Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 39 of 427
Found at i:9727113 original size:15 final size:15
Alignment explanation
Indices: 9727069--9727124 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
9727059 AACGACATGT
9727069 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
9727085 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
9727098 ATATTATTTAATTAA
1 ATATTATTTAATTAA
9727113 ATATTATTTAAT
1 ATATTATTTAAT
9727125 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:9727241 original size:9 final size:9
Alignment explanation
Indices: 9727229--9727454 Score: 134
Period size: 9 Copynumber: 24.6 Consensus size: 9
9727219 TATTTGATAT
*
9727229 CATAATTTA
1 CATAACTTA
9727238 CATAACTTA
1 CATAACTTA
* *
9727247 TATAACATA
1 CATAACTTA
*
9727256 TATAACTTA
1 CATAACTTA
9727265 CATAACTTA
1 CATAACTTA
* *
9727274 TATAACATA
1 CATAACTTA
9727283 CATAACTTA
1 CATAACTTA
*
9727292 TATAACTTA
1 CATAACTTA
*
9727301 TATAACTTA
1 CATAACTTA
* *
9727310 GATAA-ATA
1 CATAACTTA
*
9727318 TATAACTTA
1 CATAACTTA
9727327 CATAACTTA
1 CATAACTTA
9727336 CATAATACTTA
1 CAT-A-ACTTA
* *
9727347 AATATATTTTATA
1 CATA-A--CT-TA
*
9727360 TCATAATTTA
1 -CATAACTTA
*
9727370 CGTAACTTA
1 CATAACTTA
9727379 CATAACTTA
1 CATAACTTA
*
9727388 TATAACTTA
1 CATAACTTA
* *
9727397 GATAA-ATA
1 CATAACTTA
* *
9727405 TATAATTTA
1 CATAACTTA
*
9727414 CATAA-ATA
1 CATAACTTA
* * *
9727422 TATATCATA
1 CATAACTTA
*
9727431 TCATAAATTA
1 -CATAACTTA
9727441 CATAACTTA
1 CATAACTTA
9727450 CATAA
1 CATAA
9727455 TACTTAAATA
Statistics
Matches: 172, Mismatches: 35, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 128 0.74
10 11 0.06
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:9727251 original size:18 final size:18
Alignment explanation
Indices: 9727229--9727454 Score: 152
Period size: 18 Copynumber: 12.3 Consensus size: 18
9727219 TATTTGATAT
* *
9727229 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
9727247 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
9727265 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
9727283 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
9727301 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
9727318 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
9727336 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* **
9727360 TCATAATTTACGTAACTTA
1 -CATAACTTATATAACTTA
9727379 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
9727397 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
9727414 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
9727431 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
9727450 CATAA
1 CATAA
9727455 TACTTAAATA
Statistics
Matches: 162, Mismatches: 36, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
17 38 0.23
18 91 0.56
19 11 0.07
20 5 0.03
21 3 0.02
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:9727442 original size:114 final size:114
Alignment explanation
Indices: 9727258--9727478 Score: 311
Period size: 114 Copynumber: 1.9 Consensus size: 114
9727248 ATAACATATA
* * *
9727258 TAACTTACATAACTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATAA
1 TAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATAA
* * *
9727323 CTTACATAACTTACATAATACTTAAATATATTTTATATCATAATTTACG
66 ATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTACG
* * * * *
9727372 TAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATATATCATATCAT
1 TAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATA-AATAT-AT
9727435 AAATTACATAACTTACATAATACTTAAATATATATCATATCATA
64 AAATTACATAACTTACATAATACTTAAATATATATCATATCATA
9727479 CATAACTAGT
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 5 0.05
113 18 0.19
114 71 0.76
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (114 bp):
TAACTTACATAACTTATATAACATACATAACATATATAACTTACATAAATTAGATAAATATATAA
ATTACATAACTTACATAATACTTAAATATATATCATATCATAATTTACG
Found at i:9731568 original size:21 final size:21
Alignment explanation
Indices: 9731535--9731585 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
9731525 ACAACTTAGA
*
9731535 GCAGAGGCAGCAGAGAGGGAG
1 GCAGAGGCAGCAGAGAGAGAG
* * *
9731556 GCAGCGGCTGCAGCGAGAGAG
1 GCAGAGGCAGCAGAGAGAGAG
*
9731577 GCAGGGGCA
1 GCAGAGGCA
9731586 CGAGCGATGG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.51, T:0.02
Consensus pattern (21 bp):
GCAGAGGCAGCAGAGAGAGAG
Found at i:9734494 original size:26 final size:26
Alignment explanation
Indices: 9734458--9734593 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
9734448 CATGAAATTC
9734458 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
**
9734484 TTATCATGAAACATTTACCTAATACA
1 TTATCATGAAACATTTACCTAACCCA
*
9734510 TTATCATAAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
9734536 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACCCA
*
9734562 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
9734588 TTATCA
1 TTATCA
9734594 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:9735158 original size:44 final size:43
Alignment explanation
Indices: 9735041--9735205 Score: 294
Period size: 43 Copynumber: 3.8 Consensus size: 43
9735031 GTAAAAAAAG
* *
9735041 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTACCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
*
9735084 CGCCGCTAAAAGCCTTGACCTTTAGTGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
9735127 CGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCT-AAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
9735171 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
9735206 TTTCAATAAA
Statistics
Matches: 117, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
43 75 0.64
44 42 0.36
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:9735167 original size:87 final size:86
Alignment explanation
Indices: 9735041--9735205 Score: 294
Period size: 87 Copynumber: 1.9 Consensus size: 86
9735031 GTAAAAAAAG
*
9735041 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAAGCCTTGACCTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAAGCCTTGACCTT
*
9735106 TAGTGGCGCTTTTCCCACAAA
66 TAGCGGCGCTTTTCCCACAAA
*
9735127 CGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCT
1 CGCCGCT-AAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAAGCCTTGACCT
9735192 TTAGCGGCGCTTTT
65 TTAGCGGCGCTTTT
9735206 TTTCAATAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
86 7 0.09
87 68 0.91
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.24
Consensus pattern (86 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAAGCCTTGACCTT
TAGCGGCGCTTTTCCCACAAA
Found at i:9736449 original size:19 final size:19
Alignment explanation
Indices: 9736425--9736465 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
9736415 ATTCTTTAAT
9736425 ATTCTTAATAATTTATTTA
1 ATTCTTAATAATTTATTTA
9736444 ATTCTTAATAATTTATTTA
1 ATTCTTAATAATTTATTTA
9736463 ATT
1 ATT
9736466 TAATCAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTCTTAATAATTTATTTA
Found at i:9738246 original size:41 final size:41
Alignment explanation
Indices: 9737801--9738245 Score: 428
Period size: 41 Copynumber: 10.9 Consensus size: 41
9737791 AGTCGAGAAA
* * * * ** *
9737801 TAGCGGCGTTTTCGGAAAAATGCCTCTAAAAGTCCCAGAAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * *
9737842 TAGCGGCGTTTTT-CAAGAAACGCCGCAAAAAGTATGAGAAT
1 TAGCGGCGTTTTTGGAA-AAACGCCGCCAAAAGTCTGAGCAT
* * ** *
9737883 TCGCGGCATTTTTCCAAAAACGCCGCCAGAAGTCTGAGCAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* *
9737924 TAGCGGCATTTTTAGAAAAACGCCGCCAAAAGTCTGAGCAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * *
9737965 TAGCGGCGCTTTT-AAAAAACGCCGCCAAAGGTCTGAGCGT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* **
9738005 TAGCGGCGTTTTT-TACCAAAACGCCGCCAAGGGTCTGAGCAT
1 TAGCGGCGTTTTTGGA--AAAACGCCGCCAAAAGTCTGAGCAT
** * * * *
9738047 TAGCGGCGTTTTTATAAAAATGCCACGAAAAGTCTGAGTAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* ** *
9738088 TAGCGGCGTTTTTGGTAAAACATCGCCAAAAGTCTGAGTAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * *
9738129 TAACGGCGTTTTGGGGAAAACGCCGCCAAAAGTCTGAGTAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * * *
9738170 TAGCAGCCTTTTTGGAAAAACGCCGCAAAAAGTCTTAGCAT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
* * *
9738211 TAGCGGCGTTTTTGGAGAAACGCCGCTAAACGTCT
1 TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCT
9738246 TTTTTGAATT
Statistics
Matches: 340, Mismatches: 59, Indels: 10
0.83 0.14 0.02
Matches are distributed among these distances:
40 39 0.11
41 260 0.76
42 39 0.11
43 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (41 bp):
TAGCGGCGTTTTTGGAAAAACGCCGCCAAAAGTCTGAGCAT
Found at i:9738354 original size:35 final size:35
Alignment explanation
Indices: 9738299--9738380 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
9738289 TTATTTTTTG
* * **
9738299 GGTTTACGGTTTAATATTTAAGGT-TTAAGGTCTAT
1 GGTTTAGGGTTTAAGATTTAAAATGTTAA-GTCTAT
* * *
9738334 GGTTTAGGGTTTAAGCTTTAAAATGTTAATTTTAT
1 GGTTTAGGGTTTAAGATTTAAAATGTTAAGTCTAT
9738369 GGTTTAGGGTTT
1 GGTTTAGGGTTT
9738381 TGTTATTTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 35 0.90
36 4 0.10
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (35 bp):
GGTTTAGGGTTTAAGATTTAAAATGTTAAGTCTAT
Found at i:9738409 original size:7 final size:7
Alignment explanation
Indices: 9738399--9738431 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
9738389 TGGGTTTGAG
9738399 GTTTAGT
1 GTTTAGT
9738406 GTTTAGT
1 GTTTAGT
9738413 GTTTAGT
1 GTTTAGT
9738420 GTTTAGT
1 GTTTAGT
9738427 GTTTA
1 GTTTA
9738432 TGATCTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (7 bp):
GTTTAGT
Found at i:9739209 original size:14 final size:14
Alignment explanation
Indices: 9739167--9739210 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
9739157 GTGGTATTAA
9739167 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
*
9739181 TGG-TTAGGGGTTAG
1 -GGTTTAAGGGTTAG
*
9739195 GGTTTAAGGGATAG
1 GGTTTAAGGGTTAG
9739209 GG
1 GG
9739211 GATAAGTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 2 0.08
14 21 0.84
15 2 0.08
ACGTcount: A:0.20, C:0.00, G:0.48, T:0.32
Consensus pattern (14 bp):
GGTTTAAGGGTTAG
Found at i:9739594 original size:22 final size:22
Alignment explanation
Indices: 9739569--9739623 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
9739559 TATCTAGAAT
9739569 TTAGGGTTTAAT-GTTTATAAGG
1 TTAGGGTTTAATGGTTTA-AAGG
* *
9739591 TTAGGGGTTT-ATGGTTTAGAGT
1 TTA-GGGTTTAATGGTTTAAAGG
9739613 TTAGGGTTTAA
1 TTAGGGTTTAA
9739624 GATTTAGGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 6 0.21
22 11 0.39
23 11 0.39
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (22 bp):
TTAGGGTTTAATGGTTTAAAGG
Found at i:9739606 original size:7 final size:7
Alignment explanation
Indices: 9739595--9739640 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
9739585 ATAAGGTTAG
9739595 GGGTTTA
1 GGGTTTA
*
9739602 TGGTTTA
1 GGGTTTA
*
9739609 GAGTTTA
1 GGGTTTA
9739616 GGGTTTA
1 GGGTTTA
* *
9739623 AGATTTA
1 GGGTTTA
9739630 GGGTTTA
1 GGGTTTA
9739637 GGGT
1 GGGT
9739641 CTGATTTTGT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:9739621 original size:21 final size:21
Alignment explanation
Indices: 9739563--9739640 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
9739553 ATTTAGTATC
*
9739563 TAGAATTTAGGGTTTAAT-GTT
1 TAGAGTTTAGGGTTT-ATGGTT
* *
9739584 TATAAGGTTAGGGGTTTATGGTT
1 TA-GAGTTTA-GGGTTTATGGTT
* *
9739607 TAGAGTTTAGGGTTTAAGATT
1 TAGAGTTTAGGGTTTATGGTT
*
9739628 TAGGGTTTAGGGT
1 TAGAGTTTAGGGT
9739641 CTGATTTTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
21 24 0.52
22 11 0.24
23 11 0.24
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (21 bp):
TAGAGTTTAGGGTTTATGGTT
Found at i:9744409 original size:9 final size:9
Alignment explanation
Indices: 9744346--9744481 Score: 94
Period size: 9 Copynumber: 14.6 Consensus size: 9
9744336 ATTGATCATT
*
9744346 ACTTAAATA
1 ACTTACATA
*
9744355 AGTTACATA
1 ACTTACATA
* **
9744364 ACTCATGTA
1 ACTTACATA
9744373 ACTTACATA
1 ACTTACATA
*
9744382 ATTTACATAACA
1 ACTTACAT---A
*
9744394 ACCTACATA
1 ACTTACATA
9744403 ACTTACATA
1 ACTTACATA
9744412 ACTTACATA
1 ACTTACATA
* *
9744421 ATTTATATA
1 ACTTACATA
*
9744430 ACTCACATA
1 ACTTACATA
* *
9744439 ACGTATATAACA
1 AC-T-TA-CATA
9744451 ACTTA-ATA
1 ACTTACATA
*
9744459 ACTCACATA
1 ACTTACATA
9744468 ACTTACATA
1 ACTTACATA
9744477 ACTTA
1 ACTTA
9744482 ACTAATACAT
Statistics
Matches: 96, Mismatches: 24, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
8 6 0.06
9 74 0.77
10 3 0.03
11 2 0.02
12 11 0.11
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:9744420 original size:57 final size:56
Alignment explanation
Indices: 9744346--9744479 Score: 160
Period size: 57 Copynumber: 2.4 Consensus size: 56
9744336 ATTGATCATT
* * * * **
9744346 ACTTAAATAAGTTACATAACTCATGTAACTTACATAATTTACATAACAACCTACATA
1 ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTA-ATA
* * * *
9744403 ACTTACATAACTTACATAATTTATATAACTCACATAACGTATATAACAACTTAATA
1 ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTAATA
*
9744459 ACTCACATAACTTACATAACT
1 ACTTACATAACTTACATAACT
9744480 TAACTAATAC
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
56 22 0.34
57 43 0.66
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (56 bp):
ACTTACATAACTTACATAACTCATATAACTCACATAACGTACATAACAACCTAATA
Found at i:9748964 original size:40 final size:40
Alignment explanation
Indices: 9748909--9748991 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
9748899 ACATCTTCAG
*
9748909 TTGCACGTACTTTACCCGGGA-AACTTATATGCATGGATTC
1 TTGCACGTACTTTACCC-GGACAACTTATATGCATGAATTC
*
9748949 TTGCACGTACTTTACCCGGACAACTTATGTGCATGAATTC
1 TTGCACGTACTTTACCCGGACAACTTATATGCATGAATTC
9748989 TTG
1 TTG
9748992 TGTGCATGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
39 3 0.08
40 37 0.93
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (40 bp):
TTGCACGTACTTTACCCGGACAACTTATATGCATGAATTC
Found at i:9751785 original size:40 final size:40
Alignment explanation
Indices: 9751730--9751812 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
9751720 ACATCTTCAG
*
9751730 TTGCACGTACTTTACCCGGAAAACTTATGTGCATGGATTC
1 TTGCACGTACTTTACCCGGAAAACTTATGTGCATGAATTC
*
9751770 TTGCACGTACTTTACCCGGACAACTTATGTGCATGAATTC
1 TTGCACGTACTTTACCCGGAAAACTTATGTGCATGAATTC
9751810 TTG
1 TTG
9751813 TGTGCATGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (40 bp):
TTGCACGTACTTTACCCGGAAAACTTATGTGCATGAATTC
Found at i:9760850 original size:210 final size:210
Alignment explanation
Indices: 9760471--9760876 Score: 582
Period size: 210 Copynumber: 1.9 Consensus size: 210
9760461 AGGCTTAAGC
* * **
9760471 TTTTGAATTTAAGAGGCTGCAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAATGCAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTGAGGAGTCATCCAACCAAAATTGGAATGCAATCTCTT
* *
9760536 GAAAAGTTAATTCTTTCAGGTTGCTCAAAACTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
66 GAAAAGTTAATTCTTTCAGGTTGCTCAAAACTTAAAAGCTTTCCAGAGATTGATGGCAAAATGGA
** * * * *
9760601 ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGATACCT-TCTTCAATGGGAAAT
