Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 322 of 328
Found at i:95371537 original size:26 final size:26
Alignment explanation
Indices: 95371508--95371564 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
95371498 TTTTATGAAC
* *
95371508 TTTTTATATTTTT-TGAATTTTAAATA
1 TTTTTATTTTTTTAT-ATTTTTAAATA
*
95371534 TTTTTATTTTTTTATATTTTTAAATT
1 TTTTTATTTTTTTATATTTTTAAATA
95371560 TTTTT
1 TTTTT
95371565 GTTGACATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 26 0.96
27 1 0.04
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTTTATTTTTTTATATTTTTAAATA
Found at i:95371560 original size:18 final size:17
Alignment explanation
Indices: 95371508--95371564 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
95371498 TTTTATGAAC
95371508 TTTTTATATTTTTTGAA-T
1 TTTTTATA-TTTTT-AATT
**
95371526 TTTAAATATTTTT-ATT
1 TTTTTATATTTTTAATT
95371542 TTTTTATATTTTTAAATT
1 TTTTTATATTTTT-AATT
95371560 TTTTT
1 TTTTT
95371565 GTTGACATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 1 0.03
16 12 0.38
17 5 0.16
18 14 0.44
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTTATATTTTTAATT
Found at i:95371561 original size:16 final size:16
Alignment explanation
Indices: 95371508--95371562 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
95371498 TTTTATGAAC
*
95371508 TTTTTATATTTTTTGAA
1 TTTTTATA-TTTTTAAA
* **
95371525 TTTTAAATATTTTTATT
1 TTTT-TATATTTTTAAA
95371542 TTTTTATATTTTTAAA
1 TTTTTATATTTTTAAA
95371558 TTTTT
1 TTTTT
95371563 TTGTTGACAT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
16 14 0.47
17 13 0.43
18 3 0.10
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTTTATATTTTTAAA
Found at i:95377946 original size:19 final size:19
Alignment explanation
Indices: 95377922--95377959 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
95377912 TTTTAAAAAG
*
95377922 TTTTTTTAAATTATTTTAA
1 TTTTTTAAAATTATTTTAA
95377941 TTTTTTAAAATTATTTTAA
1 TTTTTTAAAATTATTTTAA
95377960 AAAAATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTTTAAAATTATTTTAA
Found at i:95381715 original size:26 final size:29
Alignment explanation
Indices: 95381686--95381738 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
95381676 TTTTATATTA
*
95381686 AAATATT-TT-TTTTGTTTTT-TTAAAAT
1 AAATATTATTATTTTATTTTTATTAAAAT
95381712 AAATATTATTATTTTATTTTTATTAAA
1 AAATATTATTATTTTATTTTTATTAAA
95381739 TATATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
27 2 0.09
28 9 0.39
29 5 0.22
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
AAATATTATTATTTTATTTTTATTAAAAT
Found at i:95381743 original size:26 final size:24
Alignment explanation
Indices: 95381676--95381745 Score: 63
Period size: 28 Copynumber: 2.8 Consensus size: 24
95381666 AACTCCTTAT
*
95381676 TTTTATATTAAA-ATATTTTTTTTG
1 TTTT-TATTAAATATATTTTTTTTA
95381700 TTTTT-TTAAAATAAATATTATTATTTTA
1 TTTTTATT-AAAT--ATATT-TT-TTTTA
95381728 TTTTTATTAAATATATTT
1 TTTTTATTAAATATATTT
95381746 AAATTTATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
22 2 0.05
23 4 0.11
24 4 0.11
25 1 0.03
26 10 0.26
27 2 0.05
28 13 0.34
29 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (24 bp):
TTTTTATTAAATATATTTTTTTTA
Found at i:95382318 original size:103 final size:105
Alignment explanation
Indices: 95382127--95382370 Score: 306
Period size: 103 Copynumber: 2.3 Consensus size: 105
95382117 GAGTGTTTAG
95382127 TAGTTTAG-GATTTTGTGATTTTTTAGTAATGTGATTTTTTTTAAAAAAAATATAATTTTATAGC
1 TAGTTTAGTG-TTTTGTGATTTTTTAGTAATGT-A----TTTTAAAAAAAATATAATTTTATAGC
*
95382191 TATTTTGTTAGTAATTCATAATTAGGTTATATAAATTT-TTAGTGTT
60 TATTTTGTTAGTAATTCAGAATTAGGTTATAT-AATTTGTTAGTGTT
* * *
95382237 TAG-TTATGTGTTTTGTGATTTTTTAGTAATGTA-TTTAAAAAATA-ATACTTTTATAGTTATTT
1 TAGTTTA-GTGTTTTGTGATTTTTTAGTAATGTATTTTAAAAAAAATATAATTTTATAGCTATTT
*
95382299 TGTTAGTAACTT-AGGATTAGGTTATATAATTTGTTAGTGTT
65 TGTTAGTAA-TTCAGAATTAGGTTATATAATTTGTTAGTGTT
95382340 TAGTTTAGTGTTTTGTGATTTTTT--TAATGTA
1 TAGTTTAGTGTTTTGTGATTTTTTAGTAATGTA
95382371 ATGTTTATAT
Statistics
Matches: 124, Mismatches: 5, Indels: 19
0.84 0.03 0.13
Matches are distributed among these distances:
101 7 0.06
102 5 0.04
103 66 0.53
104 15 0.12
109 4 0.03
110 26 0.21
111 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.54
Consensus pattern (105 bp):
TAGTTTAGTGTTTTGTGATTTTTTAGTAATGTATTTTAAAAAAAATATAATTTTATAGCTATTTT
GTTAGTAATTCAGAATTAGGTTATATAATTTGTTAGTGTT
Found at i:95382477 original size:27 final size:27
Alignment explanation
Indices: 95382447--95382503 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
95382437 GACGGGTCCC
* **
95382447 ACCAGTCGCGCCTGTCAGATAGGCACA
1 ACCAATCGCGCCTACCAGATAGGCACA
* *
95382474 ACCAATCGCGCTTACCAGATAGGTACA
1 ACCAATCGCGCCTACCAGATAGGCACA
95382501 ACC
1 ACC
95382504 TAGCCCTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.33, G:0.21, T:0.16
Consensus pattern (27 bp):
ACCAATCGCGCCTACCAGATAGGCACA
Found at i:95384271 original size:2 final size:2
Alignment explanation
Indices: 95384230--95384259 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
95384220 AGAAGAAATG
95384230 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95384260 GGTTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95385850 original size:13 final size:14
Alignment explanation
Indices: 95385832--95385861 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
95385822 AAGTGAATGC
95385832 TTTACT-TTTTTTT
1 TTTACTCTTTTTTT
95385845 TTTACTCTTTTTTT
1 TTTACTCTTTTTTT
95385859 TTT
1 TTT
95385862 TTTTGGTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTACTCTTTTTTT
Found at i:95400187 original size:62 final size:63
Alignment explanation
Indices: 95400100--95400227 Score: 222
Period size: 62 Copynumber: 2.0 Consensus size: 63
95400090 AACCAGTACT
*
95400100 ATTAAAAATTTCATCTATTAAAAACTAGTGTTGTTTCTCTGGTTATTCCGTC-AACCACGCCA
1 ATTAAAAATTTCATCTATTAAAAACTAGTGTTGTTTCTCTCGTTATTCCGTCAAACCACGCCA
* *
95400162 ATTAAAAATTTCATCTATTAAAAACTAGTGTTGTTTCTCTCGTTATTCCTTCAAACCATGCCA
1 ATTAAAAATTTCATCTATTAAAAACTAGTGTTGTTTCTCTCGTTATTCCGTCAAACCACGCCA
95400225 ATT
1 ATT
95400228 TTTAACGGTT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
62 50 0.81
63 12 0.19
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.39
Consensus pattern (63 bp):
ATTAAAAATTTCATCTATTAAAAACTAGTGTTGTTTCTCTCGTTATTCCGTCAAACCACGCCA
Found at i:95405337 original size:35 final size:34
Alignment explanation
Indices: 95405297--95405373 Score: 138
Period size: 35 Copynumber: 2.3 Consensus size: 34
95405287 ATACTCCAAG
95405297 ACCTGAAGAGAATGAAAACGAATCTATTGCTGCAA
1 ACCTGAAGAGAATGAAAACGAATCTATTGCTGC-A
95405332 ACCTGAAGAGAATGAAAACGAATCTATTGCTGCA
1 ACCTGAAGAGAATGAAAACGAATCTATTGCTGCA
95405366 ACCT-AAGA
1 ACCTGAAGA
95405374 AAGACAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 4 0.10
34 5 0.12
35 33 0.79
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.19
Consensus pattern (34 bp):
ACCTGAAGAGAATGAAAACGAATCTATTGCTGCA
Found at i:95405509 original size:78 final size:78
Alignment explanation
Indices: 95405399--95405553 Score: 283
Period size: 78 Copynumber: 2.0 Consensus size: 78
95405389 CAATGCTGAT
* *
95405399 TACATGTGCATGGGCCACATATTGAATGGTTTATCTGATGGTTTGTTTGACACTTACCAAAACGA
1 TACATGTGCATGGGCCACATATTGAATAGTTTATCTGATGGTTTGTTCGACACTTACCAAAACGA
95405464 GGTCACCGCTAAC
66 GGTCACCGCTAAC
*
95405477 TACATGTGCATGGGCCACATATTGTATAGTTTATCTGATGGTTTGTTCGACACTTACCAAAACGA
1 TACATGTGCATGGGCCACATATTGAATAGTTTATCTGATGGTTTGTTCGACACTTACCAAAACGA
95405542 GGTCACCGCTAA
66 GGTCACCGCTAA
95405554 AGAATTATGG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (78 bp):
TACATGTGCATGGGCCACATATTGAATAGTTTATCTGATGGTTTGTTCGACACTTACCAAAACGA
GGTCACCGCTAAC
Found at i:95408222 original size:125 final size:125
Alignment explanation
Indices: 95407995--95408226 Score: 342
Period size: 125 Copynumber: 1.9 Consensus size: 125
95407985 AAAACCTCTC
*
95407995 AAAATAAGGAAATACTTCGTGTTTGGAAATTCGAGAAATTGTGCCCTAACGTGCTGGGTTTCGAT
1 AAAATAAGGAAATACTTCGTGTTTGGAAATTCGAGAAATCGTGCCCTAACGTGCTGGGTTTCGAT
* * *
95408060 TTTCCGTTTGACCGAATAACTAAATATCCTTTCGAAATTTCATGCATATTTTCTTAAATT
66 TTACCGTTCGACCGAATAACCAAATATCCTTTCGAAATTTCATGCATATTTTCTTAAATT
* * * *
95408120 AAAATGAGGCAATATTTTGTGTTTGGAAATTCGAGAAATCGTGCCC-AATCGTGCTGGGTTTCGA
1 AAAATAAGGAAATACTTCGTGTTTGGAAATTCGAGAAATCGTGCCCTAA-CGTGCTGGGTTTCGA
* *
