AAT-A-TTTAATAATAAAT-AATAAATAATTTAATCAT
1 ATTTTAATAAAATTATTATTAAATAAGTTTAATAA-AAATAAATAAATAATTTAATAAT
106795180 ATTTTAATAAAATTATTATTAAATACAGTTTAATAAAAATAAAAATAAATAATTTAATAAT
1 ATTTTAATAAAATTATTATTAAATA-AGTTTAATAAAAAT--AAATAAATAATTTAATAAT
*
106795241 ATTATTAATATAATT
1 ATT-TTAATAAAATT
106795256 TGGTTCATCT
Statistics
Matches: 63, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
53 14 0.22
54 1 0.02
55 2 0.03
56 3 0.05
58 5 0.08
59 8 0.13
61 20 0.32
62 10 0.16
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (58 bp):
ATTTTAATAAAATTATTATTAAATAAGTTTAATAAAAATAAATAAATAATTTAATAAT
Found at i:106795211 original size:26 final size:24
Alignment explanation
Indices: 106795182--106795250 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 24
106795172 TTAATCATAT
*
106795182 TTTAATAAAATTATTATTAAATACA
1 TTTAATAAAATTATTAATAAATA-A
* **
106795207 GTTTAATAAAAATAAAAATAAATAA
1 -TTTAATAAAATTATTAATAAATAA
*
106795232 TTTAATAATATTATTAATA
1 TTTAATAAAATTATTAATA
106795251 TAATTTGGTT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 15 0.43
25 1 0.03
26 19 0.54
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (24 bp):
TTTAATAAAATTATTAATAAATAA
Found at i:106798439 original size:11 final size:11
Alignment explanation
Indices: 106798424--106798632 Score: 53
Period size: 11 Copynumber: 17.9 Consensus size: 11
106798414 TAACCCTATT
106798424 TTTATATTTATA
1 TTTATA-TTATA
106798436 TTATATAGTTAT-
1 TT-TATA-TTATA
106798448 TTTATTATGTATTA
1 TTTA-TAT-TA-TA
106798462 TTTATA-T-TA
1 TTTATATTATA
106798471 -TTATATTATTA
1 TTTATATTA-TA
*
106798482 TTT-T-TCACTA
1 TTTATATTA-TA
*
106798492 ATTATTATTAT-
1 TTTA-TATTATA
*
106798503 TTTACATTATTA
1 TTTATATTA-TA
106798515 TTTATA-TATTA
1 TTTATATTA-TA
*
106798526 TTGTTATATTTTTA
1 -T-TTATA-TTATA
* *
106798540 CTTGTATTATA
1 TTTATATTATA
106798551 TATT-TATTAATTA
1 T-TTATATT-A-TA
106798564 TTTATATGTAT-
1 TTTATAT-TATA
*
106798575 TATATATTATA
1 TTTATATTATA
* *
106798586 TTCACATATATA
1 TTTATAT-TATA
106798598 CTTTCATATTATA
1 -TTT-ATATTATA
106798611 TATTATAATTAT-
1 T-TTAT-ATTATA
106798623 TTTATATTAT
1 TTTATATTAT
106798633 TATGTCATTT
Statistics
Matches: 149, Mismatches: 19, Indels: 60
0.65 0.08 0.26
Matches are distributed among these distances:
8 5 0.03
9 3 0.02
10 18 0.12
11 38 0.26
12 36 0.24
13 38 0.26
14 10 0.07
15 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTATATTATA
Found at i:106798447 original size:8 final size:7
Alignment explanation
Indices: 106798426--106798635 Score: 51
Period size: 7 Copynumber: 30.1 Consensus size: 7
106798416 ACCCTATTTT
106798426 TATATT-
1 TATATTA
106798432 TATATTA
1 TATATTA
106798439 TATAGTTA
1 TATA-TTA
106798447 T-T-TTA
1 TATATTA
106798452 T-TATGTA
1 TATAT-TA
106798459 T-TATT-
1 TATATTA
106798464 TATATTA
1 TATATTA
106798471 TTATATTA
1 -TATATTA
106798479 T-TATT-
1 TATATTA
* *
106798484 TTTCACTA
1 TAT-ATTA
106798492 -ATTATTA
1 TA-TATTA
*
106798499 T-TATTT
1 TATATTA
*
106798505 TACATTA
1 TATATTA
106798512 T-TATTTA
1 TATA-TTA
106798519 TATATTA
1 TATATTA
*
106798526 T-TGTTA
1 TATATTA
*
106798532 TATTTTTA
1 TA-TATTA
*
106798540 CTTGTATTA
1 --TATATTA
106798549 TATATT-
1 TATATTA
106798555 TATTAATTA
1 TA-T-ATTA
*
106798564 TTTA-TA
1 TATATTA
*
106798570 TGTATTA
1 TATATTA
106798577 TATATTA
1 TATATTA
*
106798584 TATTCACATA
1 TA-T-A-TTA
106798594 TATACTT-
1 TATA-TTA
106798601 TCATATTA
1 T-ATATTA
106798609 TATATTA
1 TATATTA
106798616 TA-ATTA
1 TATATTA
106798622 T-T-TTA
1 TATATTA
106798627 TATTATTA
1 TA-TATTA
106798635 T
1 T
106798636 GTCATTTTTT
Statistics
Matches: 155, Mismatches: 17, Indels: 62
0.66 0.07 0.26