131 ATGCCTGCTAGAGCTTTATTTAGATGGGACAAACATTAAAGAGATACCTAT-TTCAATGGGAAAT
9760665 CTTGGAAGACTTAAAG
195 CTTGGAAGACTTAAAG
* *
9760681 TTTTGAATTTAAAAGACTGCAAAAGTCTTG-GGAGTCATCCAATCAAAATTGGAATGGAATCTCT
1 TTTTGAATTTAAAAGACTGCAAAAGTC-TGAGGAGTCATCCAACCAAAATTGGAATGCAATCTCT
* *
9760745 TGAAAAGTTAATTCTTTCAGGTTGCTCCAATCTTAAAAGCTTTCCAGAGATTGATGGCAAAATGG
65 TGAAAAGTTAATTCTTTCAGGTTGCTCAAAACTTAAAAGCTTTCCAGAGATTGATGGCAAAATGG
* *** * *
9760810 AATGCCTGCTAGAGCTTTATTTAGATGGGTCGGGCATTAAAGAGCTACCTATTTCAATTGGAAAT
130 AATGCCTGCTAGAGCTTTATTTAGATGGGACAAACATTAAAGAGATACCTATTTCAATGGGAAAT
9760875 CT
195 CT
9760877 GAGTAGTCTT
Statistics
Matches: 172, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
210 169 0.98
211 3 0.02
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (210 bp):
TTTTGAATTTAAAAGACTGCAAAAGTCTGAGGAGTCATCCAACCAAAATTGGAATGCAATCTCTT
GAAAAGTTAATTCTTTCAGGTTGCTCAAAACTTAAAAGCTTTCCAGAGATTGATGGCAAAATGGA
ATGCCTGCTAGAGCTTTATTTAGATGGGACAAACATTAAAGAGATACCTATTTCAATGGGAAATC
TTGGAAGACTTAAAG
Found at i:9766611 original size:17 final size:18
Alignment explanation
Indices: 9766591--9766624 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9766581 AAGTGAATTG
9766591 AAATTG-AAAAATTAAAT
1 AAATTGCAAAAATTAAAT
*
9766608 AAATTGCAGAAATTAAA
1 AAATTGCAAAAATTAAA
9766625 ATGAGGAAAA
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:0.62, C:0.03, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAAAAATTAAAT
Found at i:9767344 original size:10 final size:10
Alignment explanation
Indices: 9767325--9767374 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
9767315 TGAAATTCTA
9767325 AAAGATAAAT
1 AAAGATAAAT
9767335 ACAA-ATAAAT
1 A-AAGATAAAT
*
9767345 AAAGATAATT
1 AAAGATAAAT
9767355 AAAGATAAAT
1 AAAGATAAAT
9767365 GAAA-ATAAAT
1 -AAAGATAAAT
9767375 CCTAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:9770471 original size:45 final size:45
Alignment explanation
Indices: 9770407--9770754 Score: 218
Period size: 45 Copynumber: 7.7 Consensus size: 45
9770397 TCAACACAAG
* *
9770407 TCTTATCTCCCTGAAGTTGCAGTGGAGCATACTAAAGATAGCAAA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
* * * * *
9770452 TCTTATTTCCTTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAG--AT--AGCA-A-A
* * * * * *
9770503 TCTCATCT-CTCTGAAGTTGCAGTAGAGTAGA-T-CA-ACA-CAAG
1 TCTTATCTCCT-TGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
*
9770544 TCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTAAAGATAGCAAA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
* * * * *
9770589 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAACCACAGA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAG--AT--AGCA-A-A
* * * *
9770640 TCTCATCT-C-TGAAATTGCAGTAGAGCAGA-TCAA-A-A-CAAA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
* * *
9770679 -CATTATCTCCCTGAA-TTGGCAGTAGAGCAGACTGAAGATAGCAAA
1 TC-TTATCTCCTTGAAGTT-GCAGTGGAGCAGACTAAAGATAGCAAA
* *
9770724 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA
1 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGA
9770755 TTGAAGTTAT
Statistics
Matches: 238, Mismatches: 37, Indels: 56
0.72 0.11 0.17
Matches are distributed among these distances:
38 1 0.00
39 6 0.03
40 4 0.02
41 43 0.18
42 8 0.03
43 4 0.02
44 4 0.02
45 95 0.40
46 4 0.02
47 4 0.02
48 3 0.01
49 25 0.11
50 6 0.03
51 31 0.13
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
Found at i:9770640 original size:137 final size:137
Alignment explanation
Indices: 9770392--9770838 Score: 679
Period size: 137 Copynumber: 3.3 Consensus size: 137
9770382 CGAAGTCAGG
* *
9770392 GCAGATCAACACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCATACTAAAGATAGCAAATCTTA
1 GCAGATCAAAACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTA
*
9770457 TTTCCTTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTG
66 TTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTG
9770522 CAGTAGA
131 CAGTAGA
* * * *
9770529 GTAGATCAACACAAGTCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTAAAGATAGCAAATCTTA
1 GCAGATCAAAACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTA
* *
9770594 TTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAACCACAGATCTCA--TCTCTGAAATTG
66 TTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTG
9770657 CAGTAGA
131 CAGTAGA
* * *
9770664 GCAGATCAAAACAA-ACATTATCTCCCTGAA-TTGGCAGTAGAGCAGACTGAAGATAGCAAATCT
1 GCAGATCAAAACAAGTC-TTATCTCCCTGAAGTT-GCAGTGGAGCAGACTAAAGATAGCAAATCT
* * *
9770727 TATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATAAATCACAGATCTCATCTCTCTGAAGT
64 TATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGT
9770792 TGCAGTAGA
129 TGCAGTAGA
**
9770801 GCAGATCAAAACAAACCTTATC-CCCTTGAAGTTGCAGT
1 GCAGATCAAAACAAGTCTTATCTCCC-TGAAGTTGCAGT
9770839 AAAGCGATAG
Statistics
Matches: 283, Mismatches: 20, Indels: 14
0.89 0.06 0.04
Matches are distributed among these distances:
134 3 0.01
135 118 0.42
136 3 0.01
137 156 0.55
138 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (137 bp):
GCAGATCAAAACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTTA
TTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCTCTGAAGTTG
CAGTAGA
Found at i:9770760 original size:45 final size:45
Alignment explanation
Indices: 9770544--9770838 Score: 193
Period size: 45 Copynumber: 6.5 Consensus size: 45
9770534 TCAACACAAG
* * *
9770544 TCTTATCTCCTTGAAGTTGTAGTGGAGCAGACTAAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
* * *
9770589 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAAACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--AT--AGCA-A-A
* * * *
9770640 TCTCATCT--CTGAAATTGCAGTAGAGCAGA-TCAA-A-A-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
*
9770679 -CATTATCTCCCTGAA-TTGGCAGTAGAGCAGACTGAAGATAGCAAA
1 TC-TTATCTCCCTGAAGTT-GCAGTGGAGCAGACTGAAGATAGCAAA
* * *
9770724 TCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATAAATCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG--AT--AGCA-A-A
* * * *
9770775 TCTCATCTCTCTGAAGTTGCAGTAGAGCAGA-TCAA-A-A-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
*
9770816 CCTTATC-CCCTTGAAGTTGCAGT
1 TCTTATCTCCC-TGAAGTTGCAGT
9770839 AAAGCGATAG
Statistics
Matches: 202, Mismatches: 25, Indels: 50
0.73 0.09 0.18
Matches are distributed among these distances:
38 1 0.00
39 6 0.03
40 5 0.02
41 38 0.19
42 5 0.02
43 3 0.01
44 2 0.01
45 66 0.33
46 3 0.01
47 5 0.02
48 3 0.01
49 25 0.12
50 5 0.02
51 35 0.17
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
Found at i:9786349 original size:210 final size:209
Alignment explanation
Indices: 9785971--9786593 Score: 899
Period size: 210 Copynumber: 3.0 Consensus size: 209
9785961 AGTTCTTACG
* * * *
9785971 AGGCTTAAGCTTTTGAATTTAAGAGGCTGCAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAAT
1 AGGCTTAAG-TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAAT
*
9786036 GGAATCTCTTGAAATGTTAATTCTTTCAGGTTGCTCAAAAT-TTCAAAGCTTTCCAGAGATTGAT
65 GGAATCTCTTGAAAAGTTAATTCTTTCAGGTTGCTC-AAATCTTCAAAGCTTTCCAGAGATTGAT
* * *
9786100 GGGAAAATGGAATGTTTGCTGGAGCTTTGTTTTGATGGGACAAAAATTAAAGAGCTACCTTCTTC
129 GGGAAAATGGAATGTTTGCTGGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCTTCTTC
9786165 AATCGGAAATCTCAGA
194 AATCGGAAATCTCAGA
* * *
9786181 AGGCTTGAAGTTTTGAATTTAAAAGACTGTAAAAGTTTTAAGAGTCTTCCAACCAAAATTGGAAT
1 AGGCTT-AAGTTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAAT
* *
9786246 GGAATCTCTTGAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCCTGCCAGAGATTGATG
65 GGAATCTCTTGAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATG
** *
9786311 GGAAAATGGAATGTTTATTGGAGCTTTATTTAGATGGGACAAACATTAAAGATCTACCTTCTTCA
130 GGAAAATGGAATGTTTGCTGGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCTTCTTCA
*
9786376 ATCGAAAATCTCAGA
195 ATCGGAAATCTCAGA
* * *
9786391 AGACTTAAAGTTTTGAATCTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAATCAAAATTGGAAT
1 AGGCTT-AAGTTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAAT
* * * *
9786456 GGAATCTCTTAAAAAGTTAATTCTTTCAGGTTGCTCCAATCTTAAAAGGTTTCCAGAGATTGATG
65 GGAATCTCTTGAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATG
* ** * ***
9786521 GCAAAATGGAATGCCTGCTAGAGCTTTATTTAGATGGGACGGGCATTAAAGAGCTACCTAT-TTC
130 GGAAAATGGAATGTTTGCTGGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCT-TCTTC
*
9786585 AATTGGAAA
194 AATCGGAAA
9786594 CCTGAGCAGT
Statistics
Matches: 368, Mismatches: 42, Indels: 6
0.88 0.10 0.01
Matches are distributed among these distances:
209 4 0.01
210 360 0.98
211 4 0.01
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (209 bp):
AGGCTTAAGTTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAATG
GAATCTCTTGAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGG
GAAAATGGAATGTTTGCTGGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCTTCTTCAA
TCGGAAATCTCAGA
Found at i:9788990 original size:6 final size:6
Alignment explanation
Indices: 9788979--9789010 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
9788969 TTTTATATTC
9788979 TTTTAA TTTTAA TTTTAA -TTT-A TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
9789011 TTATTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 1 0.04
5 6 0.25
6 17 0.71
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTAA
Found at i:9789756 original size:147 final size:147
Alignment explanation
Indices: 9789586--9789855 Score: 357
Period size: 147 Copynumber: 1.8 Consensus size: 147
9789576 TTTAGTCACA
* * * * *
9789586 TTTTTTTAATACAAATGTTTAGAATTA-CTTATAGTCTC-TCTTCAACCTTTAAATAGGAGGGTA
1 TTTTTTTAATACAAATGTCTAGAATTATC-TACAGTCTCTTC-CCAACCGTTAAATAGGAGGATA
**
9789649 AATAGGTTTCAACGCACTAGAAAC-CACAACCTCCTACATAAGCAACAATGTTGATACCAATCGA
64 AATAGGTTTCAACGCACTAG-AACTCACAACCTCCTACATAAGCAACAATGTCAATACCAATCGA
9789713 GTTAGAACTCAATCATAATT
128 GTTAGAACTCAATCATAATT
*
9789733 TTTTTTTAATACAAATGTCTAGAATTATCTGCAGTCTCTTCCCAACCGTTAAATAGGAGGATAAA
1 TTTTTTTAATACAAATGTCTAGAATTATCTACAGTCTCTTCCCAACCGTTAAATAGGAGGATAAA
** * * ** *
9789798 TTTGTTTCAACGCACTCGAACTCACATCCTCCTGTATAGGCAACAATGTCAATACCAA
66 TAGGTTTCAACGCACTAGAACTCACAACCTCCTACATAAGCAACAATGTCAATACCAA
9789856 CCAAACTAAG
Statistics
Matches: 105, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
146 3 0.03
147 99 0.94
148 3 0.03
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.32
Consensus pattern (147 bp):
TTTTTTTAATACAAATGTCTAGAATTATCTACAGTCTCTTCCCAACCGTTAAATAGGAGGATAAA
TAGGTTTCAACGCACTAGAACTCACAACCTCCTACATAAGCAACAATGTCAATACCAATCGAGTT
AGAACTCAATCATAATT
Found at i:9792562 original size:15 final size:16
Alignment explanation
Indices: 9792532--9792564 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9792522 AAATGGTTAT
9792532 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
9792549 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
9792564 A
1 A
9792565 AAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:9794123 original size:25 final size:26
Alignment explanation
Indices: 9794061--9794124 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 26
9794051 GTATCTAAAG
9794061 AATAGTAGGTAAAAATATAATAATGAT
1 AATAGTA-GTAAAAATATAATAATGAT
*
9794088 AATATGTTAGTAATAATATAAT-AT-AGT
1 AATA-G-TAGTAAAAATATAATAATGA-T
9794115 AATAGTAGTA
1 AATAGTAGTA
9794125 GTAACAGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 5 0.15
26 2 0.06
27 11 0.33
28 13 0.39
29 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (26 bp):
AATAGTAGTAAAAATATAATAATGAT
Found at i:9794145 original size:3 final size:3
Alignment explanation
Indices: 9794132--9794209 Score: 86
Period size: 3 Copynumber: 26.0 Consensus size: 3
9794122 GTAGTAACAG
* * * * *
9794132 TAA TAA AAA TAA TAG TAA TAA -AA GTAG TAC TAA TAA TAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
*
9794177 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9794210 CACAAGAAGT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.03
3 59 0.95
4 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:9794151 original size:9 final size:9
Alignment explanation
Indices: 9794095--9794204 Score: 77
Period size: 9 Copynumber: 12.8 Consensus size: 9
9794085 GATAATATGT
9794095 TAGTAATAA
1 TAGTAATAA
9794104 TA-TAAT-A
1 TAGTAATAA
*
9794111 TAGTAATAG
1 TAGTAATAA
*
9794120 TAGTAGTAA
1 TAGTAATAA
*
9794129 CAGTAATAA
1 TAGTAATAA
9794138 -A--AATAA
1 TAGTAATAA
9794144 TAGTAATAA
1 TAGTAATAA
* * *
9794153 AAGTAGTAC
1 TAGTAATAA
*
9794162 TAATAATAA
1 TAGTAATAA
**
9794171 TAACAATAA
1 TAGTAATAA
*
9794180 TAATAATAA
1 TAGTAATAA
*
9794189 TAATAATAA
1 TAGTAATAA
*
9794198 TAATAAT
1 TAGTAAT
9794205 GATAACACAA
Statistics
Matches: 82, Mismatches: 14, Indels: 10
0.77 0.13 0.09
Matches are distributed among these distances:
6 5 0.06
7 4 0.05
8 9 0.11
9 64 0.78
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (9 bp):
TAGTAATAA
Found at i:9794301 original size:7 final size:7
Alignment explanation
Indices: 9794289--9794338 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
9794279 TAATAAGGAT
9794289 AATAATA
1 AATAATA
9794296 AATAATA
1 AATAATA
9794303 AATAAT-
1 AATAATA
9794309 AATAAT-
1 AATAATA
* *
9794315 ACTAAATT
1 AAT-AATA
9794323 AATAATA
1 AATAATA
9794330 AAGTAATA
1 AA-TAATA
9794338 A
1 A
9794339 GCAAATAGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
6 8 0.22
7 21 0.57
8 8 0.22
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:9794325 original size:11 final size:11
Alignment explanation
Indices: 9794288--9794338 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
9794278 TTAATAAGGA
9794288 TAATAATAAA-
1 TAATAATAAAG
*
9794298 TAATAAATAATAA
1 TAAT-AATAA-AG
* *
9794311 TAATACTAAAT
1 TAATAATAAAG
9794322 TAATAATAAAG
1 TAATAATAAAG
9794333 TAATAA
1 TAATAA
9794339 GCAAATAGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
10 4 0.12
11 21 0.62
12 5 0.15
13 4 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (11 bp):
TAATAATAAAG
Found at i:9794326 original size:20 final size:17
Alignment explanation
Indices: 9794287--9794338 Score: 70
Period size: 17 Copynumber: 3.0 Consensus size: 17
9794277 GTTAATAAGG
9794287 ATAATAATAAATAATAA
1 ATAATAATAAATAATAA
*
9794304 ATAATAAT-AATACTAA
1 ATAATAATAAATAATAA
9794320 ATTAATAATAAAGTAATAA
1 A-TAATAATAAA-TAATAA
9794339 GCAAATAGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 8 0.27
17 15 0.50
18 2 0.07
19 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
ATAATAATAAATAATAA
Found at i:9794758 original size:12 final size:11
Alignment explanation
Indices: 9794732--9794783 Score: 59
Period size: 12 Copynumber: 4.4 Consensus size: 11
9794722 GAAATAACAG
*
9794732 TAATAAAAACAA
1 TAATAATAA-AA
9794744 TAATAATAAATA
1 TAATAATAAA-A
9794756 TAATAATAGAAA
1 TAATAATA-AAA
9794768 TAATAATGAAAA
1 TAATAAT-AAAA
9794780 TAAT
1 TAAT
9794784 TAATTTGAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
11 1 0.03
12 32 0.89
13 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:9794773 original size:15 final size:15
Alignment explanation
Indices: 9794716--9794774 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
9794706 GTCAATAAGG
*
9794716 ATAATAGAAATAACA
1 ATAATAGAAATAATA
* * *
9794731 GTAATAAAAACAATA
1 ATAATAGAAATAATA