95408184 TTTACCGTTCGACC-AGATAGCCAAATATCCTTTTGAAATTTCA
65 TTTACCGTTCGACCGA-ATAACCAAATATCCTTTCGAAATTTCA
95408227 AATGCATGAG
Statistics
Matches: 95, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
124 3 0.03
125 92 0.97
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (125 bp):
AAAATAAGGAAATACTTCGTGTTTGGAAATTCGAGAAATCGTGCCCTAACGTGCTGGGTTTCGAT
TTACCGTTCGACCGAATAACCAAATATCCTTTCGAAATTTCATGCATATTTTCTTAAATT
Found at i:95414787 original size:10 final size:9
Alignment explanation
Indices: 95414689--95414837 Score: 56
Period size: 9 Copynumber: 15.9 Consensus size: 9
95414679 TATTAAATAT
95414689 TAAAAA-TA
1 TAAAAATTA
*
95414697 TAAAAAGTA
1 TAAAAATTA
*
95414706 -AAAATTTA
1 TAAAAATTA
*
95414714 TATAAACTTA
1 TA-AAAATTA
95414724 TAAAAATTA
1 TAAAAATTA
95414733 -ATAAAA-TA
1 TA-AAAATTA
*
95414741 TTAAAACTT-
1 -TAAAAATTA
95414750 TCAATAAATTTA
1 T-AA-AAA-TTA
95414762 TAAAAAATATA
1 T-AAAAAT-TA
*
95414773 AAAAAATTCA
1 TAAAAATT-A
95414783 TAAAAACTTA
1 TAAAAA-TTA
*
95414793 TAAATATTA
1 TAAAAATTA
** *
95414802 TAAAGCTCA
1 TAAAAATTA
*
95414811 TGAATAATTA
1 T-AAAAATTA
**
95414821 TAAAGCTTA
1 TAAAAATTA
95414830 TAAAAATT
1 TAAAAATT
95414838 TTAATAAGAG
Statistics
Matches: 104, Mismatches: 22, Indels: 29
0.67 0.14 0.19
Matches are distributed among these distances:
8 16 0.15
9 40 0.38
10 36 0.35
11 9 0.09
12 3 0.03
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:95414811 original size:28 final size:28
Alignment explanation
Indices: 95414780--95414833 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
95414770 ATAAAAAAAT
*
95414780 TCAT-AAAAACTTATAAATATTATAAAGC
1 TCATGAAAAA-TTATAAAGATTATAAAGC
* *
95414808 TCATGAATAATTATAAAGCTTATAAA
1 TCATGAAAAATTATAAAGATTATAAA
95414834 AATTTTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 18 0.82
29 4 0.18
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (28 bp):
TCATGAAAAATTATAAAGATTATAAAGC
Found at i:95416102 original size:21 final size:21
Alignment explanation
Indices: 95416078--95416120 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
95416068 TGTATGTCAA
95416078 TTTTTTGCACAATCCGTATAT
1 TTTTTTGCACAATCCGTATAT
95416099 TTTTTTGCACAATCCGTATAT
1 TTTTTTGCACAATCCGTATAT
95416120 T
1 T
95416121 CACTCGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (21 bp):
TTTTTTGCACAATCCGTATAT
Found at i:95416346 original size:22 final size:20
Alignment explanation
Indices: 95416321--95416360 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
95416311 CTTGAATAAA
95416321 TATTTAAATATTAAAAAATATT
1 TATTTAAATA--AAAAAATATT
95416343 TATTTAAATAAAAAAATA
1 TATTTAAATAAAAAAATA
95416361 GAAATTGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TATTTAAATAAAAAAATATT
Found at i:95417451 original size:19 final size:19
Alignment explanation
Indices: 95417427--95417465 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
95417417 AAAACAACCA
95417427 AAATTATTTATATTATATG
1 AAATTATTTATATTATATG
95417446 AAATTATTTATATTATATG
1 AAATTATTTATATTATATG
95417465 A
1 A
95417466 TCATCTACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
AAATTATTTATATTATATG
Found at i:95418538 original size:38 final size:39
Alignment explanation
Indices: 95418485--95418559 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
95418475 ACTGAGTACT
*
95418485 GAGCATAGCAAGGATATTAA-TTTCTATAAAGAATTTTA
1 GAGCATAGCAAGGATATCAATTTTCTATAAAGAATTTTA
* *
95418523 GAGCATAGCATGGATATCAATTTTTTTATAAAGAATT
1 GAGCATAGCAAGGATATCAA-TTTTCTATAAAGAATT
95418560 CTGCAGTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 18 0.56
40 14 0.44
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (39 bp):
GAGCATAGCAAGGATATCAATTTTCTATAAAGAATTTTA
Found at i:95419841 original size:20 final size:20
Alignment explanation
Indices: 95419812--95419849 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
95419802 AAATATAAAT
95419812 ATTTTAAAAAATATTTATTA
1 ATTTTAAAAAATATTTATTA
* *
95419832 ATTTTTAAAATTATTTAT
1 ATTTTAAAAAATATTTAT
95419850 AAAATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTAAAAAATATTTATTA
Found at i:95423277 original size:24 final size:24
Alignment explanation
Indices: 95423242--95423290 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
95423232 GAGGATGACC
*
95423242 CAGAATTGGCAA-TTGCTTTCATAG
1 CAGAATTAGCAACTTG-TTTCATAG
95423266 CAGAATTAGCAACTTGTTTCATAG
1 CAGAATTAGCAACTTGTTTCATAG
95423290 C
1 C
95423291 CATATCTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (24 bp):
CAGAATTAGCAACTTGTTTCATAG
Found at i:95425808 original size:29 final size:31
Alignment explanation
Indices: 95425745--95425854 Score: 91
Period size: 31 Copynumber: 3.6 Consensus size: 31
95425735 TGATATACAA
**
95425745 TATTTGAGTACTTTCAAAAAGCTTTGGTCCT
1 TATTTGAGTACTTTCAAAAAGCTTCAGTCCT
**
95425776 TATTTGAGTACTTT-AAAAAG-TTCAGTTTT
1 TATTTGAGTACTTTCAAAAAGCTTCAGTCCT
* * * * * *
95425805 TATTTGAGTATTTTTATAAAGGTTAAGTACT
1 TATTTGAGTACTTTCAAAAAGCTTCAGTCCT
* *
95425836 TATATGACTA-TTTCAAAAA
1 TATTTGAGTACTTTCAAAAA
95425855 TTTTAACCCT
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
29 18 0.28
30 18 0.28
31 28 0.44
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (31 bp):
TATTTGAGTACTTTCAAAAAGCTTCAGTCCT
Found at i:95426249 original size:20 final size:20
Alignment explanation
Indices: 95426226--95426275 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
95426216 AGTAAATGTC
95426226 TAATGTGAAATCAAAATTTT
1 TAATGTGAAATCAAAATTTT
* * *
95426246 TAATGAGATATCAATATTTT
1 TAATGTGAAATCAAAATTTT
*
95426266 TAAGGTGAAA
1 TAATGTGAAA
95426276 CCGAAATTTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATGTGAAATCAAAATTTT
Found at i:95426326 original size:20 final size:19
Alignment explanation
Indices: 95426279--95426326 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
95426269 GGTGAAACCG
* *
95426279 AAATTTCTAACCGTTACCA
1 AAATTTTTAACCGGTACCA
*
95426298 ACA-TTTTAACACGGTACCA
1 AAATTTTTAAC-CGGTACCA
95426317 AAATTTTTAA
1 AAATTTTTAA
95426327 AATGTGTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 6 0.26
19 11 0.48
20 6 0.26
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (19 bp):
AAATTTTTAACCGGTACCA
Found at i:95426692 original size:17 final size:16
Alignment explanation
Indices: 95426670--95426727 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 16
95426660 TATTTATTGA
95426670 ATTTTTTTATGTTATT
1 ATTTTTTTATGTTATT
*
95426686 -TATTTTTAATG-TATT
1 AT-TTTTTTATGTTATT
*
95426701 GTTTTTTTA-GTATAATT
1 ATTTTTTTATGT-T-ATT
95426718 ATTTTTTTAT
1 ATTTTTTTAT
95426728 TTGTAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
14 1 0.03
15 11 0.33
16 10 0.30
17 11 0.33
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (16 bp):
ATTTTTTTATGTTATT
Found at i:95426772 original size:12 final size:12
Alignment explanation
Indices: 95426755--95426780 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
95426745 CTTATTTTTT
95426755 TTCCTAAAACAA
1 TTCCTAAAACAA
95426767 TTCCTAAAACAA
1 TTCCTAAAACAA
95426779 TT
1 TT
95426781 ATTTATCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (12 bp):
TTCCTAAAACAA
Found at i:95429334 original size:20 final size:20
Alignment explanation
Indices: 95429309--95429354 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
95429299 CAATTATTCG
95429309 ATAACAGTCAGTATTTTTCA
1 ATAACAGTCAGTATTTTTCA
95429329 ATAACAGTCAGTATTTTTCA
1 ATAACAGTCAGTATTTTTCA
95429349 ATAACA
1 ATAACA
95429355 ATCATTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (20 bp):
ATAACAGTCAGTATTTTTCA
Found at i:95429414 original size:22 final size:22
Alignment explanation
Indices: 95429370--95429414 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
95429360 TTAATCATTA
* **
95429370 TTATTCAGTATCAGTCATTTAT
1 TTATTCAGTACCAGTCAAATAT
95429392 TTATTCAGTACCAGTCAAATAT
1 TTATTCAGTACCAGTCAAATAT
95429414 T
1 T
95429415 CGGTAGCAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (22 bp):
TTATTCAGTACCAGTCAAATAT
Found at i:95429557 original size:6 final size:6
Alignment explanation
Indices: 95429546--95429581 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
95429536 GGAATACACC
* *
95429546 GTAACA GTAACA GTAATA GTAGCA GTAACA GTAACA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA
95429582 CTCAGATACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:95435568 original size:23 final size:23
