Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002839.1 Hibiscus syriacus cultivar Beakdansim tig00005843_pilon, whole genome shotgun sequence
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: 117695
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:8696 original size:3 final size:3
Alignment explanation
Indices: 8688--8752 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
8678 ATCCTTTGAC
8688 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
8736 TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TC
8753 AAGAGGGCTA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:10112 original size:25 final size:26
Alignment explanation
Indices: 10064--10113 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
10054 ATTTCCGCCT
* *
10064 CTAAAATTCTATAACTTTGCTCCCTC
1 CTAAAATTCTAGAAATTTGCTCCCTC
*
10090 CTAAAATTTTAGAAATTTG-TCCCT
1 CTAAAATTCTAGAAATTTGCTCCCT
10114 AACACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.40
Consensus pattern (26 bp):
CTAAAATTCTAGAAATTTGCTCCCTC
Found at i:17241 original size:21 final size:20
Alignment explanation
Indices: 17195--17349 Score: 75
Period size: 20 Copynumber: 7.6 Consensus size: 20
17185 ATGTGAAATA
**
17195 AAAATCGCAACGCGATCT-CC
1 AAAATCGCAACGCGAT-TATG
*
17215 AGAATCGCAACGCGATTATG
1 AAAATCGCAACGCGATTATG
*
17235 AAGAATCGCAATGCGA-TA-G
1 AA-AATCGCAACGCGATTATG
** * *
17254 TACAAATTCGCATTGCGATTTTCC
1 -A-AAA-TCGCAACGCGATTAT-G
* * *
17278 AGAATCGCAACGGGAATATG
1 AAAATCGCAACGCGATTATG
**
17298 AAAATCGCAACGCGAACAT-
1 AAAATCGCAACGCGATTATG
*
17317 ATAAATCGCAACGCGATTCTG
1 A-AAATCGCAACGCGATTATG
**
17338 ATTATCGCAACG
1 AAAATCGCAACG
17350 AGTATCCGTA
Statistics
Matches: 102, Mismatches: 23, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
19 3 0.03
20 61 0.60
21 34 0.33
22 3 0.03
23 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (20 bp):
AAAATCGCAACGCGATTATG
Found at i:17305 original size:20 final size:20
Alignment explanation
Indices: 17280--17448 Score: 99
Period size: 20 Copynumber: 8.4 Consensus size: 20
17270 GATTTTCCAG
*
17280 AATCGCAACGGGAATATGAA
1 AATCGCAACGCGAATATGAA
*
17300 AATCGCAACGCGAACAT-ATA
1 AATCGCAACGCGAATATGA-A
* * *
17320 AATCGCAACGCGATTCTGAT
1 AATCGCAACGCGAATATGAA
* * * **
17340 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATATG-AA
* *
17361 AATCGCAACGCGTATCA-GTA
1 AATCGCAACGCGAAT-ATGAA
* * *
17381 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATATGAA
* * * *
17401 AATCGTAACGCGTATCTGTA
1 AATCGCAACGCGAATATGAA
* * *
17421 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATATGAA
17441 AATCGCAA
1 AATCGCAA
17449 TGCGTATCCG
Statistics
Matches: 116, Mismatches: 28, Indels: 10
0.75 0.18 0.06
Matches are distributed among these distances:
19 2 0.02
20 98 0.84
21 16 0.14
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGAATATGAA
Found at i:17384 original size:81 final size:80
Alignment explanation
Indices: 17299--17511 Score: 232
Period size: 81 Copynumber: 2.6 Consensus size: 80
17289 GGGAATATGA
* * * * *
17299 AAATCGCAACGCGAACATATAAATCGCAACGCG-ATTCTG-ATTATCGCAACGAGTATCCGTAAA
1 AAATCGCAACGAGAACACATAAATCGCAACGCGTA-TCTGTA-AATCGCAACGAGAATACGT-AA
17362 ATCGCAACGCGTATCAGT
63 ATCGCAACGCGTATCAGT
* * *
17380 AAATCGCAACGAGAATACGTAAATCGTAACGCGTATCTGTAAATCGCAACGAGAATACGTAAATC
1 AAATCGCAACGAGAACACATAAATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAAATC
* *
17445 GCAATGCGTATCCGT
66 GCAACGCGTATCAGT
* * * * * *
17460 AAATTGCAACGACAATACGTAAAATCGTAACGCGTATCCGTAAATCGCAACG
1 AAATCGCAACGAGAACACAT-AAATCGCAACGCGTATCTGTAAATCGCAACG
17512 CGATTTTTAA
Statistics
Matches: 116, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
80 36 0.31
81 78 0.67
82 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.21
Consensus pattern (80 bp):
AAATCGCAACGAGAACACATAAATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAAATC
GCAACGCGTATCAGT
Found at i:17415 original size:40 final size:41
Alignment explanation
Indices: 17341--17511 Score: 247
Period size: 40 Copynumber: 4.2 Consensus size: 41
17331 GATTCTGATT
* * *
17341 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCAGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
17382 ATCGCAACGAGAATACGT-AAATCGTAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
17422 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * *
17462 ATTGCAACGACAATACGTAAAATCGTAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
17503 ATCGCAACG
1 ATCGCAACG
17512 CGATTTTTAA
Statistics
Matches: 117, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 73 0.62
41 44 0.38
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.20
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:17460 original size:20 final size:20
Alignment explanation
Indices: 17341--17513 Score: 177
Period size: 20 Copynumber: 8.6 Consensus size: 20
17331 GATTCTGATT
*
17341 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
*
17362 ATCGCAACGCGTATCAGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
17382 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* *
17402 ATCGTAACGCGTATCTGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
17422 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
17442 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
17462 ATTGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
*
17483 ATCGTAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
17503 ATCGCAACGCG
1 ATCGCAACGCG
17514 ATTTTTAAAG
Statistics
Matches: 120, Mismatches: 29, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
20 89 0.74
21 31 0.26
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:18110 original size:21 final size:21
Alignment explanation
Indices: 18050--18127 Score: 92
Period size: 20 Copynumber: 3.8 Consensus size: 21
18040 TCTAAACTTG
18050 AAATCGCAAC-ATGA-AAATGA
1 AAATCGCAACGA-GAGAAATGA
18070 AAATCGCAAC-ACGA-AAATGA
1 AAATCGCAACGA-GAGAAATGA
**
18090 CTATCGCAACGAGAGAAATGA
1 AAATCGCAACGAGAGAAATGA
18111 AAATCGCAACGAGAGAA
1 AAATCGCAACGAGAGAA
18128 TCGCAACGCG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
20 29 0.57
21 22 0.43
ACGTcount: A:0.51, C:0.18, G:0.19, T:0.12
Consensus pattern (21 bp):
AAATCGCAACGAGAGAAATGA
Found at i:18150 original size:33 final size:36
Alignment explanation
Indices: 18104--18189 Score: 106
Period size: 38 Copynumber: 2.4 Consensus size: 36
18094 CGCAACGAGA
* *
18104 GAAATGAAAATCGCAA-CG-A-GAGAATCGCAACGC
1 GAAACGAAAATCGCAACCGAACGAAAATCGCAACGC
18137 GAAACGAAAATCGCAACGCGAAACGAAAATCGCAACGC
1 GAAACGAAAATCGCAAC-CG-AACGAAAATCGCAACGC
*
18175 GAAACCAAAATCGCA
1 GAAACGAAAATCGCA
18190 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
33 15 0.33
35 2 0.04
37 1 0.02
38 27 0.60
ACGTcount: A:0.48, C:0.24, G:0.21, T:0.07
Consensus pattern (36 bp):
GAAACGAAAATCGCAACCGAACGAAAATCGCAACGC
Found at i:18195 original size:19 final size:19
Alignment explanation
Indices: 18126--18189 Score: 119
Period size: 19 Copynumber: 3.4 Consensus size: 19
18116 GCAACGAGAG
18126 AATCGCAACGCGAAACGAA
1 AATCGCAACGCGAAACGAA
18145 AATCGCAACGCGAAACGAA
1 AATCGCAACGCGAAACGAA
*
18164 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACGAA
18183 AATCGCA
1 AATCGCA
18190 TTGCGATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.47, C:0.28, G:0.19, T:0.06
Consensus pattern (19 bp):
AATCGCAACGCGAAACGAA
Found at i:18212 original size:19 final size:19
Alignment explanation
Indices: 18190--18296 Score: 118
Period size: 19 Copynumber: 5.8 Consensus size: 19
18180 CAAAATCGCA
*
18190 TTGCGATTTTTATTTCTCG
1 TTGCGATTTTCATTTCTCG
*
18209 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCTCG
18228 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCTCG
18242 TTGCGATTTTCATTT-TGCG
1 TTGCGATTTTCATTTCT-CG
**
18261 TTGCGATAGTCATTCTCTCG
1 TTGCGATTTTCATT-TCTCG
18281 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
18297 AACCAAAAGA
Statistics
Matches: 73, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
14 10 0.14
16 3 0.04
17 3 0.04
18 1 0.01
19 40 0.55
20 15 0.21
21 1 0.01
ACGTcount: A:0.11, C:0.21, G:0.19, T:0.50
Consensus pattern (19 bp):
TTGCGATTTTCATTTCTCG
Found at i:18243 original size:33 final size:35
Alignment explanation
Indices: 18204--18296 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 35
18194 GATTTTTATT
18204 TCTCGTTGCGATTTTCATTTCGCGTTGC-G-ATTC