9794746 ATAAT--AAAT-ATA
1 ATAATAGAAATAATA
9794758 ATAATAGAAATAATA
1 ATAATAGAAATAATA
9794773 AT
1 AT
9794775 GAAAATAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 8 0.23
13 3 0.09
14 4 0.11
15 20 0.57
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.25
Consensus pattern (15 bp):
ATAATAGAAATAATA
Found at i:9798572 original size:130 final size:129
Alignment explanation
Indices: 9798160--9798640 Score: 504
Period size: 130 Copynumber: 3.7 Consensus size: 129
9798150 GAAGGATGCC
* * * * * * *
9798160 CGATTGTTTTG-TCCAACGAGAAAACCGAAACCCAGCAC-AGTAGGGCATGGTTCCTCGAATTTC
1 CGATTGTTTTGAACAAACGAG-AAATCGCAACCCAGCACGA-TAGGGCACGATTCC-CGAATTGC
* * *
9798223 TAAACATCGAGCATTGCC-TCATTTTTAGAA-TTTTAAAAACATGAGTGAAA-TTCTAAAGGGAT
63 CAAACATCGAGCATTGCCTTCATTTTAAGAATTTTTAAAAACATGAGTGAAATTTC-AAAGGAAT
9798285 ATT
127 ATT
* * * * * * *
9798288 TGATTATTTTGAATAAACGAGAAATTGCAACCCAGCACGGTAGGGCACTATTCCCCGAGTTGCCA
1 CGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATT-CCCGAATTGCCA
* * * ** * * **
9798353 AACATCTAACATTACCTTTGTTTTGAGGAGTTTTTAGAAAACATGACCGAAATTTCAAAGGAATA
65 AACATCGAGCATTGCCTTCATTTT-AAGAATTTTTA-AAAACATGAGTGAAATTTCAAAGGAATA
9798418 TT
128 TT
* *
9798420 CGATTGTTTTGAACAAATGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCCAAATTGCCAA
1 CGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAA
* *
9798485 ACATCGAGTATTGCCTTCATTTTAAAGAATTTTTAAAGACATGAGTGAAATTTCAAAGGAATATT
66 ACATCGAGCATTGCCTTCATTTT-AAGAATTTTTAAAAACATGAGTGAAATTTCAAAGGAATATT
* * **
9798550 CGATTGTTTTGAACGAACGAGAAATCGCAACCCAGCACGGTAGGGCACGATTCCTCGAATTGTTA
1 CGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCC-CGAATTGCCA
* * * *
9798615 AACATTGAACATTGCTTTCGTTTTAA
65 AACATCGAGCATTGCCTTCATTTTAA
9798641 AAAAAAATTA
Statistics
Matches: 286, Mismatches: 58, Indels: 16
0.79 0.16 0.04
Matches are distributed among these distances:
128 52 0.18
129 13 0.05
130 82 0.29
131 68 0.24
132 68 0.24
133 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (129 bp):
CGATTGTTTTGAACAAACGAGAAATCGCAACCCAGCACGATAGGGCACGATTCCCGAATTGCCAA
ACATCGAGCATTGCCTTCATTTTAAGAATTTTTAAAAACATGAGTGAAATTTCAAAGGAATATT
Found at i:9805559 original size:21 final size:21
Alignment explanation
Indices: 9805533--9805573 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9805523 ATCTGCTCAA
* *
9805533 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
9805554 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
9805574 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:9811789 original size:15 final size:14
Alignment explanation
Indices: 9811742--9811792 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 14
9811732 ATATTTATAC
9811742 ATATTATTTTATTT
1 ATATTATTTTATTT
*
9811756 TTATTATTTGT-TTT
1 ATATTATTT-TATTT
9811770 CATATTATTTTATTAT
1 -ATATTATTTTATT-T
9811786 ATATTAT
1 ATATTAT
9811793 ACTTTACTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 12 0.39
15 18 0.58
16 1 0.03
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (14 bp):
ATATTATTTTATTT
Found at i:9811844 original size:32 final size:32
Alignment explanation
Indices: 9811782--9811860 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
9811772 TATTATTTTA
*
9811782 TTATATATTATACTTTACTCCTTATGATATTT
1 TTATATATTATACTTTACTCCTTATCATATTT
*
9811814 TTATATATTATA-TTATACAT-TTTATCATATTT
1 TTATATATTATACTT-TAC-TCCTTATCATATTT
* *
9811846 TTTTACATTAT-CTTT
1 TTATATATTATACTTT
9811861 GTTTTATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
31 3 0.08
32 36 0.90
33 1 0.03
ACGTcount: A:0.29, C:0.10, G:0.01, T:0.59
Consensus pattern (32 bp):
TTATATATTATACTTTACTCCTTATCATATTT
Found at i:9814326 original size:25 final size:25
Alignment explanation
Indices: 9814279--9814348 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
9814269 TATTATATCT
**
9814279 ATAAAGTGTTTATTTTTTTAAAAATA
1 ATAAAGTGTTTA-TTTTAAAAAAATA
9814305 ATAAAGTGTTTATTTTAAAAAAATA
1 ATAAAGTGTTTATTTTAAAAAAATA
* *
9814330 ATAAAATGTTTAATTTAAA
1 ATAAAGTGTTTATTTTAAA
9814349 TATTGATAGA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 28 0.70
26 12 0.30
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (25 bp):
ATAAAGTGTTTATTTTAAAAAAATA
Found at i:9815683 original size:18 final size:18
Alignment explanation
Indices: 9815657--9815691 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9815647 TAACAGATAT
*
9815657 ACTTCAAATCTAGTTGGC
1 ACTTAAAATCTAGTTGGC
9815675 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
9815692 ACTGCCACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:9831189 original size:210 final size:210
Alignment explanation
Indices: 9830600--9831215 Score: 910
Period size: 210 Copynumber: 2.9 Consensus size: 210
9830590 AGGCTTAAGC
* * * * *
9830600 TTTTGAATTTAAGAGGCTGCAAAAGTCTGAGGAGTTTTCCAACCAAAATTAGAATGGAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAATGGAATCTCTT
* * *
9830665 GAAATGTTAAGTCTTTCAGGTTGCTCAAAACTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
66 GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
*
9830730 ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCAGAAATC
131 ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCGGAAATC
*
9830795 TCAGAAGACTTGAAG
196 TCAGAAGACTTAAAG
* *
9830810 TTTTGAATTTAAAAGACTGTAAAAGTCTTAGGAGTCTTCCAACCAAATTTGGAATGGAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAATGGAATCTCTT
*
9830875 GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTGCCAGAGATTGATGGGAAAATGGA
66 GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
*
9830940 ATGTTTATTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCGGAAATC
131 ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCGGAAATC
*
9831005 TTAGAAGACTTAAAG
196 TCAGAAGACTTAAAG
* *
9831020 TTTTGAATCTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAATCAAAATTGGAATGGAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAATGGAATCTCTT
* * * * *
9831085 AAAAAGTTAATTCTTTCAGGTTGCTCCAATCTTAAAAGGTTTCCAGAGATTGATGGCAAAATGGA
66 GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
** * * * * * * *** *
9831150 ATGCCTGCTAGAGCTCTATTTAGATGGGTCGGGCATTAAAGAGCTACCTAT-TTCAATTGGAAAT
131 ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCT-TCTTCAATCGGAAAT
9831214 CT
195 CT
9831216 GAGCAGTCTT
Statistics
Matches: 367, Mismatches: 38, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
210 366 1.00
211 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (210 bp):
TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAATGGAATCTCTT
GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCGGAAATC
TCAGAAGACTTAAAG
Found at i:9834824 original size:15 final size:15
Alignment explanation
Indices: 9834806--9834836 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9834796 TAAAAATATA
9834806 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
9834821 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
9834836 A
1 A
9834837 GAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:9834969 original size:5 final size:6
Alignment explanation
Indices: 9834951--9834979 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
9834941 CAGTAGTAGT
9834951 AATAAA AATAAA AATAAA AATAAA AATAA
1 AATAAA AATAAA AATAAA AATAAA AATAA
9834980 TAGTAATAAT
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:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:9835000 original size:33 final size:33
Alignment explanation
Indices: 9834918--9835000 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 33
9834908 AATAATATGG
* * *
9834918 TAAAAATATGTTAATAAAAATAACAGTAGTAGTAA
1 TAAAAATA--TTAATAAAAATAAAAATAATAGTAA
**
9834953 TAAAAATAAAAATAAAAATAAAAATAATAGTAA
1 TAAAAATATTAATAAAAATAAAAATAATAGTAA
**
9834986 TAATGATATTAATAA
1 TAAAAATATTAATAA
9835001 TAGTAATAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
33 31 0.79
35 8 0.21
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (33 bp):
TAAAAATATTAATAAAAATAAAAATAATAGTAA
Found at i:9835156 original size:3 final size:3
Alignment explanation
Indices: 9835150--9835372 Score: 136
Period size: 3 Copynumber: 73.7 Consensus size: 3
9835140 ATAGTTGTAG
* * * * * *
9835150 TAA TAA TAA TAG TAA GAA AAA TAG TGA TAA T-A TAA CAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
9835196 CAA -AA TAA TAA TAA TAG TCACG GAGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-A-A TA-A TAA TAA TAA TAA TAA TAA TAA
*
9835243 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAC TAA TAA TAA T-A TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * * * * * *
9835291 TAA AAA T-A TAAA CAA CAA -AA AAA TAG CAA TAG TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
9835335 TGA -AA TGAA GGTAA TAA TAA TAA TAA TAG TAA CTAA TA
1 TAA TAA T-AA --TAA TAA TAA TAA TAA TAA TAA -TAA TA
9835373 TGCAAGAAAA
Statistics
Matches: 172, Mismatches: 33, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
2 13 0.08
3 144 0.84
4 11 0.06
5 3 0.02
6 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:9835913 original size:26 final size:24
Alignment explanation
Indices: 9835872--9835927 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 24
9835862 TTTTGTTCCC
*
9835872 AAAAAAAAACCCTCTTGAATTTCA
1 AAAAAAAAACCCTCTTGAATCTCA
*
9835896 AAAAAAAAATCTCTTCTTGAATCTCA
1 AAAAAAAAA-C-CCTCTTGAATCTCA
9835922 AAAAAA
1 AAAAAA
9835928 TTTCTTCTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 9 0.32
25 1 0.04
26 18 0.64
ACGTcount: A:0.54, C:0.18, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAAAAAAACCCTCTTGAATCTCA
Found at i:9836163 original size:12 final size:11
Alignment explanation
Indices: 9836134--9836162 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
9836124 GGTTTTTTTC
9836134 TTTTTTTGATT
1 TTTTTTTGATT
9836145 TTTTTTTGATT
1 TTTTTTTGATT
9836156 TTTTTTT
1 TTTTTTT
9836163 TTTGGGTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.86
Consensus pattern (11 bp):
TTTTTTTGATT
Found at i:9836889 original size:205 final size:205
Alignment explanation
Indices: 9836518--9837922 Score: 2390
Period size: 205 Copynumber: 6.9 Consensus size: 205
9836508 AGATTTATTT
* * * * * * * * *
9836518 CTTCGATTTGATCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
** * * ** * *
9836583 GCGAAAGCCAAATCAACTATG-ATTCGATTTGTTCCTTGTAAGTATAAGGATGCCAATCCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
9836647 GGATCCGTTTCAGCATAAACATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
9836712 AGATGCCAAA
196 AGATGCCAAA
* * *
9836722 CTTTGATTCATTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCATAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
9836787 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
9836852 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
9836917 AGATGCCAAA
196 AGATGCCAAA
9836927 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
9836992 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* *
9837057 GGATCTGCTTCAGCGA-AATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
131 GGATCCGCTTCAGC-ATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTG
9837121 AAGATGCCAAA
195 AAGATGCCAAA
* *
9837132 TTTCGATTCGTTCTCTGACGATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
9837197 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
9837262 GGATCCGCTTCAGCATAAACATCTGAAGGTAAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
9837327 AGATGCCAAA
196 AGATGCCAAA
* *
9837337 CTTTGATTCGTTCTCTGACGATACAGAGACTACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
9837402 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
9837467 GGATCTGCTTCAG--TGAAATCGTCTGAAGGTGAGATCTACTATGTGTCTGCTCTCCATCAAAGT
131 GGATCCGCTTCAGCAT-AAA-CATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGT
9837530 GAAGATGCCAAA
194 GAAGATGCCAAA
9837542 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
*
9837607 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
9837672 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
9837737 AGATGCCAAA
196 AGATGCCAAA
9837747 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
1 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
*
9837812 ATGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
9837877 GGATCTGCTTCAG--TGAAATCGTCTGAAGGCGAGATCTGCTATGTGT
131 GGATCCGCTTCAGCAT-AAA-CATCTGAAGGTGAGATCTGCTATGTGT
9837923 GGCCTATTAC
Statistics
Matches: 1141, Mismatches: 51, Indels: 17
0.94 0.04 0.01
Matches are distributed among these distances:
203 2 0.00
204 78 0.07
205 1056 0.93
206 4 0.00
207 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (205 bp):
CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCAC
ATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCCGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
AGATGCCAAA
Found at i:9845973 original size:15 final size:14
Alignment explanation
Indices: 9845931--9845980 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
9845921 ATAACTTTGA
*
9845931 ATGCAAATGATGTG
1 ATGCAAATGATGAG
9845945 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
9845960 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
9845974 ATGCAAA
1 ATGCAAA
9845981 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:9848806 original size:19 final size:20
Alignment explanation
Indices: 9848782--9848836 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
9848772 GGTAAGGCTT
*
9848782 TTTTTTGCTATT-TTTTTAC
1 TTTTTTGCTATTATTTTAAC
**
9848801 TTTTTTATTATTATTTTAAC
1 TTTTTTGCTATTATTTTAAC
* *
9848821 TATTTTGCTACTATTT
1 TTTTTTGCTATTATTT
9848837 CACTATTATG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTTTGCTATTATTTTAAC
Found at i:9850754 original size:22 final size:23
Alignment explanation
Indices: 9850710--9850759 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
9850700 AAAGAGAATT
*
9850710 TAATATTTAAGCTTTAAAATTAA
1 TAATATTTAAGATTTAAAATTAA
* * *
9850733 -AATATTTAATATTTTAATTTAA
1 TAATATTTAAGATTTAAAATTAA
9850755 TAATA
1 TAATA
9850760 ATATTTCACA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TAATATTTAAGATTTAAAATTAA
Found at i:9851345 original size:23 final size:23
Alignment explanation
Indices: 9851315--9851358 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
9851305 TTCTTCAATA
9851315 TATGGGTTTATACTCATCCATGT
1 TATGGGTTTATACTCATCCATGT
9851338 TATGGGTTTATACTCATCCAT
1 TATGGGTTTATACTCATCCAT
9851359 ATTTGTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (23 bp):
TATGGGTTTATACTCATCCATGT
Found at i:9853225 original size:2 final size:2
Alignment explanation
Indices: 9853218--9853253 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
9853208 ACAATAATAC
* *
9853218 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9853254 ATAGAAATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:9853619 original size:3 final size:3
Alignment explanation
Indices: 9853606--9853691 Score: 56
Period size: 3 Copynumber: 28.3 Consensus size: 3
9853596 GAGGACATAT
*
9853606 ATA AT- ATA ATA ATA AT- ATAA ATA ACA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
9853650 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9853692 AACAAAGCTC
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