Alignment explanation
Indices: 95435542--95435588 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
95435532 ATTTATCATG
95435542 TTAGATTTTTTGGTATCGTTTTA
1 TTAGATTTTTTGGTATCGTTTTA
95435565 TTAGATTTTTTGGTATCGTTTTA
1 TTAGATTTTTTGGTATCGTTTTA
95435588 T
1 T
95435589 AAAAAGCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.04, G:0.17, T:0.62
Consensus pattern (23 bp):
TTAGATTTTTTGGTATCGTTTTA
Found at i:95435812 original size:6 final size:6
Alignment explanation
Indices: 95435801--95435829 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
95435791 TAGATTTTTC
95435801 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
95435830 CAGCCTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:95441498 original size:16 final size:17
Alignment explanation
Indices: 95441467--95441499 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
95441457 TTTTTTTATT
95441467 TTTATTTGATATAAAAAA
1 TTTATTTGA-ATAAAAAA
95441485 TTTATTTG-ATAAAAA
1 TTTATTTGAATAAAAA
95441500 CAAAACCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TTTATTTGAATAAAAAA
Found at i:95442256 original size:20 final size:20
Alignment explanation
Indices: 95442233--95442279 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
95442223 AAAAAAAATC
*
95442233 AAATTCAAATTAAAATACTG
1 AAATTCAAAGTAAAATACTG
** *
95442253 AAATTCAGGGTAAAATGCTG
1 AAATTCAAAGTAAAATACTG
95442273 AAATTCA
1 AAATTCA
95442280 GGATAAGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.28
Consensus pattern (20 bp):
AAATTCAAAGTAAAATACTG
Found at i:95442280 original size:20 final size:20
Alignment explanation
Indices: 95442243--95442281 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
95442233 AAATTCAAAT
95442243 TAAAATACTGAAATTCAGGG
1 TAAAATACTGAAATTCAGGG
*
95442263 TAAAATGCTGAAATTCAGG
1 TAAAATACTGAAATTCAGG
95442282 ATAAGAGTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.26
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGG
Found at i:95450165 original size:26 final size:27
Alignment explanation
Indices: 95450109--95450172 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
95450099 TTAGAAATAA
* *
95450109 AAATATAAAATATATATTTAAATTTGT
1 AAATATAAAATATATAATTAAATTTGG
*
95450136 AAATA-AAAATA-ATAATTAGATTCTGG
1 AAATATAAAATATATAATTAAATT-TGG
95450162 AAATATAAAAT
1 AAATATAAAAT
95450173 TTGTAAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 9 0.28
26 13 0.41
27 10 0.31
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (27 bp):
AAATATAAAATATATAATTAAATTTGG
Found at i:95450505 original size:25 final size:25
Alignment explanation
Indices: 95450443--95450508 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
95450433 ACTTTAGCGC
*
95450443 GCTCTCTGATAATTAGCACATTAGT
1 GCTCTCTGATTATTAGCACATTAGT
*
95450468 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACATTAGT
*
95450493 GCTCTCTGTTTATTAG
1 GCTCTCTGATTATTAG
95450509 TGCATAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATTAGT
Found at i:95453659 original size:15 final size:14
Alignment explanation
Indices: 95453608--95453660 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
95453598 TTTGGTTAAG
*
95453608 ATTAAAAATTTCAAA
1 ATTAAAAATAT-AAA
95453623 ATTTAAAAATATAAA
1 A-TTAAAAATATAAA
*
95453638 GACTAAAAATGATAAA
1 -ATTAAAAAT-ATAAA
95453654 ATTAAAA
1 ATTAAAA
95453661 TACATGTACC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 17 0.53
16 15 0.47
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (14 bp):
ATTAAAAATATAAA
Found at i:95455756 original size:3 final size:3
Alignment explanation
Indices: 95455750--95455839 Score: 69
Period size: 3 Copynumber: 29.7 Consensus size: 3
95455740 AAAAAAAAAG
* *
95455750 AGA AGA AGA A-A AGGA AGA AGG AGA AGA AGGA AGA AGG AGA AGA AGGA
1 AGA AGA AGA AGA A-GA AGA AGA AGA AGA A-GA AGA AGA AGA AGA A-GA
* * * *
95455797 AGG AGA AGA TGA A-A AGAA AGA AG- AGC AGA AGA AGA AGG AGA AG
1 AGA AGA AGA AGA AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA AG
95455840 GAGTCGGCAG
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
2 6 0.09
3 52 0.75
4 11 0.16
ACGTcount: A:0.59, C:0.01, G:0.39, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:95455768 original size:12 final size:13
Alignment explanation
Indices: 95455745--95455820 Score: 61
Period size: 13 Copynumber: 6.1 Consensus size: 13
95455735 GAAGAAAAAA
95455745 AAAAGAGAAGAAG
1 AAAAGAGAAGAAG
95455758 AAAAG-GAAGAAGG
1 AAAAGAGAAGAA-G
* *
95455771 AGAAGA-AGGAAG
1 AAAAGAGAAGAAG
*
95455783 -AAGGAGAAGAAG
1 AAAAGAGAAGAAG
* * *
95455795 GAAGGAGAAGATG
1 AAAAGAGAAGAAG
95455808 AAAAGA-AAGAAG
1 AAAAGAGAAGAAG
95455820 A
1 A
95455821 GCAGAAGAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
11 3 0.06
12 18 0.36
13 29 0.58
ACGTcount: A:0.62, C:0.00, G:0.37, T:0.01
Consensus pattern (13 bp):
AAAAGAGAAGAAG
Found at i:95455779 original size:16 final size:16
Alignment explanation
Indices: 95455750--95455839 Score: 89
Period size: 16 Copynumber: 5.7 Consensus size: 16
95455740 AAAAAAAAAG
*
95455750 AGAAGAAGAA-AAGGA
1 AGAAGGAGAAGAAGGA
95455765 AGAAGGAGAAGAAGGA
1 AGAAGGAGAAGAAGGA
95455781 AGAAGGAGAAGAAGGA
1 AGAAGGAGAAGAAGGA
* *
95455797 AGGAGAAGATGAA-AAGAA
1 A-GA-AGGA-GAAGAAGGA
*
95455815 AGAA-GAGCAGAA-GA
1 AGAAGGAGAAGAAGGA
95455829 AGAAGGAGAAG
1 AGAAGGAGAAG
95455840 GAGTCGGCAG
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
14 7 0.11
15 18 0.29
16 23 0.37
17 4 0.06
18 8 0.13
19 3 0.05
ACGTcount: A:0.59, C:0.01, G:0.39, T:0.01
Consensus pattern (16 bp):
AGAAGGAGAAGAAGGA
Found at i:95455974 original size:18 final size:19
Alignment explanation
Indices: 95455948--95455989 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
95455938 AAAGAGGTAA
*
95455948 TTTTGTTGTATTTT-AATT
1 TTTTTTTGTATTTTCAATT
*
95455966 TTTTTTTGTTTTTTCAATT
1 TTTTTTTGTATTTTCAATT
95455985 TTTTT
1 TTTTT
95455990 AACTGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (19 bp):
TTTTTTTGTATTTTCAATT
Found at i:95456734 original size:41 final size:41
Alignment explanation
Indices: 95456671--95456755 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
95456661 AAATACATAA
* * *
95456671 TAATAAAAAATTAAATTTAAAATATA-TTTTAAAACTAT-TTT
1 TAATAAAAAATTAAAATAAAAAT-TAGATTTAAAA-TATATTT
95456712 TAAT-AAAAATTAATAATAAAAATTAGATTTAAAATATATTT
1 TAATAAAAAATTAA-AATAAAAATTAGATTTAAAATATATTT
95456753 TAA
1 TAA
95456756 AATTAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
40 14 0.37
41 24 0.63
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (41 bp):
TAATAAAAAATTAAAATAAAAATTAGATTTAAAATATATTT
Found at i:95456745 original size:13 final size:13
Alignment explanation
Indices: 95456712--95456736 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95456702 AAACTATTTT
95456712 TAATAAAAATTAA
1 TAATAAAAATTAA
95456725 TAATAAAAATTA
1 TAATAAAAATTA
95456737 GATTTAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAATAAAAATTAA
Found at i:95460679 original size:19 final size:19
Alignment explanation
Indices: 95460655--95460706 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
95460645 AATGGGTAAT
*
95460655 TGAAATTGAAAATTGGACC
1 TGAAATAGAAAATTGGACC
*
95460674 TGAAATAGGAAATTGGACC
1 TGAAATAGAAAATTGGACC
95460693 T-AACATAGAAAATT
1 TGAA-ATAGAAAATT
95460707 AAACCCGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 2 0.07
19 27 0.93
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.25
Consensus pattern (19 bp):
TGAAATAGAAAATTGGACC
Found at i:95461099 original size:5 final size:6
Alignment explanation
Indices: 95461089--95461145 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
95461079 GATAGTATTT
*
95461089 TATTAA T-TTAA TATTAAA GTGATT-A TCTTAA TATTAA -ATTAA TATTAA
1 TATTAA TATTAA TATT-AA -T-ATTAA TATTAA TATTAA TATTAA TATTAA
95461137 -ATTAA TATT
1 TATTAA TATT
95461146 TATCTACAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
5 17 0.40
6 18 0.43
7 3 0.07
8 1 0.02
9 3 0.07
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (6 bp):
TATTAA
Found at i:95461124 original size:11 final size:11
Alignment explanation
Indices: 95461116--95461145 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
95461106 AGTGATTATC
95461116 TTAATATTAAA
1 TTAATATTAAA
95461127 TTAATATTAAA
1 TTAATATTAAA
95461138 TTAATATT
1 TTAATATT