Matches are distributed among these distances:
5 11 0.07
6 40 0.26
7 58 0.37
8 34 0.22
9 7 0.05
10 5 0.03
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (7 bp):
TATATTA
Found at i:106798447 original size:19 final size:18
Alignment explanation
Indices: 106798425--106798536 Score: 57
Period size: 19 Copynumber: 6.4 Consensus size: 18
106798415 AACCCTATTT
106798425 TTATATTTATATTATATAG
1 TTATATTTATATTAT-TAG
*
106798444 TTAT-TTTATTATGTATTAT
1 TTATATTTA-TAT-TATTAG
106798463 TTATATTATTATATTATTA-
1 TTATA-T-TTATATTATTAG
*
106798482 TT-T-TTCACTAATTATTA-
1 TTATATTTA-T-ATTATTAG
*
106798499 TTAT-TTTACATTATTA-
1 TTATATTTATATTATTAG
106798515 TT-TA--TATATTATT-G
1 TTATATTTATATTATTAG
106798529 TTATATTT
1 TTATATTT
106798537 TTACTTGTAT
Statistics
Matches: 75, Mismatches: 5, Indels: 28
0.69 0.05 0.26
Matches are distributed among these distances:
14 10 0.13
15 5 0.07
16 11 0.15
17 10 0.13
18 9 0.12
19 15 0.20
20 8 0.11
21 4 0.05
22 3 0.04
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
TTATATTTATATTATTAG
Found at i:106798460 original size:7 final size:6
Alignment explanation
Indices: 106798434--106798584 Score: 57
Period size: 7 Copynumber: 24.0 Consensus size: 6
106798424 TTTATATTTA
106798434 TATTAT ATAGTTAT T-TTAT TATGTAT TATT-T ATATTAT TA-TAT TATTAT
1 TATTAT -TA-TTAT TATTAT TAT-TAT TATTAT -TATTAT TATTAT TATTAT
* * * *
106798483 TTTTCACT AATTAT TATTAT T-TTA- CATTAT TATTTAT ATATTAT TGTTA-
1 TATT-A-T TATTAT TATTAT TATTAT TATTAT TA-TTAT -TATTAT TATTAT
* *
106798532 TATTTT TACTT-G TATTAT ATATTTAT TAATTAT T-TATAT GTATTAT
1 TATTAT TA-TTAT TATTAT -TA-TTAT T-ATTAT TAT-TAT -TATTAT
106798578 ATATTAT
1 -TATTAT
106798585 ATTCACATAT
Statistics
Matches: 111, Mismatches: 12, Indels: 42
0.67 0.07 0.25
Matches are distributed among these distances:
5 23 0.21
6 33 0.30
7 40 0.36
8 15 0.14
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (6 bp):
TATTAT
Found at i:106798597 original size:28 final size:28
Alignment explanation
Indices: 106798542--106798597 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
106798532 TATTTTTACT
* *
106798542 TGTATTATATATTTATTAATTATTTATA
1 TGTATTATATATTTATTAATCATATATA
*
106798570 TGTATTATATATTATATTCA-CATATATA
1 TGTATTATATATT-TATTAATCATATATA
106798598 CTTTCATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (28 bp):
TGTATTATATATTTATTAATCATATATA
Found at i:106798634 original size:13 final size:13
Alignment explanation
Indices: 106798423--106798635 Score: 67
Period size: 13 Copynumber: 16.1 Consensus size: 13
106798413 TTAACCCTAT
106798423 TTTTATA-T-TTA
1 TTTTATATTATTA
*
106798434 TATTATA-TAGTTA
1 TTTTATATTA-TTA
106798447 TTTTATTATGTATTA
1 TTTTA-TAT-TATTA
106798462 -TTTATATTATTA
1 TTTTATATTATTA
* *
106798474 TATTATTATTTTTCA
1 TTTTA-TATTATT-A
* *
106798489 -CTAATTATTATTA
1 TTTTA-TATTATTA
*
106798502 TTTTACATTATTA
1 TTTTATATTATTA
106798515 -TTTATA-TATTA
1 TTTTATATTATTA
*
106798526 TTGTTATATTTTTA
1 TT-TTATATTATTA
* *
106798540 -CTTGTATTA-TA
1 TTTTATATTATTA
*
106798551 TATTTAT-TAATTA
1 T-TTTATATTATTA
106798564 -TTTATATGTATTA
1 TTTTATAT-TATTA
106798577 TATATTATATTCACATATA
1 T-T-TTATATT---AT-TA
106798596 TACTTTCATATTA-TA
1 T--TTT-ATATTATTA
*
106798611 TATTATA--ATTA
1 TTTTATATTATTA
106798622 TTTTATATTATTA
1 TTTTATATTATTA
106798635 T
1 T
106798636 GTCATTTTTT
Statistics
Matches: 151, Mismatches: 22, Indels: 56
0.66 0.10 0.24
Matches are distributed among these distances:
10 1 0.01
11 27 0.18
12 23 0.15
13 42 0.28
14 27 0.18
15 9 0.06
16 8 0.05
17 1 0.01
18 2 0.01
19 5 0.03
20 6 0.04
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (13 bp):
TTTTATATTATTA
Done.