2 9 0.14
3 46 0.70
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:9854045 original size:22 final size:23
Alignment explanation
Indices: 9854017--9854067 Score: 79
Period size: 21 Copynumber: 2.3 Consensus size: 23
9854007 TAACCTTCTT
9854017 TCCAAAAAAACAAAAAAAC-ACC
1 TCCAAAAAAACAAAAAAACTACC
*
9854039 TCC-AAAAAACAAAAAAACTTCC
1 TCCAAAAAAACAAAAAAACTACC
9854061 TCCAAAA
1 TCCAAAA
9854068 CAAAGAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 15 0.58
22 8 0.31
23 3 0.12
ACGTcount: A:0.63, C:0.27, G:0.00, T:0.10
Consensus pattern (23 bp):
TCCAAAAAAACAAAAAAACTACC
Found at i:9854613 original size:44 final size:44
Alignment explanation
Indices: 9854564--9854928 Score: 278
Period size: 44 Copynumber: 8.3 Consensus size: 44
9854554 TGCTTCACTG
* * *
9854564 TAAGCACAGGAATGTCAGATTTGCTGTTTTCAACTTGTTCCCTA
1 TAAGCACAGGGATGTCAAATCTGCTGTTTTCAACTTGTTCCCTA
*** * * ** * *
9854608 TAAGCACAGGGATGTC--ATGCTGAAATCTTCGATCTACTTCACTG
1 TAAGCACAGGGATGTCAAAT-CTGCTGTTTTC-AACTTGTTCCCTA
* * * * *
9854652 TAAGCACAGGAATGTC-AATCTGCTATCTTCGA-TCCGTTCCCTA
1 TAAGCACAGGGATGTCAAATCTGCTGTTTTCAACT-TGTTCCCTA
* *
9854695 TAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCCTA
1 TAAGCACAGGGATGTCAAATCTGCTGTTTTCAACTTGTTCCCTA
* *
9854739 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTA
1 TAAGCACAGGGATGTCAAATCTGCTGTTTTCAACTTGTTCCCTA
* *** * * * *
9854783 TAAGCACAGGGATG-C-CATGCTGAAATCTTTGATC-TGCTTCACTG
1 TAAGCACAGGGATGTCAAAT-CTGCTGT-TTTCAACTTG-TTCCCTA
* * * * * *
9854827 TAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCCGTTCCCTA
1 TAAGCACAGGGATGTCAAATCTGCTGTTTTCAACT-TGTTCCCTA
* *
9854871 TAAGCACAGGGATATCAAATCTGATGTTTTCAACTTGTTCCCTA
1 TAAGCACAGGGATGTCAAATCTGCTGTTTTCAACTTGTTCCCTA
9854915 TAAGCACAGGGATG
1 TAAGCACAGGGATG
9854929 CCATGCTGAA
Statistics
Matches: 252, Mismatches: 55, Indels: 28
0.75 0.16 0.08
Matches are distributed among these distances:
42 5 0.02
43 33 0.13
44 201 0.80
45 11 0.04
46 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
TAAGCACAGGGATGTCAAATCTGCTGTTTTCAACTTGTTCCCTA
Found at i:9854831 original size:88 final size:88
Alignment explanation
Indices: 9854544--9854883 Score: 377
Period size: 88 Copynumber: 3.9 Consensus size: 88
9854534 GATATCCGCT
* * * * *
9854544 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTGTTTTCAA-CTTGTTCCCTA
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCAATC-CGTTCCCTA
*
9854608 TAAGCACAGGGATGTCATGCTGAA
65 TAAGCACAGGGATGCCATGCTGAA
* * *
9854632 ATCTTCGATCTACTTCACTGTAAGCACAGGAATGTC-AATCTGCTATCTTCGATCCGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCAATCCGTTCCCTAT
**
9854696 AAGCACAGGGATGCCAAAT-CTGTT
66 AAGCACAGGGATGCC--ATGCTGAA
* * * * * * * * * * *
9854720 GT-TTTCAACTTG-TTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAA-CTTGTTCCCT
1 ATCTTTGATC-TGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCAATC-CGTTCCCT
9854782 ATAAGCACAGGGATGCCATGCTGAA
64 ATAAGCACAGGGATGCCATGCTGAA
* *
9854807 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCAATCCGTTCCCTAT
9854872 AAGCACAGGGAT
66 AAGCACAGGGAT
9854884 ATCAAATCTG
Statistics
Matches: 202, Mismatches: 40, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
86 2 0.01
87 64 0.32
88 133 0.66
89 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (88 bp):
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCAATCCGTTCCCTAT
AAGCACAGGGATGCCATGCTGAA
Found at i:9854919 original size:88 final size:88
Alignment explanation
Indices: 9854557--9854924 Score: 329
Period size: 88 Copynumber: 4.2 Consensus size: 88
9854547 TTTGATCTGC
* * * * *
9854557 TTCACTGTAAGCACAGGAATGTCAGATTTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATG
1 TTCACTATAAGCACAGGAATGTCAGATCTGCTATCTTCAACTCGTTCCCTATAAGCACAGGGATG
* * **
9854622 TC-ATGCTGAAATCTTCGATCTAC
66 TCAATGCTGAAATTTTC-AACTTG
* *
9854645 TTCACTGTAAGCACAGGAATGTCA-ATCTGCTATCTTCGA-TCCGTTCCCTATAAGCACAGGGAT
1 TTCACTATAAGCACAGGAATGTCAGATCTGCTATCTTCAACT-CGTTCCCTATAAGCACAGGGAT
* ***
9854708 GCCAAAT-CTGTTGTTTTCAACTTG
65 GTC-AATGCTGAAATTTTCAACTTG
* * * * * * * *
9854732 TTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATG
1 TTCACTATAAGCACAGGAATGTCAGATCTGCTATCTTCAACTCGTTCCCTATAAGCACAGGGATG
* * *
9854797 -CCATGCTGAAATCTTTGATC-TG
66 TCAATGCTGAAAT-TTTCAACTTG
* *
9854819 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCCGTTCCCTATAAGCACAGGGA
1 -TTCACTATAAGCACAGGAATGTCAGATCTGCTATCTTCAACT-CGTTCCCTATAAGCACAGGGA
* **
9854883 TATCAAAT-CTGATGTTTTCAACTTG
64 TGTC-AATGCTGAAATTTTCAACTTG
*
9854908 TTCCCTATAAGCACAGG
1 TTCACTATAAGCACAGG
9854925 GATGCCATGC
Statistics
Matches: 222, Mismatches: 46, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
86 3 0.01
87 65 0.29
88 141 0.64
89 11 0.05
90 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (88 bp):
TTCACTATAAGCACAGGAATGTCAGATCTGCTATCTTCAACTCGTTCCCTATAAGCACAGGGATG
TCAATGCTGAAATTTTCAACTTG
Found at i:9854963 original size:44 final size:43
Alignment explanation
Indices: 9854599--9854968 Score: 189
Period size: 44 Copynumber: 8.4 Consensus size: 43
9854589 GTTTTCAACT
* * *
9854599 TGTTCCCTATAAGCACAGGGATGTCATGCTGAAATCTTCGATC
1 TGTTCACTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC
* * * * ** *
9854642 TACTTCACTGTAAGCACAGGAATGTCAAT-CTGCTATCTTCGATC
1 T-GTTCACTATAAGCACAGGGATG-CCATGCTGAAATCTTTGATC
* * *** * *
9854686 CGTTCCCTATAAGCACAGGGATGCCAAAT-CTGTTGT-TTTCAAC
1 TGTTCACTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC
* ** * *
9854729 TTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATGT-TTTCAAC
1 -TGTTCACTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC
*
9854773 TTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC
1 -TGTTCACTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC
* * * ** *
9854817 TGCTTCACTGTAAGCACAGGAATGTCA-GATCTGCTATCTTCGATC
1 TG-TTCACTATAAGCACAGGGATGCCATG--CTGAAATCTTTGATC
* * * * ** * *
9854862 CGTTCCCTATAAGCACAGGGATATCAAAT-CTGATGT-TTTCAAC
1 TGTTCACTATAAGCACAGGGAT-GC-CATGCTGAAATCTTTGATC
* *
9854905 TTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTGGATC
1 -TGTTCACTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC
*
9854949 TGCTTCACTGTAAGCACAGG
1 TG-TTCACTATAAGCACAGG
9854969 AATGTCAAAT
Statistics
Matches: 256, Mismatches: 54, Indels: 33
0.75 0.16 0.10
Matches are distributed among these distances:
42 5 0.02
43 43 0.17
44 192 0.75
45 15 0.06
46 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (43 bp):
TGTTCACTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC
Found at i:9854990 original size:132 final size:132
Alignment explanation
Indices: 9854544--9854989 Score: 542
Period size: 132 Copynumber: 3.4 Consensus size: 132
9854534 GATATCCGCT
* * * *
9854544 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTGTTTTCAACTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCAACTTGTTCCCTAT
** * * ** * * * *
9854609 AAGCACAGGGATGTC--ATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAAT-
66 AAGCACAGGGATGTCAAAT-CTGATGTTTTC-AACTTGTTCCCTATAAGCACAGGGATG-CCATG
**
9854671 CTGCT
128 CTGAA
* * * * * * * * *
9854676 ATCTTCGATCCG-TTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCAACTTGTTCCCTAT
*
9854740 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGTCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
9854805 AA
131 AA
* * *
9854807 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCCGTTCCCTA
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCAACT-TGTTCCCTA
*
9854871 TAAGCACAGGGATATCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
65 TAAGCACAGGGATGTCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
9854936 GAA
130 GAA
*
9854939 ATCTTGGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTC
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTC
9854990 GGTCTGCTCC
Statistics
Matches: 271, Mismatches: 38, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
130 3 0.01
131 94 0.35
132 172 0.63
133 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (132 bp):
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTATCTTCAACTTGTTCCCTAT
AAGCACAGGGATGTCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
AA
Found at i:9855127 original size:68 final size:68
Alignment explanation
Indices: 9855043--9855241 Score: 303
Period size: 68 Copynumber: 2.9 Consensus size: 68
9855033 TCTTCTTCCA
* * * *
9855043 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCTCTCCAATGCCATTTCTGGAAGAAGAGGT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
*
9855108 -TT
66 CCT
* *
9855110 GCTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGA
1 -CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
9855175 TCCT
65 TCCT
*
9855179 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGGA-AAAAGA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
9855242 AATTTGTAAT
Statistics
Matches: 120, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
67 6 0.05
68 113 0.94
69 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
CCT
Found at i:9855371 original size:43 final size:43
Alignment explanation
Indices: 9855313--9855984 Score: 357
Period size: 43 Copynumber: 15.4 Consensus size: 43
9855303 CTATTTCCCA
* *
9855313 ACTGCTTAAGGGGTTAAGATCTGTAAATTCAACCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCT
*
9855356 ACTAG-TTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCT
1 ACT-GCTTAGGGGGTTAAGATCTGTAAA--TTCAGCCTGTTACCCT
* * * * * * *
9855401 ACTGCTTAGGCGTTTAAGGTTTGAAAATTCGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCT
* * * *
9855444 ACTGCTTAGGGGGTTAAAGCCCATCAT-T--TTTTA-TCTGTTTCCCT
1 ACTGCTTAGGGGGTT-AAG---ATC-TGTAAATTCAGCCTGTTACCCT
9855488 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCAGCCTGTTACCCT
* * * * *
9855533 ACTGCTTAGGGGTTTAAGGTTTGTAAATTCGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCT
** * * *
9855576 ACTGCTTAGGGGGTTAAAGCCCATCAT-T-TTTTTA-TCTGTTTCCCT
1 ACTGCTTAGGGGGTT-AAG---ATC-TGTAAATTCAGCCTGTTACCCT
* * * * *
9855621 ACTGCTTAGGGGGTTAAAGCCATCAT-T--TTTTA-TCTATTTCCCT
1 ACTGCTTAGGGGGTT-AAG--ATC-TGTAAATTCAGCCTGTTACCCT
9855664 A-TGCTTA-GGGGTTAAGATCTGTAAATCTTCAG-CTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCAGCCTGTTACCCT
* * * *
9855706 ACTGCTTAGGGGTTTAAG-GCTTGTAAATTCGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATC-TGTAAATTCAGCCTGTTACCCT
* * ** * *
9855749 ACTGCTTAGGGGGTTAA-AGCCTATCATCTTC-GATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGA-TCTGT-AAATTCAG-CCTGTTACCCT
** * *
9855793 ACTGCTTAGGGGGTTAAGATCT-TCATCTTC-GATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGATCTGT-AAATTCAG-CCTGTTACCCT
* * * **
9855836 ACTGCTTAGGGAGATAAGATCTG-CAATTCAATCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCT
* * * * * * * * *
9855878 ACCGATTAGGGGTTTGAGACCCTTCGT--CTTC-GATCTATTTCCCT
1 ACTGCTTAGGGGGTTAAGA-TC-T-GTAAATTCAG-CCTGTTACCCT
9855922 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCAGCCTGTTACCCT
*
9855967 ACTGCTTAGGGGCTTAAG
1 ACTGCTTAGGGGGTTAAG
9855985 GCTTGTGAAT
Statistics
Matches: 497, Mismatches: 85, Indels: 92
0.74 0.13 0.14
Matches are distributed among these distances:
37 1 0.00
38 4 0.01
39 1 0.00
40 7 0.01
41 8 0.02
42 49 0.10
43 175 0.35
44 116 0.23
45 128 0.26
46 3 0.01
47 3 0.01
48 2 0.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (43 bp):
ACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCT
Found at i:9855418 original size:88 final size:86
Alignment explanation
Indices: 9855313--9855984 Score: 326
Period size: 88 Copynumber: 7.7 Consensus size: 86
9855303 CTATTTCCCA
*
9855313 ACTGCTTAAGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTAG-TTAGGGGGTTAAGATT
1 ACTGCTT-AGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACT-GCTTAGGGGGTTAAGATT
9855377 TGTAAATCTTCAGCCTGTTACCCT
64 TGTAAAT-TTCAGCCTGTTACCCT
* * * * * * **
9855401 ACTGCTTAGGCGTTTAAGGTTTGAAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCC
1 ACTGCTTAGG-GGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT-AAG-AT
* * ** * * *
9855466 AT-CATTTTTTA-TCTGTTTCCCT
63 TTGTAAATTTCAGCCTGTTACCCT
* *
9855488 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGT
1 ACTGCTTA-GGGGTTAAGATCTGTAAA--TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGAT
* *
9855553 TTGTAAA-TTCGGCTTGTTACCCT
63 TTGTAAATTTCAGCCTGTTACCCT
** * * *
9855576 ACTGCTTAGGGGGTTAAAGCCCATCAT-T-TTTTTA-TCTGTTTCCCTACTGCTTAGGGGGTTAA
1 ACTGCTTA-GGGGTT-AAG---ATC-TGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT-A
*** * ** * * * *
9855638 AGCCAT-CATTTTTTA-TCTATTTCCCT
59 AGATTTGTAAATTTCAGCCTGTTACCCT
* **
9855664 A-TGCTTAGGGGTTAAGATCTGTAAATCTTCAG-CTGTTACCCTACTGCTTAGGGGTTTAAGGCT
1 ACTGCTTAGGGGTTAAGATCTGTAAA--TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATT
* *
9855727 TGTAAA-TTCGGCTTGTTACCCT
64 TGTAAATTTCAGCCTGTTACCCT
* * ** * *
9855749 ACTGCTTAGGGGGTTAA-AGCCTATCATCTTC-GATCTGTTTCCCTACTGCTTAGGGGGTTAAGA
1 ACTGCTTA-GGGGTTAAGA-TCTGT-AAATTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGA
* * * *
9855812 TCT-T-CATCTTC-GATCTGTTTCCCT
62 TTTGTAAAT-TTCAG-CCTGTTACCCT
* * ** * * * *
9855836 ACTGCTTAGGGAGATAAGATCTG-CAATTCAATCTGTTACCCTACCGATTAGGGGTTTGAGACCC
1 ACTGCTTAGGG-GTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGA---
* * * * *
9855900 TTCGT---CTTC-GATCTATTTCCCT
62 TTTGTAAATTTCAG-CCTGTTACCCT
*
9855922 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGCTTAAG
1 ACTGCTTA-GGGGTTAAGATCTGTAAA--TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
9855985 GCTTGTGAAT
Statistics
Matches: 436, Mismatches: 105, Indels: 85
0.70 0.17 0.14
Matches are distributed among these distances:
81 1 0.00
82 4 0.01
84 7 0.02
85 68 0.16
86 54 0.12
87 110 0.25
88 112 0.26
89 74 0.17
90 1 0.00
92 4 0.01
93 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (86 bp):
ACTGCTTAGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATTTG
TAAATTTCAGCCTGTTACCCT
Found at i:9855482 original size:132 final size:133
Alignment explanation
Indices: 9855346--9855637 Score: 525
Period size: 132 Copynumber: 2.2 Consensus size: 133
9855336 TAAATTCAAC
* *
9855346 CTGTTACCCTACTAG-TTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAG
1 CTGTTTCCCTACT-GCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAG
9855410 GCGTTTAAGGTTTGAAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCA-TTTT
65 GCGTTTAAGGTTTGAAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTT
9855474 TTAT
130 TTAT
9855478 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* *
9855543 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTT
66 CGTTTAAGGTTTGAAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTT
9855608 TAT
131 TAT
9855611 CTGTTTCCCTACTGCTTAGGGGGTTAA
1 CTGTTTCCCTACTGCTTAGGGGGTTAA
9855638 AGCCATCATT
Statistics
Matches: 154, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
131 1 0.01
132 118 0.77
133 35 0.23
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (133 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
CGTTTAAGGTTTGAAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTT
TAT
Found at i:9855874 original size:129 final size:130
Alignment explanation