95461146 TATCTACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:95462693 original size:23 final size:21
Alignment explanation
Indices: 95462636--95462693 Score: 55
Period size: 23 Copynumber: 2.7 Consensus size: 21
95462626 AATAAAAGAG
95462636 TTATTAATTAAAAAGATAAAT
1 TTATTAATTAAAAAGATAAAT
** *
95462657 TTAAAAACTT-AAAAGCAATATAT
1 TTATTAA-TTAAAAAG--ATAAAT
95462680 TTATTAATTAAAAA
1 TTATTAATTAAAAA
95462694 TTAAAAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
21 10 0.36
22 4 0.14
23 14 0.50
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (21 bp):
TTATTAATTAAAAAGATAAAT
Found at i:95462728 original size:36 final size:37
Alignment explanation
Indices: 95462657--95462730 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
95462647 AAAGATAAAT
* ** *
95462657 TTAAAAACTTAAAAGCAATATATTTATTAATTAAAAA
1 TTAAAAAATTAAAAGCAATATAAATAATAATTAAAAA
95462694 TTAAAAAATTAAAA-CAATATGAAATAATAA-TAAAAA
1 TTAAAAAATTAAAAGCAATAT-AAATAATAATTAAAAA
95462730 T
1 T
95462731 ACAAATGTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 13 0.41
37 19 0.59
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (37 bp):
TTAAAAAATTAAAAGCAATATAAATAATAATTAAAAA
Found at i:95462984 original size:6 final size:6
Alignment explanation
Indices: 95462973--95463002 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
95462963 GAGCCTCAAC
95462973 AATAAA AATAAA AATAAA AATAAA AA-AAA A
1 AATAAA AATAAA AATAAA AATAAA AATAAA A
95463003 GGTTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AATAAA
Found at i:95463346 original size:41 final size:41
Alignment explanation
Indices: 95463289--95463370 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
95463279 AAAACCAAAC
95463289 ATTGAAGGAATTAAAGAAAAAAAAATCATGTTTGACTTGGT
1 ATTGAAGGAATTAAAGAAAAAAAAATCATGTTTGACTTGGT
95463330 ATTGAAGGAATTAAAGAAAAAAAAATCATGTTTGACTTGGT
1 ATTGAAGGAATTAAAGAAAAAAAAATCATGTTTGACTTGGT
95463371 GTTCAAGGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.46, C:0.05, G:0.20, T:0.29
Consensus pattern (41 bp):
ATTGAAGGAATTAAAGAAAAAAAAATCATGTTTGACTTGGT
Found at i:95464060 original size:19 final size:20
Alignment explanation
Indices: 95464029--95464086 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
95464019 AAAAATATAA
*
95464029 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTAAAAATT
*
95464049 ATTTTTAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
*
95464068 ATTTTGAATTTTTGAAAAT
1 ATTTTGAATTTTTAAAAAT
95464087 CAATTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 8 0.25
19 10 0.31
20 14 0.44
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:95464085 original size:20 final size:19
Alignment explanation
Indices: 95464029--95464086 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
95464019 AAAAATATAA
95464029 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTA-AAATT
* *
95464049 ATTTTTAATTTTAAAAATT
1 ATTTTGAATTTTTAAAATT
95464068 ATTTTGAATTTTTGAAAAT
1 ATTTTGAATTTTT-AAAAT
95464087 CAATTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 3 0.09
19 19 0.59
20 10 0.31
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATT
Found at i:95464779 original size:29 final size:29
Alignment explanation
Indices: 95464724--95464818 Score: 91
Period size: 31 Copynumber: 3.1 Consensus size: 29
95464714 ATCTCAAAAT
* *
95464724 TATACATGAACTTTGATTTAATGTACAATTG
1 TATACATGAACTTTAATTT--GGTACAATTG
* *
95464755 TATACATGAACTTTAATTTGGTACAGTTA
1 TATACATGAACTTTAATTTGGTACAATTG
* * *
95464784 TACACATGAAACTTTAATTGTGGTTCAAATG
1 TATACATG-AACTTTAATT-TGGTACAATTG
95464815 TATA
1 TATA
95464819 TTTAAAATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
29 14 0.27
30 10 0.19
31 28 0.54
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.40
Consensus pattern (29 bp):
TATACATGAACTTTAATTTGGTACAATTG
Found at i:95465024 original size:29 final size:30
Alignment explanation
Indices: 95464977--95465035 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
95464967 GAATTGGATC
**
95464977 AAATCAAAATTTTTTGTATAAAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTGCACA
*
95465007 AAATCAAAA-TTCATGTATACAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTGCACA
95465036 TTAAACAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTGCACA
Found at i:95466043 original size:13 final size:13
Alignment explanation
Indices: 95466027--95466053 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
95466017 AATTTTCTAT
95466027 AGTACTTTTCAAA
1 AGTACTTTTCAAA
95466040 AGTACTTTTCAAA
1 AGTACTTTTCAAA
95466053 A
1 A
95466054 ACAGTGCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (13 bp):
AGTACTTTTCAAA
Found at i:95472017 original size:21 final size:20
Alignment explanation
Indices: 95471979--95472021 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
95471969 TTTTTTTATG
95471979 ATTTTAAATTTTATTATTTA
1 ATTTTAAATTTTATTATTTA
95471999 ATTTT-AATTATTCATTATTTA
1 ATTTTAAATT-TT-ATTATTTA
95472020 AT
1 AT
95472022 GTCAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 7 0.33
21 10 0.48
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTAAATTTTATTATTTA
Found at i:95477793 original size:61 final size:61
Alignment explanation
Indices: 95477726--95477843 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
95477716 TTTTTTTAAA
** * * **
95477726 TTTTTAGAATTAGAACTAAGTTGACAAATTTTGTAAATGTTGAGGGCTAAATTTATTCAAT
1 TTTTTAGAATTAGAACTAAAATGAAAAATTTTGCAAACATTGAGGGCTAAATTTATTCAAT
* *
95477787 TTTTTAGTATTCGAACTAAAATGAAAAATTTTGCAAACATTGAGGGCTAAATTTATT
1 TTTTTAGAATTAGAACTAAAATGAAAAATTTTGCAAACATTGAGGGCTAAATTTATT
95477844 ATTAGACTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (61 bp):
TTTTTAGAATTAGAACTAAAATGAAAAATTTTGCAAACATTGAGGGCTAAATTTATTCAAT
Found at i:95478981 original size:57 final size:57
Alignment explanation
Indices: 95478913--95479103 Score: 159
Period size: 57 Copynumber: 3.2 Consensus size: 57
95478903 TCCAAAAATA
* * **
95478913 ATATTATTTTAATAAATTTAATATTAAATTTAATTTAATGCTTATCTTGATAGTATT
1 ATATTAATTTAATAAATTTAATATTAAATTTAAATTAATATTTATCTTGATAGTATT
* * * * * * ** *
95478970 TTATTAATTTAATATTAAAGTGATTATCTTAATATTAAATTATTATTTATCTACA-AATATT
1 ATATTAATTT-A-A-TAAATTTAATAT-TAAAT-TTAAATTAATATTTATCTTGATAGTATT
* * * *
95479031 CTCTCAATTTAATAAGATTTAATATTAAATTTAAGTTAATATTTATCTTGATAAGTATT
1 ATATTAATTTAATAA-ATTTAATATTAAATTTAAATTAATATTTATCTTGAT-AGTATT
95479090 ATATTAATTTAATA
1 ATATTAATTTAATA
95479104 TTAAAGTGAT
Statistics
Matches: 98, Mismatches: 28, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
57 25 0.26
58 8 0.08
59 24 0.24
60 10 0.10
61 16 0.16
62 15 0.15
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (57 bp):
ATATTAATTTAATAAATTTAATATTAAATTTAAATTAATATTTATCTTGATAGTATT
Found at i:95481887 original size:19 final size:19
Alignment explanation
Indices: 95481856--95481912 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
95481846 AAAAATATAA
95481856 ATTTTGGAATTTTTAGAAAT
1 ATTTT-GAATTTTTAGAAAT
* *
95481876 ATTTTTAA-TTTTAAAAATT
1 ATTTTGAATTTTTAGAAA-T
95481895 ATTTTGAATTTTT-GAAAT
1 ATTTTGAATTTTTAGAAAT
95481913 CAAATTGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 9 0.29
19 13 0.42
20 9 0.29
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (19 bp):
ATTTTGAATTTTTAGAAAT
Found at i:95482818 original size:29 final size:30
Alignment explanation
Indices: 95482771--95482829 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
95482761 GAATTGGATC
*
95482771 AAATCAAAACTTCTTGTATAAAATTGCACA
1 AAATCAAAACTTCATGTATAAAATTGCACA
*
95482801 AAATCAAAA-TTCATGTATACAATTGCACA
1 AAATCAAAACTTCATGTATAAAATTGCACA
95482830 TTAAACAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAACTTCATGTATAAAATTGCACA
Found at i:95490006 original size:40 final size:39
Alignment explanation
Indices: 95489801--95490008 Score: 175
Period size: 40 Copynumber: 5.2 Consensus size: 39
95489791 CAATTGAATG
* * ** **
95489801 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCT-GTGGTT
* * **
95489841 ATATCCGAGTTAAGACCCGAAGGCAATT-GTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCT-GTGGTT
* * *
95489881 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGC-TGTGGTT
* * * * * *
95489921 AAATCTGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGC-TGTGGTT
*
95489961 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGC-TGTGGTT
95490001 ATATCCGG
1 ATATCCGG