1 TCTCGTTGCGATTTTCATTTCGCGTTGCAGCATTC
*
18237 TCTCGTTGCGATTTTCATTTTGCGTTGCGATAGTCATTC
1 TCTCGTTGCGATTTTCATTTCGCGTTGC---AG-CATTC
18276 TCTCGTTGCGATTTTCATTTC
1 TCTCGTTGCGATTTTCATTTC
18297 AACCAAAAGA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
33 27 0.52
37 1 0.02
39 24 0.46
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (35 bp):
TCTCGTTGCGATTTTCATTTCGCGTTGCAGCATTC
Found at i:20159 original size:94 final size:94
Alignment explanation
Indices: 19998--20320 Score: 558
Period size: 94 Copynumber: 3.4 Consensus size: 94
19988 TAGATTGCTT
* * *
19998 AGTAAATTTATTCGGTTGCAGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
20063 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
*
20092 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACATTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
20157 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
* * *
20186 AGTAAATTTGTTCAGTTGATGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
20251 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
20280 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGT
20321 TGTCATTGAA
Statistics
Matches: 218, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
93 20 0.09
94 198 0.91
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (94 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:20762 original size:21 final size:21
Alignment explanation
Indices: 20671--20769 Score: 74
Period size: 21 Copynumber: 4.7 Consensus size: 21
20661 AACTCACCTG
20671 TCATCGTTCAAGAGGCCTC-C
1 TCATCGTTCAAGAGGCCTCTC
* * *
20691 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCTCTC
* ** *
20713 TAATCCCTCAAGAGTCCTCTC
1 TCATCGTTCAAGAGGCCTCTC
* * * *
20734 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCTCTC
*
20755 TCATCGTTGAAGAGG
1 TCATCGTTCAAGAGG
20770 TCCCTCCCAA
Statistics
Matches: 56, Mismatches: 21, Indels: 3
0.70 0.26 0.04
Matches are distributed among these distances:
20 1 0.02
21 55 0.98
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCTCTC
Found at i:20768 original size:42 final size:42
Alignment explanation
Indices: 20668--20778 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
20658 CCCAACTCAC
* * *
20668 CTGTCATCGTTCAAGAGGCCTC-CCCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCCTCTCCC-ACCGTTCAAGAGGCCA
* * **
20710 CTATAATCCCTCAAGAGTCCTCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCTCTCCCACCGTTCAAGAGGCCA
*
20752 CTGTCATCGTTGAAGAGGTCC-CTCCCA
1 CTGTCATCGTTCAAGA-GTCCTCTCCCA
20779 ACATTCTAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
42 48 0.87
43 7 0.13
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCTCTCCCACCGTTCAAGAGGCCA
Found at i:22149 original size:14 final size:14
Alignment explanation
Indices: 22130--22165 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
22120 ATTGTTTAAT
22130 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
22144 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
22158 TGATTTGT
1 TGATTTGT
22166 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:22346 original size:52 final size:52
Alignment explanation
Indices: 22267--22432 Score: 176
Period size: 52 Copynumber: 3.2 Consensus size: 52
22257 AAAATTGACT
* * *
22267 ATCGCAACGCGGAAATGACTATTGCAACGAGAGAATCGCAATGTGAAATGAAA
1 ATCGCAACGC-GAAATGACAATCGCAACGAGAGAATCGCAATGCGAAATGAAA
* * * **
22320 ATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATACGAAATGACT
1 ATCGCAACGCGAAATGACAATCGCAACGAGAGAATCGCAATGCGAAATGAAA
* * *
22372 ATCGCAACGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAAA
1 ATCGCAACGCGA-AAT-GACAAT-CGCAACGAGAGAATCGCAATGCGAAATGAAA
22424 ATCGCAACG
1 ATCGCAACG
22433 AGAGAATCGC
Statistics
Matches: 94, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
52 71 0.76
53 16 0.17
54 7 0.07
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (52 bp):
ATCGCAACGCGAAATGACAATCGCAACGAGAGAATCGCAATGCGAAATGAAA
Found at i:22357 original size:14 final size:14
Alignment explanation
Indices: 22338--22392 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
22328 GCGAAATGAA
22338 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
22352 AATCGCAATACGAAATG
1 AATCGC-A-ACGAGA-G
22369 ACTATCGCAACGAGAG
1 A--ATCGCAACGAGAG
22385 AATCGCAA
1 AATCGCAA
22393 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 13 0.38
15 1 0.03
16 7 0.21
17 7 0.21
18 1 0.03
19 5 0.15
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.13
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:22366 original size:33 final size:33
Alignment explanation
Indices: 22319--22411 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
22309 GTGAAATGAA
22319 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* **
22352 AATCGCAATACGAAATGACTATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
22385 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
22412 TGCGAAATGA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:22421 original size:85 final size:85
Alignment explanation
Indices: 22278--22504 Score: 382
Period size: 85 Copynumber: 2.7 Consensus size: 85
22268 TCGCAACGCG
* *
22278 GAAATGACTATTGCAACGAGAGAATCGCAATGTGAAATGAAAATCGCAATGCGAAATGAAAATCG
1 GAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG
22343 CAACGAGAGAATCGCAATAC
66 CAACGAGAGAATCGCAATAC
22363 GAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG
1 GAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG
*
22428 CAACGAGAGAATCGCAATGC
66 CAACGAGAGAATCGCAATAC
** * *
22448 GAAATGAAAATCGCAACGAGTGAATCGCAATGCGAAAATGAAAATCGCAACGCGAAA
1 GAAATGACTATCGCAACGAGAGAATCGCAATGCG-AAATGAAAATCGCAATGCGAAA
22505 CTAATTTCGC
Statistics
Matches: 134, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
85 113 0.84
86 21 0.16
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.15
Consensus pattern (85 bp):
GAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG
CAACGAGAGAATCGCAATAC
Found at i:22433 original size:52 final size:52
Alignment explanation
Indices: 22300--22463 Score: 199
Period size: 52 Copynumber: 3.2 Consensus size: 52
22290 GCAACGAGAG
* * * * * *
22300 AATCGCAATGTGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-CAATGCGAAATGA-A
* **
22351 GAATCGCAATACGAAATGACTATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
22404 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
22456 AATCGCAA
1 AATCGCAA
22464 CGAGTGAATC
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
52 83 0.86
53 7 0.07
54 7 0.07
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:22441 original size:33 final size:33
Alignment explanation
Indices: 22404--22499 Score: 174
Period size: 33 Copynumber: 2.9 Consensus size: 33
22394 GCGAAATGAA
22404 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
22437 AATCGCAATGCGAAATGAAAATCGCAACGAGTG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
22470 AATCGCAATGCGAAAATGAAAATCGCAACG
1 AATCGCAATGCG-AAATGAAAATCGCAACG
22500 CGAAACTAAT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
33 44 0.72
34 17 0.28
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.14
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:22557 original size:19 final size:19
Alignment explanation
Indices: 22533--22575 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
22523 TCACTCGTTG
22533 CGATTTTCATTTCGCATTA
1 CGATTTTCATTTCGCATTA
* *
22552 CGATTTTTATTTCGCATTG
1 CGATTTTCATTTCGCATTA
22571 CGATT
1 CGATT
22576 CTCTTGTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTA
Found at i:23265 original size:18 final size:18
Alignment explanation
Indices: 23242--23307 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
23232 ATGGAATGAG
23242 TTGCGATTTAGGTAATCA
1 TTGCGATTTAGGTAATCA
* *
23260 TTGCGATTTACGTAATCG
1 TTGCGATTTAGGTAATCA
**
23278 TTGCGATTTACGGATACGCA
1 TTGCGATTTA-GG-TAATCA
23298 TTGCGATTTA
1 TTGCGATTTA
23308 CGTATTCTCG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
18 26 0.65
19 1 0.03
20 13 0.32
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (18 bp):
TTGCGATTTAGGTAATCA
Found at i:23303 original size:20 final size:20
Alignment explanation
Indices: 23276--23446 Score: 182
Period size: 20 Copynumber: 8.4 Consensus size: 20
23266 TTTACGTAAT
23276 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* * * *
23296 CATTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACG
** *
23316 CGTTATGATTTACAGATACG
1 CGTTGCGATTTACGGATACG
* * *
23336 CGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGGATACG
*
23356 CGTTGCGATTTACTGATACG
1 CGTTGCGATTTACGGATACG
* *
23376 CGTTGCGATTTTACGTAT-TG
1 CGTTGCGA-TTTACGGATACG
23396 TCGTTGCGATTTACGGATACG
1 -CGTTGCGATTTACGGATACG
*
23417 CGTTGCGATTTTACGGATACT
1 CGTTGCGA-TTTACGGATACG
23438 CGTTGCGAT
1 CGTTGCGAT
23447 AGTCAGAATC
Statistics
Matches: 120, Mismatches: 27, Indels: 8
0.77 0.17 0.05
Matches are distributed among these distances:
20 85 0.71
21 35 0.29
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:23401 original size:41 final size:40
Alignment explanation
Indices: 23260--23446 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
23250 TAGGTAATCA
* *
23260 TTGCGATTTACGTA--ATCGTTGCGATTTACGGATACGCA
1 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
** *
23298 TTGCGATTTACGTATTCTCGTTATGATTTACAGATACGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
*
23338 TTGCGATTTACGTATTCTCGTTGCGATTTACTGATACGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
*
23378 TTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCG
1 TTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACGCG
* *
23419 TTGCGATTTTACGGATACTCGTTGCGAT
1 TTGCGA-TTTACGTATTCTCGTTGCGAT
23447 AGTCAGAATC
Statistics
Matches: 133, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 14 0.11
40 62 0.47
41 57 0.43
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.39
Consensus pattern (40 bp):
TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
Found at i:23460 original size:41 final size:39
Alignment explanation
Indices: 23260--23468 Score: 187
Period size: 41 Copynumber: 5.2 Consensus size: 39
23250 TAGGTAATCA
* * *
23260 TTGCGA-TTTACGTA--ATCGTTGCGATTTACGGATACGCA
1 TTGCGATTTTACGTATTCTCGTTGCGA-TT-CAGATACGCG
**
23298 TTGCGA-TTTACGTATTCTCGTTATGATTTACAGATACGCG
1 TTGCGATTTTACGTATTCTCGTTGCGA-TT-CAGATACGCG
*
23338 TTGCGA-TTTACGTATTCTCGTTGCGATTTACTGATACGCG
1 TTGCGATTTTACGTATTCTCGTTGCGA-TT-CAGATACGCG
* *
23378 TTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCG
1 TTGCGATTTTACGTATTCTCGTTGCGA-TT-CAGATACGCG
* *
23419 TTGCGATTTTACGGATACTCGTTGCGATAGTCAGA-ATCGCG
1 TTGCGATTTTACGTATTCTCGTTGCGAT--TCAGATA-CGCG
23460 TTGCGATTT
1 TTGCGATTT
23469 ATATGTTCGC
Statistics
Matches: 151, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 14 0.09
40 64 0.42
41 72 0.48
42 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (39 bp):
TTGCGATTTTACGTATTCTCGTTGCGATTCAGATACGCG
Found at i:23478 original size:20 final size:20
Alignment explanation
Indices: 23455--23507 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
23445 ATAGTCAGAA
*
23455 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
23475 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
*
23495 TCTCGTTGCGATT
1 TCGCGTTGCGATT
23508 CTGGAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:25074 original size:17 final size:17
Alignment explanation
Indices: 25048--25080 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25038 GAATCCACCT
25048 TGAACCGATTTGACCCC
1 TGAACCGATTTGACCCC
*
25065 TGAACTGATTTGACCC
1 TGAACCGATTTGACCC
25081 ATAAATTAGT
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:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (17 bp):
TGAACCGATTTGACCCC
Found at i:25741 original size:29 final size:28
Alignment explanation
Indices: 25709--25845 Score: 166
Period size: 29 Copynumber: 4.8 Consensus size: 28
25699 ATCATCGTTT
25709 TGATTCTGCATGAGATTATATCCCTGTCC
1 TGATTCTGCATGAGATTATATCCC-GTCC
*
25738 TGATTCTGCATGAGATTATATCCCCATCC
1 TGATTCTGCATGAGATTATAT-CCCGTCC
* *
25767 TGATTCTACATGCGATTATATTCCCGTCC
1 TGATTCTGCATGAGATTATA-TCCCGTCC
* ** *
25796 TGATTATATATGGGATTATATCCCGTCC
1 TGATTCTGCATGAGATTATATCCCGTCC
* *
25824 TGATTTTGCATGAGGTTATATC
1 TGATTCTGCATGAGATTATATC
25846 TCTATTCTGG
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
28 25 0.27
29 65 0.69
30 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.39
Consensus pattern (28 bp):
TGATTCTGCATGAGATTATATCCCGTCC
Found at i:25757 original size:58 final size:57
Alignment explanation
Indices: 25679--25873 Score: 185
Period size: 58 Copynumber: 3.4 Consensus size: 57
25669 GCATGCAATT
* * **
25679 CTGATTTTACATGGGATTATATCATCGTTTTGATTCTGCATGAGATTATATCCCTGTC
1 CTGATTCTACATGGGATTATATC-CCGTCCTGATTCTGCATGAGATTATATCCCTGTC
* * * * *
25737 CTGATTCTGCATGAGATTATATCCCCATCCTGATTCTACATGCGATTATATTCCC-GTC
1 CTGATTCTACATGGGATTATAT-CCCGTCCTGATTCTGCATGAGATTATA-TCCCTGTC
* * * * * * *
25795 CTGATTATATATGGGATTATATCCCGTCCTGATTTTGCATGAGGTTATATCTCTATT
1 CTGATTCTACATGGGATTATATCCCGTCCTGATTCTGCATGAGATTATATCCCTGTC
** *
25852 CTGGCTCTGCATGGGATTATAT
1 CTGATTCTACATGGGATTATAT
25874 TTTCGTCCTG
Statistics
Matches: 108, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
56 3 0.03
57 40 0.37
58 60 0.56
59 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (57 bp):
CTGATTCTACATGGGATTATATCCCGTCCTGATTCTGCATGAGATTATATCCCTGTC
Found at i:25870 original size:86 final size:87
Alignment explanation
Indices: 25722--25897 Score: 219
Period size: 86 Copynumber: 2.0 Consensus size: 87
25712 TTCTGCATGA
*
25722 GATTATATCCCTGTCCTGATTCTGCATGAGATTATATCCCCATCCTGATTCTACATGCGATTATA
1 GATTATATCCCTGTCCTGATTCTGCATGAGATTATATCCCCATCCTGACTCTACATGCGATTATA
25787 TTCCCGTCCTGATTATATATGG
66 TTCCCGTCCTGATTATATATGG
* * * * * * * *
25809 GATTATATCCC-GTCCTGATTTTGCATGAGGTTATATCTCTATTCTGGCTCTGCATGGGATTATA
1 GATTATATCCCTGTCCTGATTCTGCATGAGATTATATCCCCATCCTGACTCTACATGCGATTATA
** * * *
25873 TTTTCGTCCTGTTTATGTTTGG
66 TTCCCGTCCTGATTATATATGG
25895 GAT
1 GAT
25898 CTCTTTGAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
86 64 0.85
87 11 0.15
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (87 bp):
GATTATATCCCTGTCCTGATTCTGCATGAGATTATATCCCCATCCTGACTCTACATGCGATTATA
TTCCCGTCCTGATTATATATGG
Found at i:27650 original size:23 final size:23
Alignment explanation
Indices: 27624--27678 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
27614 AAATACCACT
27624 GTTGAGAATAAATTATTACCGGG
1 GTTGAGAATAAATTATTACCGGG
* *
27647 GTTGAGAATAACTTATTACTGGG
1 GTTGAGAATAAATTATTACCGGG
27670 GTTGAGAAT
1 GTTGAGAAT
27679 CTTTGCAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (23 bp):
GTTGAGAATAAATTATTACCGGG
Found at i:29883 original size:29 final size:30
Alignment explanation
Indices: 29841--29900 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
29831 ATGCCTATTT
29841 TTCCAATTTAGTGCCTAAAGTTT-ATTTTG
1 TTCCAATTTAGTGCCTAAAGTTTCATTTTG
* * *
29870 TTCCAGTTTGGTGCCTAACGTTTCATTTTG
1 TTCCAATTTAGTGCCTAAAGTTTCATTTTG
29900 T
1 T
29901 GACTCAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (30 bp):
TTCCAATTTAGTGCCTAAAGTTTCATTTTG
Found at i:30880 original size:30 final size:31
Alignment explanation
Indices: 30841--30907 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
30831 GAAGGACCTA
* * * *
30841 TCCAGAGGTCATAAAGAACCTCGG-CAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
* *
30871 TCCATAGGTCCCGAAGAACCTAGGTAAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
30902 TCCATA
1 TCCATA
30908 TATTCCTTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (31 bp):
TCCATAGGTCACAAAGAACCTAGGTAAACTG
Found at i:30982 original size:63 final size:62
Alignment explanation
Indices: 30869--30986 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 62
30859 CCTCGGCAAC
* *
30869 TGTCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCATATATTCCTTAGAACATAATTATAA
1 TGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATATTCCGTAGAACATAATTATAA
* * * *
30931 TGTCCATATGTCTCGAA-AGACATAGGTAATTCTGTCCATATGTTCCGTAGAACATA
1 TGTCCATAGGTCCCGAAGA-ACATAGGTAA-ACTGTCCATATATTCCGTAGAACATA
30987 GGTAAACCCT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
61 1 0.02
62 24 0.50
63 23 0.48
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (62 bp):
TGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATATTCCGTAGAACATAATTATAA
Found at i:30986 original size:32 final size:32
Alignment explanation
Indices: 30867--30991 Score: 105
Period size: 31 Copynumber: 4.0 Consensus size: 32
30857 AACCTCGGCA
* * * *
30867 ACTGTCCATAGGTCCCGAAGAACCTAGGTAA-
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
* * * *
30898 ACTGTCCATATATTCCTTAGAACATA-ATTAT
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