Indices: 9855609--9855997 Score: 447
Period size: 129 Copynumber: 3.0 Consensus size: 130
9855599 TCATTTTTTT
* * **
9855609 ATCTGTTTCCCTACTGCTTAGGGGGTTAAAGCC-ATCATTTTTTATCTATTTCCCTA-TGCTTA-
1 ATCTGTTACCCTACTGCTTAGGGGGTTAAAGCCTATCATCTTCGATCTATTTCCCTACTGCTTAG
* *
9855671 GGGGTTAAGATCTGTAAATCTTCAGCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTC
66 GGGGTTAAGATCTGTAAATCTTCACCTGTTACCCTACTGCTTAGGGGTATAAGGCTTGTAAATTC
** *
9855736 GGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCTATCATCTTCGATCTGTTTCCCTACTGCTTA
1 ATC-TGTTACCCTACTGCTTAGGGGGTTAAAGCCTATCATCTTCGATCTATTTCCCTACTGCTTA
* * * * *
9855801 GGGGGTTAAGATCT-T-CATCTTCGATCTGTTTCCCTACTGCTTAGGGAG-ATAA-GATCTG-CA
65 GGGGGTTAAGATCTGTAAATCTTC-ACCTGTTACCCTACTGCTTAGGG-GTATAAGGCT-TGTAA
9855861 ATTC
127 ATTC
* * * * * *
9855865 AATCTGTTACCCTACCGATTAGGGGTTTGAGACCCT-TCGTCTTCGATCTATTTCCCTACTGCTT
1 -ATCTGTTACCCTACTGCTTAGGGGGTT-AAAGCCTATCATCTTCGATCTATTTCCCTACTGCTT
*
9855929 AGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGCT-TAAGGCTTGTGA
64 AGGGGGTTAAGATCTGTAAATCTTCA-CCTGTTACCCTACTGCTTAGGGG-TATAAGGCTTGTAA
9855993 ATTC
127 ATTC
9855997 A
1 A
9855998 CTGATTTTAG
Statistics
Matches: 219, Mismatches: 27, Indels: 28
0.80 0.10 0.10
Matches are distributed among these distances:
127 1 0.00
128 29 0.13
129 94 0.43
130 42 0.19
131 46 0.21
132 7 0.03
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (130 bp):
ATCTGTTACCCTACTGCTTAGGGGGTTAAAGCCTATCATCTTCGATCTATTTCCCTACTGCTTAG
GGGGTTAAGATCTGTAAATCTTCACCTGTTACCCTACTGCTTAGGGGTATAAGGCTTGTAAATTC
Found at i:9856154 original size:66 final size:66
Alignment explanation
Indices: 9856048--9856174 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
9856038 TCTATGCTTA
*
9856048 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
9856113 G
66 G
*
9856114 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
9856175 TATATGAATG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:9857277 original size:14 final size:14
Alignment explanation
Indices: 9857258--9857292 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
9857248 TGCTAAGGTA
*
9857258 TTTTCAATTTCTGC
1 TTTTCAATTTCTAC
9857272 TTTTCAATTTCTAC
1 TTTTCAATTTCTAC
9857286 TTTTCAA
1 TTTTCAA
9857293 AAGAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:9857322 original size:91 final size:84
Alignment explanation
Indices: 9857037--9857570 Score: 324
Period size: 73 Copynumber: 6.5 Consensus size: 84
9857027 AATAAGAATG
* * * *
9857037 AAATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTCAAGACACGTTGAGGTATTTTCAATCTCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTCAAG--ACGCTAAGGTATTTTCAATTTCC
* ****
9857101 GTCTT-TCAA--AAAAAATCAA
64 GT-TTGTCAATTTACTTTTCAA
*
9857120 AAATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTCAAGACGCTGAGGTATTTTCAATTTCCGT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTCAAGACGCTAAGGTATTTTCAATTTCCGT
*
9857184 TTGTCAATTTATTTTTCAA
66 TTGTCAATTTACTTTTCAA
* *
9857203 AAATCCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGCTCACG-TGCTAAGGTATTTTCAATT
1 AAAT-CAACTCATATTGCGAGAGGTGAGTTGAGC--C--CTCAAGACGCTAAGGTATTTTCAATT
*
9857267 TCTGCTTT-TCAATTTCTACTTTTCAAA
61 TCCG-TTTGTCAA-TT-TACTTTTC-AA
* * * *
9857294 AGAATCAACTCATATTGCGAGAAGTGAGTTGAG-CCTCAGGACACGCTGAGGTAATTTCAATTTC
1 A-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTCA--AGACGCTAAGGTATTTTCAATTTC
*
9857358 TG-TTGTC-----A------AA
63 CGTTTGTCAATTTACTTTTCAA
* * * *
9857368 AAATCAACTCGTATTGCGAGAGGTGAGTTGAG-CCTCAAAACACGTTGAGGTATTTTCAATTT-C
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTC--AAGACGCTAAGGTATTTTCAATTTCC
* ***
9857431 ---TATC---TT--TTAAAAA
64 GTTTGTCAATTTACTTTTCAA
* * * * * * *
9857444 AAATCAGCTTATATTGCGAGAGGTGAGTTGA-ACCTCAAGACGCTGAGGTGTTTTCCATTTCTG-
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTCAAGACGCTAAGGTATTTTCAATTTCCGT
**
9857507 TTGTTCAATTTTTGTTTTCAAAA
66 TTG-TCAA-TTTACTTTTC--AA
9857530 AAATCAACTCATATTGCGAGAGGTGAGTTGAG-CCTCAAGAC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTCAAGAC
9857571 ACGTTGAGTA
Statistics
Matches: 371, Mismatches: 39, Indels: 79
0.76 0.08 0.16
Matches are distributed among these distances:
70 3 0.01
73 54 0.15
74 23 0.06
75 1 0.00
76 34 0.09
77 1 0.00
78 2 0.01
80 2 0.01
81 27 0.07
82 2 0.01
83 48 0.13
84 30 0.08
86 44 0.12
87 3 0.01
88 27 0.07
89 30 0.08
90 7 0.02
91 30 0.08
92 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (84 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCTCAAGACGCTAAGGTATTTTCAATTTCCGT
TTGTCAATTTACTTTTCAA
Found at i:9857533 original size:162 final size:157
Alignment explanation
Indices: 9857349--9857637 Score: 427
Period size: 162 Copynumber: 1.8 Consensus size: 157
9857339 CTGAGGTAAT
*
9857349 TTCAATTTCTGTTGTCAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTT
1 TTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTT
* * * *
9857414 GAGGTATTTTCAATTTCTAT-CTTTTAAAAAAAATCAGCTTATATTGCGAGAGGTGAGTTGAACC
66 GA-GTAATTTCAA-TT-TATGC--TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACC
9857478 TCAAGACGCTGAGGTGTTTTCCATTTCTGTTG
126 TCAAGACGCTGAGGTGTTTTCCATTTCTGTTG
* * *
9857510 TTCAATTTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1 TTCAATTTCTGTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGT
* *
9857575 TGAGTAATTTCAATTTATGCTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
65 TGAGTAATTTCAATTTATGCTTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTC
9857638 GGGGCACGCC
Statistics
Matches: 116, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
158 38 0.33
159 3 0.03
160 3 0.03
161 23 0.20
162 49 0.42
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (157 bp):
TTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTT
GAGTAATTTCAATTTATGCTTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAAG
ACGCTGAGGTGTTTTCCATTTCTGTTG
Found at i:9859250 original size:16 final size:16
Alignment explanation
Indices: 9859231--9859266 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9859221 CTTTTCCCCC
9859231 CTCTCCTTCCTCCCTT
1 CTCTCCTTCCTCCCTT
* *
9859247 CTCTCTTTTCTCCCTT
1 CTCTCCTTCCTCCCTT
9859263 CTCT
1 CTCT
9859267 TTCTTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (16 bp):
CTCTCCTTCCTCCCTT
Found at i:9860011 original size:26 final size:25
Alignment explanation
Indices: 9859976--9860047 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 25
9859966 TTACTATCAT
9859976 TATTAC-ATTATTATTATTATATTA
1 TATTACTATTATTATTATTATATTA
*
9860000 TACTTAGTATTATCT-TTA--ATATTA
1 TA-TTACTATTAT-TATTATTATATTA
*
9860024 TATTTCTATTATTA-TATT-TATTA
1 TATTACTATTATTATTATTATATTA
9860047 T
1 T
9860048 TACCTATTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
22 3 0.08
23 14 0.36
24 10 0.26
25 3 0.08
26 8 0.21
27 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (25 bp):
TATTACTATTATTATTATTATATTA
Found at i:9860048 original size:26 final size:29
Alignment explanation
Indices: 9859986--9860049 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 29
9859976 TATTACATTA
*
9859986 TTATTATTATATTATACTTAGTATTATCT
1 TTATTATTATATTATACTTAGTATTATAT
* *
9860015 TTAATATTATATT-T-C-TATTATTATAT
1 TTATTATTATATTATACTTAGTATTATAT
9860041 TTATTATTA
1 TTATTATTA
9860050 CCTATTGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 17 0.55
27 1 0.03
28 1 0.03
29 12 0.39
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (29 bp):
TTATTATTATATTATACTTAGTATTATAT
Found at i:9861978 original size:210 final size:210
Alignment explanation
Indices: 9861389--9862004 Score: 937
Period size: 210 Copynumber: 2.9 Consensus size: 210
9861379 AGGCTTAAGC
* * * *
9861389 TTTTGAATTTAAAAGGCTGCAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAATGGAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAATTTGGAATGGAATCTCTT
* *
9861454 GAAATGTTAATTCTTTCAGGTTGCTCAAAACTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
66 GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
9861519 ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCGGAAATC
131 ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCGGAAATC
*
9861584 TTAGAAGACTTGAAG
196 TTAGAAGACTTAAAG
*
9861599 TTTTGAATTTAAAAGACTGTAAAAGTCTTAGGAGTCTTCCAACCAAATTTGGAATGGAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAATTTGGAATGGAATCTCTT
* * *
9861664 GAAAAGTTATTTCTTTCAGGTTGCTCAAATCTTCAAAGCTTGCCAGAGATTGATGGGAAAATAGA
66 GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
*
9861729 ATGTTTATTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCGGAAATC
131 ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCGGAAATC
9861794 TTAGAAGACTTAAAG
196 TTAGAAGACTTAAAG
* *
9861809 TTTTGAATCTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAATCAAATTTGGAATGGAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAATTTGGAATGGAATCTCTT
* * * * *
9861874 AAAAAGTTAATTCTTTCAGGTTGCTCCAATCTTAAAAGGTTTCCAGAGATTGATGGCAAAATGGA
66 GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
** * * * * * * *** *
9861939 ATGCCTGCTAGAGCTCTATTTAGATGGGTCGGGCATTAAAGAGCTACCTAT-TTCAATTGGAAAT
131 ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCT-TCTTCAATCGGAAAT
9862003 CT
195 CT
9862005 GAGCAGTCTT
Statistics
Matches: 369, Mismatches: 36, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
210 368 1.00
211 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (210 bp):
TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAATTTGGAATGGAATCTCTT
GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCGGAAATC
TTAGAAGACTTAAAG
Found at i:9866532 original size:34 final size:35
Alignment explanation
Indices: 9866493--9866560 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
9866483 AATTTTAAAA
*
9866493 AATGTTGTAAAA-TTATTTTTTTTATTTACAATAT
1 AATGTTGTAAAAGTTATTTTTTGTATTTACAATAT
*
9866527 AATGTTTTAAAAGTTATTTTTTGTATTTACAATA
1 AATGTTGTAAAAGTTATTTTTTGTATTTACAATA
9866561 ATTTTTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 11 0.35
35 20 0.65
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.54
Consensus pattern (35 bp):
AATGTTGTAAAAGTTATTTTTTGTATTTACAATAT
Found at i:9869448 original size:10 final size:10
Alignment explanation
Indices: 9869429--9869465 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
9869419 TTAAATTTTA
9869429 AAAGATAAAT
1 AAAGATAAAT
9869439 ACAA-ATAAAT
1 A-AAGATAAAT
9869449 AAAGATAAAT
1 AAAGATAAAT
9869459 AAAGATA
1 AAAGATA
9869466 TATGCTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.70, C:0.03, G:0.08, T:0.19
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:9877593 original size:84 final size:84
Alignment explanation
Indices: 9877452--9877617 Score: 316
Period size: 84 Copynumber: 2.0 Consensus size: 84
9877442 TCAAATCCAA
9877452 AGGAATTGGGTCACCTTCAAAGCATTTTGGAATCAAGCAACAAATTTGATCCTTAAACAAAACTC
1 AGGAATTGGGTCACCTTCAAAGCATTTTGGAATCAAGCAACAAATTTGATCCTTAAACAAAACTC
9877517 CATTGAGATTGACAAAAAC
66 CATTGAGATTGACAAAAAC
9877536 AGGAATTGGGTCACCTTCAAAGCACTTTT-GAATCAAGCAACAAATTTGATCCTTAAACAAAACT
1 AGGAATTGGGTCACCTTCAAAGCA-TTTTGGAATCAAGCAACAAATTTGATCCTTAAACAAAACT
9877600 CCATTGAGATTGACAAAA
65 CCATTGAGATTGACAAAA
9877618 GCAAGCATGG
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
84 77 0.95
85 4 0.05
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (84 bp):
AGGAATTGGGTCACCTTCAAAGCATTTTGGAATCAAGCAACAAATTTGATCCTTAAACAAAACTC
CATTGAGATTGACAAAAAC
Found at i:9879594 original size:3 final size:3
Alignment explanation
Indices: 9879573--9880049 Score: 180
Period size: 3 Copynumber: 159.3 Consensus size: 3
9879563 ATGATAATGA
* * * * *
9879573 AAT AAT AA- AAT ATT GAT AAT AAG AAT AGT GAT AA- AA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
9879618 AAA AAT AAT -AT CTAT GAT ACT AAT AAT AGT AAT AAT AAG AA- AATT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
* * * * * *
9879663 AAT ATT AGT ATT AAT AAT AAT -AT AGAA AAT GAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* *
9879708 AAT -AT AGT AAT AAT AAT AA- AAGT GAA- AAT AAT AGT AAAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T -AAT AAT AAT AAT -AAT AAT AAT
** ** *
9879753 AAT AAT ATAT GTT AAT AGC AAT AAT AAT ATAT AAA AGAT AGGA- AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT A-AT AAT A-AT A--AT AAT
** * * **
9879799 AAT AAT -AT GGT AA- AAA AAT AAC AAT AAT -AT GTT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * ** * * *
9879843 AGT AGT GGT AAT AAT AAT AAT AGT AGT AAT AAT AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
9879891 -AT AAT -GT AGT AAT AGT AAT AA- AAC AAT AAT TAT AAA AAT AAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * *
9879936 AGT AGT AAC AAT AAT AAT ACT AAT ACT AAT AAT AA- CAC AAC AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
9879983 AAT AAT AAT AAT ATAT CTAT AAAT AAT AAT AAT AAT ATAT CTAT AAT
1 AAT AAT AAT AAT A-AT -AAT -AAT AAT AAT AAT AAT A-AT -AAT AAT
9880030 AAAT AAT AAT AAT AAT AAT A
1 -AAT AAT AAT AAT AAT AAT A
9880050 CATCAAGTTA
Statistics
Matches: 354, Mismatches: 88, Indels: 64
0.70 0.17 0.13
Matches are distributed among these distances:
2 33 0.09
3 288 0.81
4 29 0.08
5 4 0.01
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9881570 original size:88 final size:88
Alignment explanation
Indices: 9881421--9881778 Score: 518
Period size: 88 Copynumber: 4.1 Consensus size: 88
9881411 TAAGGTTTGT
* * * * *
9881421 GATTTATAGCTTTGATCTAATCGGATGGAACTTCAAGAAGATACAAATGGTGGCTTTGAGCCTCT
1 GATTTGTAGCTTCGATCTAATCGGCTGGAACTTCAAGGAGATACGAATGGTGGCTTTGAGCCTCT
* *
9881486 CCAGTGCCATTTCAGGGGGAAAA
66 CCAGTGCCATTTCAGGGAGAAGA
* * *
9881509 GATTTGTAGCTTCAATCTACTCGGCTGAAACTTCAAGGAGATACGAATGGTGGCTTTGAGCCTCT
1 GATTTGTAGCTTCGATCTAATCGGCTGGAACTTCAAGGAGATACGAATGGTGGCTTTGAGCCTCT
* *
9881574 CCAGTCCCATTTCAGGGGGAAGA
66 CCAGTGCCATTTCAGGGAGAAGA
* * **
9881597 TATTTGTAGCTTTGATCTAATCTACTGGAACTTCAAGGAGATACGAATGGTGGCTTTGAGCCTCT
1 GATTTGTAGCTTCGATCTAATCGGCTGGAACTTCAAGGAGATACGAATGGTGGCTTTGAGCCTCT
9881662 CCAGTGCCATTTCAGGGAGAAGA
66 CCAGTGCCATTTCAGGGAGAAGA
* * * * *
9881685 GATTTGTAGCTTCGATCTACTCCGTTGGAACTTCAAGGAGATACGAATAGTGGCTTCGAGCCTCT
1 GATTTGTAGCTTCGATCTAATCGGCTGGAACTTCAAGGAGATACGAATGGTGGCTTTGAGCCTCT
9881750 CCAGTGCCATTTTCAGGGAGAAGA
66 CCAGTGCCA-TTTCAGGGAGAAGA
9881774 GATTT
1 GATTT
9881779 ATTGCTCTGC
Statistics
Matches: 242, Mismatches: 27, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
88 223 0.92
89 19 0.08
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (88 bp):
GATTTGTAGCTTCGATCTAATCGGCTGGAACTTCAAGGAGATACGAATGGTGGCTTTGAGCCTCT
CCAGTGCCATTTCAGGGAGAAGA
Found at i:9881681 original size:44 final size:44
Alignment explanation
Indices: 9881459--9881770 Score: 138
Period size: 44 Copynumber: 7.1 Consensus size: 44
9881449 AACTTCAAGA
*
9881459 AGATACAAATGGTGGCTTTGAGCCTCTCCAGTGCCATTTCAGGG
1 AGATACGAATGGTGGCTTTGAGCCTCTCCAGTGCCATTTCAGGG
* * * * * * * ** * ** * *
9881503 GGAAAAGATTTGTAGC-TTCAATCTACT-CGGCTGAAACTTCAAGG
1 AGATACGAATGGTGGCTTTGAGCCT-CTCCAG-TGCCATTTCAGGG
*
9881547 AGATACGAATGGTGGCTTTGAGCCTCTCCAGTCCCATTTCAGGG
1 AGATACGAATGGTGGCTTTGAGCCTCTCCAGTGCCATTTCAGGG
* * * * * * * ** * *
9881591 GGA-A-GATATTTGTAGCTTTGA-TCTAATCTACTGGAACTTCAAGG