95490009 TTGTATTCCG
Statistics
Matches: 137, Mismatches: 28, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.02
40 131 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTGTGGTT
Found at i:95498023 original size:80 final size:80
Alignment explanation
Indices: 95497886--95498091 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 80
95497876 AATTGAATGA
* * ** * * *
95497886 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
95497951 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
95497964 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
95498029 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
95498046 TATCCGGGCTAAGA-CCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
95498092 TTGTATTCCG
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 29 0.27
80 75 0.69
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:95498076 original size:39 final size:40
Alignment explanation
Indices: 95497885--95498091 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
95497875 CAATTGAATG
* * ** * **
95497885 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
95497925 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGT-GACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTCG-TT
* *
95497965 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
95498005 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
* * *
95498045 CTATCCGGGCTAAGA-CCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
95498084 ATATCCGG
1 ATATCCGG
95498092 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 31 0.22
40 107 0.75
41 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTT
Found at i:95501232 original size:40 final size:40
Alignment explanation
Indices: 95501173--95501363 Score: 195
Period size: 40 Copynumber: 4.8 Consensus size: 40
95501163 CAATTGAATG
* * * * *
95501173 ATATCCAGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
95501213 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
95501253 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
95501293 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* *
95501333 CTATCCGGGCTAA-ACCCGAAGGCATTCGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
95501364 GTGTGGTTAT
Statistics
Matches: 128, Mismatches: 23, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 17 0.13
40 111 0.87
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:95505742 original size:5 final size:5
Alignment explanation
Indices: 95505732--95505760 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
95505722 AATTTGTGAA
95505732 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
95505761 ATAATAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:95510154 original size:13 final size:13
Alignment explanation
Indices: 95510136--95510177 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
95510126 TTCTTGGTTC
95510136 TTTTGATTTTTTA
1 TTTTGATTTTTTA
95510149 TTTTGATTTATTT-
1 TTTTGATTT-TTTA
*
95510162 TTTT-ATTTTGTA
1 TTTTGATTTTTTA
95510174 TTTT
1 TTTT
95510178 CTTTTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 2 0.08
12 8 0.31
13 13 0.50
14 3 0.12
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (13 bp):
TTTTGATTTTTTA
Found at i:95510163 original size:17 final size:18
Alignment explanation
Indices: 95510141--95510187 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
95510131 GGTTCTTTTG
95510141 ATTTTTTATTTTG-ATTT
1 ATTTTTTATTTTGTATTT
95510158 ATTTTTTTATTTTGTATTT
1 A-TTTTTTATTTTGTATTT
*
95510177 -TCTTTTATTTT
1 ATTTTTTATTTT
95510188 TTTTCTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 11 0.41
18 12 0.44
19 4 0.15
ACGTcount: A:0.15, C:0.02, G:0.04, T:0.79
Consensus pattern (18 bp):
ATTTTTTATTTTGTATTT
Found at i:95510169 original size:25 final size:25
Alignment explanation
Indices: 95510136--95510190 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
95510126 TTCTTGGTTC
* * *
95510136 TTTTGATTTTTTATTTTGATTTATT
1 TTTTTATTTTGTATTTTCATTTATT
*
95510161 TTTTTATTTTGTATTTTCTTTTATT
1 TTTTTATTTTGTATTTTCATTTATT
95510186 TTTTT
1 TTTTT
95510191 TCTCTTCTCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.13, C:0.02, G:0.05, T:0.80
Consensus pattern (25 bp):
TTTTTATTTTGTATTTTCATTTATT
Found at i:95511160 original size:26 final size:26
Alignment explanation
Indices: 95511131--95511223 Score: 82
Period size: 26 Copynumber: 3.3 Consensus size: 26
95511121 TCAATATGCT
95511131 ATCATTATTCTCATTAATGTATTGTC
1 ATCATTATTCTCATTAATGTATTGTC
95511157 ATCATTAGTTTCTACTTTATTATTAT-TATATG-C
1 ATCATTA--TTCT-C---ATTA--ATGTAT-TGTC
95511190 TATCATTATTCTCATTAATGTATTGTC
1 -ATCATTATTCTCATTAATGTATTGTC
95511217 ATCATTA
1 ATCATTA
95511224 GTTTCTACTT
Statistics
Matches: 55, Mismatches: 0, Indels: 24
0.70 0.00 0.30
Matches are distributed among these distances:
26 18 0.33
27 4 0.07
28 8 0.15
29 1 0.02
31 1 0.02
32 8 0.15
33 4 0.07
34 11 0.20
ACGTcount: A:0.28, C:0.14, G:0.06, T:0.52
Consensus pattern (26 bp):
ATCATTATTCTCATTAATGTATTGTC
Found at i:95511217 original size:60 final size:60
Alignment explanation
Indices: 95511124--95511247 Score: 239
Period size: 60 Copynumber: 2.1 Consensus size: 60
95511114 GTCATTATCA
*
95511124 ATATGCTATCATTATTCTCATTAATGTATTGTCATCATTAGTTTCTACTTTATTATTATT
1 ATATGCTATCATTATTCTCATTAATGTATTGTCATCATTAGTTTCTACTTTACTATTATT
95511184 ATATGCTATCATTATTCTCATTAATGTATTGTCATCATTAGTTTCTACTTTACTATTATT
1 ATATGCTATCATTATTCTCATTAATGTATTGTCATCATTAGTTTCTACTTTACTATTATT
95511244 ATAT
1 ATAT
95511248 TATTATTATT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.27, C:0.14, G:0.06, T:0.52
Consensus pattern (60 bp):
ATATGCTATCATTATTCTCATTAATGTATTGTCATCATTAGTTTCTACTTTACTATTATT
Found at i:95511321 original size:19 final size:19
Alignment explanation
Indices: 95511287--95511334 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
95511277 ACTAGGTAAC
95511287 TTTATATTGGTTTTGT-TATA
1 TTTATATT--TTTTGTATATA
*
95511307 TTGTATATTTTTTGTATTTA
1 TT-TATATTTTTTGTATATA
95511327 TTTATATT
1 TTTATATT
95511335 ATTATTACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 12 0.48
20 7 0.28
21 6 0.24
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (19 bp):
TTTATATTTTTTGTATATA
Found at i:95511461 original size:27 final size:27
Alignment explanation
Indices: 95511394--95511461 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
95511384 ATGTTATTTC
* *
95511394 TTTTAAACTATTATACATATTGTTTGT
1 TTTTAAATTATTATACACATTGTTTGT
* *
95511421 TTTGAAACTT-TTATATACATT-TTTGT
1 TTTTAAA-TTATTATACACATTGTTTGT
95511447 ATTTTAAATTATTAT
1 -TTTTAAATTATTAT
95511462 GTATATTGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
26 7 0.21
27 25 0.76
28 1 0.03
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (27 bp):
TTTTAAATTATTATACACATTGTTTGT
Found at i:95511504 original size:54 final size:54
Alignment explanation
Indices: 95511382--95511506 Score: 130
Period size: 54 Copynumber: 2.3 Consensus size: 54
95511372 TTTATTTTAC
* **
95511382 ATATGTTATTTCTTTTAAACTATTATACATATTGTTTGTTTTGAAACTTTTATAT
1 ATAT-TTATTTATTTTAAACTATTATACATATTGTTTACTTTGAAACTTTTATAT
* * **
95511437 ACATTT-TTGTATTTTAAATTATTATGTATATTGTTTACTTT-AATA-TTTTATAT
1 ATATTTATT-TATTTTAAACTATTATACATATTGTTTACTTTGAA-ACTTTTATAT
95511490 ATATATTATTTATTTTA
1 ATAT-TTATTTATTTTA
95511507 GACTTTTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
53 15 0.26
54 38 0.66
55 5 0.09
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (54 bp):
ATATTTATTTATTTTAAACTATTATACATATTGTTTACTTTGAAACTTTTATAT
Found at i:95511506 original size:28 final size:26
Alignment explanation
Indices: 95511405--95511525 Score: 77
Period size: 27 Copynumber: 4.5 Consensus size: 26
95511395 TTTAAACTAT
* *
95511405 TATACATATTGTTTGTTTTGAAACTTTTA
1 TATATATATT-TTTATTTT-AAA-TTTTA
*
95511434 TATACAT-TTTTGTATTTTAAATTATTA
1 TATATATATTTT-TATTTTAAATT-TTA
* * *
95511461 TGTATAT-TGTTTACTTTAATATTTTA
1 TATATATATTTTTATTTTAA-ATTTTA
* *
95511487 TATATATATTATTTATTTTAGACTTTTT
1 TATATATATT-TTTATTTTA-AATTTTA
95511515 TATAT-TATTTT
1 TATATATATTTT
95511526 AAATTGTCAT
Statistics
Matches: 76, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
26 20 0.26
27 24 0.32
28 24 0.32
29 8 0.11
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (26 bp):
TATATATATTTTTATTTTAAATTTTA
Found at i:95513255 original size:100 final size:100