* *
30929 AATGTCCATATG-TCTCG-AAAGACATAGGTAAT
1 ACTGTCCATATGTTC-CGTAGA-ACATAGGTAAT
*
30961 TCTGTCCATATGTTCCGTAGAACATAGGTAA
1 ACTGTCCATATGTTCCGTAGAACATAGGTAA
30992 ACCCTCGACT
Statistics
Matches: 71, Mismatches: 17, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
30 6 0.08
31 36 0.51
32 25 0.35
33 4 0.06
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (32 bp):
ACTGTCCATATGTTCCGTAGAACATAGGTAAT
Found at i:31398 original size:25 final size:25
Alignment explanation
Indices: 31344--31398 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
31334 AGTCACATTT
31344 CATATAACACTTATATTACATATTC
1 CATATAACACTTATATTACATATTC
*
31369 C-TATAATTACTTATATTA-ATA-TC
1 CATATAA-CACTTATATTACATATTC
31392 ACATATA
1 -CATATA
31399 TCACAAGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 2 0.08
24 9 0.35
25 15 0.58
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (25 bp):
CATATAACACTTATATTACATATTC
Found at i:32890 original size:29 final size:29
Alignment explanation
Indices: 32836--32900 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
32826 AAATAAGAAA
* *
32836 TTATTTTGTTCCAGTTTAGTGCCTAACAT
1 TTATTTCGTTCCAATTTAGTGCCTAACAT
* * *
32865 TTATTTCGTTCCAATTTGGTGTCTAACGT
1 TTATTTCGTTCCAATTTAGTGCCTAACAT
*
32894 TTCTTTC
1 TTATTTC
32901 CCTCTCTTCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.17, C:0.18, G:0.14, T:0.51
Consensus pattern (29 bp):
TTATTTCGTTCCAATTTAGTGCCTAACAT
Found at i:34069 original size:116 final size:116
Alignment explanation
Indices: 33865--34097 Score: 448
Period size: 116 Copynumber: 2.0 Consensus size: 116
33855 AATATTTAAC
*
33865 TCCAAAACGTTTCATTTTGGGTCAAAAACAACCTTCGTTGGATGGAAATCGTTAGTCAACTAATG
1 TCCAAAACGTTTCATTTTGGGTCAAAAACAACCTTCGTTGGATGAAAATCGTTAGTCAACTAATG
33930 ATCAACGCATGGTGCTAACCAAACAAGAACACGTGGACCCAGATGTTGATG
66 ATCAACGCATGGTGCTAACCAAACAAGAACACGTGGACCCAGATGTTGATG
33981 TCCAAAACGTTTCATTTTGGGTCAAAAACAACCTTCGTTGGATGAAAATCGTTAGTCAACTAATG
1 TCCAAAACGTTTCATTTTGGGTCAAAAACAACCTTCGTTGGATGAAAATCGTTAGTCAACTAATG
*
34046 ATCAACGCATGGTGCTAATCAAACAAGAACACGTGGACCCAGATGTTGATG
66 ATCAACGCATGGTGCTAACCAAACAAGAACACGTGGACCCAGATGTTGATG
34097 T
1 T
34098 GGCGTGTCCA
Statistics
Matches: 115, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (116 bp):
TCCAAAACGTTTCATTTTGGGTCAAAAACAACCTTCGTTGGATGAAAATCGTTAGTCAACTAATG
ATCAACGCATGGTGCTAACCAAACAAGAACACGTGGACCCAGATGTTGATG
Found at i:41426 original size:6 final size:6
Alignment explanation
Indices: 41415--41450 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
41405 TTTCTCCCTC
41415 GAAACA GAAACA GAAACA GAAACA GAAACA GAAACA
1 GAAACA GAAACA GAAACA GAAACA GAAACA GAAACA
41451 AAATGGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.67, C:0.17, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAACA
Found at i:41937 original size:3 final size:3
Alignment explanation
Indices: 41929--41955 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
41919 TTAACTCCCC
41929 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
41956 AACTTGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:42682 original size:3 final size:3
Alignment explanation
Indices: 42674--42699 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
42664 AGATAGCTTG
42674 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
42700 TAGGGGTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:43172 original size:14 final size:14
Alignment explanation
Indices: 43153--43179 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43143 AGTGTAATTT
43153 AATAACGGTAGAAA
1 AATAACGGTAGAAA
43167 AATAACGGTAGAA
1 AATAACGGTAGAA
43180 TTTTATAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.15
Consensus pattern (14 bp):
AATAACGGTAGAAA
Found at i:43283 original size:17 final size:17
Alignment explanation
Indices: 43257--43298 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
43247 TGGACAATTA
43257 TTTTTA-TATTAAACAT
1 TTTTTATTATTAAACAT
** *
43273 TTTTTATTATTTGATAT
1 TTTTTATTATTAAACAT
43290 TTTTTATTA
1 TTTTTATTA
43299 GGTTTGTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTTTATTATTAAACAT
Found at i:43650 original size:24 final size:24
Alignment explanation
Indices: 43618--43663 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
43608 TTCTCCTCAA
43618 GAGACCCTGGCGGATCTAGAAAAG
1 GAGACCCTGGCGGATCTAGAAAAG
43642 GAGACCCTGGCGGATCTAGAAA
1 GAGACCCTGGCGGATCTAGAAA
43664 TTAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.22, G:0.33, T:0.13
Consensus pattern (24 bp):
GAGACCCTGGCGGATCTAGAAAAG
Found at i:45574 original size:43 final size:43
Alignment explanation
Indices: 45517--45632 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
45507 GGTCGAGATC
* * *
45517 TATAGCGGTGTTTTTGGATACAAACGCCGCAAAAGATCATATC
1 TATAGCAGTATTTTTGGATACAAACGCCGCAAAAGATCATATA
* * *
45560 TATAG-AGTCATTTTTGGATACAAACGCCACTAAAGGTCATATA
1 TATAGCAGT-ATTTTTGGATACAAACGCCGCAAAAGATCATATA
* * *
45603 TATAGCGGTGTTTTTGGATTCAAACGCCGC
1 TATAGCAGTATTTTTGGATACAAACGCCGC
45633 TAATTACCTT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
42 2 0.03
43 57 0.93
44 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (43 bp):
TATAGCAGTATTTTTGGATACAAACGCCGCAAAAGATCATATA
Found at i:50091 original size:718 final size:717
Alignment explanation
Indices: 47258--50126 Score: 5528
Period size: 718 Copynumber: 4.0 Consensus size: 717
47248 AAGGAGAGAG
*
47258 GAAAAAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
1 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
47323 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
66 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
47388 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
131 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
47453 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
196 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
*
47518 AGAGAAGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
261 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
47583 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTCACCGATCCATTTTTA
326 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTC-CCGATCCATTTTTA
*
47648 AAAGTAGCTCTATGTTAACAGTGATTTTAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
390 AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
*
47713 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGTCATGAACTGCAGGACTTTG
455 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
*
47778 ATCCCATGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
520 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
47843 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
585 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
*
47908 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAATTTGAGGTTTACAACTAAGATAAAACATAC
650 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
47973 AGA
715 AGA
*
47976 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGAGGAAAGAAAACATCAACAACTTCT
1 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
48041 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
66 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
48106 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
131 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
48171 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
196 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
*
48236 AGAGACGTGATTAGCCTTACCAACATGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
261 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
48301 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTCCCGATCCATTTTTAA
326 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTCCCGATCCATTTTTAA
*
48366 AAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAGATATTAACAGTGA
391 AAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTGA
48431 AAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTGA
456 AAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTGA
48496 TCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAAC
521 TCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAAC
*
48561 ATTTTCATTTTTTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTAA
586 ATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTAA
48626 TCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATACA
651 TCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATACA
48691 GA
716 GA
48693 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
1 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
48758 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
66 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
48823 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTC-A-ATA
131 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
*
48886 GTTATAGACAACAAAACCATAATTCTAAGGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
196 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
*
48951 AGAGACATGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
261 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
49016 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTCCCGATCCATTTTTAA
326 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTCCCGATCCATTTTTAA
49081 AAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTGA
391 AAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTGA
49146 AAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTAAT-GACATGAACTGCAGGACTTTG
456 AAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTT-ATCGACATGAACTGCAGGACTTTG
49210 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
520 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
49275 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
585 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
*
49340 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACTACTAAGATAAAACATAC
650 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
49405 AGA
715 AGA
49408 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
1 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
49473 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
66 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
*
49538 TATGAATAAATACATGAACAAAGGAACTGAAACGAGGGCAGCAAACCACTGATACATTCAATATA
131 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
49603 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
196 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
*
49668 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACTAGAATCAATCATCTCTATCAAA
261 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
49733 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTTCCCGATCCATTTTTA
326 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCA-TTTTTTCCCGATCCATTTTTA
* *
49798 AAAGTAGCTCTATGTTAACAGTGATTTTAAAAGTAAATCCTAGACACACCCAGATATTAACAGTG
390 AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
49863 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
455 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
49928 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
520 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
49993 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
585 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
*
50058 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGTTTTACAACTAAGATAAAACATAC
650 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
50123 AGA
715 AGA
50126 G
1 G
50127 TTGGAGCGCC
Statistics
Matches: 2121, Mismatches: 25, Indels: 10
0.98 0.01 0.00
Matches are distributed among these distances:
715 704 0.33
716 4 0.00
717 699 0.33
718 714 0.34
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (717 bp):
GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTCCCGATCCATTTTTAA
AAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTGA
AAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTGA
TCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAAC
ATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTAA
TCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATACA
GA
Found at i:54252 original size:21 final size:21
Alignment explanation
Indices: 54210--54252 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
54200 TTCTTGGGCT
* *
54210 AGGGGAATCGATACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
54231 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
54252 A
1 A
54253 ACGAACCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.30, G:0.23, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:54325 original size:23 final size:22
Alignment explanation
Indices: 54281--54325 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
54271 AATGTCATGG
*
54281 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
54303 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
54326 AAGTTATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:54930 original size:2 final size:2
Alignment explanation
Indices: 54923--54956 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
54913 TATGAGATTA
54923 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
54957 TAGGAGATAT
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:55924 original size:23 final size:23
Alignment explanation
Indices: 55894--55958 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
55884 ACATTATTAT
*
55894 ATGGCACTACGGTGCAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
*
55917 ATGGCACTTCGATGCAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
*
55940 GTGGCACTTCGGTGCAATT
1 ATGGCACTTCGGTGCAATT
55959 ATACGAGCTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (23 bp):
ATGGCACTTCGGTGCAATTCTAC
Found at i:61772 original size:34 final size:33
Alignment explanation
Indices: 61734--61837 Score: 94
Period size: 34 Copynumber: 3.2 Consensus size: 33
61724 CAGTTGAGAT
*
61734 TAAACAAACCCAAATTGAAATTTCACAAAAATTA
1 TAAACAAACCC-AATTGAAATTTCACAAAAACTA
**
61768 TAAACAAAATC-A--GAAA--TCGA-AAAAACTA
1 TAAACAAACCCAATTGAAATTTC-ACAAAAACTA
* *
61796 TAAACAAACCTATATTGAAATTTCACAGAAACTA
1 TAAACAAACCCA-ATTGAAATTTCACAAAAACTA
61830 TAAACAAA
1 TAAACAAA
61838 ATCAGAAATC
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
28 17 0.31
29 1 0.02
30 5 0.09
32 5 0.09
33 1 0.02
34 26 0.47
ACGTcount: A:0.58, C:0.16, G:0.05, T:0.21
Consensus pattern (33 bp):
TAAACAAACCCAATTGAAATTTCACAAAAACTA
Found at i:61800 original size:62 final size:62
Alignment explanation
Indices: 61734--61850 Score: 198
Period size: 62 Copynumber: 1.9 Consensus size: 62
61724 CAGTTGAGAT
*
61734 TAAACAAACCCAAATTGAAATTTCACAAAAATTATAAACAAAATCAGAAATCGAAAAAACTA
1 TAAACAAACCCAAATTGAAATTTCACAAAAACTATAAACAAAATCAGAAATCGAAAAAACTA
* * *
61796 TAAACAAACCTATATTGAAATTTCACAGAAACTATAAACAAAATCAGAAATCGAA
1 TAAACAAACCCAAATTGAAATTTCACAAAAACTATAAACAAAATCAGAAATCGAA
61851 GAAGTGAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.57, C:0.16, G:0.06, T:0.21
Consensus pattern (62 bp):
TAAACAAACCCAAATTGAAATTTCACAAAAACTATAAACAAAATCAGAAATCGAAAAAACTA
Found at i:63028 original size:85 final size:82
Alignment explanation
Indices: 62897--63094 Score: 198
Period size: 85 Copynumber: 2.4 Consensus size: 82
62887 GTTTTTTGCG
* * * * * * * *
62897 GCGTTTGTGTAAAAATGCCGCTACAGTTCTTATCTTTTGCAACGTTTATTGGGAAAAAATGCCAC
1 GCGTTTGTATAAAAATGCCGCTAAAGTACTAATCTGTTGCAACGTTT-GT-CGAAAAAACGCCAC
* **
62962 TATAGGTGAACCATATTGTA
64 TATAGATGAACC-TATTACA
* * ***
62982 GTGTTTTTATAAAAATGCCGCTAAAGTACTAATCTGTTGTGGCGTTTGTCGAAAAAACGCCACTA
1 GCGTTTGTATAAAAATGCCGCTAAAGTACTAATCTGTTGCAACGTTTGTCGAAAAAACGCCACTA
* *
63047 TAGATGGACCTATTACG
66 TAGATGAACCTATTACA
*
63064 GCGTTTGTATAAAAACGCCGCTAAAGTACTA
1 GCGTTTGTATAAAAATGCCGCTAAAGTACTA
63095 TTTTCGAAAA
Statistics
Matches: 92, Mismatches: 21, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
82 32 0.35
83 22 0.24
84 1 0.01
85 37 0.40
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (82 bp):
GCGTTTGTATAAAAATGCCGCTAAAGTACTAATCTGTTGCAACGTTTGTCGAAAAAACGCCACTA
TAGATGAACCTATTACA
Found at i:63143 original size:68 final size:68
Alignment explanation
Indices: 63030--63162 Score: 221
Period size: 68 Copynumber: 2.0 Consensus size: 68
63020 GTGGCGTTTG
* *
63030 TCGAAAAAACGCCACTATAGATGGACCTATTACGGCGTTTGTATAAAAACGCCGCTAAAGTACTA
1 TCGAAAAAACGCCACTACAGATGGACCTATTACGGCGTTTATATAAAAACGCCGCTAAAGTACTA
63095 TTT
66 TTT
* * *
63098 TCGAAAAAACGCCACTACATATGTACCTATTGCGGCGTTTATATAAAAACGCCGCTAAAGTACTA
1 TCGAAAAAACGCCACTACAGATGGACCTATTACGGCGTTTATATAAAAACGCCGCTAAAGTACTA
63163 CTCTAGTGCG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (68 bp):
TCGAAAAAACGCCACTACAGATGGACCTATTACGGCGTTTATATAAAAACGCCGCTAAAGTACTA
TTT
Found at i:64641 original size:13 final size:13