1 AGATACGA-A-TGGTGGCTTTGAGCCT-CTCCAGTGCCATTTCAGGG
9881635 AGATACGAATGGTGGCTTTGAGCCTCTCCAGTGCCATTTCAGGG
1 AGATACGAATGGTGGCTTTGAGCCTCTCCAGTGCCATTTCAGGG
* * * * ** * *
9881679 AGA-A-GAGATTTGTAGCTTCGA-TCTACTCC-GTTGGAACTTCAAGG
1 AGATACGA-A-TGGTGGCTTTGAGCCT-CTCCAG-TGCCATTTCAGGG
* *
9881723 AGATACGAATAGTGGCTTCGAGCCTCTCCAGTGCCATTTTCAGGG
1 AGATACGAATGGTGGCTTTGAGCCTCTCCAGTGCCA-TTTCAGGG
9881768 AGA
1 AGA
9881771 AGAGATTTAT
Statistics
Matches: 181, Mismatches: 68, Indels: 37
0.63 0.24 0.13
Matches are distributed among these distances:
42 4 0.02
43 16 0.09
44 132 0.73
45 25 0.14
46 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (44 bp):
AGATACGAATGGTGGCTTTGAGCCTCTCCAGTGCCATTTCAGGG
Found at i:9881860 original size:45 final size:45
Alignment explanation
Indices: 9881792--9881998 Score: 218
Period size: 45 Copynumber: 4.5 Consensus size: 45
9881782 GCTCTGCTCT
* * *
9881792 ACTT-AGGGAGATAAGACTTGCTATCTTCAGTCTACTCCACCGCA
1 ACTTCAGGGAGATAAGACTTGCTATCTTCAATCTGCTCCACTGCA
* *
9881836 ACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGTA
1 ACTTCAGGGAGATAAGACTTGCTATCTTCAATCTGCTCCACTGCA
* * * * *
9881881 ACTTCAGAGAGATGAGATCTATGATTTATATCTTCAATTTGTTCCACTGCA
1 ACTTCAGGGAGATAAGA-CT-TG----CTATCTTCAATCTGCTCCACTGCA
* * *
9881932 ACTTCAGGGAAATAAGATTTGCTATCTTTTAATCTGCTCCACTGCA
1 ACTTCAGGGAGATAAGACTTGCTATC-TTCAATCTGCTCCACTGCA
*
9881978 TCTTCAGGGAGATAAGACTTG
1 ACTTCAGGGAGATAAGACTTG
9881999 TAATTTCCAG
Statistics
Matches: 134, Mismatches: 21, Indels: 14
0.79 0.12 0.08
Matches are distributed among these distances:
44 4 0.03
45 56 0.42
46 36 0.27
47 2 0.01
49 2 0.01
50 1 0.01
51 33 0.25
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (45 bp):
ACTTCAGGGAGATAAGACTTGCTATCTTCAATCTGCTCCACTGCA
Found at i:9882261 original size:43 final size:43
Alignment explanation
Indices: 9882100--9882882 Score: 326
Period size: 43 Copynumber: 17.9 Consensus size: 43
9882090 ACCTTCGATA
* *
9882100 TGTTTCCCTACTGCTTA-GGGTGATAAGATCTGTAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGGT-TTAAGATCTGTAAATTCAGCC
* * ** *** *
9882143 TGTTACCCTACACCATCCTCTAGGGGTTTAAGGTCCATCGCCTTC-GATC
1 TGTTACCCT--A-C-TGCT-TAGGGGTTTAAGATCTGT-AAATTCAG-CC
* *
9882192 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTCAGCC
* * * ** ** ** *
9882235 TATTACCCTACTGCGTACGGGTTTAAGGCCCATCACCTTC-GATC
1 TGTTACCCTACTGCTTAGGGGTTTAAGATCTGT-AAATTCAG-CC
* *
9882279 TGTTTCCCTACTGCTTA-GGGTGATAAGATCTGTAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGGT-TTAAGATCTGTAAATTCAGCC
** ** *** *
9882322 TGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTC-GATC
1 TGTTACCCTACTGCTTAGGGGTTTAAGATCTGT-AAATTCAG-CC
* * *
9882366 TGTTTCCCTACTACTTA-GGGTGATAAGATCTGTAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGGT-TTAAGATCTGTAAATTCAGCC
* ** ** *** *
9882409 TGTTACCCTACTACTTAGGGGTTTAAGGCCCATCGCCTTC-GATC
1 TGTTACCCTACTGCTTAGGGGTTTAAGATCTGT-AAATTCAG-CC
* * * * *
9882453 TGTT-TCCTGATTGCTTAGGGGGTTAAAATTTGTAAATTCAGCC
1 TGTTACCCT-ACTGCTTAGGGGTTTAAGATCTGTAAATTCAGCC
** * ** *
9882496 TGTTACCCTACTGCTTAGGGGTTTGAAGCCCAT-CACCTTC-GATC
1 TGTTACCCTACTGCTTAGGGGTTT-AAGATC-TGTAAATTCAG-CC
* * *
9882540 TGTTTCCCTACTGCTTAGAGGG-TTAAAATTTGTAAATTCAGCC
1 TGTTACCCTACTGCTTAG-GGGTTTAAGATCTGTAAATTCAGCC
** * ** *
9882583 TGTTACCCTACTGCTTAGGGGTTTGAAGCCCAT-CACCTTC-GATC
1 TGTTACCCTACTGCTTAGGGGTTT-AAGATC-TGTAAATTCAG-CC
* *
9882627 TATTTCCCTACTGCTTAGGGG-TTAAGATCTGTAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTCAGCC
** ** *** *
9882669 TGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTC-GATC
1 TGTTACCCTACTGCTTAGGGGTTTAAGATCTGT-AAATTCAG-CC
* * * *
9882713 TATTTCCCTACTGCTTA-GGGTGGTGAGATCTGTAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGGT-TTAAGATCTGTAAATTCAGCC
* ** ** *** *
9882756 TGTTACCCTATTGCTTAGGGGTTTAAGGCCCATCGCCTTC-GATC
1 TGTTACCCTACTGCTTAGGGGTTTAAGATCTGT-AAATTCAG-CC
* * *
9882800 TGTTTCCCTACTGCTTA-GGGTGGTAAGATCTATAAATTCAGCC
1 TGTTACCCTACTGCTTAGGGGT-TTAAGATCTGTAAATTCAGCC
* *
9882843 TGTTACCCTACTACTTAGGGGTTTAAGGAT-TGTGAATTCA
1 TGTTACCCTACTGCTTAGGGGTTTAA-GATCTGTAAATTCA
9882883 CCGATTCTAG
Statistics
Matches: 517, Mismatches: 175, Indels: 96
0.66 0.22 0.12
Matches are distributed among these distances:
41 1 0.00
42 32 0.06
43 225 0.44
44 218 0.42
45 9 0.02
46 2 0.00
47 4 0.01
48 10 0.02
49 16 0.03
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (43 bp):
TGTTACCCTACTGCTTAGGGGTTTAAGATCTGTAAATTCAGCC
Found at i:9882291 original size:44 final size:43
Alignment explanation
Indices: 9882061--9882820 Score: 253
Period size: 44 Copynumber: 17.4 Consensus size: 43
9882051 CAGCCTATTA
* *
9882061 CCCTACTGCTTAGGGGTTTAAGGCCCACCACCTTCGATATGTTT
1 CCCTACTGCTTA-GGGTTTAAGGCCCATCACCTTCGATCTGTTT
* ** ** ** * *
9882105 CCCTACTGCTTAGGGTGATAAGATCTGT-AAATTC-AGCCTGTTA
1 CCCTACTGCTTAGGGT-TTAAGGCCCATCACCTTCGA-TCTGTTT
* * *
9882148 CCCTACACCATCCTCTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTT
1 CCCT--A-C-TGCT-TA-GGGTTTAAGGCCCATCACCTTCGATCTGTTT
* ** ** ** * * *
9882197 CCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTC-AGCCTATTA
1 CCCTACTGCTTA-GGGTTTAAGGCCCATCACCTTCGA-TCTGTTT
*
9882240 CCCTACTGCGTACGGGTTTAAGGCCCATCACCTTCGATCTGTTT
1 CCCTACTGCTTA-GGGTTTAAGGCCCATCACCTTCGATCTGTTT
* ** ** ** * *
9882284 CCCTACTGCTTAGGGTGATAAGATCTGT-AAATTC-AGCCTGTTA
1 CCCTACTGCTTAGGGT-TTAAGGCCCATCACCTTCGA-TCTGTTT
*
9882327 CCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTT
1 CCCTACTGCTTA-GGGTTTAAGGCCCATCACCTTCGATCTGTTT
* * ** ** ** * *
9882371 CCCTACTACTTAGGGTGATAAGATCTGT-AAATTC-AGCCTGTTA
1 CCCTACTGCTTAGGGT-TTAAGGCCCATCACCTTCGA-TCTGTTT
* *
9882414 CCCTACTACTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTT
1 CCCTACTGCTTA-GGGTTTAAGGCCCATCACCTTCGATCTGTTT
* * ****** ** * *
9882458 -CCTGATTGCTTAGGGGGTTAAAATTTGT-AAATTC-AGCCTGTTA
1 CCCT-ACTGCTTA-GGGTTTAAGGCCCATCACCTTCGA-TCTGTTT
9882501 CCCTACTGCTTAGGGGTTTGAA-GCCCATCACCTTCGATCTGTTT
1 CCCTACTGCTTA-GGGTTT-AAGGCCCATCACCTTCGATCTGTTT
* ****** ** * *
9882545 CCCTACTGCTTAGAGGGTTAAAATTTGT-AAATTC-AGCCTGTTA
1 CCCTACTGCTTAG-GGTTTAAGGCCCATCACCTTCGA-TCTGTTT
*
9882588 CCCTACTGCTTAGGGGTTTGAA-GCCCATCACCTTCGATCTATTT
1 CCCTACTGCTTA-GGGTTT-AAGGCCCATCACCTTCGATCTGTTT
* ** ** ** * *
9882632 CCCTACTGCTTAGGGGTTAAGATCTGT-AAATTC-AGCCTGTTA
1 CCCTACTGCTTAGGGTTTAAGGCCCATCACCTTCGA-TCTGTTT
* *
9882674 CCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTATTT
1 CCCTACTGCTTA-GGGTTTAAGGCCCATCACCTTCGATCTGTTT
* * ** ** ** * *
9882718 CCCTACTGCTTAGGGTGGTGAGATCTGT-AAATTC-AGCCTGTTA
1 CCCTACTGCTTAGGGT-TTAAGGCCCATCACCTTCGA-TCTGTTT
* *
9882761 CCCTATTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTT
1 CCCTACTGCTTA-GGGTTTAAGGCCCATCACCTTCGATCTGTTT
9882805 CCCTACTGCTTAGGGT
1 CCCTACTGCTTAGGGT
9882821 GGTAAGATCT
Statistics
Matches: 493, Mismatches: 177, Indels: 93
0.65 0.23 0.12
Matches are distributed among these distances:
41 1 0.00
42 29 0.06
43 207 0.42
44 213 0.43
45 11 0.02
46 2 0.00
47 4 0.01
48 9 0.02
49 16 0.03
50 1 0.00
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (43 bp):
CCCTACTGCTTAGGGTTTAAGGCCCATCACCTTCGATCTGTTT
Found at i:9882306 original size:87 final size:87
Alignment explanation
Indices: 9882019--9882870 Score: 1237
Period size: 87 Copynumber: 9.7 Consensus size: 87
9882009 CCTTTTGCCT
* * * * *
9882019 TACTGCTTAGGGAGACAAAATCTGTGAATTTCCAGCCTATTACCCTACTGCTTAGGGGTTTAAGG
1 TACTGCTTAGGGTGATAAGATCTGT-AAATT-CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG
* * *
9882084 CCCACCACCTTCGATATGTTTCCC
64 CCCATCGCCTTCGATCTGTTTCCC
*
9882108 TACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACACCATCCTCTAGGGGTTTA
1 TACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCT--A-C-TGCT-TAGGGGTTTA
*
9882173 AGGTCCATCGCCTTCGATCTGTTTCCC
61 AGGCCCATCGCCTTCGATCTGTTTCCC
* * * * *
9882200 TACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTATTACCCTACTGCGTACGGGTTTAAGGCC
1 TACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCC
*
9882265 CATCACCTTCGATCTGTTTCCC
66 CATCGCCTTCGATCTGTTTCCC
9882287 TACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCC
1 TACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCC
9882352 CATCGCCTTCGATCTGTTTCCC
66 CATCGCCTTCGATCTGTTTCCC
* *
9882374 TACTACTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGGCC
1 TACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCC
9882439 CATCGCCTTCGATCTGTTT-CC
66 CATCGCCTTCGATCTGTTTCCC
* * * * *
9882460 TGATTGCTTAGGGGGTTAAAATTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTGAA-G
1 T-ACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTT-AAGG
*
9882524 CCCATCACCTTCGATCTGTTTCCC
64 CCCATCGCCTTCGATCTGTTTCCC
* * *
9882548 TACTGCTTAGAGG-GTTAAAATTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTGAA-G
1 TACTGCTTAG-GGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTT-AAGG
* *
9882611 CCCATCACCTTCGATCTATTTCCC
64 CCCATCGCCTTCGATCTGTTTCCC
*
9882635 TACTGCTTAGGG-GTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCC
1 TACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCC
*
9882699 CATCGCCTTCGATCTATTTCCC
66 CATCGCCTTCGATCTGTTTCCC
* * *
9882721 TACTGCTTAGGGTGGTGAGATCTGTAAATTCAGCCTGTTACCCTATTGCTTAGGGGTTTAAGGCC
1 TACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCC
9882786 CATCGCCTTCGATCTGTTTCCC
66 CATCGCCTTCGATCTGTTTCCC
* * *
9882808 TACTGCTTAGGGTGGTAAGATCTATAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGG
1 TACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGG
9882871 ATTGTGAATT
Statistics
Matches: 705, Mismatches: 47, Indels: 24
0.91 0.06 0.03
Matches are distributed among these distances:
85 2 0.00
86 85 0.12
87 502 0.71
88 13 0.02
89 24 0.03
90 2 0.00
91 3 0.00
92 74 0.10
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (87 bp):
TACTGCTTAGGGTGATAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCC
CATCGCCTTCGATCTGTTTCCC
Found at i:9887124 original size:44 final size:44
Alignment explanation
Indices: 9886952--9887132 Score: 136
Period size: 44 Copynumber: 4.1 Consensus size: 44
9886942 TTTCCAAATT
* * *
9886952 CAGATTTGGCATCCTTGTGTTTATAGGGAGCAGATCGAAGATAG
1 CAGATTTGGCATCCCTGTGTTTATAGGGAACGGATCGAAGATAG
* * * * * * ** **
9886996 CAGATCTGACATTCCTGTGCTTACAGCGAAGCAGG-TTAAAGATTT
1 CAGATTTGGCATCCCTGTGTTTATAGGGAA-C-GGATCGAAGATAG
* ** *
9887041 CAGCA--TGGCAGCCCTGTGTTTATAGGGAA-TAAGTTGAAGATAG
1 CAG-ATTTGGCATCCCTGTGTTTATAGGGAACGGA-TCGAAGATAG
*
9887084 CAGATTTGGCATCCCTGTGTTTATAGGGAACGGATCGAAGATAA
1 CAGATTTGGCATCCCTGTGTTTATAGGGAACGGATCGAAGATAG
9887128 CAGAT
1 CAGAT
9887133 CTGACACTCT
Statistics
Matches: 100, Mismatches: 29, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
42 1 0.01
43 10 0.10
44 76 0.76
45 11 0.11
46 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (44 bp):
CAGATTTGGCATCCCTGTGTTTATAGGGAACGGATCGAAGATAG
Found at i:9887189 original size:132 final size:132
Alignment explanation
Indices: 9886952--9887264 Score: 430
Period size: 132 Copynumber: 2.4 Consensus size: 132
9886942 TTTCCAAATT
* * * *
9886952 CAGATTTGGCATCCTTGTGTTTATAGGGAGCAGATCGAAGATAGCAGATCTGACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCT
* * * * *
9887017 TACAGCGAAGCAGGTTAAAGATTTCAGCATGGCAGCCCTGTGTTTATAGGGAATAAGTTGAAGAT
66 TACAACAAAGCAGATCAAAGATTTCAGCATGGCAGCCCTGTGTTTATAGGGAACAAGTTGAAGAT
9887082 AG
131 AG
* *
9887084 CAGATTTGGCATCCCTGTGTTTATAGGGAACGGATCGAAGATAACAGATCTGACACTCTTGTGCT
1 CAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCT
* *
9887149 TACAACAAAGCAGATCAAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAACAAAGCAGATCAAAGATTTCAGCATGGCAGCCCTGTGTTTATAGGGAACAAGTTGAAGAT
9887214 AG
131 AG
* * * * * * *
9887216 CAGATTTGGTATCTCTGTATTGT-CAGAGAGCAGATCGAAGATACCAGAT
1 CAGATTTGGCATCCCTGTGTT-TATAGGGAACAGATCGAAGATAACAGAT
9887265 TTGGCATCTC
Statistics
Matches: 159, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
132 158 0.99
133 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (132 bp):
CAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCT
TACAACAAAGCAGATCAAAGATTTCAGCATGGCAGCCCTGTGTTTATAGGGAACAAGTTGAAGAT
AG
Found at i:9887274 original size:44 final size:44
Alignment explanation
Indices: 9887208--9887300 Score: 150
Period size: 44 Copynumber: 2.1 Consensus size: 44
9887198 GGAACAAGTT
* * *
9887208 GAAGATAGCAGATTTGGTATCTCTGTATTGTCAGAGAGCAGATC
1 GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
*
9887252 GAAGATACCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATC
1 GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
9887296 GAAGA
1 GAAGA
9887301 CATAGCTGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (44 bp):
GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
Found at i:9890726 original size:19 final size:20
Alignment explanation
Indices: 9890702--9890756 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
9890692 GGTAAGGCTT
*
9890702 TTTTTTGCTATT-TTTTTAC
1 TTTTTTGCTATTATTTTAAC
**
9890721 TTTTTTATTATTATTTTAAC
1 TTTTTTGCTATTATTTTAAC
* *
9890741 TATTTTGCTACTATTT
1 TTTTTTGCTATTATTT
9890757 CACTATTATG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTTTGCTATTATTTTAAC
Found at i:9892676 original size:22 final size:23
Alignment explanation
Indices: 9892632--9892681 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
9892622 AAAGAGAATT
*
9892632 TAATATTTAAGCTTTAAAATTAA
1 TAATATTTAAGATTTAAAATTAA
* * *
9892655 -AATATTTAATATTTTAATTTAA
1 TAATATTTAAGATTTAAAATTAA
9892677 TAATA
1 TAATA
9892682 ATATTTCACA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TAATATTTAAGATTTAAAATTAA
Found at i:9893267 original size:23 final size:23
Alignment explanation
Indices: 9893237--9893280 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
9893227 TTCTTCAATA
9893237 TATGGGTTTATACTCATCCATGT
1 TATGGGTTTATACTCATCCATGT
9893260 TATGGGTTTATACTCATCCAT
1 TATGGGTTTATACTCATCCAT
9893281 ATTTGTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (23 bp):
TATGGGTTTATACTCATCCATGT
Found at i:9895542 original size:3 final size:3
Alignment explanation
Indices: 9895529--9895614 Score: 56
Period size: 3 Copynumber: 28.3 Consensus size: 3
9895519 GAGGACATAT
*
9895529 ATA AT- ATA ATA ATA AT- ATAA ATA ACA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
9895573 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9895615 AACAAAGCTC
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
2 9 0.14
3 46 0.70
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:9895970 original size:21 final size:22
Alignment explanation
Indices: 9895946--9895996 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
9895936 TTCTTTCCAA
9895946 AAAAACAAAAAAAAC-ACCTCC
1 AAAAACAAAAAAAACTACCTCC
*
9895967 AAAAA-ACAAAAAAACTTCCTCC
1 AAAAACA-AAAAAAACTACCTCC
9895989 -AAAACAAA
1 AAAAACAAA
9895997 GAACAATCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 1 0.04
21 19 0.73
22 6 0.23
ACGTcount: A:0.67, C:0.25, G:0.00, T:0.08
Consensus pattern (22 bp):
AAAAACAAAAAAAACTACCTCC
Found at i:9895987 original size:22 final size:22
Alignment explanation
Indices: 9895916--9895992 Score: 75
Period size: 22 Copynumber: 3.3 Consensus size: 22
9895906 AACTAGCCTT
* *
9895916 TCCAAGAAACAAAAATAACCTTCTT