Alignment explanation
Indices: 95513063--95513255 Score: 212
Period size: 100 Copynumber: 1.9 Consensus size: 100
95513053 TTATAGAGAA
* *
95513063 TCAAAGATAATATCACAAATGTGCATACCTATGTGGCCAAATATGCAAGATCAAATTTAACATCA
1 TCAAAGATAATATCACAAATGTGCATACCTATATGGCCAAATATGCAAGATCAAATATAACATCA
* * *
95513128 CCTAAGTACTTACTCATATGGCTGAATATACAAAT
66 CATAAGTACATACTCATATGGCCGAATATACAAAT
* *** * * *
95513163 TCAAATATAATATCACTTTTGTGCATACCT-TCATGGTCAAATATTCAAGATTC-AATATAACGT
1 TCAAAGATAATATCACAAATGTGCATACCTAT-ATGGCCAAATATGCAAGA-TCAAATATAACAT
* *
95513226 CACATATGTACATAC-CTATGTGGCCGAATA
64 CACATAAGTACATACTC-ATATGGCCGAATA
95513256 AATACAAGAT
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
99 2 0.03
100 72 0.95
101 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (100 bp):
TCAAAGATAATATCACAAATGTGCATACCTATATGGCCAAATATGCAAGATCAAATATAACATCA
CATAAGTACATACTCATATGGCCGAATATACAAAT
Found at i:95514412 original size:23 final size:22
Alignment explanation
Indices: 95514386--95514439 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
95514376 TTAATTTATG
*
95514386 TTATAATATATAC-ATATTATTA
1 TTATAATATA-ACTATAATATTA
* *
95514408 CTTATATTATAACTTTAATATTA
1 -TTATAATATAACTATAATATTA
95514431 TTATAATAT
1 TTATAATAT
95514440 TATTTCCACC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATAATATAACTATAATATTA
Found at i:95516335 original size:19 final size:20
Alignment explanation
Indices: 95516286--95516336 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
95516276 ATAAAAATAC
95516286 AAATAAATTAAAATTTCTAA
1 AAATAAATTAAAATTTCTAA
*
95516306 AAATAAA-TAAAAGTTT-T-T
1 AAATAAATTAAAA-TTTCTAA
95516324 AAATAAATTAAAA
1 AAATAAATTAAAA
95516337 ATAATTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.25
19 11 0.39
20 10 0.36
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATAAATTAAAATTTCTAA
Found at i:95516344 original size:20 final size:18
Alignment explanation
Indices: 95516307--95516357 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
95516297 AATTTCTAAA
* *
95516307 AATAAATAAAAGT-TTTT
1 AATAAATAAAAATAATTT
95516324 AAATAAATTAAAAATAATTT
1 -AATAAA-TAAAAATAATTT
*
95516344 AATTAATAAAAATA
1 AATAAATAAAAATA
95516358 TAATAAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 14 0.50
19 11 0.39
20 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
AATAAATAAAAATAATTT
Found at i:95521210 original size:71 final size:71
Alignment explanation
Indices: 95521094--95521238 Score: 265
Period size: 71 Copynumber: 2.0 Consensus size: 71
95521084 TAACTCTTCT
*
95521094 TAAATTATTGCTTAATCTAACAGTCACTTAAATCAATTGTGAATAATC-AATTGAACACTTAATA
1 TAAATTATTGCTTAATCTAACAGTCACTTAAATCAATTATGAATAA-CAAATTGAACACTTAATA
95521158 TTTATAC
65 TTTATAC
95521165 TAAATTATTGCTTAATCTAACAGTCACTTAAATCAATTATGAATAACAAATTGAACACTTAATAT
1 TAAATTATTGCTTAATCTAACAGTCACTTAAATCAATTATGAATAACAAATTGAACACTTAATAT
95521230 TTATAC
66 TTATAC
95521236 TAA
1 TAA
95521239 CTTAAATTTA
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
70 1 0.01
71 71 0.99
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (71 bp):
TAAATTATTGCTTAATCTAACAGTCACTTAAATCAATTATGAATAACAAATTGAACACTTAATAT
TTATAC
Found at i:95522773 original size:9 final size:10
Alignment explanation
Indices: 95522754--95522790 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
95522744 ATAAATGTTC
95522754 TTATATATTA
1 TTATATATTA
95522764 TTAT-TATTA
1 TTATATATTA
95522773 TTATATA-TA
1 TTATATATTA
95522782 TATATATAT
1 T-TATATAT
95522791 AGTTCATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 12 0.50
10 12 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTATATATTA
Found at i:95522878 original size:2 final size:2
Alignment explanation
Indices: 95522871--95522913 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
95522861 CTAAATCTAT
95522871 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
95522913 T
1 T
95522914 GTTTTTAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:95527575 original size:2 final size:2
Alignment explanation
Indices: 95527568--95527593 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
95527558 AATCTGTGAC
95527568 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
95527594 TACAAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95532144 original size:18 final size:20
Alignment explanation
Indices: 95532122--95532163 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
95532112 AAACCCCTTT
95532122 TTTTTATAAATAATATA-TA
1 TTTTTATAAATAATATATTA
*
95532141 TTTTTATCAATAAT-TATTA
1 TTTTTATAAATAATATATTA
95532160 TTTT
1 TTTT
95532164 AAAAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTATAAATAATATATTA
Found at i:95532938 original size:2 final size:2
Alignment explanation
Indices: 95532931--95532964 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
95532921 GGATAGTTTC
95532931 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95532965 GCACATGGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95534808 original size:46 final size:46
Alignment explanation
Indices: 95534723--95534810 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 46
95534713 TTAGGTTTTA
*
95534723 TATATTAAATTATATATATATATTATAATGATTATTATTATAGTTT
1 TATATTAAATTATATATATATATTATAATGATAATTATTATAGTTT
*
95534769 TATATTAAATTAT-TATGAT-TACTTA-ATTGATAATATATTATA
1 TATATTAAATTATATAT-ATATA-TTATAATGATAAT-TATTATA
95534811 AATAAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
45 12 0.32
46 25 0.68
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (46 bp):
TATATTAAATTATATATATATATTATAATGATAATTATTATAGTTT
Found at i:95536773 original size:39 final size:39
Alignment explanation
Indices: 95536666--95536800 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
95536656 GACCTCGAGT
* * *
95536666 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
95536707 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
95536745 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
95536784 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
95536801 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:95542494 original size:46 final size:46
Alignment explanation
Indices: 95542409--95542496 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 46
95542399 TTAGGTTTTA
*
95542409 TATATTAAATTATATATATATATTATAATGATTATTATTATAGTTT
1 TATATTAAATTATATATATATATTATAATGATAATTATTATAGTTT
*
95542455 TATATTAAATTAT-TATGAT-TACTTA-ATTGATAATATATTATA
1 TATATTAAATTATATAT-ATATA-TTATAATGATAAT-TATTATA
95542497 AATAAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
45 12 0.32
46 25 0.68
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (46 bp):
TATATTAAATTATATATATATATTATAATGATAATTATTATAGTTT
Found at i:95545433 original size:46 final size:46
Alignment explanation
Indices: 95545383--95545558 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
95545373 TGGTTGAGCA
95545383 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
95545429 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
95545474 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
95545522 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95545559 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:95545539 original size:93 final size:93
Alignment explanation
Indices: 95545380--95545551 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
95545370 GGATGGTTGA
* *
95545380 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
95545445 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
95545473 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
95545538 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
95545552 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:95550664 original size:18 final size:19
Alignment explanation
Indices: 95550623--95550664 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
95550613 AAAACCCCTT
95550623 TTTTTATAAATAATATATA
1 TTTTTATAAATAATATATA
*
95550642 TTTTTATCAATAAT-TATTA
1 TTTTTATAAATAATATA-TA
95550661 TTTT
1 TTTT
95550665 AAAAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTATAAATAATATATA
Found at i:95551437 original size:2 final size:2
Alignment explanation
Indices: 95551430--95551461 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
95551420 GGATAGTTTC