Alignment explanation
Indices: 64607--64644 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
64597 TAAAAAAATG
*
64607 TTGTAAAAGATGTT
1 TTGTAAAATAT-TT
64621 TT-TAAAATATTT
1 TTGTAAAATATTT
64633 TTGTAAAATATT
1 TTGTAAAATATT
64645 ATTCAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 4 0.18
13 16 0.73
14 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (13 bp):
TTGTAAAATATTT
Found at i:64799 original size:33 final size:33
Alignment explanation
Indices: 64757--64822 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
64747 ATTACAAGAG
64757 ATAGTTTCTTCTTCTTAGTAGCTTAACCATCTT
1 ATAGTTTCTTCTTCTTAGTAGCTTAACCATCTT
64790 ATAGTTTCTTCTTCTTAGTAGCTTAACCATCTT
1 ATAGTTTCTTCTTCTTAGTAGCTTAACCATCTT
64823 CTTCTCCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (33 bp):
ATAGTTTCTTCTTCTTAGTAGCTTAACCATCTT
Found at i:65604 original size:23 final size:22
Alignment explanation
Indices: 65560--65628 Score: 61
Period size: 21 Copynumber: 3.1 Consensus size: 22
65550 TATATTTTTA
65560 ATTATATTTTTTATTTACTA-TAT
1 ATTAT-TTTTTTATTTA-TATTAT
**
65583 -TCCTTTTTTTATTTATATTAT
1 ATTATTTTTTTATTTATATTAT
* *
65604 ATTATTTTTATTATATATCTTAT
1 ATTATTTTT-TTATTTATATTAT
65627 AT
1 AT
65629 CATTATATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.05
21 14 0.38
22 8 0.22
23 13 0.35
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTATTTTTTTATTTATATTAT
Found at i:65610 original size:14 final size:15
Alignment explanation
Indices: 65592--65660 Score: 70
Period size: 14 Copynumber: 4.6 Consensus size: 15
65582 TTCCTTTTTT
65592 TATTTATATTATAT-
1 TATTTATATTATATA
*
65606 TATTTTTATTATATA
1 TATTTATATTATATA
*
65621 TCTTATATCATTATATA
1 TATT-TAT-ATTATATA
*
65638 TATATATA-TATATA
1 TATTTATATTATATA
*
65652 TATATATAT
1 TATTTATAT
65661 GTATGTATAG
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
14 27 0.59
15 4 0.09
16 5 0.11
17 10 0.22
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTATATTATATA
Found at i:65637 original size:2 final size:2
Alignment explanation
Indices: 65615--65660 Score: 60
Period size: 2 Copynumber: 23.5 Consensus size: 2
65605 TTATTTTTAT
*
65615 TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA
65656 TA TA T
1 TA TA T
65661 GTATGTATAG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
1 2 0.05
2 36 0.90
3 2 0.05
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:65742 original size:35 final size:34
Alignment explanation
Indices: 65703--65819 Score: 98
Period size: 38 Copynumber: 3.3 Consensus size: 34
65693 ACTATGTATA
65703 TATATTTTTTCTTAATATTATATTTTATACGTTTTT
1 TATATTTTTTCTTAATATTATATTTT-TACG-TTTT
*
65739 ATATATATTTTTCTTAATATTCTATTTTT--GTTTT
1 -TATAT-TTTTTCTTAATATTATATTTTTACGTTTT
*
65773 TAT-TTATTTATATATATATATTATATTTTTAC-TTTAT
1 TATATT-TTT-TCT-TA-ATATTATATTTTTACGTTT-T
*
65810 TTTATTTTTT
1 TATATTTTTT
65820 TCTATTATTT
Statistics
Matches: 67, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
31 1 0.01
32 4 0.06
33 5 0.07
34 6 0.09
35 13 0.19
36 4 0.06
37 12 0.18
38 22 0.33
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (34 bp):
TATATTTTTTCTTAATATTATATTTTTACGTTTT
Found at i:65819 original size:18 final size:18
Alignment explanation
Indices: 65793--65830 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
65783 TATATATATA
65793 TTATATTTTTACT-TTATT
1 TTATATTTTT-CTATTATT
*
65811 TTATTTTTTTCTATTATT
1 TTATATTTTTCTATTATT
65829 TT
1 TT
65831 TTTCTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
TTATATTTTTCTATTATT
Found at i:65827 original size:13 final size:13
Alignment explanation
Indices: 65811--65835 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65801 TTACTTTATT
65811 TTATTTTTTTCTA
1 TTATTTTTTTCTA
65824 TTATTTTTTTCT
1 TTATTTTTTTCT
65836 TAATATCATG
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:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTTTTCTA
Found at i:65828 original size:52 final size:47
Alignment explanation
Indices: 65765--65871 Score: 78
Period size: 50 Copynumber: 2.2 Consensus size: 47
65755 ATATTCTATT
*
65765 TTTGTTTT-TATTTATTTATATATATAT-AT-TATATTTTTACTTTATTTTA
1 TTTGTTTTCTA-TTATTTATAT-TA-ATCATGTATATCTTTA-TTT-TTTTA
* *
65814 TTT-TTTTCTATTATTTTTTTCTTAATATCATGTATATCTTTATTTTTTTA
1 TTTGTTTTCTATTA--TTTATATT-A-ATCATGTATATCTTTATTTTTTTA
65864 TTTGTTTT
1 TTTGTTTT
65872 ACTTAATATT
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
48 7 0.15
49 6 0.12
50 17 0.35
51 9 0.19
52 9 0.19
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (47 bp):
TTTGTTTTCTATTATTTATATTAATCATGTATATCTTTATTTTTTTA
Found at i:65968 original size:18 final size:17
Alignment explanation
Indices: 65936--65980 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
65926 TGTACACATT
65936 ATTTTTATT-CCTTTTTA
1 ATTTTT-TTACCTTTTTA
*
65953 ATTTCTTTTACCTTTTTT
1 ATTT-TTTTACCTTTTTA
65971 ATTTTTTTAC
1 ATTTTTTTAC
65981 TCCATTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTTTACCTTTTTA
Found at i:65978 original size:17 final size:17
Alignment explanation
Indices: 65934--65980 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
65924 TATGTACACA
65934 TTATTTTTATT-CCTTTT
1 TTATTTTT-TTACCTTTT
*
65951 TAATTTCTTTTACCTTTT
1 TTATTT-TTTTACCTTTT
65969 TTATTTTTTTAC
1 TTATTTTTTTAC
65981 TCCATTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTTTTTACCTTTT
Found at i:66055 original size:12 final size:12
Alignment explanation
Indices: 66038--66069 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
66028 ATTCATTTTG
66038 TTTTTTTATTTA
1 TTTTTTTATTTA
66050 TTTTTTTATTTA
1 TTTTTTTATTTA
66062 TTATTTTT
1 TT-TTTTT
66070 TACGTGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTATTTA
Found at i:66070 original size:17 final size:16
Alignment explanation
Indices: 66024--66070 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
66014 TTTTTTAACA
*
66024 TTTTATTCATTTTGTTT
1 TTTTATT-ATTTTTTTT
66041 TTTTATT-TATTTTTTT
1 TTTTATTAT-TTTTTTT
*
66057 ATTTATTATTTTTT
1 TTTTATTATTTTTT
66071 ACGTGTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 1 0.04
16 17 0.65
17 8 0.31
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTATTATTTTTTTT
Found at i:66079 original size:26 final size:25
Alignment explanation
Indices: 66050--66116 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 25
66040 TTTTTATTTA
66050 TTTTTTTATTTATTATTTTTTACGTG
1 TTTTTTTATTTATTATTTTTT-CGTG
* *
66076 TTTTGTTATTT-TTCATTTTTTCTTG
1 TTTTTTTATTTATT-ATTTTTTCGTG
66101 TTTTATTTA-TTATTAT
1 TTTT-TTTATTTATTAT
66117 CATGTTTGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
25 13 0.37
26 22 0.63
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (25 bp):
TTTTTTTATTTATTATTTTTTCGTG
Found at i:69201 original size:10 final size:10
Alignment explanation
Indices: 69181--69217 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
69171 AGATTTAATC
69181 AGAACAAAAAG
1 AGAA-AAAAAG
69192 AG-AAAAAA-
1 AGAAAAAAAG
69200 AGAAAAAAAG
1 AGAAAAAAAG
69210 AGAAAAAA
1 AGAAAAAA
69218 GCAAAGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 2 0.08
9 11 0.46
10 9 0.38
11 2 0.08
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAG
Found at i:69209 original size:18 final size:19
Alignment explanation
Indices: 69181--69217 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
69171 AGATTTAATC
69181 AGAACAAAAAGAGAAAAAA
1 AGAACAAAAAGAGAAAAAA
69200 AGAA-AAAAAGAGAAAAAA
1 AGAACAAAAAGAGAAAAAA
69218 GCAAAGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (19 bp):
AGAACAAAAAGAGAAAAAA
Found at i:69235 original size:13 final size:13
Alignment explanation
Indices: 69202--69254 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
69192 AGAAAAAAAG
69202 AAAA-AAAGAGAA
1 AAAACAAAGAGAA
69214 AAAAGCAAAGAGAA
1 AAAA-CAAAGAGAA
69228 AAAACAAAGAGAA
1 AAAACAAAGAGAA
*
69241 AAAATAAAG-GAA
1 AAAACAAAGAGAA
69253 AA
1 AA
69255 TTGAAGAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
12 9 0.24
13 17 0.45
14 12 0.32
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.02
Consensus pattern (13 bp):
AAAACAAAGAGAA
Found at i:69445 original size:69 final size:69
Alignment explanation
Indices: 69326--69463 Score: 242
Period size: 69 Copynumber: 2.0 Consensus size: 69
69316 GATTTAAACT
69326 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
69391 TCAA
66 TCAA
* *
69395 ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAATCAC-TCTACTCGAAGATCATAGAGC