1 TCCAAAAAACAAAAA-AA-CTTC-C
*
9895941 TCCAAAAAAACAAAAAAAAC-ACC
1 TCC-AAAAAAC-AAAAAAACTTCC
9895964 TCCAAAAAACAAAAAAACTTCC
1 TCCAAAAAACAAAAAAACTTCC
9895986 TCCAAAA
1 TCCAAAA
9895993 CAAAGAACAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
21 8 0.18
22 16 0.36
23 3 0.07
24 1 0.02
25 4 0.09
26 8 0.18
27 5 0.11
ACGTcount: A:0.58, C:0.26, G:0.01, T:0.14
Consensus pattern (22 bp):
TCCAAAAAACAAAAAAACTTCC
Found at i:9896538 original size:44 final size:44
Alignment explanation
Indices: 9896489--9896854 Score: 269
Period size: 44 Copynumber: 8.3 Consensus size: 44
9896479 TGCTTCACTG
* * *
9896489 TAAGCACAGGAATGTCAGATTTGCTGTTTTCAACTTGTTCCCTA
1 TAAGCACAGGGATGTCAAATCTGCTGTTTTCAACTTGTTCCCTA
*** * * ** * *
9896533 TAAGCACAGGGATGTC--ATGCTGAAATCTTCGATCTACTTCACTG
1 TAAGCACAGGGATGTCAAAT-CTGCTGTTTTC-AACTTGTTCCCTA
* * * * * *
9896577 TAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCCGTTCCCTA
1 TAAGCACAGGGATGTCAAATCTGCTGTTTTCAACT-TGTTCCCTA
* *
9896621 TAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCCTA
1 TAAGCACAGGGATGTCAAATCTGCTGTTTTCAACTTGTTCCCTA
* *
9896665 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTA
1 TAAGCACAGGGATGTCAAATCTGCTGTTTTCAACTTGTTCCCTA
* *** * * * *
9896709 TAAGCACAGGGATG-C-CATGCTGAAATCTTTGATC-TGCTTCACTG
1 TAAGCACAGGGATGTCAAAT-CTGCTGT-TTTCAACTTG-TTCCCTA
* * * * * *
9896753 TAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCCGTTCCCTA
1 TAAGCACAGGGATGTCAAATCTGCTGTTTTCAACT-TGTTCCCTA
** *
9896797 TAAGCACAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTA
1 TAAGCACAGGGATGTCAAATCTGCTGTTTTCAACTTGTTCCCTA
9896841 TAAGCACAGGGATG
1 TAAGCACAGGGATG
9896855 CCATGCTGAA
Statistics
Matches: 251, Mismatches: 57, Indels: 28
0.75 0.17 0.08
Matches are distributed among these distances:
42 4 0.02
43 15 0.06
44 210 0.84
45 18 0.07
46 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
TAAGCACAGGGATGTCAAATCTGCTGTTTTCAACTTGTTCCCTA
Found at i:9896618 original size:88 final size:88
Alignment explanation
Indices: 9896469--9896809 Score: 386
Period size: 88 Copynumber: 3.9 Consensus size: 88
9896459 GATATCCGCT
* * * * *
9896469 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTGTTTTCAACTTGTTCCCTAT
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTCGTTCCCTAT
*
9896534 AAGCACAGGGATGTCATGCTGAA
66 AAGCACAGGGATGCCATGCTGAA
* *
9896557 ATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCCGTTCCCTA
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACT-CGTTCCCTA
**
9896621 TAAGCACAGGGATGCCAAAT-CTGTT
65 TAAGCACAGGGATGCC--ATGCTGAA
* * * * * * * * * * * *
9896646 GTTTTC-AACTTG-TTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTA
1 ATCTTCGATC-TGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTCGTTCCCTA
9896709 TAAGCACAGGGATGCCATGCTGAA
65 TAAGCACAGGGATGCCATGCTGAA
* *
9896733 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCCGTTCCCTA
1 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACT-CGTTCCCTA
9896797 TAAGCACAGGGAT
65 TAAGCACAGGGAT
9896810 ACCAAATCTG
Statistics
Matches: 204, Mismatches: 40, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
86 2 0.01
87 10 0.05
88 181 0.89
89 9 0.04
90 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (88 bp):
ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCAACTCGTTCCCTAT
AAGCACAGGGATGCCATGCTGAA
Found at i:9896757 original size:132 final size:132
Alignment explanation
Indices: 9896469--9896909 Score: 541
Period size: 132 Copynumber: 3.3 Consensus size: 132
9896459 GATATCCGCT
* *
9896469 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTGTTTTCAACTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTGTTTTCAACTTGTTCCCTAT
* ** * * ** * * * *
9896534 AAGCACAGGGATGTC--ATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCA-GA
66 AAGCACAGGGATGCCAAAT-CTGATGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCCATG-
**
9896596 TCTGCT
128 -CTGAA
* * * * * * *
9896602 ATCTTCGATCCG-TTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTGTTTTCAACTTGTTCCCTAT
9896666 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
9896731 AA
131 AA
* * * * *
9896733 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TCCGTTCCCTA
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTGTTTTCAACT-TGTTCCCTA
*
9896797 TAAGCACAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
65 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
9896862 GAA
130 GAA
*
9896865 ATCTTGGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCT
9896910 ATCTTCGGTC
Statistics
Matches: 266, Mismatches: 37, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
131 14 0.05
132 231 0.87
133 19 0.07
134 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (132 bp):
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTGCTGTTTTCAACTTGTTCCCTAT
AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
AA
Found at i:9896783 original size:176 final size:176
Alignment explanation
Indices: 9896489--9896857 Score: 648
Period size: 176 Copynumber: 2.1 Consensus size: 176
9896479 TGCTTCACTG
* * * * * *
9896489 TAAGCACAGGAATGTCAGATTTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGTCATGCT
1 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
9896554 GAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCC
66 GAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCC
* *
9896619 TATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCCTA
131 TATAAGCACAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTA
9896665 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
1 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
* *
9896730 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCC
66 GAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCC
9896795 TATAAGCACAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTA
131 TATAAGCACAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTA
9896841 TAAGCACAGGGATGCCA
1 TAAGCACAGGGATGCCA
9896858 TGCTGAAATC
Statistics
Matches: 183, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
176 183 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (176 bp):
TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
GAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCC
TATAAGCACAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTA
Found at i:9896845 original size:88 final size:88
Alignment explanation
Indices: 9896489--9896850 Score: 342
Period size: 88 Copynumber: 4.1 Consensus size: 88
9896479 TGCTTCACTG
* * * * * *
9896489 TAAGCACAGGAATGTCAGATTTGCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGTC--AT
1 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATC-CGTTCCCTATAAGCACAGGGATGCCAAAT
** * * ** * *
9896551 GCTGAAATCTTCGATCTACTTCACTG
65 -CTGATGTTTTC-AACTTGTTCCCTA
9896577 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATC
1 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATC
*
9896642 TGTTGTTTTCAACTTGTTCCCTA
66 TGATGTTTTCAACTTGTTCCCTA
* * * * * * * *
9896665 TAAGCACAGGGATGCCAAATCTGATGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--AT
1 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATC-CGTTCCCTATAAGCACAGGGATGCCAAAT
** * * * *
9896727 GCTGAAATCTTTGATC-TGCTTCACTG
65 -CTGATGT-TTTCAACTTG-TTCCCTA
*
9896753 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTATAAGCACAGGGATACCAAATC
1 TAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATC
9896818 TGATGTTTTCAACTTGTTCCCTA
66 TGATGTTTTCAACTTGTTCCCTA
9896841 TAAGCACAGG
1 TAAGCACAGG
9896851 GATGCCATGC
Statistics
Matches: 218, Mismatches: 45, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
86 2 0.01
87 8 0.04
88 186 0.85
89 18 0.08
90 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (88 bp):
TAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATC
TGATGTTTTCAACTTGTTCCCTA
Found at i:9896889 original size:44 final size:43
Alignment explanation
Indices: 9896524--9896894 Score: 191
Period size: 44 Copynumber: 8.4 Consensus size: 43
9896514 GTTTTCAACT
* * *
9896524 TGTTCCCTATAAGCACAGGGATGTCATGCTGAAATCTTCGATC
1 TGTTCACTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC
* * * * ** *
9896567 TACTTCACTGTAAGCACAGGAATGTCA-GATCTGCTATCTTCGATC
1 T-GTTCACTATAAGCACAGGGATGCCATG--CTGAAATCTTTGATC
* * *** * *
9896612 CGTTCCCTATAAGCACAGGGATGCCAAAT-CTGTTGT-TTTCAAC
1 TGTTCACTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC
* ** * *
9896655 TTGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATGT-TTTCAAC
1 -TGTTCACTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC
*
9896699 TTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC
1 -TGTTCACTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC
* * * ** *
9896743 TGCTTCACTGTAAGCACAGGAATGTCA-GATCTGCTATCTTCGATC
1 TG-TTCACTATAAGCACAGGGATGCCATG--CTGAAATCTTTGATC
* * * ** * *
9896788 CGTTCCCTATAAGCACAGGGATACCAAAT-CTGATGT-TTTCAAC
1 TGTTCACTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC
* *
9896831 TTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTGGATC
1 -TGTTCACTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC
*
9896875 TGCTTCACTGTAAGCACAGG
1 TG-TTCACTATAAGCACAGG
9896895 AATGTCAAAT
Statistics
Matches: 259, Mismatches: 50, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
42 4 0.02
43 25 0.10
44 202 0.78
45 26 0.10
46 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (43 bp):
TGTTCACTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC
Found at i:9896889 original size:88 final size:87
Alignment explanation
Indices: 9896601--9896907 Score: 293
Period size: 88 Copynumber: 3.5 Consensus size: 87
9896591 TCAGATCTGC
* *
9896601 TATCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCCTAT
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTAT
9896666 AAGCACAGGGATGCCAAAT-CTGA
66 AAGCACAGGGATGCC--ATGCTGA
* * * ** * * *
9896689 TGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-TGCTTCA
1 TATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGATGT-TTTCAACTTG-TTCC
* * * *
9896750 CTGTAAGCACAGGAATGTCA-GATCTGC
62 CTATAAGCACAGGGATGCCATG--CTGA
* *
9896777 TATCTTCGATCCGTTCCCTATAAGCACAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTAT
1 TATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTAT
9896842 AAGCACAGGGATGCCATGCTGA
66 AAGCACAGGGATGCCATGCTGA
* * * * * *
9896864 AATCTTGGATCTGCTTCACTGTAAGCACAGGAATGTCAAATCTG
1 TATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTG
9896908 CTATCTTCGG
Statistics
Matches: 170, Mismatches: 36, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
86 3 0.02
87 21 0.12
88 134 0.79
89 10 0.06
90 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (87 bp):
TATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTAT
AAGCACAGGGATGCCATGCTGA
Found at i:9897053 original size:68 final size:68
Alignment explanation
Indices: 9896969--9897167 Score: 303
Period size: 68 Copynumber: 2.9 Consensus size: 68
9896959 TCTTCTTCCA
* * * *
9896969 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCTCTCCAATGCCATTTCTGGAAGAAGAGGT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
*
9897034 -TT
66 CCT
* *
9897036 GCTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGA
1 -CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
9897101 TCCT
65 TCCT
*
9897105 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGGA-AAAAGA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
9897168 AATTTATAAT
Statistics
Matches: 120, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
67 6 0.05
68 113 0.94
69 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
CCT
Found at i:9897344 original size:88 final size:88
Alignment explanation
Indices: 9897239--9897869 Score: 388
Period size: 88 Copynumber: 7.2 Consensus size: 88
9897229 CTATTTCCCA
* *
9897239 ACTGCTTAAGGGG-TTAAGATTTGTAAATTCAACCTGTTACCCTATTAG-TTAGGGGGTTAAGAT
1 ACTGCTT-AGGGGTTTAAGATTTGTAAATTCAGCCTGTTACCCTACT-GCTTAGGGGGTTAAGAT
*
9897302 TTGTAAATCTTCAGCCTGTTACCCT
64 CTGTAAATCTTCAGCCTGTTACCCT
* * * * ** *
9897327 ACTGCTTAGGCGTTTAAGGTTTGAAAATTCGGTTTGTTACCCTACTGCTTAGGGGGTTAA-AGCC
1 ACTGCTTAGGGGTTTAAGATTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGA-TC
** * * * * * *
9897391 CATCATTTTTTA-TCTGTTTCCCT
65 TGTAAATCTTCAGCCTGTTACCCT
* * * *
9897414 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGT
1 ACTGCTTAGGGGTTTAAGATTTGTAAA--TTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGAT
* * *
9897479 TTGTAAA--TTCGGCTTGTTACCCT
64 CTGTAAATCTTCAGCCTGTTACCCT
* * * * *
9897502 ACTGCTTAGGGGGTTAAAGCCCATCATT-T--TTTTA-TCTGTTTCCCTACTGCTTAGGGGGTTA
1 ACTGCTTA-GGGGTTTAAG---AT--TTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTA
*
9897563 AGATCTGTAAATCTTCAGCTTGTTACCCT
60 AGATCTGTAAATCTTCAGCCTGTTACCCT
** * * *
9897592 ACTGCTTAGGGGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAA-AGC-
1 ACTGCTTAGGGGTTTAAGATTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCT
* * * *
9897655 CTATCATCTTC-GATCTGTTTCCCT
66 GTA-AATCTTCAG-CCTGTTACCCT
* * * ** * * * *
9897679 ACTGCTTAGGGGGTTAAGACCTT-CATCTTC-GATCTGTTTCCCTACTGCTTAGGGAGATAAGAT
1 ACTGCTTAGGGGTTTAAGA-TTTGTAAATTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGAT
* **
9897742 CTG-CAA--TT-AATCTGTTACCCT
64 CTGTAAATCTTCAGCCTGTTACCCT
* * * * * * * *
9897763 ACCGATTAGGGGTTTGAGACCCTTCGT--CTTC-GATCTGTTTCCCTGCTGCTTAGGGGGTTAAG
1 ACTGCTTAGGGGTTTAAGA---TTTGTAAATTCAG-CCTGTTACCCTACTGCTTAGGGGGTTAAG
9897825 ATCTGTAAATCTTCAGCCTGTTACCCT
62 ATCTGTAAATCTTCAGCCTGTTACCCT
*
9897852 ACTGCTTAGGGGCTTAAG
1 ACTGCTTAGGGGTTTAAG
9897870 GCTTGTGAAT
Statistics
Matches: 412, Mismatches: 98, Indels: 65
0.72 0.17 0.11
Matches are distributed among these distances:
84 27 0.07
85 40 0.10
86 8 0.02
87 102 0.25
88 132 0.32
89 76 0.18
90 23 0.06
92 2 0.00
93 1 0.00
94 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (88 bp):
ACTGCTTAGGGGTTTAAGATTTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCT
GTAAATCTTCAGCCTGTTACCCT
Found at i:9897499 original size:175 final size:174
Alignment explanation
Indices: 9897186--9897511 Score: 458
Period size: 175 Copynumber: 1.9 Consensus size: 174
9897176 ATTTCCAGCC
* *
9897186 TGTTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGG
1 TGTTACCCTACTACTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGG
* *
9897251 GTTAAGATTTGTAAATTCAACCTGTTACCCTATTAGTTAGGGGGTTAAGATTTGTAAATCTTCAG
66 GTTAAGATCTGTAAATTCAACCTGTTACCCTACTAGTTAGGGGGTTAAGATTTGTAAA-CTTCAG
9897316 CCTGTTACCCTACTGCTTAGGCGTTTAAGGTTTGAAAATTCGGTT
130 CCTGTTACCCTACTGCTTAGGCGTTTAAGGTTTGAAAATTCGGTT
* * ** * * *
9897361 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTTATCTGTTTCCCTACTGCTTAGGGG
1 TGTTACCCTACTACTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGG
* * *
9897426 GTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACT-GCTTAGGGGTTTAAGGTTTGTAAA-TTC
66 GTTAAGATCTGTAAA--TTCAACCTGTTACCCTACTAG-TTAGGGGGTTAAGATTTGTAAACTTC
* *
9897489 GGCTTGTTACCCTACTGCTTAGG
128 AGCCTGTTACCCTACTGCTTAGG
9897512 GGGTTAAAGC
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
175 94 0.71
176 1 0.01
177 37 0.28
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (174 bp):
TGTTACCCTACTACTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCAACTGCTTAAGGG
GTTAAGATCTGTAAATTCAACCTGTTACCCTACTAGTTAGGGGGTTAAGATTTGTAAACTTCAGC
CTGTTACCCTACTGCTTAGGCGTTTAAGGTTTGAAAATTCGGTT
Found at i:9897600 original size:133 final size:132
Alignment explanation
Indices: 9897287--9897881 Score: 799
Period size: 132 Copynumber: 4.5 Consensus size: 132
9897277 ACCCTATTAG
* * *
9897287 TTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGCGTTTAAGGTTTGAA
1 TTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGTA
* * **
9897352 AATTCGGTTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTTATCTGTTTCCCTACT
66 AATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACT
9897417 GC
131 GC
9897419 TTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGTA
1 TTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGTA
* **
9897484 AATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTTTATCTGTTTCCCTAC
66 AATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCA-TCTTCGATCTGTTTCCCTAC
9897549 TGC
130 TGC
* *
9897552 TTAGGGGGTTAAGATCTGTAAATCTTCAGCTTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTA
1 TTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGTA
*
9897617 AATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCTATCATCTTCGATCTGTTTCCCTACT
66 AATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACT
9897682 GC
131 GC
* * * * * * *
9897684 TTAGGGGGTTAAGACCT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAGGGAG-ATAAGATCTG
1 TTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAGGG-GTTTAAGGTTTG
* *** * * ** * *
9897745 -CAATTAATC-TGTTACCCTACCGATTA-GGGGTTTGAGACCCTTCGTCTTCGATCTGTTTCCCT
64 TAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAG-CCCATCATCTTCGATCTGTTTCCCT
*
9897807 GCTGC
128 ACTGC
* * *
9897812 TTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGCTTAAGGCTTGTG
1 TTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGTA
9897877 AATTC
66 AATTC
9897882 ACTGATTTTA
Statistics
Matches: 413, Mismatches: 41, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
127 8 0.02
128 57 0.14
129 8 0.02
130 63 0.15
131 7 0.02
132 141 0.34
133 129 0.31
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (132 bp):
TTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGTTTGTA
AATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACT
GC
Found at i:9897812 original size:85 final size:84
Alignment explanation
Indices: 9897667--9897829 Score: 236
Period size: 85 Copynumber: 1.9 Consensus size: 84
9897657 ATCATCTTCG
* * *
9897667 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
1 ATCTGTTACCCTACCGATTAGGGGGTTAAGACCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
9897732 GAGATAAGATCTGCAATTA
66 GAGATAAGATCTGCAATTA
* * * *
9897751 ATCTGTTACCCTACCGATTAGGGGTTTGAGACCCTTCGTCTTCGATCTGTTTCCCTGCTGCTTAG
1 ATCTGTTACCCTACCGATTAGGGGGTTAAGA-CCTTCATCTTCGATCTGTTTCCCTACTGCTTAG
* *
9897816 GGGGTTAAGATCTG
65 GGAGATAAGATCTG
9897830 TAAATCTTCA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
84 26 0.38
85 43 0.62
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (84 bp):
ATCTGTTACCCTACCGATTAGGGGGTTAAGACCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
GAGATAAGATCTGCAATTA
Found at i:9897816 original size:44 final size:43
Alignment explanation
Indices: 9897361--9897869 Score: 309
Period size: 45 Copynumber: 11.6 Consensus size: 43
9897351 AAATTCGGTT
* * * * **
9897361 TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTTATC
1 TGTTTCCCTACTGCTTAGGGGGTT-AAGACCTTCATCTTCGATC
* * *
9897405 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGACCT-T-CATCTTCGA-TC
* * ** * ** *
9897450 TGTTACCCTACTGCTTAGGGGTTTAAG-GTTTGTAAATTCG-GC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGACCTT-CATCTTCGATC
* * * * **
9897492 TTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTTTATC
1 -TGTTTCCCTACTGCTTAGGGGGTT-AAGACCTTCA-TCTTCGATC
* * *
9897538 TGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGACCT-T-CATCTTCGATC
* * * * ** *
9897582 TTGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGTAAATTCG-GC
1 -TGTTTCCCTACTGCTTAGGGGGTTAAGACCTT-CATCTTCGATC
*
9897625 TTGTTACCCTACTGCTTAGGGGGTTAA-AGCCTATCATCTTCGATC
1 -TGTTTCCCTACTGCTTAGGGGGTTAAGA-CCT-TCATCTTCGATC
9897670 TGTTTCCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGATC
* * * * * *
9897713 TGTTTCCCTACTGCTTAGGGAGATAAGATCTGCA-ATT-AATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGATC
* * * * * *
9897754 TGTTACCCTACCGATTAGGGGTTTGAGACCCTTCGTCTTCGATC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGA-CCTTCATCTTCGATC
* * * *
9897798 TGTTTCCCTGCTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCC
1 TGTTTCCCTACTGCTTAGGGGGTTAAGACCT-T-CATCTTCGA-TC
* *
9897843 TGTTACCCTACTGCTTAGGGGCTTAAG
1 TGTTTCCCTACTGCTTAGGGGGTTAAG
9897870 GCTTGTGAAT
Statistics
Matches: 361, Mismatches: 80, Indels: 47
0.74 0.16 0.10
Matches are distributed among these distances:
41 24 0.07
42 6 0.02
43 111 0.31
44 100 0.28
45 118 0.33
46 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (43 bp):
TGTTTCCCTACTGCTTAGGGGGTTAAGACCTTCATCTTCGATC
Found at i:9898039 original size:66 final size:66
Alignment explanation
Indices: 9897933--9898059 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
9897923 TCTATGCTTA
*
9897933 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
9897998 G
66 G
*
9897999 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
9898060 TATATGAATG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:9899159 original size:14 final size:14
Alignment explanation
Indices: 9899140--9899174 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
9899130 TGCTAAGGTA
*
9899140 TTTTCAATTTCTGC
1 TTTTCAATTTCTAC
9899154 TTTTCAATTTCTAC
1 TTTTCAATTTCTAC
9899168 TTTTCAA
1 TTTTCAA
9899175 AAGAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:9899282 original size:73 final size:72
Alignment explanation
Indices: 9899154--9899394 Score: 288
Period size: 73 Copynumber: 3.3 Consensus size: 72
9899144 CAATTTCTGC
9899154 TTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCT-CTTTTCAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACA
9899218 CGCTGAGGTA
63 CGCTGAGGTA
* * * * *
9899228 ATTTCAATTTCTGTTGTCAAAAAATCAACTCGTGTTGCGAGAGGTGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACG
*
9899293 TTGAGGTA
65 CTGAGGTA
* * * *
9899301 TTTTCAATTTCTATCTTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA-AGA
1 TTTTCAATTTC--TCTTTT-CAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACA
*
9899365 CGCTGAGGTG
63 CGCTGAGGTA
* *
9899375 TTTTCCATTTCTGTTTTCAA
1 TTTTCAATTTCTCTTTTCAA
9899395 TTTTTGTTTT
Statistics
Matches: 142, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
71 2 0.01
72 23 0.16
73 45 0.32
74 32 0.23
75 5 0.04
76 35 0.25
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (72 bp):
TTTTCAATTTCTCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGC
TGAGGTA
Found at i:9899391 original size:13 final size:13
Alignment explanation
Indices: 9899373--9899407 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
9899363 GACGCTGAGG
*
9899373 TGTTTTCCATTTC
1 TGTTTTCAATTTC
*
9899386 TGTTTTCAATTTT
1 TGTTTTCAATTTC
9899399 TGTTTTCAA
1 TGTTTTCAA
9899408 AAAAATCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.63
Consensus pattern (13 bp):
TGTTTTCAATTTC
Found at i:9899413 original size:161 final size:156
Alignment explanation
Indices: 9899229--9899517 Score: 436
Period size: 161 Copynumber: 1.8 Consensus size: 156
9899219 GCTGAGGTAA
* *
9899229 TTTCAATTTCTGTTGTCAAAAAATCAACTCGTGTTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1 TTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
* * *
9899294 TGAGGTATTTTCAATTTCTAT-CTTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAAC
66 TGA-GTAATTTCAA-TT-TATGC--TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAAC
9899358 CTCAAGACGCTGAGGTGTTTTCCATTTCTGT
126 CTCAAGACGCTGAGGTGTTTTCCATTTCTGT
* *
9899389 TTTCAATTTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
1 TTTCAATTTCTGTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
* *
9899454 TTGAGTAATTTCAATTTATGCTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
65 TTGAGTAATTTCAATTTATGCTTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTC
9899518 GGGGCACGCC
Statistics
Matches: 118, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
157 39 0.33
158 3 0.03
159 3 0.03
160 24 0.20
161 49 0.42
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (156 bp):
TTTCAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
TGAGTAATTTCAATTTATGCTTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAACCTCAA
GACGCTGAGGTGTTTTCCATTTCTGT
Found at i:9899479 original size:85 final size:85
Alignment explanation
Indices: 9899316--9899479 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 85
9899306 AATTTCTATC
* ** *
9899316 TTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCC
1 TTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTAATTTCA
* *
9899381 ATTTCTGTTTTCAATTTTTG
66 ATTTATGTCTTCAATTTTTG
* * *
9899401 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA-GTAATTT
1 TTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGGTAATTT
9899465 CAATTTATG-CTTCAA
64 CAATTTATGTCTTCAA
9899480 AAAAATCAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
85 50 0.74
86 12 0.18
87 6 0.09
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (85 bp):
TTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTAATTTCA
ATTTATGTCTTCAATTTTTG
Found at i:9899485 original size:233 final size:237
Alignment explanation
Indices: 9899084--9899517 Score: 621
Period size: 233 Copynumber: 1.8 Consensus size: 237
9899074 TTTATTTTTC
* * *
9899084 AAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCTCGGCTCACGTGCTAAGGTATTTTCAATT
1 AAAAATCCAACTCATATTGCGAGAGGTGAGTTGA-CAC-GCTCAAGCGCTAAGGTATTTTCAATT
* *
9899149 TCTGCTTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAG
64 TCTGCTTTTCAATTTCTACTTTTCAAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAA
* * * * *
9899214 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAATCAACTCGTGTTGCGAGAGGTGAGTTG
129 GACACGCTGAGGTAATTTCAATTTATGCTGTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTG
9899279 AGCCTCAAGACACGTTGAGGTATTTTCAATTTCTATCTTTTAAA
194 AGCCTCAAGACACGTTGAGGTATTTTCAATTTCTATCTTTTAAA
* * * *
9899323 AAAAAT-CAGCTCATATTGCGAGAGGTGAGTTGA-AC-CTCAAGACGCTGAGGTGTTTTCCATTT
1 AAAAATCCAACTCATATTGCGAGAGGTGAGTTGACACGCTCAAG-CGCTAAGGTATTTTCAATTT
**
9899385 CTG-TTTTCAATTT-TTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
65 CTGCTTTTCAATTTCTACTTTTCAAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCAA
*
9899448 GACACGTTGA-GTAATTTCAATTTATGCT-TCAAAAAAATCAACTCATATTGCGAGAAGTGAGTT
129 GACACGCTGAGGTAATTTCAATTTATGCTGTC-AAAAAATCAACTCATATTGCGAGAAGTGAGTT
9899511 GAGCCTC
193 GAGCCTC
9899518 GGGGCACGCC
Statistics
Matches: 175, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
232 2 0.01
233 82 0.47
234 39 0.22
235 19 0.11
236 1 0.01
238 26 0.15
239 6 0.03
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (237 bp):
AAAAATCCAACTCATATTGCGAGAGGTGAGTTGACACGCTCAAGCGCTAAGGTATTTTCAATTTC
TGCTTTTCAATTTCTACTTTTCAAAAAAATCAACTCATATTGCGAGAGTGAGTTGAGCCTCAAGA
CACGCTGAGGTAATTTCAATTTATGCTGTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
CCTCAAGACACGTTGAGGTATTTTCAATTTCTATCTTTTAAA
Found at i:9901132 original size:16 final size:16
Alignment explanation
Indices: 9901113--9901148 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9901103 CTTTTCCCCC
9901113 CTCTCCTTCCTCCCTT
1 CTCTCCTTCCTCCCTT
* *
9901129 CTCTCTTTTCTCCCTT
1 CTCTCCTTCCTCCCTT
9901145 CTCT
1 CTCT
9901149 TTCTTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (16 bp):
CTCTCCTTCCTCCCTT
Found at i:9901892 original size:26 final size:25
Alignment explanation
Indices: 9901857--9901928 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 25
9901847 TTACTATCAT
9901857 TATTAC-ATTATTATTATTATATTA
1 TATTACTATTATTATTATTATATTA
*
9901881 TACTTAGTATTATCT-TTA--ATATTA
1 TA-TTACTATTAT-TATTATTATATTA
*
9901905 TATTTCTATTATTA-TATT-TATTA
1 TATTACTATTATTATTATTATATTA
9901928 T
1 T
9901929 TACCTATTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
22 3 0.08
23 14 0.36
24 10 0.26
25 3 0.08
26 8 0.21
27 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (25 bp):
TATTACTATTATTATTATTATATTA
Found at i:9901929 original size:26 final size:29
Alignment explanation
Indices: 9901867--9901930 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 29
9901857 TATTACATTA
*
9901867 TTATTATTATATTATACTTAGTATTATCT
1 TTATTATTATATTATACTTAGTATTATAT
* *
9901896 TTAATATTATATT-T-C-TATTATTATAT
1 TTATTATTATATTATACTTAGTATTATAT
9901922 TTATTATTA
1 TTATTATTA
9901931 CCTATTGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 17 0.55
27 1 0.03
28 1 0.03
29 12 0.39
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (29 bp):
TTATTATTATATTATACTTAGTATTATAT
Found at i:9903859 original size:210 final size:210
Alignment explanation
Indices: 9903270--9903885 Score: 919
Period size: 210 Copynumber: 2.9 Consensus size: 210
9903260 AGGCTTAAGC
* * * * *
9903270 TTTTGAATTTAAAAGGCTGCAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAATGGAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAATTTGGAACGGAATCTCTT
* *
9903335 GAAATGTTAATTCTTTCAGGTTGCTCAAAACTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
66 GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
9903400 ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCGGAAATC
131 ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCGGAAATC
*
9903465 TTAGAAGACTTGAAG
196 TTAGAAGACTTAAAG
*
9903480 TTTTGAATTTAAAAGACTGTAAAAGTCTTAGGAGTCTTCCAACCAAATTTGGAACGGAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAATTTGGAACGGAATCTCTT
* * *
9903545 GAAAAGTTATTTCTTTCAGGTTGCTCAAATCTTCAAAGCTTGCCAGAGATTGATGGGAAAATAGA
66 GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
*
9903610 ATGTTTATTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCGGAAATC
131 ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCGGAAATC
9903675 TTAGAAGACTTAAAG
196 TTAGAAGACTTAAAG
* * *
9903690 TTTTGAATCTAAAAGACTGCAAAAGTCTTAGGAGTCTTCTAATCAAATTTGGAACGGAATCTCTT
1 TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAATTTGGAACGGAATCTCTT
* * * * *
9903755 AAAAAGTTAATTCTTTCAGGTTGCTCCAATCTTAAAAGGTTTCCAGAGATTGATGGCAAAATGGA
66 GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
** * * * * * * *** *
9903820 ATGCCTGCTAGAGCTCTATTTAGATGGGTCGGGCATTAAAGAGCTACCTAT-TTCAATTGGAAAT
131 ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCT-TCTTCAATCGGAAAT
9903884 CT
195 CT
9903886 GAGCAGTCTT
Statistics
Matches: 367, Mismatches: 38, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
210 366 1.00
211 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (210 bp):
TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAATTTGGAACGGAATCTCTT
GAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
ATGTTTGTTGGAGCTTTGTTTTGATGGGACAAACATTAAAGAGCTACCTTCTTCAATCGGAAATC
TTAGAAGACTTAAAG
Done.