95551430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95551462 GCACATGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95553305 original size:46 final size:46
Alignment explanation
Indices: 95553220--95553307 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 46
95553210 TTAGGTTTTA
*
95553220 TATATTAAATTATATATATATATTATAATGATTATTATTATAGTTT
1 TATATTAAATTATATATATATATTATAATGATAATTATTATAGTTT
*
95553266 TATATTAAATTAT-TATGAT-TACTTA-ATTGATAATATATTATA
1 TATATTAAATTATATAT-ATATA-TTATAATGATAAT-TATTATA
95553308 AATAAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
45 12 0.32
46 25 0.68
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (46 bp):
TATATTAAATTATATATATATATTATAATGATAATTATTATAGTTT
Found at i:95555272 original size:39 final size:39
Alignment explanation
Indices: 95555165--95555299 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
95555155 GACCTCGAGT
* * *
95555165 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
95555206 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
95555244 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
95555283 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
95555300 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:95558916 original size:20 final size:20
Alignment explanation
Indices: 95558875--95558916 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
95558865 ATAATATTTT
*
95558875 ATTAATTTAATATTAATGTG
1 ATTAATTTAATACTAATGTG
*
95558895 ATTAATTCTAATCCTAAT-TG
1 ATTAATT-TAATACTAATGTG
95558915 AT
1 AT
95558917 CTCTCCCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (20 bp):
ATTAATTTAATACTAATGTG
Found at i:95559410 original size:35 final size:35
Alignment explanation
Indices: 95559364--95559432 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
95559354 ATACTATGTC
95559364 ATGATATGCATGATCCTATATAAACCTATTTTTTT
1 ATGATATGCATGATCCTATATAAACCTATTTTTTT
95559399 ATGATATGCATGATCCTATATAAACCTATTTTTT
1 ATGATATGCATGATCCTATATAAACCTATTTTTT
95559433 ATTCTTCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (35 bp):
ATGATATGCATGATCCTATATAAACCTATTTTTTT
Found at i:95566057 original size:27 final size:26
Alignment explanation
Indices: 95566006--95566058 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
95565996 TTTTGAAAAA
95566006 ATATTATTAATTTTAAACATGTTATAT
1 ATATTATTAATTTTAAACA-GTTATAT
*
95566033 ATATTTTTATATTTTGAAACA-TTATA
1 ATATTATTA-ATTTT-AAACAGTTATA
95566059 AAGTTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 13 0.57
28 5 0.22
29 5 0.22
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (26 bp):
ATATTATTAATTTTAAACAGTTATAT
Found at i:95567567 original size:47 final size:47
Alignment explanation
Indices: 95567503--95567613 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
95567493 GACATTGAGT
*
95567503 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
95567550 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
95567597 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
95567614 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:95568884 original size:32 final size:32
Alignment explanation
Indices: 95568848--95568913 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
95568838 ACAATATAAT
95568848 TTTTTAAACAT-ATCTTAAATTAACTATTTTAA
1 TTTTTAAACATGAT-TTAAATTAACTATTTTAA
** *
95568880 TTTTTTTATATGATTTAAATTAACTATTTTAA
1 TTTTTAAACATGATTTAAATTAACTATTTTAA
95568912 TT
1 TT
95568914 CTAATTGGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 28 0.93
33 2 0.07
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (32 bp):
TTTTTAAACATGATTTAAATTAACTATTTTAA
Found at i:95570753 original size:90 final size:90
Alignment explanation
Indices: 95570600--95570776 Score: 273
Period size: 90 Copynumber: 2.0 Consensus size: 90
95570590 GGGAGATCAT
* * * *
95570600 GTACTAGAAGTTAGATTGCATTTTGCCTTCTTTACTAAAAAATTGAGCAAATTAGTCGATGTACA
1 GTACTAGAAGTCAGATTGCATTTTGACTTCTCTACTAAAAAATCGAGCAAATTAGTCGATGTACA
*
95570665 TTAAATCAAAGGGCAAATTGATCTG
66 TTAAATCAAAGAGCAAATTGATCTG
* *
95570690 GTACTAGAAGTCAGATTGCATTTTGATTTCTCTACTAAAAAATCGAGCAAATTAGTCGATGTACG
1 GTACTAGAAGTCAGATTGCATTTTGACTTCTCTACTAAAAAATCGAGCAAATTAGTCGATGTACA
* *
95570755 TTAGATCAAAGAGCAACTTGAT
66 TTAAATCAAAGAGCAAATTGAT
95570777 TTTTTTAGTT
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 78 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (90 bp):
GTACTAGAAGTCAGATTGCATTTTGACTTCTCTACTAAAAAATCGAGCAAATTAGTCGATGTACA
TTAAATCAAAGAGCAAATTGATCTG
Found at i:95572756 original size:27 final size:27
Alignment explanation
Indices: 95572726--95572782 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
95572716 ATGTTTAAGG
95572726 ACTCATGCATTTCATATCAAATGTAAC
1 ACTCATGCATTTCATATCAAATGTAAC
95572753 ACTCATGCATTTCATATCAAATGTAAC
1 ACTCATGCATTTCATATCAAATGTAAC
95572780 ACT
1 ACT
95572783 TTGTTATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (27 bp):
ACTCATGCATTTCATATCAAATGTAAC
Found at i:95584758 original size:12 final size:12
Alignment explanation
Indices: 95584737--95584770 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
95584727 CCAAGCTCGT
*
95584737 AAATATTTTATTA
1 AAATA-TTTAATA
95584750 AAATATTTAATA
1 AAATATTTAATA
95584762 AAATATTTA
1 AAATATTTA
95584771 CGGATTGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AAATATTTAATA
Found at i:95591440 original size:38 final size:38
Alignment explanation
Indices: 95591379--95591479 Score: 132
Period size: 38 Copynumber: 2.6 Consensus size: 38
95591369 ATTTGATTTG
*
95591379 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATACTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCT-TCATACTGGAATTA
* *
95591419 TATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCATACTGGAATTA
*
95591457 TATCTGGGTTAAATCCCGCAGGC
1 TATCCGGGTTAAATCCCGCAGGC
95591480 CTAGTGCTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
37 1 0.02
38 42 0.75
39 5 0.09
40 8 0.14
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCATACTGGAATTA
Found at i:95591490 original size:38 final size:38
Alignment explanation
Indices: 95591395--95591500 Score: 142
Period size: 38 Copynumber: 2.8 Consensus size: 38
95591385 GGCTTAAAGA
* * *
95591395 CCCGCAGG-CTATATACTGGAATTATATCCGGGTTAAAT
1 CCCGCAGGCCTA-GTACTGGTATTATATCTGGGTTAAAT
* *
95591433 CCCGCAGGCTTCGTACTGGTATTATATCTGGGTTAAAT
1 CCCGCAGGCCTAGTACTGGTATTATATCTGGGTTAAAT
*
95591471 CCCGCAGGCCTAGTGCTGGTATTATATCTG
1 CCCGCAGGCCTAGTACTGGTATTATATCTG
95591501 AGTTTAAAGT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
38 58 0.98
39 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (38 bp):
CCCGCAGGCCTAGTACTGGTATTATATCTGGGTTAAAT
Found at i:95592894 original size:47 final size:47
Alignment explanation
Indices: 95592836--95592944 Score: 139
Period size: 47 Copynumber: 2.3 Consensus size: 47
95592826 ACAATTATTG
* * * *
95592836 TGAAAGTCAATTTGTTTG-GGTTAATAGTATCCCTTAAGGGAGTTTTA
1 TGAAAGCCAATTTGTTTGACG-TAATAGTATCCCTTAAAGGAATTTTA
* *
95592883 TGGAAGCCAATTTGTTTGACGTGATAGTATCCCTTAAAGGAATTTTA
1 TGAAAGCCAATTTGTTTGACGTAATAGTATCCCTTAAAGGAATTTTA
*
95592930 TGAAAGCCAAGTTGT
1 TGAAAGCCAATTTGT
95592945 ATAACGTGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 52 0.98
48 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (47 bp):
TGAAAGCCAATTTGTTTGACGTAATAGTATCCCTTAAAGGAATTTTA
Found at i:95592952 original size:47 final size:47
Alignment explanation
Indices: 95592859--95592954 Score: 138
Period size: 47 Copynumber: 2.0 Consensus size: 47
95592849 GTTTGGGTTA
* * * * * *
95592859 ATAGTATCCCTTAAGGGAGTTTTATGGAAGCCAATTTGTTTGACGTG
1 ATAGTATCCCTTAAAGGAATTTTATGAAAGCCAAGTTGTATAACGTG
95592906 ATAGTATCCCTTAAAGGAATTTTATGAAAGCCAAGTTGTATAACGTG
1 ATAGTATCCCTTAAAGGAATTTTATGAAAGCCAAGTTGTATAACGTG
95592953 AT
1 AT
95592955 TGCATCTCTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (47 bp):
ATAGTATCCCTTAAAGGAATTTTATGAAAGCCAAGTTGTATAACGTG
Found at i:95592966 original size:47 final size:47
Alignment explanation
Indices: 95592859--95592966 Score: 126
Period size: 47 Copynumber: 2.3 Consensus size: 47
95592849 GTTTGGGTTA
* * * * * * *
95592859 ATAGTATCCCTTAAGGGAGTTTTATGGAAGCCAATTTGTTTGACGTG
1 ATAGCATCCCTTAAAGGAATTTTATGAAAGCCAAGTTGTATAACGTG
*
95592906 ATAGTATCCCTTAAAGGAATTTTATGAAAGCCAAGTTGTATAACGTG
1 ATAGCATCCCTTAAAGGAATTTTATGAAAGCCAAGTTGTATAACGTG
* *
95592953 ATTGCATCTCTTAA
1 ATAGCATCCCTTAA