1 ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTTC-ACTCGAAGATCATAGAGC
69459 ATCAA
65 ATCAA
69464 GAGAGAGACA
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
68 2 0.03
69 64 0.97
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.25
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
TCAA
Found at i:70623 original size:26 final size:26
Alignment explanation
Indices: 70587--70648 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
70577 TTCAACCAAC
70587 TCTACAGATTGAAAGATCGACATTCA
1 TCTACAGATTGAAAGATCGACATTCA
70613 TCTACAGATTGAAAGATCGACATTCA
1 TCTACAGATTGAAAGATCGACATTCA
*
70639 TCTTCAGATT
1 TCTACAGATT
70649 CAACATTTCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (26 bp):
TCTACAGATTGAAAGATCGACATTCA
Found at i:70841 original size:37 final size:37
Alignment explanation
Indices: 70789--70860 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
70779 TAAAAAGAAG
*
70789 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAA
1 ATTTTATCTCCCTTGAGATAGTTTCCCTTGAAACAAA
* *
70826 ATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACA
1 ATTTTATCTCCCTTGAGATAGTTTCCCTTGAAACA
70861 TAAACATTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (37 bp):
ATTTTATCTCCCTTGAGATAGTTTCCCTTGAAACAAA
Found at i:70943 original size:37 final size:36
Alignment explanation
Indices: 70876--70960 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 36
70866 ATTGAAAACA
* * * *
70876 TTTCTCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCTCTTGAAATAAATTTTGCCTCCCTTGAGACAG
*
70912 TTTCCCTTGAAATAAAATTTTGCCTCCCTTGAGACAG
1 TTTCTCTTGAAAT-AAATTTTGCCTCCCTTGAGACAG
70949 TTTCTCTTGAAA
1 TTTCTCTTGAAA
70961 CATAAACATT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 12 0.29
37 30 0.71
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTCTCTTGAAATAAATTTTGCCTCCCTTGAGACAG
Found at i:70965 original size:102 final size:101
Alignment explanation
Indices: 70789--71165 Score: 425
Period size: 102 Copynumber: 3.7 Consensus size: 101
70779 TAAAAAGAAG
* * *
70789 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAA-AAAATTTTGTCTCCCTTGAGACAGTTTCTCT
* * *
70854 TGAAACATAAACATTGAAAACATTTCTCTTGAAATGA
65 TGAAACATAAACATTAAAAACATTTCCCTTGAAATAA
*
70891 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAATAAAATTTTGCCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAA-AAAATTTTGTCTCCCTTGAGACAGTTTCTCT
70956 TGAAACATAAACATTAAAAACATTTCCCTTGAAATAA
65 TGAAACATAAACATTAAAAACATTTCCCTTGAAATAA
* * * * *
70993 ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAAAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
* * * ** *** *
71058 GAAACA-AAATATTTGAATATGTTTTATTTGAAACAA
66 GAAACATAAACA-TTAAAAACATTTCCCTTGAAATAA
* * ** ** ** *
71094 ATTTCGTCT-TCCTTGAGACAGTTTCTTTTGGAACTACGTTTTGTCTCTCTTGAGACAGTTTCTC
1 ATTTTGTCTCT-CTTGAGATAGTTTCCCTT-GAAAAAAATTTTGTCTCCCTTGAGACAGTTTCTC
71158 TTGAAACA
64 TTGAAACA
71166 AATTTCGTCT
Statistics
Matches: 242, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
100 5 0.02
101 75 0.31
102 162 0.67
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (101 bp):
ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAAAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
GAAACATAAACATTAAAAACATTTCCCTTGAAATAA
Found at i:71025 original size:36 final size:36
Alignment explanation
Indices: 70978--71203 Score: 227
Period size: 36 Copynumber: 6.4 Consensus size: 36
70968 ATTAAAAACA
*
70978 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
71014 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * *
71050 TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
***
71079 TTTTATTTGAAACAAATTTCGTCT-TCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCT-CTTGAGACAG
** * ** *
71115 TTTCTTTTGGAACTACGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
*
71152 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
71188 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
71204 ATATTTGAAT
Statistics
Matches: 156, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
28 2 0.01
29 18 0.12
30 2 0.01
34 1 0.01
35 1 0.01
36 100 0.64
37 31 0.20
38 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:71140 original size:138 final size:139
Alignment explanation
Indices: 70998--71258 Score: 425
Period size: 138 Copynumber: 1.9 Consensus size: 139
70988 AATAAATTTC
*
70998 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAC
* * ** *
71063 AAAATATTTGAATATGTTT-TATTTGAAACAAATTTCGTCTTCCTTGAGACAGTTTCTTTTGGAA
66 AAAATATTTGAATATATTTCTACTAAAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAA
71127 CTACGTTTT
131 CTACGTTTT
*
71136 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAC
* * *
71201 AAAATATTTGAATTTATTTCTCCTAAAAACAAATTTTGTCTCCCTTGAGACAGTTTCT
66 AAAATATTTGAATATATTTCTACTAAAAACAAATTTCGTCTCCCTTGAGACAGTTTCT
71259 CTTGAAACAC
Statistics
Matches: 112, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
138 80 0.71
139 32 0.29
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (139 bp):
GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAC
AAAATATTTGAATATATTTCTACTAAAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAA
CTACGTTTT
Found at i:71150 original size:203 final size:204
Alignment explanation
Indices: 70795--71165 Score: 482
Period size: 203 Copynumber: 1.8 Consensus size: 204
70785 GAAGATTTTA
* * *
70795 TCTCGCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAAC
1 TCTCGCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC
** * *
70860 ATAAACATTGAAAACATTTCTCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAT
66 ATAAACATTGAAAACATTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAT
70925 AAAATTTTGCCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAA
131 AAAATTTTGCCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAA
70990 TAAATTTCG
196 TAAATTTCG
* *
70999 TCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 TCTCGCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC
* * ** * **
71063 A-AAATATTTGAATATGTTT-TATTTGAAACAAATTTCGTCT-TCCTTGAGACAGTTTCTTTTGG
66 ATAAACA-TTGAAAACATTTCT-CTTGAAACAAATTTCGTCTCT-CTTGAGACAGTTTCCCTT-G
* ** * *
71125 AACT-ACGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
127 AAATAAAATTTTGCCTCCCTTGAGACAGTTTCTCTTGAAACA
71166 AATTTCGTCT
Statistics
Matches: 142, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
202 6 0.04
203 106 0.75
204 30 0.21
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (204 bp):
TCTCGCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC
ATAAACATTGAAAACATTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAT
AAAATTTTGCCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAA
TAAATTTCG
Found at i:71267 original size:66 final size:67
Alignment explanation
Indices: 71161--71345 Score: 216
Period size: 66 Copynumber: 2.7 Consensus size: 67
71151 GTTTCTCTTG
* * * *
71161 AAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATAT-TT-GAATTTATTTCTCC
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATATCTTCAAATTTATTTC-CC
71224 TAA
65 TAA
71227 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAA-ATCTTCAAATTTATTTCCC
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-AAATATCTTCAAATTTATTTCCC
*
71291 TTA
65 TAA
* * * *
71294 AAACAAAATTTTGTTTCCCTTGAGTCCGTTT-TCATGAAACAACATATATCTT
1 AAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA-A-ATATCTT
71346 TGAGATCGTT
Statistics
Matches: 103, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
66 41 0.40
67 23 0.22
68 34 0.33
69 5 0.05
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.38
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATATCTTCAAATTTATTTCCCT
AA
Found at i:72252 original size:110 final size:110
Alignment explanation
Indices: 72052--72289 Score: 290
Period size: 110 Copynumber: 2.2 Consensus size: 110
72042 GCTTTCTAGT
* * *
72052 TTCAGAGCCAATTTTAACTTCACAACGAGGGATATTGGACTCAAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
* *
72117 CAACGAAGAGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCA
66 CAACGAAGAGGCGACTGACTATCAACAAACAACTTTTCAGTTTCA
* * *
72162 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
** * * * *
72227 CAGTGAA-AGGGCGGCTGGCTATCAACAAATAA-TTTCCCAG-TTC-
66 CAACGAAGA-GGCGACTGACTATCAACAAACAACTTT-TCAGTTTCA