95592967 TGGATTGGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (47 bp):
ATAGCATCCCTTAAAGGAATTTTATGAAAGCCAAGTTGTATAACGTG
Found at i:95593354 original size:58 final size:58
Alignment explanation
Indices: 95593264--95593379 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
95593254 TTTTTTGCCA
95593264 AAGAGAATAAGTTTACTACAAAAAAGGGAGATCTGTTCTCATGGAGGAGAATTTTATG
1 AAGAGAATAAGTTTACTACAAAAAAGGGAGATCTGTTCTCATGGAGGAGAATTTTATG
95593322 AAGAGAATAAGTTTACTACAAAAAAGGGAGATCTGTTCTCATGGAGGAGAATTTTATG
1 AAGAGAATAAGTTTACTACAAAAAAGGGAGATCTGTTCTCATGGAGGAGAATTTTATG
95593380 CTAAGTAGTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.40, C:0.09, G:0.24, T:0.28
Consensus pattern (58 bp):
AAGAGAATAAGTTTACTACAAAAAAGGGAGATCTGTTCTCATGGAGGAGAATTTTATG
Found at i:95593478 original size:37 final size:39
Alignment explanation
Indices: 95593403--95593479 Score: 95
Period size: 37 Copynumber: 2.0 Consensus size: 39
95593393 TTTTTTTTTT
* * **
95593403 CCAATGAAGAGTTTATTGTTTAAGAGGAGAAGTTTGTTG
1 CCAAAGAAGAGTTTATTGTTTAAGAGAAGAAGCATGTTG
*
95593442 CCAAAGAAGA-TTTATT-TTTAAGAGAATAAGCATGTTG
1 CCAAAGAAGAGTTTATTGTTTAAGAGAAGAAGCATGTTG
95593479 C
1 C
95593480 TAAGTAGCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
37 18 0.55
38 6 0.18
39 9 0.27
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.34
Consensus pattern (39 bp):
CCAAAGAAGAGTTTATTGTTTAAGAGAAGAAGCATGTTG
Found at i:95595232 original size:84 final size:84
Alignment explanation
Indices: 95595090--95595258 Score: 293
Period size: 84 Copynumber: 2.0 Consensus size: 84
95595080 AAAAAGTGTA
**
95595090 AACTTTAAATTTTGTTTAATTGTTAAGTGAATGTAATGAATTGAAGTGTTAAACGTCCATATAGA
1 AACTTTAAATTGCGTTTAATTGTTAAGTGAATGTAATGAATTGAAGTGTTAAACGTCCATATAGA
*
95595155 TAAAATGGGAACTAGTAGG
66 CAAAATGGGAACTAGTAGG
* *
95595174 AACTTTAAATTGCGTTTAATTGTTAAGTGAATGTAATGAATTTAAGTGTTAAATGTCCATATAGA
1 AACTTTAAATTGCGTTTAATTGTTAAGTGAATGTAATGAATTGAAGTGTTAAACGTCCATATAGA
95595239 CAAAATGGGAACTAGTAGG
66 CAAAATGGGAACTAGTAGG
95595258 A
1 A
95595259 TATATATGGC
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (84 bp):
AACTTTAAATTGCGTTTAATTGTTAAGTGAATGTAATGAATTGAAGTGTTAAACGTCCATATAGA
CAAAATGGGAACTAGTAGG
Found at i:95598403 original size:14 final size:14
Alignment explanation
Indices: 95598384--95598412 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
95598374 AACATGTCCT
95598384 TTATATGAAAAATC
1 TTATATGAAAAATC
95598398 TTATATGAAAAATC
1 TTATATGAAAAATC
95598412 T
1 T
95598413 GTAACTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (14 bp):
TTATATGAAAAATC
Found at i:95600523 original size:15 final size:16
Alignment explanation
Indices: 95600497--95600527 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
95600487 AAATGTAAGT
95600497 TTTAATAATATATAAA
1 TTTAATAATATATAAA
95600513 TTTAA-AATATATAAA
1 TTTAATAATATATAAA
95600528 AATATTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAATAATATATAAA
Found at i:95606467 original size:17 final size:16
Alignment explanation
Indices: 95606419--95606469 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
95606409 GTCAACAAAT
*
95606419 AATTTAAAATTATAATA
1 AATTTAAAAATATAA-A
*
95606436 TATTTAAAAAT-TAAA
1 AATTTAAAAATATAAA
95606451 AATTTAAAAAATATAAA
1 AATTT-AAAAATATAAA
95606468 AA
1 AA
95606470 GATTCATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 5 0.17
16 9 0.31
17 15 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTTAAAAATATAAA
Found at i:95608683 original size:6 final size:6
Alignment explanation
Indices: 95608674--95608703 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
95608664 ACAAACCCCA
95608674 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
95608704 TGGTGTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:95618970 original size:29 final size:30
Alignment explanation
Indices: 95618937--95619002 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
95618927 ATAAGAATTT
* * *
95618937 ATCAAATTAGTCTATCTACTATT-AAATGA
1 ATCAAATTAATCTATATACTATTAAAAAGA
* * *
95618966 ATCAATTTAATCTTTATATTATTAAAAAGA
1 ATCAAATTAATCTATATACTATTAAAAAGA
95618996 ATCAAAT
1 ATCAAAT
95619003 AAGATTAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (30 bp):
ATCAAATTAATCTATATACTATTAAAAAGA
Found at i:95624653 original size:21 final size:19
Alignment explanation
Indices: 95624619--95624680 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 19
95624609 TAAGTTATGT
95624619 ATAATAATATAATATGAATAAA
1 ATAATAA-A-AATAT-AATAAA
95624641 AT-ATAAGGAAATATAATATAAA
1 ATAATAA--AAATAT-A-ATAAA
95624663 ATAATAAAAATATAATAA
1 ATAATAAAAATATAATAA
95624681 GTATTTTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 16 0.46
22 10 0.29
23 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAATAAAAATATAATAAA
Found at i:95625178 original size:14 final size:14
Alignment explanation
Indices: 95625159--95625221 Score: 54
Period size: 14 Copynumber: 4.3 Consensus size: 14
95625149 AATTTTATAA
95625159 AAAATATATAAAAT
1 AAAATATATAAAAT
*
95625173 AAAATATATAATAT
1 AAAATATATAAAAT
* * *
95625187 AATATAATTTATAAGT
1 AAAAT-ATATA-AAAT
*
95625203 AAAATATATGACAAT
1 AAAATATAT-AAAAT
95625218 AAAA
1 AAAA
95625222 AATAATGGAT
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
14 17 0.46
15 13 0.35
16 7 0.19
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (14 bp):
AAAATATATAAAAT
Found at i:95627209 original size:206 final size:206
Alignment explanation
Indices: 95626855--95627400 Score: 898
Period size: 206 Copynumber: 2.7 Consensus size: 206
95626845 AAATCTGCTT
95626855 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACG
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACG
* * * * * *
95626920 CGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATACCAAACCATCTTT
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTG
*
95626985 GATCTGCTTCAATCTAATCATCTGAAAGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGG
131 GATCTGCTTCAATCTAATCATCTGAAAGTTAGATCTGCTATGTGTCTGCCCTCCGTCAAATATGG
95627050 AGACGCCAAAC
196 AGACGCCAAAC
* *
95627061 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGTTTCAGCGTAAGCACG
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACG
*
95627126 TGAAAGCTAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
66 TGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
* * *
95627190 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTTCGTCAAATATG
130 GGATCTGCTTCAATCTAATCATCTGAAAGTTAGATCTGCTATGTGTCTGCCCTCCGTCAAATATG
95627255 GAGACGCCAAAC
195 GAGACGCCAAAC
* * * *
95627267 TTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCCTCATCGTAAGCACG
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACG
* *
95627332 TGAAAGCCAAATCAGCTATGTCTTTGATTT-TTCCTTGTAAGCACAAGGATGCCAAATCATCTTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTG
95627396 GATCT
131 GATCT
95627401 TGTTTCAGCT
Statistics
Matches: 316, Mismatches: 22, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
205 39 0.12
206 276 0.87
207 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (206 bp):
TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACG
TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTG
GATCTGCTTCAATCTAATCATCTGAAAGTTAGATCTGCTATGTGTCTGCCCTCCGTCAAATATGG
AGACGCCAAAC
Found at i:95639266 original size:40 final size:40
Alignment explanation
Indices: 95639221--95639386 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
95639211 CGGAATATAA
95639221 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
95639261 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
95639301 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
95639340 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
95639379 CCGGATAT
1 CCGGATAT
95639387 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:95639343 original size:39 final size:38
Alignment explanation
Indices: 95639237--95639348 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 38
95639227 ATAATCACGT
* * *
95639237 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
* *
95639277 GCACGAATGCCTTCGGGCCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
95639316 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
95639349 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.03
39 32 0.51
40 29 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Done.