72270 -T-AGAGCCAATTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCA
72290 TGAAGGAGGA
Statistics
Matches: 111, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
106 18 0.16
107 1 0.01
109 7 0.06
110 85 0.77
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (110 bp):
TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGCTCAACTTCA
CAACGAAGAGGCGACTGACTATCAACAAACAACTTTTCAGTTTCA
Found at i:73746 original size:22 final size:22
Alignment explanation
Indices: 73721--73762 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
73711 TTTTAATTAT
73721 TTTTTTATTTAT-TTACTATTCC
1 TTTTTTATTTATATTA-TATTCC
73743 TTTTTTATTTATATTATATT
1 TTTTTTATTTATATTATATT
73763 TTTATTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTTATTTATATTATATTCC
Found at i:73779 original size:20 final size:19
Alignment explanation
Indices: 73744--73801 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
73734 TACTATTCCT
73744 TTTTTATT-TATA-TTATA
1 TTTTTATTATATATTTATA
73761 TTTTTATTATATATCTTATA
1 TTTTTATTATATAT-TTATA
** *
73781 TCATTATATATATATATATA
1 TTTTTAT-TATATATTTATA
73801 T
1 T
73802 AATATATAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 8 0.24
18 4 0.12
20 15 0.44
21 7 0.21
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTATTATATATTTATA
Found at i:73904 original size:27 final size:27
Alignment explanation
Indices: 73874--73941 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
73864 ATTTTATACG
* *
73874 TTTTTATATATATTTCTTAATAT-TCTA
1 TTTTTAT-TATATTTATTAATATATATA
* *
73901 TTTTTATTTTATTTATTTATATATATA
1 TTTTTATTATATTTATTAATATATATA
73928 TTTTTACTT-TATTT
1 TTTTTA-TTATATTT
73942 TATTTTTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 12 0.34
27 21 0.60
28 2 0.06
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.69
Consensus pattern (27 bp):
TTTTTATTATATTTATTAATATATATA
Found at i:73959 original size:13 final size:13
Alignment explanation
Indices: 73941--73965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73931 TTACTTTATT
73941 TTATTTTTTTCTA
1 TTATTTTTTTCTA
73954 TTATTTTTTTCT
1 TTATTTTTTTCT
73966 TAATATCATG
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:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTTTTCTA
Found at i:74103 original size:18 final size:17
Alignment explanation
Indices: 74076--74109 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
74066 TTTTTATTCA
74076 TTTTTAATTTCTTTTACC
1 TTTTTAATTT-TTTTACC
*
74094 TTTTTTATTTTTTTAC
1 TTTTTAATTTTTTTAC
74110 TCCATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTAATTTTTTTACC
Found at i:74107 original size:17 final size:17
Alignment explanation
Indices: 74063--74109 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
74053 TATGTGCACA
74063 TTATTTTTATT-CATTTT
1 TTATTTTT-TTACATTTT
* *
74080 TAATTTCTTTTACCTTTT
1 TTATTT-TTTTACATTTT
74098 TTATTTTTTTAC
1 TTATTTTTTTAC
74110 TCCATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTTTTTACATTTT
Found at i:75956 original size:26 final size:26
Alignment explanation
Indices: 75902--75952 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
75892 GTTCGAGCCT
* * *
75902 TTTCGAGTTCAAGTTTTAATATTATA
1 TTTCGAGTTCAAGTTTGAACATGATA
75928 TTTCGAGTTCAAG-TTGAACATGATA
1 TTTCGAGTTCAAGTTTGAACATGATA
75953 ATTTTTAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (26 bp):
TTTCGAGTTCAAGTTTGAACATGATA
Found at i:78672 original size:2 final size:2
Alignment explanation
Indices: 78665--78713 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
78655 ATAATAATAA
78665 AT AT AT AT 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 AT AT AT AT
78707 AT AT AT A
1 AT AT AT A
78714 AACTAATAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:79256 original size:13 final size:13
Alignment explanation
Indices: 79240--79272 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
79230 CATCTTCATC
*
79240 TTTCTTTCTTTAT
1 TTTCTTTCATTAT
79253 TTTCTTTCATTAT
1 TTTCTTTCATTAT
79266 TTTCTTT
1 TTTCTTT
79273 TCACAATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCATTAT
Found at i:79922 original size:21 final size:20
Alignment explanation
Indices: 79863--79922 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
79853 ATTCTTATAC
*
79863 TTTATTTATTTT-CTCATTA
1 TTTATTTATTTTATTCATTA
* *
79882 -TTA-TT-TTTTATTAAATA
1 TTTATTTATTTTATTCATTA
79899 TTTATTTATTTTATTCATTGA
1 TTTATTTATTTTATTCATT-A
79920 TTT
1 TTT
79923 TCATTAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
16 4 0.13
17 6 0.19
18 6 0.19
19 2 0.06
20 9 0.29
21 4 0.13
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTATTTATTTTATTCATTA
Found at i:80422 original size:23 final size:23
Alignment explanation
Indices: 80395--80438 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
80385 ATAACGTTAA
* *
80395 AGAAATTGAACAGTTAAAATGTT
1 AGAAATTAAACAGTCAAAATGTT
80418 AGAAATTAAACAGTCAAAATG
1 AGAAATTAAACAGTCAAAATG
80439 AACAGTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.07, G:0.16, T:0.25
Consensus pattern (23 bp):
AGAAATTAAACAGTCAAAATGTT
Found at i:82211 original size:23 final size:23
Alignment explanation
Indices: 82179--82240 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
82169 CTCGTATAAA
82179 TGCACCGAAGTGCCATGTAGAAT
1 TGCACCGAAGTGCCATGTAGAAT
* **
82202 TGCACTGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCATGTAGAAT
*
82225 TGCACCGAAGTTCCAT
1 TGCACCGAAGTGCCAT
82241 ATAAAATGTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (23 bp):
TGCACCGAAGTGCCATGTAGAAT
Found at i:92679 original size:17 final size:16
Alignment explanation
Indices: 92657--92690 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
92647 TAAAAACAGT
92657 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
92674 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
92690 A
1 A
92691 TTCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:108315 original size:65 final size:65
Alignment explanation
Indices: 108211--108339 Score: 204
Period size: 65 Copynumber: 2.0 Consensus size: 65
108201 AAATTCCAAC
* *
108211 ATTCATCCCTCATAGCATTCATTATTATCACAATCATAATGAACTTAACAGCTTAAAGTATCCTA
1 ATTCATCCCTCATAGCATTCATTATTATCACAATCATAATGAACGTAACAACTTAAAGTATCCTA
* * * *
108276 ATTCATCCCTCATGGCATTCATTATTATTAGAATTATAATGAACGTAACAACTTAAAGTATCCT
1 ATTCATCCCTCATAGCATTCATTATTATCACAATCATAATGAACGTAACAACTTAAAGTATCCT
108340 CGTAACTGTA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (65 bp):
ATTCATCCCTCATAGCATTCATTATTATCACAATCATAATGAACGTAACAACTTAAAGTATCCTA
Found at i:112146 original size:23 final size:22
Alignment explanation
Indices: 112111--112154 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
112101 GGAAACAATC
*
112111 TAATTTAATTTAAGGAATAACT
1 TAATTTAAGTTAAGGAATAACT
112133 TAATTTAAAGTTAAGGAATAAC
1 TAATTT-AAGTTAAGGAATAAC
112155 CATGAATGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (22 bp):
TAATTTAAGTTAAGGAATAACT
Found at i:112311 original size:36 final size:39
Alignment explanation
Indices: 112244--112317 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
112234 AAAAATGTTA
*
112244 TATTTTTTATGATATTTTTATATTGACAACCGAAAATAT
1 TATTTTTTATAATATTTTTATATTGACAACCGAAAATAT
112283 TATTTTTTATAATATTTTTA-ATT-A-AACCGAAAATA
1 TATTTTTTATAATATTTTTATATTGACAACCGAAAATA
112318 GCATGAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 11 0.32
37 1 0.03
38 3 0.09
39 19 0.56
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (39 bp):
TATTTTTTATAATATTTTTATATTGACAACCGAAAATAT
Found at i:114244 original size:16 final size:15
Alignment explanation
Indices: 114211--114240 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
114201 TCTCACATGC
114211 AAAAATAAATCAAAG
1 AAAAATAAATCAAAG
114226 AAAAA-AAATCAAAG
1 AAAAATAAATCAAAG
114240 A
1 A
114241 GAAACTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.77, C:0.07, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAAATAAATCAAAG
Found at i:115741 original size:26 final size:25
Alignment explanation
Indices: 115691--115741 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
115681 TCAACAACAC
*
115691 AATAAAATCAACACAAAGTGTTCAA
1 AATAAAATCAACACAAAGTGATCAA
*
115716 AATAAAATACCACACAAGAGT-ATCAA
1 AATAAAAT-CAACACAA-AGTGATCAA
115742 GTCTTAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 8 0.36
26 11 0.50
27 3 0.14
ACGTcount: A:0.57, C:0.18, G:0.08, T:0.18
Consensus pattern (25 bp):
AATAAAATCAACACAAAGTGATCAA
Done.